Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 17 of 59
Found at i:6118106 original size:87 final size:84
Alignment explanation
Indices: 6117894--6118137 Score: 310
Period size: 87 Copynumber: 2.8 Consensus size: 84
6117884 CTCCTCATAA
* *
6117894 GAGGCTTTACAACTTTAAAAACAATTTGAAAAGATAAACAACTCCTCAT-TCAAGGTTTTACAAC
1 GAGGCTTTACAACTTTAAAAATAA-TTGAAAAGATAAACAACTCCTCATCT-GAGGTTTTACAAC
* *
6117958 TTTAAAAACAACTCCTGATCT
64 TTTAAAAAAAACTCCTAATCT
** * *
6117979 GAGGCTCCATAACTTTAAAAATAATATGAAAAGATAAACAACTACTCATCTGAGGTTTTACAACT
1 GAGGCTTTACAACTTTAAAAATAAT-TGAAAAGATAAACAACTCCTCATCTGAGGTTTTACAACT
6118044 TTAAAGATAAAACTCCTAATCT
65 TTAAA-A-AAAACTCCTAATCT
* * * * *
6118066 GAGGCTTTACAATTTTAAAAATATATTGAAAGGATCAACAACTCCTCATCCGAGGCTTTACAACT
1 GAGGCTTTACAACTTTAAAAATA-ATTGAAAAGATAAACAACTCCTCATCTGAGGTTTTACAACT
6118131 TTAAAAA
65 TTAAAAA
6118138 TGATTTAAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 61 0.45
86 3 0.02
87 70 0.51
88 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (84 bp):
GAGGCTTTACAACTTTAAAAATAATTGAAAAGATAAACAACTCCTCATCTGAGGTTTTACAACTT
TAAAAAAAACTCCTAATCT
Found at i:6118134 original size:51 final size:50
Alignment explanation
Indices: 6118046--6118187 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 50
6118036 TTACAACTTT
* * *
6118046 AAAGAT-AA-AACTCCTAATCTGAGGCTTTACAATTTTAAAAAT-ATATTGA
1 AAAGATAAACAACTCCTCATCCGAGGCTTTACAACTTTAAAAATGAT-TT-A
* *
6118095 AAGGATCAACAACTCCTCATCCGAGGCTTTACAACTTTAAAAATGATTTA
1 AAAGATAAACAACTCCTCATCCGAGGCTTTACAACTTTAAAAATGATTTA
* * * *
6118145 AAAGATAAACATCTCCTCATGCAAGGCTTTACAATCCTTAAAA
1 AAAGATAAACAACTCCTCATCCGAGGCTTTACAA-CTTTAAAA
6118188 TAAATATGTC
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
49 5 0.06
50 32 0.41
51 40 0.51
52 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (50 bp):
AAAGATAAACAACTCCTCATCCGAGGCTTTACAACTTTAAAAATGATTTA
Found at i:6120690 original size:5 final size:4
Alignment explanation
Indices: 6120665--6120743 Score: 54
Period size: 4 Copynumber: 19.0 Consensus size: 4
6120655 TTCCCTCTCT
*
6120665 TTTA TTTA TTTA TTTA TTTTA CTTTA TAT- TTTA TTTTA TTATAA TTTA
1 TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA -TTTA TT-T-A TTTA
* * * *
6120713 ATTA ATTA ATTA TTTA TTTA -TTA TTTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
6120744 AGTGTCTATA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
3 5 0.08
4 40 0.65
5 14 0.23
6 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:6121015 original size:62 final size:61
Alignment explanation
Indices: 6120945--6121486 Score: 688
Period size: 62 Copynumber: 8.9 Consensus size: 61
6120935 AATAAATTCG
6120945 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAA-AAA
* * * * *
6121007 ATTGAAATTTCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAA-AAA
* * **
6121069 ATTTAAAATTCCTAAACTTAATCTAGGCTCGTTCTATCTCACAACAGGTTCGATTT----AA
1 A-TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAAA
* **
6121127 ATT-AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATT
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAA-AAA
* *
6121188 GTTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT--AAAT
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAAA
* * * * * *
6121247 ATTGAAATTTCTAAACTTAATTTAGGCTCAACCTATCTCATAACAGGTTTGATTTAAACAAA
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAA-AAA
* *
6121309 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT--AAAT
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAAA
* * * * * **
6121368 ATTAAAATTTCTAAACTTAATTTAGGCTCGACCTATTTCATAACAGGTTCAATTTAAATATT
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAA-AAA
* *
6121430 GTTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
1 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
6121487 CTCTTTAATG
Statistics
Matches: 417, Mismatches: 50, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
56 48 0.12
57 2 0.00
58 3 0.01
59 101 0.24
60 2 0.00
61 4 0.01
62 210 0.50
63 47 0.11
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (61 bp):
ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAAA
Found at i:6121314 original size:121 final size:121
Alignment explanation
Indices: 6120945--6121486 Score: 811
Period size: 121 Copynumber: 4.5 Consensus size: 121
6120935 AATAAATTCG
* *
6120945 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
1 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT--A-AATATT
*
6121010 GAAATTTCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
63 GAAATTTCTAAACTTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
* **
6121069 ATTTAAAATTCCTAAACTTAATCTAGGCTCGTTCTATCTCACAACAGGTTCGATTT-AA-ATT-A
1 A-TTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTGA
* * * * * **
6121131 AATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATT
65 AATTTCTAAACTTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
* *
6121188 GTTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTGAA
1 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTGAA
* *
6121253 ATTTCTAAACTTAATTTAGGCTCAACCTATCTCATAACAGGTTTGATTTAAACAAA
66 ATTTCTAAACTTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
*
6121309 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTAAA
1 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTGAA
* * * **
6121374 ATTTCTAAACTTAATTTAGGCTCGACCTATTTCATAACAGGTTCAATTTAAATATT
66 ATTTCTAAACTTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
*
6121430 GTTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
1 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
6121487 CTCTTTAATG
Statistics
Matches: 377, Mismatches: 37, Indels: 11
0.89 0.09 0.03
Matches are distributed among these distances:
118 50 0.13
119 52 0.14
120 6 0.02
121 218 0.58
124 1 0.00
125 50 0.13
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (121 bp):
ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTGAA
ATTTCTAAACTTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
Found at i:6121451 original size:242 final size:240
Alignment explanation
Indices: 6120946--6121486 Score: 895
Period size: 242 Copynumber: 2.2 Consensus size: 240
6120936 ATAAATTCGA
6120946 TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTG
1 TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT--A-AAAATTG
*
6121011 AAATTTCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAAATTTAAA
63 AAATTTCTAAACTAAATTTAGGCTCAACCTATCTCATAACAGGTTCGATTTAAACAAAATTTAAA
** *
6121076 ATTCCTAAACTTAATCTAGGCTCGTTCTATCTCACAACAGGTTCGATTTAAATTAAATTCCTAGA
128 ATTCCTAAACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATTAAATTCCTAAA
*
6121141 CTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTG
193 CTTAATCTAGGCTCGACCTATCTCACAACAGGTTCAATTTAAATATTG
*
6121189 TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTGAAA
1 TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAA
* *
6121254 TTTCTAAACTTAATTTAGGCTCAACCTATCTCATAACAGGTTTGATTTAAACAAAA-TTAAAATT
66 TTTCTAAACTAAATTTAGGCTCAACCTATCTCATAACAGGTTCGATTTAAACAAAATTTAAAATT
* *
6121318 CCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATATTAAAATTTCTAAA
131 CCTAAACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTT-AA-ATT-AAATTCCTAAA
* * *
6121383 CTTAATTTAGGCTCGACCTATTTCATAACAGGTTCAATTTAAATATTG
193 CTTAATCTAGGCTCGACCTATCTCACAACAGGTTCAATTTAAATATTG
*
6121431 TTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
1 TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
6121487 CTCTTTAATG
Statistics
Matches: 281, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
239 51 0.18
240 64 0.23
241 4 0.01
242 108 0.38
243 54 0.19
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (240 bp):
TTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAA
TTTCTAAACTAAATTTAGGCTCAACCTATCTCATAACAGGTTCGATTTAAACAAAATTTAAAATT
CCTAAACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAATTAAATTCCTAAACTT
AATCTAGGCTCGACCTATCTCACAACAGGTTCAATTTAAATATTG
Found at i:6136311 original size:129 final size:129
Alignment explanation
Indices: 6136152--6136384 Score: 457
Period size: 129 Copynumber: 1.8 Consensus size: 129
6136142 CTCCTTCTCC
6136152 CGCCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCGATCGGGTGCTTCTGCTCTCTTC
1 CGCCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCGATCGGGTGCTTCTGCTCTCTTC
6136217 CCTGTGCCAGGTCCGGTGGAGCGACGGTCGGGCTTCCTCGACCGCCGATCTGTTGGAGGACCCA
66 CCTGTGCCAGGTCCGGTGGAGCGACGGTCGGGCTTCCTCGACCGCCGATCTGTTGGAGGACCCA
6136281 CGCCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCGATCGGGTGCTTCTGCTCTCTTC
1 CGCCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCGATCGGGTGCTTCTGCTCTCTTC
*
6136346 CCTGTGCCGGGTCCGGTGGAGCGACGGTCGGGCTTCCTC
66 CCTGTGCCAGGTCCGGTGGAGCGACGGTCGGGCTTCCTC
6136385 TCTCTCACCC
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 103 1.00
ACGTcount: A:0.10, C:0.39, G:0.30, T:0.21
Consensus pattern (129 bp):
CGCCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCGATCGGGTGCTTCTGCTCTCTTC
CCTGTGCCAGGTCCGGTGGAGCGACGGTCGGGCTTCCTCGACCGCCGATCTGTTGGAGGACCCA
Found at i:6143860 original size:23 final size:23
Alignment explanation
Indices: 6143834--6143883 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6143824 TATCATTATT
* *
6143834 TATTATTATTTATTAT-TTATAAA
1 TATTATTATATATT-TGTAATAAA
6143857 TATTATTATATATTTGTAATAAA
1 TATTATTATATATTTGTAATAAA
6143880 TATT
1 TATT
6143884 TTCCTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATTATATATTTGTAATAAA
Found at i:6144627 original size:129 final size:129
Alignment explanation
Indices: 6144397--6144651 Score: 465
Period size: 129 Copynumber: 2.0 Consensus size: 129
6144387 TCCCCTTGGC
6144397 CGCCGATCTGTTGGAGGACCCACACCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCG
1 CGCCGATCTGTTGGAGGACCCACACCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCG
* *
6144462 ATCGGGTGCTTCTGCTCTCTTCCCTGTGTCGTGTCCGGTGGAGCGACGGTCAGGCTTCCTCGGT
66 ATCGGGTGCTTCTGCTCTCTTCCCTGTGCCGGGTCCGGTGGAGCGACGGTCAGGCTTCCTCGGT
* *
6144526 CGCCGATCTGTTGGAGGACCCACGCCGACGAACTCTTCCTGCCGGCGCGAACCCCCTTGGCACCG
