Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 157 of 279
Found at i:51503378 original size:28 final size:28
Alignment explanation
Indices: 51503325--51503408 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
51503315 CACTTTGTGC
51503325 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
51503354 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
51503382 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
51503409 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:51503420 original size:23 final size:24
Alignment explanation
Indices: 51503329--51503422 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
51503319 TTGTGCTATT
51503329 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
51503356 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
51503386 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
51503409 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
51503423 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:51503660 original size:21 final size:21
Alignment explanation
Indices: 51503612--51503719 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
51503602 GGCTTTACTG
* *
51503612 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
51503633 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTGTGTGTCGT
*
51503656 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
51503677 TTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
* *
51503698 TTCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTGTGTGTCGT
51503718 AT
1 AT
51503720 ACTGATCAGG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
20 11 0.14
21 48 0.62
23 19 0.24
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTTGTGTGTCGT
Found at i:51519232 original size:16 final size:15
Alignment explanation
Indices: 51519211--51519242 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
51519201 TTTAGGATAA
51519211 TAATTTAGAGTTAATT
1 TAATTTAGA-TTAATT
51519227 TAATTTAGATTAATT
1 TAATTTAGATTAATT
51519242 T
1 T
51519243 TTACTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TAATTTAGATTAATT
Found at i:51519517 original size:22 final size:22
Alignment explanation
Indices: 51519470--51519518 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
51519460 TTATCTTATA
* *
51519470 TAAATTTATTATAATTTAATTG
1 TAAATTTACTATAATTTAATTC
*
51519492 TAAATTTACTCTAATTTACA-TC
1 TAAATTTACTATAATTTA-ATTC
51519514 TAAAT
1 TAAAT
51519519 ATATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (22 bp):
TAAATTTACTATAATTTAATTC
Found at i:51533210 original size:13 final size:13
Alignment explanation
Indices: 51533192--51533216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51533182 TTCTCACCAC
51533192 AAAAAATAAAAAT
1 AAAAAATAAAAAT
51533205 AAAAAATAAAAA
1 AAAAAATAAAAA
51533217 ATCCCTAAGT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:51534035 original size:119 final size:118
Alignment explanation
Indices: 51533814--51534045 Score: 297
Period size: 119 Copynumber: 2.0 Consensus size: 118
51533804 TATATTATAT
*** *
51533814 CTACCATAAAGTTAATTACATGTTTAGGGTTTAAGGTTATTATCATTAATATAAAAATGCACATT
1 CTACCATAAAGTTAATTACATGTTTACCATTTAAGCTTATTATCATTAATATAAAAATGCACATT
* *
51533879 ATAATATCACAATTGTATATAAGGTTATATACAATTAATAATATACTTATAAA
66 ATAATAACACAATTGTATATAAGGATATATACAATTAATAATATACTTATAAA
* * * *
51533932 CTACCATAATGTTAGTTACATGTTTTCCATTTAAGCTTATCTATCATTAATATAAAAATGTACAT
1 CTACCATAAAGTTAATTACATGTTTACCATTTAAGCTTAT-TATCATTAATATAAAAATGCACAT
* * * *
51533997 TATAATAACATAGTTGTATATAGGGATACGTAT-C-ATTAATAATCTACTT
65 TATAATAACACAATTGTATATAAGGATA--TATACAATTAATAATATACTT
51534046 TAATTATATA
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
118 33 0.34
119 60 0.62
120 1 0.01
121 3 0.03
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.39
Consensus pattern (118 bp):
CTACCATAAAGTTAATTACATGTTTACCATTTAAGCTTATTATCATTAATATAAAAATGCACATT
ATAATAACACAATTGTATATAAGGATATATACAATTAATAATATACTTATAAA
Found at i:51534160 original size:14 final size:13
Alignment explanation
Indices: 51534141--51534177 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
51534131 AAGAATGCAC
51534141 ATTATAATATCATA
1 ATTATAATAT-ATA
51534155 ATTAT-ATA-ATA
1 ATTATAATATATA
51534166 ATTATAATATAT
1 ATTATAATATAT
51534178 TTGTAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 8 0.38
12 3 0.14
13 5 0.24
14 5 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTATAATATATA
Found at i:51538873 original size:56 final size:53
Alignment explanation
Indices: 51538770--51538930 Score: 187
Period size: 54 Copynumber: 2.9 Consensus size: 53
51538760 TTTATTTTTA
* * * * * **
51538770 TCCCCACATGATGCCATAGTCCTAGAATAGGTCTTACACTATGTGGTCTTTATT
1 TCCCCATATGATG-CATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCACC
*
51538824 TCCCCATATGATGTCATAGTCACCATGACTAGGTCTAACACTATATGGTCTTCACC
1 TCCCCATATGATG-CATAGTC-CCA-GACTAGGTCTTACACTATATGGTCTTCACC
* *
51538880 TCCCCATATGGTGCAATAGTCCCAGACTAAGTCTTACACTATATGGTCTTC
1 TCCCCATATGATGC-ATAGTCCCAGACTAGGTCTTACACTATATGGTCTTC
51538931 TTGCCATGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
54 44 0.48
55 6 0.07
56 42 0.46
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (53 bp):
TCCCCATATGATGCATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCACC
Found at i:51542988 original size:71 final size:68
Alignment explanation
Indices: 51542859--51542995 Score: 179
Period size: 71 Copynumber: 2.0 Consensus size: 68
51542849 TTTAATAGAT
* *
51542859 TTAATATTAAATTTAATTTAATACTTATCTTAATAGGATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAATACTTATCTTAATAGAATTTTATTAATTTAATATTAAAGTAATT
51542924 ATC
66 ATC
* *
51542927 TTAATATTAAATTTAA-TTATTATTTATCTTGTATATA-AATATTCTATTAATTTAATATTAAAG
1 TTAATATTAAATTTAATTTAATACTTATC-T-TA-ATAGAAT-TT-TATTAATTTAATATTAAAG
51542990 TAATTA
61 TAATTA
51542996 AGTTAAATCA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
67 10 0.17
68 17 0.28
69 4 0.07
70 5 0.08
71 24 0.40
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATACTTATCTTAATAGAATTTTATTAATTTAATATTAAAGTAATT
ATC
Found at i:51544848 original size:16 final size:15
Alignment explanation
Indices: 51544829--51544862 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
51544819 AATATTTCCC
51544829 AAAAAAAAAGAAAAGG
1 AAAAAAAAA-AAAAGG
*
51544845 AAAAAAAAATAAAGG
1 AAAAAAAAAAAAAGG
51544860 AAA
1 AAA
51544863 GACGAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAAAGG
Found at i:51560901 original size:17 final size:17
Alignment explanation
Indices: 51560862--51560901 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51560852 CTAGTAATGT
*
51560862 TAAA-ATATATATAATA
1 TAAATATATATATAAAA
*
51560878 TATATATATATATAAAA
1 TAAATATATATATAAAA
51560895 TAAATAT
1 TAAATAT
51560902 TGAAAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATATATATATAAAA
Found at i:51561245 original size:9 final size:9
Alignment explanation
Indices: 51561215--51561257 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
51561205 AAATATAATA
*
51561215 AATAATAAT
1 AATAATAAC
*
51561224 AATAATAAT
1 AATAATAAC
51561233 AATAATAAC
1 AATAATAAC
*
51561242 AATAATAGC
1 AATAATAAC
51561251 AATAATA
1 AATAATA
51561258 GTAAAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (9 bp):
AATAATAAC
Found at i:51561257 original size:3 final size:3
Alignment explanation
Indices: 51561191--51561248 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
51561181 AAGTACCTAT
*
51561191 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
51561238 TAA CAA TAA TA
1 TAA TAA TAA TA
51561249 GCAATAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 1 0.02
3 40 0.85
4 6 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51561426 original size:3 final size:3
Alignment explanation
Indices: 51561418--51561548 Score: 95
Period size: 3 Copynumber: 41.3 Consensus size: 3
51561408 AATATTTATA
* *
51561418 AAT AAT AAT AGT AA- ATAT AAT AAT AAT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
51561463 AAT GAT GAT AAT AAT AAT ATT AAGT ACAGT -AT AAAT AAT ATAT ACAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T A-A-T AAT -AAT AAT A-AT A-AT
* * *
51561510 AAC AGT AAT AATT AAT AAGT AAC AAT AAT AAT AAT AAT A
1 AAT AAT AAT AA-T AAT AA-T AAT AAT AAT AAT AAT AAT A
51561549 TAGAAATTAA
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
2 2 0.02
3 82 0.79
4 17 0.16
5 3 0.03
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51561521 original size:20 final size:21
Alignment explanation
Indices: 51561472--51561548 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 21
51561462 TAATGATGAT
51561472 AATAATAATAT--TAAGT-AC
1 AATAATAATATAATAAGTAAC
51561490 AGTATAAATAATAT-ATACA-TAAC
1 A--AT-AATAATATAATA-AGTAAC
*
51561513 AGTAATAAT-TAATAAGTAAC
1 AATAATAATATAATAAGTAAC
51561533 AATAATAATAATAATA
1 AATAATAAT-ATAATA
51561549 TAGAAATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
18 1 0.02
19 2 0.04
20 23 0.49
21 9 0.19
22 8 0.17
23 4 0.09
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (21 bp):
AATAATAATATAATAAGTAAC
Found at i:51561606 original size:16 final size:16
Alignment explanation
Indices: 51561573--51561605 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51561563 ACCTAAACAT
*
51561573 AATATAATAATATTAA
1 AATAAAATAATATTAA
51561589 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
51561604 AA
1 AA
51561606 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:51563693 original size:72 final size:72
Alignment explanation
Indices: 51563484--51564008 Score: 550
Period size: 72 Copynumber: 7.1 Consensus size: 72
51563474 ATAAATTAAG
* ** * * ** ** *
51563484 AAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
51563549 TTTTTTTTGA
66 ---ATTTTGA
* * * * * **
51563559 AAGATAGAAATTGAAAATTCCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
51563623 TTGATTTTTGA
62 TTGAATTTTGA
* * *
51563634 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
51563699 ATTTTGA
66 ATTTTGA
* * * **
51563706 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGT
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA---G-
***
51563771 TTTTTTTTTGAA
62 TTGAATTTTG-A
* * * *
51563783 AAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
51563848 ATTTTGA
66 ATTTTGA
* * *
51563855 AAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
51563920 ATTTTGA
66 ATTTTGA
* * *
51563927 AAATAGAAA-TAAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTG
1 AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
51563991 AATTTTGA
65 AATTTTGA
*
51563999 AAATAGAAAT
1 AAACAGAAAT
51564009 AAAAATATCA
Statistics
Matches: 386, Mismatches: 52, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
71 5 0.01
72 229 0.59
73 7 0.02
74 19 0.05
75 12 0.03
76 23 0.06
77 54 0.14
78 36 0.09
79 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGA
Found at i:51563827 original size:149 final size:144
Alignment explanation
Indices: 51563498--51564008 Score: 593
Period size: 149 Copynumber: 3.5 Consensus size: 144
51563488 AAAAATTGCC
* ** * * *
51563498 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTGAAAGA
1 AATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA---ATTTTGAAA-A
* *
51563563 TAGAAATTGAAAATT-CCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
61 CAGAAATTG-AAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
51563626 ATTTTTGAAAACAT--AAATTGAA
122 ATTTTTGAAAA-ATAGAAATTGAA
* *
51563648 AATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTGAAAACAGA
1 AATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGAATTTTGAAAACAGA
**
51563713 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGTTTTTTTT
65 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA---G-TTGATTT
51563778 TTGAAAAATAGAAATTGAA
126 TTGAAAAATAGAAATTGAA
* *
51563797 AATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATTTTGAAAACAGA
1 AATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAGA
* * * ** * *
51563862 AATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTGAATTTTG-
65 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
51563926 AAAATAGAAA-TAAA
130 AAAATAGAAATTGAA
* * *
51563940 AATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAATTTTGAAAATAG
1 AA-TACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAG
51564005 AAAT
64 AAAT
51564009 AAAAATATCA
Statistics
Matches: 319, Mismatches: 31, Indels: 28
0.84 0.08 0.07
Matches are distributed among these distances:
143 7 0.02
144 102 0.32
145 12 0.04
146 17 0.05
147 11 0.03
148 12 0.04
149 114 0.36
150 44 0.14
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (144 bp):
AATACCTCAGCGTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGAATTTTGAAAACAGAA
ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AAATAGAAATTGAA
Found at i:51563887 original size:221 final size:220
Alignment explanation
Indices: 51563500--51563988 Score: 701
Period size: 221 Copynumber: 2.2 Consensus size: 220
51563490 AAATTGCCAA
* * * * *
51563500 TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTGAAAGATA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTGAAAAATA
* *
51563565 GAAATTGAAAATTCCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
66 GAAATTGAAAATACCTCAGCATGT--ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
* * * *
51563630 TTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAG
129 TTGAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTACTCACAATATGAG
**
51563695 TTGAATTTTGAAAACAGAAATTGAAAT
194 TTGAATTTTGAAAACAGAAATAAAAAT
*
51563722 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGTTTTTTTTTTGAAAAAT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG-ATTTTTTTTGAAAAAT
* ** *
51563787 AGAAATTGAAAATACCTCAGCATGT-CTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
65 AGAAATTGAAAATACCTCAGCATGTAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
* *
51563851 TTGAAAACAGAAATTGAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCACAATATGAG
129 TTGAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTACTCACAATATGAG
*
51563916 TTGAATTTTGAAAATAGAAATAAAAAT
194 TTGAATTTTGAAAACAGAAATAAAAAT
* * ** *
51563943 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGT
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
51563989 TGAATTTTGA
Statistics
Matches: 239, Mismatches: 26, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
220 1 0.00
221 156 0.65
222 44 0.18
223 38 0.16
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (220 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTGAAAAATA
GAAATTGAAAATACCTCAGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
GAAAACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTCATTACTCACAATATGAGTT
GAATTTTGAAAACAGAAATAAAAAT
Found at i:51576373 original size:16 final size:16
Alignment explanation
Indices: 51576340--51576372 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51576330 AACTAAACAT
*
51576340 AATATAATAATATTAA
1 AATAAAATAATATTAA
51576356 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
51576371 AA
1 AA
51576373 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:51583334 original size:36 final size:37
Alignment explanation
Indices: 51583264--51583335 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
51583254 CGGTACTCTA
* *
51583264 TGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCAT
1 TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCCAT
*
51583301 TGGTGTGTAGGGATGGGT-GGTCGATTTTATCCCCA
1 TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCCA
51583336 CATAATGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (37 bp):
TGGTGTGTAGGGATGGATGGGTCGATTTTATCCCCAT
Found at i:51583345 original size:37 final size:37
Alignment explanation
Indices: 51583267--51583354 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 37
51583257 TACTCTATGG
* * * **
51583267 TGTGTAGGGTTGGATGGGTTGATTTTATCCCCATTGG
1 TGTGTAGGGATGGATGGGTCGATTTTATCCCCAATAA
*
51583304 TGTGTAGGGATGGGT-GGTCGATTTTATCCCCACATAA
1 TGTGTAGGGATGGATGGGTCGATTTTATCCCCA-ATAA
* *
51583341 TGTGTCGGGTTGGA
1 TGTGTAGGGATGGA
51583355 CGGAGTTGGT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
36 16 0.39
37 25 0.61
ACGTcount: A:0.16, C:0.12, G:0.35, T:0.36
Consensus pattern (37 bp):
TGTGTAGGGATGGATGGGTCGATTTTATCCCCAATAA
Found at i:51597419 original size:24 final size:25
Alignment explanation
Indices: 51597392--51597459 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 25
51597382 ATATAAGTAG
* **
51597392 TATATATCTTATTTTTTAT-TTATT
1 TATATATATTATTCATTATATTATT
51597416 TATATA-ATTATTCATTATATTATT
1 TATATATATTATTCATTATATTATT
51597440 TATA-A-ATT-TT-ATTATATTAT
1 TATATATATTATTCATTATATTAT
51597460 ATATTTTACT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
21 10 0.25
22 2 0.05
23 13 0.32
24 15 0.38
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATATATTATTCATTATATTATT
Found at i:51597465 original size:17 final size:16
Alignment explanation
Indices: 51597433--51597467 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
51597423 TTATTCATTA
51597433 TATTATTTATAAATTT
1 TATTATTTATAAATTT
*
51597449 TATTATATTATATATTT
1 TATTAT-TTATAAATTT
51597466 TA
1 TA
51597468 CTACGTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTATTTATAAATTT
Found at i:51607112 original size:96 final size:96
Alignment explanation
Indices: 51606954--51607128 Score: 262
Period size: 96 Copynumber: 1.8 Consensus size: 96
51606944 TGCCATCGAT
** *
51606954 GGGAACGATGGAGTTGACAAGGAGCCCAAGAAGCTTAGTTCAAACAAGGGAAACACTAAAGCCAA
1 GGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTCAAACAAAGGAAACACTAAAGCCAA
51607019 GAAGGCAAAGAGGAACAAGTCTATCATCGGA
66 GAAGGCAAAGAGGAACAAGTCTATCATCGGA
* * * *
51607050 GGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAAGGAAA-AGCTGAAGCCA
1 GGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTCAAACAAAGGAAACA-CTAAAGCCA
*
51607114 AGAGGGCAAAGAGGA
65 AGAAGGCAAAGAGGA
51607129 GTAAAAAGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
95 1 0.01
96 69 0.99
ACGTcount: A:0.41, C:0.17, G:0.32, T:0.10
Consensus pattern (96 bp):
GGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTCAAACAAAGGAAACACTAAAGCCAA
GAAGGCAAAGAGGAACAAGTCTATCATCGGA
Found at i:51608984 original size:96 final size:96
Alignment explanation
Indices: 51608827--51609001 Score: 269
Period size: 96 Copynumber: 1.8 Consensus size: 96
51608817 TGTCATCGAT
** * * * *
51608827 GGGAACGATGGAGCAGACAATGAGCCCAAGAAGCTTTGTTCGAGCAAGGGAAACGCTGAAGCAAA
1 GGGAACGATGGAGCAGACAATGAGCCCAAGAAAATTGGTTCAAGCAAGGGAAAAGCCGAAGCAAA
51608892 AAGGGCAAAGAGGAACAAGTCTGTCACCAAA
66 AAGGGCAAAGAGGAACAAGTCTGTCACCAAA
* *
51608923 GGGAACGATGGAGTAGACAATGAGCCCAAGAAAATTGGTTCAAGCAAGGGAAAAGCCGAAGCCAA
1 GGGAACGATGGAGCAGACAATGAGCCCAAGAAAATTGGTTCAAGCAAGGGAAAAGCCGAAGCAAA
*
51608988 GAGGGCAAAGAGGA
66 AAGGGCAAAGAGGA
51609002 GCAAAAAGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.41, C:0.17, G:0.32, T:0.10
Consensus pattern (96 bp):
GGGAACGATGGAGCAGACAATGAGCCCAAGAAAATTGGTTCAAGCAAGGGAAAAGCCGAAGCAAA
AAGGGCAAAGAGGAACAAGTCTGTCACCAAA
Found at i:51616276 original size:15 final size:15
Alignment explanation
Indices: 51616256--51616286 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51616246 TAGAGTAAAA
51616256 GGTGTCAGGTAGGCG
1 GGTGTCAGGTAGGCG
51616271 GGTGTCAGGTAGGCG
1 GGTGTCAGGTAGGCG
51616286 G
1 G
51616287 CACCAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GGTGTCAGGTAGGCG
Found at i:51616309 original size:27 final size:27
Alignment explanation
Indices: 51616271--51616345 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
51616261 CAGGTAGGCG
51616271 GGTGTCAGGTAGGCGGCACCAATGAAA
1 GGTGTCAGGTAGGCGGCACCAATGAAA
*
51616298 GGTGTCAGGTAGGCGGCACCAATGAAG
1 GGTGTCAGGTAGGCGGCACCAATGAAA
* * *
51616325 GGTGTTAAGTAGGCGACACCA
1 GGTGTCAGGTAGGCGGCACCA
51616346 GTTGTGCCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.37, T:0.16
Consensus pattern (27 bp):
GGTGTCAGGTAGGCGGCACCAATGAAA
Found at i:51619588 original size:64 final size:64
Alignment explanation
Indices: 51619482--51619631 Score: 266
Period size: 64 Copynumber: 2.4 Consensus size: 64
51619472 TGAGCTTATG
* *
51619482 TAATTTATATAA-AAAATTTATATTACAAAGTTTGTTCTAATTAGATTATGGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTGGTTCCAATTAGATTATGGTTGTAATGTATT
*
51619545 TAGTTTATATAACAAAATTTATATTACAAAGTTGGTTCCAATTAGATTATGGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTGGTTCCAATTAGATTATGGTTGTAATGTATT
51619609 TAATTTATATAACAAAATTTATA
1 TAATTTATATAACAAAATTTATA
51619632 CTATAAAACT
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
63 11 0.13
64 71 0.87
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTGGTTCCAATTAGATTATGGTTGTAATGTATT
Found at i:51620062 original size:33 final size:33
Alignment explanation
Indices: 51620016--51620095 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
51620006 AGGAGTACCA
* * * **
