Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 408 of 427
Found at i:118462454 original size:44 final size:44
Alignment explanation
Indices: 118462399--118462499 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
118462389 TAGTCTGCCA
* * *
118462399 TTTTTGGCTTGCACCCTCTT-GAGCTTACATTTAGA-TCGTTCGCC
1 TTTTCGGCTTGCACCCACTTAG-GCTTACATTTAGACT-GTCCGCC
*
118462443 TTTTCGGCTTGCACCCACTTAGGCTTGCATTTAGACTGTCCGCC
1 TTTTCGGCTTGCACCCACTTAGGCTTACATTTAGACTGTCCGCC
**
118462487 ACTTCGGCTTGCA
1 TTTTCGGCTTGCA
118462500 ATTCGACAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 47 0.96
45 2 0.04
ACGTcount: A:0.14, C:0.30, G:0.20, T:0.37
Consensus pattern (44 bp):
TTTTCGGCTTGCACCCACTTAGGCTTACATTTAGACTGTCCGCC
Found at i:118463695 original size:9 final size:10
Alignment explanation
Indices: 118463669--118463694 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
118463659 TTTTAATTAT
118463669 TTAAAAATAA
1 TTAAAAATAA
118463679 TTAAAAATAA
1 TTAAAAATAA
118463689 TTAAAA
1 TTAAAA
118463695 TCAAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TTAAAAATAA
Found at i:118465562 original size:26 final size:26
Alignment explanation
Indices: 118465498--118465552 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
118465488 AAATAAACCG
* * *
118465498 TTAATAGAATCACTTGGTCAAATCAA
1 TTAATAGAATCAGTTAGTCAAACCAA
118465524 TTAATAGAATCAGTTAGTCAAACCAA
1 TTAATAGAATCAGTTAGTCAAACCAA
118465550 TTA
1 TTA
118465553 CTGCAATCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (26 bp):
TTAATAGAATCAGTTAGTCAAACCAA
Found at i:118469515 original size:6 final size:7
Alignment explanation
Indices: 118469498--118469525 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
118469488 TTGTACCAAA
118469498 AAAAATT
1 AAAAATT
118469505 AAAAATT
1 AAAAATT
118469512 AAAAATT
1 AAAAATT
118469519 AAAAATT
1 AAAAATT
118469526 TTATCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAAATT
Found at i:118471084 original size:18 final size:19
Alignment explanation
Indices: 118471056--118471091 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
118471046 TATTATAAGC
*
118471056 TTATGTAATTTTTTTTCAA
1 TTATGTAATTTTATTTCAA
118471075 TTAT-TAATTTTATTTCA
1 TTATGTAATTTTATTTCA
118471092 TAGGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (19 bp):
TTATGTAATTTTATTTCAA
Found at i:118471856 original size:13 final size:13
Alignment explanation
Indices: 118471790--118471862 Score: 76
Period size: 13 Copynumber: 5.7 Consensus size: 13
118471780 CACTTAAATT
118471790 TTTTCAAAA-CAC
1 TTTTCAAAAGCAC
* * *
118471802 TTCTCTAAAGTAC
1 TTTTCAAAAGCAC
*
118471815 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
118471828 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
118471841 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
118471854 TTTTTAAAA
1 TTTTCAAAA
118471863 ACAATGAAGA
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
12 7 0.14
13 42 0.86
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:118473930 original size:2 final size:2
Alignment explanation
Indices: 118473923--118473951 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118473913 TTTTCCAACT
118473923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
118473952 TTGCAATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118478718 original size:24 final size:24
Alignment explanation
Indices: 118478691--118478960 Score: 342
Period size: 24 Copynumber: 11.0 Consensus size: 24
118478681 CCAGCAGCGT
* *
118478691 CAGTTGGAGCTTCAGAGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
118478715 CAGTTGGAGCATCAGCGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
118478739 CAGTTGGAGCATCAGCGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
118478763 CAGTTGGAGCATCAGCGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
*
118478787 CAATTGGAGCATCAGCGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
*
118478811 CAATTGGAGCATCAGCGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
*
118478835 CAATTGGAGCATCAGCGGCAGCAG
1 CAGTTGGAGCATCAGCGGCAGCAG
* * *
118478859 CAGTTGGAGCTTCAGCAGCATCAACG
1 CAGTTGGAGCATCAGCGGCAGC-A-G
* *
118478885 TCTGTTGGAGCTTCAGCGGCAGCAG
1 -CAGTTGGAGCATCAGCGGCAGCAG
* * * *
118478910 CAGTTGGAACTTCAGCAGCATCAAAG
1 CAGTTGGAGCATCAGCGGCAGC--AG
* *
118478936 ACAGTTGGAACTTCAGCGGCAGCAG
1 -CAGTTGGAGCATCAGCGGCAGCAG
118478961 GAGCTTCGTC
Statistics
Matches: 224, Mismatches: 16, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
24 177 0.79
25 4 0.02
26 4 0.02
27 39 0.17
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (24 bp):
CAGTTGGAGCATCAGCGGCAGCAG
Found at i:118483613 original size:17 final size:18
Alignment explanation
Indices: 118483576--118483620 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
118483566 AATAAATGAC
*
118483576 AATTGGTGATTTTGTACTA
1 AATT-GTGATATTGTACTA
118483595 AATTGTGATATTG-ACTA
1 AATTGTGATATTGTACTA
*
118483612 AATTATGAT
1 AATTGTGAT
118483621 TATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.50
18 8 0.33
19 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (18 bp):
AATTGTGATATTGTACTA
Found at i:118484087 original size:13 final size:13
Alignment explanation
Indices: 118484071--118484176 Score: 81
Period size: 13 Copynumber: 8.2 Consensus size: 13
118484061 TGGTTACTCA
118484071 AAATGGTTATATG
1 AAATGGTTATATG
* * *
118484084 AAATGATTCTACG
1 AAATGGTTATATG
*
118484097 AAATGGTAATATG
1 AAATGGTTATATG
* * **
118484110 AGATGGGTATACA
1 AAATGGTTATATG
*
118484123 AAATTGTTATAT-
1 AAATGGTTATATG
118484135 AAATGAG-TATATG
1 AAATG-GTTATATG
*
118484148 AAATGATTATATG
1 AAATGGTTATATG
*
118484161 AAAATAGTTATATG
1 -AAATGGTTATATG
118484175 AA
1 AA
118484177 GTGATTGTAC
Statistics
Matches: 69, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
12 9 0.13
13 49 0.71
14 11 0.16
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:118484100 original size:26 final size:26
Alignment explanation
Indices: 118484071--118484163 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
118484061 TGGTTACTCA
* *
118484071 AAATGGTTATATGAAATGATTCTACG
1 AAATGGTTATATGAAATGAGTATACG
* * * *
118484097 AAATGGTAATATGAGATGGGTATACA
1 AAATGGTTATATGAAATGAGTATACG
* *
118484123 AAATTGTTATAT-AAATGAGTATATG
1 AAATGGTTATATGAAATGAGTATACG
*
118484148 AAATGATTATATGAAA
1 AAATGGTTATATGAAA
118484164 ATAGTTATAT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 19 0.37
26 33 0.63
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (26 bp):
AAATGGTTATATGAAATGAGTATACG
Found at i:118486022 original size:93 final size:93
Alignment explanation
Indices: 118485869--118486041 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
118485859 AGGATATTTG
* *
118485869 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAG
118485934 TTGAGTCCAAGTTCGAGAAATGTAACTA
66 TTGAGTCCAAGTTCGAGAAATGTAACTA
*
118485962 GGCATCC-AAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCTAATG-CCCAAGCTCGTTG
1 GGCATCCGAA-CTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAA-CTCGTTG
*
118486025 AGTTGAGTCCGAGTTCG
64 AGTTGAGTCCAAGTTCG
118486042 TTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 6 0.08
93 68 0.92
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAG
TTGAGTCCAAGTTCGAGAAATGTAACTA
Found at i:118486048 original size:46 final size:46
Alignment explanation
Indices: 118485879--118486040 Score: 177
Period size: 46 Copynumber: 3.5 Consensus size: 46
118485869 GGCATCCGAA
* *
118485879 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA-
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATG-CCCAAG
* *** * * *
118485925 CTCGTTGAGTTGAGTCCAAGTTCGAGAAATGTA-ACT-AGGCATCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCTAATGC--CCAAG
*
118485972 CTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCTAATGCCCAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGCCCAAG
118486018 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
118486041 GTTTATGGGC
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 58 0.63
47 28 0.30
48 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAATGCCCAAG
Found at i:118488132 original size:46 final size:46
Alignment explanation
Indices: 118487821--118488130 Score: 417
Period size: 46 Copynumber: 6.7 Consensus size: 46