1 CGCCGATCTGTTGGAGGACCCACACCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCG
*
6144591 ATCGGGTGCTTCTGCTCTCTTCCCTGTGCCGGGTCCGGTGGAGCGACGGTCGGGCTTCCTC
66 ATCGGGTGCTTCTGCTCTCTTCCCTGTGCCGGGTCCGGTGGAGCGACGGTCAGGCTTCCTC
6144652 TCTCTCACCC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.11, C:0.37, G:0.30, T:0.22
Consensus pattern (129 bp):
CGCCGATCTGTTGGAGGACCCACACCGACGAACTCCTCCTGCCGGCGCGAACCCCCTTGGCACCG
ATCGGGTGCTTCTGCTCTCTTCCCTGTGCCGGGTCCGGTGGAGCGACGGTCAGGCTTCCTCGGT
Found at i:6148855 original size:2 final size:2
Alignment explanation
Indices: 6148848--6148881 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6148838 ATTTGAACCC
6148848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6148882 TGGTATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6149032 original size:94 final size:94
Alignment explanation
Indices: 6148870--6149057 Score: 351
Period size: 94 Copynumber: 2.0 Consensus size: 94
6148860 ATATATATAT
6148870 ATATATATATATTGGTATGATAGCATTTTAAGAATGTTTGACTTTCAATCATGGTCCCCTGCAAA
1 ATATATATATATTGGTATGATAGCATTTTAAGAATGTTTGACTTTCAATCATGGTCCCCTGCAAA
6148935 AAAAAAAAAAAAGTTATGGCTTCACTCTC
66 AAAAAAAAAAAAGTTATGGCTTCACTCTC
*
6148964 NATATATA-ATATTTGTATGATAGCATTTTAAGAATGTTTGACTTTCAATCATGGTCCCCTGCAA
1 -ATATATATATATTGGTATGATAGCATTTTAAGAATGTTTGACTTTCAATCATGGTCCCCTGCAA
6149028 AAAAAAAAAAAAAGTTATGGCTTCACTCTC
65 AAAAAAAAAAAAAGTTATGGCTTCACTCTC
6149058 TAGCCTTTTC
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 85 0.92
95 7 0.08
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (94 bp):
ATATATATATATTGGTATGATAGCATTTTAAGAATGTTTGACTTTCAATCATGGTCCCCTGCAAA
AAAAAAAAAAAAGTTATGGCTTCACTCTC
Found at i:6159698 original size:196 final size:196
Alignment explanation
Indices: 6159359--6160524 Score: 2107
Period size: 196 Copynumber: 5.9 Consensus size: 196
6159349 TCTAAAAGAA
*
6159359 GTACCATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
1 GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
*
6159424 GTTGATCTTCTTTAACAAATTGTAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
66 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
*
6159489 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCTGTACTGCTC
131 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
6159554 G
196 G
* * *
6159555 GTACTATGTTGCTAGCTTTGTTCAGTTATTTTATAATTACTTTAAGAGAGCATTTGAGGAGAATT
1 GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
*
6159620 GTTGATCTTCTTTAACAAATTGTAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
66 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
*
6159685 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCTGTACTGCTC
131 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
6159750 G
196 G
*
6159751 GTACTATGTTGCTAGCTTTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
1 GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
*
6159816 GTTGATCTTCTTTAACAAATTGTAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
66 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
6159881 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
131 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
*
6159946 A
196 G
*
6159947 GTTCTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
1 GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
*
6160012 GTTGATCTTCTTTAACAAAGTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
66 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
*
6160077 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACCGCTC
131 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
*
6160142 A
196 G
**
6160143 GTACTATGTTGCTAGCTCTGTTTGGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
1 GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
6160208 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
66 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
6160273 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
131 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
6160338 G
196 G
* * *
6160339 GTACTATGTTGCTAGCTTTGTTCAGTTATTTTATAATTACTTTAAGAGAGCATTTGAGGAGAATT
1 GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
*
6160404 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCGCAGATTGACCTTG
66 GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
* * * *
6160469 TGAATCATTCAACACCAAATTGTCTTTTGATTTGTTTTAAGTTTGCACATTTTCCC
131 TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCC
6160525 TAAGATTTTA
Statistics
Matches: 941, Mismatches: 29, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 941 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (196 bp):
GTACTATGTTGCTAGCTCTGTTCAGTTATTTTATAATTACTTCAAGAGAGCATTTGAGGAGAACT
GTTGATCTTCTTTAACAAATTGCAATTGCAATGGTCTGGTTGTTGCCTCTCCCAGATTGACCTTG
TGAATTATTAAACACCAAATTGTCTTTTGACTTGTTTTAAGTTTGCACATGTTCCCGTACTGCTC
G
Found at i:6166974 original size:15 final size:15
Alignment explanation
Indices: 6166949--6166987 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
6166939 TTGCTTTATT
6166949 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTC-TTTC
6166965 TTTTTC-TTTCTTTC
1 TTTTTCTTTTCTTTC
6166979 TTTTT-TTTT
1 TTTTTCTTTT
6166988 TATTTTCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 12 0.55
15 4 0.18
16 6 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTTCTTTC
Found at i:6166993 original size:10 final size:10
Alignment explanation
Indices: 6166947--6166994 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
6166937 TTTTGCTTTA
6166947 TTTTTTTCTT
1 TTTTTTTCTT
*
6166957 TTCTTTTCTT
1 TTTTTTTCTT
*
6166967 TTTCTTTCTT
1 TTTTTTTCTT
6166977 TCTTTTTT-TT
1 T-TTTTTTCTT
*
6166987 TTATTTTC
1 TTTTTTTC
6166995 CCAAAGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
9 5 0.16
10 21 0.68
11 5 0.16
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:6176059 original size:47 final size:47
Alignment explanation
Indices: 6176005--6176260 Score: 291
Period size: 47 Copynumber: 5.4 Consensus size: 47
6175995 GCCAGCGTTT
* * * *
6176005 AGAGTTGGTGAGATGCTATGGAGGGAATTTGTGACACGCTAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
6176052 AGAGTTGGTGACACGCCATGGTGGGAATTTGTTACACG-TCAGCGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCT-AGAGTTA
* * *
6176099 AGAGTTGGTGAGACGACATTGAGGGAATCTGTGACACGCTAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
* * * *
6176146 AGAGTTGGTGACACGACATGGAGGGAATCTGTGACACACCA-ACGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGA-GTTA
* * * * *
6176193 AGAGTTCGTGAGATGCCATGGAGGGAATCTGTGACACGCCAGAGTTT
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
*
6176240 AGAGTTGGTGACATGCCATGG
1 AGAGTTGGTGACACGCCATGG
6176261 TCATTGTTTA
Statistics
Matches: 179, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.01
47 175 0.98
48 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (47 bp):
AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGCTAGAGTTA
Found at i:6176158 original size:94 final size:93
Alignment explanation
Indices: 6175996--6176261 Score: 361
Period size: 94 Copynumber: 2.8 Consensus size: 93
6175986 CTGTGATAGG
* *
6175996 CCAGCGTTTAGAGTTGGTGAGATGCTATGGAGGGAATTTGTGACACGCTAGAGTTAAGAGTTGGT
1 CCAGCGTTAAGAGTTGGTGAGATGC-ATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGT
* * *
6176061 GACACGCCATGGTGGGAATTTGTTACACG
65 GACACGCCATGGTGGGAATCTGTGACACA
* * *
6176090 TCAGCGTTAAGAGTTGGTGAGACGACATTGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGT
1 CCAGCGTTAAGAGTTGGTGAGATG-CATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGT
* *
6176155 GACACGACATGGAGGGAATCTGTGACACA
65 GACACGCCATGGTGGGAATCTGTGACACA
* * * * *
6176184 CCAACGTTCAGAGTTCGTGAGATGCCATGGAGGGAATCTGTGACACGCCAGAGTTTAGAGTTGGT
1 CCAGCGTTAAGAGTTGGTGAGATG-CATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGT
*
6176249 GACATGCCATGGT
65 GACACGCCATGGT
6176262 CATTGTTTAG
Statistics
Matches: 149, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
94 148 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (93 bp):
CCAGCGTTAAGAGTTGGTGAGATGCATGGAGGGAATCTGTGACACGCTAGAGTTAAGAGTTGGTG
ACACGCCATGGTGGGAATCTGTGACACA
Found at i:6176311 original size:53 final size:53
Alignment explanation
Indices: 6176248--6176367 Score: 177
Period size: 53 Copynumber: 2.3 Consensus size: 53
6176238 TTAGAGTTGG
* * *
6176248 TGACATGCCATGGTCATTGTTTAGAGTGTGTGACACGGCATTGCTTGAAAAGC
1 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACGGCATTACTTGAAAAGC
* *
6176301 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACGGTATTACTTGAATAGC
1 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACGGCATTACTTGAAAAGC
* *
6176354 TAACACGTCATGGT
1 TGACACGCCATGGT
6176368 TTGAAATAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACGGCATTACTTGAAAAGC
Found at i:6176896 original size:31 final size:31
Alignment explanation
Indices: 6176854--6177012 Score: 151
Period size: 31 Copynumber: 5.5 Consensus size: 31
6176844 CAGCGTTAGT
*
6176854 GTGTGACAACATTTGACTTGATATGCATGGC
1 GTGTCACAACATTTGACTTGATATGCATGGC
* *
6176885 GTGTAACAACATTTGACTTGCTATGCATGGC
1 GTGTCACAACATTTGACTTGATATGCATGGC
6176916 GTG----------TGACTTGATATGCATGGC
1 GTGTCACAACATTTGACTTGATATGCATGGC
* * * *
6176937 GTGTGACAGCATTTTACTTGTTATGCATGGC
1 GTGTCACAACATTTGACTTGATATGCATGGC
* *
6176968 GTGTCACAACATTTTG-CTTGCTATGCATGGT
1 GTGTCACAACA-TTTGACTTGATATGCATGGC
6176999 GTGTCACAACATTT
1 GTGTCACAACATTT
6177013 ATTCCTTATT
Statistics
Matches: 107, Mismatches: 10, Indels: 23
0.76 0.07 0.16
Matches are distributed among these distances:
21 20 0.19
30 3 0.03
31 81 0.76
32 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (31 bp):
GTGTCACAACATTTGACTTGATATGCATGGC
Found at i:6176924 original size:21 final size:21
Alignment explanation
Indices: 6176898--6176943 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
6176888 TAACAACATT
*
6176898 TGACTTGCTATGCATGGCGTG
1 TGACTTGATATGCATGGCGTG
6176919 TGACTTGATATGCATGGCGTG
1 TGACTTGATATGCATGGCGTG
6176940 TGAC
1 TGAC
6176944 AGCATTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (21 bp):
