Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 70 of 145
Found at i:23266694 original size:24 final size:22
Alignment explanation
Indices: 23266667--23266718 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
23266657 TTTGCTTTAG
*
23266667 TTATTTTTACTTTTGGTTGTACTT
1 TTATTTTTACTTTTAGTTGT--TT
*
23266691 TTATTTTTATTTTTAGTTGTTT
1 TTATTTTTACTTTTAGTTGTTT
23266713 TTATTT
1 TTATTT
23266719 ATATTTGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 8 0.31
24 18 0.69
ACGTcount: A:0.13, C:0.04, G:0.10, T:0.73
Consensus pattern (22 bp):
TTATTTTTACTTTTAGTTGTTT
Found at i:23266855 original size:22 final size:22
Alignment explanation
Indices: 23266814--23266855 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23266804 TTGTAATCTC
*
23266814 TTTATCTTCTTTTTTATTTTTG
1 TTTATCTTCTTTATTATTTTTG
*
23266836 TTTATCTTC-TTATTAGTTTT
1 TTTATCTTCTTTATTATTTTT
23266856 CTTGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTATCTTCTTTATTATTTTTG
Found at i:23272237 original size:47 final size:48
Alignment explanation
Indices: 23272172--23272265 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 48
23272162 TCGCATATCA
* * * *
23272172 CACACCGTAGCCATATCCCGGCTATGGTTTTACACGGAAA-CACATAT
1 CACACCGTAGCCATATCCCAGATATGGTCTTACAAGGAAATCACATAT
23272219 CACACCG-ATGCCATATCCCAGATATGGTCTTACAAGGAAATCACATA
1 CACACCGTA-GCCATATCCCAGATATGGTCTTACAAGGAAATCACATA
23272266 ATCATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
46 1 0.02
47 34 0.83
48 6 0.15
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (48 bp):
CACACCGTAGCCATATCCCAGATATGGTCTTACAAGGAAATCACATAT
Found at i:23278089 original size:10 final size:10
Alignment explanation
Indices: 23278063--23278103 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
23278053 GATCAAGTAA
23278063 AATT-AAATT
1 AATTAAAATT
23278072 AA-TAAAATT
1 AATTAAAATT
23278081 AATTAAAATT
1 AATTAAAATT
23278091 AATTAAAATT
1 AATTAAAATT
23278101 AAT
1 AAT
23278104 GATATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 1 0.03
9 9 0.30
10 20 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATTAAAATT
Found at i:23292237 original size:5 final size:5
Alignment explanation
Indices: 23292227--23292257 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
23292217 CTTAAGTAAG
23292227 TATTT TATTT TATTT TATTT TATTCT TATTT
1 TATTT TATTT TATTT TATTT TATT-T TATTT
23292258 ATTCTAATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:23292258 original size:10 final size:11
Alignment explanation
Indices: 23292227--23292262 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
23292217 CTTAAGTAAG
23292227 TATT-TTATTT
1 TATTCTTATTT
23292237 TATT-TTATTT
1 TATTCTTATTT
23292247 TATTCTTA-TT
1 TATTCTTATTT
23292257 TATTCT
1 TATTCT
23292263 AATCCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (11 bp):
TATTCTTATTT
Found at i:23293405 original size:20 final size:20
Alignment explanation
Indices: 23293380--23293418 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23293370 AACATTCAAA
23293380 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
23293400 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
23293419 ACCATATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:23296148 original size:25 final size:25
Alignment explanation
Indices: 23296100--23296149 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23296090 TACATTAAAG
* **
23296100 TCCATAATTCAACCATTTTGTATAC
1 TCCATAATTCAACCAGTTCATATAC
23296125 TCCATAATTCAACCAGTTCATATAC
1 TCCATAATTCAACCAGTTCATATAC
