Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 59 of 433
Found at i:16833671 original size:121 final size:119
Alignment explanation
Indices: 16833513--16833734 Score: 329
Period size: 121 Copynumber: 1.8 Consensus size: 119
16833503 TTTTCATTTT
* *
16833513 TCTATCATTTAATTGCATTCTTAGGTTAGTTATCATACATTTCGTGTTAAATCAAGTTATTAGGA
1 TCTATCATTTAATTGCATTCCTAGGTTAGTTATCATACATTCCGTGTTAAATCAAG--ATTAGGA
* *
16833578 ACACCTCATA-CCATGACATTACTATGCTTATTCTCATACTATTACCATGCCAATG
64 AAACCTCATACCCATGACATTACTATGCTCATTCTCATACTATTACCATGCCAATG
**
16833633 TCTATCATTTAATTTGCATTCCTAGGTTAGTTATCATACATTCCGTGTTAAATTGAGATTAGGAA
1 TCTATCATTTAA-TTGCATTCCTAGGTTAGTTATCATACATTCCGTGTTAAATCAAGATTAGGAA
* * *
16833698 AACCTCATACCCATTACATTTCTATTCTCATTCTCAT
65 AACCTCATACCCATGACATTACTATGCTCATTCTCAT
16833735 TGTTATTGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
119 16 0.18
120 35 0.38
121 40 0.44
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (119 bp):
TCTATCATTTAATTGCATTCCTAGGTTAGTTATCATACATTCCGTGTTAAATCAAGATTAGGAAA
ACCTCATACCCATGACATTACTATGCTCATTCTCATACTATTACCATGCCAATG
Found at i:16836226 original size:10 final size:11
Alignment explanation
Indices: 16836203--16836230 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16836193 ACTTGTTCTT
16836203 AAAATAAATAA
1 AAAATAAATAA
16836214 AAAATAAATAA
1 AAAATAAATAA
16836225 AAAATA
1 AAAATA
16836231 TGTATACATA
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:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:16842855 original size:46 final size:46
Alignment explanation
Indices: 16842802--16842977 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
16842792 TATTTGGGCA
16842802 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
16842848 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
16842895 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16842941 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16842978 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16842957 original size:93 final size:93
Alignment explanation
Indices: 16842798--16842969 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16842788 GGGATATTTG
* *
16842798 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16842863 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
16842891 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16842956 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16842970 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16845947 original size:15 final size:15
Alignment explanation
Indices: 16845927--16845995 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
16845917 GTATCTTGGG
16845927 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
16845942 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
16845957 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16845972 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16845987 TTTCTTTAT
1 TTTCTTTAT
16845996 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16845996 original size:30 final size:30
Alignment explanation
Indices: 16845918--16846005 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
16845908 CATAGTATCG
* * * *
16845918 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
16845948 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
16845978 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
16846006 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:16848444 original size:46 final size:46
Alignment explanation
Indices: 16848391--16848566 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
16848381 TATTTGGGCA
16848391 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
16848437 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
16848484 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16848530 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16848567 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16848546 original size:93 final size:93
Alignment explanation
Indices: 16848387--16848558 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16848377 GGGATATTTG
* *
16848387 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16848452 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
16848480 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16848545 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16848559 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16851537 original size:15 final size:15
Alignment explanation
Indices: 16851517--16851585 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
16851507 GTATCTTGGG
16851517 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
16851532 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
16851547 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16851562 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16851577 TTTCTTTAT
1 TTTCTTTAT
16851586 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16851586 original size:30 final size:30
Alignment explanation
Indices: 16851508--16851595 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
16851498 CATAGTATCG
* * * *
16851508 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
16851538 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
16851568 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
16851596 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:16854031 original size:46 final size:46
Alignment explanation
Indices: 16853978--16854153 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
16853968 TATTTGGGCA
16853978 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
16854024 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
16854071 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
16854117 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16854154 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:16854133 original size:93 final size:93
Alignment explanation
Indices: 16853974--16854145 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
16853964 GGGATATTTG
* *
16853974 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16854039 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
16854067 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
16854132 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16854146 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16856763 original size:43 final size:43
Alignment explanation
Indices: 16856698--16856853 Score: 215
Period size: 43 Copynumber: 3.7 Consensus size: 43
16856688 AACTAGTACA
* * * *
16856698 ATGCC-ATATCCCAGACATGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTAAGATCG
* * * * *
16856740 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCTTAGATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTAAGATCG
*
16856783 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAGATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTAAGATCG
16856826 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
16856854 CAATATCACA
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 5 0.05
43 94 0.95
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCTAAGATCG
Found at i:16856851 original size:86 final size:85
Alignment explanation
Indices: 16856696--16856854 Score: 246
Period size: 86 Copynumber: 1.9 Consensus size: 85
16856686 TAAACTAGTA
* * *
16856696 CAATGCCATATCCCAGACATGGTCTTACATGTTATCAAATATCGATGCCACTGTCCCAGACAGGG
1 CAATGCCATATCCCAGACATGGTCTTACATGTAATCAAAGATCGATGCCAATGTCCCAGACAGGG
16856761 TCTTACACGTAATCTTAGAT
66 TCTTACACGTAATCTTAGAT
* ** *
16856781 CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCTCAGATCGATGCCAATGTCCCAGACATG
1 CAATGCC-ATATCCCAGACATGGTCTTACATGTAATCAAAGATCGATGCCAATGTCCCAGACAGG
16856846 GTCTTACAC
65 GTCTTACAC
16856855 AATATCACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
85 7 0.11
86 59 0.89
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (85 bp):
CAATGCCATATCCCAGACATGGTCTTACATGTAATCAAAGATCGATGCCAATGTCCCAGACAGGG
TCTTACACGTAATCTTAGAT
Found at i:16863254 original size:34 final size:34
Alignment explanation
Indices: 16863211--16863281 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
16863201 CTTGAATGTC
16863211 TAATTATACTATGTTGCATGCCATCAAAGTTGAT
1 TAATTATACTATGTTGCATGCCATCAAAGTTGAT
16863245 TAATTATACTATGTTGCATGCCATCAAAGTTGAT
1 TAATTATACTATGTTGCATGCCATCAAAGTTGAT
16863279 TAA
1 TAA
16863282 GTGAATGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (34 bp):
TAATTATACTATGTTGCATGCCATCAAAGTTGAT
Found at i:16865754 original size:40 final size:40
Alignment explanation
Indices: 16865680--16865901 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
16865670 AACCCAAGTA
* *
16865680 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
16865719 CCTTCGGGTCTTAGCCCAGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
16865759 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
16865799 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
16865839 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
16865879 CCTTCAGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
16865902 CATTCAAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:16873621 original size:40 final size:40
Alignment explanation
Indices: 16873547--16873768 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
16873537 AACCCAAGTA
* *
16873547 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
16873586 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
16873626 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
16873666 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
16873706 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
16873746 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
16873769 CATTCGAATA
Statistics
Matches: 174, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 12 0.07
40 159 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:16877580 original size:27 final size:27
Alignment explanation
Indices: 16877550--16877613 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
16877540 TAGTCACTTG
16877550 CCCACAAGGGCAAAACAATCATTTTAC
1 CCCACAAGGGCAAAACAATCATTTTAC
16877577 CCCACAAGGGCAAAACAATCATTTTAC
1 CCCACAAGGGCAAAACAATCATTTTAC
16877604 CCCACAAGGG
1 CCCACAAGGG
16877614 TATCTTGGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (27 bp):
CCCACAAGGGCAAAACAATCATTTTAC
Found at i:16877631 original size:27 final size:27
Alignment explanation