118487811 TTATCTTTGA
* * * * *
118487821 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* *
118487867 CATGTTACCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
*
118487913 CATGTTCCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * *
118487959 CACGCTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTC-TCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT-GT
*
118488005 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * ** *
118488051 CACGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
118488097 CATGCTGCCATGGTATCTTTCAACCATGATCTTA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTA
118488131 CATATTTCAT
Statistics
Matches: 234, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 5 0.02
46 228 0.97
47 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:118488138 original size:138 final size:139
Alignment explanation
Indices: 118487821--118488131 Score: 482
Period size: 138 Copynumber: 2.3 Consensus size: 139
118487811 TTATCTTTGA
* * *
118487821 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTT-TCTGTCATGTTACCATGGTATCT
1 CATGCTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCTCTGTCATGTTACCATGGTATCT
* * **
118487885 TTCAACCATGGTCTTATTCTTTTCATGTCATGTTCCCATGGTATCTTTCAACCATGGTCTTATTC
66 TTCAACCATGGTCTTATTCTTTTCATGTCACGTTCCCATGATATCTTTCAACCATGGTCTTACAC
*
118487950 ATTTCATGT
131 ATTTCATAT
* * *
118487959 CACGCTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCTC-GTCATGTTGCCATGGTATCT
1 CATGCTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCTCTGTCATGTTACCATGGTATCT
*
118488023 TTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGATATCTTTCAACCATGGTCTTACAC
66 TTCAACCATGGTCTTATTCTTTTCATGTCACGTTCCCATGATATCTTTCAACCATGGTCTTACAC
118488088 ATTTCATAT
131 ATTTCATAT
* *
118488097 CATGCTGCCATGGTATCTTTCAACCATGATCTTAC
1 CATGCTGCCATGGTATCTTTCAACTATGGTCTTAC
118488132 ATATTTCATA
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
138 154 0.99
139 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (139 bp):
CATGCTGCCATGGTATCTTTCAACTATGGTCTTACTCATTTCTCTGTCATGTTACCATGGTATCT
TTCAACCATGGTCTTATTCTTTTCATGTCACGTTCCCATGATATCTTTCAACCATGGTCTTACAC
ATTTCATAT
Found at i:118489905 original size:11 final size:11
Alignment explanation
Indices: 118489889--118489936 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
118489879 CATTATATAC
118489889 TAATAAAATAA
1 TAATAAAATAA
*
118489900 TAATAAAATATCT
1 TAATAAAATA--A
* *
118489913 TATTAAAATAT
1 TAATAAAATAA
118489924 TAATAAAATAA
1 TAATAAAATAA
118489935 TA
1 TA
118489937 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:118490770 original size:2 final size:2
Alignment explanation
Indices: 118490763--118490798 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
118490753 TAGGGTTTTG
118490763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118490799 GTTATAAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118491287 original size:22 final size:22
Alignment explanation
Indices: 118491262--118491316 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
118491252 TGTTTCAAGC
*
118491262 TTCCAAGCTCCATAGTAAGTGA
1 TTCCAAGCCCCATAGTAAGTGA
118491284 TTCCAAGCCCCATAGTAAGTGA
1 TTCCAAGCCCCATAGTAAGTGA
118491306 TTCCAAGCCCC
1 TTCCAAGCCCC
118491317 GTTTTTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (22 bp):
TTCCAAGCCCCATAGTAAGTGA
Found at i:118492195 original size:46 final size:46
Alignment explanation
Indices: 118492128--118492303 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
118492118 TGGTTGAGCA
118492128 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
118492174 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
118492219 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
118492267 CCCGAGCTCATTCAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
118492304 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:118492262 original size:93 final size:93
Alignment explanation
Indices: 118492125--118492295 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
118492115 GAATGGTTGA
* * * *
118492125 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTCAGT
118492190 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
118492218 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTCAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTCAGT
118492283 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
118492296 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTCAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:118497496 original size:27 final size:27
Alignment explanation
Indices: 118497460--118497514 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
118497450 TGCCTTCGGG
118497460 ACTTAACCCGGAATCACAACTCGCACA
1 ACTTAACCCGGAATCACAACTCGCACA
* * * *
118497487 ACTTAGCCCGGTATCATAGCTCGCACA
1 ACTTAACCCGGAATCACAACTCGCACA
118497514 A
1 A
118497515 TTGCCTTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.18
Consensus pattern (27 bp):
ACTTAACCCGGAATCACAACTCGCACA
Found at i:118497530 original size:38 final size:38
Alignment explanation
Indices: 118497488--118497656 Score: 320
Period size: 38 Copynumber: 4.4 Consensus size: 38
118497478 ACTCGCACAA
118497488 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
1 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
118497526 CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGG
1 CTTAGCCCGG-TATCATAGCTCGCACAATTGCCTTCGGG
118497565 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
1 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
118497603 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
1 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
118497641 CTTAGCCCGGATATCA
1 CTTAGCCCGG-TATCA
118497657 CTCGAACATT
Statistics
Matches: 129, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
38 86 0.67
39 43 0.33
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (38 bp):
CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGG
Found at i:118497580 original size:77 final size:76
Alignment explanation
Indices: 118497488--118497656 Score: 320
Period size: 77 Copynumber: 2.2 Consensus size: 76
118497478 ACTCGCACAA
118497488 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACA
1 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACA
118497553 ATTGCCTTCGGG
65 ATTGCCTTCGGG
118497565 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCTCGCACAA
1 CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCTCGCACAA
118497630 TTGCCTTCGGG
66 TTGCCTTCGGG
118497641 CTTAGCCCGGATATCA
1 CTTAGCCCGG-TATCA
118497657 CTCGAACATT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
76 38 0.42
77 53 0.58
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (76 bp):
CTTAGCCCGGTATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGTATCATAGCTCGCACAA
TTGCCTTCGGG
Found at i:118505127 original size:38 final size:39
Alignment explanation
Indices: 118505040--118505195 Score: 298
Period size: 38 Copynumber: 4.1 Consensus size: 39
118505030 ACAACTTACA
118505040 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
118505079 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG-TAT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
118505117 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG-TAT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
118505155 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
118505194 CA
1 CA
118505196 CTCGAACATT
Statistics
Matches: 116, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
38 76 0.66
39 40 0.34
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (39 bp):
CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATAT
Found at i:118505195 original size:77 final size:77
Alignment explanation
Indices: 118505040--118505195 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
118505030 ACAACTTACA
118505040 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGC
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGC
118505105 TTAGCCCGGTAT
66 TTAGCCCGGTAT
118505117 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTGCCTTCGGGC
1 CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGC
118505181 TTAGCCCGGATAT
66 TTAGCCCGG-TAT
118505194 CA
1 CA
