Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 136 of 313
Found at i:44072885 original size:12 final size:12
Alignment explanation
Indices: 44072860--44072898 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
44072850 ACTCACTTCT
* *
44072860 TTACTTACTCAC
1 TTACTTGCTTAC
*
44072872 TTACTTGTTTAC
1 TTACTTGCTTAC
44072884 TTACTTGCTTAC
1 TTACTTGCTTAC
44072896 TTA
1 TTA
44072899 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:44073240 original size:50 final size:49
Alignment explanation
Indices: 44073147--44073339 Score: 188
Period size: 50 Copynumber: 3.7 Consensus size: 49
44073137 TTTTCTGTAC
* * * **
44073147 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGA
1 TGCCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATATCGA
* ** * *
44073197 TGCCTATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCC-AGACATGGTCTTACATGGGACCTCTCATATCGA
*
44073247 TGCCAACGCCATGTACCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GA
*
44073303 TACCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGT-CCAGACATGGTCTTACATGGGA
44073340 TATTATTCCC
Statistics
Matches: 116, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 75 0.65
51 2 0.02
53 2 0.02
56 35 0.30
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAATGCCATGTCCAGACATGGTCTTACATGGGACCTCTCATATCGA
Found at i:44073714 original size:30 final size:30
Alignment explanation
Indices: 44073680--44073738 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
44073670 TCCTTGACTC
44073680 AAACTTTGGA-AAAATTACAATTTTGCCCCT
1 AAACTTT-GACAAAATTACAATTTTGCCCCT
* * *
44073710 AAACTTTTACATAATTACACTTTTGCCCC
1 AAACTTTGACAAAATTACAATTTTGCCCC
44073739 AAAGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTGACAAAATTACAATTTTGCCCCT
Found at i:44090185 original size:94 final size:93
Alignment explanation
Indices: 44090023--44090496 Score: 442
Period size: 94 Copynumber: 5.1 Consensus size: 93
44090013 TAACAGATCA
* * * **
44090023 ATGAAGCTACAAAT-CT-TACACCCTTAAAGTTGCAGTGGGTCAGATTGCATCCACCATAGTGAA
1 ATGAAGCTACAAATCCTATAC-CCCTGAAA-TTGCAGTGGGTCAGATTGAATCTACCATAACGAA
* **
44090086 TCTTATCTCTCTGAAGTTATAGTAGAGCAAG
64 TCTTATCTCCCTGAAGTTGCAGT-GAGCAAG
* * * *
44090117 ATGAAGCTACAGATCCTATACCCCTGAAATTGTAGTGGGTCAAATTGAATCTACCATAATGAATC
1 ATGAAGCTACAAATCCTATACCCCTGAAATTGCAGTGGGTCAGATTGAATCTACCATAACGAATC
*
44090182 TTATCTCCCTAAAGTTGCAGTAGAGCAA-
66 TTATCTCCCTGAAGTTGCAGT-GAGCAAG
** * * * * * *
44090210 ATTGAAGCTACAAATCCTATACCTTTGAAGTTGCTGTGTGTCGGATTGAA-ATACCATAGCGAAT
1 A-TGAAGCTACAAATCCTATACCCCTGAAATTGCAGTGGGTCAGATTGAATCTACCATAACGAAT
* * *
44090274 CTTATCTCTCTGAAGTTGCGGTGAAG-TAG
65 CTTATCTCCCTGAAGTTGCAGTG-AGCAAG
* * *
44090303 ATTGAAGTTACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGT-TACCATAACGAA
1 A-TGAAGCTACAAATCCTATACCCCTGAAATTGCAGTGGGTCAGATTGAA-TCTACCATAACGAA
*
44090367 TCTTTATCTCCCTGAAGTTGTAGTGAGCAAG
64 TC-TTATCTCCCTGAAGTTGCAGTGAGCAAG
* * * * * *
44090398 ATG-AGACTACAAATCCTATACCCTTGAAGTTACAGTGGGTCGGATTGAAAT-TACAACAACGAA
1 ATGAAG-CTACAAATCCTATACCCCTGAAATTGCAGTGGGTCAGATTG-AATCTACCATAACGAA
* * * *
44090461 TCTTATTTCCTTGAAGTTGCAATGGAGCAAA
64 TCTTATCTCCCTGAAGTTGCAGT-GAGCAAG
44090492 ATGAA
1 ATGAA
44090497 ACTGTAACAC
Statistics
Matches: 316, Mismatches: 51, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
92 2 0.01
93 95 0.30
94 182 0.58
95 34 0.11
96 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (93 bp):
ATGAAGCTACAAATCCTATACCCCTGAAATTGCAGTGGGTCAGATTGAATCTACCATAACGAATC
TTATCTCCCTGAAGTTGCAGTGAGCAAG
Found at i:44090343 original size:187 final size:187
Alignment explanation
Indices: 44090023--44090496 Score: 532
Period size: 187 Copynumber: 2.5 Consensus size: 187
44090013 TAACAGATCA
* * * * * *
44090023 ATGAAGCTACAAATCTTACACCCTTAAAGTTGCAGTGGGTCAGATTG-CATCCACCATAGTGAAT
1 ATGAAGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAAT--ACCATAGCGAAT
** * *
44090087 CTTATCTCTCTGAAGTTATAGTAGAGCAAGATGAAGCTACAGATCCTATACCCCTGAAATTGTAG
64 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAATTGCAG
*
44090152 TGGGTCAAATTGAA-TCTACCATAATGAATC-TTATCTCCCTAAAGTTGCAGTAGAGCAA-
129 TGGGTCAAATTGAAGT-TACCATAACGAATCTTTATCTCCCTAAAGTTGCAGT-GAGCAAG
* * *
44090210 ATTGAAGCTACAAATCCTATACCTTTGAAGTTGCTGTGTGTCGGATTGAAATACCATAGCGAATC
1 A-TGAAGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAATACCATAGCGAATC
* * * * *
44090275 TTATCTCTCTGAAGTTGCGGT-GAAG-TAGATTGAAGTTACAAATCTTATACCCCTGAAGTTGCA
65 TTATCTCTCTGAAGTTGCAGTAG-AGCAAGA-TGAAGCTACAAATCCTATACCCCTGAAATTGCA
* * *
44090338 GTGGGTCAGATTGAAGTTACCATAACGAATCTTTATCTCCCTGAAGTTGTAGTGAGCAAG
128 GTGGGTCAAATTGAAGTTACCATAACGAATCTTTATCTCCCTAAAGTTGCAGTGAGCAAG
* * * *
44090398 ATG-AGACTACAAATCCTATACCCTTGAAGTTACAGTGGGTCGGATTGAAATTACAACAACGAAT
1 ATGAAG-CTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAA-TACCATAGCGAAT
* * * *
44090462 CTTATTTC-CTTGAAGTTGCAATGGAGCAAAATGAA
64 CTTATCTCTC-TGAAGTTGCAGTAGAGCAAGATGAA
44090497 ACTGTAACAC
Statistics
Matches: 241, Mismatches: 34, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
186 6 0.02
187 137 0.57
188 93 0.39
189 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (187 bp):
ATGAAGCTACAAATCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGAAATACCATAGCGAATCT
TATCTCTCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAATTGCAGTG
GGTCAAATTGAAGTTACCATAACGAATCTTTATCTCCCTAAAGTTGCAGTGAGCAAG
Found at i:44091560 original size:19 final size:19
Alignment explanation
Indices: 44091538--44091575 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44091528 AAAGAGGGTG
44091538 GCTTCAGAGAAAAAAAGAA
1 GCTTCAGAGAAAAAAAGAA
44091557 GCTTCAGAGAAAAAAAGAA
1 GCTTCAGAGAAAAAAAGAA
44091576 ACAAAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.21, T:0.11
Consensus pattern (19 bp):
GCTTCAGAGAAAAAAAGAA
Found at i:44091946 original size:11 final size:11
Alignment explanation
Indices: 44091930--44091990 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
44091920 TTGGTCCCTA
44091930 TATTTTTATTT
1 TATTTTTATTT
*
44091941 TATTTTAATTT
1 TATTTTTATTT
*
44091952 TACCCTTTTATTTT
1 TA--TTTTTA-TTT
*
44091966 CTATTTTTTTTT
1 -TATTTTTATTT
*
44091978 TATTTTTACTT
1 TATTTTTATTT
44091989 TA
1 TA
44091991 AATTTTACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 23 0.59
12 3 0.08
13 8 0.21
14 3 0.08
15 2 0.05
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:44095284 original size:41 final size:41
Alignment explanation
Indices: 44095222--44095303 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
44095212 GTATTATTTC
*
44095222 GATTATAAAAACCGCTCTTTGTAAAACGAAAAGGAAGGGAA
1 GATTATAAAAACCGCTATTTGTAAAACGAAAAGGAAGGGAA
*
44095263 GATTATAAAAACCGCTATTTGTAACACGAAAAGGAAGGGAA
1 GATTATAAAAACCGCTATTTGTAAAACGAAAAGGAAGGGAA
44095304 TAGATCGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.20
Consensus pattern (41 bp):
GATTATAAAAACCGCTATTTGTAAAACGAAAAGGAAGGGAA
Found at i:44096787 original size:14 final size:14
Alignment explanation
Indices: 44096768--44096794 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44096758 ATTATTAGAT
44096768 AATATTATTAATTG
1 AATATTATTAATTG
44096782 AATATTATTAATT
1 AATATTATTAATT
44096795 ATTTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
AATATTATTAATTG
Found at i:44099180 original size:3 final size:3
Alignment explanation
Indices: 44099172--44099254 Score: 148
Period size: 3 Copynumber: 27.7 Consensus size: 3
44099162 GTAAATTCCT
* *
44099172 TAA TAA TAA TAA TAA TAA TAA TAA CAA TCA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
44099220 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44099255 TGGTAAAAGT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44100900 original size:12 final size:12
Alignment explanation
Indices: 44100885--44100910 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44100875 TTTCCTTTTT
44100885 ATATATTTATTC
1 ATATATTTATTC
44100897 ATATATTTATTC
1 ATATATTTATTC
44100909 AT
1 AT
44100911 TTATCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATATTTATTC
Found at i:44102411 original size:23 final size:22
Alignment explanation
Indices: 44102376--44102429 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
44102366 GAGTAAAGAT
44102376 AAATATAAAATTATAAAAAATTA
1 AAATATAAAATTA-AAAAAATTA
* *
44102399 AAATTTAACATTAAAAAAATTTA
1 AAATATAAAATTAAAAAAA-TTA
44102422 ACAATATA
1 A-AATATA
44102430 TATGAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 6 0.23
23 15 0.58
24 5 0.19
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATAAAATTAAAAAAATTA
Found at i:44109816 original size:14 final size:14
Alignment explanation
Indices: 44109799--44109834 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
44109789 TTTTTTTATA
44109799 TTTTATATTTTAGT
1 TTTTATATTTTAGT
44109813 TTTTAGT-TTTTAGT
1 TTTTA-TATTTTAGT
44109827 TTTTATAT
1 TTTTATAT
44109835 ATATGTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.05
14 18 0.90
15 1 0.05
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTTATATTTTAGT
Found at i:44109822 original size:6 final size:7
Alignment explanation
Indices: 44109806--44109831 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44109796 ATATTTTATA
44109806 TTTTAGT
1 TTTTAGT
44109813 TTTTAGT
1 TTTTAGT
44109820 TTTTAGT
1 TTTTAGT
44109827 TTTTA
1 TTTTA
44109832 TATATATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (7 bp):
TTTTAGT
Found at i:44109888 original size:15 final size:16
Alignment explanation
Indices: 44109858--44109890 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44109848 TATATTTATC
44109858 TTATTGTATCATTTAA
1 TTATTGTATCATTTAA
*
44109874 TTATT-TATTATTTAA
1 TTATTGTATCATTTAA
44109889 TT
1 TT
44109891 CTTGCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TTATTGTATCATTTAA
Found at i:44109928 original size:3 final size:3
Alignment explanation
Indices: 44109920--44110082 Score: 71
Period size: 3 Copynumber: 53.7 Consensus size: 3
44109910 ATATTTTCAA
* * * * *
44109920 ATT ATT ATT ATT ATT ATT ATT ATT -TC GTT ACT ATT ATT ACT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * * *
44109967 ACT ATT AGT ATT TTT ACT ACC ATT ATT ATT ATT AAT ATT ACT CTT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * ** * *
44110016 ATTT ATTT ACT ACT ATT ATT CGT -TT ATT AAT A-T ATG ATT ATTT ATT
1 A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
44110062 ATT ATT CTT AGTT ATT ATT AT
1 ATT ATT ATT A-TT ATT ATT AT
44110083 GATCACTATG
Statistics
Matches: 119, Mismatches: 35, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
2 4 0.03
3 98 0.82
4 17 0.14
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:44110139 original size:23 final size:23
Alignment explanation
Indices: 44110108--44110159 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 23
44110098 ATATATACTT
44110108 TTTGATCACAAGCTTCATTATATA
1 TTTG-TCACAAGCTTCATTATATA
44110132 TTTGTCACAAGCTTCATTATATA
1 TTTGTCACAAGCTTCATTATATA
44110155 TTTGT
1 TTTGT
44110160 ACATACACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (23 bp):
TTTGTCACAAGCTTCATTATATA
