Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 39 of 378
Found at i:9683534 original size:14 final size:13
Alignment explanation
Indices: 9683515--9683544 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
9683505 CTGCAATATC
9683515 ATGTATGTATGTGT
1 ATGTATGTAT-TGT
9683529 ATGTATGTATTGT
1 ATGTATGTATTGT
9683542 ATG
1 ATG
9683545 CCAACTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (13 bp):
ATGTATGTATTGT
Found at i:9683889 original size:29 final size:29
Alignment explanation
Indices: 9683856--9683911 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
9683846 ATACTTAATG
*
9683856 AGTTAGTTTA-ATCCAAATTTATTATTATA
1 AGTTAATTTAGAT-CAAATTTATTATTATA
* *
9683885 AGTTAATTTAGGTTAAATTTATTATTA
1 AGTTAATTTAGATCAAATTTATTATTA
9683912 ATTTAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.96
30 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (29 bp):
AGTTAATTTAGATCAAATTTATTATTATA
Found at i:9684547 original size:15 final size:15
Alignment explanation
Indices: 9684527--9684560 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9684517 GAATTGAACA
9684527 AAATTTAGAA-CACAC
1 AAATTTAGAATC-CAC
9684542 AAATTTAGAATCCAC
1 AAATTTAGAATCCAC
9684557 AAAT
1 AAAT
9684561 ATAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (15 bp):
AAATTTAGAATCCAC
Found at i:9688282 original size:2 final size:2
Alignment explanation
Indices: 9688275--9688311 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9688265 TATTATAAGG
9688275 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
9688312 GAGAGAGAGA
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:9688316 original size:2 final size:2
Alignment explanation
Indices: 9688311--9688356 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
9688301 ATATATATAT
*
9688311 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9688353 AG AG
1 AG AG
9688357 GAAGGTTGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9688848 original size:25 final size:27
Alignment explanation
Indices: 9688796--9688849 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
9688786 CGTTTTAGAC
* *
9688796 TTAATTTTTTTTCTAAATTATATAAAT
1 TTAATTTTATTTCAAAATTATATAAAT
*
9688823 TTAATTTTATTT-AAAATT-TATCAAT
1 TTAATTTTATTTCAAAATTATATAAAT
9688848 TT
1 TT
9688850 GTAAAACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.33
26 5 0.21
27 11 0.46
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (27 bp):
TTAATTTTATTTCAAAATTATATAAAT
Found at i:9688880 original size:18 final size:20
Alignment explanation
Indices: 9688845--9688883 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9688835 AAAATTTATC
*
9688845 AATTTGTAAAACATTATTAA
1 AATTTATAAAACATTATTAA
9688865 AATTTATAAAA-A-TATTAA
1 AATTTATAAAACATTATTAA
9688883 A
1 A
9688884 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AATTTATAAAACATTATTAA
Found at i:9688897 original size:20 final size:22
Alignment explanation
Indices: 9688862--9688906 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
9688852 AAAACATTAT
*
9688862 TAAAATTTATAAAAATATTAAA
1 TAAAATTTATAAAAATAATAAA
9688884 TAAAA-TTA-AAAAATAATAAA
1 TAAAATTTATAAAAATAATAAA
9688904 TAA
1 TAA
9688907 TAAAAATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 3 0.14
22 5 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATTTATAAAAATAATAAA
Found at i:9688975 original size:31 final size:30
Alignment explanation
Indices: 9688932--9688990 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
9688922 AGTTAACTCC
9688932 AAAATTTATTTATTTATATATTTATTTTCT
1 AAAATTTATTTATTTATATATTTATTTTCT
* *
9688962 AAAATATTATTTATTTTTATTTTTATTTT
1 AAAAT-TTATTTATTTATATATTTATTTT
9688991 GATAAGTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (30 bp):
AAAATTTATTTATTTATATATTTATTTTCT
Found at i:9689397 original size:2 final size:2
Alignment explanation
Indices: 9689390--9689414 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9689380 AAAATCATCC
9689390 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9689415 AAGATGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9690521 original size:21 final size:21
Alignment explanation
Indices: 9690490--9690558 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
9690480 GGATCTACAC
*
9690490 GCCCATGTGAAGGCAACACAT
1 GCCCGTGTGAAGGCAACACAT
* * *
9690511 GCCTGTGTGAAGGCCACACAC
1 GCCCGTGTGAAGGCAACACAT
* **
9690532 GCCCGTGTGGAGGGGACACAT
1 GCCCGTGTGAAGGCAACACAT
9690553 GCCCGT
1 GCCCGT
9690559 ATTAGCAGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.14
Consensus pattern (21 bp):
GCCCGTGTGAAGGCAACACAT
Found at i:9692774 original size:20 final size:21
Alignment explanation
Indices: 9692745--9692789 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9692735 CTATATTGTC
*
9692745 AATAACCAAAA-GTTCACACA
1 AATAAACAAAATGTTCACACA
*
9692765 AATAAACAAAATGTTCAGACA
1 AATAAACAAAATGTTCACACA
9692786 AATA
1 AATA
9692790 GACATATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.58, C:0.18, G:0.07, T:0.18
Consensus pattern (21 bp):
AATAAACAAAATGTTCACACA
Found at i:9697082 original size:26 final size:26
Alignment explanation
Indices: 9697032--9697139 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
9697022 TGATACAAAT
* *
9697032 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
9697058 TGACAATAGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
9697084 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
9697110 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
9697136 TGAT
1 TGAT
9697140 GGAATTTCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:9697094 original size:52 final size:52
Alignment explanation
Indices: 9697032--9697139 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
9697022 TGATACAAAT
9697032 TGATAATGGGTTAGGTAAATGTTCCATGACAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGACAATAGATTAGGTAAATATTCCA
* * *
9697084 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGACAATAGATTAGGTAAATATTCCA
9697136 TGAT
1 TGAT
9697140 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGACAATAGATTAGGTAAATATTCCA
Found at i:9698649 original size:26 final size:27
Alignment explanation
Indices: 9698615--9698666 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
9698605 TTACAGTTTT
9698615 ACCCTTAGGAGATAAATT-ACCGAAATA
1 ACCCTTAGG-GATAAATTGACCGAAATA
* *
9698642 ACCC-TAGGGTTAAATTGACCTAAAT
1 ACCCTTAGGGATAAATTGACCGAAAT
9698667 GCATGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
ACCCTTAGGGATAAATTGACCGAAATA
Found at i:9700205 original size:15 final size:16
Alignment explanation
Indices: 9700185--9700214 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9700175 CTTTTTTAAA
9700185 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
9700200 AAATAAATATAAAAA
1 AAATAAATATAAAAA
9700215 AACACTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:9701056 original size:29 final size:29
Alignment explanation
Indices: 9701019--9701080 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
9701009 TTTTTCATTA
9701019 ATTTAGAATTTAATCTCTAT-TTTTTTAC
1 ATTTAGAATTTAATCTCTATATTTTTTAC
* * *
9701047 ATTTACGAATTTAGTCTCTTTATTTTTTAG
1 ATTTA-GAATTTAATCTCTATATTTTTTAC
9701077 ATTT
1 ATTT
9701081 CAAAGTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 13 0.45
30 11 0.38
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (29 bp):
ATTTAGAATTTAATCTCTATATTTTTTAC
Found at i:9702346 original size:16 final size:16
Alignment explanation
Indices: 9702327--9702363 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
9702317 TTATATATAT
9702327 ATATATTTAAGCATAC
1 ATATATTTAAGCATAC
9702343 ATATATTTAAGCATAC
1 ATATATTTAAGCATAC
9702359 ATATA
1 ATATA
9702364 ATAATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (16 bp):
ATATATTTAAGCATAC
Found at i:9703678 original size:22 final size:22
Alignment explanation
Indices: 9703621--9703683 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
9703611 TACGAGGACT
* **
9703621 GTGGCGGTATGGGAATGTTGTA
1 GTGGGGGTATGGGGCTGTTGTA
*
9703643 GTGGGGGTATGGGGCTGTTGTG
1 GTGGGGGTATGGGGCTGTTGTA
9703665 GTGGGGGTATGGGGCTGTT
1 GTGGGGGTATGGGGCTGTT
9703684 AGGGTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.10, C:0.05, G:0.54, T:0.32
Consensus pattern (22 bp):
GTGGGGGTATGGGGCTGTTGTA
Found at i:9704470 original size:13 final size:13
Alignment explanation
Indices: 9704452--9704476 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9704442 TTTGAAACAT
9704452 AGAAATTAAAAGC
1 AGAAATTAAAAGC
9704465 AGAAATTAAAAG
1 AGAAATTAAAAG
9704477 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:9704607 original size:68 final size:69
Alignment explanation
Indices: 9704467--9704599 Score: 164
Period size: 68 Copynumber: 2.0 Consensus size: 69
9704457 TTAAAAGCAG
* ***
9704467 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTCGAAAA
1 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAAAAAACGAAAA
9704532 ACGA
66 ACGA
* * * *
9704536 AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAATTAAAAAAC-AAA
1 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTG-AAAAGTAAAAAACGAAA
9704598 AA
65 AA
9704600 TTGAAAATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
67 9 0.16
68 41 0.75
69 5 0.09
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (69 bp):
AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAAAAAACGAAAA
ACGA
Found at i:9704872 original size:148 final size:148
Alignment explanation
Indices: 9704542--9704872 Score: 617
Period size: 148 Copynumber: 2.2 Consensus size: 148
9704532 ACGAAAATTA
* * *
9704542 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAATTAAAAAACAAAAATTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAATAAAAAACAAAAATTGAAAA
9704607 TAGAAATTAAAAAGACTCAACGCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAA
66 TAGAAATTAAAAAGACTCAACGCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAA
9704672 AATACCTTAGCGTGCCGC
131 AATACCTTAGCGTGCCGC
*
9704690 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAATAAAAAACAGAAATTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAATAAAAAACAAAAATTGAAAA
*
9704755 TAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAA
66 TAGAAATTAAAAAGACTCAACGCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAA
9704820 AATACCTTAGCGTGCCGC
131 AATACCTTAGCGTGCCGC
9704838 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
9704873 AGATTTAATA
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 178 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (148 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAATAAAAAACAAAAATTGAAAA
TAGAAATTAAAAAGACTCAACGCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAA
AATACCTTAGCGTGCCGC
Found at i:9705000 original size:71 final size:69
Alignment explanation
Indices: 9704770--9705017 Score: 284
Period size: 72 Copynumber: 3.5 Consensus size: 69
9704760 ATTAAAAAGA
* * * *
9704770 CTCAACTCACCTCTCGCAATATGAATTGACTTTTGAAAATAGAATTTGAAAATACCTTAGCGTGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATA-AA-TTGAAATTACCTCAGCGTGC
9704835 -CGCAAGG
64 TCG--AGG
* **
9704842 CTCAACTCACCTCTCGCAATATGAGTTGATTAGATTT-AATAGGAATTGAAATTACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATT---TTTGAAAATAAATTGAAATTACCTCAGCGTG
9704906 CTCCGAGG
63 CT-CGAGG
* * *
9704914 TTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAAATTGAAATTACCTCAGCGTG-C
*
9704979 TTGAGG
64 TCGAGG
*
9704985 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
9705018 CTTGGAAAAC
Statistics
Matches: 151, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
69 3 0.02
70 2 0.01
71 55 0.36
72 81 0.54
73 2 0.01
74 5 0.03
75 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (69 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAAATTGAAATTACCTCAGCGTGCTC
GAGG
Found at i:9705168 original size:71 final size:71
Alignment explanation
Indices: 9705043--9705176 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
9705033 TTAAAAGCAG
* * * *
9705043 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
9705108 AAACAT
66 AAACAT
* * * *
9705114 AAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCACCTCTGGCAAGATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTT
9705177 CTTGGAAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
AAACAT
Found at i:9705293 original size:160 final size:160
Alignment explanation
Indices: 9704885--9705418 Score: 946
Period size: 160 Copynumber: 3.3 Consensus size: 160
9704875 ATTTAATAGG
* * *
9704885 AATTGAAATTACCTCAGCGTGCTCC-GAGGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTAAAAATACCTCAGCGTGC-CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
* *
9704949 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
65 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGA
9705014 TTTTCTTGGAAAACATGAATT-AAAAGCAGA
130 TTTTCTTGGAAAACATGAATTAAAAAGCAGA
*
9705044 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
9705109 AACATAAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCACCTCTGGCAAGATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGAT
9705174 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
9705204 AATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTGA
1 AATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
9705269 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGAT
*
9705334 TTTCTTGGAATACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
9705364 AATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGTAATATGAGT
1 AATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGT
9705419 CTTGGAAAAC
Statistics
Matches: 360, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
158 2 0.01
159 141 0.39
160 217 0.60
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:9705319 original size:71 final size:71
Alignment explanation
Indices: 9705203--9705336 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
9705193 TAAAAAGCAG
* * **
9705203 AAATTAAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTG
1 AAATTAAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
9705268 AAACAT
66 AAACAT
* * * *
9705274 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTT
1 AAATTAAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTT
9705337 CTTGGAATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTAAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAAGATGAGTTGATTTTTG
AAACAT
Found at i:9708565 original size:37 final size:37
Alignment explanation
Indices: 9708506--9708594 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
9708496 AGCTCAGACG
* *
9708506 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
*
9708543 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
*
9708580 TAATCTCCACACGTA
1 AAATCTCCACACGTA
9708595 CATAATCTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
Found at i:9708599 original size:17 final size:17
Alignment explanation
Indices: 9708577--9708611 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9708567 TCTTACCCGG
9708577 ACATAATCTCCACACGT
1 ACATAATCTCCACACGT
9708594 ACATAATCTCCACACGT
1 ACATAATCTCCACACGT
9708611 A
1 A
9708612 GTCATCGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.06, T:0.23
Consensus pattern (17 bp):
ACATAATCTCCACACGT
Found at i:9708626 original size:54 final size:54
Alignment explanation
Indices: 9708544--9708648 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
9708534 ACCCGGACAA
9708544 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTACAT
9708598 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTA
9708649 GTCATCGGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (54 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTACAT
Found at i:9708644 original size:37 final size:37
Alignment explanation
Indices: 9708594--9708668 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
9708584 CTCCACACGT
9708594 ACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 ACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
9708631 ACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 ACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
9708668 A
1 A
9708669 ATATATTTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
ACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
Found at i:9708784 original size:48 final size:48
Alignment explanation
Indices: 9708713--9709146 Score: 640
Period size: 48 Copynumber: 9.0 Consensus size: 48
9708703 TGTTACAACA
* * * *
9708713 TTCACATTAGCCATTCGGCTTTACCACATCTTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
9708761 TTCACATTCGCCATTCGGATTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
9708809 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
9708857 TTCATATTAGCCATTCGGCTTTACCACATATACATATCACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
9708905 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
*
9708953 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATTT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
*
9709001 TTCATATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
* * * *
9709049 TTCATATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
9709097 TTCACATTGGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
9709145 TT
1 TT
9709147 ATTTATCTTG
Statistics
Matches: 357, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
48 356 1.00
49 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:9712434 original size:40 final size:40
Alignment explanation
Indices: 9712385--9712576 Score: 357
Period size: 40 Copynumber: 4.8 Consensus size: 40
9712375 CCAGCATGAT
* *
9712385 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
9712425 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
9712465 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
9712505 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
9712545 TGCTCTTCGGAACTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGCCCGGATACATCACT
9712577 CTCAATTCTC
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:9714602 original size:37 final size:37
Alignment explanation
Indices: 9714543--9714631 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
9714533 AGCTCAGACG
* *
9714543 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
*
9714580 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
*
9714617 TAATCTCCACACGTA
1 AAATCTCCACACGTA
9714632 CATCTCCACA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
Found at i:9714638 original size:14 final size:14
Alignment explanation
Indices: 9714619--9714645 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9714609 CCCGGACATA
9714619 ATCTCCACACGTAC
1 ATCTCCACACGTAC
9714633 ATCTCCACACGTA
1 ATCTCCACACGTA
9714646 GTCATCGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.41, G:0.07, T:0.22
Consensus pattern (14 bp):
ATCTCCACACGTAC
Found at i:9714658 original size:51 final size:51
Alignment explanation
Indices: 9714582--9714682 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
9714572 CCCGGACAAA
9714582 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAC
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAC
9714633 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTA
1 ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTA
9714683 GTCATCGGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.24
Consensus pattern (51 bp):
ATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAC
Found at i:9714818 original size:48 final size:48
Alignment explanation
Indices: 9714747--9715179 Score: 649
Period size: 48 Copynumber: 9.0 Consensus size: 48
9714737 TGTTACAACA
* * * *
