Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 176 of 199
Found at i:51300254 original size:86 final size:86
Alignment explanation
Indices: 51300145--51300341 Score: 229
Period size: 86 Copynumber: 2.3 Consensus size: 86
51300135 CTTTAGTTGC
* * * *
51300145 GCTTTTACCTA-AAACGCCACTAAAGAACATGATCTTTAGCGACGCTTTT-TCCACAAACGCCGC
1 GCTTTT-CCTACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTAT-CAAAAACACCGC
*
51300208 TAAAAAACATGATCTTTATCAAG-
64 TAAAAAACATGATATTTA-CAAGT
* * * *
51300231 GCTTTTCCTACAAATGCTGCTAAAGAACATGACCTTTAGTGACGCTTTTATTAAAAACACCGCTA
1 GCTTTTCCTACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAAAAACACCGCTA
* * * *
51300296 AAGATCATGTTATTTACCAGT
66 AAAAACATGATATTTACAAGT
51300317 GCTTTTCCTACAAACGCCGCTAAAG
1 GCTTTTCCTACAAACGCCGCTAAAG
51300342 GTCATGTTCT
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
85 7 0.08
86 85 0.91
87 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (86 bp):
GCTTTTCCTACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAAAAACACCGCTA
AAAAACATGATATTTACAAGT
Found at i:51308745 original size:26 final size:26
Alignment explanation
Indices: 51308716--51308779 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
51308706 TACCTACAGT
* *
51308716 AGTTTTAGAATATCATAACATATATC
1 AGTTTCAGAACATCATAACATATATC
* * *
51308742 AGTTTCAGAACATCATAGCATGTATT
1 AGTTTCAGAACATCATAACATATATC
51308768 AGTTTCAGAACA
1 AGTTTCAGAACA
51308780 CTTACAGGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (26 bp):
AGTTTCAGAACATCATAACATATATC
Found at i:51334728 original size:15 final size:15
Alignment explanation
Indices: 51334708--51334738 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51334698 AAAACAACAT
*
51334708 AACTCTTGACCTTTC
1 AACTCTTGACCATTC
51334723 AACTCTTGACCATTC
1 AACTCTTGACCATTC
51334738 A
1 A
51334739 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTTGACCATTC
Found at i:51341567 original size:4 final size:4
Alignment explanation
Indices: 51341551--51341581 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
51341541 TAAAAATTTA
*
51341551 AAAT AAGT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
51341582 AATAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:51346119 original size:91 final size:91
Alignment explanation
Indices: 51345964--51346139 Score: 289
Period size: 91 Copynumber: 1.9 Consensus size: 91
51345954 TCAAAGACTT
* *
51345964 TTGGGTCTGCAAACTAAGCTAATTACGCCCAACGTCTGAATTGCACCTCAAATCCCTGAACCATA
1 TTGGGTCTGCAAACAAAGCTAATTACGCCCAACATCTGAATTGCACCTCAAATCCCTGAACCATA
*
51346029 ATCTGAACATGGCCTACTTCTTCAAA
66 ATCTGAACATGGCCAACTTCTTCAAA
* * * *
51346055 TTGGGTCTGCAAACAAAGTTCATTAGGCCCAACATCTGGATTGCACCTCAAATCCCTGAACCATA
1 TTGGGTCTGCAAACAAAGCTAATTACGCCCAACATCTGAATTGCACCTCAAATCCCTGAACCATA
51346120 ATCTGAACATGGCCAACTTC
66 ATCTGAACATGGCCAACTTC
51346140 AACAATATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (91 bp):
TTGGGTCTGCAAACAAAGCTAATTACGCCCAACATCTGAATTGCACCTCAAATCCCTGAACCATA
ATCTGAACATGGCCAACTTCTTCAAA
Found at i:51352277 original size:23 final size:24
Alignment explanation
Indices: 51352251--51352296 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
51352241 AATTTAGCCA
*
51352251 ATTTTATTTTA-TTTTATTTTTAT
1 ATTTTATTTTAGTTTAATTTTTAT
51352274 ATTTTATTTTAGTTTAATTTTTA
1 ATTTTATTTTAGTTTAATTTTTA
51352297 CGTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTAGTTTAATTTTTAT
Found at i:51365005 original size:47 final size:47
Alignment explanation
Indices: 51364927--51365334 Score: 627
Period size: 47 Copynumber: 8.6 Consensus size: 47
51364917 CCCTTCGGGA
* * * * * *
51364927 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51364974 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51365021 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51365068 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51365115 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51365164 CTTATCACATATATATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51365213 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51365262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51365309 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51365335 CACAATTATC
Statistics
Matches: 337, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 196 0.58
49 141 0.42
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51365161 original size:96 final size:96
Alignment explanation
Indices: 51364927--51365334 Score: 648
Period size: 96 Copynumber: 4.3 Consensus size: 96
51364917 CCCTTCGGGA
* * * * * * *
51364927 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51364990 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51365021 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51365084 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
51365115 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
51365180 ACACTTTCACATTGATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51365213 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51365278 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
51365309 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
51365335 CACAATTATC
Statistics
Matches: 293, Mismatches: 15, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
93 1 0.00
94 96 0.33
96 103 0.35
98 93 0.32
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51368873 original size:40 final size:40
Alignment explanation
Indices: 51368841--51369148 Score: 447
Period size: 40 Copynumber: 7.7 Consensus size: 40
51368831 CCAGCATGAT
* * * * *
51368841 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*** * *
51368881 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
51368921 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGCA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51368961 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51369001 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* *
51369041 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51369081 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
51369121 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGAACTTAGCCCGGATACATC
51369149 GTCGAGACCT
Statistics
Matches: 248, Mismatches: 20, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 4 0.02
40 244 0.98
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:51369271 original size:38 final size:38
Alignment explanation
Indices: 51369202--51369276 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
51369192 GAATTTTAAT
*
51369202 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
51369240 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
51369277 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:51371488 original size:47 final size:47
Alignment explanation
Indices: 51371410--51371911 Score: 797
Period size: 47 Copynumber: 10.6 Consensus size: 47
51371400 CCCTTCGGGA
* * * * * *
51371410 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371457 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371504 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51371551 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51371598 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371647 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51371696 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51371743 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371790 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51371839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371886 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
51371912 CACAATTATC
Statistics
Matches: 425, Mismatches: 26, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 287 0.68
49 138 0.32
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51371644 original size:96 final size:96
Alignment explanation
Indices: 51371410--51371911 Score: 804
Period size: 96 Copynumber: 5.3 Consensus size: 96
51371400 CCCTTCGGGA
* * * * * * *
51371410 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51371473 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371504 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
51371567 ACTTTCGCATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
51371598 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
51371663 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
51371696 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51371759 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
51371790 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51371855 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
51371886 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
51371912 CACAATTATC
Statistics
Matches: 381, Mismatches: 19, Indels: 16
0.92 0.05 0.04
Matches are distributed among these distances:
93 1 0.00
94 140 0.37
96 196 0.51
98 44 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51371947 original size:143 final size:142
Alignment explanation
Indices: 51371410--51371911 Score: 808
Period size: 143 Copynumber: 3.5 Consensus size: 142
51371400 CCCTTCGGGA
* * * * * * * * *
51371410 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
51371475 TTTCACATTCATCACATCGGCCATTAGGCCTCATCAC-ATATATACACTTTCACATTCATCACAT
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
* * *
51371539 CGGCTATTAGGC
131 TGGCCATTCGGC
*
51371551 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
51371616 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 A--TTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
51371681 CATTGGCCATTCGGC
128 CATTGGCCATTCGGC
*
51371696 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
51371761 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACA
51371826 TTGGCCATTCGGC
130 TTGGCCATTCGGC
51371839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
51371904 ATTCACAT
66 ATTCACAT
51371912 CACAATTATC
Statistics
Matches: 337, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
141 55 0.16
143 183 0.54
145 99 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ATTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
TGGCCATTCGGC
Found at i:51382554 original size:23 final size:23
Alignment explanation
Indices: 51382526--51382639 Score: 128
Period size: 23 Copynumber: 5.1 Consensus size: 23
51382516 TGTGTAACTT
51382526 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
51382549 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* * *
51382568 TTCATCTTCAAGTCTATTCACTA
1 TTCATATTCAAGTCTCTTCACTC
51382591 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
51382614 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
51382637 TTC
1 TTC
51382640 TAACTTTTCA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 9 0.12
20 4 0.05
22 4 0.05
23 56 0.77
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:51382566 original size:42 final size:43
Alignment explanation
Indices: 51382516--51382639 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 43
51382506 TTCATGCATA
*
51382516 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA-ATG
1 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATATAAG
* * *
51382558 TGTGTAACTTTTCATCTTCAAGTCTATTCACTATTCATATTCAAG
1 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA-T-AAG
* * * *