51620016 TACTACGGCGGATACGACCTAGGAGAAGTGAAG
1 TACTGCGGTGGATACGACCCAAAAGAAGTGAAG
51620049 TACTGCGGTGGATACGACCCAAAAGAAGTGAAG
1 TACTGCGGTGGATACGACCCAAAAGAAGTGAAG
*
51620082 TACTGCGATGGATA
1 TACTGCGGTGGATA
51620096 TGGGCCGAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.17
Consensus pattern (33 bp):
TACTGCGGTGGATACGACCCAAAAGAAGTGAAG
Found at i:51620143 original size:33 final size:32
Alignment explanation
Indices: 51620106--51620214 Score: 85
Period size: 33 Copynumber: 3.3 Consensus size: 32
51620096 TGGGCCGAGG
51620106 GGAGTGTTGTAATGCGATGGATACAGGCTAGGA
1 GGAGTGTTGTAATGCGATGGATACAGGC-AGGA
* * * * * * *
51620139 GGAGTGCTATACTGTGGTGGATACGGGCCGGA
1 GGAGTGTTGTAATGCGATGGATACAGGCAGGA
* * * *
51620171 GGAGTGTTGTACTG-TAGTGGATACTAGCCGGGA
1 GGAGTGTTGTAATGCGA-TGGATAC-AGGCAGGA
51620204 GGAGTGTTGTA
1 GGAGTGTTGTA
51620215 CTACAGTGGA
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
32 22 0.37
33 38 0.63
ACGTcount: A:0.22, C:0.11, G:0.41, T:0.26
Consensus pattern (32 bp):
GGAGTGTTGTAATGCGATGGATACAGGCAGGA
Found at i:51620215 original size:33 final size:32
Alignment explanation
Indices: 51620136--51620227 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
51620126 ATACAGGCTA
* * * *
51620136 GGAGGAGTGCTATACTGTGGTGGATACGGGCC
1 GGAGGAGTGTTGTACTGTAGTGGATACGAGCC
*
51620168 GGAGGAGTGTTGTACTGTAGTGGATACTAGCC
1 GGAGGAGTGTTGTACTGTAGTGGATACGAGCC
**
51620200 GGGAGGAGTGTTGTACTACAGTGGATAC
1 -GGAGGAGTGTTGTACTGTAGTGGATAC
51620228 AACCCAAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
32 27 0.52
33 25 0.48
ACGTcount: A:0.22, C:0.13, G:0.40, T:0.25
Consensus pattern (32 bp):
GGAGGAGTGTTGTACTGTAGTGGATACGAGCC
Found at i:51621821 original size:33 final size:33
Alignment explanation
Indices: 51621778--51621884 Score: 126
Period size: 33 Copynumber: 3.3 Consensus size: 33
51621768 TCTTTGGGTA
*
51621778 GTATCCACCGCAGTACAACACTCCTCCCGGCCC
1 GTATCCACCGCAGTACAGCACTCCTCCCGGCCC
* * * * * *
51621811 ATATCCACCGCAGTATAGTACTTCTCGCAGCCC
1 GTATCCACCGCAGTACAGCACTCCTCCCGGCCC
* *
51621844 GTATCCACTGCATTACAGCACTCC-CCCGGCCC
1 GTATCCACCGCAGTACAGCACTCCTCCCGGCCC
51621876 GTATCCACC
1 GTATCCACC
51621885 ACAATACTCC
Statistics
Matches: 58, Mismatches: 16, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
32 14 0.24
33 44 0.76
ACGTcount: A:0.21, C:0.44, G:0.15, T:0.20
Consensus pattern (33 bp):
GTATCCACCGCAGTACAGCACTCCTCCCGGCCC
Found at i:51622363 original size:69 final size:64
Alignment explanation
Indices: 51622302--51622458 Score: 210
Period size: 64 Copynumber: 2.5 Consensus size: 64
51622292 CAAACTTAGT
* * *
51622302 TTTATACTATAAATTATGTTATATAAATTAAATATATTACAACCATAACCTAATTGGAACAAAC
1 TTTATAATATAAATTATGTTATATAAATTAAACACATTACAACCATAACCTAATTGGAACAAAC
* * *
51622366 TTTATAATATAAATTTTGTTATATAAATTAAACACATTACAACCATAATCTAATTGGAA-AAAA
1 TTTATAATATAAATTATGTTATATAAATTAAACACATTACAACCATAACCTAATTGGAACAAAC
* * *
51622429 TATTGTAATATAACTT-TTTTATATAAATTA
1 T-TTATAATATAAATTATGTTATATAAATTA
51622459 CATAAGCTCA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
63 17 0.20
64 66 0.80
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.39
Consensus pattern (64 bp):
TTTATAATATAAATTATGTTATATAAATTAAACACATTACAACCATAACCTAATTGGAACAAAC
Found at i:51622939 original size:46 final size:46
Alignment explanation
Indices: 51622872--51622964 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
51622862 GTTTCAGAGA
51622872 TAAACTCCATAAGACCTAGGTGGTATACCGGGTCAATGACCGATGG
1 TAAACTCCATAAGACCTAGGTGGTATACCGGGTCAATGACCGATGG
*
51622918 TAAACTCCATAGGACCTAGGTGGTATACCGGGTCAATGACCGATGG
1 TAAACTCCATAAGACCTAGGTGGTATACCGGGTCAATGACCGATGG
51622964 T
1 T
51622965 CTCTGTAACT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (46 bp):
TAAACTCCATAAGACCTAGGTGGTATACCGGGTCAATGACCGATGG
Found at i:51623900 original size:22 final size:22
Alignment explanation
Indices: 51623872--51623917 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
51623862 CTTTTTCCCG
51623872 GTTGTAGTTGGTCATCCGGGCT
1 GTTGTAGTTGGTCATCCGGGCT
*
51623894 GTTGTAGTTGGTCATTCGGGCT
1 GTTGTAGTTGGTCATCCGGGCT
51623916 GT
1 GT
51623918 AATAAAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.09, C:0.15, G:0.37, T:0.39
Consensus pattern (22 bp):
GTTGTAGTTGGTCATCCGGGCT
Found at i:51625982 original size:2 final size:2
Alignment explanation
Indices: 51625965--51626082 Score: 84
Period size: 2 Copynumber: 60.5 Consensus size: 2
51625955 GCGAGAAGGG
* * * *
51625965 GA GA GA AA GA GC GA GA GA GA GA GA GA GA GA GA GA GA GG GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
51626007 GA -A TGA GA GG GA GA GC GA GA -A AA G- GA GA GCA -A GA GG GA GA
1 GA GA -GA GA GA GA GA GA GA GA GA GA GA GA GA G-A GA GA GA GA GA
* * *
51626047 GA GC GA GA G- GA GA GA GA GG GG GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
51626083 GGAANNNNNN
Statistics
Matches: 92, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
1 5 0.05
2 85 0.92
3 2 0.02
ACGTcount: A:0.43, C:0.03, G:0.53, T:0.01
Consensus pattern (2 bp):
GA
Found at i:51636075 original size:17 final size:16
Alignment explanation
Indices: 51636025--51636075 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
51636015 ACCCACAGAA
*
51636025 TATTTTTTTTATTTTT
1 TATTTTTTTTACTTTT
51636041 TATTTTTTTT-CGTATTT
1 TATTTTTTTTAC-T-TTT
51636058 TATTTTTTTGTACTTTT
1 TATTTTTTT-TACTTTT
51636075 T
1 T
51636076 CAATCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 11 0.37
17 16 0.53
18 2 0.07
19 1 0.03
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (16 bp):
TATTTTTTTTACTTTT
Found at i:51636469 original size:13 final size:14
Alignment explanation
Indices: 51636429--51636469 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
51636419 ATCCAAGTCC
* *
51636429 AATAAAACAATTAA
1 AATAAAATAACTAA
51636443 AAT-AAATAACTAA
1 AATAAAATAACTAA
51636456 AATAAAATAA-TAA
1 AATAAAATAACTAA
51636469 A
1 A
51636470 TCAAAGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAATAACTAA
Found at i:51640086 original size:11 final size:11
Alignment explanation
Indices: 51640070--51640130 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
51640060 ATAATCAAAT
51640070 GAAAGAAAAAA
1 GAAAGAAAAAA
* *
51640081 GAAAGAGAATA
1 GAAAGAAAAAA
* **
51640092 GAAACAAAACT
1 GAAAGAAAAAA
*
51640103 GAAGGAAAAAA
1 GAAAGAAAAAA
*
51640114 AAAAGAAAGAAA
1 GAAAGAAA-AAA
51640126 GAAAG
1 GAAAG
51640131 GAAGGAGAAA
Statistics
Matches: 36, Mismatches: 13, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
11 29 0.81
12 7 0.19
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.03
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:51644307 original size:62 final size:59
Alignment explanation
Indices: 51644199--51644387 Score: 167
Period size: 62 Copynumber: 3.2 Consensus size: 59
51644189 ATCACTTTAA
* *
51644199 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * * *
51644258 TATTAAATTAATAGAATATTTATCTACAAGATGAATATTAAATTTAATTTAATATTAAGATAAT
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAATTAAATTTAATATTAA-AT-CT
* * * * *
51644322 TACTTTAA-TATTA-AAT--TAAT-AAAAT-AATATTAAATTAAATTTAAAATTAAATC-
1 TA-TTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
*
51644375 TATTAAAATAATA
1 TATTAAATTAATA
51644388 TTATATTTGG
Statistics
Matches: 108, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
52 4 0.04
53 6 0.06
55 2 0.02
56 23 0.21
57 4 0.04
59 21 0.19
61 3 0.03
62 29 0.27
63 5 0.05
64 7 0.06
65 4 0.04
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:51644387 original size:56 final size:62
Alignment explanation
Indices: 51644199--51644395 Score: 186
Period size: 56 Copynumber: 3.4 Consensus size: 62
51644189 ATCACTTTAA
* * *
51644199 TATTAAATTAATA-TAATA-CT-TAT-CAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATATTAATATTTATATACAAGATGAATATTAAATTAAATTTAATATTAAATC
* * *
51644257 TTATTAAATTAATA-GAATATTTATCTACAAGATGAATATTAAATTTAATTTAATATTAAGAT-
1 -TATTAAATTAATATTAATATTTATATACAAGATGAATATTAAATTAAATTTAATATTAA-ATC
* ** *
51644319 AATTACTTTAATATTAA-A-TTA-ATA-AA-AT-AATATTAAATTAAATTTAAAATTAAATC
1 TATTAAATTAATATTAATATTTATATACAAGATGAATATTAAATTAAATTTAATATTAAATC
*
51644375 TATTAAAATAATATT-ATATTT
1 TATTAAATTAATATTAATATTT
51644396 GGAATAATTT
Statistics
Matches: 113, Mismatches: 17, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
55 3 0.03
56 35 0.31
57 4 0.04
58 2 0.02
59 19 0.17
60 4 0.04
61 13 0.12
62 31 0.27
63 2 0.02
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (62 bp):
TATTAAATTAATATTAATATTTATATACAAGATGAATATTAAATTAAATTTAATATTAAATC
Found at i:51644797 original size:19 final size:19
Alignment explanation
Indices: 51644773--51644812 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
51644763 AAAATATCAT
51644773 ATTAATTTTAATTAATTTG
1 ATTAATTTTAATTAATTTG
* *
51644792 ATTAATTTTATTTTATTTG
1 ATTAATTTTAATTAATTTG
51644811 AT
1 AT
51644813 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTAATTTTAATTAATTTG
Found at i:51646623 original size:9 final size:9
Alignment explanation
Indices: 51646606--51646642 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
51646596 TGAGTTTTCG
51646606 AATTCGAAT
1 AATTCGAAT
*
51646615 AACTCGAAT
1 AATTCGAAT
51646624 AATTCGAAT
1 AATTCGAAT
51646633 AATTCGAAT
1 AATTCGAAT
51646642 A
1 A
51646643 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:51651934 original size:72 final size:72
Alignment explanation
Indices: 51651712--51653455 Score: 1078
Period size: 72 Copynumber: 23.7 Consensus size: 72
51651702 GTGATCTGAA
* *
51651712 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAA-ACAGAAATTGAAAATACCTC
* *
51651777 AGCATGTGAAC-CGAG
60 AGC--GTG-TCTTGAG
* * *
51651792 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACGGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAAATACCTCA
*
51651857 ACGTGTCTTGAG
61 GCGTGTCTTGAG
** * *
51651869 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
**
51651934 TCCCGAG
66 TCTTGAG
* *
51651941 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
51652006 ATGTCTTGAG
63 GTGTCTTGAG
** *
51652016 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
*
51652081 TCCTGAG
66 TCTTGAG
** * * * *
51652088 GCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAA-AACAGAAATTGAAAATACCTCAGC
51652153 GTGTCTTGAG
63 GTGTCTTGAG
* * * *
51652163 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATTGAAAATACCTCAGC
51652228 GTGTCTTGAG
63 GTGTCTTGAG