118505196 CTCGAACATT
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
76 38 0.49
77 40 0.51
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (77 bp):
CATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGC
TTAGCCCGGTAT
Found at i:118513118 original size:24 final size:24
Alignment explanation
Indices: 118513084--118513240 Score: 138
Period size: 24 Copynumber: 6.3 Consensus size: 24
118513074 TACAACGGCA
*
118513084 GCAGCATCAGTTGGAGCTTCAGAG
1 GCAGCAGCAGTTGGAGCTTCAGAG
* *
118513108 GCAGCAGCAGTTGGAGCATCAGCG
1 GCAGCAGCAGTTGGAGCTTCAGAG
118513132 GCAGCAGCAGTTGGAGCTTCAGCA-
1 GCAGCAGCAGTTGGAGCTTCAG-AG
* * *
118513156 GCATCAACGTCTGTTGGAGCTTCAGCG
1 GCAGC-A-G-CAGTTGGAGCTTCAGAG
*
118513183 GCAGCAGCAGTTGGAACTTCAGCA-
1 GCAGCAGCAGTTGGAGCTTCAG-AG
* * *
118513207 GCATCAACGGCAGTTGGAACTTCAGCG
1 GCAGC-A--GCAGTTGGAGCTTCAGAG
118513234 GCAGCAG
1 GCAGCAG
118513241 GAGCTTCGTC
Statistics
Matches: 108, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
24 64 0.59
25 3 0.03
26 3 0.03
27 38 0.35
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (24 bp):
GCAGCAGCAGTTGGAGCTTCAGAG
Found at i:118513134 original size:51 final size:49
Alignment explanation
Indices: 118513055--118513240 Score: 157
Period size: 51 Copynumber: 3.7 Consensus size: 49
118513045 TCAATTTGAA
* * *
118513055 CAGCAGCGGCAGTTGGAACTACAACGGCAGCAGCATCAGTTGGAGCTTCAG
1 CAGCAGCAGCAGTTGGAGCT-CAGCGGCAGCAGCA-CAGTTGGAGCTTCAG
118513106 -AGGCAGCAGCAGTTGGAGCATCAGCGGCAGCAG--CAGTTGGAGCTTCAG
1 CA-GCAGCAGCAGTTGGAGC-TCAGCGGCAGCAGCACAGTTGGAGCTTCAG
* * *
118513154 CAGCATCAACGTCTGTTGGAGCTTCAGCGGCAGCAG--CAGTTGGAACTTCAG
1 CAGCAGC-A-G-CAGTTGGAGC-TCAGCGGCAGCAGCACAGTTGGAGCTTCAG
* *
118513205 CAGCATCAACGGCAGTTGGAACTTCAGCGGCAGCAG
1 CAGCAGC-A--GCAGTTGGAGC-TCAGCGGCAGCAG
118513241 GAGCTTCGTC
Statistics
Matches: 118, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
48 19 0.16
49 2 0.02
50 2 0.02
51 93 0.79
52 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (49 bp):
CAGCAGCAGCAGTTGGAGCTCAGCGGCAGCAGCACAGTTGGAGCTTCAG
Found at i:118513138 original size:27 final size:27
Alignment explanation
Indices: 118513055--118513240 Score: 149
Period size: 27 Copynumber: 7.2 Consensus size: 27
118513045 TCAATTTGAA
* * * * *
118513055 CAGCAGCGGCAGTTGGAACTACAACGG
1 CAGCAGCAGCAGTTGGAGCTTCAGCAG
*
118513082 CAGCAGCATCAGTTGGAGCTTCAG-AG
1 CAGCAGCAGCAGTTGGAGCTTCAGCAG
*
118513108 --GCAGCAGCAGTTGGAGCATCAGC-G
1 CAGCAGCAGCAGTTGGAGCTTCAGCAG
118513132 --GCAGCAGCAGTTGGAGCTTCAGCAG
1 CAGCAGCAGCAGTTGGAGCTTCAGCAG
* * *
118513157 CATCAAC-GTCTGTTGGAGCTTCAGC-G
1 CAGCAGCAG-CAGTTGGAGCTTCAGCAG
*
118513183 --GCAGCAGCAGTTGGAACTTCAGCAG
1 CAGCAGCAGCAGTTGGAGCTTCAGCAG
* * * * *
118513208 CATCAACGGCAGTTGGAACTTCAGCGG
1 CAGCAGCAGCAGTTGGAGCTTCAGCAG
118513235 CAGCAG
1 CAGCAG
118513241 GAGCTTCGTC
Statistics
Matches: 128, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
24 60 0.47
25 3 0.02
26 3 0.02
27 62 0.48
ACGTcount: A:0.26, C:0.25, G:0.32, T:0.17
Consensus pattern (27 bp):
CAGCAGCAGCAGTTGGAGCTTCAGCAG
Found at i:118516855 original size:17 final size:19
Alignment explanation
Indices: 118516816--118516856 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
118516806 TTATTTTTAC
**
118516816 TAAAAATATATATAAATTT
1 TAAAAATATATATAAATAA
118516835 TAAAAA-AT-TATAAATAA
1 TAAAAATATATATAAATAA
118516852 TAAAA
1 TAAAA
118516857 CTAGAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 12 0.60
18 2 0.10
19 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAATATATATAAATAA
Found at i:118516885 original size:28 final size:27
Alignment explanation
Indices: 118516819--118516894 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 27
118516809 TTTTTACTAA
* * *
118516819 AAATATATATAAATTTTAAAAAATTAT
1 AAATATATATAAACTATAAAAAAATAT
* *
118516846 AAATA-ATA-AAACTAGAAAAAAATCT
1 AAATATATATAAACTATAAAAAAATAT
118516871 AATATATATATAAACTATAAAAAA
1 AA-ATATATATAAACTATAAAAAA
118516895 TAGAAAGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 14 0.35
26 6 0.15
27 8 0.20
28 12 0.30
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (27 bp):
AAATATATATAAACTATAAAAAAATAT
Found at i:118528481 original size:20 final size:20
Alignment explanation
Indices: 118528456--118528493 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
118528446 TTATTATTTT
*
118528456 TTAAAAGTTTAGTGACTGAA
1 TTAAAAGTTAAGTGACTGAA
118528476 TTAAAAGTTAAGTGACTG
1 TTAAAAGTTAAGTGACTG
118528494 TGTTGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.34
Consensus pattern (20 bp):
TTAAAAGTTAAGTGACTGAA
Found at i:118529797 original size:20 final size:20
Alignment explanation
Indices: 118529755--118529797 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
118529745 TAATATTTAA
* *
118529755 AACATAAATAACTAAAATGT
1 AACATAAATAAATAAAATAT
118529775 AACATAAGATAAATAAAA-AT
1 AACATAA-ATAAATAAAATAT
118529795 AAC
1 AAC
118529798 TATTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (20 bp):
AACATAAATAAATAAAATAT
Found at i:118529802 original size:50 final size:50
Alignment explanation
Indices: 118529705--118529802 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
118529695 AACAAAAATT
* * *
118529705 AACAAAAATAACATAAAATATAATATAAGTAACTAAAACGTAATATTTAA
1 AACAAAAATAACATAAAATATAACATAAGTAAATAAAACATAATATTTAA
* *
118529755 AACATAAATAAC-TAAAATGTAACATAAGATAAATAAAA-ATAACTATTT
1 AACAAAAATAACATAAAATATAACATAAG-TAAATAAAACATAA-TATTT
118529803 TAATAAGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 17 0.41
50 24 0.59
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (50 bp):
AACAAAAATAACATAAAATATAACATAAGTAAATAAAACATAATATTTAA
Found at i:118531155 original size:2 final size:2
Alignment explanation
Indices: 118531148--118531192 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
118531138 AGCTTGCTGG
118531148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118531190 TA T
1 TA T
118531193 CTGTTGCTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118533977 original size:12 final size:12
Alignment explanation
Indices: 118533954--118533993 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
118533944 ACACTTGACT
*
118533954 TTGACTTTGGCA
1 TTGACATTGGCA
*
118533966 TTGGCATTGGCA
1 TTGACATTGGCA
*
118533978 TTGACATTGACA
1 TTGACATTGGCA
118533990 TTGA
1 TTGA
118533994 TTGCCGCGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (12 bp):
TTGACATTGGCA
Found at i:118535559 original size:17 final size:17
Alignment explanation
Indices: 118535530--118535563 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
118535520 ATTAGTTTTC
118535530 AAAAGCAAAAAAAAAAA
1 AAAAGCAAAAAAAAAAA
118535547 AAAAG-AAAGAAAAAAAA
1 AAAAGCAAA-AAAAAAAA
118535564 GAACATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAGCAAAAAAAAAAA
Found at i:118539919 original size:44 final size:44
Alignment explanation
Indices: 118539869--118539957 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
118539859 TTTGTTTATA
118539869 TTTGATTTTTCTATAGTTAAATTTACTATGATACACATTACATT
1 TTTGATTTTTCTATAGTTAAATTTACTATGATACACATTACATT
118539913 TTTGATTTTTCTATAGTTAAATTTACTATGATACACATTACATT
1 TTTGATTTTTCTATAGTTAAATTTACTATGATACACATTACATT
118539957 T
1 T
118539958 CCAACTCCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (44 bp):
TTTGATTTTTCTATAGTTAAATTTACTATGATACACATTACATT
Found at i:118545126 original size:16 final size:16
Alignment explanation
Indices: 118545105--118545137 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
118545095 GTTATTTTAG
118545105 TTATTTATTTAATTTT
1 TTATTTATTTAATTTT
*
118545121 TTATTTTTTTAATTTT
1 TTATTTATTTAATTTT
118545137 T
1 T
118545138 AAATTGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTATTTAATTTT
Found at i:118554031 original size:47 final size:47
Alignment explanation
Indices: 118553921--118554032 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
118553911 TCCGGGATAA
* *
118553921 ACACATAGTGCTTCATCGGAATAAATCCGAAACTTTAACATTATAGT
1 ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGT
* * *
118553968 ACACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-
1 ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGT
118554015 ACACATAGTG-TCTCATCG
1 ACACATAGTGCT-TCATCG
118554033 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
ACACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGT
Found at i:118554343 original size:14 final size:15
Alignment explanation
Indices: 118554315--118554343 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
118554305 CGTTTGCTAC
118554315 TAAAAATCATACAAT
1 TAAAAATCATACAAT
118554330 TAAAAATCAT-CAAT
1 TAAAAATCATACAAT
118554344 ATATTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATCATACAAT
Found at i:118555136 original size:27 final size:27
Alignment explanation
Indices: 118555104--118555156 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
118555094 TCAAGCTACT
118555104 TCACTTAATTAAACACTAAATAACCAA
1 TCACTTAATTAAACACTAAATAACCAA
118555131 TCACTTAATTAAACACTAAATAACCA
1 TCACTTAATTAAACACTAAATAACCA
118555157 TTCAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (27 bp):
TCACTTAATTAAACACTAAATAACCAA
Found at i:118555469 original size:19 final size:19
Alignment explanation
Indices: 118555446--118555500 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
118555436 CTTTTTTTTT
118555446 TCTTTTTACTTTTTTATT-AA
1 TCTTTTT-CTTTTTT-TTAAA
118555466 -CTTTTGTCTTTTTCTTTAAA
1 TCTTTT-TCTTTTT-TTTAAA
118555486 TCTTTTTCTTTTTTT
1 TCTTTTTCTTTTTTT
118555501 AAGTTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
19 15 0.48
20 11 0.35
21 5 0.16
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.73
Consensus pattern (19 bp):
TCTTTTTCTTTTTTTTAAA
Found at i:118555478 original size:20 final size:20
Alignment explanation
Indices: 118555446--118555501 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
118555436 CTTTTTTTTT
*
118555446 TCTTTTTAC-TTTTTTATTAA
1 TCTTTTT-CTTTTTTTATAAA
118555466 -CTTTTGTCTTTTTCTT-TAAA
1 TCTTTT-TCTTTTT-TTATAAA
118555486 TCTTTTTCTTTTTTTA
1 TCTTTTTCTTTTTTTA
118555502 AGTTTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
19 8 0.27
20 15 0.50
21 7 0.23
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (20 bp):
TCTTTTTCTTTTTTTATAAA
Found at i:118555614 original size:23 final size:23
Alignment explanation
Indices: 118555555--118555625 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
118555545 ATTAATATTA
* *
118555555 AAAAATTTGAAATGTATA-TTTG
1 AAAAATTTTAAATATATATTTTG
** *
118555577 AAATGTTTTATAATATATATTTTT
1 AAAAATTTTA-AATATATATTTTG
118555601 AAAAATTTTAAATAT-TATTTTG
1 AAAAATTTTAAATATATATTTTG
118555623 AAA
1 AAA
118555626 TTATTTTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
22 16 0.41
23 12 0.31
24 11 0.28
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
AAAAATTTTAAATATATATTTTG
Found at i:118555631 original size:23 final size:24
Alignment explanation
Indices: 118555569--118555632 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
118555559 ATTTGAAATG
*
118555569 TATA-TTTGAAATGTTTTATAATA
1 TATATTTTGAAATATTTTATAATA
* *
118555592 TATATTTTTAAAAATTTTA-AATA
1 TATATTTTGAAATATTTTATAATA
118555615 T-TATTTTGAAATTATTTT
1 TATATTTTGAAA-TATTTT
118555633 TTAAATTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 9 0.26
23 14 0.41
24 11 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (24 bp):
TATATTTTGAAATATTTTATAATA
Found at i:118555640 original size:20 final size:21
Alignment explanation
Indices: 118555617--118555660 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
118555607 TTTAAATATT
118555617 ATTTTGAA-ATTATTTTTTAA
1 ATTTTGAATATTATTTTTTAA
118555637 ATTTTGAATATTATTTTTTAA
1 ATTTTGAATATTATTTTTTAA
118555658 ATT
1 ATT
118555661 ATGTCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTTTGAATATTATTTTTTAA
Found at i:118555696 original size:36 final size:33
Alignment explanation
Indices: 118555597--118555716 Score: 134
Period size: 36 Copynumber: 3.5 Consensus size: 33
118555587 TAATATATAT
*
118555597 TTTTAAAAATTTTAAATATTA-TTTTGAAATTA
1 TTTTATAAATTTTAAATATTATTTTTGAAATTA
* * *
118555629 TTTTTTAAATTTTGAATATTATTTTTTAAATTA
1 TTTTATAAATTTTAAATATTATTTTTGAAATTA
*
118555662 TGTCTTATAAATTTTAAAAATATATTTTTGAAATTAAA
1 T-T-TTATAAATTTTAAATAT-TATTTTTGAAATT--A
*
118555700 TTTTCTAAATTTTAAAT
1 TTTTATAAATTTTAAAT
118555717 TTTAAATATA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
32 18 0.25
33 11 0.15
34 1 0.01
35 14 0.19
36 25 0.35
37 1 0.01
38 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (33 bp):
TTTTATAAATTTTAAATATTATTTTTGAAATTA
Found at i:118555743 original size:31 final size:33
Alignment explanation
Indices: 118555700--118555767 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
118555690 TGAAATTAAA
* *
118555700 TTTTCTAAATTTT-AAATTT-TAAATATATTAT
1 TTTTATAAATTTTAAAATTTAAAAATATATTAT
118555731 TTTTATAAATTTTAAAATTTAAAAATATATTAT
1 TTTTATAAATTTTAAAATTTAAAAATATATTAT
118555764 TTTT
1 TTTT
118555768 CTTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 12 0.36
32 6 0.18
33 15 0.45
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (33 bp):
TTTTATAAATTTTAAAATTTAAAAATATATTAT
Found at i:118555804 original size:14 final size:13
Alignment explanation
Indices: 118555772--118555797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
118555762 ATTTTTCTTT
118555772 ATTTTTGAAATTA
1 ATTTTTGAAATTA
118555785 ATTTTTGAAATTA
1 ATTTTTGAAATTA
118555798 TGATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTTTTGAAATTA
Found at i:118555902 original size:20 final size:18
Alignment explanation
Indices: 118555876--118555921 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
118555866 TTTAAATATT
118555876 ATTAAAAATATATTTAATA
1 ATTAAAAATATATTTAA-A
*
118555895 TTTAAAAATAATATTTAAA
1 ATTAAAAAT-ATATTTAAA
118555914 ATTAAAAA
1 ATTAAAAA
118555922 ATAATTTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTAAAAATATATTTAAA
Found at i:118555908 original size:13 final size:13
Alignment explanation
Indices: 118555890--118555914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118555880 AAAATATATT
118555890 TAATATTTAAAAA
1 TAATATTTAAAAA
118555903 TAATATTTAAAA
1 TAATATTTAAAA
118555915 TTAAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:118555922 original size:20 final size:20
Alignment explanation
Indices: 118555879--118555935 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
118555869 AAATATTATT
* *
118555879 AAAAAT-ATATTTAATATTT
1 AAAAATAATATTTAAAATTA
118555898 AAAAATAATATTTAAAATTA
1 AAAAATAATATTTAAAATTA
118555918 AAAAATAAT-TTCTAAAAT
1 AAAAATAATATT-TAAAAT
118555936 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATAATATTTAAAATTA
Found at i:118555991 original size:20 final size:22
Alignment explanation
Indices: 118555960--118556006 Score: 80
Period size: 20 Copynumber: 2.2 Consensus size: 22
118555950 TATAAGAAAT
118555960 AATTTCAAAAATATATTTTT-A
1 AATTTCAAAAATATATTTTTGA
118555981 AATTT-AAAAATATATTTTTGA
1 AATTTCAAAAATATATTTTTGA
118556002 AATTT
1 AATTT
118556007 TTTTATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTTCAAAAATATATTTTTGA
Found at i:118556036 original size:14 final size:14
Alignment explanation
Indices: 118556017--118556045 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
118556007 TTTTATTTTG
118556017 TTTAAAAATATATT
1 TTTAAAAATATATT
118556031 TTTAAAAATATATT
1 TTTAAAAATATATT
118556045 T
1 T
118556046 AAAATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAAAAATATATT
Found at i:118556046 original size:12 final size:13
Alignment explanation
Indices: 118556017--118556049 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
118556007 TTTTATTTTG
118556017 TTTAAAAATATATT
1 TTTAAAAATATA-T
118556031 TTTAAAAATATA-
1 TTTAAAAATATAT
118556043 TTTAAAA
1 TTTAAAA
118556050 TTTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:118556139 original size:21 final size:20
Alignment explanation
Indices: 118556113--118556170 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
118556103 CATAATTTAA
* *
118556113 AAAAATAATATTCAACATTTT
1 AAAAATAAT-TTAAAAATTTT
118556134 AAAAATAATTTAAAAATTTT
1 AAAAATAATTTAAAAATTTT
118556154 AAAAATAATTTAAAAAT
1 AAAAATAATTTAAAAAT
118556171 AATATTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 26 0.74
21 9 0.26
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATAATTTAAAAATTTT
Found at i:118556176 original size:146 final size:141
Alignment explanation
Indices: 118555907--118556181 Score: 315
Period size: 145 Copynumber: 1.9 Consensus size: 141