51382603 TCTCTTCACTCTTCATATTCAAGTCTCTTCACTCTTC
1 TGT-GTAACTTTTCATATTCAAGTCTCTTCACTCTTC
51382640 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 36 0.54
45 4 0.06
46 27 0.40
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (43 bp):
TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATATAAG
Found at i:51385285 original size:23 final size:23
Alignment explanation
Indices: 51385253--51385301 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
51385243 TGTGTAACTT
*
51385253 TTCATCTTCAAGTCTATTCACTC
1 TTCATATTCAAGTCTATTCACTC
*
51385276 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTATTCACTC
51385299 TTC
1 TTC
51385302 TAACTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.31, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTATTCACTC
Found at i:51388154 original size:17 final size:17
Alignment explanation
Indices: 51388132--51388166 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51388122 TCTGTGTAAA
* *
51388132 ATATTTTTTGTTTTTTG
1 ATATTTTCTGATTTTTG
51388149 ATATTTTCTGATTTTTG
1 ATATTTTCTGATTTTTG
51388166 A
1 A
51388167 CAGATTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.11, T:0.69
Consensus pattern (17 bp):
ATATTTTCTGATTTTTG
Found at i:51388244 original size:18 final size:19
Alignment explanation
Indices: 51388212--51388248 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
51388202 TTTACATATA
51388212 TTAATAAATTTTATATTTT
1 TTAATAAATTTTATATTTT
51388231 TTAATAAA-TTTATATTTT
1 TTAATAAATTTTATATTTT
51388249 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAATAAATTTTATATTTT
Found at i:51389550 original size:27 final size:30
Alignment explanation
Indices: 51389483--51389556 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
51389473 TGTCAACCAT
*
51389483 TTCAATATCCAACAAGCTTAAAACATTATAAA
1 TTCAATATCTAACAAGCTTAAAAC--TATAAA
*
51389515 TTAAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACTATAAA
51389543 -TCAATATCTAACAA
1 TTCAATATCTAACAA
51389557 ATTCAAGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.33
28 2 0.05
29 2 0.05
32 22 0.56
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACTATAAA
Found at i:51389567 original size:27 final size:27
Alignment explanation
Indices: 51389518--51389570 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
51389508 TTATAAATTA
*
51389518 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
51389545 AATATCTAACAA-ATTCAAGACATAAT
1 AATATCTAACAAGATT-AAAACATAAT
51389571 AATTTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:51393250 original size:17 final size:16
Alignment explanation
Indices: 51393224--51393258 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
51393214 AATTTCAAAT
*
51393224 AATAAAAATATTATTA
1 AATAAAAATATTAATA
51393240 AATATAAAATATTAATA
1 AATA-AAAATATTAATA
51393257 AA
1 AA
51393259 AGAATAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAAAATATTAATA
Found at i:51393600 original size:5 final size:6
Alignment explanation
Indices: 51393582--51393611 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
51393572 AATAAAACAA
51393582 TTATTT TTATTT TTATTT TTATTT TATATT
1 TTATTT TTATTT TTATTT TTATTT T-TATT
51393612 AATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:51396939 original size:10 final size:10
Alignment explanation
Indices: 51396924--51397022 Score: 63
Period size: 10 Copynumber: 10.6 Consensus size: 10
51396914 AAATTGTAAA
51396924 AAAAATATTT
1 AAAAATATTT
51396934 AAAAAT-TTT
1 AAAAATATTT
51396943 --AAATA--T
1 AAAAATATTT
51396949 AAAAATATTT
1 AAAAATATTT
*
51396959 AATAA-A-TT
1 AAAAATATTT
*
51396967 AAAAACATTT
1 AAAAATATTT
*
51396977 AATAAAT-TGT
1 AA-AAATATTT
51396987 AAAAATTATTT
1 AAAAA-TATTT
*
51396998 -AAAATTTTT
1 AAAAATATTT
* *
51397007 AAAACTAATT
1 AAAAATATTT
51397017 AAAAAT
1 AAAAAT
51397023 TAAAAATAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
8 11 0.16
9 12 0.18
10 35 0.51
11 5 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (10 bp):
AAAAATATTT
Found at i:51396971 original size:18 final size:18
Alignment explanation
Indices: 51396942--51397030 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 18
51396932 TTAAAAATTT
51396942 TAAATATAAAAATATTTAA
1 TAAAT-TAAAAATATTTAA
*
51396961 TAAATTAAAAACATTTAA
1 TAAATTAAAAATATTTAA
51396979 TAAATTGTAAAAATTATTTAA
1 TAAA-T-TAAAAA-TATTTAA
* * *
51397000 -AATTTTTAAAACTAATTAA
1 TAA--ATTAAAAATATTTAA
51397019 -AAATTAAAAATA
1 TAAATTAAAAATA
51397031 ATATAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.14
18 16 0.28
19 14 0.24
20 13 0.22
21 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (18 bp):
TAAATTAAAAATATTTAA
Found at i:51397027 original size:17 final size:18
Alignment explanation
Indices: 51397005--51397039 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
51396995 TTTAAAATTT
*
51397005 TTAAAACTAAT-TAAAAA
1 TTAAAAATAATATAAAAA
51397022 TTAAAAATAATATAAAAA
1 TTAAAAATAATATAAAAA
51397040 AATTAGTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAATAATATAAAAA
Found at i:51398399 original size:19 final size:20
Alignment explanation
Indices: 51398355--51398405 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
51398345 TGTAAAGTTT
*
51398355 TTATCAAGTATTTAAATCAA
1 TTATCAAATATTTAAATCAA
51398375 TT-TCAAAT-TTTAAAATC-A
1 TTATCAAATATTT-AAATCAA
*
51398393 TTATCAAGTATTT
1 TTATCAAATATTT
51398406 TAATATGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 6 0.23
19 15 0.58
20 5 0.19
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (20 bp):
TTATCAAATATTTAAATCAA
Found at i:51399949 original size:290 final size:282
Alignment explanation
Indices: 51399432--51399949 Score: 680
Period size: 290 Copynumber: 1.8 Consensus size: 282
51399422 ATGATTTCAA
* * * *
51399432 CTCAACCCAAATATGTGGTTCAATAAATTGTCAATCACACAAATGTGGGAAAAACCAGTCTTTCA
1 CTCAACCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATGGAAAAAACCAGTCTGTCA
* * *
51399497 CAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCGTTTCATATTTTTCAACAATCT
66 CAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCATTCCATATCTTTCAACAATCT
* * * * *
51399562 CCTCTTTTAGCAATTCTTGAACAAAACACGTACAACACATGAAGCTATATCATCAAATAAACCTT
131 CCTCTTTCAGCAATTCTTGAACAAAACACATACAACACAGGAAACTATATCATCAAATAAACCTG
* * **
51399627 AGCGCCTCCTTAGCATATTTCTTTTAATTTCAAATACTTAGATAAACATTTAATTCCTCTTTAGC
196 AACGCCTCCTTAGCATATTCCTAGTAATTTCAAATACTTAGATAAACATTTAATTCCTCTTTAGC
51399692 ATATCCCCTTTAATTTATTTAG
261 ATATCCCCTTTAATTTATTTAG
*
51399714 CTCAGCCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATGAAAAGAAAAAAAAGCCAG
1 CTCAACCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATG----G--AAAAAA-CCAG
* * * * * * * *
51399779 T-TCGTCATAGTGTTTCAGGAAGTGGGTACTTCCTCATACACATCTCAGTCATTCCCTGTCTTTC
59 TCT-GTCACAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCATTCCATATCTTTC
* *
51399843 AACAATCT-CTCTCTTCAGCAATTTGTTGAATAAAACACATACAACACAGGAAACTATATCATCA
123 AACAATCTCCTCT-TTCAGCAA-TTCTTGAACAAAACACATACAACACAGGAAACTATATCATCA
*
51399907 AATAAACCTGAACTCCTCCTTAGCATATTCCTAGTAATTTCAA
186 AATAAACCTGAACGCCTCCTTAGCATATTCCTAGTAATTTCAA
51399950 GTACATAACT
Statistics
Matches: 198, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
282 44 0.22
286 1 0.01
288 10 0.05
289 69 0.35
290 74 0.37
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (282 bp):
CTCAACCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATGGAAAAAACCAGTCTGTCA
CAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCATTCCATATCTTTCAACAATCT
CCTCTTTCAGCAATTCTTGAACAAAACACATACAACACAGGAAACTATATCATCAAATAAACCTG
AACGCCTCCTTAGCATATTCCTAGTAATTTCAAATACTTAGATAAACATTTAATTCCTCTTTAGC
ATATCCCCTTTAATTTATTTAG
Found at i:51400983 original size:15 final size:15
Alignment explanation
Indices: 51400963--51401070 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
51400953 TTTATGGAAA
51400963 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
51400978 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
51400992 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
51401008 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
51401022 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
51401038 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
51401052 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
51401068 ATC
1 ATC
51401071 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:51401000 original size:30 final size:30
Alignment explanation
Indices: 51400957--51401080 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
51400947 TCCATATTTA
* *
51400957 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
51400987 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
51401017 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
51401047 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
51401078 TGG
1 TGG
51401081 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:51405713 original size:29 final size:30
Alignment explanation
Indices: 51405649--51405771 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
51405639 TCCATATTTA
* *
51405649 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
51405679 TAGAAAGTCAAAGATAT-GGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
51405708 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
51405738 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
51405769 TGG
1 TGG
51405772 CATAATAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
29 27 0.31
30 51 0.59
31 8 0.09
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:51405744 original size:59 final size:61
Alignment explanation
Indices: 51405649--51405771 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 61
51405639 TCCATATTTA
51405649 TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATAT-GGTATC-AAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATAT
* * * *
51405708 TGGAAAGTCAAAGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATAT
51405769 TGG
1 TGG
51405772 CATAATAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
59 44 0.76
60 6 0.10
61 8 0.14
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.26
Consensus pattern (61 bp):
TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:51407684 original size:37 final size:37
Alignment explanation
Indices: 51407643--51407714 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
51407633 ACTGGCATAA
*
51407643 ATTTGCATTATCTCTTTTTGTATTGTTGAAGTAGTCC
1 ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGTCC
51407680 ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGT
1 ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGT
51407715 ATAACTAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (37 bp):
ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGTCC
Found at i:51409459 original size:12 final size:12
Alignment explanation
Indices: 51409442--51409476 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
51409432 CGACGTTAGC
51409442 CTATTACTGTTA
1 CTATTACTGTTA
51409454 CTATTACTGTTA
1 CTATTACTGTTA
*
51409466 CTGTTACTGTT
1 CTATTACTGTT
51409477 TTCTTGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (12 bp):
CTATTACTGTTA
Found at i:51409460 original size:6 final size:6
Alignment explanation
Indices: 51409445--51409476 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
51409435 CGTTAGCCTA
*
51409445 TTACTG TTACTA TTACTG TTACTG TTACTG TT