TGACTTGATATGCATGGCGTG
Found at i:6176950 original size:52 final size:52
Alignment explanation
Indices: 6176867--6176971 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
6176857 TGACAACATT
6176867 TGACTTGATATGCATGGCGTGTAACAACATTTGACTTGCTATGCATGGCGTG
1 TGACTTGATATGCATGGCGTGTAACAACATTTGACTTGCTATGCATGGCGTG
* * * *
6176919 TGACTTGATATGCATGGCGTGTGACAGCATTTTACTTGTTATGCATGGCGTG
1 TGACTTGATATGCATGGCGTGTAACAACATTTGACTTGCTATGCATGGCGTG
6176971 T
1 T
6176972 CACAACATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (52 bp):
TGACTTGATATGCATGGCGTGTAACAACATTTGACTTGCTATGCATGGCGTG
Found at i:6178851 original size:156 final size:156
Alignment explanation
Indices: 6178660--6178999 Score: 502
Period size: 156 Copynumber: 2.2 Consensus size: 156
6178650 GTTTATAGAG
* * * * * * *
6178660 TAACACAGTAATTTCTGTTATTGCAGTTTACGGAAGCGACTATAAGTCCTCATGCACTGATTA-G
1 TAACACAGTTATATATGTTATTGCAGTTTACGGAAGCGACGACAAGTCCTCAAGCACCGA-TAGG
* * * *
6178724 TCCGGCTCCACCGCAGATTGCTAACGAGCCGCCGGTAAGGATATTAAAGTTGTAATGGTTAATGT
65 TCCGGCTCCACCGCAGACTACTAACAAGCCGCCGGTAAGGATATTAAAGTTGTAACGGTTAATGT
6178789 TCAAAAATTTCATACATGATTATTGAA
130 TCAAAAATTTCATACATGATTATTGAA
6178816 TAACACAGTTATATATGTTATTGCAGTTTACGGAAGCGACGACAAGTCCTCAAGCACCGATAGGT
1 TAACACAGTTATATATGTTATTGCAGTTTACGGAAGCGACGACAAGTCCTCAAGCACCGATAGGT
* ** * *
6178881 CTGGCTCCACTTCAGACTACTAACAAGCCGTCGGTTAGGATATTAAAGTTGTAACGGTTAATGTT
66 CCGGCTCCACCGCAGACTACTAACAAGCCGCCGGTAAGGATATTAAAGTTGTAACGGTTAATGTT
* *
6178946 CAACAATTTCATATATGATTATTGAA
131 CAAAAATTTCATACATGATTATTGAA
6178972 TAACACAGTTATATATGTTATTGCAGTT
1 TAACACAGTTATATATGTTATTGCAGTT
6179000 GACCCAGTCG
Statistics
Matches: 165, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
155 2 0.01
156 163 0.99
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (156 bp):
TAACACAGTTATATATGTTATTGCAGTTTACGGAAGCGACGACAAGTCCTCAAGCACCGATAGGT
CCGGCTCCACCGCAGACTACTAACAAGCCGCCGGTAAGGATATTAAAGTTGTAACGGTTAATGTT
CAAAAATTTCATACATGATTATTGAA
Found at i:6179412 original size:31 final size:31
Alignment explanation
Indices: 6179354--6179597 Score: 254
Period size: 31 Copynumber: 7.9 Consensus size: 31
6179344 GTCAGAGTTA
* * * *
6179354 GCGTGTGACAATATTTGACTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
6179385 GCATGTCAGAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
6179416 GCGTGTCACAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * * * *
6179447 GCATGTCAAAACATGTTGCTTGTTATCCTTG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
6179478 GCATGTCACAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* ** * *
6179509 ACGTGTCACAATGTTTAACTTGTTATCCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
6179540 GCGTGTCACAACATTTTACTTGATATGCACG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
*
6179571 GTGTGTCACAACATTTTACTTGTTATG
1 GCGTGTCACAACATTTTACTTGTTATG
6179598 GTTTGTGGTA
Statistics
Matches: 171, Mismatches: 42, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 171 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:6179451 original size:62 final size:62
Alignment explanation
Indices: 6179354--6179596 Score: 281
Period size: 62 Copynumber: 3.9 Consensus size: 62
6179344 GTCAGAGTTA
* * * *
6179354 GCGTGTGACAATATTTGACTTGATATGCATGGCATGTCAGAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATGGCATGTCACAACATTTTACTTGTTATCCATG
* * * * * *
6179416 GCGTGTCACAACGTTTGATTTGATATGCATGGCATGTCAAAACATGTTGCTTGTTATCCTTG
1 GCGTGTCACAACATTTGACTTGATATGCATGGCATGTCACAACATTTTACTTGTTATCCATG
* * * * ** *
6179478 GCATGTCACAACATTTTG-CTTGTTATGCATGACGTGTCACAATGTTTAACTTGTTATCCATG
1 GCGTGTCACAACA-TTTGACTTGATATGCATGGCATGTCACAACATTTTACTTGTTATCCATG
* * **
6179540 GCGTGTCACAACATTTTACTTGATATGCACGGTGTGTCACAACATTTTACTTGTTAT
1 GCGTGTCACAACATTTGACTTGATATGCATGGCATGTCACAACATTTTACTTGTTAT
6179597 GGTTTGTGGT
Statistics
Matches: 148, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
61 3 0.02
62 141 0.95
63 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (62 bp):
GCGTGTCACAACATTTGACTTGATATGCATGGCATGTCACAACATTTTACTTGTTATCCATG
Found at i:6179547 original size:93 final size:93
Alignment explanation
Indices: 6179371--6179597 Score: 283
Period size: 93 Copynumber: 2.4 Consensus size: 93
6179361 ACAATATTTG
* * * * *
6179371 ACTTGATATGCATGGCATGTCAGAACATTTTACTTGTTATGCATGGCGTGTCACAACGTTTGATT
1 ACTTGATATCCATGGCATGTCACAACATTTTACTTGTTATGCATGACGTGTCACAACGTTTAACT
*
6179436 TGATATGCATGGCATGTCAAAACATGTT
66 TGATATCCATGGCATGTCAAAACATGTT
* * * * *
6179464 GCTTGTTATCCTTGGCATGTCACAACATTTTGCTTGTTATGCATGACGTGTCACAATGTTTAACT
1 ACTTGATATCCATGGCATGTCACAACATTTTACTTGTTATGCATGACGTGTCACAACGTTTAACT
* * * *
6179529 TGTTATCCATGGCGTGTCACAACATTTT
66 TGATATCCATGGCATGTCAAAACATGTT
* * **
6179557 ACTTGATATGCACGGTGTGTCACAACATTTTACTTGTTATG
1 ACTTGATATCCATGGCATGTCACAACATTTTACTTGTTATG
6179598 GTTTGTGGTA
Statistics
Matches: 111, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 111 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (93 bp):
ACTTGATATCCATGGCATGTCACAACATTTTACTTGTTATGCATGACGTGTCACAACGTTTAACT
TGATATCCATGGCATGTCAAAACATGTT
Found at i:6181153 original size:16 final size:17
Alignment explanation
Indices: 6181129--6181208 Score: 64
Period size: 16 Copynumber: 5.0 Consensus size: 17
6181119 TTGTACATTT
6181129 TTTTGTATACAAAATTA
1 TTTTGTATACAAAATTA
*
6181146 TTTT-TAT--ATAATTA
1 TTTTGTATACAAAATTA
*
6181160 ATTT-TATACATAAATT-
1 TTTTGTATACA-AAATTA
*
6181176 TTTTGTATACACAATT-
1 TTTTGTATACAAAATTA
* *
6181192 TATTGTATACAGAATTA
1 TTTTGTATACAAAATTA
6181209 ATTCTTTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
14 12 0.24
16 25 0.49
17 14 0.27
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTTGTATACAAAATTA
Found at i:6181217 original size:38 final size:37
Alignment explanation
Indices: 6181174--6181268 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 37
6181164 TATACATAAA
*
6181174 TTTTTTGTATACACAATTTATTGTATACAGAATTAAT
1 TTTTTTGTATACACAATTTATTGTATACACAATTAAT
* *
6181211 TCTTTTTGTATACACAATATATTTTATACACAATTAAT
1 T-TTTTTGTATACACAATTTATTGTATACACAATTAAT
6181249 TTTTTTGCCTATACACAATT
1 TTTTTTG--TATACACAATT
6181269 AATTTGATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 7 0.14
38 34 0.67
39 10 0.20
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.48
Consensus pattern (37 bp):
TTTTTTGTATACACAATTTATTGTATACACAATTAAT
Found at i:6181250 original size:16 final size:16
Alignment explanation
Indices: 6181134--6181251 Score: 55
Period size: 16 Copynumber: 7.1 Consensus size: 16
6181124 CATTTTTTTG
*
6181134 TATACAAAATT-ATTT
1 TATACACAATTAATTT
* *
6181149 T-TATATAATTAATTT
1 TATACACAATTAATTT
* *
6181164 TATACATAAATT-TTTT
1 TATACA-CAATTAATTT
* *
6181180 GTATACACAATTTATTG
1 -TATACACAATTAATTT
*
6181197 TATACAGAATTAATTCTTTTT
1 TATACACAATTAA-----TTT
6181218 GTATACACAA-TATATTT
1 -TATACACAATTA-ATTT
6181235 TATACACAATTAATTT
1 TATACACAATTAATTT
6181251 T
1 T
6181252 TTTGCCTATA
Statistics
Matches: 78, Mismatches: 12, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
14 7 0.09
15 6 0.08
16 35 0.45
17 17 0.22
21 4 0.05
22 9 0.12
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (16 bp):
TATACACAATTAATTT
Found at i:6182237 original size:31 final size:31
Alignment explanation
Indices: 6182195--6182475 Score: 348
Period size: 31 Copynumber: 9.1 Consensus size: 31
6182185 TGGCATCTCA
* *
6182195 GTGTGACAACATTTCACTTGATATGCATGGC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
* * * *
6182226 GTCTAACAACATTTCACTTGATATGCATGGC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
* *
6182257 GTGTCA-AGACATTTTGCTTGTTATGCATGGC
1 GTGTGACA-ACATTTTACTTGTTATGCATGGC
* * ** * * *
6182288 ATGTCACAATGTTTAACTTGTTATCCATGGT
1 GTGTGACAACATTTTACTTGTTATGCATGGC
*
6182319 GTGTGACAACATTTTACTTGTTATGCATGAC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
*
6182350 ATGTGACAACATTTTACTTGTTATGCATGGC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
* *
6182381 ATGTGACAATATTTTACTTGTTATGCATGGC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
* *
6182412 GTGTGACAAAATTTTGCTTGTTATGCATGGC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
*
6182443 GTGTGACAACATTTTGCTTGTTATGCATGGC
1 GTGTGACAACATTTTACTTGTTATGCATGGC
6182474 GT
1 GT
6182476 TTCACAAAAT
Statistics
Matches: 219, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
30 1 0.00
31 217 0.99
32 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (31 bp):
GTGTGACAACATTTTACTTGTTATGCATGGC
Found at i:6185962 original size:21 final size:21
Alignment explanation
Indices: 6185938--6185984 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
6185928 TTAACACCTC
*
6185938 CAACAGGTTTCGTTTCGCCTT
1 CAACAGGTTCCGTTTCGCCTT
6185959 CAACAGGTTCCGTTTCGCCTT
1 CAACAGGTTCCGTTTCGCCTT
6185980 CAACA
1 CAACA
6185985 TTATTTGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (21 bp):
CAACAGGTTCCGTTTCGCCTT
Found at i:6186852 original size:31 final size:31
Alignment explanation
Indices: 6186810--6186978 Score: 191
Period size: 31 Copynumber: 5.5 Consensus size: 31
6186800 GTTGTTACAT
* *
6186810 GCCATGTATATAACGTAAAATGTAGTAACAC
1 GCCATGCATATAACATAAAATGTAGTAACAC
*
6186841 CCCATGCATATAACATAAAATGT-GCTAACAC
1 GCCATGCATATAACATAAAATGTAG-TAACAC
* *
6186872 GCCATGCATAT-ACCTGAAAATGTGGTAACAC
1 GCCATGCATATAACAT-AAAATGTAGTAACAC
** *
6186903 GCCATGCATATAATGTTAAATGTTA-TAACAC
1 GCCATGCATATAACATAAAATG-TAGTAACAC
* *
6186934 GCTATGCATATAACATAAAATGTTGTAACAC
1 GCCATGCATATAACATAAAATGTAGTAACAC
*
6186965 GCTATGCATATAAC
1 GCCATGCATATAAC
6186979 CAATGTCGTG
Statistics
Matches: 118, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
30 5 0.04
31 109 0.92
32 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.27
Consensus pattern (31 bp):
GCCATGCATATAACATAAAATGTAGTAACAC
Found at i:6194837 original size:20 final size:21
Alignment explanation
Indices: 6194809--6194859 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6194799 AATATTTATT
*
6194809 TTTTAAATAATTTATTA-AAAA
1 TTTT-AATAAATTATTATAAAA
*
6194830 TTTTAATAAATTATTATTTAAA
1 TTTTAATAAATTATTA-TAAAA
6194852 TTTTAATA