118555897 TAAAAATAAT
* *
118555907 ATTTAAAATTAAAAAATAATTTCTAAAATATATTTTTAAAATTTATAAGAAATAATTTCAAAAAT
1 ATTTAAAATTAAAAAATAATTTCAAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAAT
* * * * ** ** **
118555972 ATATTTTTAAATTTAAAAATATATTTTTGAAATTTTTTTATTTTGTTTAAAAATATATTTTTAAA
66 ATATATTCAAATTTAAAAATATA-TTTTAAAAATTTTAAAAATAATTTAAAAATATATTTTTAAA
118556037 AATATATTTAAA
130 AATATATTTAAA
* *
118556049 ATTTAAAATTTAGAAAAATTAATTTCAAAAATATATTATTTTAAATTTATAAGACATAATTTAAA
1 ATTTAAAA-TTA-AAAAA-TAATTTCAAAAATATATT-TTTAAAATTTATAAGAAATAATTTAAA
*
118556114 AAA-ATAATATTCAACATTTTAAAAATA-A-TTTAAAAATTTTAAAAATAATTTAAAAATA-ATA
62 AAATAT-ATATTCAA-A-TTTAAAAATATATTTTAAAAATTTTAAAAATAATTTAAAAATATATT
118556175 TTTAAAA
124 TTTAAAA
118556182 TTTTTAATAA
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
142 8 0.07
143 3 0.03
144 14 0.13
145 41 0.37
146 33 0.30
147 2 0.02
148 10 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (141 bp):
ATTTAAAATTAAAAAATAATTTCAAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAAT
ATATATTCAAATTTAAAAATATATTTTAAAAATTTTAAAAATAATTTAAAAATATATTTTTAAAA
ATATATTTAAA
Found at i:118556182 original size:12 final size:11
Alignment explanation
Indices: 118556131--118556173 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
118556121 TATTCAACAT
118556131 TTTAAAAATAA
1 TTTAAAAATAA
118556142 TTTAAAAAT--
1 TTTAAAAATAA
118556151 TTTAAAAATAA
1 TTTAAAAATAA
118556162 TTTAAAAATAA
1 TTTAAAAATAA
118556173 T
1 T
118556174 ATTTAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.30
11 21 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:118556193 original size:22 final size:24
Alignment explanation
Indices: 118556162--118556205 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
118556152 TTAAAAATAA
118556162 TTTAAAAATA-ATATT-TAAAATT
1 TTTAAAAATATATATTATAAAATT
*
118556184 TTTAATAATATATATTATAAAA
1 TTTAAAAATATATATTATAAAA
118556206 CATTTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAAAAATATATATTATAAAATT
Found at i:118556252 original size:13 final size:13
Alignment explanation
Indices: 118556221--118556281 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
118556211 CAAATTTTTT
*
118556221 AAAATTAATAACAA
1 AAAATAAATAA-AA
118556235 AAAATAAATAAAA
1 AAAATAAATAAAA
* *
118556248 GAAATAAACAAAA
1 AAAATAAATAAAA
*
118556261 TAAAAT-AAGAAAA
1 -AAAATAAATAAAA
*
118556274 AATATAAA
1 AAAATAAA
118556282 ACTCAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 4 0.10
13 21 0.54
14 14 0.36
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:118556313 original size:20 final size:20
Alignment explanation
Indices: 118556287--118556340 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
118556277 ATAAAACTCA
*
118556287 AAAAAAGAAAAAAATTTAA-
1 AAAAAAGAAAAAAAGTTAAT
*
118556306 AGAAAAAG-ACAAAAGTTAAT
1 A-AAAAAGAAAAAAAGTTAAT
118556326 AAAAAAGTAAAAAAA
1 AAAAAAG-AAAAAAA
118556341 AAAGTGAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 16 0.57
20 7 0.25
21 5 0.18
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (20 bp):
AAAAAAGAAAAAAAGTTAAT
Found at i:118560881 original size:21 final size:21
Alignment explanation
Indices: 118560855--118560895 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
118560845 ATCTGCTCAA
* *
118560855 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
118560876 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
118560896 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:118569807 original size:2 final size:2
Alignment explanation
Indices: 118569795--118569835 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
118569785 ATATAGCATA
*
118569795 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118569836 AGATAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:118571634 original size:41 final size:37
Alignment explanation
Indices: 118571529--118571635 Score: 88
Period size: 41 Copynumber: 2.8 Consensus size: 37
118571519 CGGATAGTTT
* *
118571529 GAAGCAAAGTTGACACCCAGTGTCTCATCGGCCTAGCC
1 GAAGTAAAG-TGACACCCAGTGTCTCATCGACCTAGCC
* ** ** * *
118571567 GGAGTAAAGTGGTACCCAGTACCTCATCGAATCTATCC
1 GAAGTAAAGTGACACCCAGTGTCTCATCG-ACCTAGCC
118571605 GAAGTAAAATAGTGACACCCAGTGTCTCATC
1 GAAGT--AA-AGTGACACCCAGTGTCTCATC
118571636 AACTCAAGGT
Statistics
Matches: 51, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
37 16 0.31
38 16 0.31
40 2 0.04
41 17 0.33
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (37 bp):
GAAGTAAAGTGACACCCAGTGTCTCATCGACCTAGCC
Found at i:118574075 original size:13 final size:13
Alignment explanation
Indices: 118574057--118574091 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
118574047 ACCCAAACGT
118574057 CAAAATTTTCTAA
1 CAAAATTTTCTAA
*
118574070 CAAAATTTTCTAG
1 CAAAATTTTCTAA
118574083 CAAAATTTT
1 CAAAATTTT
118574092 AATACTACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (13 bp):
CAAAATTTTCTAA
Found at i:118575678 original size:3 final size:3
Alignment explanation
Indices: 118575666--118575718 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
118575656 TTTATTTTTC
*
118575666 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
118575713 TAA TAA
1 TAA TAA
118575719 AACAACAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:118579938 original size:23 final size:23
Alignment explanation
Indices: 118579878--118579942 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
118579868 CTGATCAGTG
*
118579878 TACGACACATAAAGTGTCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
118579900 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
118579922 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
118579943 TCAGTAAAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.41
22 3 0.09
23 17 0.50
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:118581414 original size:16 final size:17
Alignment explanation
Indices: 118581379--118581414 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
118581369 CCTAATTCTC
118581379 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
118581395 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
118581410 CCTTC
1 CCTTC
118581415 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:118586632 original size:73 final size:73
Alignment explanation
Indices: 118586513--118586660 Score: 287
Period size: 73 Copynumber: 2.0 Consensus size: 73
118586503 GATAAGTGTC
118586513 CAGTGGGGTTAGTCAAATTAAAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
1 CAGTGGGGTTAGTCAAATTAAAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
118586578 CTGTAACA
66 CTGTAACA
*
118586586 CAGTGGGGTTAGTCAAATTACAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
1 CAGTGGGGTTAGTCAAATTAAAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
118586651 CTGTAACA
66 CTGTAACA
118586659 CA
1 CA
118586661 ACATTGTATG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (73 bp):
CAGTGGGGTTAGTCAAATTAAAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
CTGTAACA
Found at i:118589614 original size:40 final size:40
Alignment explanation
Indices: 118589555--118589640 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
118589545 AAATGATCTC
118589555 GTTG-TAAGACATATAAGTTGCACACTTTGTTTTTGGCAG
1 GTTGCTAAGACATATAAGTTGCACACTTTGTTTTTGGCAG
118589594 GTTGCTAAGACATATAAGTTGCACACTTTGTTTTTGGCAG
1 GTTGCTAAGACATATAAGTTGCACACTTTGTTTTTGGCAG
118589634 GTTGCTA
1 GTTGCTA
118589641 GAATTCTCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 4 0.09
40 42 0.91
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (40 bp):
GTTGCTAAGACATATAAGTTGCACACTTTGTTTTTGGCAG
Found at i:118593117 original size:17 final size:17
Alignment explanation
Indices: 118593095--118593133 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
118593085 TATAATTAAT
118593095 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
118593112 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
118593129 CTTAA
1 TTTAA
118593134 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:118593190 original size:9 final size:9
Alignment explanation
Indices: 118593172--118593241 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 9
118593162 TTTTCTTAAT
*
118593172 ATATTTAAA
1 ATATTAAAA
*
118593181 ATTTTAAAA
1 ATATTAAAA
118593190 A-ACTTAAAA