1 TTACTG TTACTG TTACTG TTACTG TTACTG TT
51409477 TTCTTGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (6 bp):
TTACTG
Found at i:51410060 original size:19 final size:19
Alignment explanation
Indices: 51410036--51410076 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
51410026 TGTCGTTTAG
51410036 AACTTAGAAAATCTACGAC
1 AACTTAGAAAATCTACGAC
51410055 AACTTAGAAAATCTACGAC
1 AACTTAGAAAATCTACGAC
51410074 AAC
1 AAC
51410077 AAAGGTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.20
Consensus pattern (19 bp):
AACTTAGAAAATCTACGAC
Found at i:51417507 original size:10 final size:11
Alignment explanation
Indices: 51417494--51417522 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
51417484 AGTTCAATCA
51417494 AGCTCAATT-T
1 AGCTCAATTCT
51417504 AGCTCAATTCT
1 AGCTCAATTCT
51417515 AGCTCAAT
1 AGCTCAAT
51417523 GAGCTCGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (11 bp):
AGCTCAATTCT
Found at i:51419185 original size:19 final size:17
Alignment explanation
Indices: 51419157--51419191 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
51419147 TATATTGAAG
51419157 TATAAAAAAATTTGAAAT
1 TATAAAAAAA-TTGAAAT
51419175 TATACAAAAAATTGAAA
1 TATA-AAAAAATTGAAA
51419192 AAAAATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TATAAAAAAATTGAAAT
Found at i:51419196 original size:11 final size:12
Alignment explanation
Indices: 51419180--51419208 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51419170 GAAATTATAC
51419180 AAAAAATT-GAA
1 AAAAAATTCGAA
51419191 AAAAAATTCGAA
1 AAAAAATTCGAA
51419203 AAAAAA
1 AAAAAA
51419209 AAATTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAAATTCGAA
Found at i:51419209 original size:15 final size:15
Alignment explanation
Indices: 51419189--51419223 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
51419179 CAAAAAATTG
51419189 AAAAAAAATTCGAAA
1 AAAAAAAATTCGAAA
*
51419204 AAAAAAAATTTGAAA
1 AAAAAAAATTCGAAA
51419219 AAAAA
1 AAAAA
51419224 GAAGTGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (15 bp):
AAAAAAAATTCGAAA
Found at i:51420117 original size:18 final size:16
Alignment explanation
Indices: 51420087--51420126 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
51420077 AATTGAGATT
51420087 GAGAAAAAAGTTGAAA
1 GAGAAAAAAGTTGAAA
51420103 GAGAAAAAGATGTTGAAA
1 GAGAAAAA-A-GTTGAAA
*
51420121 AAGAAA
1 GAGAAA
51420127 CGAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (16 bp):
GAGAAAAAAGTTGAAA
Found at i:51424050 original size:20 final size:20
Alignment explanation
Indices: 51424012--51424050 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51424002 AGTATTATTT
*
51424012 TTAGGATATTTTTTATTTAC
1 TTAGGATATTTTGTATTTAC
51424032 TTAGGAATATTTTGT-TTTA
1 TTAGG-ATATTTTGTATTTA
51424051 TGCATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (20 bp):
TTAGGATATTTTGTATTTAC
Found at i:51433715 original size:19 final size:19
Alignment explanation
Indices: 51433693--51433733 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
51433683 TTTAAATGAG
51433693 AAAAAAAAACTTAAATATC
1 AAAAAAAAACTTAAATATC
** *
51433712 AAAACTAAATTTAAATATC
1 AAAAAAAAACTTAAATATC
51433731 AAA
1 AAA
51433734 TAGTATATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAAAAAACTTAAATATC
Found at i:51434240 original size:91 final size:91
Alignment explanation
Indices: 51434131--51434311 Score: 317
Period size: 91 Copynumber: 2.0 Consensus size: 91
51434121 TCAAAGACTT
*
51434131 TTGGGTCTGCAAACTAAGTTAATTAGGCCCAACGTATGGATTGCACCTCAAATCCCCGAACCATA
1 TTGGGTCTGCAAACTAAGTTAATTAGGCCCAACGTATGGATTGCACCTCAAATCCCCAAACCATA
*
51434196 ATCTGAACATGGCCTACTTCATCAAA
66 ATCTGAACATGGCCAACTTCATCAAA
* * *
51434222 TTGGGTCTGCAAACTAAGTTAATTAGGCCCAACGTCTGGATTGCACCTCAAATCCCTAAACTATA
1 TTGGGTCTGCAAACTAAGTTAATTAGGCCCAACGTATGGATTGCACCTCAAATCCCCAAACCATA
51434287 ATCTGAACATGGCCAACTTCATCAA
66 ATCTGAACATGGCCAACTTCATCAA
51434312 TATTTATATT
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 85 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (91 bp):
TTGGGTCTGCAAACTAAGTTAATTAGGCCCAACGTATGGATTGCACCTCAAATCCCCAAACCATA
ATCTGAACATGGCCAACTTCATCAAA
Found at i:51440494 original size:23 final size:22
Alignment explanation
Indices: 51440459--51440612 Score: 94
Period size: 23 Copynumber: 6.6 Consensus size: 22
51440449 TATATATACC
*
51440459 AATTTGGATAGCACTTATACACAA
1 AATTT-GACAGCA-TTATACACAA
*
51440483 AATTTGACAGCATGTATATACAA
1 AATTTGACAGCAT-TATACACAA
** * *
51440506 AATGGGCCAGCATTTATTCACCAA
1 AATTTGACAGCA-TTATACA-CAA
* ** * *
51440530 AATTGGGTAGCATTTATATAC-C
1 AATTTGACAGCA-TTATACACAA
51440552 AATTTGGACAGCACTTATACACAA
1 AATTT-GACAGCA-TTATACACAA
*
51440576 AATTTGACAGCATGTATATACAA
1 AATTTGACAGCAT-TATACACAA
* *
51440599 AATTGGATAGCATT
1 AATTTGACAGCATT
51440613 TAAGCATAAA
Statistics
Matches: 102, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
22 7 0.07
23 66 0.65
24 29 0.28
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (22 bp):
AATTTGACAGCATTATACACAA
Found at i:51440594 original size:46 final size:46
Alignment explanation
Indices: 51440400--51440610 Score: 197
Period size: 47 Copynumber: 4.5 Consensus size: 46
51440390 CATATATATA
* * * ** *
51440400 TATATACAAAATTGGACAACATTTATACACCAAAATTGGGTAGCATA
1 TATATACAAAATTGGACAGCACTTATACA-CAAAATTTGACAGCATG
* *
51440447 TATATATATACCAATTTGGATAGCACTTATACACAAAATTTGACAGCATG
1 TATATACA-A--AA-TTGGACAGCACTTATACACAAAATTTGACAGCATG
* * * * * ** *
51440497 TATATACAAAATGGGCCAGCATTTATTCACCAAAATTGGGTAGCATT
1 TATATACAAAATTGGACAGCACTTATACA-CAAAATTTGACAGCATG
* *
51440544 TATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCACTTATACACAAAATTTGACAGCATG
*
51440590 TATATACAAAATTGGATAGCA
1 TATATACAAAATTGGACAGCA
51440611 TTTAAGCATA
Statistics
Matches: 128, Mismatches: 31, Indels: 11
0.75 0.18 0.06
Matches are distributed among these distances:
46 44 0.34
47 45 0.35
48 1 0.01
49 1 0.01
50 22 0.17
51 15 0.12
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (46 bp):
TATATACAAAATTGGACAGCACTTATACACAAAATTTGACAGCATG
Found at i:51440611 original size:93 final size:96
Alignment explanation
Indices: 51440400--51440614 Score: 346
Period size: 93 Copynumber: 2.3 Consensus size: 96
51440390 CATATATATA
*
51440400 TATATACAAAATTGGACAACATTTATACACCAAAATTGGGTAGCATATATATATATACCAATTTG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTGGGTAGCA-ATATATATATACCAATTTG
*
51440465 GATAGCACTTATACACAAAATTTGACAGCATG
65 GACAGCACTTATACACAAAATTTGACAGCATG
* * *
51440497 TATATACAAAATGGGCCAGCATTTATTCACCAAAATTGGGTAGC-AT-T-TATATACCAATTTGG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTGGGTAGCAATATATATATACCAATTTGG
51440559 ACAGCACTTATACACAAAATTTGACAGCATG
66 ACAGCACTTATACACAAAATTTGACAGCATG
*
51440590 TATATACAAAATTGGATAGCATTTA
1 TATATACAAAATTGGACAGCATTTA
51440615 AGCATAAAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
93 67 0.61
94 1 0.01
95 2 0.02
97 40 0.36
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.30
Consensus pattern (96 bp):
TATATACAAAATTGGACAGCATTTATACACCAAAATTGGGTAGCAATATATATATACCAATTTGG
ACAGCACTTATACACAAAATTTGACAGCATG
Found at i:51441455 original size:28 final size:28
Alignment explanation
Indices: 51441334--51441456 Score: 146
Period size: 28 Copynumber: 4.5 Consensus size: 28
51441324 TTTAATAAGT
** *
51441334 TCGCACACTTAGTGCTCAATAATCT-AAC
1 TCGCACACTTAGTGCTTTACAAT-TAAAC
*
51441362 TCGCACAC-T--TGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
51441387 TCGCACACTTAGAGTTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
51441415 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
51441443 TCGCACACTTAGTG
1 TCGCACACTTAGTG
51441457 TTGAAAGTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.01
25 18 0.22
26 1 0.01
27 1 0.01
28 60 0.74
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:51444134 original size:50 final size:51
Alignment explanation
Indices: 51444070--51444260 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 51
51444060 AAATAGCATG
* **
51444070 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGT
** * *
51444121 CC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGGTG-
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGT
* * ** *
51444170 CCAACGCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAAT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TCGGT-GT
*
51444225 GCCAATGCCATTTCCCAGACATGGTCTTACATGGGA
1 -CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
51444261 TCTCATTCCC
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 75 0.66
51 2 0.02
53 3 0.03
56 32 0.28
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (51 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGT
Found at i:51446694 original size:23 final size:24
Alignment explanation
Indices: 51446668--51446716 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
51446658 GTCTCTCTCA
51446668 TTGA-TTATTATTCTGTTGC-TTCT
1 TTGATTTATT-TTCTGTTGCATTCT
*
51446691 TTGATTTATTTTCTGTTTCATTCT
1 TTGATTTATTTTCTGTTGCATTCT
51446715 TT
1 TT
51446717 AGTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.12, C:0.12, G:0.10, T:0.65
Consensus pattern (24 bp):
TTGATTTATTTTCTGTTGCATTCT
Found at i:51446982 original size:5 final size:5
Alignment explanation
Indices: 51446972--51446997 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
51446962 TAATTTAGCC
51446972 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
51446998 TATATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:51447003 original size:23 final size:23
Alignment explanation
Indices: 51446977--51447029 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
51446967 TAGCCTATTT
* * *
51446977 TATTTTATTTTATTTTATTTTTA
1 TATTTTATTTTAGTTTAGTTTAA
*
51447000 TATTTTGTTTTAGTTTAGTTTAA
1 TATTTTATTTTAGTTTAGTTTAA
51447023 T-TTTTAT
1 TATTTTAT
51447030 GTTCTAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (23 bp):
TATTTTATTTTAGTTTAGTTTAA
Found at i:51447003 original size:28 final size:29
Alignment explanation
Indices: 51446972--51447029 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
51446962 TAATTTAGCC
* *
51446972 TATTTTATTTTATTTTA-TTTTATTTTTA
1 TATTTTATTTTAGTTTAGTTTAATTTTTA
*
51447000 TATTTTGTTTTAGTTTAGTTTAATTTTTA
1 TATTTTATTTTAGTTTAGTTTAATTTTTA
51447029 T
1 T
51447030 GTTCTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (29 bp):
TATTTTATTTTAGTTTAGTTTAATTTTTA
Found at i:51452556 original size:14 final size:12
Alignment explanation
Indices: 51452521--51452561 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 12
51452511 AATACCACTG
51452521 ATTTTA-TTTTT
1 ATTTTATTTTTT
51452532 -TTTTATTTTTT
1 ATTTTATTTTTT
51452543 ATTTTAGTTGTTTT
1 ATTTTA-TT-TTTT
51452557 ATTTT
1 ATTTT
51452562 TATTGTCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 5 0.19
11 5 0.19
12 5 0.19
13 2 0.08
14 9 0.35
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:51452567 original size:14 final size:14
Alignment explanation
Indices: 51452527--51452567 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
51452517 ACTGATTTTA
51452527 TTTT-TTTTTATT-
1 TTTTATTTTTATTG
51452539 TTTTA-TTTTAGTTG
1 TTTTATTTTTA-TTG
51452553 TTTTATTTTTATTG
1 TTTTATTTTTATTG
51452567 T
1 T
51452568 CTTAGACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 9 0.36
13 2 0.08
14 9 0.36
15 5 0.20
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTATTG
Found at i:51455944 original size:19 final size:18