Indices: 16877601--16877815 Score: 238
Period size: 27 Copynumber: 8.0 Consensus size: 27
16877591 ACAATCATTT
*
16877601 TACCCCACAAGGGTATCTT-GGTAATTC
1 TACCCTACAAGGGTAT-TTCGGTAATTC
* *
16877628 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
16877655 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
16877682 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
*
16877709 TACCCTACAAGGGTATTTCGGTAACTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* * * *
16877736 T-CCGTTATAGGGGTATTTCAGTAATTC
1 TACC-CTACAAGGGTATTTCGGTAATTC
* * *
16877763 TACCCTACAGGGGTATTTTGGTAATTT
1 TACCCTACAAGGGTATTTCGGTAATTC
** *
16877790 TA-CAAACCAAGGGTATTTTGGTAATT
1 TACCCTA-CAAGGGTATTTCGGTAATT
16877816 TTACAAGTCG
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.04
27 153 0.95
28 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATTC
Found at i:16877659 original size:54 final size:54
Alignment explanation
Indices: 16877597--16877788 Score: 273
Period size: 54 Copynumber: 3.6 Consensus size: 54
16877587 CAAAACAATC
*
16877597 ATTT-TACCCCACAAGGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTAT-TTCGGTAATTCTACCCTACAGGGGTATTTCGGT
16877650 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * * *
16877704 ATTTCTACCCTACAAGGGTATTTCGGTAACTCT-CCGTTATAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACC-CTACAGGGGTATTTCGGT
* * *
16877758 AATTCTACCCTACAGGGGTATTTTGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATT
16877789 TTACAAACCA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
53 8 0.06
54 119 0.94
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:16877814 original size:54 final size:54
Alignment explanation
Indices: 16877635--16878355 Score: 376
Period size: 54 Copynumber: 13.4 Consensus size: 54
16877625 TTCTACCCTA
* * * * * * **
16877635 CAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA-
1 CAGGGGTATTTTGGTAATTCTAACCTACAGGGGTATTTTGGTAATTTTA-CAAAC
* * * * * * * * **
16877689 CAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAACTCTCCGTTA-
1 CAGGGGTATTTTGGTAATTCTAACCTACAGGGGTATTTTGGTAATTTTAC-AAAC
* ** *
16877743 TAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTCTAACCTACAGGGGTATTTTGGTAATTTTACAAAC
* * ** ** * *
16877797 CAAGGGTATTTTGGTAATTTTACAAGT-C-GAGGGTATTTCAGTAATTTAACAAAT
1 CAGGGGTATTTTGGTAATTCTA-ACCTACAG-GGGTATTTTGGTAATTTTACAAAC
* * * *
16877851 TAGGGGTATTTTGGTAATTTTGTAAACC-A-A-GGGCATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAA--TTCT-AACCTACAGGGGTATTTTGGTAATTTTACAAAC
* *
16877905 TAGGGGTATTTTGGTAATTTTGTAAACC-A-A-GGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAA--TTCT-AACCTACAGGGGTATTTTGGTAATTTTACAAAC
* * * **
16877959 TAGGGGTATTTTGGTAATTTTTTAAACC-A-A-GGTTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAA--TTCT-AACCTACAGGGGTATTTTGGTAATTTTACAAAC
* ** * * *
16878013 CAAGGGTATTTTGGTAATTCTACAGGT-C-GAGGGTATTTTAGTAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTCTA-ACCTACAG-GGGTATTTTGGTAATTTTACAAAC
* *
16878067 CAAGGGTATTTTGGTAATTTTGTAAACC-A-A-GGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAA--TTCT-AACCTACAGGGGTATTTTGGTAATTTTACAAAC
* * **
16878121 CAGGGGTAGTTTGGTAATTTTGTAAACC-A-A-GGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAA--TTCT-AACCTACAGGGGTATTTTGGTAATTTTACAAAC
* ** * ** * * *
16878175 CAAGGGTATTTTGGTAATTCTAAAGGT-C-GAGGGCATTTCAGAAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTCT-AACCTACAG-GGGTATTTTGGTAATTTTACAAAC
* * ** **
16878229 TAGGGGTATTTTGGTAATT-TTACAAACTAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTCTAACCTAC-AGGGGTATTTTGGTAATTTTACAAAC
* * ** * *
16878283 CAAGGGTATTTTGGTAATT-TCACAAACTAGGGGTATTTTTGTAGTTTTACAAAC
1 CAGGGGTATTTTGGTAATTCTAACCTAC-AGGGGTATTTTGGTAATTTTACAAAC
16878337 CAGGGGTATTTTGGTAATT
1 CAGGGGTATTTTGGTAATT
16878356 TTGCTAATCG
Statistics
Matches: 543, Mismatches: 98, Indels: 52
0.78 0.14 0.08
Matches are distributed among these distances:
51 1 0.00
52 11 0.02
53 5 0.01
54 514 0.95
55 2 0.00
56 8 0.01
57 2 0.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTCTAACCTACAGGGGTATTTTGGTAATTTTACAAAC
Found at i:16877816 original size:27 final size:27
Alignment explanation
Indices: 16877773--16878384 Score: 614
Period size: 27 Copynumber: 22.7 Consensus size: 27
16877763 TACCCTACAG
16877773 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
16877800 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * ** *
16877827 GGGTATTTCAGTAATTTAACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
16877854 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
16877881 GGGCATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
16877908 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
16877935 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
16877962 GGGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
16877989 GGTTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *** *
16878016 GGGTATTTTGGTAATTCTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
16878043 GGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
16878070 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
16878097 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
16878124 GGGTAGTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
16878151 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* ** *
16878178 GGGTATTTTGGTAATTCTA-AAGGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACCAA
* ** * * ** *
16878205 GGGCATTTCAGAAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
16878232 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
**
16878259 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
16878286 GGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
16878313 GGGTATTTTTGTAGTTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* * * *
16878340 GGGTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
16878367 GGGTATTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
16878385 GCTAATAGAG
Statistics
Matches: 479, Mismatches: 104, Indels: 4
0.82 0.18 0.01
Matches are distributed among these distances:
26 2 0.00
27 475 0.99
28 2 0.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:16878406 original size:27 final size:27
Alignment explanation
Indices: 16878349--16878409 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
16878339 GGGGTATTTT
* ***
16878349 GGTAATTTTGCTAATCGAGGGTATTTT
1 GGTAATTTTGCTAATAGAGGGTATAAC
16878376 GGTAATTTTGCTAATAGAGGGT-TAAAC
1 GGTAATTTTGCTAATAGAGGGTAT-AAC
16878403 GGTAATT
1 GGTAATT
16878410 CTGTAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.39
Consensus pattern (27 bp):
GGTAATTTTGCTAATAGAGGGTATAAC
Found at i:16880623 original size:24 final size:25
Alignment explanation
Indices: 16880596--16880647 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
16880586 GCCTAGCCTC
*
16880596 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
**
16880620 TTTTGGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
16880645 TTT
1 TTT
16880648 CGCACTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:16880863 original size:27 final size:27
Alignment explanation
Indices: 16880833--16880993 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
16880823 ACAGTCATTT
* *
16880833 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* *
16880860 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
*
16880887 TACCCTACAAGGGTATTTCGGTATTTC
1 TACCCTACAAGGGTATTTCGGTAATTC
*
16880914 TACCCTACAAGGGTATTTCGGTAACTC
1 TACCCTACAAGGGTATTTCGGTAATTC
* * *
16880941 T-CCTCTATAGGGGTATTTCAGTAATTC
1 TACC-CTACAAGGGTATTTCGGTAATTC
* *
16880968 TACCCTACAGGGGTATTTTGGTAATT
1 TACCCTACAAGGGTATTTCGGTAATT
16880994 TTACAAACCA
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 114 0.97
28 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGGTAATTC
Found at i:16880868 original size:54 final size:54
Alignment explanation
Indices: 16880809--16880926 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
16880799 TAGTCACTTG
16880809 CCTACAAGGGCAAAACAGTCATTT-TACCCCACAAGGGTATCTCGGTAATTCTAC
1 CCTACAAGGGCAAAACAGT-ATTTCTACCCCACAAGGGTATCTCGGTAATTCTAC
* * *** * * * *
16880863 CCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTAC
1 CCTACAAGGGCAAAACAGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTAC
16880917 CCTACAAGGG
1 CCTACAAGGG
16880927 TATTTCGGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.08
54 49 0.92
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (54 bp):
CCTACAAGGGCAAAACAGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTAC
Found at i:16880953 original size:81 final size:80
Alignment explanation
Indices: 16880829--16880997 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 80
16880819 CAAAACAGTC
* * *
16880829 ATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTA
1 ATTTTACCCCACAAGGGTATCTCGGTAACTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
16880894 CAAGGGTATTTCGGT
66 CAAGGGTATTTCGGT
* * *
16880909 ATTTCTACCCTACAAGGGTATTTCGGTAACTCT-CCTCTATAGGGGTATTTCAGTAATTCTACCC
1 ATTT-TACCCCACAAGGGTATCTCGGTAACTCTACC-CTACAGGGGTATTTCAGTAATTCTACCC
* *
16880973 TACAGGGGTATTTTGGT
64 TACAAGGGTATTTCGGT
16880990 AATTTTAC
1 -ATTTTAC
16880998 AAACCAAAGG
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 6 0.08
81 68 0.87
82 4 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (80 bp):
ATTTTACCCCACAAGGGTATCTCGGTAACTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
CAAGGGTATTTCGGT
Found at i:16881010 original size:54 final size:53
Alignment explanation
Indices: 16880840--16881011 Score: 161
Period size: 54 Copynumber: 3.2 Consensus size: 53
16880830 TTTTACCCCA
* *
16880840 CAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTAC-CC
1 CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTT-TACAAC
* * * * **
16880892 TACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAACTCT-CCTC
1 --CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACAAC
* * *
16880946 TATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAAC
1 CA-A-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTAC-AAC
*
16881002 CAAAGGTATT
1 CAAGGGTATT
16881012 GTAATAGCCC
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 86 0.91
55 4 0.04
56 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (53 bp):
CAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTACAAC
Found at i:16882658 original size:68 final size:67
Alignment explanation