1 ATA-TTAAAA
* *
118593199 AAATTAAAT
1 ATATTAAAA
118593208 ATATT-AAA
1 ATATTAAAA
* *
118593216 ATTTTAAAT
1 ATATTAAAA
118593225 ATATTAAAA
1 ATATTAAAA
118593234 ATTATTAA
1 A-TATTAA
118593242 GTATAACTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
8 6 0.13
9 34 0.72
10 7 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (9 bp):
ATATTAAAA
Found at i:118593216 original size:17 final size:17
Alignment explanation
Indices: 118593196--118593234 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
118593186 AAAAAACTTA
118593196 AAAAAATTAAATATATT
1 AAAAAATTAAATATATT
**
118593213 AAAATTTTAAATATATT
1 AAAAAATTAAATATATT
118593230 AAAAA
1 AAAAA
118593235 TTATTAAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAAATTAAATATATT
Found at i:118593347 original size:62 final size:61
Alignment explanation
Indices: 118593202--118593342 Score: 171
Period size: 62 Copynumber: 2.3 Consensus size: 61
118593192 CTTAAAAAAA
* * *
118593202 TTAAATATATT-AAAATTTTAAATATATTAAAAATTATTAAGTATAACTAATTTTAAAATT
1 TTAATTATATTCAAAATTTTAAATATATTAAAAATAATTAAATATAACTAATTTTAAAATT
* * **
118593262 TTAATTTATTTTTAAAAAATTAAATATATTAAAAA-AAGTTAAATATAACTAATTTTAAAATT
1 TTAA-TTATATTCAAAATTTTAAATATATTAAAAATAA-TTAAATATAACTAATTTTAAAATT
*
118593324 TTAA-TATATTCAATATTTT
1 TTAATTATATTCAAAATTTT
118593343 TTAAAATATA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
60 14 0.21
61 6 0.09
62 47 0.70
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (61 bp):
TTAATTATATTCAAAATTTTAAATATATTAAAAATAATTAAATATAACTAATTTTAAAATT
Found at i:118593447 original size:16 final size:16
Alignment explanation
Indices: 118593426--118593460 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
118593416 AAAAACTTAA
118593426 AAAATTTAAATATATT
1 AAAATTTAAATATATT
118593442 AAAATTTAAATATATT
1 AAAATTTAAATATATT
118593458 AAA
1 AAA
118593461 GAAAATGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTTAAATATATT
Found at i:118596634 original size:33 final size:33
Alignment explanation
Indices: 118596592--118596658 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
118596582 GCTTTATTTA
118596592 CTTAAATCTTTTATGTGGAACATTTTCAGGCAG
1 CTTAAATCTTTTATGTGGAACATTTTCAGGCAG
118596625 CTTAAATCTTTTATGTGGAACATTTTCAGGCAG
1 CTTAAATCTTTTATGTGGAACATTTTCAGGCAG
118596658 C
1 C
118596659 CAATGTTGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (33 bp):
CTTAAATCTTTTATGTGGAACATTTTCAGGCAG
Found at i:118599332 original size:73 final size:73
Alignment explanation
Indices: 118599213--118599360 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
118599203 GATAAGTGTC
118599213 CAGTGGGGTTAGTCAAATTACAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
1 CAGTGGGGTTAGTCAAATTACAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
118599278 CTGTAACA
66 CTGTAACA
118599286 CAGTGGGGTTAGTCAAATTACAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
1 CAGTGGGGTTAGTCAAATTACAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
118599351 CTGTAACA
66 CTGTAACA
118599359 CA
1 CA
118599361 ACATTGTATG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (73 bp):
CAGTGGGGTTAGTCAAATTACAATTTCATTAAATTTAAATTCCACTAGTTTACACCTATGGCAGG
CTGTAACA
Found at i:118600373 original size:11 final size:11
Alignment explanation
Indices: 118600357--118600387 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
118600347 ATTTAGAACT
118600357 ATGTTTGATTC
1 ATGTTTGATTC
118600368 ATGTTTGATTC
1 ATGTTTGATTC
*
118600379 ATGATTGAT
1 ATGTTTGAT
118600388 GTAATTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (11 bp):
ATGTTTGATTC
Found at i:118601775 original size:23 final size:23
Alignment explanation
Indices: 118601715--118601779 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
118601705 CTGATCAGTG
*
118601715 TACGACACATAAAGTGTCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
118601737 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
118601759 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
118601780 TCAGTAAAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.41
22 3 0.09
23 17 0.50
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:118603411 original size:23 final size:23
Alignment explanation
Indices: 118603351--118603415 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
118603341 CTGATCAGTG
*
118603351 TACGACACATAAAGTGTCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
118603373 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
118603395 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
118603416 TCAGTAAAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.41
22 3 0.09
23 17 0.50
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:118609628 original size:11 final size:11
Alignment explanation
Indices: 118609612--118609642 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
118609602 ATTTAGAACT
118609612 ATGTTTGATTC
1 ATGTTTGATTC
118609623 ATGTTTGATTC
1 ATGTTTGATTC
*
118609634 ATGATTGAT
1 ATGTTTGAT
118609643 GTAATTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (11 bp):
ATGTTTGATTC
Found at i:118622447 original size:21 final size:21
Alignment explanation
Indices: 118622422--118622467 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
118622412 TTAGGACTAG
118622422 TATGGAAATATCTAGATTTCT
1 TATGGAAATATCTAGATTTCT
118622443 TATGGAAATATCTAGATTTCT
1 TATGGAAATATCTAGATTTCT
118622464 TATG
1 TATG
118622468 ATTTCTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (21 bp):
TATGGAAATATCTAGATTTCT
Found at i:118627984 original size:47 final size:47
Alignment explanation
Indices: 118627875--118627986 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
118627865 CCGGGATAAG
*
118627875 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
118627922 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTA-TAGTA
118627969 CACATAGTG-TCTCATCGA
1 CACATAGTGCT-TCATCGA
118627987 CTCAATGTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGAAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:118632918 original size:39 final size:38
Alignment explanation
Indices: 118632851--118632926 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
118632841 ACCAATATGG
*
118632851 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAA-AGTTGA
* *
118632890 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAAAGTTG
118632927 GTACTGTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.15
39 25 0.76
40 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAAAGTTGA
Found at i:118634079 original size:23 final size:21
Alignment explanation
Indices: 118634027--118634122 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
118634017 CCTGATCAGT
** * *
118634027 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
118634048 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
118634069 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
118634090 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
118634111 AAATACGACACA
1 --ATACGACACA
118634123 TAAAGTGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:118634087 original size:42 final size:43
Alignment explanation
Indices: 118634027--118634132 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
118634017 CCTGATCAGT
*
118634027 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * *
118634069 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
118634113 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
118634133 GATCGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 37 0.69
44 17 0.31
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:118635607 original size:16 final size:17
Alignment explanation
Indices: 118635572--118635607 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
118635562 CCCAATTCTC
118635572 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
118635588 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
118635603 CCTTC
1 CCTTC
118635608 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:118637702 original size:5 final size:5
Alignment explanation
Indices: 118637684--118637719 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
118637674 TTTCTTTTAT
118637684 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