9714747 TTCACATTAGCCATTCGGCTTTACCACATCTTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
9714795 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
9714843 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
9714891 TTCATATTAGCCATTCGGCTTTACCACATATACATATCACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
9714939 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
*
9714987 TTCACATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATTT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
*
9715035 TTCATATTAGCCATTCGGCTTTACCACATATACATAT-TACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCT-CACATATAT
* * * *
9715083 TTCATATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
9715131 TTCACATTGGCC-TTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
9715178 TT
1 TT
9715180 ATTTATCTTG
Statistics
Matches: 359, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
47 33 0.09
48 325 0.91
49 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:9721869 original size:18 final size:17
Alignment explanation
Indices: 9721846--9721896 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
9721836 TTGTTATCAC
9721846 TATTATTTTATATATTGT
1 TATTATTTTATATATT-T
*
9721864 TATTATTATAT-TATTT
1 TATTATTTTATATATTT
*
9721880 TAGCTATTTATATATAT
1 TA-TTATTT-TATATAT
9721897 ATATTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.11
17 8 0.30
18 13 0.48
19 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (17 bp):
TATTATTTTATATATTT
Found at i:9722066 original size:11 final size:11
Alignment explanation
Indices: 9722048--9722077 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9722038 GTGTATATTG
9722048 TATATATTATA
1 TATATATTATA
*
9722059 TTTATATTATA
1 TATATATTATA
9722070 TATATATT
1 TATATATT
9722078 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:9722584 original size:24 final size:24
Alignment explanation
Indices: 9722557--9722603 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
9722547 TTCATTTTGG
9722557 TATGTCATG-TATATATATATATTA
1 TATGT-ATGTTATATATATATATTA
* *
9722581 TATGTATGTTTTATGTATATATT
1 TATGTATGTTATATATATATATT
9722604 GTTATTTTCT
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:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (24 bp):
TATGTATGTTATATATATATATTA
Found at i:9724303 original size:12 final size:12
Alignment explanation
Indices: 9724286--9724321 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
9724276 ATCCATTTGA
9724286 CATTCATGCATT
1 CATTCATGCATT
9724298 CATTCATGCATT
1 CATTCATGCATT
*
9724310 CATTCATACATT
1 CATTCATGCATT
9724322 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:9729681 original size:71 final size:69
Alignment explanation
Indices: 9729487--9729750 Score: 323
Period size: 71 Copynumber: 3.7 Consensus size: 69
9729477 GAGTTAAGCC
* *
9729487 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
9729552 GAGGTAT
63 GAGGTAT
* * ** * *
9729559 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
9729623 AGGTAT
64 AGGTAT
*
9729629 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
9729694 AGGTAT
64 AGGTAT
* * ** * *
9729700 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
9729751 TTTAATTTTT
Statistics
Matches: 166, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 59 0.36
72 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:9729795 original size:122 final size:124
Alignment explanation
Indices: 9729629--9729875 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
9729619 GTTGAGGTAT
9729629 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
* *
9729694 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
9729750 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACT
* * * *
9729815 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
9729875 T
1 T
9729876 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 12 0.11
122 59 0.52
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:9729836 original size:263 final size:257
Alignment explanation
Indices: 9729320--9729912 Score: 1033
Period size: 263 Copynumber: 2.3 Consensus size: 257
9729310 TTTCAAGGAA
*
9729320 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
9729385 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTAGT
9729450 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
9729515 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
9729577 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
9729642 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTA---TT--T
9729707 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
9729772 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
9729837 TTT
255 TTT
* * * * * *
9729840 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
9729905 GTTTTCAA
64 GTTTTCAA
9729913 TTTACGTTGT
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 119 0.37
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:9729871 original size:72 final size:71
Alignment explanation
Indices: 9729750--9730190 Score: 297
Period size: 72 Copynumber: 6.1 Consensus size: 71
9729740 GAGTTAAGCC
*
9729750 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
9729814 TGAGGTA
65 TGAGGTA
** * *
9729821 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
9729886 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
9729893 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
9729952 GGTTGA-ACC
62 CGCTGAGGTA
** * * *
9729961 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
9730025 CTGAGGTA
64 CTGAGGTA
* * ** * *
9730033 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
9730098 GCTGAGGTA
63 GCTGAGGTA
* ** * * **
9730107 TTTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
9730172 GCCGAGGTA
63 GCTGAGGTA
9730181 TTTTCAATTT
1 TTTTCAATTT
9730191 CCGTTTTTCA
Statistics
Matches: 269, Mismatches: 79, Indels: 41
0.69 0.20 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 6 0.02
71 15 0.06
72 109 0.41
73 16 0.06
74 86 0.32
75 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:9730173 original size:74 final size:74
Alignment explanation
Indices: 9729980--9730191 Score: 250
Period size: 74 Copynumber: 2.9 Consensus size: 74
9729970 CTACTTTTTC
* *
9729980 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
9730045 GTTGTCAAA
66 GTTGTCAAA
* * * *
9730054 AAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
***
9730118 -TATGT-TTT
66 GT-TGTCAAA
** * * *
9730126 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
9730191 C
64 C
9730192 CGTTTTTCAA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
72 34 0.29
73 4 0.03
74 78 0.67
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:9730320 original size:73 final size:74
Alignment explanation
Indices: 9730215--9730356 Score: 223
Period size: 73 Copynumber: 1.9 Consensus size: 74
9730205 TGTCTTTCAA
* *
9730215 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
9730279 TTCTGTTGT
66 TTCTGTTGT
* * *
9730288 AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
9730353 TTTC
65 TTTC
9730357 CGTTTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 40 0.65
75 22 0.35
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGT
Found at i:9730353 original size:165 final size:165
Alignment explanation
Indices: 9730051--9730692 Score: 929
Period size: 165 Copynumber: 3.9 Consensus size: 165
9730041 TTCTGTTGTC
* * * * *
9730051 AAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*** *
9730116 T-T-TATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
66 TCTGT-TGTAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
*
9730179 TATTTTCAATTTCCGTTTTTCAATTTTGTCTTTCAA
130 TATTTTCAATTTCCGTTTTTCAATTTTGCCTTTCAA
9730215 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
9730280 TCTGTTGTAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
66 TCTGTTGTAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
9730345 ATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTC--
131 ATTTTCAATTTCCGTTTTTCAA-TTTTGCCTTTCAA
9730379 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * *
9730444 TCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGG
66 TCTGTTGT-AAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
*
9730509 TATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAA
130 TATTTTCAATTTCCGTTTTTCAATTT-TGCCTTTC--AA
*
9730548 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
** * *** * **
9730613 TCTGTT-TTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGT
66 TCTGTTGTAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
*
9730675 ATTTTCAATTTCTGTTTT
131 ATTTTCAATTTCCGTTTT
9730693 CAAAAAATCA
Statistics
Matches: 439, Mismatches: 30, Indels: 17
0.90 0.06 0.03
Matches are distributed among these distances:
164 137 0.31
165 185 0.42
166 11 0.03
167 35 0.08
168 1 0.00
169 70 0.16
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (165 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTGTAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
ATTTTCAATTTCCGTTTTTCAATTTTGCCTTTCAA
Found at i:9730483 original size:74 final size:76
Alignment explanation
Indices: 9730377--9730521 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
9730367 TTTTTGCCTT
*
9730377 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
9730439 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
9730451 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
9730516 AATTTC
66 AATTTC
9730522 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:9730666 original size:72 final size:73
Alignment explanation
Indices: 9730549--9730888 Score: 378
Period size: 72 Copynumber: 4.5 Consensus size: 73
9730539 CTTTCAAAAA
** *
9730549 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
9730614 CTGTTTTC
66 CTGTTTTC
* ** *
9730622 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