** * *
51652238 GCTCAACTCATTTCTTGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
**
51652303 TCCCGAG
66 TCTTGAG
* * * *
51652310 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCTCAGCG
51652375 TGTCTTGAG
64 TGTCTTGAG
* * *
51652384 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT-----C-----TTAAAAATACCTTAGCGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
*
51652438 TCCTGAG
66 TCTTGAG
* ** * * *
51652445 GCTCAGCTCACCTCTCGCAATATGAGTTGAA-CAT--ATAGA-AAATTGACAATACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
**
51652506 TCCCGAG
66 TCTTGAG
*
51652513 GCTCAACTCACCTCTCGCAATATGAGCTG-ATTTTGAAATTCAAAGACAGAAATTGAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG------AAA-ACAGAAATTGAAAATACCT
* *
51652577 CAGCATGTGAAC-CGAG
59 CAGC--GTG-TCTTGAG
* * *
51652593 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACGGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAAATACCTCA
*
51652658 ACGTGTCTTGAG
61 GCGTGTCTTGAG
** * *
51652670 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
*
51652735 TCCAAATTAAAAG
66 T-C---TT--GAG
* * * * * ** *
51652748 GTTCAACCCACCTCTCGCAATATGAGTTG-ATTCTTGAACAA-TGTGAATTGAAAACAAAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATT-TTGAA-AACAG-AAATTG--AA-AATACCTC
*** ** * *
51652811 AAAATACCTCAGCG
60 AGCGTGTCT-TGAG
* * * * *
51652825 TGAC-CTAAGGCTCAACTCAC-C--TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AA
1 -G-CTC-AA--CTCACCTCTCGCAATAT-G-AGT-TGA----ATTTTG-AAAA-CAGAAATTGAA
* * *
51652885 AAGGTTCAACC-CA-C--CTCTCGCAA
52 AA---T--ACCTCAGCGTGTCTTG-AG
** * ** * * * * *
51652908 TATGAGTTGA-TTCTTG-AACA--ACG-T-AA-ATTGAAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGA-GTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
* *
51652966 GACCTGAG
65 GTCTTGAG
* *
51652974 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAA-ACAGAAATTGAAAATACCTC
* *
51653039 AGCATGTGAAC-CGAG
60 AGC--GTG-TCTTGAG
* * *
51653054 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACGGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAAATACCTCA
*
51653119 ACGTGTCTTGAG
61 GCGTGTCTTGAG
** * *
51653131 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
**
51653196 TCCCGAG
66 TCTTGAG
* * *
51653203 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT-----C-----TTAAAAATACCTTAGCGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
*
51653257 TCCTGAG
66 TCTTGAG
* ** * * *
51653264 GCTCAGCTCACCTCTCGCAATATGAGTTGAA-CAT--ATAGA-AAATTGACAATACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
**
51653325 TCCCGAG
66 TCTTGAG
* * *
51653332 GCTCAACTCACCTCTCGCAATATGAGTTGAA-ATTAAAACACAAAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA-ACAGAAATTGAAAATACCTCAGCGT
** **
51653396 ACCCCGAG
65 GTCTTGAG
* *
51653404 GCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
51653456 GGCTTAACTC
Statistics
Matches: 1341, Mismatches: 208, Indels: 239
0.75 0.12 0.13
Matches are distributed among these distances:
61 100 0.07
62 2 0.00
63 3 0.00
64 2 0.00
65 2 0.00
66 7 0.01
67 14 0.01
68 112 0.08
69 4 0.00
70 4 0.00
71 17 0.01
72 336 0.25
73 20 0.01
74 82 0.06
75 181 0.13
76 7 0.01
77 113 0.08
78 80 0.06
79 75 0.06
80 130 0.10
81 16 0.01
82 8 0.01
83 4 0.00
85 5 0.00
86 15 0.01
87 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
TCTTGAG
Found at i:51652028 original size:147 final size:144
Alignment explanation
Indices: 51651712--51653455 Score: 1320
Period size: 147 Copynumber: 11.9 Consensus size: 144
51651702 GTGATCTGAA
* *
51651712 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAA-ACAGAAATTGAAAATACCTC
* * *
51651777 AGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACGGA
60 AGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAACAGA
* *
51651841 AATTGAAAATACCTCAACGTGTCTTGAG
117 AATTGAAAATACCTCAGCGTGTCTCGAG
** * *
51651869 GCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
* *
51651934 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATA
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAAATA
* *
51651999 CCTCAGCATGTCTTGAG
128 CCTCAGCGTGTCTCGAG
** *
51652016 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
** * * *
51652081 TCCTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTA
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTGAAAATA
*
51652146 CCTCAGCGTGTCTTGAG
128 CCTCAGCGTGTCTCGAG
* * * *
51652163 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAAGACAAAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATTGAAAATACCTCAGC
* ** * * *
51652228 GTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTA
63 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATA
*
51652293 CCTCAGCGTGTCCCGAG
128 CCTCAGCGTGTCTCGAG
* * * *
51652310 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCTCAGCG
* *
51652375 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT-----C-----TTAAAAATAC
64 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATAC
* *
51652429 CTTAGCGCGTC-CTGAG
129 CTCAGCGTGTCTC-GAG
* ** * * *
51652445 GCTCAGCTCACCTCTCGCAATATGAGTTGAA-CAT--ATAGA-AAATTGACAATACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
* * *
51652506 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAATTCAAAGACAGAAATTGAAA
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT----TTGAAA-ACAGAAATTGAAA
*
51652571 ATACCTCAGCATGTGAAC-CGAG
125 ATACCTCAGC--GTG-TCTCGAG
* * *
51652593 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACGGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAAATACCTCA
* * ** * * *
51652658 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAAT
61 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAA
**
51652723 TACCTCAGCGTGTCCAAATTAAAAG
126 TACCTCAGCGTGT-C----T-CGAG
* * *
51652748 GTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAATGTGAATTGAAAACAAAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGA---G----TTG---AAT-T---TTGAAAACAGAAATTGAA
* * * *
51652813 AATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGTA
52 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-CA
* *
51652877 GAAATT-AAAAGGTTCAACC-CA-C--CTCTCGCAA
115 GAAATTGAAAA---T--ACCTCAGCGTGTCTCG-AG
** * ** * * * * *
51652908 TATGAGTTGA-TTCTTG-AACA--ACG-T-AA-ATTGAAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGA-GTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGT
* *
51652966 GACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCAAAGACAGAAATTGAA
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAA-ACAGAAATTGAA
*
51653031 AATACCTCAGCATGTGAAC-CGAG
124 AATACCTCAGC--GTG-TCTCGAG
* * *
51653054 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTGAAAACGGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAAATACCTCA
* * ** * * *
51653119 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAAT
61 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAA
*
51653184 TACCTCAGCGTGTCCCGAG
126 TACCTCAGCGTGTCTCGAG
* * *
51653203 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT-----C-----TTAAAAATACCTTAGCGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
* *** * * *
51653257 TCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-ACAT--ATAGA-AAATTGACAATACCT
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCT
*
51653318 CAGCGTGTCCCGAG
131 CAGCGTGTCTCGAG
* * *
51653332 GCTCAACTCACCTCTCGCAATATGAGTTGAA-ATTAAAACACAAAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA-ACAGAAATTGAAAATACCTCAGCGT
** * * *
51653396 ACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT-AAAA
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAA
51653456 GGCTTAACTC
Statistics
Matches: 1298, Mismatches: 180, Indels: 232
0.76 0.11 0.14
Matches are distributed among these distances:
129 112 0.09
130 6 0.00
131 2 0.00
132 2 0.00
133 47 0.04
134 1 0.00
135 51 0.04
138 1 0.00
140 116 0.09
141 4 0.00
142 2 0.00
143 12 0.01
144 5 0.00
145 16 0.01
146 96 0.07
147 268 0.21
148 47 0.04
149 86 0.07
150 61 0.05
151 67 0.05
152 19 0.01
154 2 0.00
155 24 0.02
156 5 0.00
157 140 0.11
158 4 0.00
159 4 0.00
160 6 0.00
161 1 0.00
162 3 0.00
163 5 0.00
164 67 0.05
165 9 0.01
167 2 0.00
168 2 0.00
169 3 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (144 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCT
CAGCGTGTCTCGAG
Found at i:51652487 original size:61 final size:62
Alignment explanation
Indices: 51652360--51652538 Score: 191
Period size: 61 Copynumber: 2.8 Consensus size: 62
51652350 AACAGAAATT
* * *** *
51652360 GAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTA
1 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATCATA
* * *
51652422 -AAAATACCTTAGCGCGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGAACAT-ATA
1 GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATCATA
*
51652482 GAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 G---A---A-AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
51652539 CTGATTTTGA
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
60 2 0.02
61 49 0.51
64 1 0.01
67 1 0.01
68 43 0.45
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (62 bp):
GAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATCATA
Found at i:51652865 original size:86 final size:87
Alignment explanation
Indices: 51652703--51652870 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 87
51652693 AAGTTGAATT
* * * *
51652703 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCAAATTAAAAGGTTCAACCCACCTCTCGCAA
1 TTGAAAACAAAAATTGAAAATACCTCAGCGTGACC--A-T-AAAGGCTCAACCCACCTCTCGCAA
*
51652768 TATGAGTTGATTCTTGAACAATGTGAA
62 TATGAGCTGATT-TTGAACAATGTGAA
*
51652795 TTGAAAACAAAAATTGAAAATACCTCAGCGTGACC-T-AAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAAAAATTGAAAATACCTCAGCGTGACCATAAAGGCTCAACCCACCTCTCGCAATATG
51652858 AGCTGATTTTGAA
66 AGCTGATTTTGAA
51652871 AAAGTAGAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
85 5 0.07
86 32 0.46
88 1 0.01
92 32 0.46
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (87 bp):
TTGAAAACAAAAATTGAAAATACCTCAGCGTGACCATAAAGGCTCAACCCACCTCTCGCAATATG
AGCTGATTTTGAACAATGTGAA
Found at i:51652936 original size:54 final size:54
Alignment explanation
Indices: 51652831--51652941 Score: 145
Period size: 54 Copynumber: 2.0 Consensus size: 54
51652821 AGCGTGACCT
*
51652831 AAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AA
1 AAGGCTCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAA
* * *
51652885 AAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAA
1 AAGGCTCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAA
51652940 AA
1 AA
51652942 CAGAAATTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
54 37 0.74
55 9 0.18
56 4 0.08
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (54 bp):
AAGGCTCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAA
Found at i:51652990 original size:140 final size:140
Alignment explanation
Indices: 51652738--51653007 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
51652728 CAGCGTGTCC
* *
51652738 AAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAATGTGAATTGAAAAC
1 AAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAAC
51652803 AAAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
66 AAAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
51652868 GAAAAAGTAG
131 GAAAAAGTAG
51652878 AAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAAC
1 AAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAAC
* * *
51652943 AGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
66 AAAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
51653008 TTTTTTCAAA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (140 bp):
AAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGTAAATTGAAAAC
AAAAATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
GAAAAAGTAG
Found at i:51653306 original size:61 final size:62
Alignment explanation
Indices: 51653179--51653433 Score: 210
Period size: 61 Copynumber: 3.9 Consensus size: 62
51653169 AACAGAAATT
* *** *
51653179 GAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTA
1 GAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATCATA
* * * *
51653241 -AAAATACCTTAGCGCGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGAACAT-ATA
1 GAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATCATA
51653301 GAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-AT
1 G---A---A-AATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACA-
*
51653365 TAAAACACAAAAATT
58 T------C----ATA
** *
51653380 GAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
1 GAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
51653434 TTTTGAAAAA
Statistics
Matches: 156, Mismatches: 17, Indels: 30
0.77 0.08 0.15
Matches are distributed among these distances:
60 2 0.01
61 49 0.31
64 1 0.01
67 2 0.01
68 49 0.31
72 48 0.31
73 1 0.01
76 1 0.01
79 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (62 bp):
GAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAACATCATA
Found at i:51653405 original size:201 final size:193
Alignment explanation
Indices: 51653102--51653638 Score: 576
Period size: 201 Copynumber: 2.7 Consensus size: 193
51653092 TTGAAAACGG
* ** * *
51653102 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAA-TTTG
* * *
51653167 AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
65 AAAACAAAAATTGAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* ** ** * *
51653232 ATTTTCTTAAAAATACCTTAGCGCGTCCTGAGGCTCAGCTCACCTCTCGCAATATGAGTTGAACA
130 ATTTTCTTAAAAAAAAATTA--------AAAGGCTCAACTCACCTCTCGCAATATGAG-TCAACA
* *
51653297 T-ATAGA-
186 TAAAACAT
* * * *
51653303 AAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTGA
* *
51653368 AACACAAAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
66 AA-ACAAAAATTGAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
** * **
51653433 ATTTT-GAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACAT
130 ATTTTCTTAAAA-AAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTCAACATAAAACAT
* * * * *
51653497 AAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATAAGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTGA
* * * ** *
51653562 AAACAAAAATTAAAAATACCTCAACGTTTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGA
66 AAACAAAAATTGAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
51653627 TTTCCTTGAAAA
131 TTTTCTTAAAAA
51653639 GCATGAATTA
Statistics
Matches: 282, Mismatches: 49, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
192 4 0.01
193 88 0.31
194 61 0.22
200 9 0.03
201 120 0.43
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (193 bp):
AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAATTTGA
AAACAAAAATTGAAAATACCTCAGCGTATCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTCTTAAAAAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTCAACATAAAACAT
Found at i:51653553 original size:122 final size:124
Alignment explanation
Indices: 51653330--51653576 Score: 374
Period size: 122 Copynumber: 2.0 Consensus size: 124
51653320 GCGTGTCCCG
* *
51653330 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
*
51653395 TACCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TACCCCGAGGCTCAACTCACCTCTAGCAATAAGAGTTGATTTTG-AAAACAAAAATTAAA
* * * *
51653455 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* * *
51653517 TGCCCCGAGGCTCAACTCACTTCTCGCAATAAGAGTTGATTTTGAAAACAAAAATTAAA
66 TACCCCGAGGCTCAACTCACCTCTAGCAATAAGAGTTGATTTTGAAAACAAAAATTAAA
51653576 A
1 A
51653577 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
121 16 0.14
122 61 0.54
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (124 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TACCCCGAGGCTCAACTCACCTCTAGCAATAAGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:51653598 original size:71 final size:70
Alignment explanation
Indices: 51653455--51653629 Score: 210
Period size: 71 Copynumber: 2.5 Consensus size: 70
51653445 AAAAATTAAA
* * * * * *
51653455 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
51653519 CCCCG
66 CCCCG
* *
51653524 AGGCTCAACTCACTTCTCGCAATAAGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
** **
51653589 TTCTTG
65 GCCCCG
51653595 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
51653630 CCTTGAAAAG
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 25 0.28
70 6 0.07
71 59 0.66
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:51654600 original size:34 final size:34
Alignment explanation
Indices: 51654562--51654630 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
51654552 GATTCGAAAA
*
51654562 CTCTTTCTCATCCATCTCGGTAAGGATCAAAGCT
1 CTCTTTCCCATCCATCTCGGTAAGGATCAAAGCT
51654596 CTCTTTCCCATCCATCTCGGTAAGGATCAAAGCT
1 CTCTTTCCCATCCATCTCGGTAAGGATCAAAGCT
51654630 C
1 C
51654631 CTCCTTAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.30
Consensus pattern (34 bp):
CTCTTTCCCATCCATCTCGGTAAGGATCAAAGCT
Found at i:51667682 original size:22 final size:22
Alignment explanation
Indices: 51667657--51667699 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
51667647 ATAATTCTTG
51667657 AGTAAACTTTAAAAAAAATTTA
1 AGTAAACTTTAAAAAAAATTTA
51667679 AGTAAACTTTAAAAAAAATTT
1 AGTAAACTTTAAAAAAAATTT
51667700 TAACTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (22 bp):
AGTAAACTTTAAAAAAAATTTA
Found at i:51668153 original size:16 final size:17
Alignment explanation
Indices: 51668098--51668154 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 17
51668088 TAAGAGAAAA
51668098 AGAAGAAGAAGAATAAGAGG
1 AGAAG-AGAAGAA-AA-AGG
*
51668118 AGGAGGAGAAGAAAAAGG
1 A-GAAGAGAAGAAAAAGG
*
51668136 AGAAGAGAA-AAAATGG
1 AGAAGAGAAGAAAAAGG
51668152 AGA
1 AGA
51668155 TGCCTGGAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.27
17 7 0.21
18 4 0.12
19 2 0.06
20 8 0.24
21 3 0.09
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.04
Consensus pattern (17 bp):
AGAAGAGAAGAAAAAGG
Found at i:51670081 original size:77 final size:77
Alignment explanation
Indices: 51669987--51670155 Score: 259
Period size: 77 Copynumber: 2.2 Consensus size: 77
51669977 ACACACTTAA
*
51669987 AAAAAATCACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAA-TCA
1 AAAAAAT-ACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCAGCCCCACCAACAACT-A
* *
51670051 TACACAAATAGATT
64 TACACAAACAAATT
* *
51670065 AGAAAATACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCAGCCCTACCAACAACTATA
1 AAAAAATACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCAGCCCCACCAACAACTATA
51670130 CACAAACAAATT
66 CACAAACAAATT
*
51670142 AAAAAACACTGCAT
1 AAAAAATACTGCAT
51670156 ATGTAACACC
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
77 76 0.92
78 7 0.08
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (77 bp):
AAAAAATACTGCATGCATATTAAAAAATAGTCAACAGCATGTGACCAGCCCCACCAACAACTATA
CACAAACAAATT
Found at i:51671111 original size:27 final size:26
Alignment explanation
Indices: 51671063--51671140 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
51671053 GCGAGGCTGC
* *
51671063 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
51671089 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
51671116 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
51671141 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:51675141 original size:48 final size:48
Alignment explanation
Indices: 51675083--51675215 Score: 257
Period size: 48 Copynumber: 2.8 Consensus size: 48
51675073 TAGGATACAA
51675083 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGTCATTCAT
1 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGTCATTCAT
51675131 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGTCATTCAT
1 ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGTCATTCAT
*
51675179 ACAATGGTAGATACAAACAATAAACATCAGTTTGATA
1 ACAATGGCAGATACAAACAATAAACATCAGTTTGATA
51675216 CAATTAGTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (48 bp):
ACAATGGCAGATACAAACAATAAACATCAGTTTGATAATGTCATTCAT
Found at i:51675255 original size:24 final size:24
Alignment explanation
Indices: 51675223--51675269 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
51675213 ATACAATTAG
*
51675223 TTTGATACAAATAATAAACATCAA
1 TTTGATACAAACAATAAACATCAA
51675247 TTTGATACAAACAATAAACATCA
1 TTTGATACAAACAATAAACATCA
51675270 TGCACATGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.28
Consensus pattern (24 bp):
TTTGATACAAACAATAAACATCAA
Found at i:51675384 original size:17 final size:17
Alignment explanation
Indices: 51675364--51675417 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
51675354 ACCAAAATTG
51675364 AAATAACCCTAAATCCA
1 AAATAACCCTAAATCCA
** *
51675381 AAATCAA-AAT-AAGCCA
1 AAAT-AACCCTAAATCCA
51675397 AAATAACCCTAAATCCA
1 AAATAACCCTAAATCCA
51675414 AAAT
1 AAAT
51675418 CAAAATCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
17 14 0.50
18 2 0.07
ACGTcount: A:0.57, C:0.24, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATAACCCTAAATCCA
Found at i:51675400 original size:23 final size:23
Alignment explanation
Indices: 51675355--51675445 Score: 57
Period size: 23 Copynumber: 4.0 Consensus size: 23
51675345 ACAAATGAAA
** *
51675355 CCAAAATTGAAATAACCCTAAAT
1 CCAAAATCAAAATAACCCAAAAT
*
51675378 CCAAAATCAAAATAAGCCAAAAT
1 CCAAAATCAAAATAACCCAAAAT
*
51675401 AACCCTAAATCCAAAAT----CAAAAT
1 ---CCAAAAT-CAAAATAACCCAAAAT
*
51675424 -CAAAATCGAAATAACCCAAAAT
1 CCAAAATCAAAATAACCCAAAAT
51675446 AACCTTAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
18 5 0.09
19 5 0.09
22 6 0.11
23 25 0.47
26 6 0.11
27 6 0.11
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.16
Consensus pattern (23 bp):
CCAAAATCAAAATAACCCAAAAT
Found at i:51676788 original size:10 final size:10
Alignment explanation
Indices: 51676767--51676818 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
51676757 ATATTTTTAA
*
51676767 TTATAATTTT
1 TTATAATATT
*
51676777 TTATGATATT
1 TTATAATATT
51676787 TTATAATATT
1 TTATAATATT
*
51676797 TGA-AATATT
1 TTATAATATT
51676806 TT-TATATATT
1 TTATA-ATATT
51676816 TTA
1 TTA
51676819 ACTAGATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 8 0.24
10 26 0.76
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
TTATAATATT
Found at i:51686019 original size:26 final size:26
Alignment explanation
Indices: 51685990--51686410 Score: 707
Period size: 26 Copynumber: 16.2 Consensus size: 26
51685980 TGGTACAAAT
51685990 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686016 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686042 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686068 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686094 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686120 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686146 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686172 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686198 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686224 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686250 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686276 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686302 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51686328 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686354 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51686380 TGATAATGGGTTATGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51686406 TGATA
1 TGATA
51686411 GGCATTTCAT
Statistics
Matches: 366, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 366 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51686046 original size:52 final size:52
Alignment explanation
Indices: 51685990--51686410 Score: 815
Period size: 52 Copynumber: 8.1 Consensus size: 52
51685980 TGGTACAAAT
51685990 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686042 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686094 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686146 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686198 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686250 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686302 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
51686354 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTATGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
51686406 TGATA
1 TGATA
51686411 GGCATTTCAT
Statistics
Matches: 366, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 366 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:51693532 original size:26 final size:26
Alignment explanation
Indices: 51693503--51693611 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
51693493 TGGTACAAAT
51693503 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51693529 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51693555 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51693581 TCATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51693607 TGATA
1 TGATA
51693612 GGCATTTCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51693946 original size:57 final size:57
Alignment explanation
Indices: 51693853--51693968 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
51693843 ATTCTACCTT
* *
51693853 AACTCTTGAAGCATATTTTGGTTTTTGGTTGTGTTGTGAGCATTTGGTCATGAATTA
1 AACTATTGAAGCATATTTTGGTTTTTAGTTGTGTTGTGAGCATTTGGTCATGAATTA
51693910 AACTATTGAAGCATATTTTGGTTTTTAGTTGTGTTGTGAGCATTTGGTCATGAATTA
1 AACTATTGAAGCATATTTTGGTTTTTAGTTGTGTTGTGAGCATTTGGTCATGAATTA
51693967 AA
1 AA
51693969 ATGAAGGAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (57 bp):
AACTATTGAAGCATATTTTGGTTTTTAGTTGTGTTGTGAGCATTTGGTCATGAATTA
Found at i:51695819 original size:60 final size:60
Alignment explanation
Indices: 51695726--51695846 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
51695716 TGGGCTTGGA
*
51695726 GCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTGGAGAACT
1 GCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTAGAGAACT
*
51695786 GCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTAGTGAACT
1 GCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTAGAGAACT
51695846 G
1 G
51695847 GACATCCTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (60 bp):
GCTGTGAGGGAATTCGGAGTGGCCACCCGTTCTGAAAGTTTGATTTTCTTCTAGAGAACT
Found at i:51707829 original size:18 final size:19
Alignment explanation
Indices: 51707797--51707841 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
51707787 AAAATTTTAA
*
51707797 TAAAAAATATTTAAAACTT
1 TAAAAAATATGTAAAACTT
*
51707816 TAAAAAAT-TGTAAAATTT
1 TAAAAAATATGTAAAACTT
*
51707834 TATAAAAT
1 TAAAAAAT
51707842 CATAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAAAATATGTAAAACTT
Found at i:51708156 original size:9 final size:9
Alignment explanation
Indices: 51708144--51708239 Score: 74
Period size: 9 Copynumber: 10.4 Consensus size: 9
51708134 GTTCTATATA
51708144 TTTTATAAT
1 TTTTATAAT
51708153 TTTTATAAAAT
1 TTTTAT--AAT
51708164 TTTTATAAT
1 TTTTATAAT
51708173 TTTTA-AATT
1 TTTTATAA-T
51708182 TTTTATTAAT
1 TTTTA-TAAT
**
51708192 ATTCAATAA-
1 -TTTTATAAT
* *
51708201 TTTTGTAAC
1 TTTTATAAT
51708210 TTTTATTAAT
1 TTTTA-TAAT
51708220 TTTTAT--T
1 TTTTATAAT
51708227 TTTTATAAT
1 TTTTATAAT
51708236 TTTT
1 TTTT
51708240 TGCCACATGT
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
7 7 0.10
8 7 0.10
9 30 0.43
10 12 0.17
11 14 0.20
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:51708563 original size:91 final size:91
Alignment explanation
Indices: 51708433--51708604 Score: 220
Period size: 91 Copynumber: 1.9 Consensus size: 91
51708423 TTATGGAATA
* * * *
51708433 TTTTGATGCATTTTGAAAGTTTAAGTACTCAATTGAGTGTAAAAAA-AAAAAGCCTTAATTATTT
1 TTTTGATGCATTTTAAAAGTTTAAATACTCAATTGAGTGTAAAAAAGAAAAAGACTTAATTACTT
51708497 TTTTAAAGAAAAATATGAGAATAATTT
66 TTTTAAA-AAAAATATGAGAATAATTT
* * * * * *
51708524 TTTTTATGTATTTTAAAAGTTTAAATATTTAATTTAGTGTAAAAAAGTAAAAAGACTTAATTGCT
1 TTTTGATGCATTTTAAAAGTTTAAATACTCAATTGAGTGTAAAAAAG-AAAAAGACTTAATTACT
*
51708589 TTTTTAAAAAACATAT
65 TTTTTAAAAAAAATAT
51708605 CCGTTACAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
91 39 0.57
92 7 0.10
93 22 0.32
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (91 bp):
TTTTGATGCATTTTAAAAGTTTAAATACTCAATTGAGTGTAAAAAAGAAAAAGACTTAATTACTT
TTTTAAAAAAAATATGAGAATAATTT
Found at i:51711401 original size:26 final size:27
Alignment explanation
Indices: 51711340--51711402 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
51711330 TATCTGAAGC
* *
51711340 TCCTGATTAATGGCTCTTTGTGAGCTT
1 TCCTGATTAAAGGCTCTTCGTGAGCTT
*
51711367 TCC-GTTTAAAGGCTCTTCGTGAGC-T
1 TCCTGATTAAAGGCTCTTCGTGAGCTT
51711392 TCCTGATTAAA
1 TCCTGATTAAA
51711403 ATTTCTATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 4 0.13
26 24 0.77
27 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (27 bp):
TCCTGATTAAAGGCTCTTCGTGAGCTT
Found at i:51715977 original size:93 final size:93
Alignment explanation
Indices: 51715867--51716038 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
51715857 CGCCCATAAG
* * *
51715867 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
51715932 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
51715960 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
51716025 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
51716039 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:51716035 original size:46 final size:46
Alignment explanation
Indices: 51715860--51716035 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
51715850 TGTAACCCGC
* * *
51715860 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
* *
51715906 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
51715956 --TTCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
51715999 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGA
51716036 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.57
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:51725531 original size:27 final size:26
Alignment explanation
Indices: 51725483--51725534 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51725473 GCGAGGCTGT
*
51725483 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
51725509 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
51725535 TTGCGGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:51742653 original size:24 final size:24
Alignment explanation
Indices: 51742625--51742673 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
51742615 TGCTACTAAG
51742625 ATAGGTAAAGCTTTTTACTCTTCA
1 ATAGGTAAAGCTTTTTACTCTTCA
51742649 ATAGGTAAAGCTTTTTACTCTTCA
1 ATAGGTAAAGCTTTTTACTCTTCA
51742673 A
1 A
51742674 CTTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (24 bp):
ATAGGTAAAGCTTTTTACTCTTCA
Found at i:51743931 original size:17 final size:17
Alignment explanation
Indices: 51743909--51743941 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51743899 TTAAAATCTG
51743909 ATTTAACTAA-TATTTAA
1 ATTTAA-TAATTATTTAA
51743926 ATTTAATAATTATTTA
1 ATTTAATAATTATTTA
51743942 TTAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTAATAATTATTTAA
Found at i:51750487 original size:18 final size:19
Alignment explanation
Indices: 51750460--51750509 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
51750450 TTTAAAATAG
51750460 TAAAATAATTTA-AAATTTT
1 TAAAA-AATTTATAAATTTT
*
51750479 TAAAAAA-TTATTAATTTT
1 TAAAAAATTTATAAATTTT