Indices: 16882586--16882770 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
16882576 CATCATGTGT
* * *
16882586 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
16882648 ATGTAG
62 ATGTAG
** * * *
16882654 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
16882719 AG
66 AG
* *
16882721 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTC-CATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
16882771 TTCACCATGT
Statistics
Matches: 100, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
64 22 0.22
65 20 0.20
66 12 0.12
67 31 0.31
68 15 0.15
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:16882691 original size:64 final size:64
Alignment explanation
Indices: 16882610--16882792 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
16882600 AGACATTATG
* *
16882610 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
16882674 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16882739 AA
63 AA
* * *
16882741 ACTG--GCTAGGTC-CATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
16882793 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
65 10 0.10
66 10 0.10
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16885409 original size:27 final size:27
Alignment explanation
Indices: 16884583--16885408 Score: 803
Period size: 27 Copynumber: 30.6 Consensus size: 27
16884573 GGGTGTTACA
* * ** *
16884583 GGTATTTTGGTATTTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
** * * * *
16884610 GGTATTTCAGTAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
*
16884637 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * *
16884664 GGTATTTTGGTAATTTTGTAAACTATG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * *
16884691 GGTATTTTGGTAATTCTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
*
16884718 GGTATTTTGGTAATTTTCTAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
*
16884745 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * *** *
16884772 GGCATTTTGGTAATTCTATAGGTCGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
** * * *
16884799 GGTATTTCAGTAATTTCACAAATC-AG
1 GGTATTTTGGTAATTTTATAAACCAAG
*
16884825 GG-ATATTTGGTAATTTTGTAAACCAAG
1 GGTAT-TTTGGTAATTTTATAAACCAAG
* *
16884852 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16884879 GGTATTTTGGTAATTTTGTAAACGAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* ** *
16884906 GGTATTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * * *
16884933 GGTATTTTAGTAATTTCACAAATCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * *
16884960 GGTATTTTGGTAATTTTGTAAACTAAT
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16884987 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16885014 GGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * * *
16885041 GGTATTTTGGTAATTCTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16885068 GGTATTTGGGTAATTTTCTAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16885095 GGTATTTTGGTAATTTTGTAAGCCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* * *** *
16885122 GGTATTTTGGTAATTCTACAGGTCGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
** * * * *
16885149 GGTATTTTAATAATTTCACAAATCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
16885176 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16885203 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16885230 GGTATTTTGGTAATTTTGTAAACGAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
* ****
16885257 GGTATTTTGGTAATTTTACAAGTTGAG
1 GGTATTTTGGTAATTTTATAAACCAAG
** * * *
16885284 GGTATTTCAGTAATTTCACAAATC-AG
1 GGTATTTTGGTAATTTTATAAACCAAG
*
16885310 AGGTATTTTGGTAATTTTGTAAACCAAG
1 -GGTATTTTGGTAATTTTATAAACCAAG
* *
16885338 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTATAAACCAAG
* *
16885365 GGTATTTTGGTAATTTTGTAAACTAAG
1 GGTATTTTGGTAATTTTATAAACCAAG
16885392 GGTATTTTGGTAATTTT
1 GGTATTTTGGTAATTTT
16885409 GCTAATCGAG
Statistics
Matches: 651, Mismatches: 143, Indels: 10
0.81 0.18 0.01
Matches are distributed among these distances:
25 2 0.00
26 19 0.03
27 626 0.96
28 4 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTATAAACCAAG
Found at i:16888632 original size:43 final size:43
Alignment explanation
Indices: 16888491--16888644 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
16888481 ATATAATACA
* * *
16888491 ATGCCAACATCCCAAACGTGGTATTACATGCT-ATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACATG-TAATCACATATCG
* * * * *
16888534 ATGCC-ACTATCCTAGACAAGGTCTTACACG-AACCAAATA-CG
1 ATGCCAAC-ATCCCAGACATGGTCTTACATGTAATCACATATCG
* **
16888575 ATGCCGATGTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACATGTAATCACATATCG
* *
16888618 ATGCCAACGTCCCAGACGTGGTCTTAC
1 ATGCCAACATCCCAGACATGGTCTTAC
16888645 TCGAGAACAC
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
41 25 0.28
42 16 0.18
43 47 0.53
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:16888656 original size:43 final size:41
Alignment explanation
Indices: 16888525--16888659 Score: 121
Period size: 43 Copynumber: 3.2 Consensus size: 41
16888515 TACATGCTAT
* * * * *
16888525 CACATATCGATGCCACTATCCTAGACAAGGTCTTACACGAAC
1 CACATATCGATGCCAC-GTCCCAGACATGGTCTTACTCGAAA
* * *
16888567 CAAATA-CGATGCCGATGTCCCAGACATGGTCTTACAT-GTAAT
1 CACATATCGATGCC-ACGTCCCAGACATGGTCTTAC-TCG-AAA
*
16888609 CACATATCGATGCCAACGTCCCAGACGTGGTCTTACTCGAGAA
1 CACATATCGATGCC-ACGTCCCAGACATGGTCTTACTCGA-AA
16888652 CACATATC
1 CACATATC
16888660 TAAAATCCTA
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
41 24 0.32
42 15 0.20
43 36 0.48
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (41 bp):
CACATATCGATGCCACGTCCCAGACATGGTCTTACTCGAAA
Found at i:16895175 original size:30 final size:30
Alignment explanation
Indices: 16895141--16895201 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
16895131 TTCTCGAGCC
*
16895141 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
* * *
16895171 TAGGGGCAAAATTGTAACTTTGAAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGAAAAAGTT
16895201 T
1 T
16895202 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGAAAAAGTT
Found at i:16899854 original size:43 final size:42
Alignment explanation
Indices: 16899714--16899867 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
16899704 ATATCGTACA
* * * *
16899714 ATGCCAACGTCCCAGATGTGGTCTTACATGCTACCTCATATCG
1 ATGCCAACGTCCCAGATATGGTCTTACACG-TATCACATATCG
* * * *
16899757 ATGCC-ACTGTCCCAAATAGGGTCTTACACGGATCAAATA-CG
1 ATGCCAAC-GTCCCAGATATGGTCTTACACGTATCACATATCG
*** * *
16899798 ATGTTGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGATATGGTCTTACACGT-ATCACATATCG
16899841 ATGCCAACGTCCCAGATATGGTCTTAC
1 ATGCCAACGTCCCAGATATGGTCTTAC
16899868 TTGAGAAAAC
Statistics
Matches: 86, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 24 0.28
42 15 0.17
43 47 0.55
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATATGGTCTTACACGTATCACATATCG
Found at i:16904389 original size:12 final size:12
Alignment explanation
Indices: 16904372--16904401 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
16904362 GTATGACCGG
16904372 ATTAATAATTGA
1 ATTAATAATTGA
16904384 ATTAATAATTGA
1 ATTAATAATTGA
16904396 ACTTAA
1 A-TTAA
16904402 ATTATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (12 bp):
ATTAATAATTGA
Found at i:16905145 original size:42 final size:43
Alignment explanation
Indices: 16905056--16905196 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
16905046 CACTATATGC
* *
16905056 AACGCCGCTAAAGACCAGTACTTTTAGCGGCGCTTTTTTAAAA
1 AACGCCGCTAAAGACCAGAACTTTTAGCGGCGCTTTTCTAAAA
*
16905099 AACGCCGCTAAAGACCAGAACTTTTAGC-TCGCTTTTCTAAAA
1 AACGCCGCTAAAGACCAGAACTTTTAGCGGCGCTTTTCTAAAA
* * * * * ****
16905141 AACGCCGCTAAAGTCCGGGACTTTTCGCAGCGCTTTTCCCGCA
1 AACGCCGCTAAAGACCAGAACTTTTAGCGGCGCTTTTCTAAAA
16905184 AACGCCGCTAAAG
1 AACGCCGCTAAAG
16905197 GTCATAAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 36 0.42
43 49 0.58
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAGACCAGAACTTTTAGCGGCGCTTTTCTAAAA
Found at i:16905402 original size:34 final size:35
Alignment explanation
Indices: 16905364--16905429 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
16905354 CTATTAAAAT
*
16905364 TTTAACTTTAAAA-CTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAATCTAAA-ATAATAAATTAATGAA
*
16905398 TTTAAATTTAAAATTTAAAATAATAAATTAAT
1 TTTAAATTTAAAATCTAAAATAATAAATTAAT
16905430 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (35 bp):
TTTAAATTTAAAATCTAAAATAATAAATTAATGAA
Found at i:16909697 original size:7 final size:7
Alignment explanation
Indices: 16909657--16909796 Score: 72
Period size: 7 Copynumber: 19.9 Consensus size: 7
16909647 ACTAACTAAT
*
16909657 CTAAATC
1 CTAAACC
16909664 CTAAACTC
1 CTAAAC-C
*
16909672 CTAATCC
1 CTAAACC
*
16909679 CTAAACA
1 CTAAACC
*
16909686 TTAAACC
1 CTAAACC
*
16909693 CTAAAAC
1 CTAAACC
*
16909700 ATAAACC
1 CTAAACC
*
16909707 CTGAACC
1 CTAAACC
*
16909714 CTGAACC
1 CTAAACC
*
16909721 ATAAACC
1 CTAAACC
* *
16909728 TTGAACCC
1 CT-AAACC
*
16909736 CT-CACC
1 CTAAACC
*
16909742 CTTAACCC
1 C-TAAACC
*
16909750 CTAACCC
1 CTAAACC
16909757 CT-AACC
1 CTAAACC
16909763 CTATAA-C
1 CTA-AACC
16909770 CTAAACC
1 CTAAACC
*
16909777 TTAAACC
1 CTAAACC
16909784 CT-AACC
1 CTAAACC
16909790 CTTAAAC
1 C-TAAAC
16909797 TACCTTTAAA
Statistics
Matches: 100, Mismatches: 24, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
6 15 0.15
7 66 0.66
8 19 0.19
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:16909932 original size:41 final size:40
Alignment explanation
Indices: 16909875--16909971 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 40
16909865 CTAGTTGGTA
* * *
16909875 TCTTTAGTGGCGTTTTACCAAACGCGCCGCTAATGCTCTGG
1 TCTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCT-G
16909916 TCTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTG
1 TCTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTG
*
16909956 TTTTTAGCGGCGTTTT
1 TCTTTAGCGGCGTTTT
16909972 TTGTGCTCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 16 0.31
41 36 0.69
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (40 bp):
TCTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTG
Found at i:16910548 original size:42 final size:44
Alignment explanation
Indices: 16910476--16910557 Score: 100
Period size: 42 Copynumber: 1.9 Consensus size: 44
16910466 TTTATTTTAT
16910476 TTAATATAAATATAATATAATTATTTTTATT-TA-ATATTAATA
1 TTAATATAAATATAATATAATTATTTTTATTATATATATTAATA
* *