9730686 CTGTTTTC
66 CTGTTTTC
* * ** * *
9730694 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACA--CGCTGAGGTATTTTCAA
*
9730758 TTTCTATCTTTC
63 TTTCTGT-TTTC
* * *
9730770 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGAGGTA--TTTTC
* *
9730835 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* *
9730849 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
9730889 GGGTTACATG
Statistics
Matches: 223, Mismatches: 32, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
72 66 0.30
73 34 0.15
75 21 0.09
76 4 0.02
77 43 0.19
79 54 0.24
80 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:9730872 original size:79 final size:76
Alignment explanation
Indices: 9730548--9731265 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
9730538 CCTTTCAAAA
** *
9730548 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
9730611 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
9730622 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
9730683 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
9730694 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
9730758 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
9730770 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
9730835 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
9730849 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
** *
9730913 AAATCTATTTTTC
65 ATTTCT-GTTTTC
* ** * **
9730926 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
9730991 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
9731018 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
9731082 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
9731105 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
9731166 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
9731180 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
9731245 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
9731266 TAATGTCTGT
Statistics
Matches: 505, Mismatches: 82, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 36 0.07
76 5 0.01
77 65 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 119 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:9731073 original size:30 final size:30
Alignment explanation
Indices: 9731037--9731098 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
9731027 CAACTCATAT
9731037 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
9731067 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
9731097 TG
1 TG
9731099 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:9731169 original size:396 final size:382
Alignment explanation
Indices: 9730374--9731141 Score: 833
Period size: 396 Copynumber: 1.9 Consensus size: 382
9730364 CAATTTTTGC
* *
9730374 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTT
* * **
9730439 CAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
66 CAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
** *
9730504 CGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAAAATCAACTCATATTGC
131 CGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTC-----AAAAAATCAACTCATATTGC
* * *
9730569 GAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTC
191 GAGAAGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTC
*
9730634 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAA
256 ATATTGCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* * * * *
9730699 ATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAATTTCTA
321 ATCAACTCATATTGCGAGAGGTGAGTTGAACCTT-GCTCA--CGCTCAGCTATTATCAA-TGCTA
9730764 T
382 T
*
9730765 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATT
1 CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACACTGAGGTA--
* * * * * * *
9730830 TTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTA
62 ATTTCAATTTAT-GTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* * *
9730895 CATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCTG-TTTTC-AAAAATCAACTCATATTGC
126 CACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGC
* * *
9730958 GAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTTTTTCAAAAA
191 GAGAAGTGAGTTGAGCCTCGGCACAC--GCTGAGCTAATTTCAATTTCTG-----TTTTC---AA
** * * *
9731023 AATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTG-CGAGAGTTGAGTTGAGTC
246 AATTCAACTCATATTGCGAGAAATGAGTTGAGC--CTCAA-----GAC-A-AGTTGAGGT-A-T-
*
9731087 TTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
299 TTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
9731142 CCAGTCACAT
Statistics
Matches: 314, Mismatches: 35, Indels: 37
0.81 0.09 0.10
Matches are distributed among these distances:
389 41 0.13
391 66 0.21
393 12 0.04
395 14 0.04
396 82 0.26
399 33 0.11
401 3 0.01
405 1 0.00
406 2 0.01
407 7 0.02
408 1 0.00
409 1 0.00
410 46 0.15
411 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (382 bp):
CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAATTT
CAATTTATGTTGTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGT
CGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCCTTTCAAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATT
GCGAGAAATGAGTTGAGCCTCAAGACAAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAACCTTGCTCACGCTCAGCTATTATCAATGCTAT
Found at i:9731199 original size:254 final size:248
Alignment explanation
Indices: 9730688--9731266 Score: 753
Period size: 254 Copynumber: 2.3 Consensus size: 248
9730678 TTCAATTTCT
* * *
9730688 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
9730753 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
9730814 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
9730879 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
* *
9730933 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
9730997 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
9731062 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
* *
9731124 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
9731187 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
9731251 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
9731267 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 145 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
Found at i:9731929 original size:16 final size:16
Alignment explanation
Indices: 9731910--9731945 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9731900 AACCTAACCC
*
9731910 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
9731925 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
9731941 AAAAA
1 AAAAA
9731946 CTTACCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:9732805 original size:11 final size:11
Alignment explanation
Indices: 9732787--9732816 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9732777 GTGTATATTG
9732787 TATATATTATA
1 TATATATTATA
*
9732798 TTTATATTATA
1 TATATATTATA
9732809 TATATATT
1 TATATATT
9732817 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:9735232 original size:18 final size:18
Alignment explanation
Indices: 9735205--9735239 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9735195 TTAGAAGTTA
*
9735205 AATGCGTTTTTAGATTCG
1 AATGCATTTTTAGATTCG
9735223 AATGCATTTTTAGATTC
1 AATGCATTTTTAGATTC
9735240 AAATATTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (18 bp):
AATGCATTTTTAGATTCG
Found at i:9736622 original size:22 final size:21
Alignment explanation
Indices: 9736579--9736618 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9736569 TGTACCAAAT
9736579 TAAAATAAAAAAATTAGATAC
1 TAAAATAAAAAAATTAGATAC
*
9736600 TAAAATTAAAAAA-TAGATA
1 TAAAATAAAAAAATTAGATA
9736619 TACTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATAAAAAAATTAGATAC
Found at i:9737500 original size:19 final size:19
Alignment explanation
Indices: 9737473--9737511 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9737463 TAAGTAATGA
*
9737473 ATTATTATCTAATTTTCAT
1 ATTAATATCTAATTTTCAT
9737492 ATTAATATCTAATTTTCAT
1 ATTAATATCTAATTTTCAT
9737511 A
1 A
9737512 ATTTTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTAATATCTAATTTTCAT
Found at i:9738554 original size:23 final size:25
Alignment explanation
Indices: 9738528--9738574 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9738518 TATCATTCAT
*
9738528 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
9738551 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
9738575 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:9738945 original size:46 final size:46
Alignment explanation
Indices: 9738835--9739098 Score: 341
Period size: 46 Copynumber: 6.0 Consensus size: 46
9738825 TTTGACGTGA
* * * * * * *
9738835 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** * * *
9738880 TGCCAT-GTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9738925 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9738971 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9739017 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9739055 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
9739099 AGAGCACACT
Statistics
Matches: 196, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 28 0.14
45 20 0.10
46 109 0.56
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9739063 original size:38 final size:38
Alignment explanation
Indices: 9739012--9739087 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9739002 CATTTCATAT
9739012 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9739050 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9739088 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:9743857 original size:23 final size:25
Alignment explanation
Indices: 9743831--9743877 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9743821 TATCATTCAT
*
9743831 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