23296150 GTTTGCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (25 bp):
TCCATAATTCAACCAGTTCATATAC
Found at i:23296541 original size:26 final size:26
Alignment explanation
Indices: 23296505--23296558 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
23296495 TGTTGAATTG
23296505 ATAGTTAATTAAGGTACATAGACCAA
1 ATAGTTAATTAAGGTACATAGACCAA
23296531 ATAGTTAATTAAGGTACATAGACCAA
1 ATAGTTAATTAAGGTACATAGACCAA
23296557 AT
1 AT
23296559 TGTAAAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (26 bp):
ATAGTTAATTAAGGTACATAGACCAA
Found at i:23296950 original size:98 final size:99
Alignment explanation
Indices: 23296828--23297024 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 99
23296818 TAAGCCATTT
23296828 CAAAAGTTTCAAAGCTTTCGGCCATTGTTTAGGTATTTCAATTAAGTCATTTTCTTGTAATTTTT
1 CAAAAGTTTCAAAGCTTTCGGCCATTGTTTAGGTATTTCAATTAAGTCATTTTCTTGTAATTTTT
23296893 ATATTTTTGAGGTCATGGGAGC-TGATTTAGCTA
66 ATATTTTTGAGGTCATGGGAGCTTGATTTAGCTA
23296926 CAAAAGTTTCAAAGCTTTCGGCCATTGTTTAGGTATTTCAATTAAGTCATTTTCTTGTAATTTTT
1 CAAAAGTTTCAAAGCTTTCGGCCATTGTTTAGGTATTTCAATTAAGTCATTTTCTTGTAATTTTT
23296991 ATATTTTTGAGGTCATGGGAGCTTGATTTAGCTA
66 ATATTTTTGAGGTCATGGGAGCTTGATTTAGCTA
23297025 GCACATGTAT
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 87 0.89
99 11 0.11
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.44
Consensus pattern (99 bp):
CAAAAGTTTCAAAGCTTTCGGCCATTGTTTAGGTATTTCAATTAAGTCATTTTCTTGTAATTTTT
ATATTTTTGAGGTCATGGGAGCTTGATTTAGCTA
Found at i:23300108 original size:45 final size:44
Alignment explanation
Indices: 23300049--23300223 Score: 177
Period size: 45 Copynumber: 4.0 Consensus size: 44
23300039 TTTGGTTCGC
*
23300049 TGTATTGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAATTGTTTGGTTGAA
* * *
23300094 TGTAATGGAGTAGAGGCGTAATAG---TC--TT-CTT-GTTAGAGG
1 TGTAATGGAATAGAGGCGTAATAGAAATCAATTGTTTGGTT-GA-A
* *
23300133 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAATTGTTTGGTTGAA
* *
23300178 TGTAATGGAATAGAGGCGTAATAGTAAT-ATTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAAT-TGTTTGGTTGAA
23300222 TG
1 TG
23300224 GAATAGAAGT
Statistics
Matches: 106, Mismatches: 13, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
37 3 0.03
38 4 0.04
39 24 0.23
41 2 0.02
43 3 0.03
44 17 0.16
45 46 0.43
46 4 0.04
47 3 0.03
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAATTGTTTGGTTGAA
Found at i:23300195 original size:84 final size:84
Alignment explanation
Indices: 23300049--23300202 Score: 272
Period size: 84 Copynumber: 1.8 Consensus size: 84
23300039 TTTGGTTCGC
* * *
23300049 TGTATTGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGTAATGGAGTAGAGGCGTA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTA
23300114 ATAGTCTTCTTGTTAGAGG
66 ATAGTCTTCTTGTTAGAGG
*
23300133 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTA
23300198 ATAGT
66 ATAGT
23300203 AATATTGTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (84 bp):
TGTAATGGAATAGAGGCGTAATAGCAAATCAACTGTTTGGTTGAATGTAATGGAATAGAGGCGTA
ATAGTCTTCTTGTTAGAGG
Found at i:23300408 original size:18 final size:17
Alignment explanation
Indices: 23300387--23300421 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23300377 TTATTATTAA
*
23300387 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23300405 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23300422 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23302896 original size:28 final size:28
Alignment explanation
Indices: 23302860--23302916 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23302850 GAAAATAAAC