16910518 TTAATATGAATATAA-A-ATTTAATTTATTATTATATATATT
1 TTAATATAAATATAATATAATT-ATTT-TTATTATATATATT
16910558 TTAAAACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 3 0.09
41 5 0.15
42 19 0.56
43 2 0.06
44 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (44 bp):
TTAATATAAATATAATATAATTATTTTTATTATATATATTAATA
Found at i:16934447 original size:21 final size:22
Alignment explanation
Indices: 16934409--16934449 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16934399 ATTACTTATA
*
16934409 TGTATTTATGATATACAAATAT
1 TGTATTTATGATAAACAAATAT
*
16934431 TGTATTTA-GGTAAACAAAT
1 TGTATTTATGATAAACAAAT
16934450 GCTATAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (22 bp):
TGTATTTATGATAAACAAATAT
Found at i:16943700 original size:40 final size:39
Alignment explanation
Indices: 16943655--16943780 Score: 137
Period size: 40 Copynumber: 3.2 Consensus size: 39
16943645 CGGAATACAA
16943655 CCGGATATAACCACGT-GCATGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCA-GAATGCCTTCGGGTCTTAGC
* ** *
16943695 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCA-GAATGCCTTCGGGTCTTAGC
* * * *
16943735 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCAGAA-TGCCTTCGGGTCTTAGC
16943775 CCGGAT
1 CCGGAT
16943781 GTAATTTCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 69 0.96
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTAGCAGAATGCCTTCGGGTCTTAGC
Found at i:16943781 original size:40 final size:39
Alignment explanation
Indices: 16943675--16943783 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 39
16943665 CCACGTGCAT
* *
16943675 GAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCAC
1 GAATGCCTTCGGGTCTTAGCCCGGAT-GTATGACTAGCAC
16943715 GAATGCCTTCGGGTCTTAGCCCGGATGTA-GCCACTAGCAC
1 GAATGCCTTCGGGTCTTAGCCCGGATGTATG--ACTAGCAC
*
16943755 -AATTGCCTTCGGGTCTTAACCCGGATGTA
1 GAA-TGCCTTCGGGTCTTAGCCCGGATGTA
16943784 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.21, C:0.28, G:0.27, T:0.25
Consensus pattern (39 bp):
GAATGCCTTCGGGTCTTAGCCCGGATGTATGACTAGCAC
Found at i:16943799 original size:40 final size:40
Alignment explanation
Indices: 16943678--16943818 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
16943668 CGTGCATGAA
**
16943678 TGCCTTCGGGTCTTAGCCCGGATAG-AATGACTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGAT-GTAACCAC-CAGCAC-AAT
* *
16943718 TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATGTAACCACCAGCACAAT
* *** *
16943758 TGCCTTCGGGTCTTAACCCGGATGTAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATGTAACCACCAGCACAAT
* *
16943798 TGTCTTCGGGGCTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
16943819 GTATCATTCA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.04
40 81 0.96
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATGTAACCACCAGCACAAT
Found at i:16948552 original size:23 final size:24
Alignment explanation
Indices: 16948522--16948649 Score: 106
Period size: 24 Copynumber: 5.4 Consensus size: 24
16948512 CTGCTTGTAA
*
16948522 GAGCTTACTG-TTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCAATG
* *
16948545 GAGCTTACCGATTT-AGCTCGAA-G
1 GAGCTTACTGTTTTCAGCTC-AATG
* *
16948568 GAGCTTACTG--TTCAACTCAATA
1 GAGCTTACTGTTTTCAGCTCAATG
* * *
16948590 GAGCTTACTGTTTTCAGTTGAATA
1 GAGCTTACTGTTTTCAGCTCAATG
16948614 GAGCTTACTGTTTATCAGCTCAGGA-G
1 GAGCTTACTGTTT-TCAGCTCA--ATG
16948640 GAGCTTACTG
1 GAGCTTACTG
16948650 ACCATGACTC
Statistics
Matches: 85, Mismatches: 11, Indels: 15
0.77 0.10 0.14
Matches are distributed among these distances:
21 4 0.05
22 14 0.16
23 24 0.28
24 26 0.31
25 6 0.07
26 10 0.12
27 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCAATG
Found at i:16951478 original size:27 final size:27
Alignment explanation
Indices: 16951448--16951528 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
16951438 AATCTCATAT
* *
16951448 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
16951475 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
16951502 ATGTAGGGTAGAATTACTGGAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
16951529 TTAGTTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:16951566 original size:26 final size:27
Alignment explanation
Indices: 16951513--16951569 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
16951503 TGTAGGGTAG
* *
16951513 AATTACTGGAATACCCTTAGTTTTCAA
1 AATTACTGGAATACCCTTAGCTTACAA
*
16951540 AATTACT-GAATACCCTTGGCTTACAA
1 AATTACTGGAATACCCTTAGCTTACAA
16951566 AATT
1 AATT
16951570 TCCAAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (27 bp):
AATTACTGGAATACCCTTAGCTTACAA
Found at i:16953837 original size:27 final size:27
Alignment explanation
Indices: 16953807--16953878 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
16953797 ATCTGTAAGC
* *
16953807 TAGAATTACTGAAATACTCCTT-TATGG
1 TAGAATTACTGAAATAC-CCTTGGAGGG
* *
16953834 TAGAATTACTGAATTGCCCTTGGAGGG
1 TAGAATTACTGAAATACCCTTGGAGGG
16953861 TAGAATTACT-AAATACCC
1 TAGAATTACTGAAATACCC
16953879 ATGGTTTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.26
27 28 0.74
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (27 bp):
TAGAATTACTGAAATACCCTTGGAGGG
Found at i:16953903 original size:27 final size:27
Alignment explanation
Indices: 16953871--16954223 Score: 228
Period size: 27 Copynumber: 13.0 Consensus size: 27
16953861 TAGAATTACT
* *
16953871 AAATACCCATGGTTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* *
16953898 AAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
* * ***
16953925 AAATACCCCTGATTTGTGAAATTATTG
1 AAATACCCTTGATTTGTAAAATTACCA
** ** *
16953952 AAATACCCTTGACCTGTAAAATTGTCG
1 AAATACCCTTGATTTGTAAAATTACCA
** * *
16953979 AAATACCCTTGACCTATAAAATTA-CT
1 AAATACCCTTGATTTGTAAAATTACCA
* * * *
16954005 GAATAACCTTCGACTTGTAAAATTACCG
1 AAATACCCTT-GATTTGTAAAATTACCA
* * *
16954033 AAATATCCTCGATTTGTAAAATTAACA
1 AAATACCCTTGATTTGTAAAATTACCA
* * * *
16954060 AAATACCCCTGATTTGGAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTACCA
** *
16954087 AAATACATTTGATTTGGAAAATTA-CA
1 AAATACCCTTGATTTGTAAAATTACCA
* * ** *
16954113 GAAATACCCCTAATTTACAAAATTA-TA
1 -AAATACCCTTGATTTGTAAAATTACCA
**
16954140 GAAATACCCTTGACTTTCAAAAATTA-CA
1 -AAATACCCTTGA-TTTGTAAAATTACCA
* * *
16954168 GAAATACCATTGGTTTGCAAAATTACCA
1 -AAATACCCTTGATTTGTAAAATTACCA
* * *
16954196 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTTGATTTGTAAAATTACCA
16954223 A
1 A
16954224 GACATCCTTG
Statistics
Matches: 265, Mismatches: 56, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
26 10 0.04
27 223 0.84
28 32 0.12
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTACCA
Found at i:16954516 original size:41 final size:41
Alignment explanation
Indices: 16954471--16954634 Score: 274
Period size: 41 Copynumber: 4.0 Consensus size: 41
16954461 GGAGGAAGAA
*
16954471 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
16954512 ATTGAGGATTGCATGGTTGCTTGACAACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
16954553 ATTGAGGATCGCATAGTTGCTTGACGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
16954594 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
16954635 GTAGCTTTTA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:16958275 original size:54 final size:53
Alignment explanation
Indices: 16958016--16958367 Score: 292
Period size: 54 Copynumber: 6.5 Consensus size: 53
16958006 TTGGTTTACG
** * *** *
16958016 AAATTACCAAAATACCCCCGGTTTGTAAAGTTATCAAAATACCTAAGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCCTGATTTGTA
* * *
16958070 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCCTGATTTGTA
* ***** * * *
16958124 AAATTACCGAAATACCCTCAACCTGTAAAATTATCGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCCTGATTTGTA
* *** * *
16958178 AAATTACTAAAATACCCTCAATTTTTAAAATTACCAAAATACCCCTGATTTGGA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAAAATACCCCTGATTTGTA
* **
16958232 AAATTACCAAAATACCCTTGGTTTGGAAAATTACAAAAATACCCCTGATTTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTAC-AAAATACCCCTGATTTGTA
* * * * ** *
16958286 AAATTACAAAAACACCCTTGACTTT-CAAAAGTTACAGAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTTG-GTTTGTAAAA-TTACA-AAATACCCCTGATTTGTA
* *
16958341 AAATTACCGAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
16958368 GATTTACCAA
Statistics
Matches: 238, Mismatches: 55, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
53 1 0.00
54 200 0.84
55 37 0.16
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (53 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACAAAATACCCCTGATTTGTA
Found at i:16958364 original size:27 final size:27
Alignment explanation
Indices: 16958016--16958386 Score: 259
Period size: 27 Copynumber: 13.7 Consensus size: 27
16958006 TTGGTTTACG
***
16958016 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
16958043 AAGTTATCAAAATA-CCTAAGGTTTGTA
1 AAATTACCAAAATACCCTTA-GTTTGTA
* *
16958070 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
16958097 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCTTAGTTTGTA
* * ***
16958124 AAATTACCGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
16958151 AAATTATCGAAATACCCTT-GACTTGTA
1 AAATTACCAAAATACCCTTAG-TTTGTA
* * * *
16958178 AAATTACTAAAATACCCTCAATTTTTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
16958205 AAATTACCAAAATACCCCT-GATTTGGA
1 AAATTACCAAAATACCCTTAG-TTTGTA
* *
16958232 AAATTACCAAAATACCCTTGGTTTGGA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * **
16958259 AAATTACAAAAATACCCCT-GATTTAAA
1 AAATTACCAAAATACCCTTAG-TTTGTA
* * * *
16958286 AAATTACAAAAACACCCTTGACTTT-CA
1 AAATTACCAAAATACCCTT-AGTTTGTA
* *
16958313 AAAGTTA-CAGAAATACCATTGGTTTGTA
1 AAA-TTACCA-AAATACCCTTAGTTTGTA
*
16958341 AAATTACCGAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * * *
16958368 GATTTACCAAGACACCCTT
1 AAATTACCAAAATACCCTT
16958387 GTAAGGTGAA
Statistics
Matches: 272, Mismatches: 59, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
26 3 0.01
27 247 0.91
28 22 0.08
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:16958515 original size:20 final size:20
Alignment explanation
Indices: 16958492--16958536 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
16958482 GACTATGTTT
16958492 TGATTGAGAATG-TGTGACTG
1 TGATTG-GAATGTTGTGACTG
*
16958512 TGATTGGACTGTTGTGACTG
1 TGATTGGAATGTTGTGACTG
16958532 TGATT
1 TGATT
16958537 TGTATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (20 bp):
TGATTGGAATGTTGTGACTG
Found at i:16958670 original size:41 final size:41