Found at i:44114040 original size:5 final size:5
Alignment explanation
Indices: 44114030--44114068 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
44114020 GTAGATAACA
44114030 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
44114069 AAACCAAGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:44114288 original size:23 final size:26
Alignment explanation
Indices: 44114231--44114288 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
44114221 AGAAGTAAAG
*
44114231 AAATAATTAAATGAATGAATATATAT
1 AAATAATAAAATGAATGAATATATAT
44114257 AAATAAATAAAATGAATGAA-A-ATA-
1 AAAT-AATAAAATGAATGAATATATAT
44114281 AAATAATA
1 AAATAATA
44114289 TCATATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 3 0.10
26 5 0.17
27 14 0.47
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (26 bp):
AAATAATAAAATGAATGAATATATAT
Found at i:44115119 original size:4 final size:4
Alignment explanation
Indices: 44115106--44115135 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
44115096 CAGATAAGTT
44115106 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
44115136 CGAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:44118026 original size:22 final size:22
Alignment explanation
Indices: 44117995--44118038 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
44117985 TACACCAAAA
*
44117995 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
*
44118017 TAGGCCTTTATCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
44118039 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.20, G:0.25, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:44118374 original size:87 final size:87
Alignment explanation
Indices: 44118258--44118445 Score: 218
Period size: 87 Copynumber: 2.2 Consensus size: 87
44118248 CGTTTTTGCG
* * * *
44118258 ACAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTG
1 ACAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTC
44118323 A-ACTCTAGCGGCGCTTTTCCCC
66 ATA-TCTAGCGGCGCTTTTCCCC
* * * ** **
44118345 ACAAACGCTGCTAAAGACCATGATCTTTAGTGGCGCTTTTTTCACAAACGCCGTTAAAGACCCTC
1 ACAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTC
* *
44118410 ATATTTAGCGGCGCTTTT-ACC
66 ATATCTAGCGGCGCTTTTCCCC
* *
44118431 AAAAACGCCACTAAA
1 ACAAACGCCGCTAAA
44118446 TTTGGCAGAT
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
86 14 0.17
87 69 0.82
88 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (87 bp):
ACAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTC
ATATCTAGCGGCGCTTTTCCCC
Found at i:44118405 original size:43 final size:43
Alignment explanation
Indices: 44118157--44118445 Score: 213
Period size: 43 Copynumber: 6.7 Consensus size: 43
44118147 TGTTGGTCTA
* ** * * *
44118157 TAGCGGCGCTTCTAGCACAAACGCCGCTGAAGACTAAT-ACCTT
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAC-CATGATCTT
* * * * ** * *
44118200 TAGCGGCGC-TTTGCTAGAAGCGCCGCTAAAGGTCAGGGTCTT
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTT
* * * * * * * *
44118242 TAGCGACGTTTTTGCGACAAGCGCCGCTAAAGATCAGGGTCTT
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTT
* * * *
44118285 TAGCGGCGCTTTTCCCACAAACGCCGCAAAAGACCCTGAACTC
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTT
*
44118328 TAGCGGCGCTTTTCCCCACAAACGCTGCTAAAGACCATGATCTT
1 TAGCGGCGCTTTT-CCCACAAACGCCGCTAAAGACCATGATCTT
* ** * * * *
44118372 TAGTGGCGCTTTTTTCACAAACGCCGTTAAAGACCCTCATATT
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTT
* * *
44118415 TAGCGGCGCTTTTACCAAAAACGCCACTAAA
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAA
44118446 TTTGGCAGAT
Statistics
Matches: 194, Mismatches: 49, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
41 1 0.01
42 25 0.13
43 131 0.68
44 37 0.19
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (43 bp):
TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTT
Found at i:44118784 original size:21 final size:21
Alignment explanation
Indices: 44118758--44118824 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
44118748 CGCTGCTCTG
44118758 CTTCCCTCGCTGCAGCCTGTA
1 CTTCCCTCGCTGCAGCCTGTA
* ** * *
44118779 CTTCCCTCACTATAGCCTCTG
1 CTTCCCTCGCTGCAGCCTGTA
44118800 CTTCCCTCGCTGCAGCCTGTA
1 CTTCCCTCGCTGCAGCCTGTA
44118821 CTTC
1 CTTC
44118825 TTTTGTTGCC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.10, C:0.43, G:0.15, T:0.31
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTGTA
Found at i:44118855 original size:21 final size:21
Alignment explanation
Indices: 44118794--44118865 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
44118784 CTCACTATAG
* *
44118794 CCTCTGCTTCCCTCGCTG-CA
1 CCTCTGCTTCTCTTGCTGCCA
* * * *
44118814 GCCTGTACTTCTTTTGTTGCCA
1 -CCTCTGCTTCTCTTGCTGCCA
*
44118836 CCTCTGCTTCTCTTGCTGCCG
1 CCTCTGCTTCTCTTGCTGCCA
*
44118857 CATCTGCTT
1 CCTCTGCTT
44118866 TAAGCTGCTG
Statistics
Matches: 38, Mismatches: 12, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
21 36 0.95
22 2 0.05
ACGTcount: A:0.06, C:0.39, G:0.17, T:0.39
Consensus pattern (21 bp):
CCTCTGCTTCTCTTGCTGCCA
Found at i:44118999 original size:66 final size:65
Alignment explanation
Indices: 44118835--44119006 Score: 211
Period size: 66 Copynumber: 2.6 Consensus size: 65
44118825 TTTTGTTGCC
* * * * *
44118835 ACCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGAAGTTCTTCATACTTTCGTTG
1 ACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTG-TGCTGAAGTTCTTCATACTTTCGTTG
44118900 A
65 A
* * * *
44118901 ACCTCAGCTTCTCTCGCTGCTGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTT
1 ACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGT-GCTGAAGTTCTTCATA-CTTTCGTT
44118965 GA
64 GA
* *
44118967 ACCTCAGCTTCTCTCGATGTTGCCTCTGCTTTAAGTTGTG
1 ACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTG
44119007 TAATTTTCTC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.94
67 4 0.04
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.41
Consensus pattern (65 bp):
ACCTCAGCTTCTCTCGATGCTGCATCTGCTTTAAGTTGTGCTGAAGTTCTTCATACTTTCGTTGA
Found at i:44124448 original size:9 final size:9
Alignment explanation
Indices: 44124431--44125453 Score: 319
Period size: 9 Copynumber: 115.8 Consensus size: 9
44124421 TAAGTATAAT
*
44124431 TAAGCTATG
1 TAAGTTATG
44124440 TAAGTTATG
1 TAAGTTATG
44124449 T-A-TTATG
1 TAAGTTATG
44124456 TAAGTTAT-
1 TAAGTTATG
*
44124464 TTA-TTATG
1 TAAGTTATG
* *
44124472 AAAATTATG
1 TAAGTTATG
*
44124481 TAAGTTGTG
1 TAAGTTATG
44124490 T-A-TTATG
1 TAAGTTATG
*
44124497 -AA--AAT-
1 TAAGTTATG
* *
44124502 TATGCTATG
1 TAAGTTATG
44124511 TAAGTTATG
1 TAAGTTATG
* *
44124520 TAAGTCATA
1 TAAGTTATG
44124529 TAAGTTATG
1 TAAGTTATG
44124538 T-A-TTATG
1 TAAGTTATG
44124545 TAAGTTATG
1 TAAGTTATG
44124554 TAAGTTAT-
1 TAAGTTATG
*
44124562 TTA-TTATG
1 TAAGTTATG
* *
44124570 AAAATTATG
1 TAAGTTATG
*
44124579 TAAGTTGTG
1 TAAGTTATG
44124588 T-A-TTATG
1 TAAGTTATG
*
44124595 -AA--AAT-
1 TAAGTTATG
* *
44124600 TATGCTATG
1 TAAGTTATG
44124609 TAAGTTATG
1 TAAGTTATG
* *
44124618 TAAGTCATA
1 TAAGTTATG
44124627 TAAGTTATG
1 TAAGTTATG
44124636 T-A-TTATG
1 TAAGTTATG
44124643 TAAGTTATG
1 TAAGTTATG
44124652 TAAGTTAT-
1 TAAGTTATG
*
44124660 TTA-TTATG
1 TAAGTTATG
* * *
44124668 AAAATTAAG
1 TAAGTTATG
44124677 TAAGTTATG
1 TAAGTTATG
*
44124686 TAATTTATG
1 TAAGTTATG
*
44124695 -AA-TAAT-
1 TAAGTTATG
*** *
44124701 TAAACAAATA
1 T-AAGTTATG
44124711 TAAGTTATG
1 TAAGTTATG
44124720 TAAG-T-TG
1 TAAGTTATG
44124727 TAAGTTATG
1 TAAGTTATG
*
44124736 TAAGTTGTG
1 TAAGTTATG
44124745 TAAGTTATG
1 TAAGTTATG
*
44124754 TATA-ATATG
1 TA-AGTTATG
**
44124763 -AA-TTAAC
1 TAAGTTATG
44124770 TAAGTTATG
1 TAAGTTATG
*
44124779 TAATTTATG
1 TAAGTTATG
*
44124788 TATAATATTAATG
1 --TAA-GTT-ATG
44124801 TAAGTTATG
1 TAAGTTATG
*
44124810 TAATTTATG
1 TAAGTTATG
44124819 TATA-TTAAT-
1 TA-AGTT-ATG
44124828 TAAGTTATG
1 TAAGTTATG
*
44124837 TAATTTATG
1 TAAGTTATG
*
44124846 TATAATATTAATG
1 --TAA-GTT-ATG
44124859 TAAGTTATG
1 TAAGTTATG
*
44124868 TAATTTATG
1 TAAGTTATG
44124877 TATA-TTAAT-
1 TA-AGTT-ATG
44124886 TAAGTTATG
1 TAAGTTATG
*
44124895 TAATTTATG
1 TAAGTTATG
*
44124904 TATAATATTAATG
1 --TAA-GTT-ATG
44124917 TAAGTTATG
1 TAAGTTATG
*
44124926 TAATTTATG
1 TAAGTTATG
44124935 TATA-TTAAT-
1 TA-AGTT-ATG
44124944 TAAGTTATG
1 TAAGTTATG
*
44124953 TAATTTATG
1 TAAGTTATG
*
44124962 TATAATATTAATG
1 --TAA-GTT-ATG
44124975 TAAGTTATG
1 TAAGTTATG
*
44124984 TAATTTATG
1 TAAGTTATG
44124993 TATA-TTAAT-
1 TA-AGTT-ATG
** *
44125002 TAAGCAAATA
1 TAAG-TTATG
44125012 TAAGTTATG
1 TAAGTTATG
44125021 TAAG-T-TG
1 TAAGTTATG
44125028 TAAGTTATG
1 TAAGTTATG
44125037 TAAG-T-TG
1 TAAGTTATG
44125044 TAAGTTATG
1 TAAGTTATG
44125053 TAAGTTATG
1 TAAGTTATG
*
44125062 TATA-ATAT-
1 TA-AGTTATG
44125070 TAA-TTAAT-
1 TAAGTT-ATG
44125078 TAAGTTATG
1 TAAGTTATG
*
44125087 TAATTTATG
1 TAAGTTATG
*
44125096 TATAATATTAATG
1 --TAA-GTT-ATG
44125109 TAAGTTATG
1 TAAGTTATG
*
44125118 TAATTTATG
1 TAAGTTATG
*
44125127 -AA-TAAT-
1 TAAGTTATG
*** *
44125133 TAAAAAAAAG
1 T-AAGTTATG
44125143 TAAGTTATG
1 TAAGTTATG
44125152 TAAG-T-TG
1 TAAGTTATG
44125159 TAAGTTATG
1 TAAGTTATG
*
44125168 TAAGTTGTG
1 TAAGTTATG
*
44125177 TAAGTTATC
1 TAAGTTATG
* *
44125186 T--GGTATTT
1 TAAGTTA-TG
44125194 TAA-TTAAT-
1 TAAGTT-ATG
44125202 TAAGTTATG
1 TAAGTTATG
*
44125211 TAATTTATG
1 TAAGTTATG
*
44125220 TATAATATTAATG
1 --TAA-GTT-ATG
44125233 TAAGTTATG
1 TAAGTTATG
*
44125242 TAA-TTCTGG
1 TAAGTTAT-G
44125251 T-A-TT-T-
1 TAAGTTATG
44125256 TAA-TTAAT-
1 TAAGTT-ATG
44125264 TAAGTTATG
1 TAAGTTATG
*
44125273 TAATTTATG
1 TAAGTTATG
*
44125282 TATAATATTAATG
1 --TAA-GTT-ATG
44125295 TAAGTTATG
1 TAAGTTATG
*
44125304 TAA-TTCTGG
1 TAAGTTAT-G
44125313 T-A-TT-T-
1 TAAGTTATG
44125318 TAA-TTAAT-
1 TAAGTT-ATG
44125326 TAAGTTATG
1 TAAGTTATG
*
44125335 TAATTTATG
1 TAAGTTATG
*
44125344 TATAATATTAATG
1 --TAA-GTT-ATG
44125357 TAAGTTATG
1 TAAGTTATG
*
44125366 TAATTTATG
1 TAAGTTATG
*
44125375 TTTAATATTAATG
1 --TAA-GTT-ATG
44125388 TAAGTTATG
1 TAAGTTATG
*
44125397 TAAG-T-TC
1 TAAGTTATG
44125404 TAAGTTATG
1 TAAGTTATG
*
44125413 TAAGTTATA
1 TAAGTTATG
*
44125422 TATA-ATAT-
1 TA-AGTTATG
44125430 TAA-TTCAT-
1 TAAGTT-ATG
44125438 TAAGTTATG
1 TAAGTTATG
44125447 TAAGTTA
1 TAAGTTA
44125454 ACTATTTTAA
Statistics
Matches: 778, Mismatches: 114, Indels: 244
0.68 0.10 0.21
Matches are distributed among these distances:
5 2 0.00
6 12 0.02
7 87 0.11
8 101 0.13
9 437 0.56
10 40 0.05
11 54 0.07
12 18 0.02
13 27 0.03
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:44124478 original size:25 final size:25
Alignment explanation
Indices: 44124450--44124702 Score: 221
Period size: 25 Copynumber: 10.2 Consensus size: 25
44124440 TAAGTTATGT
*
44124450 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
44124475 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
44124500 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
44124523 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
44124548 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
44124573 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* * *