Alignment explanation
Indices: 51455911--51455946 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
51455901 AATTGAACCA
51455911 ATTTTTGAAAACACAACG
1 ATTTTTGAAAACACAACG
*
51455929 ATTTTCTGAAATCACAAC
1 ATTTT-TGAAAACACAAC
51455947 TTAATCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (18 bp):
ATTTTTGAAAACACAACG
Found at i:51457096 original size:49 final size:49
Alignment explanation
Indices: 51457024--51457120 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
51457014 ACATGGCCTA
* * *
51457024 CCACACGGTCTGCAATGTTTCACATGGTCATGTGCTCTACACGGCCAAG
1 CCACACGGGCTGCAATGTTTCACACGGTCATGTGCTCTACACGACCAAG
* * *
51457073 CCACACGGGCTGTAA-GATTTCACACGGTCTTGTGCTTTACACGACCAA
1 CCACACGGGCTGCAATG-TTTCACACGGTCATGTGCTCTACACGACCAA
51457121 CCAACACAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 40 0.98
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (49 bp):
CCACACGGGCTGCAATGTTTCACACGGTCATGTGCTCTACACGACCAAG
Found at i:51459756 original size:17 final size:18
Alignment explanation
Indices: 51459734--51459767 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
51459724 GCACTAAAAA
51459734 TTCAACATTT-AATTTTT
1 TTCAACATTTAAATTTTT
51459751 TTCAACATTTAAATTTT
1 TTCAACATTTAAATTTT
51459768 CAGTTTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCAACATTTAAATTTTT
Found at i:51460806 original size:5 final size:5
Alignment explanation
Indices: 51460796--51460830 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
51460786 ATACTTATTT
51460796 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT
51460831 GTTGATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:51463056 original size:17 final size:19
Alignment explanation
Indices: 51463031--51463074 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
51463021 TTAAAAGTAA
*
51463031 TTTTCAAAAAACAA-TAT-
1 TTTTTAAAAAACAACTATC
*
51463048 TTTTTAAAAAAGAACTATC
1 TTTTTAAAAAACAACTATC
51463067 TTTTTAAA
1 TTTTTAAA
51463075 GCAAATAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (19 bp):
TTTTTAAAAAACAACTATC
Found at i:51474094 original size:50 final size:50
Alignment explanation
Indices: 51474028--51474370 Score: 508
Period size: 50 Copynumber: 6.8 Consensus size: 50
51474018 ATTTGGGTAA
*
51474028 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
51474078 AGAGGTCTCATATAAGACCATGCCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
51474128 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
51474178 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
51474228 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
51474278 AGAGGTCCCCCGTAATACCATGTCTGGGACATGGCA-TGGACACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATG
** * * *
51474328 AGTACATCCTATGTAAGACCATGTCTGGTACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
51474371 TGTTATTATC
Statistics
Matches: 265, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
49 3 0.01
50 231 0.87
51 28 0.11
52 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:51477435 original size:33 final size:34
Alignment explanation
Indices: 51477370--51477463 Score: 97
Period size: 33 Copynumber: 2.9 Consensus size: 34
51477360 CGGTAGATTG
* *
51477370 TATGTTTTGTGTTTACTGTCCCAGC-GAACTATC
1 TATGTTTTATGTTTACTGTCCCAACAGAACTATC
* *
51477403 TATGTTTTATGTTTATTGTCCCAACAG-GCTATC
1 TATGTTTTATGTTTACTGTCCCAACAGAACTATC
* *
51477436 T-TAGTTCTATG-TTACTGTCTCAACAGAA
1 TAT-GTTTTATGTTTACTGTCCCAACAGAA
51477464 TTTTTTTATG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
32 14 0.28
33 35 0.70
34 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (34 bp):
TATGTTTTATGTTTACTGTCCCAACAGAACTATC
Found at i:51485120 original size:14 final size:14
Alignment explanation
Indices: 51485101--51485129 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51485091 CTTCAGGTTA
51485101 AGCCGTCATGGATT
1 AGCCGTCATGGATT
51485115 AGCCGTCATGGATT
1 AGCCGTCATGGATT
51485129 A
1 A
51485130 AGCAGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (14 bp):
AGCCGTCATGGATT
Found at i:51494828 original size:24 final size:24
Alignment explanation
Indices: 51494800--51494851 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
51494790 TTTCTAGAAG
* * *
51494800 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGAATTTATAAGCATAATAT
*
51494824 ATTTAGAATTTATAAGCATAATTT
1 ATTTAGAATTTATAAGCATAATAT
51494848 ATTT
1 ATTT
51494852 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGAATTTATAAGCATAATAT
Found at i:51496469 original size:33 final size:31
Alignment explanation
Indices: 51496406--51496469 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
51496396 AAATGTTACG
* *
51496406 TTTTAGTCACTTATGTTAATGTGTTGTAACA
1 TTTTAGTCACTGATGTTAATGTGTCGTAACA
51496437 TTTTAGTCACTGAGTCGTTAAT-TGTCGTTAACA
1 TTTTAGTCACTGA-T-GTTAATGTGTCG-TAACA
51496470 GTGTAACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 12 0.43
32 5 0.18
33 11 0.39
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (31 bp):
TTTTAGTCACTGATGTTAATGTGTCGTAACA
Found at i:51499164 original size:16 final size:16
Alignment explanation
Indices: 51499143--51499173 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51499133 GGGGAAAATA
*
51499143 AAAAGTTTGGGGGAAT
1 AAAAGTTTGAGGGAAT
51499159 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
51499174 AATAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:51499550 original size:18 final size:18
Alignment explanation
Indices: 51499527--51499563 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51499517 TATAGTTTGA
51499527 TATTCGAATTATTAGAAT
1 TATTCGAATTATTAGAAT
* *
51499545 TATTCGAGTTATTTGAAT
1 TATTCGAATTATTAGAAT
51499563 T
1 T
51499564 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (18 bp):
TATTCGAATTATTAGAAT
Found at i:51500080 original size:18 final size:19
Alignment explanation
Indices: 51500045--51500087 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
51500035 TACTTTTGAA
* *
51500045 TTTTCTATTTCTTGAAATT
1 TTTTATATTTCTTAAAATT
51500064 TTTTATATTT-TTAAAATT
1 TTTTATATTTCTTAAAATT
*
51500082 ATTTAT
1 TTTTAT
51500088 TGACATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATATTTCTTAAAATT
Found at i:51513582 original size:42 final size:41
Alignment explanation
Indices: 51513527--51513737 Score: 287
Period size: 43 Copynumber: 5.0 Consensus size: 41
51513517 GCGTTTACAG
* *
51513527 AAAAATAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
51513568 AAAAAAAGATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
51513610 AACAAAAAACGCCGCTAAAGAACATGGTCTTCAGCGGCGCTT
1 AA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
51513652 AAAAGAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTT
1 -AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
51513695 GGTAAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTT
1 --AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
51513738 TCATTACGAA
Statistics
Matches: 150, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
41 6 0.04
42 65 0.43
43 77 0.51
44 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:51513672 original size:43 final size:42
Alignment explanation
Indices: 51513527--51513737 Score: 296
Period size: 42 Copynumber: 5.0 Consensus size: 42
51513517 GCGTTTACAG
* *
51513527 AAAAATAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
51513569 AAAAAAGATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * *
51513611 ACAAAAAACGCCGCTAAAGAACATGGTCTTCAGCGGCGCTTA
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
51513653 AAAGAAAAACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTGG
1 AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-A
* *
51513697 TAAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
51513738 TCATTACGAA
Statistics
Matches: 148, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 76 0.51
43 70 0.47
44 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (42 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:51513759 original size:16 final size:16
Alignment explanation
Indices: 51513735--51513767 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51513725 TTTAGCGGCG
51513735 CTTTCATTACGAACGC
1 CTTTCATTACGAACGC
*
51513751 CTTTTATTACGAACGC
1 CTTTCATTACGAACGC
51513767 C
1 C
51513768 GCGAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (16 bp):
CTTTCATTACGAACGC
Found at i:51514105 original size:20 final size:19
Alignment explanation
Indices: 51514061--51514106 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
51514051 CGACTCTCGC
51514061 AGTTTTTGAAGTTCATCGT
1 AGTTTTTGAAGTTCATCGT
51514080 AGTTTTTGAAGTTCATCGT
1 AGTTTTTGAAGTTCATCGT
51514099 AGTTTTTG
1 AGTTTTTG
51514107 CTCTGCTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (19 bp):
AGTTTTTGAAGTTCATCGT
Found at i:51519726 original size:9 final size:9
Alignment explanation
Indices: 51519709--51519975 Score: 213
Period size: 9 Copynumber: 30.8 Consensus size: 9
51519699 TATGTATTAA
*
51519709 GTAAATTAT
1 GTAAGTTAT
51519718 GTAAGTTAT
1 GTAAGTTAT
*
51519727 GTACGTGTA-
1 GTAAGT-TAT
*
51519736 -TAAGTTAC
1 GTAAGTTAT
51519744 GTAAGTTAT
1 GTAAGTTAT
*
51519753 GT-A-TTAA
1 GTAAGTTAT
*
51519760 GTAAGCTAT
1 GTAAGTTAT
*
51519769 GTAAGTTGT
1 GTAAGTTAT
51519778 GT-A-TTAT
1 GTAAGTTAT
51519785 GTAAGTTAT
1 GTAAGTTAT
51519794 GTAAGTTAT
1 GTAAGTTAT
** *
51519803 CAAAGTAAT
1 GTAAGTTAT
*
51519812 GTATGTTAT
1 GTAAGTTAT
*
51519821 TTAAG-T-T
1 GTAAGTTAT
51519828 GTAAGTTAT
1 GTAAGTTAT
*
51519837 -TATGTATTAT
1 GTAAG--TTAT
51519847 GTAAGTTAT
1 GTAAGTTAT
51519856 GTAAGTTAT
1 GTAAGTTAT
51519865 GTAAGTTAAAT
1 GTAAGTT--AT
51519876 GT-A-TTAT
1 GTAAGTTAT
*
51519883 GTAGGTTAT
1 GTAAGTTAT
*
51519892 GTAAGTTGT
1 GTAAGTTAT
*
51519901 GTAAGATAT
1 GTAAGTTAT
*
51519910 TTAAGTTAT
1 GTAAGTTAT
*
51519919 GTAAGTTTT
1 GTAAGTTAT
51519928 GT-A-TTAT
1 GTAAGTTAT
51519935 GTAAGTTAT
1 GTAAGTTAT
51519944 GTAAGTTAT
1 GTAAGTTAT
* *
51519953 GTATGCTAT
1 GTAAGTTAT
51519962 GT-A-TTAT
1 GTAAGTTAT
51519969 GTAAGTT
1 GTAAGTT
51519976 GTCATGTTAT
Statistics
Matches: 202, Mismatches: 36, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
7 31 0.15
8 16 0.08
9 141 0.70
10 7 0.03
11 7 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:51519729 original size:25 final size:25
Alignment explanation
Indices: 51519698--51520004 Score: 179
Period size: 25 Copynumber: 12.1 Consensus size: 25
51519688 TGATATATAT
*
51519698 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
51519723 TTATGTACGTGT-A-TAAGTTACGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
*
51519749 TTATGTATTAAGTAAGCTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
51519774 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* * *
51519799 TTAT-CA--AAGTAA-TGTATGTTAT
1 TTATGTATTAAGTAAGT-TATGTAAG
* *
51519821 TTAAGT-TGTAAGTTA-TTATGT-A-
1 TTATGTAT-TAAGTAAGTTATGTAAG
*
51519843 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
51519870 TTAAATGTATTATGTAGGTTATGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
* * **
51519897 TTGTGTAAGATATTTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* *
51519924 TTTTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
51519949 TTATGTATGCTATGT-A-TTATGTAAG
1 TTATGTAT--TAAGTAAGTTATGTAAG
* *
51519974 TTGTCATGTTATTACGTAAGTTATGCAAG
1 -T-T-ATG-TATTAAGTAAGTTATGTAAG
51520003 TT
1 TT
51520005 TATATATAAG
Statistics