118637720 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:118642223 original size:30 final size:30
Alignment explanation
Indices: 118642189--118642250 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
118642179 GTGGTAAATG
118642189 TCAAACTGATAAGCTTTCTGAGGAAATTGT
1 TCAAACTGATAAGCTTTCTGAGGAAATTGT
118642219 TCAAACTGATAAGCTTTCTGAGGAAATTGT
1 TCAAACTGATAAGCTTTCTGAGGAAATTGT
118642249 TC
1 TC
118642251 TTGCCAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (30 bp):
TCAAACTGATAAGCTTTCTGAGGAAATTGT
Found at i:118662663 original size:67 final size:59
Alignment explanation
Indices: 118662541--118662725 Score: 212
Period size: 67 Copynumber: 3.0 Consensus size: 59
118662531 AAGCTTCTAC
* *
118662541 TACACAAAACAATTACCCAATTATACAAATTATTACAACATTTGTAATGTATTGTGTAATTA
1 TACAC-AAAC-ATTACCCAATTACACAAATTATTACAAC-TTTGTAATGTTTTGTGTAATTA
118662603 TGTAATCCCACAAAGCATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTGTGTAAT
1 --T-A---CACAAA-CATTACCCAATTACACAAATTATTACAACTTT-GTAATGTTTTGTGTAAT
118662668 TA
58 TA
* *
118662670 TACA-AAACATTATCCAATTACACAAATTATTACAGCTTTTGTAATGTTTTG-GTAAT
1 TACACAAACATTACCCAATTACACAAATTATTACAAC-TTTGTAATGTTTTGTGTAAT
118662726 ATTGGAGCTG
Statistics
Matches: 110, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
58 5 0.05
59 38 0.35
60 6 0.05
61 2 0.02
64 2 0.02
65 2 0.02
66 3 0.03
67 48 0.44
68 4 0.04
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (59 bp):
TACACAAACATTACCCAATTACACAAATTATTACAACTTTGTAATGTTTTGTGTAATTA
Found at i:118662675 original size:59 final size:58
Alignment explanation
Indices: 118662612--118662725 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 58
118662602 ATGTAATCCC
*
118662612 ACAAAGCATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTGTGTAATTAT
1 ACAAAACATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTG-GTAATTAT
* * *
118662671 ACAAAACATTATCCAATTACACAAATTATTACAGCTTTTGTAATGTTTTGGTAAT
1 ACAAAACATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTGGTAAT
118662726 ATTGGAGCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 5 0.10
59 46 0.90
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (58 bp):
ACAAAACATTACCCAATTACACAAATTATTACAACTTTCGTAATGTTTTGGTAATTAT
Found at i:118666933 original size:12 final size:13
Alignment explanation
Indices: 118666910--118666936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
118666900 CATAATATCA
118666910 TTAAATTTTTTTG
1 TTAAATTTTTTTG
118666923 TTAAATTTTTTTG
1 TTAAATTTTTTTG
118666936 T
1 T
118666937 GTGATATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTAAATTTTTTTG
Found at i:118673267 original size:2 final size:2
Alignment explanation
Indices: 118673262--118673289 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
118673252 ATGGAACTGC
118673262 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118673290 CAAGGTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118674142 original size:27 final size:27
Alignment explanation
Indices: 118674112--118674166 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
118674102 AAAGAAACCC
118674112 CAACTGACTCAGAAACCACTTTCTCCT
1 CAACTGACTCAGAAACCACTTTCTCCT
*
118674139 CAACTGACTCAGAAACCAGTTTCTCCT
1 CAACTGACTCAGAAACCACTTTCTCCT
118674166 C
1 C
118674167 TGAATTATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.25
Consensus pattern (27 bp):
CAACTGACTCAGAAACCACTTTCTCCT
Found at i:118676910 original size:16 final size:16
Alignment explanation
Indices: 118676889--118676919 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
118676879 TTTATTATTT
118676889 TATTAACATAATATAA
1 TATTAACATAATATAA
*
118676905 TATTAATATAATATA
1 TATTAACATAATATA
118676920 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:118682423 original size:7 final size:7
Alignment explanation
Indices: 118682413--118682439 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
118682403 GTACATTGAA
118682413 TTTTTAT
1 TTTTTAT
118682420 TTTTTAT
1 TTTTTAT
118682427 TTTTTAT
1 TTTTTAT
118682434 TTTTTA
1 TTTTTA
118682440 CAAAAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:118683954 original size:67 final size:67
Alignment explanation
Indices: 118683865--118683994 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
118683855 GAGTAAACCC
118683865 TTAGGATGGTGCGAGAGTTGTATCTTTTAGGAGTTGTAGGGGAGTAATCCTTTAAGGGGTGTGGG
1 TTAGGATGGTGCGAGAGTTGTATCTTTTAGGAGTTGTAGGGGAGTAATCCTTTAAGGGGTGTGGG
118683930 GT
66 GT
*
118683932 TTAGGATGGTGTGAGAGTTGTATCTTTTAGGAGTTGTAGGGGAGTAATCCTTTAAGGGGTGTG
1 TTAGGATGGTGCGAGAGTTGTATCTTTTAGGAGTTGTAGGGGAGTAATCCTTTAAGGGGTGTG
118683995 AGAGTTGTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.20, C:0.05, G:0.39, T:0.35
Consensus pattern (67 bp):
TTAGGATGGTGCGAGAGTTGTATCTTTTAGGAGTTGTAGGGGAGTAATCCTTTAAGGGGTGTGGG
GT
Found at i:118689451 original size:14 final size:14
Alignment explanation
Indices: 118689432--118689461 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118689422 CTTAGATGCT
118689432 TACTACTGAGGTAC
1 TACTACTGAGGTAC
*
118689446 TACTACTGTGGTAC
1 TACTACTGAGGTAC
118689460 TA
1 TA
118689462 GCTAGACTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (14 bp):
TACTACTGAGGTAC
Found at i:118692477 original size:87 final size:87
Alignment explanation
Indices: 118692374--118692551 Score: 338
Period size: 87 Copynumber: 2.0 Consensus size: 87
118692364 TGGGGCTGGA
*
118692374 GCTGGAGCTGGACAGGAGAGAGGTACTTCAATGGCGTCTAAGGCCGAACACGAGAGTGATAAAGA
1 GCTGGAACTGGACAGGAGAGAGGTACTTCAATGGCGTCTAAGGCCGAACACGAGAGTGATAAAGA
118692439 GAAAGGACGACGGAGTTATGCT
66 GAAAGGACGACGGAGTTATGCT
*
118692461 GCTGGAACTGGACAGGAGAGAGGTACTTCAGTGGCGTCTAAGGCCGAACACGAGAGTGATAAAGA
1 GCTGGAACTGGACAGGAGAGAGGTACTTCAATGGCGTCTAAGGCCGAACACGAGAGTGATAAAGA
118692526 GAAAGGACGACGGAGTTATGCT
66 GAAAGGACGACGGAGTTATGCT
118692548 GCTG
1 GCTG
118692552 CTGCTGCTGG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.16
Consensus pattern (87 bp):
GCTGGAACTGGACAGGAGAGAGGTACTTCAATGGCGTCTAAGGCCGAACACGAGAGTGATAAAGA
GAAAGGACGACGGAGTTATGCT
Found at i:118692631 original size:99 final size:96
Alignment explanation
Indices: 118692457--118692633 Score: 230
Period size: 96 Copynumber: 1.8 Consensus size: 96
118692447 GACGGAGTTA
* * * * * * *
118692457 TGCTGCTGGAACTGGACAGGAGAGAGGTACTTCAGTGGCGTCTAAGGCCGAACACGAGAGTGATA
1 TGCTGCTGGAACTCGACAAGAGAGAGGTACTTCAATGGAGTCCAAGGCCAAACAAGAGAGTGATA
118692522 AAGAGAAAGGACGACGGAGTTATGCTGCTGC
66 AAGAGAAAGGACGACGGAGTTATGCTGCTGC
*
118692553 TGCTGCTGG-ACATCGACAAGAGAGAGGTGCTTCAATGGAGTCCAAGGGCAGCAAACAAGAGAGT
1 TGCTGCTGGAAC-TCGACAAGAGAGAGGTACTTCAATGGAGTCCAA-GGC--CAAACAAGAGAGT
*
118692617 GATAAAGAGCAAGGACG
62 GATAAAGAGAAAGGACG
118692634 CCGCACTCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
95 2 0.03
96 36 0.53
97 3 0.04
99 27 0.40
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (96 bp):
TGCTGCTGGAACTCGACAAGAGAGAGGTACTTCAATGGAGTCCAAGGCCAAACAAGAGAGTGATA
AAGAGAAAGGACGACGGAGTTATGCTGCTGC
Found at i:118701814 original size:20 final size:20
Alignment explanation
Indices: 118701783--118701831 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
118701773 TTTTACATTA
* * *
118701783 ATTTTTTTTTAAATTTTATTT
1 ATTTTTATTAAAATATTA-TT
118701804 ATTTTTATTAAAATATTATT
1 ATTTTTATTAAAATATTATT
118701824 ATTTTTAT
1 ATTTTTAT
118701832 ATCTGATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTTATTAAAATATTATT
Found at i:118709704 original size:21 final size:21
Alignment explanation
Indices: 118709679--118709718 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
118709669 TTATTAAAAT
* *
118709679 AATTATTTTTTATTTATTTTA
1 AATTATATTTTAGTTATTTTA
118709700 AATTATATTTTAGTTATTT
1 AATTATATTTTAGTTATTT
118709719 ATGTTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
AATTATATTTTAGTTATTTTA
Found at i:118710038 original size:18 final size:19
Alignment explanation
Indices: 118710015--118710050 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
118710005 AACTAAAGGG
*
118710015 AAAG-AATAAAAGGAAAAT
1 AAAGAAATAAAAAGAAAAT
118710033 AAAGAAATAAAAAGAAAA
1 AAAGAAATAAAAAGAAAA
118710051 AATTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (19 bp):
AAAGAAATAAAAAGAAAAT
Found at i:118718474 original size:33 final size:33
Alignment explanation