44124598 ATTATGCTATG-TAAG--TTATGTAA
1 ATTATG-TAAGTTATGTATTATGAAA
* * * *
44124621 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
44124646 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
*
44124671 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTATGT-A-TTATGAA-A
44124699 ATTA
1 ATTA
44124703 AACAAATATA
Statistics
Matches: 183, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
22 6 0.03
23 26 0.14
25 132 0.72
26 7 0.04
27 7 0.04
28 5 0.03
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:44124546 original size:34 final size:34
Alignment explanation
Indices: 44124507--44124656 Score: 161
Period size: 34 Copynumber: 4.5 Consensus size: 34
44124497 AAAATTATGC
44124507 TATGTAAGTTATGTAAGTCATATAAGTTATGTAT
1 TATGTAAGTTATGTAAGTCATATAAGTTATGTAT
* * *
44124541 TATGTAAGTTATGTAAGTTAT-TTA-TTATGAAAAT
1 TATGTAAGTTATGTAAGTCATATAAGTTATG--TAT
* * * *
44124575 TATGTAAGTTGTGT-A-TTATGA-AAATTATG--C
1 TATGTAAGTTATGTAAGTCAT-ATAAGTTATGTAT
44124605 TATGTAAGTTATGTAAGTCATATAAGTTATGTAT
1 TATGTAAGTTATGTAAGTCATATAAGTTATGTAT
44124639 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGT
44124657 TATTTATTAT
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
30 13 0.14
31 2 0.02
32 19 0.20
33 4 0.04
34 58 0.60
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (34 bp):
TATGTAAGTTATGTAAGTCATATAAGTTATGTAT
Found at i:44124553 original size:98 final size:98
Alignment explanation
Indices: 44124444--44124755 Score: 470
Period size: 98 Copynumber: 3.2 Consensus size: 98
44124434 GCTATGTAAG
44124444 TTATGT-A-TTATGTAAGTTATTTATTATGAAAATTATGTAAGTTGTGTATTATGAAAATTATGC
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTATGTAAGTTGTGTATTATGAAAATTATGC
44124507 TATGTAAGTTATGTAAGTCATATAAGTTATGTA
66 TATGTAAGTTATGTAAGTCATATAAGTTATGTA
44124540 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTATGTAAGTTGTGTATTATGAAAATTATGC
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTATGTAAGTTGTGTATTATGAAAATTATGC
44124605 TATGTAAGTTATGTAAGTCATATAAGTTATGTA
66 TATGTAAGTTATGTAAGTCATATAAGTTATGTA
* *
44124638 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTAATTTATGAATAATTA
1 TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTATGTAAGTTGTGT-A-TTATGAA-AATTA
** * * *
44124703 AACAAATATAAGTTATGTAAGT--TGTAAGTTATGTAA
63 TGC-TATGTAAGTTATGTAAGTCATATAAGTTATGT-A
*
44124739 GTTGTGTAAGTTATGTA
1 -TTATGTAAGTTATGTA
44124756 TAATATGAAT
Statistics
Matches: 200, Mismatches: 8, Indels: 10
0.92 0.04 0.05
Matches are distributed among these distances:
96 6 0.03
97 1 0.00
98 136 0.68
99 1 0.00
100 18 0.09
101 7 0.04
102 31 0.16
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (98 bp):
TTATGTAAGTTATGTAAGTTATTTATTATGAAAATTATGTAAGTTGTGTATTATGAAAATTATGC
TATGTAAGTTATGTAAGTCATATAAGTTATGTA
Found at i:44124680 original size:34 final size:34
Alignment explanation
Indices: 44124574--44124693 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 34
44124564 ATTATGAAAA
* *
44124574 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTA----A-GTAAG
* * * *
44124613 TTATGTAAGTCATATAAGTTATG--TATTATGTAAG
1 TTATGTAAGTTAT-TTA-TTATGAAAATTAAGTAAG
44124647 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
*
44124681 TTATGTAATTTAT
1 TTATGTAAGTTAT
44124694 GAATAATTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
32 5 0.08
33 2 0.03
34 38 0.58
39 15 0.23
40 1 0.02
41 5 0.08
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.46
Consensus pattern (34 bp):
TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
Found at i:44124732 original size:16 final size:18
Alignment explanation
Indices: 44124711--44124755 Score: 76
Period size: 16 Copynumber: 2.6 Consensus size: 18
44124701 TAAACAAATA
44124711 TAAGTTATGTAAG-T-TG
1 TAAGTTATGTAAGTTGTG
44124727 TAAGTTATGTAAGTTGTG
1 TAAGTTATGTAAGTTGTG
44124745 TAAGTTATGTA
1 TAAGTTATGTA
44124756 TAATATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 13 0.48
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (18 bp):
TAAGTTATGTAAGTTGTG
Found at i:44124808 original size:31 final size:31
Alignment explanation
Indices: 44124733--44125399 Score: 666
Period size: 31 Copynumber: 21.5 Consensus size: 31
44124723 GTTGTAAGTT
* * *
44124733 ATGTAAGTTGTGTAAGTTATGTATAATATGA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
44124764 ATTAACTAAGTTATGTAATTTATGTATAATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
44124798 ATGTAAGTTATGTAATTTATG--T-ATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
44124826 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
44124856 ATGTAAGTTATGTAATTTATG--T-ATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
44124884 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
44124914 ATGTAAGTTATGTAATTTATG--T-ATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
44124942 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
44124972 ATGTAAGTTATGTAATTTATGTATATTAATTAAGCAA
1 ATGTAAGTTATGTAATTTATGTATAAT-ATT-----A
* * *
44125009 ATATAAGTTATGTAAGTTGTAAGT-T-AT-GTA
1 ATGTAAGTTATGTAA-TT-TATGTATAATATTA
*
44125039 AGTTGTAAGTTATGTAAGTTATGTATAATATTA
1 A--TGTAAGTTATGTAATTTATGTATAATATTA
*
44125072 ATTAATTAAGTTATGTAATTTATGTATAATATTA
1 A-T--GTAAGTTATGTAATTTATGTATAATATTA
* **
44125106 ATGTAAGTTATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGTAATTTATGTATAA-T--ATTA
* * *
44125140 AAGTAAGTTATGTAA-GT-TG--TAA-GTT-
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* * **
44125165 ATGTAAGTTGTGTAAGTTATCTGGTATTTTAATTA
1 ATGTAAGTTATGTAA-TT-TAT-GTATAAT-ATTA
44125200 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* **
44125230 ATGTAAGTTATGTAATTCT-GGTATTTTAATTA
1 ATGTAAGTTATGTAATT-TATGTATAAT-ATTA
44125262 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
* **
44125292 ATGTAAGTTATGTAATTCT-GGTATTTTAATTA
1 ATGTAAGTTATGTAATT-TATGTATAAT-ATTA
44125324 AT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
*
44125354 ATGTAAGTTATGTAATTTATGTTTAATATTA
1 ATGTAAGTTATGTAATTTATGTATAATATTA
44125385 ATGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
44125400 GTTCTAAGTT
Statistics
Matches: 536, Mismatches: 48, Indels: 104
0.78 0.07 0.15
Matches are distributed among these distances:
25 13 0.02
27 54 0.10
28 25 0.05
29 7 0.01
30 54 0.10
31 225 0.42
32 41 0.08
33 8 0.01
34 83 0.15
35 3 0.01
37 16 0.03
38 3 0.01
39 4 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:44124835 original size:58 final size:59
Alignment explanation
Indices: 44124770--44125399 Score: 607
Period size: 58 Copynumber: 10.7 Consensus size: 59
44124760 ATGAATTAAC
44124770 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATG
44124828 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATG
44124886 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATG
44124944 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAAT-
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATG
** * * * *
44125002 TAAGCAAATATAAGTTATG--T-A-AGT--TGTAAGTTATGTAA-GT-TGTA-AGTT-ATG
1 TAAG-TTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATA-TTAATG
* *
44125053 TAAGTTATGT-A--TA-ATATTA-ATTAAT-TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATG--T-ATATTAATG
* ** * *
44125109 TAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAA-GT-TGTA-AGTT-ATG
1 TAAGTTATGTAATTTATGTATAA-T--ATTAATGTAAGTTATGTAATTTATGTATA-TTAATG
* * **
44125168 TAAGTTGTGTAAGTTATCTGGTATTTTAATTAAT-TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAA-TT-TAT-GTATAAT-ATTAATGTAAGTTATGTAATTTATG--T-ATATTAAT
44125232 G
59 G
* **
44125233 TAAGTTATGTAATTCT-GGTATTTTAATTAAT-TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATT-TATGTATAAT-ATTAATGTAAGTTATGTAATTTATG--T-ATATTAATG
* **
44125295 TAAGTTATGTAATTCT-GGTATTTTAATTAAT-TAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATT-TATGTATAAT-ATTAATGTAAGTTATGTAATTTATG--T-ATATTAATG
*
44125357 TAAGTTATGTAATTTATGTTTAATATTAATGTAAGTTATGTAA
1 TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAA
44125400 GTTCTAAGTT
Statistics
Matches: 500, Mismatches: 35, Indels: 70
0.83 0.06 0.12
Matches are distributed among these distances:
47 2 0.00
48 1 0.00
49 4 0.01
50 18 0.04
51 12 0.02
52 3 0.01
53 14 0.03
54 1 0.00
55 5 0.01
56 15 0.03
57 2 0.00
58 178 0.36
59 39 0.08
60 13 0.03
61 13 0.03
62 140 0.28
63 3 0.01
64 10 0.02
65 27 0.05
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.48
Consensus pattern (59 bp):
TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATG
Found at i:44125033 original size:16 final size:16
Alignment explanation
Indices: 44125012--44125058 Score: 94
Period size: 16 Copynumber: 2.9 Consensus size: 16
44125002 TAAGCAAATA
44125012 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
44125028 TAAGTTATGTAAGTTG
1 TAAGTTATGTAAGTTG
44125044 TAAGTTATGTAAGTT
1 TAAGTTATGTAAGTT
44125059 ATGTATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTAAGTTG
Found at i:44125163 original size:16 final size:16
Alignment explanation
Indices: 44125142--44125175 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
44125132 TTAAAAAAAA
44125142 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
44125158 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
44125174 GT
1 GT
44125176 GTAAGTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:44125246 original size:124 final size:119
Alignment explanation
Indices: 44124736--44124996 Score: 127
Period size: 116 Copynumber: 2.2 Consensus size: 119
44124726 GTAAGTTATG
* * * * * *
44124736 TAAGTTGTGTAAGTTATGTATAATATGAATTAACTAAGTTATGTAATTTATGTA-TAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAA-T--GTAAGTTATGTAATTTATGTATTAA-AATAAA
* * * **
44124800 GTAAGTTATGTAATTTATGTATA-TTAAT-TAAGTTATGTAATTTAT-GTATAAT-ATTAAT
62 GTAAGTTATGTAA-GT-TGTA-AGTT-ATGTAAGTTATGTAATATCTGGTATTTTAATTAAT
* *
44124858 GTAAGTTATGTAATTTATG--T-ATATTAAT-TAAGTTATGTAATTTATGTA-TAATATTAATGT
1 -TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATTAA-AATAAAGT
* * * **
44124918 AAGTTATGTAATTTATGTATA-TTAAT-TAAGTTATGTAATTTAT-GTATAAT-ATTAAT
64 AAGTTATGTAA-GT-TGTA-AGTT-ATGTAAGTTATGTAATATCTGGTATTTTAATTAAT
44124974 GTAAGTTATGTAATTTATGTATA
1 -TAAGTTATGTAATTTATGTATA
44124997 TTAATTAAGC
Statistics
Matches: 132, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
116 107 0.81
118 1 0.01
119 1 0.01
120 6 0.05
121 1 0.01
123 16 0.12
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (119 bp):
TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATTAAAATAAAGTAA
GTTATGTAAGTTGTAAGTTATGTAAGTTATGTAATATCTGGTATTTTAATTAAT
Found at i:44125409 original size:16 final size:16
Alignment explanation
Indices: 44125388--44125418 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44125378 AATATTAATG
44125388 TAAGTTATGTAAGTTC
1 TAAGTTATGTAAGTTC
44125404 TAAGTTATGTAAGTT
1 TAAGTTATGTAAGTT
44125419 ATATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
TAAGTTATGTAAGTTC
Found at i:44125413 original size:47 final size:49
Alignment explanation