Matches: 225, Mismatches: 29, Indels: 54
0.73 0.09 0.18
Matches are distributed among these distances:
21 1 0.00
22 19 0.08
23 2 0.01
24 13 0.06
25 91 0.40
26 23 0.10
27 54 0.24
28 7 0.03
29 15 0.07
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:51519994 original size:79 final size:77
Alignment explanation
Indices: 51519852--51520005 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 77
51519842 ATTATGTAAG
*
51519852 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTATGTAAGTTGTGTAAGATATTTAAGTT
1 TTATGTAAGTTATGTAAGTT-AATGTATTATGTA-GTTATGTAAGTTGTGCAAGATATTTAAGTT
*
51519917 ATGTAAGTTTTGTA
64 ATGCAAGTTTTGTA
* *
51519931 TTATGTAAGTTATGTAAGTT-ATGTATGCTATGTA-TTATGTAAGTTGT-CATGTTATTACGTAA
1 TTATGTAAGTTATGTAAGTTAATGTAT--TATGTAGTTATGTAAGTTGTGCAAGATATT---TAA
51519993 GTTATGCAAGTTT
61 GTTATGCAAGTTT
51520006 ATATATAAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
76 6 0.09
77 19 0.29
79 41 0.62
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (77 bp):
TTATGTAAGTTATGTAAGTTAATGTATTATGTAGTTATGTAAGTTGTGCAAGATATTTAAGTTAT
GCAAGTTTTGTA
Found at i:51520103 original size:16 final size:16
Alignment explanation
Indices: 51520082--51520131 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
51520072 AAAAAATTTA
51520082 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
*
51520098 TAAGTTA---A-CATG
1 TAAGTTATGTATTATG
51520110 TAAGTTATGTATTATG
1 TAAGTTATGTATTATG
51520126 TAAGTT
1 TAAGTT
51520132 TACATATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
15 1 0.04
16 16 0.57
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (16 bp):
TAAGTTATGTATTATG
Found at i:51520113 original size:28 final size:28
Alignment explanation
Indices: 51520080--51520148 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 28
51520070 TAAAAAAATT
51520080 TATAAGTTATGTATTATGTAAGTTAACA
1 TATAAGTTATGTATTATGTAAGTTAACA
* *
51520108 TGTAAGTTATGTATTATGTAAGTTTACA
1 TATAAGTTATGTATTATGTAAGTTAACA
51520136 TATAAGTTTATGT
1 TATAAG-TTATGT
51520149 GATAGTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 31 0.84
29 6 0.16
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (28 bp):
TATAAGTTATGTATTATGTAAGTTAACA
Found at i:51520352 original size:13 final size:13
Alignment explanation
Indices: 51520334--51520498 Score: 129
Period size: 13 Copynumber: 12.5 Consensus size: 13
51520324 TAAATTTTAG
*
51520334 TAAGTAATGTATT
1 TAAGTAATATATT
*
51520347 TAAGTAACATATT
1 TAAGTAATATATT
*
51520360 TAAGTAATAAATT
1 TAAGTAATATATT
**
51520373 TAAACAA-AGT-TT
1 TAAGTAATA-TATT
*
51520385 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
51520400 TAAGTAACATATT
1 TAAGTAATATATT
*
51520413 TAAGTAATAAATT
1 TAAGTAATATATT
** *
51520426 TAACCAA-ATTTT
1 TAAGTAATATATT
*
51520438 AGTAAGTAATGTATT
1 --TAAGTAATATATT
*
51520453 TAAGTAATTTATT
1 TAAGTAATATATT
51520466 TAAGTAATATATT
1 TAAGTAATATATT
*
51520479 CAAGTAATATATT
1 TAAGTAATATATT
*
51520492 AAAGTAA
1 TAAGTAA
51520499 ATTTTAGTAA
Statistics
Matches: 118, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
12 6 0.05
13 96 0.81
14 11 0.09
15 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:51520393 original size:27 final size:26
Alignment explanation
Indices: 51520360--51520447 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
51520350 GTAACATATT
51520360 TAAGTAATAAATTTAAACAAAGTTTAG
1 TAAGTAATAAATTTAAACAAA-TTTAG
** **
51520387 TAAGTAATGTATTTAAGTAACATATT--
1 TAAGTAATAAATTTAAACAA-AT-TTAG
*
51520413 TAAGTAATAAATTTAACCAAATTTTAG
1 TAAGTAATAAATTTAAACAAA-TTTAG
51520440 TAAGTAAT
1 TAAGTAAT
51520448 GTATTTAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
25 3 0.06
26 17 0.35
27 25 0.52
28 3 0.06
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (26 bp):
TAAGTAATAAATTTAAACAAATTTAG
Found at i:51520394 original size:53 final size:53
Alignment explanation
Indices: 51520329--51520474 Score: 256
Period size: 53 Copynumber: 2.8 Consensus size: 53
51520319 ATACTTAAAT
51520329 TTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAG
1 TTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAG
* *
51520382 TTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAAT
1 TTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAG
**
51520435 TTTAGTAAGTAATGTATTTAAGTAATTTATTTAAGTAATA
1 TTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATA
51520475 TATTCAAGTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 89 1.00
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (53 bp):
TTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAACAAAG
Found at i:51520525 original size:66 final size:66
Alignment explanation
Indices: 51520387--51520525 Score: 170
Period size: 66 Copynumber: 2.1 Consensus size: 66
51520377 CAAAGTTTAG
* * ** *
51520387 TAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTTAGTAAGTAATGTAT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
51520452 T
66 T
* * * ** *
51520453 TAAGTAATTTATTTAAGTAATATATTCAAGTAATATATTAAAGTAAATTTTAGTAAAAAATATGT
1 TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
51520518 T
66 T
*
51520519 TTAGTAA
1 TAAGTAA
51520526 GTAATGTAAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (66 bp):
TAAGTAATGTATTTAAGTAACATATTCAAGTAATAAATTAAACCAAATTTTAGTAAAAAATATAT
T
Found at i:51520678 original size:20 final size:18
Alignment explanation
Indices: 51520655--51520697 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
51520645 ATATATTAAA
51520655 ATATAATAAATATTGAAAAT
1 ATATAATAAAT-TT-AAAAT
* *
51520675 ATATATTAACTTTAAAAT
1 ATATAATAAATTTAAAAT
51520693 ATATA
1 ATATA
51520698 TATTAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 2 0.10
20 9 0.43
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATAATAAATTTAAAAT
Found at i:51521481 original size:15 final size:15
Alignment explanation
Indices: 51521461--51521492 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51521451 GTGATAACAG
*
51521461 TAAATTAGTACCAAA
1 TAAATTACTACCAAA
51521476 TAAATTACTACCAAA
1 TAAATTACTACCAAA
51521491 TA
1 TA
51521493 CTTCAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAATTACTACCAAA
Found at i:51523111 original size:147 final size:145
Alignment explanation
Indices: 51522938--51523242 Score: 339
Period size: 147 Copynumber: 2.1 Consensus size: 145
51522928 GTTTTAACCG
* * * *
51522938 AAGCGCCACAAACTATAAATCAAAACGCAGTCGCTT-CATCAACACTTACCTCAAACCCGTGGCG
1 AAGCGCCACTAACTATAAATCAAAACGAAGTCGCTTCCCT-AACACTTAACTCAAACCCGTGGCG
* ** * * *
51523002 TTTTCGCAAAAACGCCACTAATAACATTTACAAAACGGCAACATTTCTATAAATGATAGA-ACAA
65 TTTTCACAAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAATAAA-CATA-ATAC-A
*
51523066 TTTTACGGCATTTTGA-GTA
127 TTTTACGGC-GTTTGATGTA
* * * * **
51523085 AAGCGCCACTAACTATAAGCTC-AAACGAAGTCGTTTCCCTAACAGTTAACTCAAGCTTGTGGCG
1 AAGCGCCACTAACTATAA-ATCAAAACGAAGTCGCTTCCCTAACACTTAACTCAAACCCGTGGCG
* *
51523149 TTTTCATAAAAACGCCACTAATACCATAGACAAAACGACAACATTTCAATAAACATAATTACATT
65 TTTTCACAAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAATAAACATAA-TACATT
*
51523214 TTGCGGCGTTTGATGTA
129 TTACGGCGTTTGATGTA
51523231 AAGCGCCACTAA
1 AAGCGCCACTAA
51523243 TAGCAACGTA
Statistics
Matches: 133, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
145 6 0.05
146 27 0.20
147 96 0.72
148 4 0.03
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (145 bp):
AAGCGCCACTAACTATAAATCAAAACGAAGTCGCTTCCCTAACACTTAACTCAAACCCGTGGCGT
TTTCACAAAAACGCCACTAATAACATAGACAAAACGACAACATTTCAATAAACATAATACATTTT
ACGGCGTTTGATGTA
Found at i:51523987 original size:13 final size:14
Alignment explanation
Indices: 51523962--51524001 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
51523952 CATAAATTCT
51523962 AAACCTTAAACCCCA
1 AAACC-TAAACCCCA
51523977 AAACC-AAACCCCA
1 AAACCTAAACCCCA
*
51523990 AACCCTAAACCC
1 AAACCTAAACCC
51524002 TAAATCCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 6 0.26
15 5 0.22
ACGTcount: A:0.47, C:0.45, G:0.00, T:0.07
Consensus pattern (14 bp):
AAACCTAAACCCCA
Found at i:51524001 original size:14 final size:13
Alignment explanation
Indices: 51523969--51524014 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
51523959 TCTAAACCTT
*
51523969 AAACCCCAAAACC
1 AAACCCCAAACCC
51523982 AAACCCCAAACCC
1 AAACCCCAAACCC
*
51523995 TAAACCCTAAATCCC
1 -AAACCCCAAA-CCC
51524010 AAACC
1 AAACC
51524015 GTAATATTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 14 0.48
15 3 0.10
ACGTcount: A:0.48, C:0.46, G:0.00, T:0.07
Consensus pattern (13 bp):
AAACCCCAAACCC
Found at i:51524479 original size:20 final size:20
Alignment explanation
Indices: 51524451--51524491 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
51524441 ATTAATTAAT
51524451 CAAAACCCTAAAT-CCTAACC
1 CAAAACCCT-AATCCCTAACC
*
51524471 CAAATCCCTAATCCCTAACC
1 CAAAACCCTAATCCCTAACC
51524491 C
1 C
51524492 TTAAACCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (20 bp):
CAAAACCCTAATCCCTAACC
Found at i:51524643 original size:14 final size:15
Alignment explanation
Indices: 51524624--51524656 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
51524614 CTTAAACCAG
51524624 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
51524638 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
51524653 AATC
1 AATC
51524657 TATACGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:51525343 original size:113 final size:115
Alignment explanation
Indices: 51524988--51525617 Score: 582
Period size: 114 Copynumber: 5.5 Consensus size: 115
51524978 GCGGTGTTTT
* * ** * * * * * *
51524988 TTAAAAACGCCGCTAAAGCCCTAAAAGTTTAGAAAACGACGCCGTTGGGCTTAGGT-TTTTTGC-
1 TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTTTTCT
* * *
51525051 GACGC-TTCAACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATT-C
66 GGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTAC
* * * * * * * * *
51525101 -TGAAAACGCCGCTAAAGCCCACGAATTG-TCAGAAAATGGTGTAGTTGGGCTTA--TTTTTTGT
1 TTAAAAACGCCACTAAATCCC-CGAA-AGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTT-T
* *
51525162 TGC-GGCGCTTTCTCAAAAATGCCGCTAAAGCCCTGAGCATTACCGGCGCTTAC
63 T-CTGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAC
* * * *
51525215 GTAAAAACGTCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTTGGT-TTTTCTCT
1 TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTTTTCT
* * **
51525279 GGTGCTTTCTCAAAAATGCTACTAAAG-CCTGAGCATTAGCGGCGCTTAC
66 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAC
* *
51525328 TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGACGTCGTTGGACTTAGGTATTTTTTC-
1 TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTTTTCT
* * * *
51525392 GGCGCTTTCCCAAAAACGCCCCTAAAGCCCTAAGCATTAGCGGCGTTTAC
66 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAC
* * * * * * * * *
51525442 TAAAAAACGCCACTAAATCCCTGAAAGCTTAGAAAACGGCGTCGCTGGGCTTTGCTTTTTTTTGT
1 TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTTTTCT
** * * *
51525507 GGCGCTTTCTTGAAAACGCCGCGAAAGCCCTGAGCATTAGTGGCGCTTTC
66 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAC
** * *** * *
51525557 TTAAAAATACCGCTAAATCCCCGAAAGCTTGGAAAACGGTGTCATTGGGCTTAGGTATTTT
1 TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTT
51525618 GCGGCGCTTT
Statistics
Matches: 426, Mismatches: 76, Indels: 28
0.80 0.14 0.05
Matches are distributed among these distances:
111 1 0.00
112 23 0.05
113 120 0.28
114 168 0.39
115 113 0.27