1 TTTTAATA
6194860 TGATTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 11 0.42
21 4 0.15
22 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAATAAATTATTATAAAA
Found at i:6194870 original size:24 final size:23
Alignment explanation
Indices: 6194812--6194878 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
6194802 ATTTATTTTT
* *
6194812 TAAATAATTTATTAAAAATTTTAA
1 TAAATTATTTATT-TAAATTTTAA
6194836 TAAATTA-TTATTTAAATTTTAA
1 TAAATTATTTATTTAAATTTTAA
* *
6194858 TATGATTATTTATTTTAATTT
1 TA-AATTATTTATTTAAATTT
6194879 ATAGAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 17 0.46
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TAAATTATTTATTTAAATTTTAA
Found at i:6194879 original size:23 final size:22
Alignment explanation
Indices: 6194827--6194878 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
6194817 AATTTATTAA
6194827 AAATTTTAATAAATTATTATTT
1 AAATTTTAATAAATTATTATTT
*
6194849 AAATTTTAATATGATTATTTATTT
1 AAATTTTAATA-AATTA-TTATTT
*
6194873 TAATTT
1 AAATTT
6194879 ATAGAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 11 0.42
23 4 0.15
24 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AAATTTTAATAAATTATTATTT
Found at i:6206820 original size:15 final size:16
Alignment explanation
Indices: 6206795--6206827 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6206785 TCAGATTCAA
*
6206795 TTTTTATTTGTTTGTT
1 TTTTTATTTGTTTATT
6206811 TTTTTA-TTGTTTATT
1 TTTTTATTTGTTTATT
6206826 TT
1 TT
6206828 ATGTTGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTTATTTGTTTATT
Found at i:6211342 original size:15 final size:16
Alignment explanation
Indices: 6211317--6211349 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6211307 TCAGATTCAA
*
6211317 TTTTTATTTGTTTGTT
1 TTTTTATTTGTTTATT
6211333 TTTTTA-TTGTTTATT
1 TTTTTATTTGTTTATT
6211348 TT
1 TT
6211350 ATGTTGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.82
Consensus pattern (16 bp):
TTTTTATTTGTTTATT
Found at i:6217258 original size:38 final size:38
Alignment explanation
Indices: 6217223--6217304 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
6217213 AGTGAAGAAG
*
6217223 TCAAAGCACGTATGGCACCAAAGTGACCGACGAAGAGT
1 TCAAAGCACGCATGGCACCAAAGTGACCGACGAAGAGT
* * * *
6217261 TCAAATCATGCATGGCACCCAAGTGACCGAATGAAGAGT
1 TCAAAGCACGCATGGCACCAAAGTGACCG-ACGAAGAGT
6217300 TCAAA
1 TCAAA
6217305 TCATGCTTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 25 0.66
39 13 0.34
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (38 bp):
TCAAAGCACGCATGGCACCAAAGTGACCGACGAAGAGT
Found at i:6217308 original size:39 final size:38
Alignment explanation
Indices: 6217234--6217310 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 38
6217224 CAAAGCACGT
6217234 ATGGCACCAAAGTGACCGACGAAGAGTTCAAATCATGC
1 ATGGCACCAAAGTGACCGACGAAGAGTTCAAATCATGC
* *
6217272 ATGGCACCCAAGTGACCGAATGAAGAGTTCAAATCATGC
1 ATGGCACCAAAGTGACCG-ACGAAGAGTTCAAATCATGC
6217311 TTAGTAGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 17 0.47
39 19 0.53
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (38 bp):
ATGGCACCAAAGTGACCGACGAAGAGTTCAAATCATGC
Found at i:6222481 original size:27 final size:28
Alignment explanation
Indices: 6222448--6222529 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 28
6222438 TTAATTTTTA
6222448 ATTATAATTTAATTATTTTTAATT-ATTT
1 ATTATAATTTAATTATTTTT-ATTAATTT
*
6222476 -TTATAA-TTAATTTATGTTTATTAATTT
1 ATTATAATTTAA-TTATTTTTATTAATTT
* * *
6222503 ATTTTAATTTTA-TATTTTT-TTACTTT
1 ATTATAATTTAATTATTTTTATTAATTT
6222529 A
1 A
6222530 ATTTGGCCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
26 14 0.31
27 23 0.51
28 5 0.11
29 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (28 bp):
ATTATAATTTAATTATTTTTATTAATTT
Found at i:6222484 original size:12 final size:10
Alignment explanation
Indices: 6222441--6222478 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
6222431 TAAGTCCTTA
6222441 ATTTTTAATT
1 ATTTTTAATT
*
6222451 ATAATTTAATT
1 AT-TTTTAATT
6222462 ATTTTTAATT
1 ATTTTTAATT
6222472 ATTTTTA
1 ATTTTTA
6222479 TAATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:6233393 original size:2 final size:2
Alignment explanation
Indices: 6233386--6233493 Score: 95
Period size: 2 Copynumber: 56.5 Consensus size: 2
6233376 TATAAAAGTG
6233386 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
6233425 TA T- TA T- TG TG NA TA -A TA AA TA AA TA -A TA AA GTA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA TA
6233465 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6233494 TTAAAATATT
Statistics
Matches: 89, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
1 7 0.08
2 78 0.88
3 4 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:6241746 original size:60 final size:60
Alignment explanation
Indices: 6241612--6241760 Score: 158
Period size: 60 Copynumber: 2.5 Consensus size: 60
6241602 ATAGGAGACC
* * ** * *
6241612 AAAACATAAGGTTTTTTGCTGCAGCGAGATTCTTTCTTGCTGCAGTGAAATTGTAACCCA
1 AAAACAGAAGGTTTCTTGCTGCAGCGAGATTCTTTCTCACTGCAGCGAAATTGCAACCCA
* * **
6241672 AAAATAGAAGGTTTCTTGCTGCAGCGAGATTCTTTCTCATTGCAGCGAAATT-CAACTGA
1 AAAACAGAAGGTTTCTTGCTGCAGCGAGATTCTTTCTCACTGCAGCGAAATTGCAACCCA
* *
6241731 TGAAACA-AAGAGTTTCTCGCTGCAGCGAGA
1 -AAAACAGAAG-GTTTCTTGCTGCAGCGAGA
6241761 ACCAGTTCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
59 7 0.09
60 67 0.91
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (60 bp):
AAAACAGAAGGTTTCTTGCTGCAGCGAGATTCTTTCTCACTGCAGCGAAATTGCAACCCA
Found at i:6245208 original size:2 final size:2
Alignment explanation
Indices: 6245201--6245227 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6245191 TAATGTTTAT
6245201 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
6245228 TTTATACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6250153 original size:221 final size:221
Alignment explanation
Indices: 6249769--6250179 Score: 655
Period size: 221 Copynumber: 1.9 Consensus size: 221
6249759 ATTGGACTAT
*
6249769 AAAAAATGACAGTAAAACTCATTTTGTTCAGCTTTACCATCTATTTTGAAACACCTATCTTCTCC
1 AAAAAATGACAGTAAAACTCATTTTGTTCAGCTTTACCATCTATTTTGAAACACCTAGCTTCTCC
* ** * *
6249834 TCATATAGCTTCAATAAATGAGGATCCTCATACGGGTTCACAAACCTTTGGAGGAACTTCTTTTC
66 TCATATAGCTTCAAAAAACAAGGATCCTCATACGGGATCACAAACCTTTGAAGGAACTTCTTTTC
* * *
6249899 ACTGGACTCCAACAGTTCATGAAAGGTTGATTTCTTTCT-TGATCAAACCTTTGGACAACACATA
131 ACTAGACTCCAACAGTTCATGAAAGGCTGATTTCTTT-TGTGATCAAACCTTGGGACAACACATA
6249963 AAAGAAGATCAGTGAGATTGAACCTTA
195 AAAGAAGATCAGTGAGATTGAACCTTA
* **
6249990 AAAAAATGACAGTAAAATTCATTTTGTTCAGCTTTACCATCTATTTTGAAATGCCTAGCTTCTCC
1 AAAAAATGACAGTAAAACTCATTTTGTTCAGCTTTACCATCTATTTTGAAACACCTAGCTTCTCC
*
6250055 TCATATTGCTTCAAAAAACAAGGATCCTCATACAGGGATCACAAACCTTTGAAGGAACTTCTTTT
66 TCATATAGCTTCAAAAAACAAGGATCCTCATAC-GGGATCACAAACCTTTGAAGGAACTTCTTTT
* *
6250120 CAGTAGATTCCAACAGTTCATG-AAGGCTGATTTCTTTTGTGATCAAACCTTGGGACAACA
130 CACTAGACTCCAACAGTTCATGAAAGGCTGATTTCTTTTGTGATCAAACCTTGGGACAACA
6250180 AAACTTGAAT
Statistics
Matches: 173, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
220 1 0.01
221 124 0.72
222 48 0.28
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (221 bp):
AAAAAATGACAGTAAAACTCATTTTGTTCAGCTTTACCATCTATTTTGAAACACCTAGCTTCTCC
TCATATAGCTTCAAAAAACAAGGATCCTCATACGGGATCACAAACCTTTGAAGGAACTTCTTTTC
ACTAGACTCCAACAGTTCATGAAAGGCTGATTTCTTTTGTGATCAAACCTTGGGACAACACATAA
AAGAAGATCAGTGAGATTGAACCTTA
Found at i:6253240 original size:25 final size:25
Alignment explanation
Indices: 6253212--6253281 Score: 79
Period size: 26 Copynumber: 2.8 Consensus size: 25
6253202 AAACGTGACA
* *
6253212 AGGCACGTAAGTTCAAAATGTGGTG
1 AGGCATGTAAGTTCAAAACGTGGTG
* *
6253237 AGGCATGTGAATTTTAAAACGTGGTG
1 AGGCATGT-AAGTTCAAAACGTGGTG
6253263 AGGCATGT-AGTTTCAAAAC
1 AGGCATGTAAG-TTCAAAAC
6253282 ATGTTAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 14 0.38
26 22 0.59
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (25 bp):
AGGCATGTAAGTTCAAAACGTGGTG
Found at i:6260685 original size:16 final size:16
Alignment explanation
Indices: 6260664--6260697 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6260654 CATCAACCAT
6260664 AATAAT-AATATAATCC
1 AATAATCAA-ATAATCC
6260680 AATAATCAAATAATCC
1 AATAATCAAATAATCC
6260696 AA
1 AA
6260698 ACGTGCAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATCAAATAATCC
Found at i:6266611 original size:42 final size:42
Alignment explanation
Indices: 6266478--6266639 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 42
6266468 TGTGGACTCG
** * *
6266478 GCTATGTGCGAGTAGGAGTGGGCATAAGCCGATTATGACCCT
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
* * ** * * * *
6266520 GTTAAGTGCGAGTAAAAGTGCGCATAAGCCAATGATGATCCG
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
*
6266562 GCTATGTGCGAGTGGGAGTGCACATAAGCCGATGATGACCCA
1 GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
* * * * *
6266604 GCCATGTGCTAGTGGGGAGTGCACATGAGCTGATGA
1 GCTATGTGCGAGT-AGGAGTGCACATAAGCCGATGA
6266640 CGATGGGAGA
Statistics
Matches: 97, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 77 0.79
43 20 0.21
ACGTcount: A:0.27, C:0.19, G:0.33, T:0.22
Consensus pattern (42 bp):
GCTATGTGCGAGTAGGAGTGCACATAAGCCGATGATGACCCA
Found at i:6266690 original size:2 final size:2
Alignment explanation
Indices: 6266673--6266735 Score: 90
Period size: 2 Copynumber: 30.5 Consensus size: 2
6266663 TGAATANTAG
6266673 TA TA GTA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
6266717 TA TA TA TA TG TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA T
6266736 GTGTGTTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 51 0.93
3 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6275237 original size:45 final size:45
Alignment explanation
Indices: 6275151--6275276 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
6275141 TTTATTGAAA
* * *
6275151 TTACACTCCATGTACAAAAATATGTTACACGCCATGATTAGGTTG
1 TTACACACCATGTACAAAAACATGTGACACGCCATGATTAGGTTG
* * * * * *
6275196 TTTCACGCCATATACAAAAACATATGACACGTCATGGTTAGGTTG
1 TTACACACCATGTACAAAAACATGTGACACGCCATGATTAGGTTG
*