Indices: 44125357--44125452 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
44125347 AATATTAATG
* * *
44125357 TAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGTTC
1 TAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGTTC
*
44125404 TAAGTTATGTAAGTTATATATAATATTAATTCATTAAGTTATGTAAGTT
1 TAAGTTATGTAAGTTATATATAATATTAATT-AGTAAGTTATGTAAGTT
44125453 AACTATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 26 0.62
48 1 0.02
50 15 0.36
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (49 bp):
TAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGTTC
Found at i:44125742 original size:7 final size:7
Alignment explanation
Indices: 44125732--44125775 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
44125722 ACTAACTTTT
44125732 AACCCTA
1 AACCCTA
44125739 AACCCTA
1 AACCCTA
*
44125746 AACCCCA
1 AACCCTA
44125753 AACCCT-
1 AACCCTA
*
44125759 ACCCCTA
1 AACCCTA
44125766 AACCCTA
1 AACCCTA
44125773 AAC
1 AAC
44125776 ATTATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.41, C:0.48, G:0.00, T:0.11
Consensus pattern (7 bp):
AACCCTA
Found at i:44125925 original size:20 final size:21
Alignment explanation
Indices: 44125900--44125938 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44125890 ACTAATTAAT
44125900 CTAAAT-CCTAAACCCTAACC
1 CTAAATCCCTAAACCCTAACC
*
44125920 CTAAATCCCTAACCCCTAA
1 CTAAATCCCTAAACCCTAA
44125939 ACATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (21 bp):
CTAAATCCCTAAACCCTAACC
Found at i:44125929 original size:14 final size:14
Alignment explanation
Indices: 44125906--44125940 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
44125896 TAATCTAAAT
44125906 CCTAAACCCTAA-C
1 CCTAAACCCTAACC
44125919 CCTAAATCCCTAACC
1 CCTAAA-CCCTAACC
44125934 CCTAAAC
1 CCTAAAC
44125941 ATTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.37, C:0.46, G:0.00, T:0.17
Consensus pattern (14 bp):
CCTAAACCCTAACC
Found at i:44125950 original size:76 final size:79
Alignment explanation
Indices: 44125736--44125999 Score: 236
Period size: 80 Copynumber: 3.3 Consensus size: 79
44125726 ACTTTTAACC
* * *
44125736 CTAAACCCTAAACCCCAAACCCT--ACCCCTAAACCCTAAACATTATTTAATA-TATA-AATTAA
1 CTAAACCCTAAA-CCCTAACCCTAAATCCCTAACCCCTAAACATTATTTAATATTATATAATTAA
44125797 AAAACACTAATTAAT
65 AAAACACTAATTAAT
* * * *
44125812 CTAAATCCTAAAACCTAACTCGACCCCGAATCACTAACCCATAACCTCTAAACATTATTTAATA-
1 CTAAACCCT-AAACC---CT--AACCCTAA--A-T--CCC-TAACCCCTAAACATTATTTAATAT
44125876 TATA-AA-TAAAAAACACTAATTAAT
54 TATATAATTAAAAAACACTAATTAAT
*
44125900 CTAAATCCTAAACCCTAACCCTAAATCCCTAACCCCTAAACATTATTTAATATTATATAATTTAA
1 CTAAACCCTAAACCCTAACCCTAAATCCCTAACCCCTAAACATTATTTAATATTATATAA-TTAA
* * * *
44125965 AATATATTAATTAGT
65 AAAACACTAATTAAT
*
44125980 CTAAACCCTAAACTCTAACC
1 CTAAACCCTAAACCCTAACC
44126000 TAACACCAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
76 32 0.21
77 10 0.06
78 2 0.01
79 2 0.01
80 33 0.21
81 4 0.03
82 6 0.04
84 2 0.01
85 1 0.01
87 5 0.03
88 30 0.19
89 27 0.18
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (79 bp):
CTAAACCCTAAACCCTAACCCTAAATCCCTAACCCCTAAACATTATTTAATATTATATAATTAAA
AAACACTAATTAAT
Found at i:44126560 original size:40 final size:41
Alignment explanation
Indices: 44126514--44126672 Score: 261
Period size: 41 Copynumber: 3.9 Consensus size: 41
44126504 GCGCTTCCTC
44126514 AAAAACGCCGCTAAAGGTA-C-GAGCATTAGCGGCGCTTATT-
1 AAAAACGCCGCTAAA-G-ACCTGAGCATTAGCGGCGCTTATTA
44126554 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
* *
44126595 AAAAACACCGCTAAAGACCTGAGCATTAGCGGCGCTTATTC
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
44126636 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT
1 AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT
44126673 TTCAGAAAAT
Statistics
Matches: 113, Mismatches: 3, Indels: 5
0.93 0.02 0.04
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 35 0.31
41 75 0.66
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTATTA
Found at i:44127481 original size:40 final size:40
Alignment explanation
Indices: 44127445--44127523 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
44127435 CACTAAAGAT
*
44127445 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
* *
44127484 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
44127524 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
Found at i:44127499 original size:39 final size:39
Alignment explanation
Indices: 44127370--44127523 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
44127360 AGCGGCACTT
** * *
44127370 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAAT-GAGCA
* ** * * *
44127411 TTAGCGGCGCTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
44127451 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
44127490 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
44127524 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 51 0.57
41 11 0.12
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:44127624 original size:41 final size:40
Alignment explanation
Indices: 44127559--44127674 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
44127549 AACATTTCGT
*
44127559 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
44127600 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
44127641 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
44127675 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:44127916 original size:22 final size:23
Alignment explanation
Indices: 44127891--44127965 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 23
44127881 GAGTTACTGT
44127891 TTTAAGGTTTATGGAGTATG-GA
1 TTTAAGGTTTATGGAGTATGAGA
* *
44127913 TTTAAGGATTATGGATTA-GAGA
1 TTTAAGGTTTATGGAGTATGAGA
* *
44127935 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATGAGA
44127955 TTTAAGGTTTA
1 TTTAAGGTTTA
44127966 GGGGTTAGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 5 0.12
21 20 0.47
22 18 0.42
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (23 bp):
TTTAAGGTTTATGGAGTATGAGA
Found at i:44127925 original size:15 final size:15
Alignment explanation
Indices: 44127907--44127947 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
44127897 GTTTATGGAG
44127907 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
44127922 TATGGA-TT-AGAGAT
1 TATGGATTTAAG-GAT
44127936 TATGG-TTTAAGG
1 TATGGATTTAAGG
44127948 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:44127986 original size:22 final size:22
Alignment explanation
Indices: 44127960--44128022 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
44127950 TGAGATTTAA
*
44127960 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
*
44127982 GGTTTGGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
44128004 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
44128023 CATGGGTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 32 0.94
23 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:44128073 original size:11 final size:11
Alignment explanation
Indices: 44128053--44128094 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
44128043 TGGATTTAGA
44128053 TTAA-TTATTT
1 TTAATTTATTT
44128063 TTAATTTATTT
1 TTAATTTATTT
44128074 TTAAATATT-TTT
1 TT-AAT-TTATTT
44128086 TTAATTTAT
1 TTAATTTAT
44128095 ATATTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 6 0.21
11 12 0.43
12 8 0.29
13 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTAATTTATTT
Found at i:44128090 original size:23 final size:24
Alignment explanation
Indices: 44128060--44128104 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
44128050 AGATTAATTA
*
44128060 TTTTTAATTTAT-TTTTAAATATT
1 TTTTTAATTTATATATTAAATATT
44128083 TTTTTAATTTATATATTAAATA
1 TTTTTAATTTATATATTAAATA
44128105 ATTTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTAATTTATATATTAAATATT
Found at i:44128326 original size:21 final size:21
Alignment explanation
Indices: 44128302--44128342 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
44128292 GATTTAAGGT
44128302 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
44128323 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
44128343 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:44128351 original size:21 final size:20
Alignment explanation
Indices: 44128299--44128352 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
44128289 TAGGATTTAA
44128299 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
44128320 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
44128341 GGATTTAGGGTT
1 GG-TTTAGGGTT
44128353 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:44128394 original size:78 final size:78
Alignment explanation
Indices: 44128312--44128469 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
44128302 TTAGGGATTA
44128312 AGAGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGTTTCAAGGGTCGAATTAAGATTTAAA
1 AGAGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGTTTCAAGGGTCGAATTAAGATTTAAA
44128377 GTTTAGATTAATT
66 GTTTAGATTAATT
*
44128390 AGAGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGTTTCAAGGGTCGAATTAAGGTTTAAA
1 AGAGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGTTTCAAGGGTCGAATTAAGATTTAAA
44128455 GTTTAGATTAATT
66 GTTTAGATTAATT
44128468 AG
1 AG
44128470 TTTTTTTAAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (78 bp):
AGAGTTAGGGGTTAGGGGTTAAGAGTTAGGGATTTAGGGTTTCAAGGGTCGAATTAAGATTTAAA
GTTTAGATTAATT
Found at i:44133027 original size:43 final size:42
Alignment explanation
Indices: 44132980--44133182 Score: 203
Period size: 43 Copynumber: 4.8 Consensus size: 42
44132970 ATGGCACTTT
* * *
44132980 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTC-TGATCTA
*
44133023 TAGCGGCGTTTAT-AAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAAA-CGCCGCTAAAGGTC-TGATCTA
* **
44133066 TAGCGGCGTTTGTG-TAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGT-CTGATCTA
** ** *
44133108 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGG-TCTGATCTA
** * *
44133151 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAG
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAG
44133183 TTAGCGACGC
Statistics
Matches: 141, Mismatches: 14, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
42 40 0.28
43 100 0.71
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTCTGATCTA
Found at i:44133105 original size:85 final size:86
Alignment explanation
Indices: 44132980--44133182 Score: 239
Period size: 85 Copynumber: 2.4 Consensus size: 86
44132970 ATGGCACTTT
* ** * * *
44132980 TAGCGGCGTTTGCGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
44133045 GCCGCTAAAGG-TCTTGATCTA
66 GCCGCTAAAGGTTC-TGATCTA
* * * * *** *
44133066 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
*
44133130 GTCGCTAAAGGTTCTGATCTA
66 GCCGCTAAAGGTTCTGATCTA
*
44133151 TAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
44133183 TTAGCGACGC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
85 69 0.70
86 29 0.30
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
GCCGCTAAAGGTTCTGATCTA