*
23302860 AAAGGAACAGAGGGAGCAAATCGGCAGA
1 AAAGAAACAGAGGGAGCAAATCGGCAGA
23302888 AAAGAAACAGAGGGAGCAAATCGGCAGA
1 AAAGAAACAGAGGGAGCAAATCGGCAGA
23302916 A
1 A
23302917 GCTAGAAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.49, C:0.14, G:0.33, T:0.04
Consensus pattern (28 bp):
AAAGAAACAGAGGGAGCAAATCGGCAGA
Found at i:23314862 original size:25 final size:25
Alignment explanation
Indices: 23314827--23314893 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
23314817 TCTCGAGCCA
* **
23314827 TATAACAGGAAGCTCATGTAAGCTG
1 TATAACGGGAAGCTCATCCAAGCTG
* ** *
23314852 TATAACGGGAAGCTTATCCGGGTTG
1 TATAACGGGAAGCTCATCCAAGCTG
23314877 TATAACGGGAAGCTCAT
1 TATAACGGGAAGCTCAT
23314894 AAGAGCCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (25 bp):
TATAACGGGAAGCTCATCCAAGCTG
Found at i:23315089 original size:26 final size:26
Alignment explanation
Indices: 23314965--23315090 Score: 93
Period size: 26 Copynumber: 5.0 Consensus size: 26
23314955 CAAGAAGTTC
* *
23314965 CGAATAGCCATATATCGGGAAGTTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
* *
23314991 AG-CGAGCC--ATATCGGGAAGCTC-
1 CGAAGAGCCATATATCGGGAAGCTCA
* **
23315013 CGGAGAGCCAT-TAATTAGGAAGCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
* * *
23315039 CAAAGAGCC-TTTAATCAGGAAGCTCA
1 CGAAGAGCCATAT-ATCGGGAAGCTCA
*
23315065 CGAAGAGCCATATATCGGGACGCTCA
1 CGAAGAGCCATATATCGGGAAGCTCA
23315091 TAAGAGTTGC
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
22 1 0.01
23 18 0.23
24 1 0.01
25 15 0.19
26 41 0.53
27 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CGAAGAGCCATATATCGGGAAGCTCA
Found at i:23315552 original size:16 final size:15
Alignment explanation
Indices: 23315531--23315564 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
23315521 AAATTTAACA
*
23315531 TCAATTCATGTTCATT
1 TCAATTCA-GTTCAGT
23315547 TCAATTCAGTTCAGT
1 TCAATTCAGTTCAGT
23315562 TCA
1 TCA
23315565 CCTCTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (15 bp):
TCAATTCAGTTCAGT
Found at i:23318544 original size:24 final size:24
Alignment explanation
Indices: 23318512--23318559 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
23318502 AGAAGGGAGA
23318512 TAGTCTAGCCCAGGGGTACACGTC
1 TAGTCTAGCCCAGGGGTACACGTC
23318536 TAGTCTAGCCCAGGGGTACACGTC
1 TAGTCTAGCCCAGGGGTACACGTC
23318560 AGAATTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (24 bp):
TAGTCTAGCCCAGGGGTACACGTC
Found at i:23328825 original size:24 final size:24
Alignment explanation
Indices: 23328798--23328854 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
23328788 GTCCCAAAGG
* *
23328798 TTACAGTGGATTGAACTTTGAGGA
1 TTACAGTGGATTGAACCTTGAAGA
*
23328822 TTACAGTAGATTGAACCTTGAAGA
1 TTACAGTGGATTGAACCTTGAAGA
23328846 TTACAGTGG
1 TTACAGTGG
23328855 GGGCAATCCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (24 bp):
TTACAGTGGATTGAACCTTGAAGA
Found at i:23329275 original size:43 final size:41
Alignment explanation
Indices: 23329214--23329474 Score: 157
Period size: 44 Copynumber: 6.1 Consensus size: 41
23329204 ACCCCAATCC
* *
23329214 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTACAGACT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAAC--CAGACT
* * ** *
23329257 TATCTCTCTAAAGTTGCAGTAGAGCAGATCGCAACCAGTCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCAGACT
* * *
23329298 TATCTCCCTAAAGTTGTAGTGGAGCAGACACAAGAAACCA-ATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGA-TC-A-AAACCAGA-CT
* * * * * * *
23329342 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAGAACCGCAAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCA-AAAC-CAGA-CT