9743854 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
9743878 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:9744198 original size:46 final size:46
Alignment explanation
Indices: 9744138--9744354 Score: 301
Period size: 46 Copynumber: 4.7 Consensus size: 46
9744128 TTTGACGTGA
* * * * * *
9744138 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
9744184 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
9744230 TGCCATGGTATCTTTCAACCAAGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9744276 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9744322 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
9744355 CAGGTTGTCA
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 151 0.97
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9744256 original size:92 final size:92
Alignment explanation
Indices: 9744138--9744392 Score: 312
Period size: 92 Copynumber: 2.9 Consensus size: 92
9744128 TTTGACGTGA
* * * * * * *
9744138 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGTTGCCATGGTATCTTTCAA
** * *
9744202 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTACACATTTCATATCACGT
*
9744230 TGCCATGGTATCTTTCAACCAAGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
*
9744295 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
*
9744322 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGTCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
9744379 CATGGTCTTACACA
66 CATGGTCTTACACA
9744393 CAGGTTGTCA
Statistics
Matches: 147, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
84 37 0.25
85 1 0.01
87 1 0.01
90 3 0.02
91 3 0.02
92 102 0.69
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:9744368 original size:38 final size:38
Alignment explanation
Indices: 9744317--9744430 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
9744307 CATTTCATAT
*
9744317 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
9744355 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
9744393 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
9744431 TTTAATATCA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (38 bp):
CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:9749195 original size:23 final size:25
Alignment explanation
Indices: 9749169--9749215 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9749159 TATCATTCAT
*
9749169 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
9749192 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
9749216 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:9749536 original size:46 final size:46
Alignment explanation
Indices: 9749476--9749778 Score: 354
Period size: 46 Copynumber: 7.0 Consensus size: 46
9749466 TTTGACGTGA
* * * * * *
9749476 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
9749522 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9749568 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9749614 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9749660 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9749698 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9749736 TG-CATGGTATCTTTCAACCATGGTCTTACACATTTAATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
9749779 AGAGCACACT
Statistics
Matches: 234, Mismatches: 14, Indels: 19
0.88 0.05 0.07
Matches are distributed among these distances:
37 25 0.11
38 45 0.19
39 4 0.02
41 1 0.00
44 4 0.02
45 7 0.03
46 148 0.63
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9749751 original size:37 final size:38
Alignment explanation
Indices: 9749655--9749767 Score: 219
Period size: 38 Copynumber: 3.0 Consensus size: 38
9749645 CATTTCATAT
9749655 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9749693 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9749731 CAGGTTG-CATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
9749768 TTTAATATCA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 30 0.40
38 45 0.60
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:9753724 original size:11 final size:11
Alignment explanation
Indices: 9753698--9753752 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
9753688 AAACATAATA
9753698 ATAGTAT-TAC
1 ATAGTATATAC
*
9753708 AAAGTATATAC
1 ATAGTATATAC
9753719 ATAGTAT-TA-
1 ATAGTATATAC
* *
9753728 AAAATATATAC
1 ATAGTATATAC
*
9753739 ATAATATATAC
1 ATAGTATATAC
9753750 ATA
1 ATA
9753753 TTAGAACTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 5 0.14
10 10 0.27
11 22 0.59
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (11 bp):
ATAGTATATAC
Found at i:9753737 original size:20 final size:21
Alignment explanation
Indices: 9753698--9753750 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
9753688 AAACATAATA
*
9753698 ATAGTATTACAAAGTATATAC
1 ATAGTATTACAAAATATATAC
9753719 ATAGTATTA-AAAATATATAC
1 ATAGTATTACAAAATATATAC
*
9753739 ATAATATATACA
1 ATAGTAT-TACA
9753751 TATTAGAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.57
21 11 0.39
22 1 0.04
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAGTATTACAAAATATATAC
Found at i:9753773 original size:46 final size:47
Alignment explanation
Indices: 9753666--9753846 Score: 115
Period size: 47 Copynumber: 3.8 Consensus size: 47
9753656 ACCTATATAC
* * *
9753666 ATACATATATATATTAAAATATAAACATAATAATAGTATTACAAAGTAT
1 ATACATA-ATAT-TAAAAATATAAACATAATAATAATATTACAAACTAT
* * *
9753715 ATACATAGTATTAAAAATATATACATAATATATACATATTA-GAACTA-
1 ATACATAATATTAAAAATATAAACATAATA-ATA-ATATTACAAACTAT
* * * *
9753762 ATA-ATAATATT-AAAA-A-CAAC-TATTAATAATACTACATAAATAT
1 ATACATAATATTAAAAATATAAACATAATAATAATATTACA-AACTAT
* * * *
9753805 ACACATATATATATTAAAAAGATATACATAATAATGATATTA
1 ATAC--ATA-ATATTAAAAATATAAACATAATAATAATATTA
9753847 AAAGTAGGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
40 5 0.05
41 3 0.03
42 8 0.08
43 4 0.04
44 1 0.01
45 4 0.04
46 10 0.10
47 25 0.25
48 14 0.14
49 13 0.13
50 2 0.02
51 11 0.11
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (47 bp):
ATACATAATATTAAAAATATAAACATAATAATAATATTACAAACTAT
Found at i:9753893 original size:13 final size:13
Alignment explanation
Indices: 9753875--9753903 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9753865 AGTGTTAAAA
9753875 ATACATACATAAT
1 ATACATACATAAT
9753888 ATACATACATAAT
1 ATACATACATAAT
9753901 ATA
1 ATA
9753904 ATAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
ATACATACATAAT
Found at i:9753937 original size:35 final size:37
Alignment explanation
Indices: 9753898--9753977 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 37
9753888 ATACATACAT
* *
9753898 AATATAATA-A-AATATATGAATAATACGATA-TTAAA
1 AATATAATACATAATATAT-AAAAATACAATATTTAAA
*
9753933 AATAT-ATACATAATATATAAAAATATAATATTTAAA
1 AATATAATACATAATATATAAAAATACAATATTTAAA
*
9753969 AAAATAATA
1 AATATAATA
9753978 TACATTAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
34 3 0.08
35 15 0.41
36 16 0.43
37 3 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (37 bp):
AATATAATACATAATATATAAAAATACAATATTTAAA
Found at i:9753955 original size:21 final size:21
Alignment explanation
Indices: 9753892--9753959 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 21
9753882 CATAATATAC
9753892 ATACATAATATA-ATAAAATAT
1 ATACATAATATATA-AAAATAT
9753913 ATGA-ATAATACGATATTAAAAATAT
1 AT-ACATAAT---ATA-TAAAAATAT
9753938 ATACATAATATATAAAAATAT
1 ATACATAATATATAAAAATAT
9753959 A
1 A
9753960 ATATTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
21 17 0.43
22 4 0.10
24 4 0.10
25 14 0.35
26 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (21 bp):
ATACATAATATATAAAAATAT
Found at i:9753962 original size:15 final size:15
Alignment explanation
Indices: 9753942--9753979 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9753932 AAATATATAC
*
9753942 ATAATATATAAAAAT
1 ATAATATATAAAAAA
*
9753957 ATAATATTTAAAAAA
1 ATAATATATAAAAAA
9753972 ATAATATA
1 ATAATATA
9753980 CATTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATATAAAAAA
Found at i:9754053 original size:33 final size:34
Alignment explanation
Indices: 9753988--9754053 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
9753978 TACATTAAAT
* **
9753988 AATATTAATATATATATATATAAGCTTAATATAG
1 AATATTAATATATATATATAAAAGAATAATATAG
9754022 AATA-TAATATATATAT-TAAAAGAATACATATA
1 AATATTAATATATATATATAAAAGAATA-ATATA
9754054 TGACATACGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 7 0.25
33 17 0.61
34 4 0.14
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (34 bp):
AATATTAATATATATATATAAAAGAATAATATAG
Found at i:9754405 original size:3 final size:3
Alignment explanation
Indices: 9754397--9755162 Score: 159
Period size: 3 Copynumber: 254.0 Consensus size: 3
9754387 ATTAACAATG
* * * *
9754397 ATA ATA ATA ATA GTA ATA ATA TTA A-A AT- ATA A-A A-A AGA ACA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
9754440 ATA ATA TATA AAA ATA ATA A-A GTA ATTA A-A A-A ATA ATA CT- ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
9754483 TATAA ATA TATA CAT- ATA CATA GATA ATA A-A A-A AT- ATA CACTA CTA
1 -AT-A ATA -ATA -ATA ATA -ATA -ATA ATA ATA ATA ATA ATA -A-TA ATA
9754529 TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
9754575 AT- ATA TTG A-A ATA CA-A A-A AAA AT- GTA GT- ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
9754615 TTT A-A ATA A-A GTA ATA A-A AAA ATA CT- ATGT ATA AAA ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA
* * *
9754658 CAT- ATA CATA TATA GTA A-A A-A ACA CACTA ATA TATA ATA CTA ATA
1 -ATA ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA -ATA ATA ATA ATA
* * * * *
9754703 CTA ATA CATTA ATA AAA ATA ATA AGA AT- ATG TTA ATA ATA ATA A-A
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
9754748 TTA ATGA ATTA ATAA ATAA ATGA ATAA ATAA ATA CACA AAA ATA A-A AT-