116 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (115 bp):
TTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTATTTTTTCT
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTAC
Found at i:51525638 original size:227 final size:226
Alignment explanation
Indices: 51525061--51525643 Score: 636
Period size: 227 Copynumber: 2.6 Consensus size: 226
51525051 GACGCTTCAA
* * * *
51525061 CAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATTC-TGAAAACGCCGCTAAAGCCCACGA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCC-CGA
* * ** * *
51525125 ATTG-TCAGAAAATGGTGT-AGTTGGGCTTATTTTTTGTTGCGGCGCTTTCTCAAAAATGCCGCT
65 A-AGCTCAGAAAACGGTGTCA-TTGGGCTTAGGTATT-TTGCGGCGCTTTCT-AAAAACGCCGCT
* *
51525188 AAAGCCCTGAGCATTACCGGCGCTTACGTAAAAACGTCACTAAATCCCCGAAAGCTCAAAAAACG
126 AAAGCCCTAAGCATTACCGGCGCTTACGTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACG
* *
51525253 GCGTCGTTGGGCTTTGGTTTTTCTCTGGTGCTTTCT
191 GCGTCGCTGGGCTTTGGTTTTTCTCTGGCGCTTTCT
* ** * *
51525289 CAAAAATGCTACTAAAG-CCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
* ** * * * * *
51525353 AGCTCAAAAAACGACGTCGTTGGACTTAGGTATTTTTTCGGCGCTTTCCCAAAAACGCCCCTAAA
66 AGCTCAGAAAACGGTGTCATTGGGCTTAGGTA-TTTTGCGGCGCTTT-CTAAAAACGCCGCTAAA
* * * * *
51525418 GCCCTAAGCATTAGCGGCGTTTAC-TAAAAAACGCCACTAAATCCCTGAAAGCTTAGAAAACGGC
129 GCCCTAAGCATTACCGGCGCTTACGT-AAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGC
* * *
51525482 GTCGCTGGGCTTTGCTTTTTTTTGTGGCGCTTTCT
193 GTCGCTGGGCTTTG-GTTTTTCTCTGGCGCTTTCT
** * * **
51525517 TGAAAACGCCGCGAAAGCCCTGAGCATTAGTGGCGCTTTCTTAAAAATACCGCTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
** * **
51525582 AGCTTGGAAAACGGTGTCATTGGGCTTAGGTATTTTGCGGCGCTTTATGGAAACGCCGCTAA
66 AGCTCAGAAAACGGTGTCATTGGGCTTAGGTATTTTGCGGCGCTTTCTAAAAACGCCGCTAA
51525644 TGCTTATTTT
Statistics
Matches: 288, Mismatches: 59, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
226 2 0.01
227 145 0.50
228 74 0.26
229 67 0.23
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (226 bp):
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAA
AGCTCAGAAAACGGTGTCATTGGGCTTAGGTATTTTGCGGCGCTTTCTAAAAACGCCGCTAAAGC
CCTAAGCATTACCGGCGCTTACGTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGTC
GCTGGGCTTTGGTTTTTCTCTGGCGCTTTCT
Found at i:51529878 original size:5 final size:5
Alignment explanation
Indices: 51529868--51529923 Score: 78
Period size: 5 Copynumber: 11.2 Consensus size: 5
51529858 ATATATTAAT
* *
51529868 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA -TCAA TTTTAA ATCAA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA -TTCAA TTCAA
51529918 TTCAA T
1 TTCAA T
51529924 AATCAAAGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
4 4 0.09
5 38 0.84
6 3 0.07
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCAA
Found at i:51531522 original size:11 final size:11
Alignment explanation
Indices: 51531506--51531533 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
51531496 TATATATTAG
51531506 GTAACTACTTT
1 GTAACTACTTT
51531517 GTAACTACTTT
1 GTAACTACTTT
51531528 GTAACT
1 GTAACT
51531534 CATATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (11 bp):
GTAACTACTTT
Found at i:51534704 original size:17 final size:16
Alignment explanation
Indices: 51534675--51534722 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
51534665 AATATATTTC
51534675 TAAATAAATAATTATAT
1 TAAA-AAATAATTATAT
*
51534692 TAAAAAATAAATTAAAT
1 TAAAAAAT-AATTATAT
*
51534709 TATAAAATAATTAT
1 TAAAAAATAATTAT
51534723 TTTTAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAAAATAATTATAT
Found at i:51541151 original size:44 final size:45
Alignment explanation
Indices: 51541084--51541701 Score: 214
Period size: 44 Copynumber: 13.7 Consensus size: 45
51541074 TATAGCAAAC
* * * * *
51541084 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTA-CTAGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* * *
51541128 CTTATCTCCTTGAAGTTGTAGTGGAGCAGAATGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* *
51541173 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGTTATAAATTGC-AGAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-T-T--A--GCGA-AT
* * * * * * *
51541224 CTTATCTCTCTGAAGTTGCAGTAGAGCATA-T-CA--TAGCAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
** * ** * *
51541265 CTTATCTCTTTGAAGTTGCAGTAAAGCAGGTTGAAGATA-C-AAGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAA-T
* * * * *
51541309 CTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* * *
51541354 CTTAAT-TCCCTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTGC-AGAT
1 CTT-ATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG-T-T--A--GCGA-AT
* * * * * * *
51541405 CTTATCTCTCTGAAGTTGCAGTAGAGCATA-T-CA--TATCAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* * * * * * *
51541446 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA--TATCAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* * ** * * * * * *
51541487 CTTATCTCCCTAAAGTTGCAGTGGAATAGGTTAAAAATAAACCAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATT-GAAGTTAGCGAAT
* * * * ** *
51541533 CTTATCTCCTTGAAGGTGCAGTGGAGCATATTGAAGACAGGATACAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTA-G---CGAAT
* * * ** * *
51541582 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-CAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* * *
51541626 CTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGCTA-CTAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
* * * *
51541670 CCTATCTCCCTGAAATTGTAATGGAGCGGATT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATT
51541702 AAAACGATAA
Statistics
Matches: 448, Mismatches: 91, Indels: 70
0.74 0.15 0.11
Matches are distributed among these distances:
41 95 0.21
42 4 0.01
43 5 0.01
44 136 0.30
45 72 0.16
46 33 0.07
47 2 0.00
49 41 0.09
50 6 0.01
51 54 0.12
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGTTAGCGAAT
Found at i:51541207 original size:89 final size:89
Alignment explanation
Indices: 51541075--51541683 Score: 307
Period size: 89 Copynumber: 6.8 Consensus size: 89
51541065 ATTGAAGATT
* * *
51541075 ATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTC-CTT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTACTAGTCTTATCTCTC-T
*
51541139 GAAGTTGTAGTGGAGCAGAATGAAG
65 GAAGTTGCAGTGGAGCAGAATGAAG
* * * * *
51541164 ATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGTTATAAATTGCAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-T-T--ACT--AG-TCTTAT
* **
51541229 CTCTCTGAAGTTGCAGT--AG-AGCAT-ATC
59 CTCTCTGAAGTTGCAGTGGAGCAGAATGAAG
** * * * *
51541256 ATAGCAAACCTTATCTCTTTGAAGTTGCAGT-AAAGCAGGTTGAAGATACAAGTCTTATCTCTCT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGTTACTAGTCTTATCTCTCT
51541320 GAAGTTGCAGTGGAGCA-AACTGAAG
65 GAAGTTGCAGTGGAGCAGAA-TGAAG
* * * *
51541345 ATAGCGAATCTTAAT-TCCCTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTGCAGATCTTA
1 ATAGCAAACCTT-ATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-T-T--ACT--AG-TCTTA
* **
51541409 TCTCTCTGAAGTTGCAGT--AG-AGCAT-ATC
58 TCTCTCTGAAGTTGCAGTGGAGCAGAATGAAG
* * * * * * * ** *
51541437 ATATCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CA--TATCAAACCTTATCTCCCT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTA-CTAGTCTTATCTCTCT
* ** ** * *
51541498 AAAGTTGCAGTGGAATAGGTTAAAA
65 GAAGTTGCAGTGGAGCAGAATGAAG
* * * * * * * * * *
51541523 ATAAACCAATCTTATCTCCTTGAAGGTGCAGTGGAGCATATTGAAGACAGGATACAAATCTTATC
1 AT-AGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATT---GA-A-GTTACTAGTCTTATC
* *
51541588 TCTCTGAAGTTGCAGTGGAGCAGATTAAAG
60 TCTCTGAAGTTGCAGTGGAGCAGAATGAAG
** * * * * * * *
51541618 CCA-CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGCTACTAATCCTATCTCCCTG
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTACTAGTCTTATCTCTCTG
51541682 AA
66 AA
51541684 ATTGTAATGG
Statistics
Matches: 396, Mismatches: 84, Indels: 81
0.71 0.15 0.14
Matches are distributed among these distances:
82 20 0.05
83 1 0.00
84 2 0.01
85 26 0.07
86 6 0.02
87 33 0.08
88 23 0.06
89 72 0.18
90 9 0.02
91 7 0.02
92 66 0.17
93 41 0.10
94 6 0.02
95 38 0.10
96 45 0.11
97 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTACTAGTCTTATCTCTCTG
AAGTTGCAGTGGAGCAGAATGAAG
Found at i:51541281 original size:41 final size:42
Alignment explanation
Indices: 51541222--51541508 Score: 206
Period size: 41 Copynumber: 6.6 Consensus size: 42
51541212 TAAATTGCAG
51541222 ATCTTATCTCTCTGAAGTTGCAGTAGAGCA-TATCATAGCAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGTATCATAGCAA
* * * **
51541263 ACCTTATCTCTTTGAAGTTGCAGTAAAGCAGGTTGAAGATA-CAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCA-G-T-ATCATAGCAA
* * * ** *
51541307 GTCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGC--AGT-ATCATAGCAA
* * * * *
51541352 ATCTTAAT-TCCCTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTGCAG
1 ATCTT-ATCTCTCTGAAGTTGCAGT---A--GA--GCAG-TAT-CATAGCAA
*
51541403 ATCTTATCTCTCTGAAGTTGCAGTAGAGCA-TATCATATCAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGTATCATAGCAA
*
51541444 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAG-ATCATATCAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGTATCATAGCAA
* * *
51541485 ACCTTATCTCCCTAAAGTTGCAGT
1 ATCTTATCTCTCTGAAGTTGCAGT
51541509 GGAATAGGTT
Statistics
Matches: 196, Mismatches: 31, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
41 92 0.47
42 3 0.02
44 38 0.19
45 25 0.13
46 5 0.03
48 1 0.01
50 6 0.03
51 25 0.13
52 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (42 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGTATCATAGCAA
Found at i:51541379 original size:181 final size:181
Alignment explanation
Indices: 51541075--51541474 Score: 642
Period size: 181 Copynumber: 2.2 Consensus size: 181
51541065 ATTGAAGATT
* * * * *
51541075 ATAGCAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACTAGTCTTATCTCCTTG
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCTCCTTG
* * *
51541140 AAGTTGTAGTGGAGCAGAATGAAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATT
66 AAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTAATTCCCTGAAGTTGCAGTGGAACAGATT
*
51541205 GAAGTTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATC
131 GAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATC
* *
51541256 ATAGCAAACCTTATCTCTTTGAAGTTGCAGTAAAGCAGGTTGAAGATACAAGTCTTATCT-CTCT
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCTCCT-T
*
51541320 GAAGTTGCAGTGGAGCA-AACTGAAGATAGCGAATCTTAATTCCCTGAAGTTGCAGTGGAACGGA
65 GAAGTTGCAGTGGAGCAGAA-TGAAGATAGCGAATCTTAATTCCCTGAAGTTGCAGTGGAACAGA
51541384 TTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATC
129 TTGAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATC
* *
51541437 ATATCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
1 ATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAG
51541475 ATCATATCAA
Statistics
Matches: 201, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
180 4 0.02
181 197 0.98
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (181 bp):
ATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGATACAAGTCTTATCTCCTTG
AAGTTGCAGTGGAGCAGAATGAAGATAGCGAATCTTAATTCCCTGAAGTTGCAGTGGAACAGATT
GAAGCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATATC
Found at i:51541831 original size:44 final size:44
Alignment explanation