Alignment explanation
Indices: 16958624--16958747 Score: 185
Period size: 41 Copynumber: 3.0 Consensus size: 41
16958614 CGGAGGAAGA
*
16958624 AATTGAGGATTGCATGGTTGCTTGGCGATCGTGGATCCACC
1 AATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACC
* * * *
16958665 GATTGAGGATCGCATGGTTTCTTGACGATCGTGGATCCATC
1 AATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACC
* *
16958706 AATTAAGGATTGCATGGTTGCTTGATGATCGTGGATCCACC
1 AATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACC
16958747 A
1 A
16958748 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (41 bp):
AATTGAGGATTGCATGGTTGCTTGACGATCGTGGATCCACC
Found at i:16963164 original size:21 final size:22
Alignment explanation
Indices: 16963131--16963174 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16963121 ATAAAATAAT
*
16963131 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
16963153 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
16963174 A
1 A
16963175 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:16963609 original size:25 final size:26
Alignment explanation
Indices: 16963559--16963615 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
16963549 CATATATATA
*
16963559 TTAAAATAAATAATATATATACAA-T
1 TTAAAATAAATAATATATAAACAATT
*
16963584 TTAAAATAAATAAGT-TATAAATAATT
1 TTAAAATAAATAA-TATATAAACAATT
16963610 TTAAAA
1 TTAAAA
16963616 AGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAAATAAATAATATATAAACAATT
Found at i:16965569 original size:206 final size:206
Alignment explanation
Indices: 16965207--16965968 Score: 1107
Period size: 206 Copynumber: 3.7 Consensus size: 206
16965197 AAATCTGCTT
*
16965207 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * ** *
16965272 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATAG-CAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGAT-GCCAAACCATCT
* * ** ** * * * * * * *
16965336 TGGATCTGCTTTAGTCTAATTATCTGAAGGTTAGATCTGCTATGTGTTTGCCCTCCATTGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCGAATAT
16965401 GGAGACGCCAAA
195 GGAGACGCCAAA
* * * *
16965413 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCCTCAGCATAAGCAG
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
16965478 GTGAAAGCTAAATCAGTTATGAT-TTCGATTTATTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCT
*
16965542 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCAAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCGAATAT
16965607 GGAGACGCCAAA
195 GGAGACGCCAAA
*
16965619 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGAGTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
16965684 GTGAAAGCTAAATCAACTATGAT-TTCGATTTATTCCTTATAAACACAAGGATGCTAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCT
16965748 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCGAATAT
16965813 GGAGACGCCAAA
195 GGAGACGCCAAA
* * * * *
16965825 ATTTGATTTGTTCTCTGACAAAACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* *
16965890 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCTT
16965955 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
16965969 CCAGATCTGC
Statistics
Matches: 503, Mismatches: 49, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
205 2 0.00
206 492 0.98
207 9 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTATTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGTTATGTATCTACTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:16966847 original size:7 final size:7
Alignment explanation
Indices: 16966835--16966934 Score: 82
Period size: 7 Copynumber: 13.7 Consensus size: 7
16966825 GGCCTCTCCA
16966835 TTTTTCT
1 TTTTTCT
16966842 TTTTTCCT
1 TTTTT-CT
*
16966850 CTTCTCTCT
1 -TT-TTTCT
16966859 TTTTTCT
1 TTTTTCT
16966866 TTTTTCTT
1 TTTTTC-T
16966874 TTTTTCT
1 TTTTTCT
16966881 TTTTTCT
1 TTTTTCT
16966888 TTTTGT-T
1 TTTT-TCT
16966895 TTTTT-T
1 TTTTTCT
16966901 TTTTT-T
1 TTTTTCT
*
16966907 GATTTTCT
1 -TTTTTCT
16966915 GTTTGTT-T
1 -TTT-TTCT
16966923 TTTTTCT
1 TTTTTCT
16966930 TTTTT
1 TTTTT
16966935 GATTTTCGAA
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
6 10 0.12
7 45 0.56
8 17 0.21
9 6 0.08
10 2 0.03
ACGTcount: A:0.01, C:0.13, G:0.04, T:0.82
Consensus pattern (7 bp):
TTTTTCT
Found at i:16966862 original size:1 final size:1
Alignment explanation
Indices: 16966858--16966934 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
16966848 CTCTTCTCTC
* * * * * ** * * *
16966858 TTTTTTCTTTTTTCTTTTTTTCTTTTTTCTTTTTGTTTTTTTTTTTTTTGATTTTCTGTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
16966923 TTTTTCTTTTTT
1 TTTTTTTTTTTT
16966935 GATTTTCGAA
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.01, C:0.08, G:0.05, T:0.86
Consensus pattern (1 bp):
T
Found at i:16966872 original size:31 final size:29
Alignment explanation
Indices: 16966835--16966934 Score: 91
Period size: 29 Copynumber: 3.4 Consensus size: 29
16966825 GGCCTCTCCA
16966835 TTTTTCTTTTTTCCTCTTCTCTCTTTTT-TCT
1 TTTTTCTTTTTT--TCTTCTCTCTTTTTGT-T
* *
16966866 TTTTTCTTTTTTTCTTTTTTCTTTTTGTT
1 TTTTTCTTTTTTTCTTCTCTCTTTTTGTT
* *
16966895 TTTTT-TTTTTTTGATT-T-TCTGTTTGTTT
1 TTTTTCTTTTTTT-CTTCTCTCTTTTTG-TT
16966923 TTTTTCTTTTTT
1 TTTTTCTTTTTT
16966935 GATTTTCGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
27 7 0.11
28 15 0.25
29 26 0.43
30 1 0.02
31 12 0.20
ACGTcount: A:0.01, C:0.13, G:0.04, T:0.82
Consensus pattern (29 bp):
TTTTTCTTTTTTTCTTCTCTCTTTTTGTT
Found at i:16966876 original size:15 final size:14
Alignment explanation
Indices: 16966856--16966934 Score: 88
Period size: 15 Copynumber: 5.6 Consensus size: 14
16966846 TCCTCTTCTC
*
16966856 TCTTTTTTCTTTTT
1 TCTTTTTTTTTTTT
16966870 TCTTTTTTTCTTTTT
1 TCTTTTTTT-TTTTT
*
16966885 TCTTTTTGTTTTTT
1 TCTTTTTTTTTTTT
**
16966899 T-TTTTTTTGATTT
1 TCTTTTTTTTTTTT
*
16966912 TCTGTTTGTTTTTTT
1 TCT-TTTTTTTTTTT
16966927 TCTTTTTT
1 TCTTTTTT
16966935 GATTTTCGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
13 10 0.19
14 19 0.36
15 24 0.45
ACGTcount: A:0.01, C:0.09, G:0.05, T:0.85
Consensus pattern (14 bp):
TCTTTTTTTTTTTT
Found at i:16966891 original size:22 final size:22
Alignment explanation
Indices: 16966835--16966934 Score: 82
Period size: 22 Copynumber: 4.5 Consensus size: 22
16966825 GGCCTCTCCA
* *
16966835 TTTTTCTTTTTTCCTCTTCTCTCT
1 TTTTTCTTTTTT-CTCTT-TTTTT
16966859 TTTTTCTTTTTTCT-TTTTTTCT
1 TTTTTCTTTTTTCTCTTTTTT-T
16966881 TTTTTCTTTTTGT-T-TTTTTTT
1 TTTTTCTTTTT-TCTCTTTTTTT
** * *
16966902 TTTTT-GATTTTCTGTTTGTTT
1 TTTTTCTTTTTTCTCTTTTTTT
16966923 TTTTTCTTTTTT
1 TTTTTCTTTTTT
16966935 GATTTTCGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
19 1 0.02
20 4 0.06
21 19 0.30
22 25 0.39
23 3 0.05
24 12 0.19
ACGTcount: A:0.01, C:0.13, G:0.04, T:0.82
Consensus pattern (22 bp):
TTTTTCTTTTTTCTCTTTTTTT
Found at i:16966902 original size:27 final size:27
Alignment explanation
Indices: 16966859--16966941 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 27
16966849 TCTTCTCTCT
* *
16966859 TTTTTCTTTTTTCTTTTTTTCT-TTTTTC
1 TTTTTGTTTTTT-TTTTTTT-TGATTTTC
16966887 TTTTTGTTTTTTTTTTTTTTGATTTTC
1 TTTTTGTTTTTTTTTTTTTTGATTTTC
*
16966914 TGTTTGTTTTTTTTCTTTTTTGATTTTC
1 TTTTTGTTTTTTTT-TTTTTTGATTTTC
16966942 GAAACCTCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 25 0.50
28 24 0.48
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.83
Consensus pattern (27 bp):
TTTTTGTTTTTTTTTTTTTTGATTTTC
Found at i:16978200 original size:23 final size:23
Alignment explanation
Indices: 16978066--16978200 Score: 65
Period size: 23 Copynumber: 5.7 Consensus size: 23
16978056 TAATAATGTG
*
16978066 AATAATAATATACCTAAAAATAT-A
1 AATAATAA-ATA-ATAAAAATATAA
* * * *
16978090 TATAATAGATAATAATAATATGA
1 AATAATAAATAATAAAAATATAA
* ** * *
16978113 AATAATATATTGTTAAAATGTAA
1 AATAATAAATAATAAAAATATAA
*
16978136 AATAATATAGTAATATAAAAATATATA
1 AATAATA-AAT-A-ATAAAAATATA-A
* ** *
16978163 AATATTATGTGATAAAAATATAA
1 AATAATAAATAATAAAAATATAA
*
16978186 TATAATAAATAATAA
1 AATAATAAATAATAA
16978201 GTAATGATAT
Statistics
Matches: 80, Mismatches: 26, Indels: 11
0.68 0.22 0.09
Matches are distributed among these distances:
22 8 0.10
23 37 0.46
24 18 0.22
26 10 0.12
27 7 0.09
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (23 bp):
AATAATAAATAATAAAAATATAA
Found at i:16978263 original size:5 final size:5
Alignment explanation
Indices: 16978253--16978336 Score: 57
Period size: 5 Copynumber: 16.4 Consensus size: 5
16978243 AAATATGAAG
* *
16978253 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
* * *
16978303 CACATA TATATA TTAAAA TAAAA TAATA T-ATA TA
1 TA-ATA TA-ATA -TAATA TAATA TAATA TAATA TA
16978337 CAATTTAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
4 8 0.13
5 39 0.62
6 14 0.22
7 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:16978286 original size:89 final size:89
Alignment explanation
Indices: 16978089--16978288 Score: 203
Period size: 89 Copynumber: 2.2 Consensus size: 89
16978079 CTAAAAATAT
* * *
16978089 ATATAATAGATAATAATAATATGAAATAATATATTGTTAAAATGTAAAATAATATAGTAATATAA
1 ATATAAT--ATAATAATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAGTAATAGAA
* * *
16978154 AAATATATAAATATTATGTGATAAAA
64 AAATATATAAATATAATATAATAAAA
* * * *
16978180 ATATAATATAATAAATAATAAGTAATGATATA-TGTTAAAATATATATTAATAT-GATAATAGAA
1 ATATAATATAAT-AATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAG-TAATAGAA
16978243 AAATATGA-AGTAATATAATATAAT-AAA
64 AAATAT-ATA--AATATAATATAATAAAA
16978270 ATATAAGTA-AATAATAATA
1 ATATAA-TATAATAATAATA
16978289 TAAAATATAT
Statistics
Matches: 93, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
88 1 0.01
89 44 0.47
90 29 0.31
91 19 0.20
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.34
Consensus pattern (89 bp):
ATATAATATAATAATAATAAGAAATAATATATTGTTAAAATATAAAATAATATAGTAATAGAAAA
ATATATAAATATAATATAATAAAA
Found at i:16978366 original size:25 final size:27
Alignment explanation
Indices: 16978315--16978372 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
16978305 CATATATATA
*
16978315 TTAAAATAAAATAATATATATACAA-T
1 TTAAAATAAAATAATATATAAACAATT
*
16978341 TTAAAAT-AAATAAGT-TATAAATAATT
1 TTAAAATAAAATAA-TATATAAACAATT
16978367 TTAAAA
1 TTAAAA
16978373 GGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAAATAATATATAAACAATT
Found at i:16980907 original size:196 final size:196
Alignment explanation
Indices: 16980573--16980965 Score: 732
Period size: 196 Copynumber: 2.0 Consensus size: 196
16980563 GGGTGCAGGT
*