1 ATA AT-A A-TA AT-A AT-A AT-A AT-A AT-A ATA -ATA ATA ATA ATA ATA
* * * *
9754796 ATA ATT ATA ATA GTA ATA TTA ACA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
9754843 ATA ATA ATA TTG A-A ATA CA-A AAA AAA AT- GTA GT- ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
9754885 ATA TTT A-A ATA A-A GTA ATA AAA ATA CT- ATGT ATA AAA ATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA
* *
9754929 CAT- ATA CATA TATA GTA A-A A-A ATA CACTA ATA TATA ATA CTA ATA
1 -ATA ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA -ATA ATA ATA ATA
* * * * *
9754974 CTA ATA CATTA ATA AAA ATA ATA AGA AT- ATG TTA ATA ATA ATA A-A
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
9755019 TTA ATGA ATTA ATAA ATAA ATGA ATAA ATAA ATA CACA AAA ATA A-A AT-
1 ATA AT-A A-TA AT-A AT-A AT-A AT-A AT-A ATA -ATA ATA ATA ATA ATA
* * * *
9755067 ATA ATT ATA ATA GTA ATA TTA ACA A-A ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
9755114 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGTTA A-A GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA
9755160 ATA
1 ATA
9755163 TACGTTAATT
Statistics
Matches: 565, Mismatches: 120, Indels: 156
0.67 0.14 0.19
Matches are distributed among these distances:
2 75 0.13
3 363 0.64
4 112 0.20
5 15 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9754762 original size:16 final size:16
Alignment explanation
Indices: 9754741--9754781 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9754731 ATGTTAATAA
*
9754741 TAATAAATTAATGAAT
1 TAATAAATAAATGAAT
9754757 TAATAAATAAATGAAT
1 TAATAAATAAATGAAT
*
9754773 AAATAAATA
1 TAATAAATA
9754782 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAATAAATGAAT
Found at i:9754948 original size:271 final size:271
Alignment explanation
Indices: 9754529--9755122 Score: 1111
Period size: 271 Copynumber: 2.2 Consensus size: 271
9754519 TACACTACTA
* * *
9754529 TATAATAATAATAATAATAATAATAATAATAATAATAATAATAATAAT-ATATTGAAATACAAAA
1 TATAATAGTAATATTAACAA-AATAATAATAATAATAATAATAATAATAATATTGAAATACAAAA
9754593 AAAATGTAGTATAATAAAAATATTTAAATAAAGTAATAAAAAAATACTATGTATAAAAATATATA
65 AAAATGTAGTATAATAAAAATATTTAAATAAAGTAAT-AAAAAATACTATGTATAAAAATATATA
9754658 CATATACATATATAGTAAAAAACACACTAATATATAATACTAATACTAATACATTAATAAAAATA
129 CATATACATATATAGTAAAAAACACACTAATATATAATACTAATACTAATACATTAATAAAAATA
9754723 ATAAGAATATGTTAATAATAATAAATTAATGAATTAATAAATAAATGAATAAATAAATACACAAA
194 ATAAGAATATGTTAATAATAATAAATTAATGAATTAATAAATAAATGAATAAATAAATACACAAA
9754788 AATAAAATATAAT
259 AATAAAATATAAT
9754801 TATAATAGTAATATTAACAAAATAATAATAATAATAATAATAATAATAATATTGAAATACAAAAA
1 TATAATAGTAATATTAACAAAATAATAATAATAATAATAATAATAATAATATTGAAATAC-AAAA
9754866 AAAATGTAGTATAATAAAAATATTTAAATAAAGTAAT-AAAAATACTATGTATAAAAATATATAC
65 AAAATGTAGTATAATAAAAATATTTAAATAAAGTAATAAAAAATACTATGTATAAAAATATATAC
*
9754930 ATATACATATATAGTAAAAAATACACTAATATATAATACTAATACTAATACATTAATAAAAATAA
130 ATATACATATATAGTAAAAAACACACTAATATATAATACTAATACTAATACATTAATAAAAATAA
9754995 TAAGAATATGTTAATAATAATAAATTAATGAATTAATAAATAAATGAATAAATAAATACACAAAA
195 TAAGAATATGTTAATAATAATAAATTAATGAATTAATAAATAAATGAATAAATAAATACACAAAA
9755060 ATAAAATATAAT
260 ATAAAATATAAT
9755072 TATAATAGTAATATTAACAAAATAATAATAATAATAATAATAATAATAATA
1 TATAATAGTAATATTAACAAAATAATAATAATAATAATAATAATAATAATA
9755123 ATAATAATAA
Statistics
Matches: 316, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
271 246 0.78
272 29 0.09
273 41 0.13
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (271 bp):
TATAATAGTAATATTAACAAAATAATAATAATAATAATAATAATAATAATATTGAAATACAAAAA
AAATGTAGTATAATAAAAATATTTAAATAAAGTAATAAAAAATACTATGTATAAAAATATATACA
TATACATATATAGTAAAAAACACACTAATATATAATACTAATACTAATACATTAATAAAAATAAT
AAGAATATGTTAATAATAATAAATTAATGAATTAATAAATAAATGAATAAATAAATACACAAAAA
TAAAATATAAT
Found at i:9755033 original size:16 final size:16
Alignment explanation
Indices: 9755012--9755052 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
9755002 ATGTTAATAA
*
9755012 TAATAAATTAATGAAT
1 TAATAAATAAATGAAT
9755028 TAATAAATAAATGAAT
1 TAATAAATAAATGAAT
*
9755044 AAATAAATA
1 TAATAAATA
9755053 CACAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAATAAATGAAT
Found at i:9757312 original size:2 final size:2
Alignment explanation
Indices: 9757305--9757341 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9757295 TGACATGCAT
9757305 TA TA TA TA TA TA 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 TA T
9757342 CTTAGTTGAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9757744 original size:35 final size:35
Alignment explanation
Indices: 9757698--9757770 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
9757688 GATGAATTGT
9757698 ATGAAAGTTTGACATATTTGAGGTTTATGTGTGAA
1 ATGAAAGTTTGACATATTTGAGGTTTATGTGTGAA
9757733 ATGAAAGTTTGACATATTTGAGGTTTATGTGTGAA
1 ATGAAAGTTTGACATATTTGAGGTTTATGTGTGAA
9757768 ATG
1 ATG
9757771 TATTTGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.40
Consensus pattern (35 bp):
ATGAAAGTTTGACATATTTGAGGTTTATGTGTGAA
Found at i:9757848 original size:2 final size:2
Alignment explanation
Indices: 9757836--9757868 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9757826 TTAAGTAATG
*
9757836 TA TA CA TA 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 T
9757869 GATGAGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9758583 original size:15 final size:15
Alignment explanation
Indices: 9758565--9758598 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
9758555 AATTTATCTT
9758565 TTAATTTATTATAAA
1 TTAATTTATTATAAA
9758580 TTAATTTATTATAAA
1 TTAATTTATTATAAA
9758595 TTAA
1 TTAA
9758599 AATAATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTTATTATAAA
Found at i:9770517 original size:16 final size:16
Alignment explanation
Indices: 9770496--9770526 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9770486 TATTCCAATT
9770496 TTGTCCATAAAATTTC
1 TTGTCCATAAAATTTC
9770512 TTGTCCATAAAATTT
1 TTGTCCATAAAATTT
9770527 TAGATTTTCA
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:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGTCCATAAAATTTC
Found at i:9773132 original size:34 final size:35
Alignment explanation
Indices: 9773071--9773158 Score: 101
Period size: 34 Copynumber: 2.5 Consensus size: 35
9773061 AATATGCACA
*
9773071 TTCAAAATAACTTCACATAAAACCGAATATAT-AAG
1 TTCAATATAACTTCACATAAAACCGAATA-ATCAAG
** *
9773106 TTCAATATAA-TTCACATGTAATCGAATAATCAAG
1 TTCAATATAACTTCACATAAAACCGAATAATCAAG
9773140 TTCAATATAAGCTT-ACATA
1 TTCAATATAA-CTTCACATA
9773159 TACTTACCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 2 0.04
34 28 0.62
35 13 0.29
36 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (35 bp):
TTCAATATAACTTCACATAAAACCGAATAATCAAG
Found at i:9775193 original size:32 final size:32
Alignment explanation
Indices: 9775135--9775205 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
9775125 TTGTTGGATT
*
9775135 TTGAAATTATTATGTCTTGAATTTGTTACATA
1 TTGAAATTATTATGTCTTGAACTTGTTACATA
* * **
9775167 TTGAATTTATTATGT-TTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTCTTGAA-CTTGTTACATA
9775199 TTGAAAT
1 TTGAAAT
9775206 GATTGACAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (32 bp):
TTGAAATTATTATGTCTTGAACTTGTTACATA
Found at i:9780796 original size:14 final size:14
Alignment explanation
Indices: 9780777--9780804 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9780767 TAAATACTTG
9780777 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
9780791 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
9780805 CTTGTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:9791979 original size:21 final size:21
Alignment explanation
Indices: 9791953--9791997 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9791943 TATATTTTTT
* * *
9791953 TGCCTCTGTTTCCCTTGCTGC
1 TGCCTCTGCTTCCCTCGCTAC
9791974 TGCCTCTGCTTCCCTCGCTAC
1 TGCCTCTGCTTCCCTCGCTAC
9791995 TGC
1 TGC
9791998 TTTTATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.42, G:0.18, T:0.38
Consensus pattern (21 bp):
TGCCTCTGCTTCCCTCGCTAC
Found at i:9804210 original size:9 final size:9
Alignment explanation
Indices: 9804198--9804222 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9804188 AATAATCTAT
9804198 ATTTTTATA
1 ATTTTTATA
9804207 ATTTTTATA
1 ATTTTTATA
9804216 ATTTTTA
1 ATTTTTA
9804223 AAAGATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:9804717 original size:18 final size:18
Alignment explanation
Indices: 9804694--9804732 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9804684 TGTATTTTAT
* *
9804694 AATATTTTAATTAATTAA
1 AATATTTAAAATAATTAA
9804712 AATATTTAAAATAATTAA
1 AATATTTAAAATAATTAA
9804730 AAT
1 AAT
9804733 CAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTTAAAATAATTAA
Found at i:9809926 original size:18 final size:18
Alignment explanation
Indices: 9809903--9809943 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9809893 GTTCAAAGTG
9809903 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
9809921 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
9809939 TAATT
1 TAATT
9809944 GAAAACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:9810806 original size:24 final size:25
Alignment explanation
Indices: 9810779--9810827 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
9810769 CTTTTTTTAT
*
9810779 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
9810803 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
9810828 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:9810820 original size:25 final size:23
Alignment explanation
Indices: 9810791--9810855 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
9810781 AATAAAAAAC
*
9810791 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
9810816 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
9810837 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