6275241 TTACACACCATGTACAGAAACATGTGACACGCCATG
1 TTACACACCATGTACAAAAACATGTGACACGCCATG
6275277 TGTAAAAACA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (45 bp):
TTACACACCATGTACAAAAACATGTGACACGCCATGATTAGGTTG
Found at i:6275347 original size:29 final size:29
Alignment explanation
Indices: 6275306--6275469 Score: 121
Period size: 29 Copynumber: 5.8 Consensus size: 29
6275296 TCATGGTTGG
6275306 GTTGTTACACGCCATGTTGAAAAAATACT
1 GTTGTTACACGCCATGTTGAAAAAATACT
*
6275335 GTTGTTACACGCCATG-T-ACAAAA-AC-
1 GTTGTTACACGCCATGTTGAAAAAATACT
* * *
6275360 -ATGTTACACGCCATGGTT--AAGAA-A-G
1 GTTGTTACACGCCAT-GTTGAAAAAATACT
* *
6275385 GTTGTTACATGCCATGTTGAAAAACAAATATT
1 GTTGTTACACGCCATGTTG--AAA-AAATACT
* * *
6275417 GTTGTTACATGCCATATTGAAAAAATATT
1 GTTGTTACACGCCATGTTGAAAAAATACT
* * *
6275446 ATTGTTACACGCCATATTCAAAAA
1 GTTGTTACACGCCATGTTGAAAAA
6275470 CATTTTGTTA
Statistics
Matches: 112, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
24 13 0.12
25 8 0.07
26 15 0.13
27 5 0.04
28 1 0.01
29 46 0.41
30 5 0.04
31 1 0.01
32 18 0.16
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (29 bp):
GTTGTTACACGCCATGTTGAAAAAATACT
Found at i:6278861 original size:30 final size:29
Alignment explanation
Indices: 6278824--6278922 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 29
6278814 TATAATTAAA
*
6278824 ATAAAATTTATTAAAATAAAATATATAAT
1 ATAAAAATTATTAAAATAAAATATATAAT
* * *
6278853 GTAAAAATTA-GAAATTAAAATTTATATAAT
1 ATAAAAATTATTAAAATAAAA--TATATAAT
**
6278883 ATAGGTAAAAGAAATTAAAATAAAATATATAAT
1 ATA---AAAA-TTATTAAAATAAAATATATAAT
6278916 ATAAAAA
1 ATAAAAA
6278923 ATTAGATTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
28 8 0.15
29 8 0.15
30 14 0.26
33 15 0.28
34 1 0.02
35 8 0.15
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (29 bp):
ATAAAAATTATTAAAATAAAATATATAAT
Found at i:6278952 original size:34 final size:32
Alignment explanation
Indices: 6278899--6278984 Score: 100
Period size: 34 Copynumber: 2.6 Consensus size: 32
6278889 AAAAGAAATT
* *
6278899 AAAATAAAATATATAATATAAAAAATTAGATTA
1 AAAATAAAA-ATAAAATATAAAAAATTAGAATA
* *
6278932 AAGAGATAAAAATAAAATATATAAAATTATAATA
1 AA-A-ATAAAAATAAAATATAAAAAATTAGAATA
*
6278966 AAAATGAAAATAAAATATA
1 AAAATAAAAATAAAATATA
6278985 TGACATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.33
33 3 0.07
34 22 0.48
35 6 0.13
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.27
Consensus pattern (32 bp):
AAAATAAAAATAAAATATAAAAAATTAGAATA
Found at i:6279222 original size:15 final size:15
Alignment explanation
Indices: 6279202--6279254 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
6279192 TTTTTTCTAC
6279202 AATCATATTAATTAT
1 AATCATATTAATTAT
* *
6279217 AATCATATTACTTGT
1 AATCATATTAATTAT
*
6279232 AATTATATT-ATCTAT
1 AATCATATTAAT-TAT
6279247 AATCATAT
1 AATCATAT
6279255 AGTATTGGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 1 0.03
15 30 0.97
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (15 bp):
AATCATATTAATTAT
Found at i:6280680 original size:25 final size:25
Alignment explanation
Indices: 6280652--6280704 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
6280642 CTTACACATT
*
6280652 TATGCAACCCTTTTACTTGTGTTAA
1 TATGCAACACTTTTACTTGTGTTAA
6280677 TATGCAACACTTTTACTTGTGTTAA
1 TATGCAACACTTTTACTTGTGTTAA
6280702 TAT
1 TAT
6280705 ACATGTGTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.45
Consensus pattern (25 bp):
TATGCAACACTTTTACTTGTGTTAA
Found at i:6287984 original size:38 final size:38
Alignment explanation
Indices: 6287933--6288010 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
6287923 TTATAGTATA
6287933 AGTTGACCCTTGATCTTAAAGGTTTTATCGTGTTCATC
1 AGTTGACCCTTGATCTTAAAGGTTTTATCGTGTTCATC
*
6287971 AGTTGACCCTTGATCTTAAAGGTTTTATTGTGTTCATC
1 AGTTGACCCTTGATCTTAAAGGTTTTATCGTGTTCATC
6288009 AG
1 AG
6288011 ATGTTATACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (38 bp):
AGTTGACCCTTGATCTTAAAGGTTTTATCGTGTTCATC
Found at i:6313094 original size:80 final size:80
Alignment explanation
Indices: 6312938--6313094 Score: 179
Period size: 80 Copynumber: 2.0 Consensus size: 80
6312928 TTAACCCGTA
* * * * * * * *
6312938 TATGAATAAAATAGAAAAATAACACATGCACTATAATAGAACATCCAAAAATTTAACATTTAGAA
1 TATGAATAAAAAAGAAAAATAACACATCCACTACAACAAAACATCCAAAAATCTAACATTCAAAA
** *
6313003 GTAACCCACATTATT
66 CCAACCAACATTATT
* * * *
6313018 TATGAATAAAAAAGTAAAATAACACATCCACTACAACAAAACATCTAGAAATCTAGCATTCAAAA
1 TATGAATAAAAAAGAAAAATAACACATCCACTACAACAAAACATCCAAAAATCTAACATTCAAAA
6313083 CCAACCAACATT
66 CCAACCAACATT
6313095 TATCATTGAA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.23
Consensus pattern (80 bp):
TATGAATAAAAAAGAAAAATAACACATCCACTACAACAAAACATCCAAAAATCTAACATTCAAAA
CCAACCAACATTATT
Found at i:6321320 original size:26 final size:25
Alignment explanation
Indices: 6321266--6321320 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
6321256 TTATTTAAAA
* *
6321266 AAATTTTAATTTTTTATGTTCAATT
1 AAATTTTAATTTTTTATGTTAAATC
* *
6321291 AAATTTTTATATTTTTATTTTAAATC
1 AAATTTTAAT-TTTTTATGTTAAATC
6321317 AAAT
1 AAAT
6321321 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (25 bp):
AAATTTTAATTTTTTATGTTAAATC
Found at i:6321527 original size:33 final size:33
Alignment explanation
Indices: 6321451--6321529 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
6321441 ATCATATCAA
**
6321451 ATTAGTATATTACATCATAATCAATTATAATAT
1 ATTAGTATAACACATCATAATCAATTATAATAT
* ** * *
6321484 GTTAACATAACACATCATTATCAATTATGATAT
1 ATTAGTATAACACATCATAATCAATTATAATAT
6321517 ATTAGTATAACAC
1 ATTAGTATAACAC
6321530 GTTAAGGCCA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (33 bp):
ATTAGTATAACACATCATAATCAATTATAATAT
Found at i:6321627 original size:30 final size:30
Alignment explanation
Indices: 6321592--6321659 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
6321582 TAATAAAAAT
*
6321592 TTATTTGACTTAAAATAAAAATA-AAGAGAC
1 TTATTTGACTCAAAATAAAAATACAAGAG-C
* *
6321622 TTATTTGGCTCAAAATAAAAATACAAGAGT
1 TTATTTGACTCAAAATAAAAATACAAGAGC
6321652 TTATTTGA
1 TTATTTGA
6321660 ATTTTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (30 bp):
TTATTTGACTCAAAATAAAAATACAAGAGC
Found at i:6323018 original size:45 final size:45
Alignment explanation
Indices: 6322963--6323061 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
6322953 TTTTTTCAAT
*
6322963 ATGACGTGTAACAACCTAACCATGGCGTATCACATGTTTTTATAC
1 ATGACGTGTAACAACCTAACCATGGCATATCACATGTTTTTATAC
* *
6323008 ATGACGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTAC
1 ATGACGTGTAACAACCTAACCATGGCATATCACATGTTTTTATAC
6323053 ATGACGTGT
1 ATGACGTGT
6323062 CATATATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
ATGACGTGTAACAACCTAACCATGGCATATCACATGTTTTTATAC
Found at i:6323055 original size:24 final size:24
Alignment explanation
Indices: 6323028--6323081 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6323018 ACAACCTAAC
* *
6323028 CATGGCATGTCACATGTTTTTGTA
1 CATGACATGTCACATATTTTTGTA
* *
6323052 CATGACGTGTCATATATTTTTGTA
1 CATGACATGTCACATATTTTTGTA
6323076 CATGAC
1 CATGAC
6323082 GTGTAACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
CATGACATGTCACATATTTTTGTA
Found at i:6323082 original size:24 final size:24
Alignment explanation
Indices: 6323035--6323085 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
6323025 AACCATGGCA
*
6323035 TGTCACATGTTTTTGTACATGACG
1 TGTCACATATTTTTGTACATGACG
*
6323059 TGTCATATATTTTTGTACATGACG
1 TGTCACATATTTTTGTACATGACG
6323083 TGT
1 TGT
6323086 AACAACCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.45
Consensus pattern (24 bp):
TGTCACATATTTTTGTACATGACG
Found at i:6323110 original size:69 final size:69
Alignment explanation
Indices: 6322994--6323203 Score: 233
Period size: 69 Copynumber: 3.0 Consensus size: 69
6322984 ATGGCGTATC
* * * * *
6322994 ACATGTTTTTATACATGACGTGTAACAACCTAACCATGGCATGTCACATGTTTTTGTACATGACG
1 ACATATTTTTGTACATGACGTGTAACAACCTAACTATGACGTGTCACATGTTTTTGTACATGACG
*
6323059 TGTC
66 TGTA
* * * **
6323063 ATATATTTTTGTACATGACGTGTAACAACCTAACTTTGTCGTGTCACATGTTTTTGTACATGATA
1 ACATATTTTTGTACATGACGTGTAACAACCTAACTATGACGTGTCACATGTTTTTGTACATGACG
*
6323128 TATA
66 TGTA
* * * * * * *
6323132 ACATGTTTTTGTATATGACGTATAATAACCTAA-TCATAACGTGTCACATATTTTTATACATGAC
1 ACATATTTTTGTACATGACGTGTAACAACCTAACT-ATGACGTGTCACATGTTTTTGTACATGAC
6323196 GTGTA
65 GTGTA
6323201 ACA
1 ACA
6323204 ATCTAACCAT
Statistics
Matches: 116, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
68 1 0.01
69 115 0.99
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (69 bp):
ACATATTTTTGTACATGACGTGTAACAACCTAACTATGACGTGTCACATGTTTTTGTACATGACG
TGTA
Found at i:6323155 original size:24 final size:24
Alignment explanation
Indices: 6323108--6323156 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
6323098 TTGTCGTGTC
*
6323108 ACATGTTTTTGTACATGATATATA
1 ACATGTTTTTGTACATGACATATA
* *
6323132 ACATGTTTTTGTATATGACGTATA
1 ACATGTTTTTGTACATGACATATA
6323156 A
1 A
6323157 TAACCTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (24 bp):
ACATGTTTTTGTACATGACATATA
Found at i:6323219 original size:45 final size:45
Alignment explanation
Indices: 6323130--6323237 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
6323120 ACATGATATA
* * * *
6323130 TAACATGTTTTTGTATATGACGTATAATAACCTAATCATAACGTG
1 TAACATGTTTTTATACATGACGTATAACAACCTAACCATAACGTG
* * * * *
6323175 TCACATATTTTTATACATGACGTGTAACAATCTAACCATGACGTG
1 TAACATGTTTTTATACATGACGTATAACAACCTAACCATAACGTG
6323220 TAACATGTTTTTATACAT
1 TAACATGTTTTTATACAT
6323238 CGTGTGTAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (45 bp):
TAACATGTTTTTATACATGACGTATAACAACCTAACCATAACGTG
Found at i:6323375 original size:2 final size:2
Alignment explanation
Indices: 6323368--6323426 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6323358 AAAATACCCT
6323368 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6323410 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
6323427 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6323879 original size:45 final size:45
Alignment explanation
Indices: 6323785--6323935 Score: 162