51750497 TAAAAATATTTAT
1 TAAAAA-ATTTAT
51750510 GAACTTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.11
18 14 0.52
19 6 0.22
20 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAAAAATTTATAAATTTT
Found at i:51756891 original size:27 final size:26
Alignment explanation
Indices: 51756847--51756900 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
51756837 GAGTCAACCA
**
51756847 TCAGAATTAATGCCTTGTTAT-TTTCC
1 TCAGAATTAATGAATTGTT-TGTTTCC
51756873 TCAGAAATTAATGAATTGTTTGTTTCC
1 TCAG-AATTAATGAATTGTTTGTTTCC
51756900 T
1 T
51756901 TGTAGTAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (26 bp):
TCAGAATTAATGAATTGTTTGTTTCC
Found at i:51760476 original size:21 final size:21
Alignment explanation
Indices: 51760451--51760505 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
51760441 GGATGATGAG
*
51760451 GATGAGGAAGATGAAGCA-GGA
1 GATGAGGAAGATGAAG-ATGCA
**
51760472 GATGATCAAGATGAAGATGCA
1 GATGAGGAAGATGAAGATGCA
*
51760493 GATGAGGAGGATG
1 GATGAGGAAGATG
51760506 CATCTGGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.40, T:0.15
Consensus pattern (21 bp):
GATGAGGAAGATGAAGATGCA
Found at i:51760591 original size:15 final size:15
Alignment explanation
Indices: 51760571--51760599 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
51760561 TGCCAGTGGA
51760571 GACGAGGATGATGAG
1 GACGAGGATGATGAG
51760586 GACGAGGATGATGA
1 GACGAGGATGATGA
51760600 CGATGACGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.45, T:0.14
Consensus pattern (15 bp):
GACGAGGATGATGAG
Found at i:51760636 original size:9 final size:9
Alignment explanation
Indices: 51760625--51760671 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
51760615 TGATGGTGAG
*
51760625 GAAGAGGAG
1 GAAGAGGAA
*
51760634 GAAGAAGAA
1 GAAGAGGAA
51760643 GAAGAGGAA
1 GAAGAGGAA
* *
51760652 GATGAGGAT
1 GAAGAGGAA
51760661 GAAGAGGAA
1 GAAGAGGAA
51760670 GA
1 GA
51760672 GCTTCAGCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.45, T:0.04
Consensus pattern (9 bp):
GAAGAGGAA
Found at i:51760658 original size:24 final size:24
Alignment explanation
Indices: 51760622--51760672 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
51760612 CGATGATGGT
51760622 GAGGAAGAGGAGGAAGAAGAAGAA
1 GAGGAAGAGGAGGAAGAAGAAGAA
* * *
51760646 GAGGAAGATGAGGATGAAGAGGAA
1 GAGGAAGAGGAGGAAGAAGAAGAA
51760670 GAG
1 GAG
51760673 CTTCAGCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.47, T:0.04
Consensus pattern (24 bp):
GAGGAAGAGGAGGAAGAAGAAGAA
Found at i:51765615 original size:29 final size:29
Alignment explanation
Indices: 51765573--51765628 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
51765563 TCAATTGGTT
51765573 ATCCTGAATAACTATAGAGTTAAAACACA
1 ATCCTGAATAACTATAGAGTTAAAACACA
51765602 ATCCTGAATAACTATAGAGTTAAAACA
1 ATCCTGAATAACTATAGAGTTAAAACA
51765629 TTATTTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (29 bp):
ATCCTGAATAACTATAGAGTTAAAACACA
Found at i:51772683 original size:20 final size:20
Alignment explanation
Indices: 51772660--51772699 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51772650 AAGTATTTCA
*
51772660 ATTAAATTCATGTTATTAAC
1 ATTAAATTCATATTATTAAC
* *
51772680 ATTAATTTTATATTATTAAC
1 ATTAAATTCATATTATTAAC
51772700 TCAGTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTAAATTCATATTATTAAC
Found at i:51775549 original size:24 final size:24
Alignment explanation
Indices: 51775521--51775569 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
51775511 AAAACATCAC
51775521 TAATTTACTAAATACAAATTTAAT
1 TAATTTACTAAATACAAATTTAAT
51775545 TAATTTACTAAATACAAATTTAAT
1 TAATTTACTAAATACAAATTTAAT
51775569 T
1 T
51775570 TTTTGGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATTTACTAAATACAAATTTAAT
Found at i:51777033 original size:2 final size:2
Alignment explanation
Indices: 51777026--51777065 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
51777016 ACTCTTATAG
51777026 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
51777066 AGAGATCGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:51779868 original size:60 final size:60
Alignment explanation
Indices: 51779740--51779859 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
51779730 TTTTTTTTTT
51779740 AAAAGTTAATATTTTTGTTCGTCAAATTTATATTTTATATATGTGTATGTCATACGCAAA
1 AAAAGTTAATATTTTTGTTCGTCAAATTTATATTTTATATATGTGTATGTCATACGCAAA
51779800 AAAAGTTAATATTTTTGTTCGTCAAATTTATATTTTATATATGTGTATGTCATACGCAAA
1 AAAAGTTAATATTTTTGTTCGTCAAATTTATATTTTATATATGTGTATGTCATACGCAAA
51779860 GGAGGTTAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (60 bp):
AAAAGTTAATATTTTTGTTCGTCAAATTTATATTTTATATATGTGTATGTCATACGCAAA
Found at i:51790504 original size:13 final size:13
Alignment explanation
Indices: 51790486--51790510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51790476 TTAAATAGAC
51790486 AGGACTTTTTTAT
1 AGGACTTTTTTAT
51790499 AGGACTTTTTTA
1 AGGACTTTTTTA
51790511 AAGAAGTATA
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (13 bp):
AGGACTTTTTTAT
Found at i:51795224 original size:20 final size:20
Alignment explanation
Indices: 51795199--51795238 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
51795189 TGGCTTTTAC
51795199 TAGCCCCATCCCTTTTGTCA
1 TAGCCCCATCCCTTTTGTCA
*
51795219 TAGCCCCGTCCCTTTTGTCA
1 TAGCCCCATCCCTTTTGTCA
51795239 AAGTAGTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.40, G:0.12, T:0.35
Consensus pattern (20 bp):
TAGCCCCATCCCTTTTGTCA
Found at i:51801197 original size:13 final size:14
Alignment explanation
Indices: 51801181--51801216 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
51801171 CAATCTCATA
51801181 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
51801194 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
51801207 TCTC-ATTTCA
1 TCTCAATTTCA
51801217 TTCAATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:51801206 original size:18 final size:19
Alignment explanation
Indices: 51801168--51801208 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
51801158 TGGTTCATGT
51801168 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
51801187 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
51801205 TTTC
1 TTTC
51801209 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:51801871 original size:15 final size:15
Alignment explanation
Indices: 51801848--51801894 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
51801838 TAATATATAT
*
51801848 TTCAGTCAATATAAA
1 TTCAATCAATATAAA
* * *
51801863 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
51801878 TTCAATCAATATAAA
1 TTCAATCAATATAAA
51801893 TT
1 TT
51801895 TGATAAATTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:51803166 original size:9 final size:8
Alignment explanation
Indices: 51803154--51803190 Score: 56
Period size: 9 Copynumber: 4.4 Consensus size: 8
51803144 TTTCATTTCT
51803154 TTTATTTCA
1 TTTATTT-A
51803163 TTTATTTA
1 TTTATTTA
51803171 TTTCATTTA
1 TTT-ATTTA
51803180 TTTATTTA
1 TTTATTTA
51803188 TTT
1 TTT
51803191 TATTATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTATTTA
Found at i:51803171 original size:4 final size:4
Alignment explanation
Indices: 51803154--51803190 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
51803144 TTTCATTTCT
51803154 TTTA TTTCA TTTA TTTA TTTCA TTTA TTTA TTTA TTT
1 TTTA TTT-A TTTA TTTA TTT-A TTTA TTTA TTTA TTT
51803191 TATTATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 23 0.74
5 8 0.26
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:51803184 original size:17 final size:18
Alignment explanation
Indices: 51803157--51803190 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
51803147 CATTTCTTTT
51803157 ATTTCATTTATTTATTTC
1 ATTTCATTTATTTATTTC
51803175 ATTT-ATTTATTTATTT
1 ATTTCATTTATTTATTT
51803191 TATTATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTCATTTATTTATTTC
Found at i:51803194 original size:13 final size:13
Alignment explanation
Indices: 51803144--51803190 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
51803134 TGTTTTTCTT
*
51803144 TTTCATTTCTTTTA
1 TTTCATTT-ATTTA
51803158 TTTCATTTATTTA
1 TTTCATTTATTTA
51803171 TTTCATTTATTTA
1 TTTCATTTATTTA
51803184 TTT-ATTT
1 TTTCATTT
51803191 TATTATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 4 0.12
13 20 0.62
14 8 0.25
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCATTTATTTA
Found at i:51803197 original size:8 final size:9
Alignment explanation
Indices: 51803143--51803194 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
51803133 TTGTTTTTCT
*
51803143 TTTTCATTTC
1 TTTT-ATTTA
51803153 TTTTATTTCA
1 TTTTATTT-A
51803163 -TTTATTTA
1 TTTTATTTA
*
51803171 TTTCATTTA
1 TTTTATTTA
51803180 -TTTATTTA
1 TTTTATTTA
51803188 TTTTATT
1 TTTTATT
51803195 ATTAAACTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.22
9 24 0.67
10 4 0.11
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:51806343 original size:21 final size:21
Alignment explanation
Indices: 51806314--51806539 Score: 196
Period size: 21 Copynumber: 11.0 Consensus size: 21
51806304 ATACACCAAT
*
51806314 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* *
51806335 AGAAACTCGA-AA-A-CTGAAT
1 AGAAGCTC-ATAAGAGCTGAAC
* *
51806354 AGAAGCTCATAATAGCTAAAC
1 AGAAGCTCATAAGAGCTGAAC
* * *
51806375 AAAAACTCATAAGAGTTGAAC
1 AGAAGCTCATAAGAGCTGAAC
51806396 AGAAGCTCA-AA-AGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* * *
51806415 ATAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTGAAC
* *
51806436 AGAAACTCATAAGAGTTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* * * *
51806457 AAAAGCTC-GAA-AGCTAAAT
1 AGAAGCTCATAAGAGCTGAAC
* *
51806476 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCATAAGAGCTGAAC
* * *
51806497 AGAAACTCATAAGAGTTGAAT
1 AGAAGCTCATAAGAGCTGAAC
51806518 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
51806539 A
1 A
51806540 TAAAGTAAAA
Statistics
Matches: 158, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
18 1 0.01
19 40 0.25
20 10 0.06
21 107 0.68
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAC
Found at i:51806421 original size:61 final size:61
Alignment explanation
Indices: 51806314--51806539 Score: 292
Period size: 61 Copynumber: 3.7 Consensus size: 61
51806304 ATACACCAAT
* * * * * * *
51806314 AGAAGCTCGTAAGAGCTGAACAGAAACTCGAAAA-CTGAATAGAAGCTCATAATAGCTAAAC
1 AGAAACTCATAAGAGTTGAACAGAAGCTC-AAAAGCTGAACAGAAGCTCGTAAGAGCTAAAC
* *
51806375 AAAAACTCATAAGAGTTGAACAGAAGCTCAAAAGCTGAACATAAGCTCGTAAGAGCTAAAC