9810856 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:9810854 original size:19 final size:20
Alignment explanation
Indices: 9810817--9810855 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9810807 TCAAATACAT
9810817 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
9810837 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
9810856 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:9823133 original size:32 final size:32
Alignment explanation
Indices: 9823072--9823134 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
9823062 ATGCACGGAT
**
9823072 TTTCTCAAATTTTATATAATACATATATTTAA
1 TTTCTCAAATTCCATATAATACATATATTTAA
*
9823104 TTTCTCAAATTCCATTTAAATACAT-TATTTA
1 TTTCTCAAATTCCATAT-AATACATATATTTA
9823135 TCATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTCTCAAATTCCATATAATACATATATTTAA
Found at i:9824182 original size:51 final size:51
Alignment explanation
Indices: 9824082--9824340 Score: 437
Period size: 51 Copynumber: 5.0 Consensus size: 51
9824072 CTGAAATTAA
9824082 GACATAGTTTTGCCATTGTGTAAGGAATACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGG-A-ACACAGCCTTTCAGGACCCCTAATT
* *
9824135 GACATGGTTTTGCCATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATT
* *
9824186 GACATAGTTTTGCCACTGTGTAAGGAACACAGCCTTTCAGGAACCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATT
9824237 GACATAGTTTTGCCATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGG-A-ACACAGCCTTTCAGGACCCCTAATT
*
9824290 GACATAGTTTTGCCATTGTGCAAGGAACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATT
9824341 TTCCCATGGA
Statistics
Matches: 195, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
51 121 0.62
52 3 0.02
53 71 0.36
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (51 bp):
GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATT
Found at i:9824279 original size:104 final size:102
Alignment explanation
Indices: 9824082--9824340 Score: 437
Period size: 104 Copynumber: 2.5 Consensus size: 102
9824072 CTGAAATTAA
*
9824082 GACATAGTTTTGCCATTGTGTAAGGAATACACAGCCTTTCAGGACCCCTAATTGACATGGTTTTG
1 GACATAGTTTTGCCATTGTGTAAGG-A-ACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTG
9824147 CCATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
64 CCATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
* *
9824186 GACATAGTTTTGCCACTGTGTAAGGAACACAGCCTTTCAGGAACCCTAATTGACATAGTTTTGCC
1 GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTGCC
*
9824251 ATTGTGTAAGGAACACACAGCCTTTCAGGACCCCTAATT
66 ATTGTGTAAAG-A-ACACAGCCTTTCAGGACCCCTAATT
*
9824290 GACATAGTTTTGCCATTGTGCAAGGAACACAGCCTTTCAGGACCCCTAATT
1 GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATT
9824341 TTCCCATGGA
Statistics
Matches: 146, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
102 47 0.32
103 2 0.01
104 97 0.66
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (102 bp):
GACATAGTTTTGCCATTGTGTAAGGAACACAGCCTTTCAGGACCCCTAATTGACATAGTTTTGCC
ATTGTGTAAAGAACACAGCCTTTCAGGACCCCTAATT
Found at i:9826870 original size:126 final size:125
Alignment explanation
Indices: 9826637--9826886 Score: 394
Period size: 126 Copynumber: 2.0 Consensus size: 125
9826627 CAGAAGTTTC
*
9826637 CTATATGACTGCAAAACTACAAATTAAGCCACACAAGGCTACGAGGTCTTCAACAAATATACATT
1 CTATATGACTGCAAAACTACAAATTAAGCCACACAACGCTACGAGGTCTTCAACAAATATACATT
*
9826702 TACTAAAAAACTTAATTCAAAACAAACTTAGAGATCTTTCTCATACTTGATTGGTGATTTT
66 TACTAAAAAACTTAATTCAAAACAAACTTAGAGATC-TTCTCATACTCGATTGGTGATTTT
* * *
9826763 CTATATGACTGTAAAAGTACAAATTAAGCCACACAACGCTACGGGGTCTTCAACAAATAATACAT
1 CTATATGACTGCAAAACTACAAATTAAGCCACACAACGCTACGAGGTCTTCAACAAAT-ATACAT
* * *
9826828 TTTCTTAAAAGCTTAATTCAAAACAAACTTAGAGATAC-TCTCATACTCGATTGGTGATT
65 TTACTAAAAAACTTAATTCAAAACAAACTTAGAGAT-CTTCTCATACTCGATTGGTGATT
9826887 CTTCGGGCCC
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
126 74 0.65
127 39 0.34
128 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (125 bp):
CTATATGACTGCAAAACTACAAATTAAGCCACACAACGCTACGAGGTCTTCAACAAATATACATT
TACTAAAAAACTTAATTCAAAACAAACTTAGAGATCTTCTCATACTCGATTGGTGATTTT
Found at i:9827719 original size:27 final size:27
Alignment explanation
Indices: 9827678--9827802 Score: 185
Period size: 27 Copynumber: 4.9 Consensus size: 27
9827668 CAAAAGAAAC
9827678 ATAGTTTTCCAGCCACAAAGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATA
*
9827705 ATAATTTTCCAGCCACAAAGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATA
9827732 ATAGTTTTCCAGCCACAAAGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATA
9827759 ATAGTTTT-----C-C--AGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATA
9827778 ATAGTTTTCCAGCCACAAAGAAACA
1 ATAGTTTTCCAGCCACAAAGAAACA
9827803 AACTTCCTTG
Statistics
Matches: 88, Mismatches: 2, Indels: 16
0.83 0.02 0.15
Matches are distributed among these distances:
19 17 0.19
21 1 0.01
22 1 0.01
24 1 0.01
25 1 0.01
27 67 0.76
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (27 bp):
ATAGTTTTCCAGCCACAAAGAAACATA
Found at i:9827747 original size:54 final size:46
Alignment explanation
Indices: 9827678--9827802 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
9827668 CAAAAGAAAC
9827678 ATAGTTTTCCAGCCACAAAGAAACATAATAATTTTCCAGCCACAAAGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATAATAATTTT-----C-C--AGAAACATA
*
9827732 ATAGTTTTCCAGCCACAAAGAAACATAATAGTTTTCCAGAAACATA
1 ATAGTTTTCCAGCCACAAAGAAACATAATAATTTTCCAGAAACATA
9827778 ATAGTTTTCCAGCCACAAAGAAACA
1 ATAGTTTTCCAGCCACAAAGAAACA
9827803 AACTTCCTTG
Statistics
Matches: 70, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
46 34 0.49
48 1 0.01
49 1 0.01
54 34 0.49
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (46 bp):
ATAGTTTTCCAGCCACAAAGAAACATAATAATTTTCCAGAAACATA
Found at i:9827774 original size:19 final size:19
Alignment explanation
Indices: 9827750--9827789 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
9827740 CCAGCCACAA
9827750 AGAAACATAATAGTTTTCC
1 AGAAACATAATAGTTTTCC
9827769 AGAAACATAATAGTTTTCC
1 AGAAACATAATAGTTTTCC
9827788 AG
1 AG
9827790 CCACAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (19 bp):
AGAAACATAATAGTTTTCC
Found at i:9836407 original size:87 final size:86
Alignment explanation
Indices: 9836248--9836976 Score: 1019
Period size: 87 Copynumber: 8.5 Consensus size: 86
9836238 GTTCGTAAAT
* * *
9836248 TTAACGCACGCCGCGAAGATAATCATTTCAAAAATGGAAATCCCTTTCGTGCATTGGCTCGTTCG
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGC-TTGGCTCGTTCG
9836313 TAAATTTATAAACATGATGTAA
65 TAAATTTATAAACATGATGTAA
* * * *
9836335 TTAATGCACACCACGAAGAAGATCATTTCAAAAATGGAAATCCCTTTCGGGCTTGGGCTCGTTTG
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGCTT-GGCTCGTTCG
9836400 TAAATTTATAAACATGATGTAA
65 TAAATTTATAAACATGATGTAA
*
9836422 TTAACGCACGCCACGAAGATAATCATTTCAAAAATGGAAATCCCTTTCGGGCATTGGCTCGTTCG
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGC-TTGGCTCGTTCG
*
9836487 TAAATTAATAAACATGATGTAA
65 TAAATTTATAAACATGATGTAA
*
9836509 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGATATCCCTTTCGGGCTTGGGCTCGTTCG
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGCTT-GGCTCGTTCG
*
9836574 CAAATTTATAAACATGATGTAA
65 TAAATTTATAAACATGATGTAA
*
9836596 TTAACACACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGCATTGGCTCGTTCG
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGC-TTGGCTCGTTCG
9836661 TAAATTTATAAACATGATGTAA
65 TAAATTTATAAACATGATGTAA
*
9836683 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAAT--C---C---C-TGGCTCATTCGT
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGCTTGGCTCGTTCGT
*
9836739 AAACTTATAAACATGATGTAA
66 AAATTTATAAACATGATGTAA
* * * * **
9836760 TTAAAGCACACAACAAAGAAAATCATTTCAAAAATGGAAAT-CCTCTTCAAGCTTGGGCTCGTTC
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCT-TTCGGGCTT-GGCTCGTTC
9836824 GTAAATTTATAAACATGATGTAA
64 GTAAATTTATAAACATGATGTAA
* * * * * * *
9836847 TCAACACATGCCACGAAGAAAACCATTTCAAAAGTGGAAATCCCTTTCAGGCTTGGGCTCATTCG
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGCTT-GGCTCGTTCG
*
9836912 TAAATTTATAAACACGATGTAA
65 TAAATTTATAAACATGATGTAA
* * * * *
9836934 TCAACACGCGCCACAAAGAAAATCACTTCAAAAATGGAAATCC
1 TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCC
9836977 GGTTAATAGG
Statistics
Matches: 580, Mismatches: 47, Indels: 30
0.88 0.07 0.05
Matches are distributed among these distances:
77 68 0.12
78 1 0.00
79 1 0.00
82 2 0.00
85 2 0.00
86 5 0.01
87 494 0.85
88 7 0.01
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (86 bp):
TTAACGCACGCCACGAAGAAAATCATTTCAAAAATGGAAATCCCTTTCGGGCTTGGCTCGTTCGT
AAATTTATAAACATGATGTAA
Found at i:9836779 original size:77 final size:77
Alignment explanation
Indices: 9836650--9836802 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 77
9836640 TTTCGGGCAT
* * * * * *
9836650 TGGCTCGTTCGTAAATTTATAAACATGATGTAATTAACGCACGCCACGAAGAAAATCATTTCAAA
1 TGGCTCATTCGTAAACTTATAAACATGATGTAATTAAAGCACACAACAAAGAAAATCATTTCAAA
9836715 AATGGAAATCCC
66 AATGGAAATCCC
9836727 TGGCTCATTCGTAAACTTATAAACATGATGTAATTAAAGCACACAACAAAGAAAATCATTTCAAA
1 TGGCTCATTCGTAAACTTATAAACATGATGTAATTAAAGCACACAACAAAGAAAATCATTTCAAA
9836792 AATGGAAATCC
66 AATGGAAATCC
9836803 TCTTCAAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (77 bp):
TGGCTCATTCGTAAACTTATAAACATGATGTAATTAAAGCACACAACAAAGAAAATCATTTCAAA
AATGGAAATCCC
Found at i:9837641 original size:24 final size:24
Alignment explanation
Indices: 9837609--9837658 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
9837599 AAACAACCAT
9837609 TTTAATCATTAAGTAACTAATTCC
1 TTTAATCATTAAGTAACTAATTCC
9837633 TTTAATCATTAAGTAACTAATTCC
1 TTTAATCATTAAGTAACTAATTCC
9837657 TT
1 TT
9837659 CTTTAATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (24 bp):
TTTAATCATTAAGTAACTAATTCC
Found at i:9843853 original size:28 final size:28
Alignment explanation