Indices: 118718432--118718500 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
118718422 CAAGAGAAAG
118718432 AAAACCAAAAATAAGGTCAGGCACTGCTGTCAC
1 AAAACCAAAAATAAGGTCAGGCACTGCTGTCAC
*
118718465 AAAACCAAAAATAAGGTCAGGCATTGCTGTCAC
1 AAAACCAAAAATAAGGTCAGGCACTGCTGTCAC
118718498 AAA
1 AAA
118718501 CAGCTTATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.22, G:0.17, T:0.16
Consensus pattern (33 bp):
AAAACCAAAAATAAGGTCAGGCACTGCTGTCAC
Found at i:118721193 original size:28 final size:28
Alignment explanation
Indices: 118721162--118721219 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
118721152 CTCCACATAC
118721162 ATCGATTTTACATGAACCTCAATAATTG
1 ATCGATTTTACATGAACCTCAATAATTG
118721190 ATCGATTTTACATGAACCTCAATAATTG
1 ATCGATTTTACATGAACCTCAATAATTG
118721218 AT
1 AT
118721220 TACTTTAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (28 bp):
ATCGATTTTACATGAACCTCAATAATTG
Found at i:118724566 original size:9 final size:9
Alignment explanation
Indices: 118724554--118724606 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
118724544 ATTTTAAAAA
118724554 TATAATTTT
1 TATAATTTT
*
118724563 TATACTTTTT
1 TATA-ATTTT
118724573 TAATAATTTT
1 T-ATAATTTT
*
118724583 AATAATTTT
1 TATAATTTT
118724592 TAT-ATTTT
1 TATAATTTT
118724600 T-TAATTT
1 TATAATTT
118724607 AAATTTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
7 1 0.03
8 10 0.27
9 14 0.38
10 9 0.24
11 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TATAATTTT
Found at i:118724580 original size:20 final size:20
Alignment explanation
Indices: 118724555--118724592 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
118724545 TTTTAAAAAT
* *
118724555 ATAATTTTTATACTTTTTTA
1 ATAATTTTAATAATTTTTTA
118724575 ATAATTTTAATAATTTTT
1 ATAATTTTAATAATTTTT
118724593 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATAATTTTAATAATTTTTTA
Found at i:118724612 original size:14 final size:14
Alignment explanation
Indices: 118724590--118724619 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
118724580 TTTAATAATT
*
118724590 TTTATATTTTTTAA
1 TTTAAATTTTTTAA
118724604 TTTAAATTTTTTAA
1 TTTAAATTTTTTAA
118724618 TT
1 TT
118724620 GCTAATGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTAAATTTTTTAA
Found at i:118726301 original size:16 final size:16
Alignment explanation
Indices: 118726259--118726304 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
118726249 TGATATTGAT
*
118726259 AAATAAATTATTTCAAA
1 AAATAAATAATTT-AAA
*
118726276 AAA-AGA-AATTTAAA
1 AAATAAATAATTTAAA
118726290 AAATAAATAATTTAA
1 AAATAAATAATTTAA
118726305 TTTATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.25
15 6 0.25
16 9 0.38
17 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (16 bp):
AAATAAATAATTTAAA
Found at i:118729079 original size:16 final size:15
Alignment explanation
Indices: 118729055--118729097 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
118729045 TGGTTCACTA
118729055 TAATAGAATAATGTTG
1 TAATAGAATAA-GTTG
*
118729071 TAATTGAATAGAGTTG
1 TAATAGAATA-AGTTG
118729087 TAATAGAATAA
1 TAATAGAATAA
118729098 AACTATAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 22 0.92
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATAGAATAAGTTG
Found at i:118729245 original size:25 final size:26
Alignment explanation
Indices: 118729216--118729266 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
118729206 ATGATTATTG
*
118729216 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
118729241 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
118729267 ATAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Found at i:118741199 original size:30 final size:30
Alignment explanation
Indices: 118741157--118741232 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
118741147 AATAGTTTAT
* * *
118741157 ATTTTATAATTTTTAAATAATTAAATTA-A
1 ATTTTATTATTTTTAAAAAATTAAAATATA
118741186 ATTTTTATTATTTTTAAAAAATTAAAATATA
1 A-TTTTATTATTTTTAAAAAATTAAAATATA
*
118741217 ATTTTATTATTATTAA
1 ATTTTATTATTTTTAA
118741233 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 1 0.02
30 38 0.93
31 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTTATTATTTTTAAAAAATTAAAATATA
Found at i:118741753 original size:19 final size:20
Alignment explanation
Indices: 118741729--118741771 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
118741719 TTATATAGTA
*
118741729 ATAATTAATGATT-AGTATT
1 ATAATTAATAATTAAGTATT
*
118741748 ATAATTAATAATTAATTATT
1 ATAATTAATAATTAAGTATT
118741768 ATAA
1 ATAA
118741772 AAAAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATAATTAATAATTAAGTATT
Found at i:118745964 original size:27 final size:27
Alignment explanation
Indices: 118745913--118745966 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
118745903 TACGTATTTT
*
118745913 TATAAAAAATTTGATTTTATGTAAATA
1 TATAAAAAATTTGATATTATGTAAATA
118745940 TATACAAAAATTAT-ATATTAT-TAAATA
1 TATA-AAAAATT-TGATATTATGTAAATA
118745967 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 10 0.42
28 13 0.54
29 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (27 bp):
TATAAAAAATTTGATATTATGTAAATA
Found at i:118751545 original size:42 final size:42
Alignment explanation
Indices: 118751499--118751579 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
118751489 TTTATTTATT
*
118751499 TCTTTCTTTCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
* *
118751541 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGT
1 TCTTTCTATCCTTATTTCTTTCTCACGTTTGCTCTCTGT
118751580 AACTTTTCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.06, C:0.27, G:0.09, T:0.58
Consensus pattern (42 bp):
TCTTTCTATCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
Found at i:118751595 original size:42 final size:42
Alignment explanation
Indices: 118751499--118751595 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
118751489 TTTATTTATT
* * * * *
118751499 TCTTTCTTTCCTTATTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
118751541 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
118751583 T-TTTCTATTCTTT
1 TCTTTCTA-TCTTT
118751596 ACTTATTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 6 0.12
42 43 0.88
ACGTcount: A:0.08, C:0.26, G:0.07, T:0.59
Consensus pattern (42 bp):
TCTTTCTATCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:118757023 original size:4 final size:4
Alignment explanation
Indices: 118757014--118757067 Score: 65
Period size: 4 Copynumber: 13.2 Consensus size: 4
118757004 CCCTTTTTTA
* *
118757014 TTTC TTTC TTTC TTTCCC TTT- TTTA TTTC TTTC TTTC TTTC CTTC TTTC
1 TTTC TTTC TTTC TTT--C TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
118757063 TTTC T
1 TTTC T
118757068 CACGTTTGCT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
3 3 0.07
4 37 0.84
6 4 0.09
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:118757029 original size:25 final size:25
Alignment explanation
Indices: 118757001--118757055 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
118756991 CATCCTCAAA
118757001 TTTCCCTTTTTTATTTCTTTCTTTC
1 TTTCCCTTTTTTATTTCTTTCTTTC
118757026 TTTCCCTTTTTTATTTCTTTCTTTC
1 TTTCCCTTTTTTATTTCTTTCTTTC
118757051 TTTCC
1 TTTCC
118757056 TTCTTTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTCCCTTTTTTATTTCTTTCTTTC
Found at i:118757141 original size:42 final size:43
Alignment explanation
Indices: 118757045--118757141 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 43
118757035 TTTATTTCTT
* * * *
118757045 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGATTGCTCTCTGTAAC
118757087 TCTTTCTA-TCTTTCTTTCTTTCTCACGATTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGATTGCTCTCTGTAAC
118757129 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
118757142 ACTTATTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 6 0.12
42 43 0.88
ACGTcount: A:0.08, C:0.27, G:0.07, T:0.58
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGATTGCTCTCTGTAAC
Found at i:118758379 original size:14 final size:13
Alignment explanation
Indices: 118758361--118758385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118758351 TATGAAAATA
118758361 AAAAAAAACCTCC
1 AAAAAAAACCTCC
118758374 AAAAAAAACCTC
1 AAAAAAAACCTC
118758386 TCGATTGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAACCTCC
Done.