Period size: 45 Copynumber: 3.4 Consensus size: 45
6323775 GTGTAGCATG
* * * * *
6323785 TTTTTGTATATGACTTATAACAACTTAATCGTGGCATGT-C-ACATA
1 TTTTTGTACATGACGTGTAACAACTTAATCATAG--TGTGCAACATA
*
6323830 TTTTTGTACATGACGTGTAACAACTTAATCATAGTGTGCAACATG
1 TTTTTGTACATGACGTGTAACAACTTAATCATAGTGTGCAACATA
* * * * *
6323875 TTTTTGTACATGAGGTGTAACAACCTAATCATAGCGTGTAATATA
1 TTTTTGTACATGACGTGTAACAACTTAATCATAGTGTGCAACATA
*
6323920 TTTTTATACATGACGT
1 TTTTTGTACATGACGT
6323936 ATAATTTCAT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 86 0.96
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (45 bp):
TTTTTGTACATGACGTGTAACAACTTAATCATAGTGTGCAACATA
Found at i:6326105 original size:22 final size:23
Alignment explanation
Indices: 6326080--6326126 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
6326070 ATTTATGAAA
6326080 AAAAAT-TTATAA-TTTTATTTTT
1 AAAAATATTA-AATTTTTATTTTT
6326102 AAAAATATTAAATTTTTTATTTTT
1 AAAAATATTAAA-TTTTTATTTTT
6326126 A
1 A
6326127 TCCTTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 3 0.14
24 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AAAAATATTAAATTTTTATTTTT
Found at i:6326106 original size:26 final size:25
Alignment explanation
Indices: 6326058--6326106 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
6326048 AAATATTTAT
* *
6326058 AATTTTATTTTTATTTATGAAAAAA
1 AATTTTAATTTTATTTATAAAAAAA
*
6326083 AATTTATAATTTTATTTTTAAAAA
1 AATTT-TAATTTTATTTATAAAAA
6326107 TATTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATTTTAATTTTATTTATAAAAAAA
Found at i:6326475 original size:17 final size:18
Alignment explanation
Indices: 6326444--6326479 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6326434 AAACAAGATA
*
6326444 AGCTCTAAATTAAAAATG
1 AGCTCTAAATAAAAAATG
6326462 AGCTC-AAATAAAAAATG
1 AGCTCTAAATAAAAAATG
6326479 A
1 A
6326480 TAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (18 bp):
AGCTCTAAATAAAAAATG
Found at i:6333243 original size:41 final size:42
Alignment explanation
Indices: 6333197--6333276 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
6333187 TTTATTTTAA
*
6333197 TTTAATAATATTTAAT-AATTTTTTATAT-TTAAAAAATAAAT
1 TTTAAT-ATATTTAATAAATTTATTATATATTAAAAAATAAAT
* *
6333238 TTTAATATTTTTAATAAATTTATTATATATTAAGAAATA
1 TTTAATATATTTAATAAATTTATTATATATTAAAAAATA
6333277 TAATAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 8 0.24
41 17 0.50
42 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (42 bp):
TTTAATATATTTAATAAATTTATTATATATTAAAAAATAAAT
Found at i:6333248 original size:28 final size:30
Alignment explanation
Indices: 6333180--6333248 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
6333170 GACTCCAATC
**
6333180 ATAATATTTTATTTTAATTTAATAATATTT
1 ATAATATTTTATTTTAATAAAATAATATTT
*
6333210 AATAATTTTTTATATTTAA-AAAATAA-ATTT
1 -ATAATATTTTAT-TTTAATAAAATAATATTT
6333240 -TAATATTTT
1 ATAATATTTT
6333249 TAATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
28 8 0.24
30 4 0.12
31 16 0.48
32 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
ATAATATTTTATTTTAATAAAATAATATTT
Found at i:6338329 original size:22 final size:22
Alignment explanation
Indices: 6338286--6338329 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6338276 TATCATTTAA
*
6338286 TTACAATTTGAGTCTTTTTGGT
1 TTACAATTTGAGTCTTTATGGT
*
6338308 TTACAAATTTGGGT-TTTATGGT
1 TTAC-AATTTGAGTCTTTATGGT
6338330 CTTGGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.52
Consensus pattern (22 bp):
TTACAATTTGAGTCTTTATGGT
Found at i:6348494 original size:2 final size:2
Alignment explanation
Indices: 6348489--6348535 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
6348479 ACATACATAC
6348489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6348531 AT AT A
1 AT AT A
6348536 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6348661 original size:2 final size:2
Alignment explanation
Indices: 6348654--6348701 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
6348644 NNNNNNNNNN
6348654 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6348696 TG TA TA
1 TA TA TA
6348702 CATACATCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6348801 original size:37 final size:37
Alignment explanation
Indices: 6348751--6348906 Score: 242
Period size: 37 Copynumber: 4.2 Consensus size: 37
6348741 AATGCATTAT
* *
6348751 CATCATCATGTGTGCGCTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
6348788 CATCATCATGTGTGCACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
* **
6348825 CATCATCATGTGTGCACACTTTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
6348862 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
6348899 CATCATCA
1 CATCATCA
6348907 CACAAAATTA
Statistics
Matches: 108, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
36 2 0.02
37 104 0.96
38 2 0.02
ACGTcount: A:0.25, C:0.35, G:0.11, T:0.29
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:6355177 original size:13 final size:13
Alignment explanation
Indices: 6355159--6355183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6355149 TTCTAGAAAA
6355159 TTTATAAAATCAT
1 TTTATAAAATCAT
6355172 TTTATAAAATCA
1 TTTATAAAATCA
6355184 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:6365509 original size:28 final size:29
Alignment explanation
Indices: 6365468--6365527 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
6365458 GTCTATGGGC
*
6365468 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
6365496 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
6365526 AA
1 AA
6365528 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:6371114 original size:27 final size:27
Alignment explanation
Indices: 6371062--6371114 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6371052 AATATTAATC
*
6371062 AAATAAAGAAACATGAAACATGAAAAA
1 AAATAAAGAAACATGAAACATAAAAAA
*
6371089 AAATAAAGAAACATGAAA-ACAAAAAA
1 AAATAAAGAAACATGAAACATAAAAAA
6371115 GGAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.74, C:0.08, G:0.09, T:0.09
Consensus pattern (27 bp):
AAATAAAGAAACATGAAACATAAAAAA
Found at i:6372254 original size:38 final size:40
Alignment explanation
Indices: 6372170--6372270 Score: 134
Period size: 38 Copynumber: 2.6 Consensus size: 40
6372160 CCGACTCATG
* * *
6372170 TGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCGTG
1 TGCATCCCCCCACATCGTGCACATAGCCAGAGCCATCGTA
* *
6372210 TGCATCCCCCCACATCGTGCACA-A-TCAGTGCCATCGTA
1 TGCATCCCCCCACATCGTGCACATAGCCAGAGCCATCGTA
*
6372248 TGCATCCCCCCACATCATGCACA
1 TGCATCCCCCCACATCGTGCACA
6372271 CAGGCACTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 31 0.56
39 1 0.02
40 23 0.42
ACGTcount: A:0.23, C:0.41, G:0.17, T:0.20
Consensus pattern (40 bp):
TGCATCCCCCCACATCGTGCACATAGCCAGAGCCATCGTA
Found at i:6375600 original size:27 final size:27
Alignment explanation
Indices: 6375570--6375633 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
6375560 CTCTTCTGCA
*
6375570 CTTGGAACGCCACTAGGCACTTCCACG
1 CTTGGAACACCACTAGGCACTTCCACG
* * * *
6375597 CTTGGAAAACCCCTAGGCATTTCCATG
1 CTTGGAACACCACTAGGCACTTCCACG
*
6375624 TTTGGAACAC
1 CTTGGAACAC
6375634 TTCTAGTCGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (27 bp):
CTTGGAACACCACTAGGCACTTCCACG
Found at i:6376342 original size:13 final size:13
Alignment explanation
Indices: 6376326--6376370 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
6376316 GAAAAAATAA
6376326 AAAAGAAAA-AGAG
1 AAAAGAAAACA-AG
6376339 AAAAGAAAACAAG
1 AAAAGAAAACAAG
6376352 AAAAGAAACACAAG
1 AAAAGAAA-ACAAG
6376366 CAAAA
1 -AAAA
6376371 TATAATTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 19 0.66
14 6 0.21
15 4 0.14
ACGTcount: A:0.76, C:0.09, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAAACAAG
Found at i:6376809 original size:35 final size:35
Alignment explanation
Indices: 6376763--6376860 Score: 124
Period size: 35 Copynumber: 2.7 Consensus size: 35
6376753 ACTATTTAAA
* * * * *
6376763 TTAAAGTTCTATTTATGTGTTGTGTTGCTTTTTTT
1 TTAAAATTCTATTTATGTGTTATATAGATTTTTTT
6376798 TTAAAATTCTATTTATGTGTTATATAGATTTTTTT
1 TTAAAATTCTATTTATGTGTTATATAGATTTTTTT
*
6376833 TTAAAAAAATCTATTTATGTGTTATATA
1 TT--AAAATTCTATTTATGTGTTATATA
6376861 ATATCACCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 32 0.58
37 23 0.42
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (35 bp):
TTAAAATTCTATTTATGTGTTATATAGATTTTTTT
Found at i:6379795 original size:39 final size:40
Alignment explanation
Indices: 6379741--6379819 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
6379731 AGTTCTTTAT
*
6379741 AGGCATTACGTGACTGAATATTTGTT-AGCGTTACGTGAC
1 AGGCATTACGTGACTGAATATTTGTTGAGCATTACGTGAC
6379780 AGGCATTACGTGACTGAATATTTGTTGAGCATTACGTGAC
1 AGGCATTACGTGACTGAATATTTGTTGAGCATTACGTGAC
6379820 CTATTTATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 26 0.68
40 12 0.32
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (40 bp):
AGGCATTACGTGACTGAATATTTGTTGAGCATTACGTGAC
Found at i:6381286 original size:111 final size:111
Alignment explanation
Indices: 6381067--6381572 Score: 571
Period size: 118 Copynumber: 4.4 Consensus size: 111
6381057 AGTGCGTGAC
* * * * *
6381067 TGACTTGTGCAATTCATGTGTTATTTTGAGGCTTTTGTTCAGTAATTTTTTAGGCAGTGCGTGAG
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGC-TTGCGTGAC
* * *
6381132 TGGTTTTTATATATTGCGTTACCTGTTGTAGTGAGAATGGTGGCACA
65 TGGTTTTTATATATTGCGTGACCTGTTGTAGTGAGAGTGGTGGCACG
* * * *
6381179 TGACTTGTGCAATTCATGTGTTGTTTTGAAGCTTTTGTTCAATAGTTTTTTAGGCTTGCGTGATT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * * *
6381244 GGTTTTTATATATTGCGTTACTTGTTGTAGTGTGAGTAGTGGCGCG
66 GGTTTTTATATATTGCGTGACCTGTTGTAGTGAGAGTGGTGGCACG
*
6381290 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAGGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* *
6381355 GATTTTTATATATTGTGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGCACG
66 GGTTTTTATATATTGCGTGACCTGTTG-TA-G---T--GAGAGTGGTGGCACG
* * * *
6381408 TAACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAGGATTGCGTTACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * *
6381473 GGTTTTTATATATTACGTGACCTGTTGTTATATATTGCGAGAGTGGTGGCGCG
66 GGTTTTTATATATTGCGTGACCTGTTG-----TA--GTGAGAGTGGTGGCACG
* ** * * * *
6381526 TGACTTGTGTAATTCACCTCTTGTTTAGGGGCATTTGTTCACTAGTT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTT
6381573 ATTAGGCATT
Statistics
Matches: 340, Mismatches: 42, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
111 131 0.39
112 53 0.16
113 1 0.00
116 1 0.00
118 150 0.44
122 2 0.01
123 2 0.01
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
GGTTTTTATATATTGCGTGACCTGTTGTAGTGAGAGTGGTGGCACG
Found at i:6381478 original size:229 final size:223
Alignment explanation
Indices: 6381067--6381500 Score: 600
Period size: 229 Copynumber: 1.9 Consensus size: 223
6381057 AGTGCGTGAC
* *
6381067 TGACTTGTGCAATTCATGTGTTATTTTGAGGCTTTTGTTCAGTAATTTTTTAGGCAGTGCGTGAG
1 TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAATTTTTTAGGCAGTGCGTGAC
* * *
6381132 TGGTTTTTATATATTGCGTTACCTGTTGTAGTGAGAATGGTGGCACATGACTTGTGCAATTCATG
66 TGATTTTTATATATTGCGTGACCTGTTGTAGTGAGAATGGTGGCACATAACTTGTGCAATTCATG
* * * *
6381197 TGTTGTTTTGAAGCTTTTGTTCAATAGTTTTTTAGGCTTGCGTGATTGGTTTTTATATATTGCGT
131 TGTTGTTTAGAAGCTTTTGTTCAATAGTTTTTTAGGATTGCGTGACTGGTTTTTATATATTACGT
* *
6381262 TACTTGTTGTAGTGTGAGTAGTGGCGCG
196 GACCTGTTGTAGTGTGAGTAGTGGCGCG
* * * *
6381290 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAGGC-TTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAATTTTTTAGGCAGTGCGTGAC
* * *
6381354 TGATTTTTATATATTGTGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGCACGTAACTTGTGCA
66 TGATTTTTATATATTGCGTGACCTGTTG-TA-G---T--GAGAATGGTGGCACATAACTTGTGCA
* * * *
6381419 ATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAGGATTGCGTTACTGGTTTTTATAT
124 ATTCATGTGTTGTTTAGAAGCTTTTGTTCAATAGTTTTTTAGGATTGCGTGACTGGTTTTTATAT
6381484 ATTACGTGACCTGTTGT
189 ATTACGTGACCTGTTGT
6381501 TATATATTGC
Statistics
Matches: 182, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
222 32 0.18
223 53 0.29
224 1 0.01
227 1 0.01
229 95 0.52
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (223 bp):
TGACTTGTGCAATTCATGTGTTATTTAGAGGCTTTTGTTCAGTAATTTTTTAGGCAGTGCGTGAC
TGATTTTTATATATTGCGTGACCTGTTGTAGTGAGAATGGTGGCACATAACTTGTGCAATTCATG
TGTTGTTTAGAAGCTTTTGTTCAATAGTTTTTTAGGATTGCGTGACTGGTTTTTATATATTACGT
GACCTGTTGTAGTGTGAGTAGTGGCGCG
Found at i:6381606 original size:118 final size:118
Alignment explanation
Indices: 6381277--6381607 Score: 297
Period size: 118 Copynumber: 2.8 Consensus size: 118
6381267 GTTGTAGTGT
* * * ** * * * * *
6381277 GAGTAGTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTA
1 GAGTGGTGGCACGTAACTTGTGCAATTCACCTCTTGTTTAGAGGCATTTGTTCACTAGTTTATTA
* * * * * * * * ** *
6381342 GGCTTGCGTGACTGATTTTTATATATTGTGTGACCTGTTGTTATGTATTGCGA
66 GGATTGCATTAATGGTTATTAGACATTACGTGACCTGTTGTTATATATTGCGA
** * * * * *
6381395 GAGTGGTGGCACGTAACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTA
1 GAGTGGTGGCACGTAACTTGTGCAATTCACCTCTTGTTTAGAGGCATTTGTTCACTAGTTTATTA
* * * * *
6381460 GGATTGCGTTACTGGTTTTTATATATTACGTGACCTGTTGTTATATATTGCGA
66 GGATTGCATTAATGGTTATTAGACATTACGTGACCTGTTGTTATATATTGCGA
* * * *
6381513 GAGTGGTGGCGCGTGACTTGTGTAATTCACCTCTTGTTTAGGGGCATTTGTTCACTAG-TTATTA
1 GAGTGGTGGCACGTAACTTGTGCAATTCACCTCTTGTTTAGAGGCATTTGTTCACTAGTTTATTA
6381577 GGCATTGCATTAAT-GTGTATTAGACATTACG
66 GG-ATTGCATTAATGGT-TATTAGACATTACG
6381608 ACACTTAATT
Statistics
Matches: 186, Mismatches: 25, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
117 9 0.05
118 177 0.95
ACGTcount: A:0.19, C:0.11, G:0.27, T:0.43
Consensus pattern (118 bp):
GAGTGGTGGCACGTAACTTGTGCAATTCACCTCTTGTTTAGAGGCATTTGTTCACTAGTTTATTA
GGATTGCATTAATGGTTATTAGACATTACGTGACCTGTTGTTATATATTGCGA
Found at i:6387145 original size:13 final size:13
Alignment explanation
Indices: 6387127--6387160 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
6387117 AGAATACAAG
6387127 AAGAAGATAA-AAA
1 AAGAAGA-AAGAAA
6387140 AAGAAGAAAGAAA
1 AAGAAGAAAGAAA
6387153 AAGAAGAA
1 AAGAAGAA
6387161 TGGGAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:6391174 original size:23 final size:23
Alignment explanation
Indices: 6391131--6391175 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6391121 TCAATTTTTC
*
6391131 TACTCACGCAATTTCAAAATAAA
1 TACTCACGCAATTCCAAAATAAA
* *
6391154 TACTCACGCCATTCCATAATAA
1 TACTCACGCAATTCCAAAATAA
6391176 CTAGTAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (23 bp):
TACTCACGCAATTCCAAAATAAA
Found at i:6391754 original size:23 final size:23
Alignment explanation
Indices: 6391722--6391787 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
6391712 GTATCACATG
*
6391722 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGAA
6391746 AATGATACAATAAAGAATAATATGAA
1 AATGATAC---AAAGAATAATATGAA
6391772 AATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
6391788 GTTAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.21
23 4 0.11
24 4 0.11
26 22 0.58
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGAA
Found at i:6391766 original size:26 final size:26
Alignment explanation
Indices: 6391731--6391780 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
6391721 GAATGAATAC
*
6391731 AAAGAATAATATGTAAATGATACAAT
1 AAAGAATAATATGAAAATGATACAAT
6391757 AAAGAATAATATGAAAATGATACA
1 AAAGAATAATATGAAAATGATACA
6391781 GAATAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.24
Consensus pattern (26 bp):
AAAGAATAATATGAAAATGATACAAT
Found at i:6393377 original size:45 final size:45
Alignment explanation
Indices: 6393323--6393423 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
6393313 GATATGCTCA
* *
6393323 TGCAGTGACTGCGTCTGCATCTGCATCGCCCGCTGGATCTCCAAC
1 TGCATTGACTGCATCTGCATCTGCATCGCCCGCTGGATCTCCAAC
* * * * *
6393368 TGCATTGACTGTATCTGTATTTGCATCGCCTGCTGGATCTCTAAC
1 TGCATTGACTGCATCTGCATCTGCATCGCCCGCTGGATCTCCAAC
*
6393413 TACATTGACTG
1 TGCATTGACTG
6393424 TTGGATCTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.32
Consensus pattern (45 bp):
TGCATTGACTGCATCTGCATCTGCATCGCCCGCTGGATCTCCAAC
Found at i:6393428 original size:24 final size:24
Alignment explanation
Indices: 6393401--6393447 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
6393391 CATCGCCTGC
*
6393401 TGGATCTCTAACTACATTGACTGT
1 TGGATCTCCAACTACATTGACTGT
*
6393425 TGGATCTCCAACTGCATTGACTG
1 TGGATCTCCAACTACATTGACTG
6393448 CATCTACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (24 bp):
TGGATCTCCAACTACATTGACTGT
Found at i:6394039 original size:16 final size:16
Alignment explanation
Indices: 6394009--6394038 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6393999 TACCCTATGA
6394009 TAATAAAAATAAAAAT
1 TAATAAAAATAAAAAT
6394025 TAAT-AAAATAAAAA
1 TAATAAAAATAAAAA
6394039 AAATATGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
TAATAAAAATAAAAAT
Found at i:6396526 original size:14 final size:14
Alignment explanation
Indices: 6396489--6396518 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6396479 AAGAGAAAAG
*
6396489 AACAAAGAAAGAAA
1 AACAAAAAAAGAAA
6396503 AACAAAAAAAGAAA
1 AACAAAAAAAGAAA
6396517 AA
1 AA
6396519 AAGGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (14 bp):
AACAAAAAAAGAAA
Found at i:6396628 original size:15 final size:15
Alignment explanation
Indices: 6396608--6396645 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
6396598 CCTATGTATG
6396608 TTAGATT-CATTATA
1 TTAGATTACATTATA
*
6396622 CTTAGATTAGATTATA
1 -TTAGATTACATTATA
6396638 TTAGATTA
1 TTAGATTA
6396646 GATGGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (15 bp):
TTAGATTACATTATA
Found at i:6396646 original size:15 final size:16
Alignment explanation
Indices: 6396616--6396648 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6396606 TGTTAGATTC
6396616 ATTATACTTAGATTAG
1 ATTATACTTAGATTAG
6396632 ATTATA-TTAGATTAG
1 ATTATACTTAGATTAG
6396647 AT
1 AT
6396649 GGTCAAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (16 bp):
ATTATACTTAGATTAG
Found at i:6398832 original size:36 final size:37
Alignment explanation
Indices: 6398792--6398875 Score: 98
Period size: 38 Copynumber: 2.3 Consensus size: 37
6398782 TTGAATTGGA
*
6398792 TTTTATCAACCGTAGT-TAAGTTATTTACAATTACAC
1 TTTTATCAACCGTAATATAAGTTATTTACAATTACAC
** **
6398828 TTTTATCAATTTGTAATATAAGTTATTTATGATTACAC
1 TTTTATCAA-CCGTAATATAAGTTATTTACAATTACAC
*
6398866 TTTTGTCAAC
1 TTTTATCAAC
6398876 TTGTGACATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 9 0.23
37 4 0.10
38 26 0.67
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.46
Consensus pattern (37 bp):
TTTTATCAACCGTAATATAAGTTATTTACAATTACAC
Found at i:6402806 original size:25 final size:25
Alignment explanation
Indices: 6402760--6402840 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
6402750 AATCGGTTCC
* * *
6402760 TCCTCACCTTCACCTGCAACATATA
1 TCCTCACCTCCACCAGCGACATATA
** *
6402785 TCCTCACCTCTGCCAGCGACATAGA
1 TCCTCACCTCCACCAGCGACATATA
* *
6402810 TCCTCACCTCCACCGGTGACATATA
1 TCCTCACCTCCACCAGCGACATATA
6402835 TCCTCA
1 TCCTCA
6402841 AATCTGAGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.25, C:0.41, G:0.10, T:0.25
Consensus pattern (25 bp):
TCCTCACCTCCACCAGCGACATATA
Found at i:6405915 original size:28 final size:28
Alignment explanation
Indices: 6405879--6405933 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6405869 GATTGAAATT
*
6405879 TTATTTATGTTTGATGTAATATATTTGC
1 TTATCTATGTTTGATGTAATATATTTGC
*
6405907 TTATCTATGTTTGATGTAATTTATTTG
1 TTATCTATGTTTGATGTAATATATTTG
6405934 TTTGTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.15, T:0.58
Consensus pattern (28 bp):
TTATCTATGTTTGATGTAATATATTTGC
Found at i:6409728 original size:59 final size:59
Alignment explanation
Indices: 6409662--6409779 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
6409652 CCTCAAAAGA
*
6409662 TTTAAAATCCACAAATGCCCAATTCTGATTTTCAAACACTCTGTTAAATATACAAGGAC
1 TTTAAAATCCACAAATGCCCAATTCTGAATTTCAAACACTCTGTTAAATATACAAGGAC
* * * *
6409721 TTTAAAATCCACAAATGCCCAGTTCTGAATTTCACACGCTTTGTTAAATATACAAGGAC
1 TTTAAAATCCACAAATGCCCAATTCTGAATTTCAAACACTCTGTTAAATATACAAGGAC
6409780 ATATATTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (59 bp):