Indices: 9843813--9843875 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
9843803 GTCATTATCA
9843813 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
9843841 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
9843869 ACCCCAT
1 ACCCCAT
9843876 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:9844036 original size:14 final size:14
Alignment explanation
Indices: 9843996--9844036 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9843986 AAAAATAAGA
9843996 TACACTCTCTCTTC
1 TACACTCTCTCTTC
9844010 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
9844021 TACACTCTTTCTTC
1 TACACTCTCTCTTC
9844035 TA
1 TA
9844037 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:9846285 original size:6 final size:6
Alignment explanation
Indices: 9846276--9846308 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
9846266 ATACGATCTT
*
9846276 CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC CCC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCC
9846309 CATCATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCCTTC
Found at i:9849058 original size:18 final size:19
Alignment explanation
Indices: 9849015--9849052 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
9849005 ATCTAAACAC
9849015 CAGAAAAATAAATCATTTT
1 CAGAAAAATAAATCATTTT
*
9849034 CAGAAAAGTAAATCATTTT
1 CAGAAAAATAAATCATTTT
9849053 TTAAAAATTA
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:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
CAGAAAAATAAATCATTTT
Found at i:9850633 original size:17 final size:17
Alignment explanation
Indices: 9850578--9850633 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
9850568 ATAATCAAAC
9850578 AATTCAATAATATAAAT
1 AATTCAATAATATAAAT
* * *
9850595 AGTAC-AGAATATGAAATTT
1 AATTCAATAATAT-AAA--T
9850614 AATTCAATAATATAAAT
1 AATTCAATAATATAAAT
9850631 AAT
1 AAT
9850634 AGACATAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
16 6 0.21
17 10 0.34
19 7 0.24
20 6 0.21
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (17 bp):
AATTCAATAATATAAAT
Found at i:9851981 original size:89 final size:89
Alignment explanation
Indices: 9851830--9851992 Score: 290
Period size: 89 Copynumber: 1.8 Consensus size: 89
9851820 CCGTGATTCA
* * *
9851830 AAAAATGATCTATTTATAGTTAATACTGATTCAAAATGCCTGTTAACCTTAAATACATACAGGCA
1 AAAAATGAACTATTTATAGTTAATACTAATTCAAAATACCTGTTAACCTTAAATACATACAGGCA
9851895 CAGCTAGGACAAATATAAATAATT
66 CAGCTAGGACAAATATAAATAATT
9851919 AAAAATGAACTATTTATAGTTAATACTAATTCAAAATACCTGTTAACCTTAAATACATACAGGCA
1 AAAAATGAACTATTTATAGTTAATACTAATTCAAAATACCTGTTAACCTTAAATACATACAGGCA
*
9851984 CAGGTAGGA
66 CAGCTAGGA
9851993 TTTGTAGGTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (89 bp):
AAAAATGAACTATTTATAGTTAATACTAATTCAAAATACCTGTTAACCTTAAATACATACAGGCA
CAGCTAGGACAAATATAAATAATT
Found at i:9852613 original size:87 final size:86
Alignment explanation
Indices: 9852497--9852842 Score: 428
Period size: 87 Copynumber: 4.0 Consensus size: 86
9852487 GGCAACAGTG
* * * *
9852497 TTTCGGGCTTGGGCTCATTTGTAAATTTATAAACATGATGTAATTAACGCATGCCACAAAGAAAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
9852562 TCATTTCAAAAATGGAAATACC
66 TCATTTCAAAAATGGAAAT-CC
* * *
9852584 TTTCGGGCTTGGCCCCGTTCGTAAATTTATAAACATGATGTAATTAAAACATGCCACGAAGAAAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
9852649 TCATTTCAAAAATGGAAATCC
66 TCATTTCAAAAATGGAAATCC
* ** ** *
9852670 GTTT-GAGGCTTGGGCTTGTTCAAAAATTTATAAACATGATGTAATTATCACATGCCACGAAGAA
1 -TTTCG-GGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAA
* *
9852734 AATCATTTCAAAAGTGGATATTCC
64 AATCATTTCAAAAATGGA-AATCC
* * * * *
9852758 TCTCGGGCTTGGCCTCATTTGTAAATTTATAAACATGATGCAAGTTATGCAC--GCCATGAAGAA
1 TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAA-TTA-ACACATGCCACGAAGAA
*
9852821 AATCATTTCAAAAATGGGAATC
64 AATCATTTCAAAAATGGAAATC
9852843 AGATTAACAG
Statistics
Matches: 224, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
86 6 0.03
87 207 0.92
88 8 0.04
89 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (86 bp):
TTTCGGGCTTGGCCTCATTCGTAAATTTATAAACATGATGTAATTAACACATGCCACGAAGAAAA
TCATTTCAAAAATGGAAATCC
Found at i:9852792 original size:174 final size:174
Alignment explanation
Indices: 9852519--9852842 Score: 488
Period size: 174 Copynumber: 1.9 Consensus size: 174
9852509 GCTCATTTGT
*
9852519 AAATTTATAAACATGATGTAATTAACGCATGCCACAAAGAAAATCATTTCAAAAATGGAAATACC
1 AAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAATCATTTCAAAAATGGAAATACC
* * * *
9852584 TTTCGGGCTTGGCCCCGTTCGTAAATTTATAAACATGATGTAA-TTAAAACATGCCACGAAGAAA
66 TCTCGGGCTTGGCCCCATTCGTAAATTTATAAACATGATGCAAGTT-AAACACGCCACGAAGAAA
9852648 ATCATTTCAAAAATGGAAATCCGTTTGAGGCTTGGGCTTGTTCAA
130 ATCATTTCAAAAATGGAAATCCGTTTGAGGCTTGGGCTTGTTCAA
* * * * *
9852693 AAATTTATAAACATGATGTAATTATCACATGCCACGAAGAAAATCATTTCAAAAGTGGATATTCC
1 AAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAATCATTTCAAAAATGGAAATACC
* * ** *
9852758 TCTCGGGCTTGGCCTCATTTGTAAATTTATAAACATGATGCAAGTTATGCACGCCATGAAGAAAA
66 TCTCGGGCTTGGCCCCATTCGTAAATTTATAAACATGATGCAAGTTAAACACGCCACGAAGAAAA
*
9852823 TCATTTCAAAAATGGGAATC
131 TCATTTCAAAAATGGAAATC
9852843 AGATTAACAG
Statistics
Matches: 133, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
174 131 0.98
175 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (174 bp):
AAATTTATAAACATGATGTAATTAACACATGCCACAAAGAAAATCATTTCAAAAATGGAAATACC
TCTCGGGCTTGGCCCCATTCGTAAATTTATAAACATGATGCAAGTTAAACACGCCACGAAGAAAA
TCATTTCAAAAATGGAAATCCGTTTGAGGCTTGGGCTTGTTCAA
Found at i:9854466 original size:7 final size:7
Alignment explanation
Indices: 9854454--9854482 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
9854444 TTTTAACAGT
9854454 AAATAAA
1 AAATAAA
9854461 AAATAAA
1 AAATAAA
9854468 AAATAAA
1 AAATAAA
9854475 AAATAAA
1 AAATAAA
9854482 A
1 A
9854483 CCCTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:9855645 original size:31 final size:30
Alignment explanation
Indices: 9855598--9855657 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9855588 TTTAGAAAAA
*
9855598 TAAAATGTATATTTTAAAT-ATATTGTAAAG
1 TAAAAAGTATATTTTAAATAATATT-TAAAG
9855628 TAAAAAGTATATATTTAAATAATATTTAAA
1 TAAAAAGTATAT-TTTAAATAATATTTAAA
9855658 TTTATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.41
31 11 0.41
32 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.42
Consensus pattern (30 bp):
TAAAAAGTATATTTTAAATAATATTTAAAG
Found at i:9859965 original size:18 final size:20
Alignment explanation
Indices: 9859930--9859968 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
9859920 CTCTTTTATT
*
9859930 TATATAAATAAATTAATAAG
1 TATATAAATAAATAAATAAG
9859950 TATAT-AATAAA-AAATAAG
1 TATATAAATAAATAAATAAG
9859968 T
1 T
9859969 TTTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TATATAAATAAATAAATAAG
Found at i:9860276 original size:20 final size:22
Alignment explanation
Indices: 9860220--9860276 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
9860210 TCAAATATTT
9860220 TTATATGTGAAATATTTCAATTAA
1 TTATATGTGAAATA--TCAATTAA
*
9860244 TTAT-T-TCAAATATC-ATT-A
1 TTATATGTGAAATATCAATTAA
9860262 TTATATGTGAAATAT
1 TTATATGTGAAATAT
9860277 TTTAAATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 5 0.17
19 4 0.14
20 9 0.31
22 6 0.21
23 1 0.03
24 4 0.14
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
TTATATGTGAAATATCAATTAA
Found at i:9860858 original size:167 final size:167
Alignment explanation
Indices: 9860601--9861029 Score: 582
Period size: 167 Copynumber: 2.6 Consensus size: 167
9860591 CTATTTCCTT
9860601 AAATATCACAAAATTCAGTCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATT
1 AAATATCACAAAATTCAG-CCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATT
*
9860666 GATGTTATTATTCACTAATAATGCATGAAACTTATAG-ATTGACGATGCATT-AA-A-TATTTTA
65 GATGTTATTATTCACTAATAATGCATGAAACTTAT-GCACTGACGATGCATTAAATATTATTTTA
*
9860727 TTTTCTTTCTATTTTTCTTCCCAAAA-TCGGCCTATTTATCA
129 TTTTATTTCTATTTTT-TT-CCAAAACT-GGCCTATTTATCA
* *
9860768 AAATATCACAAAATTCAGCCTAAAA-CCTGAATTTTTTAAAACTGGCATGTATCTAAAATTTAAT
1 AAATATCACAAAATTCAGCC-AAAACCCT-AATTTTTTAAAACTGACATATATCTAAAATTTAAT
*
9860832 TGATGTTATTATTCACTAATAATGCATGAAACTTATGCCCTGACGATGCATTAAATATTATTTTA
64 TGATGTTATTATTCACTAATAATGCATGAAACTTATGCACTGACGATGCATTAAATATTATTTTA
* * * *
9860897 TTTTATTTTTATTTTTTTCCAAAACTGGTCTATTTCTCT
129 TTTTATTTCTATTTTTTTCCAAAACTGGCCTATTTATCA
* * ** * * *
9860936 AAATATTACAAAATTCAACCAAAAGTTCTAATTTTTTAAATCTGACATATATTTAAAATTTAACT
1 AAATATCACAAAATTCAGCCAAAA-CCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATT
**
9861001 GATGTTATTATTCACTTGTAATGCATGAA
65 GATGTTATTATTCACTAATAATGCATGAA
9861030 GTTTATGTAC
Statistics
Matches: 234, Mismatches: 19, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
166 6 0.03
167 107 0.46
168 94 0.40
169 6 0.03
170 21 0.09
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.41
Consensus pattern (167 bp):
AAATATCACAAAATTCAGCCAAAACCCTAATTTTTTAAAACTGACATATATCTAAAATTTAATTG
ATGTTATTATTCACTAATAATGCATGAAACTTATGCACTGACGATGCATTAAATATTATTTTATT
TTATTTCTATTTTTTTCCAAAACTGGCCTATTTATCA
Found at i:9864358 original size:18 final size:18
Alignment explanation
Indices: 9864323--9864358 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9864313 TATTATTGAT
*
9864323 CATGTTTAACTATAAAAA
1 CATGTTTAAATATAAAAA
9864341 CATGTTTAAATATTAAAA
1 CATGTTTAAATA-TAAAA
9864359 TTTACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (18 bp):
CATGTTTAAATATAAAAA
Found at i:9866718 original size:16 final size:17
Alignment explanation
Indices: 9866697--9866728 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9866687 GAATATATAC
9866697 AAGAAAAAAA-AAGGGG
1 AAGAAAAAAATAAGGGG
9866713 AAGAAAAAAATAAGGG
1 AAGAAAAAAATAAGGG
9866729 TAAACTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (17 bp):
AAGAAAAAAATAAGGGG
Done.