Indices: 51541765--51541887 Score: 147
Period size: 45 Copynumber: 2.8 Consensus size: 44
51541755 ATAGCAAGTT
* **
51541765 TTATCTTCCTAAAATTGTAGTGGAACAGATTAAAACCACAAATC
1 TTATCTCCCTAAAATTACAGTGGAACAGATTAAAACCACAAATC
* * **
51541809 TTATCTCCCTAAAATTACAGTGGAGCAGATTGCAAACCATTAATC
1 TTATCTCCCTAAAATTACAGTGGAACAGATT-AAAACCACAAATC
* * *
51541854 TTATCTCTCTAAAGTTACAGTAGAACAGATTAAA
1 TTATCTCCCTAAAATTACAGTGGAACAGATTAAA
51541888 GCTACAAGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 29 0.44
45 37 0.56
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTAAAATTACAGTGGAACAGATTAAAACCACAAATC
Found at i:51542392 original size:22 final size:20
Alignment explanation
Indices: 51542356--51542395 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
51542346 GCCACCACCG
51542356 CCACGTCAACCTCCGTACCT
1 CCACGTCAACCTCCGTACCT
51542376 CCACGTCAGCACCTCCGTAC
1 CCACGTCA--ACCTCCGTAC
51542396 ACAGCTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.20, C:0.50, G:0.12, T:0.17
Consensus pattern (20 bp):
CCACGTCAACCTCCGTACCT
Found at i:51543498 original size:60 final size:60
Alignment explanation
Indices: 51543379--51543490 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
51543369 TATCATTCTC
* * * *
51543379 TTACTTTTAAAATATTTAAATCTAATATTAGGTATTATTTTATCTATCTATTTATTTTTT
1 TTACTCTTAAAATATTTAAATCTAACATTAGGTATCATATTATCTATCTATTTATTTTTT
*
51543439 TTACTCTTAAAATATTTAAA-CTTAACATTATGTATACATATT-T-TATCTATTT
1 TTACTCTTAAAATATTTAAATC-TAACATTAGGTAT-CATATTATCTATCTATTT
51543491 CGTTTTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 10 0.22
60 31 0.69
61 4 0.09
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (60 bp):
TTACTCTTAAAATATTTAAATCTAACATTAGGTATCATATTATCTATCTATTTATTTTTT
Found at i:51543624 original size:18 final size:17
Alignment explanation
Indices: 51543590--51543631 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
51543580 TCCCAAGAAC
51543590 TGTTTCATTTATTTTATT
1 TGTTT-ATTTATTTTATT
51543608 TGTTTATTTATTATTATT
1 TGTTTATTTATT-TTATT
*
51543626 TATTTA
1 TGTTTA
51543632 CAAATTGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (17 bp):
TGTTTATTTATTTTATT
Found at i:51543693 original size:90 final size:92
Alignment explanation
Indices: 51543519--51543709 Score: 350
Period size: 90 Copynumber: 2.1 Consensus size: 92
51543509 ATTTTTATTA
* *
51543519 TTATCTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTTTTTTTCCC
1 TTATTTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTTCTTTTCCC
51543584 AAGAACTGTTTCATTTATTTTATTTGT
66 AAGAACTGTTTCATTTATTTTATTTGT
51543611 TTATTTATTAT-TATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTC-TTTCTTTTCCC
1 TTATTTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTTCTTTTCCC
51543674 AAGAACTGTTTCATTTATTTTATTTGT
66 AAGAACTGTTTCATTTATTTTATTTGT
51543701 TTATTTATT
1 TTATTTATT
51543710 TAGTTTCAAT
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
90 46 0.47
91 41 0.42
92 10 0.10
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (92 bp):
TTATTTATTATGTATTTATTTACAAATTGCTCCTTTAACTTTTTCTTTCTTTCTTTTCTTTTCCC
AAGAACTGTTTCATTTATTTTATTTGT
Found at i:51545272 original size:123 final size:119
Alignment explanation
Indices: 51545099--51545400 Score: 437
Period size: 123 Copynumber: 2.5 Consensus size: 119
51545089 ATTTTTTTTT
* *
51545099 AAAAAG-AGAAAGTTTAGATTTTTTAAAAATAAAAATATGTTTTTAGTCATTTTAAAGGAAAAAC
1 AAAAAGAAAAAAGTTTAGA-TTTTTAAAAATAAAAATATGTTTTTATTCATTTTAAAGGAAAAAC
*
51545163 TATTTCGAAATAAAAGTTTTGATCTTTTAGAAAAGTAGTGATTTTTTTAAAAGAA
65 TATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAA
*
51545218 AAAAAGAAGAAGGAAGTTTAGATTTTTAAAAATAAAAATATGCTTTTTATTCATTTTAAAGGGAA
1 AAAAAGAA-AA--AAGTTTAGATTTTTAAAAATAAAAATATG-TTTTTATTCATTTTAAAGGAAA
* * *
51545283 AACTATTTTGAAATAAAAGTTTTGATCTTTAAGAAAAGTTGTGCTTTTTTTAAAAGAA
62 AACTATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAA
* * * *
51545341 AAAAAGAATAAA-TTTTGATTTTTAAAAATAAAAATAATTTTTTTTTTCATTTTAAAGGAA
1 AAAAAGAAAAAAGTTTAGATTTTTAAAAATAAAAAT-ATGTTTTTATTCATTTTAAAGGAA
51545401 TGTTTAAAAT
Statistics
Matches: 165, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
119 47 0.28
120 5 0.03
121 1 0.01
122 21 0.13
123 91 0.55
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (119 bp):
AAAAAGAAAAAAGTTTAGATTTTTAAAAATAAAAATATGTTTTTATTCATTTTAAAGGAAAAACT
ATTTCGAAATAAAAGTTTTGATCTTTAAGAAAAGTAGTGATTTTTTTAAAAGAA
Found at i:51545567 original size:157 final size:155
Alignment explanation
Indices: 51545281--51545809 Score: 681
Period size: 157 Copynumber: 3.4 Consensus size: 155
51545271 TTTTAAAGGG
* * * * *
51545281 AAAACTATTTTGAAATAAAAGTTTTGATCTTTAAGAAAAGTTGTGCTTTTTTTAAAAG--AAAAA
1 AAAACTATTTCGAAAT-AAAGCTTTGATTTTTAAGAAAAGTAGTG-ATTTTTTAAAAGAAAAAAA
* * * * * *
51545344 AAGAATAAATTTTGATTTTTAAAAATAAAAATAAT-TTTTTTT-TTCATTTTAAAGGAATGTTTA
64 AAGGAGAAATTTAGATTTTAAAAAATAAAAAT-ATGTTTTTTTAGTCATTTTAAAGGAAAGTTTA
* *
51545407 AAATTTTAAAACAAAGTTTTAATCTTTT
128 AAATTTTAAAATAAAGTTTTGATCTTTT
* *
51545435 AAAACTATTTCGAAATAAAGCTTTGGTTTTTAAGAAATGTAGTGATTTTTTAAAAGAAAAAGAAA
1 AAAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAGTAGTGATTTTTTAAAAGAAAAA-AAA
51545500 AGGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
65 AGGAGAAA-TTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAA
51545565 AATTTTAAAATAAAGTTTTGATCTTTT
129 AATTTTAAAATAAAGTTTTGATCTTTT
* ** *
51545592 TAAACTATTTCGAAATAAAATTTTGATTTTTAAGAAAAGTAATGATTTTTTAAAAGAAAAAAAAA
1 AAAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAGTAGTGATTTTTTAAAAGAAAAAAAAA
* * * *
51545657 AGAGAAAATTTAGATTTTAAAAAATCAAAATATGTTTTTTTTAGTCATTTTAAA-TAAATTTTTA
66 GGAG-AAATTTAGATTTTAAAAAATAAAAATATG-TTTTTTTAGTCATTTTAAAGGAAA-GTTTA
*
51545721 AAATTTTAAAATAAAGTTATGATCTTTT
128 AAATTTTAAAATAAAGTTTTGATCTTTT
** * * *
51545749 TCAATTATTTCTAAATAAAGCTTTGATTTTTAAGAAAATTAGTGATTTTTTTAAAAGAAAA
1 AAAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAGTAGTGA-TTTTTTAAAAGAAAA
51545810 CTTTGATTTT
Statistics
Matches: 332, Mismatches: 33, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
152 11 0.03
153 23 0.07
154 18 0.05
155 11 0.03
156 63 0.19
157 191 0.58
158 15 0.05
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (155 bp):
AAAACTATTTCGAAATAAAGCTTTGATTTTTAAGAAAAGTAGTGATTTTTTAAAAGAAAAAAAAA
GGAGAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAAA
TTTTAAAATAAAGTTTTGATCTTTT
Found at i:51561971 original size:17 final size:16
Alignment explanation
Indices: 51561943--51561996 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
51561933 GAATTTTTTT
*
51561943 ATTTGAAAACACAAGA
1 ATTTTAAAACACAAGA
51561959 ATTTTAGAAACACGAA-A
1 ATTTTA-AAACAC-AAGA
*
51561976 ATTTTAAAACCCAAGA
1 ATTTTAAAACACAAGA
51561992 ATTTT
1 ATTTT
51561997 TTTGAAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 16 0.48
17 13 0.39
18 2 0.06
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (16 bp):
ATTTTAAAACACAAGA
Found at i:51562016 original size:17 final size:17
Alignment explanation
Indices: 51561944--51562279 Score: 102
Period size: 17 Copynumber: 18.8 Consensus size: 17
51561934 AATTTTTTTA
51561944 TTTGAAAACAC-AAGAAT
1 TTTGAAAACACGAA-AAT
51561961 TTT-AGAAACACGAAAAT
1 TTTGA-AAACACGAAAAT
*
51561978 TTT-AAAAC-CCAAGAATTTT
1 TTTGAAAACACGAA-AA---T
51561997 TTTGAAAACACGAAAAT
1 TTTGAAAACACGAAAAT
* * *
51562014 TTTTAAAACATGAGAATTT
1 TTTGAAAACACGA-AA-AT
51562033 TTTGAAAACACGAAAATT
1 TTTGAAAACACGAAAA-T
* **
51562051 TTTG-AAACATGAATTTTT
1 TTTGAAAACACGAA--AAT
51562069 TTTGAAAACACGAAAAT
1 TTTGAAAACACGAAAAT
* * ***
51562086 TTATG-AAGCATGATTTTTTT
1 TT-TGAAAACACGA---AAAT
51562106 TTTGAAAACACGAAAAT
1 TTTGAAAACACGAAAAT
* **
51562123 TTATGAAATGCGA-GAATTTTTT
1 TT-TGAAA-AC-ACGAA---AAT
*
51562145 TTTGAAAACTC--AAAT
1 TTTGAAAACACGAAAAT
***
51562160 TTTTTTAACACGAAAAT
1 TTTGAAAACACGAAAAT
**
51562177 TGTTGAAAACACGAACTT
1 T-TTGAAAACACGAAAAT
* *
51562195 TTTTAAAACACGAAATTTT
1 TTTGAAAACACGAAA--AT
*
51562214 TTTGAAAACACGGAAATT
1 TTTGAAAACAC-GAAAAT
*
51562232 TTTGAAATAC-CGAAATT
1 TTTGAAA-ACACGAAAAT
*
51562249 TTTGAAAGCAC-AAAGATT
1 TTTGAAAACACGAAA-A-T
51562267 TTTG-AAACACGAA
1 TTTGAAAACACGAA
51562280 TTTTTTGATT
Statistics
Matches: 236, Mismatches: 46, Indels: 73
0.66 0.13 0.21
Matches are distributed among these distances:
15 11 0.05
16 11 0.05
17 84 0.36
18 53 0.22
19 44 0.19
20 22 0.09
21 8 0.03
22 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTGAAAACACGAAAAT
Found at i:51562234 original size:36 final size:36
Alignment explanation
Indices: 51561966--51562285 Score: 255
Period size: 36 Copynumber: 8.9 Consensus size: 36
51561956 AGAATTTTAG
* *
51561966 AAACACGAAAA-TTTTAAAACCCAAGAATTTTTTTGA
1 AAACACGAAAATTTTTAAAACACGA-AATTTTTTTGA
*
51562002 AAACACGAAAATTTTTAAAACATGAGAA-TTTTTTGA
1 AAACACGAAAATTTTTAAAACACGA-AATTTTTTTGA
* * *
51562038 AAACACGAAAATTTTTGAAACATGAATTTTTTTTGA
1 AAACACGAAAATTTTTAAAACACGAAATTTTTTTGA
* * * * **
51562074 AAACACGAAAATTTATGAAGCATGATTTTTTTTTTGA
1 AAACACGAAAATTTTTAAAACACGA-AATTTTTTTGA
* * **
51562111 AAACACGAAAATTTATGAAATGCGAGAATTTTTTTTTGA
1 AAACACGAAAATTTTTAAAACACGA-AA--TTTTTTTGA
* ** * *
51562150 AAACTC--AAATTTTTTTAACACGAAA-ATTGTTGA
1 AAACACGAAAATTTTTAAAACACGAAATTTTTTTGA
**
51562183 AAACACGAACTTTTTTAAAACACGAAATTTTTTTGA
1 AAACACGAAAATTTTTAAAACACGAAATTTTTTTGA
*
51562219 AAACACGGAAATTTTTGAAATAC-CGAAA--TTTTTGA
1 AAACACGAAAATTTTT-AAA-ACACGAAATTTTTTTGA
* *
51562254 AAGCAC-AAAGATTTTTGAAACACG-AATTTTTT
1 AAACACGAAA-ATTTTTAAAACACGAAATTTTTT
51562286 GATTTTTCCT
Statistics
Matches: 234, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
33 15 0.06
34 6 0.03
35 38 0.16
36 95 0.41
37 64 0.27
38 2 0.01
39 14 0.06
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (36 bp):
AAACACGAAAATTTTTAAAACACGAAATTTTTTTGA
Found at i:51562285 original size:17 final size:17
Alignment explanation
Indices: 51561990--51562285 Score: 107
Period size: 18 Copynumber: 16.5 Consensus size: 17
51561980 TAAAACCCAA
51561990 GAATTTTTTTGAAAACAC
1 GAATTTTTTTG-AAACAC
** * *
51562008 GAAAATTTTTAAAACAT
1 GAATTTTTTTGAAACAC
*
51562025 GAGAATTTTTTGAAAACAC
1 GA-ATTTTTTTG-AAACAC
** *
51562044 GAAAATTTTTGAAACAT
1 GAATTTTTTTGAAACAC
51562061 GAATTTTTTTTGAAAACAC
1 GAA-TTTTTTTG-AAACAC
** * * *
51562080 GAAAATTTATGAAGCAT
1 GAATTTTTTTGAAACAC
*
51562097 GATTTTTTTTTTGAAAACAC
1 GA--ATTTTTTTG-AAACAC
** *
51562117 GAAAATTTATGAAATGCGA-
1 GAATTTTTTTGAAA--C-AC
*
51562136 GAATTTTTTTTTGAAAACTC
1 GAA--TTTTTTTG-AAACAC
*
51562156 AAATTTTTTT--AACAC
1 GAATTTTTTTGAAACAC
** *
51562171 GAAAATTGTTGAAAACAC
1 GAATTTTTTTG-AAACAC
* *
51562189 GAACTTTTTTAAAACAC
1 GAATTTTTTTGAAACAC
51562206 GAAATTTTTTTGAAAACAC
1 G-AATTTTTTTG-AAACAC
* *
51562225 GGAA-ATTTTTGAAATACC
1 -GAATTTTTTTGAAACA-C
*
51562243 GAA-ATTTTTGAAAGCAC
1 GAATTTTTTTGAAA-CAC
* **
51562260 AAAGATTTTTGAAACAC
1 GAATTTTTTTGAAACAC
51562277 GAATTTTTT
1 GAATTTTTT
51562286 GATTTTTCCT
Statistics
Matches: 205, Mismatches: 50, Indels: 47
0.68 0.17 0.16
Matches are distributed among these distances:
15 10 0.05
17 60 0.29
18 84 0.41
19 32 0.16
20 11 0.05
21 5 0.02
22 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (17 bp):
GAATTTTTTTGAAACAC
Found at i:51562989 original size:6 final size:6
Alignment explanation
Indices: 51562980--51563081 Score: 84
Period size: 6 Copynumber: 16.3 Consensus size: 6
51562970 TATTTTTATT
* *
51562980 TTTTTC TTTTT- TCTTCTC TTTTTC TTTTTTC TTTTTTC TTTCTC TTTTTC