16980573 GAGAAGAAGGATTCGGTCAAGAAGGGACAAAGCGTATATGACTTAAACAGTGAAAGAAGGAAGGC
1 GAGAAGAAGGATTCGGTCAAGAAGGGACAAAGCGTATATGACTTAAACAGTGAAAGAAGGAAGCC
*
16980638 TGATATAAAGAGTAGAGAGGAAGAAAGGGAGAAGGACCATTCGACAATAGTACCAAGGTGAAAAT
66 TGATATAAAGAGTAGAGAGGAAGAAAGGGAGAAGGACCATTCGACAATAGTACAAAGGTGAAAAT
*
16980703 GTTGAAACTCGAAAGAGTTGATAAGAGGGAAGGAGAAGAGTATTCGACCAAAGAAAAAAGGAAAA
131 GTTGAAACTCAAAAGAGTTGATAAGAGGGAAGGAGAAGAGTATTCGACCAAAGAAAAAAGGAAAA
16980768 G
196 G
* *
16980769 GAGAAGAAGGATTCGGTCAAGAAGGGACAAAGCGTATTTGACTTAAACAGTGAAAGAGGGAAGCC
1 GAGAAGAAGGATTCGGTCAAGAAGGGACAAAGCGTATATGACTTAAACAGTGAAAGAAGGAAGCC
*
16980834 TGATATAAAGAGTAGAGAGGGAGAAAGGGAGAAGGACCATTCGACAATAGTACAAAGGTGAAAAT
66 TGATATAAAGAGTAGAGAGGAAGAAAGGGAGAAGGACCATTCGACAATAGTACAAAGGTGAAAAT
16980899 GTTGAAACTCAAAAGAGTTGATAAGAGGGAAGGAGAAGAGTATTCGACCAAAGAAAAAAGGAAAA
131 GTTGAAACTCAAAAGAGTTGATAAGAGGGAAGGAGAAGAGTATTCGACCAAAGAAAAAAGGAAAA
16980964 G
196 G
16980965 G
1 G
16980966 TAAATGCTAA
Statistics
Matches: 191, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 191 1.00
ACGTcount: A:0.46, C:0.09, G:0.31, T:0.15
Consensus pattern (196 bp):
GAGAAGAAGGATTCGGTCAAGAAGGGACAAAGCGTATATGACTTAAACAGTGAAAGAAGGAAGCC
TGATATAAAGAGTAGAGAGGAAGAAAGGGAGAAGGACCATTCGACAATAGTACAAAGGTGAAAAT
GTTGAAACTCAAAAGAGTTGATAAGAGGGAAGGAGAAGAGTATTCGACCAAAGAAAAAAGGAAAA
G
Found at i:16985430 original size:162 final size:162
Alignment explanation
Indices: 16985156--16985483 Score: 559
Period size: 162 Copynumber: 2.0 Consensus size: 162
16985146 AAAGGCTACT
* * *
16985156 GCCTAGAGACAGCGCTTACTCCTTTAAAAACAAAACTTTTTGTACCTGCCCAGACTTGAACCCAA
1 GCCTAGAGACAGCGCTTACTCATTTAAAAACAAAAATTTTTGCACCTGCCCAGACTTGAACCCAA
* * *
16985221 GACTTCTCAGGCACTTCTCAGGACACTCAAAACACTTAACGACTGAAGCAGATACACAGTTGTGT
66 GACTTCTCAGGCACTTCCCAGAACACTCAAAACACTTAACCACTGAAGCAGATACACAGTTGTGT
*
16985286 CACTTTCTTGCACCACTAAACATTTATGAATA
131 CACTTTCTTGCACCACTAAACATTTATGAACA
*
16985318 GCCTAGAGACAGTGCTTACTCATTTAAAAACAAAAATTTTTGCACCTGCCCATG-CTTGAACCCA
1 GCCTAGAGACAGCGCTTACTCATTTAAAAACAAAAATTTTTGCACCTGCCCA-GACTTGAACCCA
*
16985382 AGACTTCTCAGGCACTTCCCAGAACACTCAAAACACTTAACCACTGAAGTAGATACACAGTTGTG
65 AGACTTCTCAGGCACTTCCCAGAACACTCAAAACACTTAACCACTGAAGCAGATACACAGTTGTG
16985447 TCACTTTCTTGCACCACTAAACATTTATGAACA
130 TCACTTTCTTGCACCACTAAACATTTATGAACA
16985480 GCCT
1 GCCT
16985484 TCTAACTGTT
Statistics
Matches: 156, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
162 155 0.99
163 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (162 bp):
GCCTAGAGACAGCGCTTACTCATTTAAAAACAAAAATTTTTGCACCTGCCCAGACTTGAACCCAA
GACTTCTCAGGCACTTCCCAGAACACTCAAAACACTTAACCACTGAAGCAGATACACAGTTGTGT
CACTTTCTTGCACCACTAAACATTTATGAACA
Found at i:16989168 original size:16 final size:16
Alignment explanation
Indices: 16989134--16989206 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 16
16989124 ATGGCTTTCT
**
16989134 CTAAACCC-TAACCCA
1 CTAAACCCTTAAATCA
16989149 CTAAACCCTTAAATCA
1 CTAAACCCTTAAATCA
*
16989165 CTAAACCTTTAAATC-
1 CTAAACCCTTAAATCA
*
16989180 CTAAA--TTTGAAATCA
1 CTAAACCCTT-AAATCA
16989195 -TAAACCCTTAAA
1 CTAAACCCTTAAA
16989207 ACTCTAAACA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 3 0.06
14 9 0.18
15 16 0.33
16 21 0.43
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (16 bp):
CTAAACCCTTAAATCA
Found at i:16989240 original size:14 final size:14
Alignment explanation
Indices: 16989221--16989256 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
16989211 TAAACACTAG
16989221 ACCCTAACCCATAA
1 ACCCTAACCCATAA
* *
16989235 ATCCTAACCCATTA
1 ACCCTAACCCATAA
16989249 ACCCTAAC
1 ACCCTAAC
16989257 TCCTAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.39, C:0.42, G:0.00, T:0.19
Consensus pattern (14 bp):
ACCCTAACCCATAA
Found at i:16989262 original size:21 final size:19
Alignment explanation
Indices: 16989225--16989277 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
16989215 CACTAGACCC
16989225 TAACCCATAAATCCTAACCCAT
1 TAACCC-TAAATCCTAA-CC-T
*
16989247 TAACCCTAACTCCTAACCT
1 TAACCCTAAATCCTAACCT
16989266 TAACCCTTAAAT
1 TAACCC-TAAAT
16989278 AAACTATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 7 0.25
20 6 0.21
21 9 0.32
22 6 0.21
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (19 bp):
TAACCCTAAATCCTAACCT
Found at i:16989311 original size:7 final size:7
Alignment explanation
Indices: 16989299--16989351 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
16989289 CCTAAATCCC
16989299 AAACCAT
1 AAACCAT
16989306 AAACCAT
1 AAACCAT
*
16989313 AAACCCT
1 AAACCAT
16989320 AAAACC-T
1 -AAACCAT
*
16989327 AAACTCTT
1 AAAC-CAT
16989335 AAACCAT
1 AAACCAT
*
16989342 AAACCCT
1 AAACCAT
16989349 AAA
1 AAA
16989352 ATCTTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
6 4 0.10
7 26 0.65
8 10 0.25
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:16989316 original size:14 final size:14
Alignment explanation
Indices: 16989277--16989351 Score: 64
Period size: 14 Copynumber: 5.3 Consensus size: 14
16989267 AACCCTTAAA
* *
16989277 TAAACTATAGACCC
1 TAAACCATAAACCC
* *
16989291 TAAATCC-CAAACCA
1 TAAA-CCATAAACCC
16989305 TAAACCATAAACCC
1 TAAACCATAAACCC
*
16989319 TAAAACC-TAAACTCT
1 T-AAACCATAAAC-CC
16989334 TAAACCATAAACCC
1 TAAACCATAAACCC
16989348 TAAA
1 TAAA
16989352 ATCTTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
13 2 0.04
14 33 0.69
15 13 0.27
ACGTcount: A:0.49, C:0.31, G:0.01, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:16989345 original size:29 final size:28
Alignment explanation
Indices: 16989276--16989352 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
16989266 TAACCCTTAA
* * *
16989276 ATAAACTATAGACCCTAAATCCCAAACC
1 ATAAACCATAAACCCTAAAACCCAAACC
*
16989304 ATAAACCATAAACCCTAAAACCTAAACTC
1 ATAAACCATAAACCCTAAAACCCAAAC-C
*
16989333 TTAAACCATAAACCCTAAAA
1 ATAAACCATAAACCCTAAAA
16989353 TCTTAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 23 0.53
29 20 0.47
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (28 bp):
ATAAACCATAAACCCTAAAACCCAAACC
Found at i:16989356 original size:22 final size:22
Alignment explanation
Indices: 16989312--16989359 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
16989302 CCATAAACCA
* *
16989312 TAAACCCTAAAACCTAAACTCT
1 TAAACCATAAAACCTAAAATCT
*
16989334 TAAACCATAAACCCTAAAATCT
1 TAAACCATAAAACCTAAAATCT
16989356 TAAA
1 TAAA
16989360 AATAAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAACCATAAAACCTAAAATCT
Found at i:16990348 original size:23 final size:23
Alignment explanation
Indices: 16990305--16990348 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
16990295 TTCATTCCCC
* **
16990305 CATTTACCCAATTTATTTTCTCT
1 CATTTACCCAACTTAAATTCTCT
16990328 CATTTACCCAACTTAAATTCT
1 CATTTACCCAACTTAAATTCT
16990349 AACCCTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (23 bp):
CATTTACCCAACTTAAATTCTCT
Found at i:16992451 original size:5 final size:5
Alignment explanation
Indices: 16992443--16992474 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
16992433 TTTCAACCAT
16992443 TTATA TTATA TTATA TTATA TT-TA TT-TA TTAT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT
16992475 TATTGCAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TTATA
Found at i:16992648 original size:9 final size:9
Alignment explanation
Indices: 16992634--16992750 Score: 55
Period size: 9 Copynumber: 13.2 Consensus size: 9
16992624 TGGAGTATTA
16992634 TACATAACT
1 TACATAACT
16992643 TACATAACT
1 TACATAACT
*
16992652 TACGTAA--
1 TACATAACT
*
16992659 TACATAA-A
1 TACATAACT
* ** *
16992667 TATATTTCA
1 TACATAACT
16992676 TATCATAA-T
1 TA-CATAACT
16992685 GTACATAACT
1 -TACATAACT
*
16992695 TACATACCT
1 TACATAACT
*
16992704 TACATAAAT
1 TACATAACT
* * *
16992713 T-TATATCA
1 TACATAACT
*
16992721 TATCGTAACT
1 TA-CATAACT
16992731 TACATAACT
1 TACATAACT
*
16992740 TACAAAACT
1 TACATAACT
16992749 TA
1 TA
16992751 ACTTACGTAA
Statistics
Matches: 79, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
7 6 0.08
8 8 0.10
9 55 0.70
10 10 0.13
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:16992723 original size:45 final size:43
Alignment explanation
Indices: 16992636--16992743 Score: 137
Period size: 45 Copynumber: 2.5 Consensus size: 43
16992626 GAGTATTATA
* *
16992636 CATAACTTACATAACTTACGTAATACATAAATATATTTCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
* *
16992679 CATAA-TGTACATAACTTACATACCTTACATAAATTTATATCATAT
1 CATAACT-TACATAACTTACATA--ATACATAAATATATATCATAT
*
16992724 CGTAACTTACATAACTTACA
1 CATAACTTACATAACTTACA
16992744 AAACTTAACT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.02
43 19 0.34
45 35 0.62
46 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.36
Consensus pattern (43 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATAT
Found at i:16998274 original size:43 final size:43
Alignment explanation
Indices: 16998214--16998307 Score: 125
Period size: 43 Copynumber: 2.2 Consensus size: 43
16998204 CAAAAGTGCT
* * * *
16998214 GCTAAAAGCCATGACTTTTAGCGATGTTTCACCCACAAATGCC
1 GCTAAAAGCAATGACTTTTAGCGACGCTTCACCCACAAACGCC
* * *
16998257 GCTAAAAGCAATTACTTTTAGCGGCGCTTGACCCACAAACGCC
1 GCTAAAAGCAATGACTTTTAGCGACGCTTCACCCACAAACGCC
16998300 GCTAAAAG
1 GCTAAAAG
16998308 TCATGATCTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
GCTAAAAGCAATGACTTTTAGCGACGCTTCACCCACAAACGCC
Found at i:17000407 original size:71 final size:71
Alignment explanation
Indices: 17000319--17000482 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
17000309 GAGATGTATC
17000319 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17000384 AGGACA
66 AGGACA
*
17000390 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
17000455 CGGACA
66 AGGACA
17000461 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17000483 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:17007793 original size:93 final size:93
Alignment explanation
Indices: 17007681--17007852 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17007671 GCCCATAAGT
* *
17007681 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17007746 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17007774 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17007839 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17007853 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17007848 original size:46 final size:46
Alignment explanation
Indices: 17007673--17007848 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
17007663 TGTAACCCGC