TTTAAAATCCACAAATGCCCAATTCTGAATTTCAAACACTCTGTTAAATATACAAGGAC
Found at i:6411183 original size:19 final size:18
Alignment explanation
Indices: 6411161--6411200 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
6411151 TAACTTTGAG
6411161 AAAAGAAAAAAAAGAAATA
1 AAAAGAAAAAAAA-AAATA
*
6411180 AAAAGAGAAAAAAAAATA
1 AAAAGAAAAAAAAAAATA
6411198 AAA
1 AAA
6411201 CACAAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAAAAAAATA
Found at i:6412739 original size:9 final size:8
Alignment explanation
Indices: 6412717--6412741 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6412707 AAAAGTTATT
6412717 TTAAAAAA
1 TTAAAAAA
6412725 TTAAAAAA
1 TTAAAAAA
6412733 TTAAAAAA
1 TTAAAAAA
6412741 T
1 T
6412742 ATATAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
TTAAAAAA
Found at i:6416297 original size:146 final size:146
Alignment explanation
Indices: 6416019--6416286 Score: 410
Period size: 146 Copynumber: 1.8 Consensus size: 146
6416009 ATAATATTTC
* *
6416019 ATATCAAAGTTTGTATAAATAATAACTAATTATGAACAATATGTTATAAAAACTAAGGTGATAAC
1 ATATCAAAGTTTGTAAAAATAATAACTAATTATAAACAATATGTTATAAAAACTAAGGTGATAAC
* * *
6416084 TAATAAAGTTATTAAGTGTAATCACATAAATAAAATTTATTATAAGTTATAGGAATTATATATTA
66 TAACAAAGTTATTAAGTGTAATCACATAAATAAAATCTATTATAAGTTATAAGAATTATATATTA
6416149 TAATATTTTAAGTTTT
131 TAATATTTTAAGTTTT
*
6416165 ATATCAAAGTTTGTAAAAATAATAACTAATTATAAATAATATGTTATAAAAACTAAGGTGATAAC
1 ATATCAAAGTTTGTAAAAATAATAACTAATTATAAACAATATGTTATAAAAACTAAGGTGATAAC
* * * * * * * *
6416230 TAACAAAGTTTTTAAGTGTAATTATATTAATAAAGTCTATTTTAAGTTGTAATAATT
66 TAACAAAGTTATTAAGTGTAATCACATAAATAAAATCTATTATAAGTTATAAGAATT
6416287 CTTATGTATA
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
146 108 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (146 bp):
ATATCAAAGTTTGTAAAAATAATAACTAATTATAAACAATATGTTATAAAAACTAAGGTGATAAC
TAACAAAGTTATTAAGTGTAATCACATAAATAAAATCTATTATAAGTTATAAGAATTATATATTA
TAATATTTTAAGTTTT
Found at i:6417004 original size:2 final size:2
Alignment explanation
Indices: 6416992--6417047 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
6416982 TATAAATTAA
* * *
6416992 AT AT AT GT AT AT AT A- AT AT AT TT AT AC A- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6417031 AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT A
6417048 ACATTTTGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6417840 original size:20 final size:21
Alignment explanation
Indices: 6417811--6417852 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
6417801 ATTAATAACA
6417811 TTTAAAAGAAAATT-TTATAT
1 TTTAAAAGAAAATTATTATAT
*
6417831 TTTAATAGAAAATTATTATAT
1 TTTAAAAGAAAATTATTATAT
6417852 T
1 T
6417853 AAAGGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (21 bp):
TTTAAAAGAAAATTATTATAT
Found at i:6431114 original size:24 final size:24
Alignment explanation
Indices: 6431086--6431139 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
6431076 TTATGGATGC
6431086 ACATGATGCAATTATGAAATAGTG
1 ACATGATGCAATTATGAAATAGTG
6431110 ACATGATGCAATTATGAAATAGTG
1 ACATGATGCAATTATGAAATAGTG
*
6431134 ATATGA
1 ACATGA
6431140 GTTACAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (24 bp):
ACATGATGCAATTATGAAATAGTG
Found at i:6433280 original size:16 final size:16
Alignment explanation
Indices: 6433261--6433295 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6433251 GCCCCATTCT
6433261 AAAT-AAATAAGAATAA
1 AAATAAAATAA-AATAA
6433277 AAATAAAATAAAATAA
1 AAATAAAATAAAATAA
6433293 AAA
1 AAA
6433296 GTAATAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:6433581 original size:55 final size:55
Alignment explanation
Indices: 6433497--6433651 Score: 206
Period size: 57 Copynumber: 2.7 Consensus size: 55
6433487 AAAAAGAGGA
*
6433497 AAACAAAACAAAAGAGTAAATGAGACAAAAAAGCAAGAAAAAAAA-A-CTTAGAAACCC
1 AAAC-AAA-AAAAGAGTAAATGAGACAAAAAAG-TAGAAAAAAAACAGC-TAGAAACCC
*
6433554 AAACAAAAAAAGAATAAATGAGACAAAAAAGTAGAAAAAAAATCCAGCTAGAAACCC
1 AAACAAAAAAAGAGTAAATGAGACAAAAAAGTAGAAAAAAAA--CAGCTAGAAACCC
* *
6433611 AAACTAAAAAAGAGTAAATGAGACAAAGAAGTAGAAAAAAA
1 AAACAAAAAAAGAGTAAATGAGACAAAAAAGTAGAAAAAAA
6433652 TCCAGAAAAC
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
54 10 0.11
55 23 0.26
56 3 0.03
57 52 0.58
58 1 0.01
ACGTcount: A:0.66, C:0.12, G:0.14, T:0.08
Consensus pattern (55 bp):
AAACAAAAAAAGAGTAAATGAGACAAAAAAGTAGAAAAAAAACAGCTAGAAACCC
Found at i:6434469 original size:21 final size:22
Alignment explanation
Indices: 6434435--6434491 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
6434425 TTCCCATGGA
* *
6434435 ATTTTGGATAGAATATGAT-GCT
1 ATTTTTGATGGAATATGATAG-T
* *
6434457 -TTTTTGATGGAATTTGTTAGT
1 ATTTTTGATGGAATATGATAGT
6434478 ATTTTTGATGGAAT
1 ATTTTTGATGGAAT
6434492 CCGCAGGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (22 bp):
ATTTTTGATGGAATATGATAGT
Found at i:6445607 original size:2 final size:2
Alignment explanation
Indices: 6445600--6445651 Score: 67
Period size: 2 Copynumber: 27.5 Consensus size: 2
6445590 ACATCAAAAT
6445600 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6445639 TA TA GTA TA -A TA T
1 TA TA -TA TA TA TA T
6445652 GAATCAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
1 4 0.09
2 39 0.87
3 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6445628 original size:7 final size:7
Alignment explanation
Indices: 6445598--6445647 Score: 73
Period size: 7 Copynumber: 6.9 Consensus size: 7
6445588 ATACATCAAA
6445598 ATTATAT
1 ATTATAT
6445605 ATATATAT
1 AT-TATAT
6445613 ATATATAT
1 AT-TATAT
6445621 ATTATAT
1 ATTATAT
6445628 ATTATAT
1 ATTATAT
6445635 ATTATAT
1 ATTATAT
*
6445642 AGTATA
1 ATTATA
6445648 ATATGAATCA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 26 0.63
8 15 0.37
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (7 bp):
ATTATAT
Found at i:6464585 original size:20 final size:20
Alignment explanation
Indices: 6464557--6464604 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
6464547 TTATAATTAG
*
6464557 TTTATTTTTAAGTGAGTTT-T
1 TTTAATTTTAAGTGA-TTTCT
* *
6464577 TTTAATTTTATGTTATTTCT
1 TTTAATTTTAAGTGATTTCT
6464597 TTTAATTT
1 TTTAATTT
6464605 GATTGTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTAATTTTAAGTGATTTCT
Found at i:6464599 original size:21 final size:21
Alignment explanation
Indices: 6464576--6464615 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
6464566 AAGTGAGTTT
*
6464576 TTTTAATTTTA-TGTTATTTC
1 TTTTAATTTGATTGTTATTTC
6464596 TTTTAATTTGATTGTTATTT
1 TTTTAATTTGATTGTTATTT
6464616 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTTAATTTGATTGTTATTTC
Found at i:6469193 original size:19 final size:20
Alignment explanation
Indices: 6469165--6469204 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
6469155 TATTTTAAGA
*
6469165 TATGTCTTGCATG-TTTATT
1 TATGTATTGCATGTTTTATT
6469184 TATGTATTGCATGTTTTATT
1 TATGTATTGCATGTTTTATT
6469204 T
1 T
6469205 GTGTTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.17, C:0.07, G:0.15, T:0.60
Consensus pattern (20 bp):
TATGTATTGCATGTTTTATT
Found at i:6477369 original size:18 final size:18
Alignment explanation
Indices: 6477341--6477375 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
6477331 CTCCACTCCT
6477341 TTTTCTCTCTTTCTTTTTC
1 TTTTCTCTC-TTCTTTTTC
6477360 TTTT-TCTCTTCTTTTT
1 TTTTCTCTCTTCTTTTT
6477376 TGTGTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTCTCTCTTCTTTTTC
Found at i:6477376 original size:18 final size:20
Alignment explanation
Indices: 6477339--6477376 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6477329 TTCTCCACTC
*
6477339 CTTTTTCTCTCTTTCTTTTT
1 CTTTTTCTCTCTCTCTTTTT
6477359 CTTTTTCTCT-TCT-TTTTT
1 CTTTTTCTCTCTCTCTTTTT
6477377 GTGTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 2 0.12
20 10 0.59
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (20 bp):
CTTTTTCTCTCTCTCTTTTT
Found at i:6487908 original size:13 final size:13
Alignment explanation
Indices: 6487890--6487914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6487880 GGAAAATGGG
6487890 ATTTTATAAAATA
1 ATTTTATAAAATA
6487903 ATTTTATAAAAT
1 ATTTTATAAAAT
6487915 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:6490859 original size:17 final size:18
Alignment explanation
Indices: 6490828--6490861 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6490818 TTCAATTTGG
6490828 CTTCGTCTTCCTTTTATT
1 CTTCGTCTTCCTTTTATT
*
6490846 CTTC-TCTTCGTTTTAT
1 CTTCGTCTTCCTTTTAT
6490862 AAGTAACATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.06, C:0.26, G:0.06, T:0.62
Consensus pattern (18 bp):
CTTCGTCTTCCTTTTATT
Found at i:6518835 original size:24 final size:25
Alignment explanation
Indices: 6518808--6518861 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
6518798 ATATATATAA
*
6518808 ATTACTTTTTG-ATAATATTTAAAT
1 ATTACTTTTTGAAGAATATTTAAAT
*
6518832 ATTATTTTTTGTAAGAATATTTAAAT
1 ATTACTTTTTG-AAGAATATTTAAAT
6518858 ATTA
1 ATTA
6518862 TTAATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 10 0.38
26 16 0.62
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (25 bp):
ATTACTTTTTGAAGAATATTTAAAT
Found at i:6520161 original size:42 final size:42
Alignment explanation
Indices: 6520114--6520234 Score: 117
Period size: 30 Copynumber: 3.2 Consensus size: 42
6520104 AACTAATTAT
6520114 TAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAA
1 TAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAA
* *
6520156 TAAAT--AAAATTGTATTGAAA--C--T----A-AT-TAT--
1 TAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAA
*
6520184 TAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATACAA
1 TAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAA
6520226 TAAATAAAA
1 TAAATAAAA
6520235 TTGTATTGAA
Statistics
Matches: 60, Mismatches: 5, Indels: 28
0.65 0.05 0.30
Matches are distributed among these distances:
28 5 0.08
30 16 0.27
31 2 0.03
32 2 0.03
34 1 0.02
36 1 0.02
38 2 0.03
39 2 0.03
40 15 0.25
42 14 0.23
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (42 bp):
TAAATAAAAAATTATTTTGAAAGCCATTAAAAATATATATAA
Done.