* * *
23329386 TATCTCCCTAAAGTTGCAGTGAAGCGGATCAAAATCATGGATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCA--GA-CT
* * * * * * *
23329430 CATCTCTCTGAAGTTGCAGTAGAGTAGATC-ACATCAGACT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCAGACT
23329470 TATCT
1 TATCT
23329475 TTAAAATTGC
Statistics
Matches: 171, Mismatches: 39, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
40 6 0.04
41 32 0.19
42 8 0.05
43 38 0.22
44 87 0.51
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGATCAAAACCAGACT
Found at i:23332964 original size:27 final size:27
Alignment explanation
Indices: 23332905--23332964 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
23332895 TTTATGACAG
**
23332905 TTTTTGAATTTTTTATAATTATTTTTA
1 TTTTTGAATTTTTTATAATTATTTAAA
23332932 TTTTTGAATGTTTTTATAA-T-TTTAAA
1 TTTTTGAAT-TTTTTATAATTATTTAAA
23332958 TTGTTTG
1 TT-TTTG
23332965 TTGACATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 14 0.48
28 9 0.31
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (27 bp):
TTTTTGAATTTTTTATAATTATTTAAA
Found at i:23337536 original size:28 final size:28
Alignment explanation
Indices: 23337505--23337564 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
23337495 AAAAATCGTT
*
23337505 TTTTTCAA-AATTTATCGAAATGGGTCGA
1 TTTTTCAATAATTTATCGAAAT-GGTCCA
* * *
23337533 TTTTTTAATTATTTATCGATATGGTCCA
1 TTTTTCAATAATTTATCGAAATGGTCCA
23337561 TTTT
1 TTTT
23337565 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (28 bp):
TTTTTCAATAATTTATCGAAATGGTCCA
Found at i:23337536 original size:29 final size:28
Alignment explanation
Indices: 23337504--23337564 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
23337494 TAAAAATCGT
*
23337504 TTTTTTCAA-AATTTATCGAAATGGGTCGA
1 TTTTTT-AATAATTTATCGAAAT-GGTCCA
* *
23337533 TTTTTTAATTATTTATCGATATGGTCCA
1 TTTTTTAATAATTTATCGAAATGGTCCA
23337561 TTTT
1 TTTT
23337565 CCGGGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTTTAATAATTTATCGAAATGGTCCA
Found at i:23337837 original size:51 final size:51
Alignment explanation
Indices: 23337761--23337884 Score: 196
Period size: 51 Copynumber: 2.4 Consensus size: 51
23337751 TCTCTAATCC
*
23337761 TATCAATTTCCTTCTAAATTTCCTTCCAAAATTCTCTCAAA-CCTATATTTAA
1 TATCAATTTCC-TCTCAATTTCCTTCCAAAATTCTCTCAAATCC-ATATTTAA
*
23337813 TTTCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAA
1 TATCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAA
*
23337864 TATCAATTTCCCCTCAATTTC
1 TATCAATTTCCTCTCAATTTC
23337885 ATTTTTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 55 0.82
52 12 0.18
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (51 bp):
TATCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAA
Found at i:23337920 original size:31 final size:31
Alignment explanation
Indices: 23337885--23337951 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
23337875 CCTCAATTTC
**
23337885 ATTTTTT-AAAATACTTTTAAATTTTTTTTAT
1 ATTTTTTAAAAATAAATTTAAA-TTTTTTTAT
23337916 ATTTTTTAAAAATAAATTTAAATTTTTTTAT
1 ATTTTTTAAAAATAAATTTAAATTTTTTTAT
23337947 ATTTT
1 ATTTT
23337952 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAAATTTAAATTTTTTTAT
Found at i:23339830 original size:71 final size:71
Alignment explanation
Indices: 23339712--23339864 Score: 279
Period size: 71 Copynumber: 2.2 Consensus size: 71
23339702 TATTTAAATT
* *
23339712 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATATAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAAATTTTTTCGAGTTA
23339777 TTTTGA
66 TTTTGA
*
23339783 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAAATTTTTTCGAGTTA
23339848 TTTTGA
66 TTTTGA
23339854 TATTATTTGAT
1 TATTATTTGAT
23339865 NNNNNNNNNN
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 79 1.00
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.47
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:23344204 original size:40 final size:40
Alignment explanation
Indices: 23344160--23344254 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 40
23344150 GCGCTCTCAA
**
23344160 GGACGCGATTTCCTTCCACGT-CAG-CAGGTCGCGCTGACGT
1 GGACGCGATTTCCTGACACGTCCAGACA--TCGCGCTGACGT
* *
23344200 GGACGCGATGTCCTGACACGTACCCTGACATCGCGCTGACGT
1 GGACGCGATTTCCTGACACGT--CCAGACATCGCGCTGACGT
23344242 GGACGCGATTTCC
1 GGACGCGATTTCC
23344255 CAGAAAATGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
40 18 0.39
42 24 0.52
43 2 0.04
44 2 0.04
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.21
Consensus pattern (40 bp):
GGACGCGATTTCCTGACACGTCCAGACATCGCGCTGACGT
Found at i:23348459 original size:51 final size:51
Alignment explanation
Indices: 23348383--23348485 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
23348373 ATTTTTCTTG
23348383 AAATTTTACCAGGGGCAAAACTGTCAAAATTTTACCAGAGGCAAAATTGTCA
1 AAATTTTACCAGGGGCAAAACTGTCAAAATTTTA-CAGAGGCAAAATTGTCA
* * * *
23348435 AAATTTTA-CAGGGGTAAAATTGTCAAAATTTTACAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGCAAAACTGTCAAAATTTTACAGAGGCAAAATTGTCA
23348485 A
1 A
23348486 TTTTTTGGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
50 16 0.34
51 23 0.49
52 8 0.17
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (51 bp):
AAATTTTACCAGGGGCAAAACTGTCAAAATTTTACAGAGGCAAAATTGTCA
Found at i:23348491 original size:25 final size:26
Alignment explanation
Indices: 23348383--23348485 Score: 156
Period size: 25 Copynumber: 4.0 Consensus size: 26
23348373 ATTTTTCTTG
*
23348383 AAATTTTACCAGGGGCAAAACTGTCA
1 AAATTTTACCAGGGGCAAAATTGTCA
*
23348409 AAATTTTACCAGAGGCAAAATTGTCA
1 AAATTTTACCAGGGGCAAAATTGTCA
*
23348435 AAATTTTA-CAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGCAAAATTGTCA
*
23348460 AAATTTTA-CAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGCAAAATTGTCA
23348485 A
1 A
23348486 TTTTTTGGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 41 0.56
26 32 0.44
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (26 bp):
AAATTTTACCAGGGGCAAAATTGTCA
Found at i:23354485 original size:30 final size:30
Alignment explanation
Indices: 23354451--23354517 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
23354441 ATTAGTAAAG
* *
23354451 ATAAAATTGTACTTTGAGCCCCTAAAAATT
1 ATAAAATTGTAATTTAAGCCCCTAAAAATT
* * **
23354481 ATAAAATTTTAATTTAATCCTTTAAAAATT
1 ATAAAATTGTAATTTAAGCCCCTAAAAATT
23354511 ATAAAAT
1 ATAAAAT
23354518 AGAGGCTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.39
Consensus pattern (30 bp):
ATAAAATTGTAATTTAAGCCCCTAAAAATT
Found at i:23359181 original size:166 final size:167
Alignment explanation
Indices: 23358981--23359318 Score: 660
Period size: 166 Copynumber: 2.0 Consensus size: 167
23358971 AATTTGTGAC
23358981 TTTGACAAACTTTACAATCCCCTTCTGCCTTCATCCACATCATTCTTCATCATTTCGTATTAGAT
1 TTTGACAAACTTTACAATCCCCTTCTGCCTTCATCCACATCATTCTTCATCATTTCGTATTAGAT
23359046 TTGGGCATTTTGGGTGTTCATGGTTGATTCCTAAACTGATTTCCATTGCAAAACAGCCTATAAGC
66 TTGGGCATTTTGGGTGTTCATGGTTGATTCCTAAACTGATTTCCATTGCAAAACAGCCTATAAGC
23359111 AGTTTTTACCCAGAATGTTTTTC-AAAAAAAAATATT
131 AGTTTTTACCCAGAATGTTTTTCAAAAAAAAAATATT
*