1 AGAAACTCATAAGAGTTGAACAGAAGCTCAAAAGCTGAACAGAAGCTCGTAAGAGCTAAAC
* * * *
51806436 AGAAACTCATAAGAGTTGAACAAAAGCTCGAAAGCTAAATAGAAGCTCGTAAGAGCTAAAC
1 AGAAACTCATAAGAGTTGAACAGAAGCTCAAAAGCTGAACAGAAGCTCGTAAGAGCTAAAC
*
51806497 AGAAACTCATAAGAGTTGAATAGAAGCTCATAAGAGCTGAACA
1 AGAAACTCATAAGAGTTGAACAGAAGCTCA-AA-AGCTGAACA
51806540 TAAAGTAAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
60 4 0.03
61 129 0.91
62 2 0.01
63 7 0.05
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (61 bp):
AGAAACTCATAAGAGTTGAACAGAAGCTCAAAAGCTGAACAGAAGCTCGTAAGAGCTAAAC
Found at i:51806493 original size:122 final size:124
Alignment explanation
Indices: 51806314--51806542 Score: 347
Period size: 122 Copynumber: 1.9 Consensus size: 124
51806304 ATACACCAAT
* * * *
51806314 AGAAGCTCGTAAGAGCTGAACAGAAACTCGAAAACTGAATAGAAGCTCATAATAGCTAAACAAAA
1 AGAAACTCATAAGAGCTGAACAGAAACTCGAAAACTAAATAGAAGCTCATAAGAGCTAAACAAAA
51806379 ACTCATAAGAGTTGAACAGAAGCTCA-AA-AGCTGAACATAAGCTCGTAAGAGCTAAAC
66 ACTCATAAGAGTTGAACAGAAGCTCATAAGAGCTGAACATAAGCTCGTAAGAGCTAAAC
* * * *
51806436 AGAAACTCATAAGAGTTGAACA-AAAGCTCGAAAGCTAAATAGAAGCTCGTAAGAGCTAAACAGA
1 AGAAACTCATAAGAGCTGAACAGAAA-CTCGAAAACTAAATAGAAGCTCATAAGAGCTAAACAAA
*
51806500 AACTCATAAGAGTTGAATAGAAGCTCATAAGAGCTGAACATAA
65 AACTCATAAGAGTTGAACAGAAGCTCATAAGAGCTGAACATAA
51806543 AGTAAAACAC
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
121 3 0.03
122 78 0.82
123 2 0.02
124 12 0.13
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (124 bp):
AGAAACTCATAAGAGCTGAACAGAAACTCGAAAACTAAATAGAAGCTCATAAGAGCTAAACAAAA
ACTCATAAGAGTTGAACAGAAGCTCATAAGAGCTGAACATAAGCTCGTAAGAGCTAAAC
Found at i:51808087 original size:20 final size:20
Alignment explanation
Indices: 51808064--51808118 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
51808054 GTGCTATTTT
* *
51808064 TATTATTGTTATTATATTAG
1 TATTATTATTATTATATTAC
*
51808084 TATTATTATTATTTTATTAC
1 TATTATTATTATTATATTAC
51808104 TATTATTATTATTAT
1 TATTATTATTATTAT
51808119 TTATTACATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTATTATTATTATATTAC
Found at i:51808138 original size:3 final size:3
Alignment explanation
Indices: 51808058--51808124 Score: 75
Period size: 3 Copynumber: 22.7 Consensus size: 3
51808048 GGGAGAGTGC
* * * *
51808058 TAT TTT TAT TAT TGT TAT TA- TAT TAG TAT TAT TAT TAT T-T TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
51808104 TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TA-T TAT TA
51808125 CATTTACTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:51810664 original size:93 final size:93
Alignment explanation
Indices: 51810552--51810724 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
51810542 CGCCCATAAG
*
51810552 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
51810616 AACGAGCTCGGATGCCTAGTTACATCTCT
65 AACGAGCTCAGATGCCTAGTTACATCTCT
*
51810645 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
51810710 ACGAGTTCAGATGCC
66 ACGAGCTCAGATGCC
51810725 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:51810717 original size:46 final size:45
Alignment explanation
Indices: 51810545--51810714 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 45
51810535 TGTAACCCGC
* *
51810545 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
51810591 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
51810637 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
51810684 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
51810715 TTCAGATGCC
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 61 0.59
47 32 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:51810739 original size:46 final size:44
Alignment explanation
Indices: 51810553--51810739 Score: 103
Period size: 46 Copynumber: 4.0 Consensus size: 44
51810543 GCCCATAAGC
* ** ** **
51810553 GAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATCC-T-AGT
* * * *
51810599 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCCA---A-ATC-CTAGT
* * *
51810646 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC--AGATGCCCAAATCC-T-AGT
51810692 GAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCC-AA-ATCCTAGT
51810738 GA
1 GA
51810740 CATGTCACTT
Statistics
Matches: 107, Mismatches: 19, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 5 0.05
46 59 0.55
47 26 0.24
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATCCTAGT
Found at i:51815142 original size:27 final size:27
Alignment explanation
Indices: 51815039--51815142 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
51815029 GAATTTTTTT
* * * *
51815039 TTAAATTTATGTAACATAATTAATATA
1 TTAAATTTATATAACAAAACTAATAAA
* *
51815066 TT-AATATTATA-AATAAAAC-AATTAA
1 TTAAAT-TTATATAACAAAACTAATAAA
* * * *
51815091 TTGAGTTGATATAACTAAA-TAAATAAA
1 TTAAATTTATATAACAAAACT-AATAAA
51815118 TTAAATTTATATAACAAAACTAATA
1 TTAAATTTATATAACAAAACTAATA
51815143 TACTATAAAT
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
25 10 0.18
26 15 0.27
27 30 0.54
28 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (27 bp):
TTAAATTTATATAACAAAACTAATAAA
Found at i:51820629 original size:16 final size:16
Alignment explanation
Indices: 51820608--51820641 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
51820598 TAACTGATAA
*
51820608 CAGTACTAAGCACATT
1 CAGTACTAAACACATT
51820624 CAGTACTAAACACATT
1 CAGTACTAAACACATT
51820640 CA
1 CA
51820642 TATCCAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (16 bp):
CAGTACTAAACACATT
Found at i:51825631 original size:21 final size:22
Alignment explanation
Indices: 51825590--51825633 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
51825580 TTTGAACTTC
*
51825590 TAATTTTCTTATCATGGATATT
1 TAATTTTCTTATCATGAATATT
51825612 TAATTTT-TTATCAAT-AATATT
1 TAATTTTCTTATC-ATGAATATT
51825633 T
1 T
51825634 GTTTTAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TAATTTTCTTATCATGAATATT
Found at i:51828043 original size:51 final size:53
Alignment explanation
Indices: 51827949--51828064 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 53
51827939 TAAACTGTAT
*
51827949 CAGTAATAGTAACAGTAACGGTACACAAAGTACCTCATCGGAACAAATCCGGAA
1 CAGTAACAGTAACAGTAACGGTA-ACAAAGTACCTCATCGGAACAAATCCGGAA
* * * *
51828003 CAGTAACAGTAACAGTCA-GGT-ACAGAGTACCTCTTCGGAACGAATCCGGAA
1 CAGTAACAGTAACAGTAACGGTAACAAAGTACCTCATCGGAACAAATCCGGAA
* *
51828054 CGGTCACAGTA
1 CAGTAACAGTA
51828065 GTCGACACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
51 36 0.65
53 3 0.05
54 16 0.29
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (53 bp):
CAGTAACAGTAACAGTAACGGTAACAAAGTACCTCATCGGAACAAATCCGGAA
Found at i:51828601 original size:15 final size:15
Alignment explanation
Indices: 51828577--51828612 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
51828567 CAATTTTTCC
*
51828577 CTTT-TTCCTTCTTT
1 CTTTCTTCCTTCCTT
51828591 CTTTCTTCCTTCCTT
1 CTTTCTTCCTTCCTT
51828606 CTTTCTT
1 CTTTCTT
51828613 TCCCCTGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTCTTCCTTCCTT
Found at i:51831554 original size:52 final size:49
Alignment explanation
Indices: 51831371--51831563 Score: 200
Period size: 47 Copynumber: 4.0 Consensus size: 49
51831361 TGCACATAGT
* ** * *
51831371 CACATATCACA-TACCGAGGCCATAGCCCAGCCATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
51831419 CACATATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
51831466 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
51831513 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
51831564 ATCACATTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
46 25 0.20
47 54 0.44
48 11 0.09
49 1 0.01
52 31 0.25
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:51834389 original size:12 final size:12
Alignment explanation
Indices: 51834358--51834396 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51834348 TCAAATCTAA
51834358 CATTATTTTCTT
1 CATTATTTTCTT
**
51834370 CACAATTTTCTT
1 CATTATTTTCTT
51834382 CATTATTTTCATT
1 CATTATTTTC-TT
51834395 CA
1 CA
51834397 ATTACAACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (12 bp):
CATTATTTTCTT
Found at i:51835942 original size:23 final size:23
Alignment explanation
Indices: 51835916--51835968 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
51835906 ATAAGTGCAA
*
51835916 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
51835939 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
51835962 CACTGAT
1 CACTGAT
51835969 CAATAACACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:51837354 original size:17 final size:14
Alignment explanation
Indices: 51837316--51837342 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51837306 AGTTTCTCCC
51837316 TTTCTTTTTCTTTA
1 TTTCTTTTTCTTTA
51837330 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
51837343 CCTATTTCTT
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:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTTTTTCTTTA
Found at i:51837392 original size:9 final size:9
Alignment explanation
Indices: 51837364--51837402 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
51837354 TGCTTATCTG
*
51837364 TTTCTTTTC
1 TTTCTTTTA
*
51837373 TATTGTTTTA
1 T-TTCTTTTA
51837383 TTTCTTTTA
1 TTTCTTTTA
51837392 TTTCTTTTA
1 TTTCTTTTA
51837401 TT
1 TT
51837403 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:51848368 original size:61 final size:61
Alignment explanation
Indices: 51848303--51848432 Score: 181
Period size: 61 Copynumber: 2.1 Consensus size: 61
51848293 ATACTAAACT
* * *
51848303 AAACACAACAATTTATAATATAAT-CTTAAATTATTAATAAATTAATTTTAGAATAATTACA
1 AAACACAACAATTTATAACATAATAC-TAAATTATTAACAAATTAATTTTAAAATAATTACA
* * *
51848364 AAACAAAACAATTTATAACATAATACTAAATTATTGACAAATTAATTTTAAAATAATTATA
1 AAACACAACAATTTATAACATAATACTAAATTATTAACAAATTAATTTTAAAATAATTACA
*
51848425 AAAAACAA
1 AAACACAA
51848433 AAAAATTTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 59 0.98
62 1 0.02
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.34
Consensus pattern (61 bp):
AAACACAACAATTTATAACATAATACTAAATTATTAACAAATTAATTTTAAAATAATTACA
Found at i:51859551 original size:21 final size:21
Alignment explanation
Indices: 51859519--51859559 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51859509 GAACATTTGG
51859519 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
51859540 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
51859560 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Done.