Found at i:44133282 original size:22 final size:22
Alignment explanation
Indices: 44133254--44133296 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
44133244 CAGCGGCGCT
*
44133254 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
44133276 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
44133297 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:44134787 original size:3 final size:3
Alignment explanation
Indices: 44134779--44134805 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
44134769 TTCAAGGGTT
44134779 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
44134806 CCATTTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44137059 original size:3 final size:3
Alignment explanation
Indices: 44137051--44137092 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
44137041 TTCTTTAACT
* * *
44137051 TTA TTA TTA TTA TTA TCA TTA TTA TTA GTA ATA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
44137093 GGTTTCCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:44137288 original size:53 final size:53
Alignment explanation
Indices: 44137231--44137333 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
44137221 TATTTATATT
* *
44137231 ATTTATTTATTTGTTGTTTTATTGGTGATGTCCTTTTATATGCCTGCTTTTTA
1 ATTTATGTATTTGTTGTTTTATTGGTGATGTCCTTTTATATGCATGCTTTTTA
*
44137284 ATTTATGTATTTGTTGTTTTATTGGTGTTGTCCTTTTATATGCATGCTTT
1 ATTTATGTATTTGTTGTTTTATTGGTGATGTCCTTTTATATGCATGCTTT
44137334 GATCTTATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.60
Consensus pattern (53 bp):
ATTTATGTATTTGTTGTTTTATTGGTGATGTCCTTTTATATGCATGCTTTTTA
Found at i:44149399 original size:45 final size:45
Alignment explanation
Indices: 44149335--44149465 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
44149325 AGAAGGTATT
*
44149335 AAGGTGAAAACCCGTAAAGGGTGTTTTCAGTCCTAAAAAAAGACC
1 AAGGTGAAAACCCGTAAAGGGCGTTTTCAGTCCTAAAAAAAGACC
*
44149380 AAGGTGAAAACCCGTAAAGGGCGTTTTTAGTCCTAAAAAAAGACC
1 AAGGTGAAAACCCGTAAAGGGCGTTTTCAGTCCTAAAAAAAGACC
* * * * **
44149425 AATGTGAAAACGCGTAAAGGACGCTTAAAGTCCTAAAAAAA
1 AAGGTGAAAACCCGTAAAGGGCGTTTTCAGTCCTAAAAAAA
44149466 AGGGAGAGGC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (45 bp):
AAGGTGAAAACCCGTAAAGGGCGTTTTCAGTCCTAAAAAAAGACC
Found at i:44150831 original size:51 final size:51
Alignment explanation
Indices: 44150749--44150849 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
44150739 GAGCAGACTG
* *
44150749 AAGGCAGCGAATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTA
1 AAGGCAGCGAATCTTATTTCCTGAGCATTGCAGTGGAACAGATTAAAGCTA
* * * *
44150800 AAGGTAGCGAATCTTGTTTCCCTGA-CATTGCAGTTGAATAGATTAAAGCT
1 AAGGCAGCGAATCTTATTT-CCTGAGCATTGCAGTGGAACAGATTAAAGCT
44150850 GAAGTGAAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 39 0.91
52 4 0.09
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (51 bp):
AAGGCAGCGAATCTTATTTCCTGAGCATTGCAGTGGAACAGATTAAAGCTA
Found at i:44150944 original size:123 final size:123
Alignment explanation
Indices: 44150747--44150976 Score: 336
Period size: 123 Copynumber: 1.9 Consensus size: 123
44150737 TAGAGCAGAC
* * * * *
44150747 TGAAGGCAGCGAATCTTATTTCCTTAGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAAT
1 TGAAGGCAGCGAATCCTATCTCCTTAGCATTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAAT
*
44150812 CTTGTTTCCCTGACATTGCAGTTGAATAGATTAAAGCTGAAGTGAAGCGGATTAAAGT
66 CTTGTTTCCCTGACATTGCAGTGGAATAGATTAAAGCTGAAGTGAAGCGGATTAAAGT
* * *
44150870 TGAAGGCAGC-AGATCCTATCTCCTTGGCATTACAGTGGAATAGATTAAAGCTAAAAGTAGCGGA
1 TGAAGGCAGCGA-ATCCTATCTCCTTAGCATTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAA
* * *
44150934 TCTTGTTTCCCTGGCGTTGCAGTGGAGTAGATTAAAGCTGAAG
65 TCTTGTTTCCCTGACATTGCAGTGGAATAGATTAAAGCTGAAG
44150977 GCAGCAAATC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
122 1 0.01
123 93 0.99
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (123 bp):
TGAAGGCAGCGAATCCTATCTCCTTAGCATTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAAT
CTTGTTTCCCTGACATTGCAGTGGAATAGATTAAAGCTGAAGTGAAGCGGATTAAAGT
Found at i:44150988 original size:51 final size:51
Alignment explanation
Indices: 44150861--44151003 Score: 169
Period size: 51 Copynumber: 2.8 Consensus size: 51
44150851 AAGTGAAGCG
* * * *
44150861 GATTAAAGTTGAAGGCAGCAGATCCTATCTCCTTGGCATTACAGTGGAATA
1 GATTAAAGCTGAAGGCAGCAGATCTTATCTCCCTGGCGTTACAGTGGAATA
* * * * * * * *
44150912 GATTAAAGCTAAAAGTAGCGGATCTTGTTTCCCTGGCGTTGCAGTGGAGTA
1 GATTAAAGCTGAAGGCAGCAGATCTTATCTCCCTGGCGTTACAGTGGAATA
*
44150963 GATTAAAGCTGAAGGCAGCAAATCTTATCTCCCTGGCGTTA
1 GATTAAAGCTGAAGGCAGCAGATCTTATCTCCCTGGCGTTA
44151004 AAGTTGAGGA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (51 bp):
GATTAAAGCTGAAGGCAGCAGATCTTATCTCCCTGGCGTTACAGTGGAATA
Found at i:44151211 original size:45 final size:46
Alignment explanation
Indices: 44151155--44151256 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 46
44151145 AGTCACCAGC
* *
44151155 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAGCTGAAGGCAACGAAT
1 CTTATTTCCCTGAAGTTGCAGTAGAGCAAAGCTGAAGGCAACGAAT
** * ** *
44151201 CTT-TTTCCCTGGCGTTGTAGTAGATTAAAGCTGAAGGCAGCGAAT
1 CTTATTTCCCTGAAGTTGCAGTAGAGCAAAGCTGAAGGCAACGAAT
44151246 CTTATTTCCCT
1 CTTATTTCCCT
44151257 AGCGTTGCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 37 0.79
46 10 0.21
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (46 bp):
CTTATTTCCCTGAAGTTGCAGTAGAGCAAAGCTGAAGGCAACGAAT
Found at i:44151274 original size:46 final size:45
Alignment explanation
Indices: 44151182--44151275 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
44151172 GCAGTGGAGC
* * ** *
44151182 AAAGCTGAAGGCAACGAATCTTTTTCCCTGGCGTTGTAGTAGATT
1 AAAGCTGAAGGCAACGAATCTTTTTCCCTAGCGTTGCAACAAATT
*
44151227 AAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAACAAATT
1 AAAGCTGAAGGCAACGAATCTT-TTTCCCTAGCGTTGCAACAAATT
44151273 AAA
1 AAA
44151276 TCTACAGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
AAAGCTGAAGGCAACGAATCTTTTTCCCTAGCGTTGCAACAAATT
Found at i:44151386 original size:44 final size:42
Alignment explanation
Indices: 44151338--44151449 Score: 102
Period size: 41 Copynumber: 2.6 Consensus size: 42
44151328 AAACAAATCC
*
44151338 TATCTCCCTGAAGTTGCAGTGGAGCAGGT-TAAAATGATGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-GTATAAAATCA-GG-TCT
* * * * * *
44151382 TATCTCTCTAAAGTTACAGTAGAGCA-TATCACATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGTATAAAATCAGGTCT
* *
44151423 TATCTCCCTGAAGTTGTAGCGGAGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAG
44151450 ACTGAATAAA
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
41 23 0.43
42 3 0.06
43 5 0.09
44 22 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGTATAAAATCAGGTCT
Found at i:44158296 original size:24 final size:24
Alignment explanation
Indices: 44158257--44158315 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
44158247 AATAATCTTC
* *
44158257 CAATTAAACTCTATTTATTTGTTT
1 CAATCAAACTCAATTTATTTGTTT
*
44158281 CATTCAAACTCAATTTATTTGTTT
1 CAATCAAACTCAATTTATTTGTTT
44158305 CAATCAAACTC
1 CAATCAAACTC
44158316 TGATTAGTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.46
Consensus pattern (24 bp):
CAATCAAACTCAATTTATTTGTTT
Found at i:44162611 original size:62 final size:56
Alignment explanation
Indices: 44162532--44162703 Score: 174
Period size: 62 Copynumber: 3.0 Consensus size: 56
44162522 AAGGAAGTAT
*
44162532 AAATAATATCTAATTTAAATATTTAAAAGGTAAAAGAATAATAAATAAATAGATAAAAC
1 AAATAATAT-AAATTTAAATATTTAAAA-GTAAAAGAATAATAAATAAATA-ATAAAAC
*
44162591 AGATACATAATATAAATTTAAATTTTTAAGAAGTAAAAGAATAATAAAT--A-AATAAAAC
1 --A-A-ATAATATAAATTTAAATATTTAA-AAGTAAAAGAATAATAAATAAATAATAAAAC
* **
44162649 AAAT-ATA-AAATTGAGGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAA
1 AAATAATATAAATTTAAATATTT-AAAAGTAAAAGAATAATAAATAAAT-AATAAAA
44162704 TATAAAATTG
Statistics
Matches: 97, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
52 29 0.30
53 5 0.05
54 3 0.03
55 1 0.01
56 8 0.08
58 7 0.07
59 1 0.01
60 1 0.01
61 1 0.01
62 32 0.33
63 9 0.09
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (56 bp):
AAATAATATAAATTTAAATATTTAAAAGTAAAAGAATAATAAATAAATAATAAAAC
Found at i:44162671 original size:52 final size:52
Alignment explanation
Indices: 44162615--44162714 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
44162605 AATTTAAATT
*
44162615 TTTAAGAAGTAAAAGAATAATAAATAAATAAA-ACAAATATAAAATTGAGGTA
1 TTTAAAAAGTAAAAGAATAATAAATAAATAAATA-AAATATAAAATTGAGGTA
44162667 TTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAATATAAAATTGA
1 TTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAATATAAAATTGA
44162715 AATTAATTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 45 0.98
53 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (52 bp):
TTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAATATAAAATTGAGGTA
Found at i:44163836 original size:20 final size:20
Alignment explanation
Indices: 44163811--44163848 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44163801 CTTTTGGGCG
44163811 ATTTGGGCCTT-TAGTTTTTT
1 ATTTGGG-CTTGTAGTTTTTT
44163831 ATTTGGGCTTGTAGTTTT
1 ATTTGGGCTTGTAGTTTT
44163849 GGACCTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.11, C:0.08, G:0.24, T:0.58
Consensus pattern (20 bp):
ATTTGGGCTTGTAGTTTTTT
Found at i:44165173 original size:12 final size:12
Alignment explanation
Indices: 44165156--44165181 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44165146 TTTTGAACAA
44165156 AATAAAAATTTC
1 AATAAAAATTTC
44165168 AATAAAAATTTC
1 AATAAAAATTTC
44165180 AA
1 AA
44165182 AAATTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAAAATTTC
Found at i:44167067 original size:185 final size:186
Alignment explanation
Indices: 44166754--44167108 Score: 504
Period size: 184 Copynumber: 1.9 Consensus size: 186
44166744 AAAGCGCCGC
* * *
44166754 AAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAGGAAAG
1 AAAAACCTAAGCCCAACGACCCCGTTTTCTGAGCTTTCGGGGACTTAGCGGCATTTTTAGGAAAG
44166819 TGCCGCTAATGCCCAGGGCTTTAGCAGCATTTTTTGAGAAGCACCGCAAAAAACATAAGCCCAAC
66 TGCCGCTAATGCCCAGGGCTTTAGCAGCATTTTTTGAGAAGCACCGCAAAAAACATAAGCCCAAC
* *
44166884 GACGTCGTTTTCTGAGCTTTC-GTGGATTTAGCGACGTTTTTGACAAAGCGCCCAA
131 GACGCCGTTTTCTGAGCTTTCGGGGGATTTAGCGACGTTTTTGACAAAGCGCCCAA
*
44166939 AAAAACCTAAGCCCAACGACCCCGTTTTCT-AGCTTTCGGGGACTTAGTGGCATTTTGTA-GAAA
1 AAAAACCTAAGCCCAACGACCCCGTTTTCTGAGCTTTCGGGGACTTAGCGGCATTTT-TAGGAAA
* ** * * *
44167002 -TCGCCGTTAATGTTCAGTGCTTTAGCGGCATTTTTGTG-GAAGCACTGCAAAGAAACATAAGCC
65 GT-GCCGCTAATGCCCAGGGCTTTAGCAGCATTTTT-TGAGAAGCACCGCAAA-AAACATAAGCC
* * *
44167065 CAACGATGCCGTTTTCTGAGTTTTCGGGGGATTTAGCGGCGTTT
127 CAACGACGCCGTTTTCTGAGCTTTCGGGGGATTTAGCGACGTTT
44167109 CTTTAGAAAG
Statistics
Matches: 150, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
183 1 0.01
184 67 0.45
185 66 0.44
186 16 0.11
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (186 bp):
AAAAACCTAAGCCCAACGACCCCGTTTTCTGAGCTTTCGGGGACTTAGCGGCATTTTTAGGAAAG
TGCCGCTAATGCCCAGGGCTTTAGCAGCATTTTTTGAGAAGCACCGCAAAAAACATAAGCCCAAC