23359147 TTTGACAAACTTTACGATCCCCTTCTGCCTTCATCCACATCATTCTTCATCATTTCGTATTAGAT
1 TTTGACAAACTTTACAATCCCCTTCTGCCTTCATCCACATCATTCTTCATCATTTCGTATTAGAT
23359212 TTGGGCATTTTGGGTGTTCATGGTTGATTCCTAAACTGATTTCCATTGCAAAACAGCCTATAAGC
66 TTGGGCATTTTGGGTGTTCATGGTTGATTCCTAAACTGATTTCCATTGCAAAACAGCCTATAAGC
23359277 AGTTTTTACCCAGAATGTTTTTCAAAAAAAAAATATT
131 AGTTTTTACCCAGAATGTTTTTCAAAAAAAAAATATT
23359314 TTTGA
1 TTTGA
23359319 GTGGGTAAAT
Statistics
Matches: 170, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 152 0.89
167 18 0.11
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (167 bp):
TTTGACAAACTTTACAATCCCCTTCTGCCTTCATCCACATCATTCTTCATCATTTCGTATTAGAT
TTGGGCATTTTGGGTGTTCATGGTTGATTCCTAAACTGATTTCCATTGCAAAACAGCCTATAAGC
AGTTTTTACCCAGAATGTTTTTCAAAAAAAAAATATT
Found at i:23361815 original size:30 final size:30
Alignment explanation
Indices: 23361780--23361849 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
23361770 ACGATCGAAA
**
23361780 AAAATCAAGATTCACTTTTTTGTTTTCAAG
1 AAAATCAAGATTCACTTTCGTGTTTTCAAG
23361810 AAAATCAAGATTCACTTTCGTGTTTTCAAG
1 AAAATCAAGATTCACTTTCGTGTTTTCAAG
*
23361840 GAAATCAAGA
1 AAAATCAAGA
23361850 AATCGAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (30 bp):
AAAATCAAGATTCACTTTCGTGTTTTCAAG
Found at i:23368876 original size:29 final size:29
Alignment explanation
Indices: 23368834--23368892 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
23368824 TCACAGTCCC
23368834 TATGGGTACGATAACTCGACATTTACTAG
1 TATGGGTACGATAACTCGACATTTACTAG
* *
23368863 TATGGGTATGATAACTTGACATTTACTAG
1 TATGGGTACGATAACTCGACATTTACTAG
23368892 T
1 T
23368893 CACTTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (29 bp):
TATGGGTACGATAACTCGACATTTACTAG
Found at i:23378955 original size:27 final size:29
Alignment explanation
Indices: 23378910--23378979 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 29
23378900 CACAAATTTG
23378910 AAATTTAGTCCATGCAC-TTT-AATTTTA
1 AAATTTAGTCCATGCACTTTTAAATTTTA
* * **
23378937 GAATTTAGTCCCTTTACTTTTTAAATTTTA
1 AAATTTAGTCCATGCAC-TTTTAAATTTTA
23378967 AAATTTAGGTCCA
1 AAATTTA-GTCCA
23378980 ACTATTAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 13 0.39
29 3 0.09
30 13 0.39
31 4 0.12
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (29 bp):
AAATTTAGTCCATGCACTTTTAAATTTTA
Found at i:23379210 original size:106 final size:107
Alignment explanation
Indices: 23379078--23379290 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 107
23379068 AATAATGTTA
23379078 ACAATATTAACAATTGGACTTTTTGTAATTTTCTAATTGTTCCAAAATCTTATAAGTTGAATTAA
1 ACAATATTAACAATTGGACTTTTTGTAATTTTCTAATTGTTCCAAAATCTTATAAGTTGAATTAA
23379143 TCAAATTCAATTTTTCTCGTTCTATCTCAGA-TATCCATTCG
66 TCAAATTCAATTTTTCTCGTTCTATCTCAGAGTATCCATTCG
23379184 ACAATATTAACAATTGGACTTTTTGTAATTTTCTAATTGTTCCAAAATCTTATAAGTTGAATTAA
1 ACAATATTAACAATTGGACTTTTTGTAATTTTCTAATTGTTCCAAAATCTTATAAGTTGAATTAA
23379249 TCAAATTCAATTTTTCTCGTTCTATCTCAGAGTATCCATTCG
66 TCAAATTCAATTTTTCTCGTTCTATCTCAGAGTATCCATTCG
23379291 CTCGAAACTG
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 96 0.91
107 10 0.09
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (107 bp):
ACAATATTAACAATTGGACTTTTTGTAATTTTCTAATTGTTCCAAAATCTTATAAGTTGAATTAA
TCAAATTCAATTTTTCTCGTTCTATCTCAGAGTATCCATTCG
Found at i:23381550 original size:45 final size:45
Alignment explanation
Indices: 23381494--23381590 Score: 149
Period size: 45 Copynumber: 2.2 Consensus size: 45
23381484 ACAATTTATG
*
23381494 GTCAAAATAGAAATGGTGGTCAAAATTGGAGTAATGGCATGCAAA
1 GTCAGAATAGAAATGGTGGTCAAAATTGGAGTAATGGCATGCAAA
* **