1 TTTTTC TTTTTC T-TTTTC TTTTTC -TTTTTC -TTTTTC TTTTTC TTTTTC
* *
51563030 TTCTTTC TTTTTTTC TTCTTTC TTTTTC --TTTC TTTTTC TTCTTC TTCTTC
1 TT-TTTC --TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
51563080 TT
1 TT
51563082 CTTTGGGCCG
Statistics
Matches: 82, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
4 4 0.05
5 1 0.01
6 47 0.57
7 24 0.29
8 4 0.05
9 2 0.02
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:51562989 original size:7 final size:7
Alignment explanation
Indices: 51562979--51563060 Score: 77
Period size: 7 Copynumber: 12.4 Consensus size: 7
51562969 TTATTTTTAT
51562979 TTTTTTC
1 TTTTTTC
51562986 TTTTTTC
1 TTTTTTC
*
51562993 --TTCTC
1 TTTTTTC
51562998 -TTTTTC
1 TTTTTTC
51563004 TTTTTTC
1 TTTTTTC
51563011 TTTTTTC
1 TTTTTTC
*
51563018 -TTTCTC
1 TTTTTTC
51563024 -TTTTTC
1 TTTTTTC
*
51563030 TTCTTTC
1 TTTTTTC
51563037 TTTTTTTC
1 -TTTTTTC
*
51563045 TTCTTTC
1 TTTTTTC
51563052 -TTTTTC
1 TTTTTTC
51563058 TTT
1 TTT
51563061 CTTTTTCTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
5 4 0.06
6 19 0.31
7 33 0.53
8 6 0.10
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:51563008 original size:26 final size:26
Alignment explanation
Indices: 51562979--51563085 Score: 130
Period size: 25 Copynumber: 4.1 Consensus size: 26
51562969 TTATTTTTAT
51562979 TTTTTTCTTTTTTCTTC-TCTTTTTC
1 TTTTTTCTTTTTTCTTCTTCTTTTTC
51563004 TTTTTTCTTTTTTCTT-TCTCTTTTTC
1 TTTTTTCTTTTTTCTTCT-TCTTTTTC
*
51563030 TTCTTTCTTTTTTTCTTCTTTCTTTTTC
1 TTTTTTC-TTTTTTCTTC-TTCTTTTTC
* * *
51563058 TTTCTT-TTTCTTCTTCTTCTTCTTC
1 TTTTTTCTTTTTTCTTCTTCTTTTTC
51563083 TTT
1 TTT
51563086 GGGCCGAACC
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
25 27 0.38
26 23 0.32
27 9 0.12
28 12 0.17
29 1 0.01
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTTCTTTTTTCTTCTTCTTTTTC
Found at i:51563016 original size:15 final size:15
Alignment explanation
Indices: 51562972--51563066 Score: 81
Period size: 15 Copynumber: 6.3 Consensus size: 15
51562962 TGTTATATTA
*
51562972 TTTTTATTTTTTTCT
1 TTTTTCTTTTTTTCT
51562987 TTTTTCTTCTCTTTTTCT
1 TTTTTC-T-T-TTTTTCT
51563005 TTTTTC-TTTTTTC-
1 TTTTTCTTTTTTTCT
*
51563018 --TTTCTCTTTTTCT
1 TTTTTCTTTTTTTCT
*
51563031 TCTTTCTTTTTTTCT
1 TTTTTCTTTTTTTCT
*
51563046 TCTTTCTTTTTCTTTCT
1 TTTTTC-TTTT-TTTCT
51563063 TTTT
1 TTTT
51563067 CTTCTTCTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
11 4 0.06
12 6 0.09
14 6 0.09
15 24 0.36
16 5 0.07
17 9 0.13
18 13 0.19
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTTTCT
Found at i:51563031 original size:44 final size:42
Alignment explanation
Indices: 51562980--51563085 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 42
51562970 TATTTTTATT
*
51562980 TTTTTCTTTTTTCTTCTCTTTTTCTTTTTTCTTTTTTCTTTCTC
1 TTTTTCTTTTTTCTTCT-TTTTTCTTCTTTC-TTTTTCTTTCTC
* *
51563024 TTTTTCTTCTTTC-T-TTTTTTCTTCTTTCTTTTTCTTTCTT
1 TTTTTCTTTTTTCTTCTTTTTTCTTCTTTCTTTTTCTTTCTC
51563064 TTTCTTCTTCTTCTTCTTCTTT
1 TTT-TTCTT-TT-TTCTTCTTT
51563086 GGGCCGAACC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
40 14 0.26
41 17 0.32
42 2 0.04
43 4 0.08
44 13 0.25
45 3 0.06
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (42 bp):
TTTTTCTTTTTTCTTCTTTTTTCTTCTTTCTTTTTCTTTCTC
Found at i:51563083 original size:15 final size:15
Alignment explanation
Indices: 51562986--51563085 Score: 85
Period size: 15 Copynumber: 7.1 Consensus size: 15
51562976 TATTTTTTTC
51562986 TTTT-TTCTTC-TCT
1 TTTTCTTCTTCTTCT
51562999 TTTTCTT-TT-TTC-
1 TTTTCTTCTTCTTCT
51563011 TTTT-TTCTT-TCTCT
1 TTTTCTTCTTCT-TCT
51563025 TTTTCTTC-T-TTCT
1 TTTTCTTCTTCTTCT
51563038 TTTT-TTCTTCTTTCT
1 TTTTCTTCTTC-TTCT
*
51563053 TTTTCTTTCTTTTTCT
1 TTTTC-TTCTTCTTCT
*
51563069 TCTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCT
51563084 TT
1 TT
51563086 GGGCCGAACC
Statistics
Matches: 72, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
11 2 0.03
12 10 0.14
13 18 0.25
14 8 0.11
15 21 0.29
16 8 0.11
17 5 0.07
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTCTTCTTCT
Found at i:51563201 original size:14 final size:14
Alignment explanation
Indices: 51563182--51563229 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
51563172 TCTTCTCCTC
51563182 TCTTTTTCTTCTTT
1 TCTTTTTCTTCTTT
51563196 TCTTTTTCTTCTTT
1 TCTTTTTCTTCTTT
*
51563210 GCTTGTTT-TT-TTT
1 TCTT-TTTCTTCTTT
51563223 TCTTTTT
1 TCTTTTT
51563230 GTTTGTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 3 0.10
13 6 0.19
14 19 0.61
15 3 0.10
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (14 bp):
TCTTTTTCTTCTTT
Found at i:51563221 original size:20 final size:22
Alignment explanation
Indices: 51563198--51563251 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
51563188 TCTTCTTTTC
51563198 TTTTTCTTCTTTGCTTGTTT-T
1 TTTTTCTTCTTTGCTTGTTTGT
*
51563219 TTTTTCTT-TTTGTTTG-TTGT
1 TTTTTCTTCTTTGCTTGTTTGT
51563239 TTTTT-TTCTTTGC
1 TTTTTCTTCTTTGC
51563252 CCTTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 17 0.59
21 8 0.28
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (22 bp):
TTTTTCTTCTTTGCTTGTTTGT
Found at i:51563245 original size:27 final size:27
Alignment explanation
Indices: 51563184--51563249 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
51563174 TTCTCCTCTC
*
51563184 TTTTTCTTCTTTTCTTTTTCTTCTTTG
1 TTTTTTTTCTTTTCTTTTTCTTCTTTG
* *
51563211 CTTGTTTTT-TTTTCTTTTTGTT-TGTTG
1 -TTTTTTTTCTTTTCTTTTTCTTCT-TTG
51563238 TTTTTTTTCTTT
1 TTTTTTTTCTTT
51563250 GCCCTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.25
27 18 0.56
28 6 0.19
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (27 bp):
TTTTTTTTCTTTTCTTTTTCTTCTTTG
Found at i:51563809 original size:29 final size:28
Alignment explanation
Indices: 51563749--51563877 Score: 109
Period size: 29 Copynumber: 4.5 Consensus size: 28
51563739 TTTCTGGGGA
* *
51563749 AAAATGTAATTTTAGGAAAATATG-GGGCC
1 AAAATGTAATTTTA-GAAAGT-TGAGGGTC
*
51563778 AAAATGTAATTTCTAGAAAGCTGAGGGTC
1 AAAATGTAATTT-TAGAAAGTTGAGGGTC
* * *
51563807 -AAATGTAATTTTCAAAAAGTTTAGGGGC
1 AAAATGTAATTTT-AGAAAGTTGAGGGTC
* * *
51563835 TAAATGTAATTTTTGAAAAGTTGAGGGGTT
1 AAAATGTAATTTTAG-AAAGTTGA-GGGTC
51563865 AAAATGTAATTTT
1 AAAATGTAATTTT
51563878 TATTTTTTTG
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
27 1 0.01
28 24 0.30
29 39 0.48
30 17 0.21
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.33
Consensus pattern (28 bp):
AAAATGTAATTTTAGAAAGTTGAGGGTC
Found at i:51564237 original size:25 final size:25
Alignment explanation
Indices: 51564203--51564252 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
51564193 GCAATATGAG
51564203 TTGATTTTTGGAAAATAGAAATTAA
1 TTGATTTTTGGAAAATAGAAATTAA
51564228 TTGATTTTTGGAAAATAGAAATTAA
1 TTGATTTTTGGAAAATAGAAATTAA
51564253 AATATACCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
TTGATTTTTGGAAAATAGAAATTAA
Found at i:51564369 original size:75 final size:75
Alignment explanation
Indices: 51564232--51564861 Score: 892
Period size: 75 Copynumber: 8.3 Consensus size: 75
51564222 AATTAATTGA
* * * * *
51564232 TTTTTGGAAAATAGAAATTAAAATATACCTCAGCATGTGACCCGAAGCTCAACTCACTTCTCGCA
1 TTTTTGAAAAACAGAAATTGAAA-ATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCA
51564297 ATATGAGTTGATT
63 ATATGAGTTGATT
* *
51564310 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCATTA
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
51564375 TGAGTTGATT
66 TGAGTTGATT
* * *
51564385 TTTTTTAAAAGCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAAATCACCTCTCGCAATA
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
*
51564450 TGATTTGATT
66 TGAGTTGATT
* * *
51564460 TTTTTCGAAAAGCAAAAATTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTTT-GAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
51564525 ATGAGTTG-GT
65 ATGAGTTGATT
51564535 TTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTTTGAAAAACAGAAATTG-AAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCA
51564600 ATATGAGTTGATT
63 ATATGAGTTGATT
* * *
51564613 TTTTTGAAAAACAGAAATAGAAAAATACCCCAG-GATGACCCGAGGCTCAACTCACCTCTCGCAT
1 TTTTTGAAAAACAGAAATTG-AAAATACCTCAGCG-TGACCCGAGGCTCAACTCACCTCTCGCAA
51564677 TATGAGTTGATT
64 TATGAGTTGATT
* * * *
51564689 TTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTTAACTCACTTCTCGCATTA
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
51564754 TGAGTTGA--
66 TGAGTTGATT
* * * *
51564762 TTTTTGAAAAATAGGAATTGAAAATACCTCAGGATGTGACCCAAGGCTCAACTCACCTCTCGCAA
1 TTTTTGAAAAACAGAAATTGAAAATACCTCA-G-CGTGACCCGAGGCTCAACTCACCTCTCGCAA
51564827 TATGAGTTGA-T
64 TATGAGTTGATT
51564838 TTTTTGAAAAACAGAAATTGAAAA
1 TTTTTGAAAAACAGAAATTGAAAA
51564862 ATATAATTCT
Statistics
Matches: 501, Mismatches: 41, Indels: 22
0.89 0.07 0.04
Matches are distributed among these distances:
73 28 0.06
74 14 0.03
75 215 0.43
76 143 0.29
77 49 0.10
78 52 0.10
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATT
Found at i:51564811 original size:303 final size:302
Alignment explanation
Indices: 51564228--51564864 Score: 987
Period size: 303 Copynumber: 2.1 Consensus size: 302
51564218 TAGAAATTAA
* * *
51564228 TTGA-TTTTTGGAAAATAGAAATT-AAAATATACCTCAGCATGTGACCCGAAGCTCAACTCACTT
1 TTGATTTTTTGAAAAACAGAAATTGAAAA-ATACCTCAGCATGTGACCCGAAGCTCAACTCACCT
* * *
51564291 CTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
65 CTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATAGAAAATACCCCAGCGTGACCCGAGGCT
* * *
51564356 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTTAAAAGCAGAAATTGAAAATACCTCAGCGTG
130 CAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTG
* *
51564421 ACCCGAGGCTCAAATCACCTCTCGCAATATGATTTGATTTTTTTCGAAAAGCAAAAATTGAAAAT
195 ACCCGAGGCTCAAATCACCTCTCGCAATATGAGTTGA-TTTTTTCGAAAAACAAAAATTGAAAAT
*
51564486 ACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
259 ACCTCAACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
* *
51564530 TTGGTTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTC
1 TTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAAGCTCAACTCACCTC
51564595 TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATAGAAAAATACCCCAG-GATGACCCGAGGC
66 TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATAG-AAAATACCCCAGCG-TGACCCGAGGC
51564659 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCGT
129 TCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCGT
* * * * * **
51564724 GACCCGAGGCTTAACTCACTTCTCGCATTATGAGTTGA-TTTTT-GAAAAATAGGAATTGAAAAT
194 GACCCGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTTCGAAAAACAAAAATTGAAAAT
*
51564787 ACCTCAGGATGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
259 ACCTCA--ACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
51564833 TTGATTTTTTGAAAAACAGAAATTGAAAAATA
1 TTGATTTTTTGAAAAACAGAAATTGAAAAATA
51564865 TAATTCTTGA
Statistics
Matches: 306, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
301 22 0.07
302 8 0.03
303 156 0.51
304 120 0.39
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (302 bp):
TTGATTTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCGAAGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATAGAAAATACCCCAGCGTGACCCGAGGCTC
AACTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGA
CCCGAGGCTCAAATCACCTCTCGCAATATGAGTTGATTTTTTCGAAAAACAAAAATTGAAAATAC
CTCAACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
Done.