GACGCCGTTTTCTGAGCTTTCGGGGGATTTAGCGACGTTTTTGACAAAGCGCCCAA
Found at i:44167269 original size:114 final size:114
Alignment explanation
Indices: 44166910--44167406 Score: 613
Period size: 114 Copynumber: 4.3 Consensus size: 114
44166900 CTTTCGTGGA
* * * *
44166910 TTTAGCGACGTTTTTGACAAAGCGCC-CAAAAAAACCTAAGCCCAACGACCCCGTTTTCT-AGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * * * * *
44166973 TTCGGGGACTTAGTGGCATTTTGTAGAAATCGCCGTTAATGTTCAGTGC
66 TTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGC
* * * * * * * *
44167022 TTTAGCGGCATTTTTGTGGAAGCACTGCAAAGAAACATAAGCCCAACGATGCCGTTTTCTGAGTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCT
* * *
44167087 TTCGGGGGATTTAGCGGCGTTTCTTTAGAAAGCACCGTTAATGCTAAGGGC
66 TTC-GGGGATTTAGCGGCGTTT-TTTAGAAAGCGCCGCTAATGCTCAGGGC
* *
44167138 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAATAAAC-TAAGCCCAACGACGTCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA-AAACATAAGCCCAACGACGCCGTTTTCTGAGC
* * *
44167202 TTTCGCGGATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGC
65 TTTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGC
* *
44167252 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAGACATAAGCCCAACGACGCCGTTTTCTAAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCT
* * * *
44167317 TTCGGGGATTTAGCGGCGTTGTTTAGGAAAGCGCCACTAATACTCAGGTC
66 TTCGGGGATTTAGCGGCGTTTTTTA-GAAAGCGCCGCTAATGCTCAGGGC
*
44167367 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAAACATA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACATA
44167407 GGGTTTTTGG
Statistics
Matches: 329, Mismatches: 48, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
112 19 0.06
113 32 0.10
114 109 0.33
115 78 0.24
116 87 0.26
117 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACATAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:44167394 original size:229 final size:228
Alignment explanation
Indices: 44166910--44167401 Score: 641
Period size: 230 Copynumber: 2.2 Consensus size: 228
44166900 CTTTCGTGGA
* *
44166910 TTTAGCGACGTTTTTGACAAAGCGCC-CAAAAAAACCTAAGCCCAACGACCCCGTTTTCTAGCTT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA-CTAAGCCCAACGACCCCGTTTTCTAGCTT
* * * * * *
44166974 TCGGGGACTTAGTGGCATTTTGTAGAAATCGCCGTTAATGTTCAGTGCTTTAGCGGCATTTTTGT
65 TCGCGGACTTAGTGGCATTTTGTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGA
* * * * *
44167039 GGAAGCACTGCAAAGAAACATAAGCCCAACGATGCCGTTTTCTGAGTTTTCGGGGGATTTAGCGG
130 GAAAGCACCGCAAAGAAACATAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGGATTTAGCGG
** *
44167104 CGTTTCTTTAGAAAGCACCGTTAATGCTAAGGGC
195 CGTTTCTTTAGAAAGCACCACTAATACTAAGGGC
* **
44167138 TTTAGCGGCATTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGTCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAA-AAACTAAGCCCAACGACCCCGTTTTCT-AGCT
* * * * *
44167203 TTCGCGGATTTAGTGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTG
64 TTCGCGGACTTAGTGGCATTTTGTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTG
*
44167268 AGAAAGCGCCGCAAA-AAGACATAAGCCCAACGACGCCGTTTTCTAAGCTTTC-GGGGATTTAGC
129 AGAAAGCACCGCAAAGAA-ACATAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGGATTTAGC
* * * *
44167331 GGCG-TTGTTTAGGAAAGCGCCACTAATACTCAGGTC
193 GGCGTTTCTTTA-GAAAGCACCACTAATACTAAGGGC
*
44167367 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAA
44167402 ACATAGGGTT
Statistics
Matches: 228, Mismatches: 31, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
228 32 0.14
229 92 0.40
230 104 0.46
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (228 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACTAAGCCCAACGACCCCGTTTTCTAGCTTT
CGCGGACTTAGTGGCATTTTGTAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCATTTTTGAG
AAAGCACCGCAAAGAAACATAAGCCCAACGACGCCGTTTTCTAAGCTTTCGGGGGATTTAGCGGC
GTTTCTTTAGAAAGCACCACTAATACTAAGGGC
Found at i:44167510 original size:14 final size:14
Alignment explanation
Indices: 44167491--44167517 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44167481 GAGTATGGGT
44167491 TTAGGGATTATGGA
1 TTAGGGATTATGGA
44167505 TTAGGGATTATGG
1 TTAGGGATTATGG
44167518 TTTAAGGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (14 bp):
TTAGGGATTATGGA
Found at i:44168332 original size:104 final size:105
Alignment explanation
Indices: 44168142--44168421 Score: 405
Period size: 105 Copynumber: 2.7 Consensus size: 105
44168132 ATTATTTTAT
*
44168142 AAAAAATCAATTTATAAAAAAC--AA-AAAAAA--TT-AGCATAGCAAAACGGCGTCATTTTGTT
1 AAAAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTT
* * * *
44168201 CAAAATGAAATAGTGGTATTTTTCATAAAAACGCCG-AGA
66 CAAAATGAAATAGCGGCATTTTCCATAAAAACGCCGCAAA
*
44168240 AAAAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGAAAAACGGCGTCATTTTGTT
1 AAAAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTT
* *
44168305 CAAAATGAAATTGCGGCGTTTTCCATAAAAACGCCGCAAA
66 CAAAATGAAATAGCGGCATTTTCCATAAAAACGCCGCAAA
* *
44168345 AAATAAATCAATTTA-AAAAAACAAAATAAAAAATTTTGTGCAGAGCAAAACGGCATCATTTTGT
1 AAA-AAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGT
44168409 TCAAAATGAAATA
65 TCAAAATGAAATA
44168422 ATATCAAAAA
Statistics
Matches: 162, Mismatches: 12, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
98 22 0.14
100 2 0.01
101 6 0.04
103 2 0.01
104 56 0.35
105 63 0.39
106 11 0.07
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.26
Consensus pattern (105 bp):
AAAAAATCAATTTATAAAAAACAAAATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTT
CAAAATGAAATAGCGGCATTTTCCATAAAAACGCCGCAAA
Found at i:44168502 original size:21 final size:21
Alignment explanation
Indices: 44168478--44168517 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44168468 AAAATGCCGC
*
44168478 AAAAAATA-AATAAAATTATA
1 AAAAAATAGAAAAAAATTATA
44168498 AAAAAATAGAAAAAAATTAT
1 AAAAAATAGAAAAAAATTAT
44168518 TTGCATAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (21 bp):
AAAAAATAGAAAAAAATTATA
Found at i:44172766 original size:21 final size:21
Alignment explanation
Indices: 44172736--44172805 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
44172726 CTACAACTTA
44172736 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
*
44172757 AAGTAGAGGCGGCAGCGA-GG
1 AAGCAGAGGCGGCAGCGAGGG
* * *
44172777 AAGCAGAGGCTGTAGTGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
44172798 AAGCAGAG
1 AAGCAGAG
44172806 CAAAGTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.31, C:0.14, G:0.49, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:44173725 original size:16 final size:16
Alignment explanation
Indices: 44173704--44173738 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
44173694 CTCAAAAATG
*
44173704 ATTGTTAATTAATATT
1 ATTGTTAATTAATACT
44173720 ATTGTTAATTAATACT
1 ATTGTTAATTAATACT
44173736 ATT
1 ATT
44173739 AAGTGATCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (16 bp):
ATTGTTAATTAATACT
Found at i:44177531 original size:13 final size:13
Alignment explanation
Indices: 44177515--44177580 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
44177505 TTTAAACCAA
44177515 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
44177528 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
**
44177541 ACTTTTTC-ACGGC
1 AC-TTTTCAAAAGC
*
44177554 ACTTTTTAAAAAG-
1 AC-TTTTCAAAAGC
44177567 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
44177580 A
1 A
44177581 TTGCCAAACT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
12 9 0.22
13 25 0.62
14 6 0.15
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:44180829 original size:29 final size:31
Alignment explanation
Indices: 44180790--44180863 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 31
44180780 GTTACGTGAT
*
44180790 AACATAAGTGACTAAAACGTAACAT-T-TCA
1 AACATAAGTGACTAAAACGTAACATGTGCCA
*
44180819 AACATAAGTGACTAAAATGTAACATGTGCCA
1 AACATAAGTGACTAAAACGTAACATGTGCCA
*
44180850 AACAAAAGTGACTA
1 AACATAAGTGACTA
44180864 TTTTGGTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 24 0.60
30 1 0.03
31 15 0.38
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.22
Consensus pattern (31 bp):
AACATAAGTGACTAAAACGTAACATGTGCCA
Found at i:44181294 original size:20 final size:20
Alignment explanation
Indices: 44181271--44181308 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44181261 AAAATAAGTG
44181271 TAATGGAA-TAACAATGATGA
1 TAATGGAAGTAA-AATGATGA
*
44181291 TAATGTAAGTAAAATGAT
1 TAATGGAAGTAAAATGAT
44181309 ATGAGCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (20 bp):
TAATGGAAGTAAAATGATGA
Found at i:44181857 original size:30 final size:30
Alignment explanation
Indices: 44181821--44181887 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
44181811 ATTTACGATA
* *
44181821 ATATATATATAT-ATAAAAGTATGTATGTAT
1 ATATATATATATCATAAAA-TACGTATGCAT
*
44181851 ATATATATCTATCATAAAATACGTATGCAT
1 ATATATATATATCATAAAATACGTATGCAT
*
44181881 GTATATA
1 ATATATA
44181888 AATGTATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (30 bp):
ATATATATATATCATAAAATACGTATGCAT
Found at i:44182306 original size:27 final size:27
Alignment explanation
Indices: 44182245--44182309 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
44182235 TAGGAATATA
*
44182245 ATAAATAATAATGATACAATGCTAATAG
1 ATAAAT-ATAATAATACAATGCTAATAG
* * *
44182273 -TATAATATAATAATATAATGGTAATGG
1 ATA-AATATAATAATACAATGCTAATAG
44182300 ATAAATATAA
1 ATAAATATAA
44182310 AAAAAATTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.32
Consensus pattern (27 bp):
ATAAATATAATAATACAATGCTAATAG
Found at i:44184183 original size:44 final size:45
Alignment explanation
Indices: 44184135--44184252 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 45
44184125 TTTTAATCCG
* * * *
44184135 CTCCACTACAACTTCAGGGAGATAGGA-TTAGTAGCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTCACTAGCTTCAGTCTA
* * *
44184179 CTCCACTGCGACTTCAGGGACATAAGACTCACTATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTCACTAGCTTCAGTCTA
* * *
44184224 CTCTACTGCAACCTCAGTGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
44184253 TGTTATGATA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 23 0.38
45 38 0.62
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCACTAGCTTCAGTCTA
Found at i:44184286 original size:139 final size:139
Alignment explanation
Indices: 44184143--44184394 Score: 321
Period size: 139 Copynumber: 1.8 Consensus size: 139
44184133 CGCTCCACTA
*
44184143 CAACTTCAG-GGAGATAGGATT-AGTAGCTTCAGTCTACTCCACTGCGACTTCAGGGACATAAGA
1 CAACTTCAGAGG-GATAGGATTCAGTA-CTTCAGTCTACTCCACTGCAACTTCAGGGACATAAGA
*
44184206 -CTCACTATCTTCAGTCTACTCTACTGCAACCTCAGTGAGATAAGACTTGTTATGATAAGTTTAA
64 TCT-ACTATCTTCAGTCTACTCTACTGCAACCTCAGTGACATAAGACTTGTTATGATAAGTTTAA
44184270 TCCAACCTATTG
128 TCCAACCTATTG
* * * ** * * *
44184282 CAACTTCAGAGGTATAGGATTCATTATTTTGGTCTGCTCCACTGTAACTTCAGGGACATATGATC
1 CAACTTCAGAGGGATAGGATTCAGTACTTCAGTCTACTCCACTGCAACTTCAGGGACATAAGATC
** * * *
44184347 TGTTATCTTTAGTCTATTCTACTGCAACCTTAGTGACATAAGACTTGT
66 TACTATCTTCAGTCTACTCTACTGCAACCTCAGTGACATAAGACTTGT