23381539 GTCAGAATAGAAATGGTGGTCAAAATTGGGGTGCTGGCATGCAAA
1 GTCAGAATAGAAATGGTGGTCAAAATTGGAGTAATGGCATGCAAA
*
23381584 GTGAGAA
1 GTCAGAA
23381591 ATTGGCACGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.22
Consensus pattern (45 bp):
GTCAGAATAGAAATGGTGGTCAAAATTGGAGTAATGGCATGCAAA
Found at i:23385316 original size:17 final size:18
Alignment explanation
Indices: 23385294--23385327 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23385284 CTAAGCCACT
23385294 TTCGTTGTC-GAGTTTTA
1 TTCGTTGTCGGAGTTTTA
*
23385311 TTCGTTTTCGGAGTTTT
1 TTCGTTGTCGGAGTTTT
23385328 CTACGGGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.09, C:0.12, G:0.24, T:0.56
Consensus pattern (18 bp):
TTCGTTGTCGGAGTTTTA
Found at i:23388014 original size:105 final size:106
Alignment explanation
Indices: 23387891--23388102 Score: 417
Period size: 105 Copynumber: 2.0 Consensus size: 106
23387881 ACTAAAAAGA
23387891 AATTAAACTTAATACTCAAATACAATTTGTAAAAATTTAAGCCCAATCAAGATGTAATTTAATAA
1 AATTAAACTTAATACTCAAATACAATTTGTAAAAATTTAAGCCCAATCAAGATGTAATTTAATAA
23387956 AATAAGATTTTATTAAAATATTAAAATTTT-ATAATATTTT
66 AATAAGATTTTATTAAAATATTAAAATTTTAATAATATTTT
23387996 AATTAAACTTAATACTCAAATACAATTTGTAAAAATTTAAGCCCAATCAAGATGTAATTTAATAA
1 AATTAAACTTAATACTCAAATACAATTTGTAAAAATTTAAGCCCAATCAAGATGTAATTTAATAA
23388061 AATAAGATTTTATTAAAATATTAAAATTTTAATAATATTTT
66 AATAAGATTTTATTAAAATATTAAAATTTTAATAATATTTT
23388102 A
1 A
23388103 TGTTTTACTA
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 95 0.90
106 11 0.10
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.39
Consensus pattern (106 bp):
AATTAAACTTAATACTCAAATACAATTTGTAAAAATTTAAGCCCAATCAAGATGTAATTTAATAA
AATAAGATTTTATTAAAATATTAAAATTTTAATAATATTTT
Found at i:23427555 original size:33 final size:33
Alignment explanation
Indices: 23427513--23427647 Score: 119
Period size: 33 Copynumber: 3.8 Consensus size: 33
23427503 ATGTGAAAGG
*
23427513 GGTTGCTAAGTGCTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
23427546 GGTTGCTAAGTGCTAATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
*
23427583 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
23427622 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
23427648 AATGGATAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
33 39 0.47
34 12 0.14
37 2 0.02
39 2 0.02
42 9 0.11
43 19 0.23
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:23427599 original size:76 final size:75
Alignment explanation
Indices: 23427480--23427645 Score: 262
Period size: 76 Copynumber: 2.2 Consensus size: 75
23427470 ATGTTGAGAC
* * * *
23427480 GTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCTGATTCATTGG
1 GTGCTAATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
23427545 TGGTTGCTAA
66 TGGTTGCTAA
*
23427555 GTGCTAATTCCACCGTATCATTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTG
1 GTGCTAATTCCACCGTATC-TTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTG
23427620 GTGGTTGCTAA
65 GTGGTTGCTAA
23427631 GTGCTGAA-TCCACCG
1 GTGCT-AATTCCACCG
23427646 ATAATGGATA
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
75 17 0.20
76 65 0.77
77 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (75 bp):
GTGCTAATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGG
TGGTTGCTAA
Found at i:23438306 original size:27 final size:27
Alignment explanation
Indices: 23438269--23438612 Score: 310
Period size: 27 Copynumber: 12.8 Consensus size: 27
23438259 TGCGATTCGT
* *
23438269 GGGTAAAATTATCGAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTCAAA
*