* * *
17007673 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17007719 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
17007769 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17007812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17007849 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17010717 original size:41 final size:41
Alignment explanation
Indices: 17010672--17010789 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
17010662 TGAAAGATAA
17010672 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
17010713 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17010743 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
17010784 ATGTAG
1 ATGTAG
17010790 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:17010728 original size:71 final size:71
Alignment explanation
Indices: 17010640--17010803 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
17010630 GAGATGTATC
17010640 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17010705 AGGACA
66 AGGACA
17010711 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17010776 AGGACA
66 AGGACA
17010782 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17010804 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:17018050 original size:46 final size:46
Alignment explanation
Indices: 17017983--17018155 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
17017973 TGTAACCCGC
*
17017983 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
17018029 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* *
17018079 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGC--TCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
17018120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
17018156 ATGCCCAAAT
Statistics
Matches: 111, Mismatches: 7, Indels: 20
0.80 0.05 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.26
45 1 0.01
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:17018148 original size:91 final size:92
Alignment explanation
Indices: 17017991--17018160 Score: 315
Period size: 91 Copynumber: 1.8 Consensus size: 92
17017981 GCCCATAAGT
17017991 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
17018056 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17018084 GAACTCGGACTCAACTCAACGAGTTCGGGC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17018148 GAGTTCGGATGCC
66 GAGTTCGGATGCC
17018161 CAAATATCCC
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
91 47 0.62
93 29 0.38
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17020566 original size:30 final size:30
Alignment explanation
Indices: 17020522--17020610 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
17020512 CAAAGATAAC
17020522 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
17020551 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
17020581 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
17020611 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:17020570 original size:15 final size:15
Alignment explanation
Indices: 17020522--17020601 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
17020512 CAAAGATAAC
*
17020522 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
17020536 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
17020551 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
17020566 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
17020581 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
17020596 AAGAAA
1 AAGAAA
17020602 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:17020610 original size:15 final size:15
Alignment explanation
Indices: 17020533--17020610 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
17020523 AGAAAACCGA
17020533 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
17020548 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
17020562 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
17020577 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17020593 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17020608 ATA
1 ATA
17020611 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17023672 original size:93 final size:93
Alignment explanation
Indices: 17023560--17023731 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17023550 GCCCATAAGT
* *
17023560 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17023625 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17023653 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17023718 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17023732 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17023727 original size:46 final size:46
Alignment explanation
Indices: 17023552--17023727 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
17023542 TGTAACCCGC
* * *
17023552 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17023598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
17023648 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17023691 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17023728 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17026662 original size:70 final size:71
Alignment explanation
Indices: 17026511--17026673 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
17026501 GAGATGTATC
17026511 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17026576 AGGACA
66 AGGACA
17026582 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
17026646 CGGACA
66 AGGACA
17026652 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17026674 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:17033982 original size:93 final size:93
Alignment explanation
Indices: 17033870--17034041 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17033860 GCCCATAAGT
* *
17033870 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17033935 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17033963 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17034028 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17034042 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17034037 original size:46 final size:46
Alignment explanation
Indices: 17033862--17034037 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
17033852 TGTAACCCGC
* * *
17033862 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17033908 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
17033958 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17034001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17034038 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17036464 original size:30 final size:30
Alignment explanation
Indices: 17036420--17036508 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
17036410 CAAAGATAAC
17036420 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
17036449 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
17036479 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
17036509 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:17036468 original size:15 final size:15
Alignment explanation
Indices: 17036420--17036499 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
17036410 CAAAGATAAC
*
17036420 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
17036434 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
17036449 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
17036464 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
17036479 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
17036494 AAGAAA
1 AAGAAA
17036500 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:17036508 original size:15 final size:15
Alignment explanation
Indices: 17036431--17036508 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
17036421 AGAAAACCGA
17036431 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
17036446 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
17036460 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
17036475 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17036491 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17036506 ATA
1 ATA
17036509 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17039574 original size:93 final size:93
Alignment explanation
Indices: 17039462--17039633 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17039452 GCCCATAAGT
* *
17039462 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17039527 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17039555 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17039620 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17039634 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17039629 original size:46 final size:46
Alignment explanation
Indices: 17039454--17039629 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
17039444 TGTAACCCGC
* * *
17039454 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17039500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
17039550 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17039593 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17039630 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17042511 original size:71 final size:71
Alignment explanation
Indices: 17042423--17042586 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
17042413 GAGATGTATC
17042423 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
17042488 AGGACA
66 AGGACA
*
17042494 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
17042559 CGGACA
66 AGGACA
17042565 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
17042587 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:17048210 original size:29 final size:29
Alignment explanation
Indices: 17048170--17048243 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
17048160 GTTGAGAGAT
* *
17048170 TGGCACTGAGTGTGCGAGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
17048199 TGGCACTAAGTGTGCGAGTTTAAAGTATA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
17048228 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17048244 CGGCTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:17050113 original size:34 final size:34
Alignment explanation
Indices: 17050065--17050151 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 34
17050055 TATTGTTCTA
17050065 AAATGGGCTAAGGCCCAGACTGCCACTGCTACTG
1 AAATGGGCTAAGGCCCAGACTGCCACTGCTACTG
* **