44184395 AGTTTCAATA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
139 88 0.93
140 7 0.07
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (139 bp):
CAACTTCAGAGGGATAGGATTCAGTACTTCAGTCTACTCCACTGCAACTTCAGGGACATAAGATC
TACTATCTTCAGTCTACTCTACTGCAACCTCAGTGACATAAGACTTGTTATGATAAGTTTAATCC
AACCTATTG
Found at i:44184610 original size:44 final size:44
Alignment explanation
Indices: 44184570--44184709 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
44184560 TACTACTTAG
*
44184570 GGAGATAAGATCTACAATCTTCGACCTACTCCGCTGCTACTCAA
1 GGAGATAAGATCTAAAATCTTCGACCTACTCCGCTGCTACTCAA
** ***** * * * * * * *
44184614 GGAGAT-AGGGCTGGTGCCTTCGATCTGCTCCACTACTGCTTAG
1 GGAGATAAGATCTAAAATCTTCGACCTACTCCGCTGCTACTCAA
* *
44184657 GGAGATAAGATCTAAAATCTTCGACCTACTCCGTTGCTGCTCAA
1 GGAGATAAGATCTAAAATCTTCGACCTACTCCGCTGCTACTCAA
44184701 GGAGATAAG
1 GGAGATAAG
44184710 GCTTGTAGCT
Statistics
Matches: 67, Mismatches: 28, Indels: 2
0.69 0.29 0.02
Matches are distributed among these distances:
43 29 0.43
44 38 0.57
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (44 bp):
GGAGATAAGATCTAAAATCTTCGACCTACTCCGCTGCTACTCAA
Found at i:44184643 original size:87 final size:87
Alignment explanation
Indices: 44184538--44184842 Score: 283
Period size: 87 Copynumber: 3.5 Consensus size: 87
44184528 GGGATAAGGT
* * * *
44184538 TGGTGCTTTCGATTTGCTCTACTACTACTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCTACTACTACTTAGGAAGATAAGATCTAAAATCTTCGACCTACTCCG
44184603 CTGCTACTCAAGGAGATAGGGC
66 CTGCTACTCAAGGAGATAGGGC
* * *
44184625 TGGTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAAAATCTTCGACCTACTCCG
1 TGGTGCCTTCGATCTGCTCTACTACTACTTAGGAAGATAAGATCTAAAATCTTCGACCTACTCCG
* * *
44184690 TTGCTGCTCAAGGAGATAAGGC
66 CTGCTACTCAAGGAGATAGGGC
* * * * * * * ** * *
44184712 TTGTAG-CTTCGATCTG-TTTCACTGCCAGTACAGGAAGACAAGATCTGTAATTTTTGACCTACT
1 TGGT-GCCTTCGATCTGCTCT-ACTACTACT-TAGGAAGATAAGATCTAAAATCTTCGACCTACT
*** * *
44184775 TTACTGCTACTCAGGGAGATAGGAC
63 CCGCTGCTACTCAAGGAGATAGGGC
* ** *
44184800 TGGTGGCTTAAATCTGCT-TCCTACTATCTTAGGAAGATAAGAT
1 TGGTGCCTTCGATCTGCTCTACTACTA-CTTAGGAAGATAAGAT
44184843 TCGCCGTCTT
Statistics
Matches: 173, Mismatches: 39, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
86 1 0.01
87 114 0.66
88 57 0.33
89 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (87 bp):
TGGTGCCTTCGATCTGCTCTACTACTACTTAGGAAGATAAGATCTAAAATCTTCGACCTACTCCG
CTGCTACTCAAGGAGATAGGGC
Found at i:44185078 original size:89 final size:89
Alignment explanation
Indices: 44184915--44185173 Score: 279
Period size: 89 Copynumber: 2.9 Consensus size: 89
44184905 TCCAATGTTG
* * * * *
44184915 CTCAGGGAGATAAGGCTTGTGTCTTCAATTTGCTTCACTGTCAGTACAGGAAGACAAGATCTGCT
1 CTCAGGGAGACAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTG-T
* *** *
44184980 T-CTTCTAGTCTGTTCTGTTGTAAA
65 TGCTTCTAGTCTGCTCCACTGCAAA
* * *
44185004 CTCAGGGAGACAAGGCTGGTGTTTTCGATCTGCTTTACTGCCGGTACAGGAAGACAAGATCTGTT
1 CTCAGGGAGACAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGTT
* *
44185069 GTTTTTAGTCTGCTCCACTGCAAA
66 GCTTCTAGTCTGCTCCACTGCAAA
* * * * * * *
44185093 CTCAGGGAGGTC-AGACTTGTGTTTTTGATCTGCTTCACTACCAGTACAAGAAGACAAAATTTGT
1 CTCAGGGA-GACAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGT
*
44185157 TGCTTCTAGTCTACTCC
65 TGCTTCTAGTCTGCTCC
44185174 TCTATAATTT
Statistics
Matches: 140, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
88 2 0.01
89 136 0.97
90 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (89 bp):
CTCAGGGAGACAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGTT
GCTTCTAGTCTGCTCCACTGCAAA
Found at i:44185559 original size:24 final size:24
Alignment explanation
Indices: 44185526--44185583 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
44185516 TGGATTGCCC
* *
44185526 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTAAAT
44185550 CCACTGTAATCTTCAAGGTTAAAT
1 CCACTGTAATCTTCAAGGTTAAAT
*
44185574 CCACGGTAAT
1 CCACTGTAAT
44185584 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTAAAT
Found at i:44186240 original size:105 final size:106
Alignment explanation
Indices: 44186051--44186372 Score: 411
Period size: 105 Copynumber: 3.0 Consensus size: 106
44186041 AAATGCTTGA
*
44186051 AAAAGATTATCA-AGATGGACAAGATGGAATTTTATTGAGA-ATAAGACTCAAAATGAATAAATT
1 AAAAGATTATCACA-ATGGACAAGATGGAATTTTATTGAGACA-AAG-CTCGAAATGAATAAATT
* * *
44186114 AATCAAGATAGAAAATTTTGCTCAGATACGAACTAAATAAGATG
63 AATCAAGATAGAAAATTTTGCTAAGATACGAAATGAATAAGATG
* * *
44186158 AAAA-A-TATCATAATGGATAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAATTAA
1 AAAAGATTATCACAATGGACAAGATGGAATTTTATTGAGA-CAAAGCTCGAAATGAATAAATTAA
* * * * *
44186221 TCAGGATAGTAAATTTTGCTAAGATCCAAAATGAATAAGATT
65 TCAAGATAGAAAATTTTGCTAAGATACGAAATGAATAAGATG
* * *
44186263 AAAAGGATTGTCACAATGGACAGGATGGAATTTTATTGAGAACAAAGCTCGAAATAAATAAA-TA
1 AAAA-GATTATCACAATGGACAAGATGGAATTTTATTGAG-ACAAAGCTCGAAATGAATAAATTA
*
44186327 ATCAAGATAGCAAATTTTGCTAAGATACGAAATGAATAAGATG
64 ATCAAGATAGAAAATTTTGCTAAGATACGAAATGAATAAGATG
44186370 AAA
1 AAA
44186373 GCAGGTGCCC
Statistics
Matches: 186, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
105 85 0.46
106 5 0.03
107 49 0.26
108 46 0.25
109 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.26
Consensus pattern (106 bp):
AAAAGATTATCACAATGGACAAGATGGAATTTTATTGAGACAAAGCTCGAAATGAATAAATTAAT
CAAGATAGAAAATTTTGCTAAGATACGAAATGAATAAGATG
Found at i:44186655 original size:11 final size:10
Alignment explanation
Indices: 44186635--44186697 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 10
44186625 TGGCCTCTCC
44186635 TTTTTC-TTT
1 TTTTTCTTTT
*
44186644 TTCTTC-TTT
1 TTTTTCTTTT
44186653 TTTTTCTTTT
1 TTTTTCTTTT
*
44186663 CTTTTCTTTT
1 TTTTTCTTTT
44186673 CTTTTTCTTTTCT
1 -TTTTTC-TTT-T
44186686 TCTTTTCTTTT
1 T-TTTTCTTTT
44186697 T
1 T
44186698 GAACATTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 13 0.29
10 12 0.27
11 7 0.16
12 7 0.16
13 6 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:44186657 original size:19 final size:20
Alignment explanation
Indices: 44186634--44186697 Score: 89
Period size: 19 Copynumber: 3.3 Consensus size: 20
44186624 TTGGCCTCTC
44186634 CTTTTTCTTTTTCTTC-TTT
1 CTTTTTCTTTTTCTTCTTTT
*
44186653 -TTTTTCTTTTCTTTTCTTTT
1 CTTTTTCTTTT-TCTTCTTTT
44186673 CTTTTTC-TTTTCTTCTTTT
1 CTTTTTCTTTTTCTTCTTTT
44186692 CTTTTT
1 CTTTTT
44186698 GAACATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 10 0.25
19 18 0.45
20 6 0.15
21 6 0.15
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTTTCTTTTTCTTCTTTT
Found at i:44186662 original size:5 final size:5
Alignment explanation
Indices: 44186636--44186696 Score: 76
Period size: 5 Copynumber: 12.8 Consensus size: 5
44186626 GGCCTCTCCT
*
44186636 TTTTC TTTT- TCTTC TTTT- TTTTC TTTTC TTTTC TTTTC TTTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC
44186685 --TTC TTTTC TTTT
1 TTTTC TTTTC TTTT
44186697 TGAACATTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
3 3 0.06
4 7 0.14
5 34 0.69
6 5 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:44186662 original size:24 final size:23
Alignment explanation
Indices: 44186636--44186697 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
44186626 GGCCTCTCCT
44186636 TTTTCTTTTTCTTCTTTTTTTTC
1 TTTTCTTTTTCTTCTTTTTTTTC
*
44186659 TTTTC-TTTTCTT-TTCTTTTTC
1 TTTTCTTTTTCTTCTTTTTTTTC
*
44186680 TTTTCTTCTT-TTCTTTTT
1 TTTTCTTTTTCTTCTTTTT
44186698 GAACATTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.44
22 14 0.41
23 5 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTCTTTTTCTTCTTTTTTTTC
Found at i:44189010 original size:12 final size:12
Alignment explanation
Indices: 44188979--44189012 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
44188969 CTTTTCTAGT
44188979 TGTTCTTGCATC
1 TGTTCTTGCATC
**
44188991 TGAGCTTGCATC
1 TGTTCTTGCATC
44189003 TGTTCTTGCA
1 TGTTCTTGCA
44189013 ATTTCTCTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.44
Consensus pattern (12 bp):
TGTTCTTGCATC
Found at i:44192817 original size:17 final size:18
Alignment explanation
Indices: 44192785--44192818 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44192775 GCTCTTGTGT
44192785 GTATTGTATTGCTTATTG
1 GTATTGTATTGCTTATTG
*
44192803 GTATT-TATTGGTTATT
1 GTATTGTATTGCTTATT
44192819 TGTAGTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.59
Consensus pattern (18 bp):
GTATTGTATTGCTTATTG
Found at i:44195392 original size:24 final size:24
Alignment explanation
Indices: 44195350--44195401 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
44195340 AATCAAAGTC
** *
44195350 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
44195374 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
44195398 AAAT
1 AAAT
44195402 CTTCTGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:44197079 original size:25 final size:22
Alignment explanation
Indices: 44197025--44197081 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
44197015 CACGATTTCA
*
44197025 TTTCCCCAATTTCCCAACTTCT
1 TTTCCCCAATTTCCCAACTTAT
*
44197047 TTTCCCCCAATTTCCCCCAAGTTAT
1 TTT-CCCCAATTT--CCCAACTTAT
44197072 TCTTCCCCAA
1 T-TTCCCCAA
44197082 AGTATTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 9 0.31
25 15 0.52
26 2 0.07
ACGTcount: A:0.19, C:0.42, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTCCCCAATTTCCCAACTTAT
Found at i:44197093 original size:14 final size:15
Alignment explanation
Indices: 44197057--44197095 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
44197047 TTTCCCCCAA
*
44197057 TTTCCCCCAAGTTAT
1 TTTCCCCAAAGTTAT
44197072 TCTTCCCCAAAG-TAT
1 T-TTCCCCAAAGTTAT
44197087 TTTCCCCAA
1 TTTCCCCAA
44197096 TTTCCCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (15 bp):
TTTCCCCAAAGTTAT
Found at i:44197359 original size:33 final size:33
Alignment explanation
Indices: 44197317--44197384 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
44197307 CATCTATGTT
*
44197317 ATTCGAGTTAAATGAGATGAGTGTTGGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
*
44197350 ATTCGAGTTAAATGAGATTAGTGTTAGGTATGA
1 ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
44197383 AT
1 AT
44197385 ATATGTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.35
Consensus pattern (33 bp):
ATTCGAGTTAAATGAGATGAGTGTTAGGTATGA
Found at i:44197647 original size:17 final size:17
Alignment explanation
Indices: 44197625--44197658 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44197615 ATCCCAGGAA
44197625 CTTGCAGCCTCTACTTC
1 CTTGCAGCCTCTACTTC
*
44197642 CTTGCAGCCTTTACTTC
1 CTTGCAGCCTCTACTTC
44197659 ATTGTGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (17 bp):
CTTGCAGCCTCTACTTC
Found at i:44199155 original size:24 final size:24
Alignment explanation
Indices: 44199128--44199184 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
44199118 ATACTATTTG
44199128 TATTATATTTGTAACTAAAATTAA
1 TATTATATTTGTAACTAAAATTAA
*
44199152 TATTATATTTGTATCTAAAATTAA
1 TATTATATTTGTAACTAAAATTAA
44199176 TATTATATT
1 TATTATATT
44199185 ATAAAATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
TATTATATTTGTAACTAAAATTAA
Found at i:44199336 original size:22 final size:22
Alignment explanation
Indices: 44199291--44199336 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
44199281 AACTTAATTA
*
44199291 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAACTGAC
44199313 ATTAATATTATACATAGA-TGAC
1 ATTAATATTATACATA-ACTGAC
44199335 AT
1 AT
44199337 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATATTATACATAACTGAC
Found at i:44199337 original size:31 final size:31
Alignment explanation
Indices: 44199271--44199459 Score: 158
Period size: 31 Copynumber: 6.1 Consensus size: 31
44199261 TCTCTTATTG
*
44199271 TAAATGACATAACTT-AATT-A-ATTA-ATA
1 TAAATGACATAACTTAAATTAATATTATACA
* *
44199298 T-TAT-ACATAACTTACATTAATATTATACA
1 TAAATGACATAACTTAAATTAATATTATACA
*
44199327 TAGATGACATAACTTAATTAATTAATATTATACA
1 TAAATGACATAACTT-A--AATTAATATTATACA
* * * * *
44199361 TAACTTACATAAATT-AATTAGTTAATATACA
1 TAAATGACATAACTTAAATTA-ATATTATACA
* * *
44199392 TAAATTACATAACTTACATTAATATGATACA
1 TAAATGACATAACTTAAATTAATATTATACA
44199423 TAAATGACATAACTTAGTTAATTAATATTATACA
1 TAAATGACATAACTTA---AATTAATATTATACA
44199457 TAA
1 TAA
44199460 CTTACAACTT
Statistics
Matches: 128, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
25 9 0.07
26 5 0.04
27 2 0.02
28 4 0.03
29 3 0.02
30 7 0.05
31 52 0.41
32 5 0.04
34 41 0.32
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (31 bp):
TAAATGACATAACTTAAATTAATATTATACA
Found at i:44199356 original size:34 final size:34
Alignment explanation
Indices: 44199313--44199459 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 34
44199303 CATAACTTAC
*
44199313 ATTAATATTATACATAGATGACATAACTTAATTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
* * *
44199347 ATTAATATTATACATAACTTACATAAATTAATTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
* * *
44199381 GTT-A-A-TATACATAAATTACATAACTT-A--C
1 ATTAATATTATACATAAATGACATAACTTAATTA
* *
44199409 ATTAATATGATACATAAATGACATAACTTAGTTA
1 ATTAATATTATACATAAATGACATAACTTAATTA
44199443 ATTAATATTATACATAA
1 ATTAATATTATACATAA
44199460 CTTACAACTT
Statistics
Matches: 93, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.02
29 1 0.01
30 2 0.02
31 38 0.41
32 1 0.01
33 1 0.01
34 48 0.52
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (34 bp):
ATTAATATTATACATAAATGACATAACTTAATTA
Found at i:44199371 original size:9 final size:9
Alignment explanation
Indices: 44199357--44199567 Score: 51
Period size: 9 Copynumber: 24.7 Consensus size: 9
44199347 ATTAATATTA
44199357 TACATAACT
1 TACATAACT
*
44199366 TACATAAAT
1 TACATAACT
* *
44199375 TA-ATTAGT
1 TACATAACT
44199383 TA-AT-A-T
1 TACATAACT
*
44199389 -ACATAAAT
1 TACATAACT
44199397 TACATAACT
1 TACATAACT
*
44199406 TACATTAATAT
1 TACA-TAA-CT
*
44199417 GATACATAAAT
1 --TACATAACT
*
44199428 GACATAACT
1 TACATAACT
**
44199437 TAGTTAA-T
1 TACATAACT
*
44199445 TA-AT-ATT
1 TACATAACT
44199452 ATACATAACT
1 -TACATAACT
44199462 TAC--AACT
1 TACATAACT
44199469 TACATAACT
1 TACATAACT
**
44199478 TACATATTTT
1 TACATA-ACT
*
44199488 TA-ATTA-T
1 TACATAACT
* *
44199495 T-CGTAAAT
1 TACATAACT
44199503 TACATAACT
1 TACATAACT
* *
44199512 TACTTAATT
1 TACATAACT
*
44199521 TTCATAA--
1 TACATAACT
*
44199528 TAAATAACT
1 TACATAACT
*
44199537 TACATAAAT
1 TACATAACT
* *
44199546 AAC-T-TCT
1 TACATAACT
44199553 TACATAACT
1 TACATAACT
44199562 TACATA
1 TACATA
44199568 GCATAATTTT
Statistics
Matches: 147, Mismatches: 33, Indels: 44
0.66 0.15 0.20
Matches are distributed among these distances:
5 1 0.01
6 4 0.03
7 23 0.16
8 18 0.12
9 83 0.56
10 8 0.05
11 3 0.02
12 3 0.02
13 4 0.03
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:44199540 original size:34 final size:34
Alignment explanation
Indices: 44199465--44199543 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
44199455 CATAACTTAC
* * ***
44199465 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* * *
44199499 AAATTACATAACTTACTTAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
44199533 AACTTACATAA
1 AACTTACATAA
44199544 ATAACTTCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.01, T:0.42
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:44199545 original size:13 final size:13
Alignment explanation
Indices: 44199527--44199567 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
44199517 AATTTTCATA
44199527 ATAAATAACTTAC
1 ATAAATAACTTAC
44199540 ATAAATAACTT-C
1 ATAAATAACTTAC
* *
44199552 TTACATAACTTAC
1 ATAAATAACTTAC
44199565 ATA
1 ATA
44199568 GCATAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAATAACTTAC
Found at i:44199598 original size:25 final size:25
Alignment explanation
Indices: 44199569--44199624 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
44199559 ACTTACATAG
* *
44199569 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
44199594 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
44199619 CATAAT
1 CATAAT
44199625 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:44199624 original size:16 final size:16
Alignment explanation
Indices: 44199605--44199638 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
44199595 ATAATTTGGG
44199605 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
44199621 TAATACATAACTTACA
1 TAATAAATAACTTACA
44199637 TA
1 TA
44199639 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:44199635 original size:80 final size:85
Alignment explanation
Indices: 44199465--44199643 Score: 201
Period size: 80 Copynumber: 2.2 Consensus size: 85
44199455 CATAACTTAC
*** * * * *
44199465 AACTTACATAACTTACATATTTTTAATTATTCGTAAATTACATAACTTACTTAATTTTCATAATA
1 AACTTACATAACTTACATATGCATAATTATTCATAAATTACACAACTTACATAATTTGCATAATA
44199530 AATAACTTACATAAATAACT
66 AATAACTTACATAAATAACT
* **
44199550 -TCTTACATAACTTACATA-GCATAATT-TTCAT-AA-TACACAACTTACATAATTTGGGTAATA
1 AACTTACATAACTTACATATGCATAATTATTCATAAATTACACAACTTACATAATTTGCATAATA
44199610 AATAACTTACAT-AAT-ACAT
66 AATAACTTACATAAATAAC-T
*
44199629 AACTTACATAGCTTA
1 AACTTACATAACTTA
44199644 ACTATACTTA
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
78 2 0.03
79 4 0.05
80 46 0.57
81 2 0.03
82 4 0.05
83 5 0.06
84 17 0.21
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (85 bp):
AACTTACATAACTTACATATGCATAATTATTCATAAATTACACAACTTACATAATTTGCATAATA
AATAACTTACATAAATAACT
Found at i:44205138 original size:66 final size:65
Alignment explanation
Indices: 44205044--44205214 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
44205034 GAGCAAATTA
* * * * *
44205044 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
44205108 G
65 G
*
44205109 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
44205174 G
65 G
* * * *
44205175 CAGCAGCTTAGAGCAGATGCAGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
44205215 CGGCAGCGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.94
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:44205212 original size:21 final size:21
Alignment explanation
Indices: 44205186--44205301 Score: 76
Period size: 21 Copynumber: 5.6 Consensus size: 21
44205176 AGCAGCTTAG
*
44205186 AGCAGATGCAGCAGCAAGAGA
1 AGCAGAGGCAGCAGCAAGAGA
* *
44205207 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCAGCAGCAAGAGA
* * *
44205228 AGAACAGGCTA-CAGCAAGGGA
1 AGCAGAGGC-AGCAGCAAGAGA
* * *
44205249 AGCAGAGGCTA-AAGCGAGGGA
1 AGCAGAGGC-AGCAGCAAGAGA
* * * *
44205270 AGGAGAGGCTGCAGCGAGGGA
1 AGCAGAGGCAGCAGCAAGAGA
44205291 AGCAGA-GCAGC
1 AGCAGAGGCAGC
44205302 GTCAAAAGTT
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
20 4 0.05
21 72 0.95
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.03
Consensus pattern (21 bp):
AGCAGAGGCAGCAGCAAGAGA
Found at i:44205265 original size:42 final size:42
Alignment explanation
Indices: 44205197--44205297 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
44205187 GCAGATGCAG
* **
44205197 CAGCAAGAGAAGCAGAGGCGGCAGCGAGAGAAGAACAGGCTA
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAACAGGCTA
* * * * *
44205239 CAGCAAGGGAAGCAGAGGCTAAAGCGAGGGAAGGAGAGGCTG
1 CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAACAGGCTA
*
44205281 CAGCGAGGGAAGCAGAG
1 CAGCAAGGGAAGCAGAG
44205298 CAGCGTCAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.38, C:0.17, G:0.43, T:0.03
Consensus pattern (42 bp):
CAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAACAGGCTA
Found at i:44205779 original size:43 final size:43
Alignment explanation
Indices: 44205606--44205764 Score: 180
Period size: 43 Copynumber: 3.6 Consensus size: 43
44205596 GTCAAATTTA
* *
44205606 GCGGCGTTTTTGGTAAAAGCGCCGCTATATAGA-CAAAGGGTAT-TT
1 GCGGCGTTTTTGGGAAAAGCGCCGC--TATAGATC--AGGGTCTATT
*
44205651 AGCGGCGTTTTCT-GGATAAGCGCCGCTATAGATCAGGGTCTATT
1 -GCGGCGTTTT-TGGGAAAAGCGCCGCTATAGATCAGGGTCTATT
* * **
44205695 GCGGCGCTTGTGGGAAAAATGCCGCTATAGATCAGGGTCTATT
1 GCGGCGTTTTTGGGAAAAGCGCCGCTATAGATCAGGGTCTATT
44205738 GCGGCGTTTTTGGGAAAAGCGCCGCTA
1 GCGGCGTTTTTGGGAAAAGCGCCGCTA
44205765 AAGGCCATGA
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.01
43 65 0.67
44 8 0.08
45 1 0.01
46 21 0.22
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTTTGGGAAAAGCGCCGCTATAGATCAGGGTCTATT
Found at i:44205785 original size:43 final size:43
Alignment explanation
Indices: 44205604--44205786 Score: 161
Period size: 43 Copynumber: 4.2 Consensus size: 43
44205594 CTGTCAAATT
* * * *
44205604 TAGCGGCGTTTTTGGTAAAAGCGCCGCTATATAGACAAAGGGTATT
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTA-A-AGAC-CAGGGTCTA
* * *
44205650 TAGCGGCGTTTTCT-GGATAAGCGCCGCTATAGATCAGGGTCTA
1 TAGCGGCGTTTT-TGGGAAAAGCGCCGCTAAAGACCAGGGTCTA
* * * ** * *
44205693 TTGCGGCGCTTGTGGGAAAAATGCCGCTATAGATCAGGGTCTA
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGACCAGGGTCTA
* * * *
44205736 TTGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGCCATGATCTA
1 TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGACCAGGGTCTA
44205779 TAGCGGCG
1 TAGCGGCG
44205787 CTTATATAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.01
43 82 0.73
44 3 0.03
46 25 0.22
47 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGACCAGGGTCTA
Found at i:44205805 original size:43 final size:43
Alignment explanation
Indices: 44205752--44205896 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 43
44205742 CGTTTTTGGG
* *
44205752 AAAAGCGCCGCTAAAGGCCATGATCTATAGCGGCGCTTATATA
1 AAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTATATA
* *
44205795 AAAAAAGCCGCTAAAGACCCTGATCTATAGCGGCGCTT-TCA-A
1 AAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTAT-ATA
* *
44205837 CAAAAACGCCGCTAAAGACACCA--ATCTATAGCGGCGGTTATATT
1 -AAAAACGCCGCTAAAG--ACCATGATCTATAGCGGCGCTTATATA
44205881 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
44205897 CTCTTAGTCT
Statistics
Matches: 88, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
42 2 0.02
43 82 0.93
44 1 0.01
45 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.19
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTATATA
Done.