17050099 AAATGGGCTCAGGCCCAGACTGTTACTGCTACTG
1 AAATGGGCTAAGGCCCAGACTGCCACTGCTACTG
*
17050133 AAAGAGGGGCTAAGGCCCA
1 -AA-ATGGGCTAAGGCCCA
17050152 AATTGTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 31 0.67
35 2 0.04
36 13 0.28
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (34 bp):
AAATGGGCTAAGGCCCAGACTGCCACTGCTACTG
Found at i:17057979 original size:22 final size:22
Alignment explanation
Indices: 17057951--17058012 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
17057941 GCAAATACGT
17057951 TTGGCACACAACCATAAT-TAGG
1 TTGGCACA-AACCATAATGTAGG
*
17057973 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAATGTAGG
*
17057995 TTGGTACAAAGCCATAAT
1 TTGGCACAAA-CCATAAT
17058013 CAGAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (22 bp):
TTGGCACAAACCATAATGTAGG
Found at i:17058487 original size:27 final size:27
Alignment explanation
Indices: 17058457--17058699 Score: 156
Period size: 27 Copynumber: 9.0 Consensus size: 27
17058447 GGTAAATCTA
*
17058457 CAAACCAAGGGTATTTCGATAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
17058484 CAAACCAATGGTATTTCTG-TAATTTTG
1 CAAATCAAGGGTATTTC-GATAATTTTG
** *
17058511 -AAAGTCAAGGGTATTTTTAAAATTTTG
1 CAAA-TCAAGGGTATTTCGATAATTTTG
* * * *
17058538 TAAATTAGGGGTATTTCTATAATTTTTG
1 CAAATCAAGGGTATTTCGATAA-TTTTG
*
17058566 -AAACTTAAGGGTATTTCTGA-AATTTTG
1 CAAA-TCAAGGGTATTTC-GATAATTTTG
* ** *
17058593 TAAATC-AGGGATATTTTTATAATTTTC
1 CAAATCAAGGG-TATTTCGATAATTTTG
* *
17058620 CAAATCAAGTGTATTTCGATAATTTTT
1 CAAATCAAGGGTATTTCGATAATTTTG
* * * *
17058647 TAAATCAGGGGTATTT-TAGTAATTTTA
1 CAAATCAAGGGTATTTCGA-TAATTTTG
* ** *
17058674 CAAGTTGAGGGTATTTCGGTAATTTT
1 CAAATCAAGGGTATTTCGATAATTTT
17058700 ACAGGTCGAA
Statistics
Matches: 170, Mismatches: 33, Indels: 26
0.74 0.14 0.11
Matches are distributed among these distances:
26 9 0.05
27 131 0.77
28 29 0.17
29 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTG
Found at i:17058608 original size:82 final size:82
Alignment explanation
Indices: 17058457--17058646 Score: 226
Period size: 82 Copynumber: 2.3 Consensus size: 82
17058447 GGTAAATCTA
* * *
17058457 CAAACCAAGGGTATTTCGATAA-TTTTGCAAACCAATGGTATTTCTGTAATTTTGAAAGTCAAGG
1 CAAATCAAGGGTATTTCGATAATTTTTGCAAACCAAGGGTATTTCTGAAATTTTGAAAGTCAAGG
*
17058521 GTATTTTTAAAATTTTG
66 GTATTTTTAAAATTTTC
* * * * *
17058538 TAAATTAGGGGTATTTCTATAATTTTTG-AAACTTAAGGGTATTTCTGAAATTTTGTAAA-TC-A
1 CAAATCAAGGGTATTTCGATAATTTTTGCAAAC-CAAGGGTATTTCTGAAATTTTG-AAAGTCAA
*
17058600 GGGATATTTTTATAATTTTC
64 GGG-TATTTTTAAAATTTTC
*
17058620 CAAATCAAGTGTATTTCGATAATTTTT
1 CAAATCAAGGGTATTTCGATAATTTTT
17058647 TAAATCAGGG
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
81 25 0.28
82 62 0.69
83 3 0.03
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.43
Consensus pattern (82 bp):
CAAATCAAGGGTATTTCGATAATTTTTGCAAACCAAGGGTATTTCTGAAATTTTGAAAGTCAAGG
GTATTTTTAAAATTTTC
Found at i:17058628 original size:109 final size:109
Alignment explanation
Indices: 17058463--17058699 Score: 252
Period size: 109 Copynumber: 2.2 Consensus size: 109
17058453 TCTACAAACC
* * * *
17058463 AAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGTAATTTTGAAAGTCAAGGGTATTTT
1 AAGGGTATTTCGATAATTTTGCAAACCAAGGGTATTTCTATAATTTTCAAAGTCAAGGGTATTTC
* *
17058528 TAAAATTTTGTAAATTAGGGGTATTTCTA-TAATTTTTGAAACTT
66 GAAAATTTTGTAAATCAGGGGTATTT-TAGTAATTTTTGAAACTT
* * * *
17058572 AAGGGTATTTCTGA-AATTTTGTAAATC-AGGGATATTTTTATAATTTTCCAAA-TCAAGTGTAT
1 AAGGGTATTTC-GATAATTTTGCAAACCAAGGG-TATTTCTATAATTTT-CAAAGTCAAGGGTAT
* * *
17058634 TTCGATAATTTTTTAAATCAGGGGTATTTTAGTAA-TTTT-ACAAGTT
63 TTCGAAAATTTTGTAAATCAGGGGTATTTTAGTAATTTTTGA-AACTT
* *
17058680 GAGGGTATTTCGGTAATTTT
1 AAGGGTATTTCGATAATTTT
17058700 ACAGGTCGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
107 2 0.02
108 29 0.27
109 71 0.66
110 5 0.05
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (109 bp):
AAGGGTATTTCGATAATTTTGCAAACCAAGGGTATTTCTATAATTTTCAAAGTCAAGGGTATTTC
GAAAATTTTGTAAATCAGGGGTATTTTAGTAATTTTTGAAACTT
Found at i:17058691 original size:54 final size:54
Alignment explanation
Indices: 17058462--17058699 Score: 232
Period size: 54 Copynumber: 4.4 Consensus size: 54
17058452 ATCTACAAAC
* * ** *
17058462 CAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTGTAATTTTGAAAGT
1 CAAGGGTATTTCGATAATTTTGTAAATCAGGGGTATTTCTATAATTTTGAAAGT
** * * *
17058516 CAAGGGTATTTTTAAAATTTTGTAAATTAGGGGTATTTCTATAATTTTTGAAACT
1 CAAGGGTATTTCGATAATTTTGTAAATCAGGGGTATTTCTATAA-TTTTGAAAGT
* * * *
17058571 TAAGGGTATTTCTGA-AATTTTGTAAATCAGGGATATTTTTATAATTTTCCAAA-T
1 CAAGGGTATTTC-GATAATTTTGTAAATCAGGGGTATTTCTATAATTTT-GAAAGT
* *
17058625 CAAGTGTATTTCGATAATTTTTTAAATCAGGGGTATTT-TAGTAATTTT-ACAAGT
1 CAAGGGTATTTCGATAATTTTGTAAATCAGGGGTATTTCTA-TAATTTTGA-AAGT
** *
17058679 TGAGGGTATTTCGGTAATTTT
1 CAAGGGTATTTCGATAATTTT
17058700 ACAGGTCGAA
Statistics
Matches: 152, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.01
53 6 0.04
54 96 0.63
55 48 0.32
56 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (54 bp):
CAAGGGTATTTCGATAATTTTGTAAATCAGGGGTATTTCTATAATTTTGAAAGT
Found at i:17058700 original size:27 final size:27
Alignment explanation
Indices: 17058655--17058725 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
17058645 TTTAAATCAG
*
17058655 GGGTATTTTAGTAATTTTACAAGTTGA
1 GGGTATTTCAGTAATTTTACAAGTTGA
* * *
17058682 GGGTATTTCGGTAATTTTACAGGTCGA
1 GGGTATTTCAGTAATTTTACAAGTTGA
*
17058709 AGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
17058726 CAAAAATCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAGTTGA
Found at i:17075945 original size:42 final size:42
Alignment explanation
Indices: 17075886--17075981 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
17075876 TGATTCTGTT
*
17075886 GCAATAAAGCCTGATATAATACACCGGCATAAAGCCTGCTAA
1 GCAATAAAGCCCGATATAATACACCGGCATAAAGCCTGCTAA
* *
17075928 GCAATAAAGCCCGATATAATACACTGGCATAAAGCCTGCTAG
1 GCAATAAAGCCCGATATAATACACCGGCATAAAGCCTGCTAA
*
17075970 GAAATAAAGCCC
1 GCAATAAAGCCC
17075982 AAATATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (42 bp):
GCAATAAAGCCCGATATAATACACCGGCATAAAGCCTGCTAA
Found at i:17077676 original size:27 final size:27
Alignment explanation
Indices: 17077642--17077726 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
17077632 AGCATGGCTG
17077642 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATCGTGGCAGAGCCA
* *
17077669 CCAGAACAGA-AATATGTGGAAGAGCCA
1 CCAGAACAGATAAT-CGTGGCAGAGCCA
* *
17077696 CCAGATCAGATAA-CTGTGGCATAGCCA
1 CCAGAACAGATAATC-GTGGCAGAGCCA
17077723 CCAG
1 CCAG
17077727 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.06
27 44 0.90
28 2 0.04
ACGTcount: A:0.38, C:0.25, G:0.25, T:0.13
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGGCAGAGCCA
Found at i:17079171 original size:24 final size:24
Alignment explanation
Indices: 17079144--17079214 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
17079134 CTAGATTTCC
** *
17079144 TCCCTTATCTGCTCCTAAATCCTG
1 TCCCTTATCAACTCCTAAATCCTA
17079168 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
17079192 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
17079215 CTCCTGACAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:17079672 original size:34 final size:35
Alignment explanation
Indices: 17079612--17079683 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 35
17079602 AGTTACATAC
17079612 CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
1 CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
*
17079647 CTTAATTTTGGACAA-CATGGTCGAATAACTAAAG
1 CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
17079681 CTT
1 CTT
17079684 TCTTTCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 21 0.58
35 15 0.42
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (35 bp):
CTTAATTTTGGACAACCATGGCCGAATAACTAAAG
Found at i:17081723 original size:29 final size:30
Alignment explanation
Indices: 17081689--17081752 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
17081679 CAAGTAGTCG
17081689 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
*
17081718 AAGCTAGTTTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
17081748 AAGCT
1 AAGCT
17081753 TCCGATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:17089895 original size:22 final size:23
Alignment explanation
Indices: 17089870--17089912 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
17089860 TATCCCCACA
*
17089870 TGGAGTGTAG-GGCTGGACGAAG
1 TGGAGTGTAGAGGATGGACGAAG
17089892 TGGAGTGTAGAGGATGGACGA
1 TGGAGTGTAGAGGATGGACGA
17089913 GTAGGACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.07, G:0.49, T:0.19
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGACGAAG
Found at i:17089974 original size:34 final size:34
Alignment explanation
Indices: 17089931--17089998 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
17089921 TTTATGGCAT
*
17089931 TATTGATACTGTTACTG-TAATAGGCTAAGGCCCA
1 TATTGATACTGCTACTGCT-ATAGGCTAAGGCCCA
*
17089965 TATTGATACTGCTACTGCTATGGGCTAAGGCCCA
1 TATTGATACTGCTACTGCTATAGGCTAAGGCCCA
17089999 CACTGATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (34 bp):
TATTGATACTGCTACTGCTATAGGCTAAGGCCCA
Found at i:17090006 original size:34 final size:34
Alignment explanation
Indices: 17089934--17090006 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
17089924 ATGGCATTAT
* * *
17089934 TGATACTGTTACTGTAATAGGCTAAGGCCCATAT
1 TGATACTGCTACTGTAATAGGCTAAGGCCCACAC
*
17089968 TGATACTGCTACTGCT-ATGGGCTAAGGCCCACAC
1 TGATACTGCTACTG-TAATAGGCTAAGGCCCACAC
17090002 TGATA
1 TGATA
17090007 ATGGACTGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
TGATACTGCTACTGTAATAGGCTAAGGCCCACAC
Found at i:17099787 original size:39 final size:39
Alignment explanation
Indices: 17099743--17099980 Score: 377
Period size: 39 Copynumber: 6.1 Consensus size: 39
17099733 AATTATATTA
* *
17099743 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
17099782 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
17099821 CTAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
17099860 CCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
17099899 CCAGCACGAAGCCTACGAGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* **
17099938 CCAGCACGAAGCCTGCGGGTCTTTAGCCTAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
17099977 CCAG
1 CCAG
17099981 TGTCTTGCTT
Statistics
Matches: 184, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 184 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Done.