23438296 GGGTAAAATTA-CTGAAATACCCTCAAT
1 GGGTAAAATTATC-GAAATACCCTCAAA
* *
23438323 GGGTAAAATTACCGAAATACCCCCGAAA
1 GGGTAAAATTATCGAAATACCCTC-AAA
23438351 -GGTAAAATTATCGAAATACCCT-AAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
23438376 GGGTAAAATCATCGAAATACTCTCGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
23438403 GAGTAAAATTA-CTAAAATACCCTCAAT
1 GGGTAAAATTATC-GAAATACCCTCAAA
*
23438430 GGGTAAAATTATCGAAATACCCTTGAAA
1 GGGTAAAATTATCGAAATACCC-TCAAA
* * *
23438458 -GATAAAATTA-CTGAAGTACTCTCAAA
1 GGGTAAAATTATC-GAAATACCCTCAAA
* *
23438484 GGGTAAAATTA-CTAAAATACTCTCAATA
1 GGGTAAAATTATC-GAAATACCCTCAA-A
23438512 -GGTAAAATTATCGAAATACCCTCAAA
1 GGGTAAAATTATCGAAATACCCTCAAA
** * **
23438538 GGAAAAAATTATCAAAATACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTCAAA
* * *
23438565 GGGTAAAATTACCGTAATGGCCCT-AAA
1 GGGTAAAATTATCGAAAT-ACCCTCAAA
* *
23438592 GGGTAAAATTTTTGAAATACC
1 GGGTAAAATTATCGAAATACC
23438613 ACTGAGGGGT
Statistics
Matches: 259, Mismatches: 44, Indels: 29
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.01
26 30 0.12
27 213 0.82
28 13 0.05
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTCAAA
Found at i:23438331 original size:54 final size:54
Alignment explanation
Indices: 23438269--23438627 Score: 363
Period size: 54 Copynumber: 6.7 Consensus size: 54
23438259 TGCGATTCGT
* *
23438269 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCAAA
* * *
23438323 GGGTAAAATTACCGAAATACCCCCGAAAGGTAAAATTA-TCGAAATACCCT-AAA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACT-GAAATACCCTCAAA
* * * * *
23438376 GGGTAAAATCATCGAAATACTCTCGAAGAGTAAAATTACTAAAATACCCTCAAT
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCAAA
* * * * *
23438430 GGGTAAAATTATCGAAATACCCTTGAAAGATAAAATTACTGAAGTACTCTCAAA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCAAA
* * *
23438484 GGGTAAAATTA-CTAAAATACTCTC-AATAGGTAAAATTA-TCGAAATACCCTCAAA
1 GGGTAAAATTATC-GAAATACCCTCGAA-GGGTAAAATTACT-GAAATACCCTCAAA
** * * * * *
23438538 GGAAAAAATTATCAAAATACCCTTGAAGGGTAAAATTACCGTAATGGCCCT-AAA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAAT-ACCCTCAAA
* * *
23438592 GGGTAAAATTTTTGAAATACCACT-GAGGGGTAAAAT
1 GGGTAAAATTATCGAAATACC-CTCGAAGGGTAAAAT
23438628 GACCGTTATA
Statistics
Matches: 251, Mismatches: 43, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
53 48 0.19
54 194 0.77
55 9 0.04
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (54 bp):
GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCTCAAA
Found at i:23438546 original size:81 final size:81
Alignment explanation
Indices: 23438270--23438576 Score: 354
Period size: 81 Copynumber: 3.8 Consensus size: 81
23438260 GCGATTCGTG
* * * * *
23438270 GGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTCAATGGGTAAAATTAC
1 GGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACTGAAATACTCTCAAAGGGTAAAATTAC
** *
23438335 CGAAATACCCCCGAA-A
66 TAAAATACCCTC-AATA
* * * *
23438351 GGTAAAATTATCGAAATACCCT-AAAGGGTAAAATCA-TCGAAATACTCTCGAAGAGTAAAATTA
1 GGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACT-GAAATACTCTCAAAGGGTAAAATTA
*
23438414 CTAAAATACCCTCAATG
65 CTAAAATACCCTCAATA
* *
23438431 GGTAAAATTATCGAAATACCCTTGAAA-GATAAAATTACTGAAGTACTCTCAAAGGGTAAAATTA
1 GGTAAAATTATCGAAATACCC-TCAAAGGATAAAATTACTGAAATACTCTCAAAGGGTAAAATTA
*
23438495 CTAAAATACTCTCAATA
65 CTAAAATACCCTCAATA
* * * **
23438512 GGTAAAATTATCGAAATACCCTCAAAGGAAAAAATTA-TCAAAATACCCTTGAAGGGTAAAATTA
1 GGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACT-GAAATACTCTCAAAGGGTAAAATTA
23438576 C
65 C
23438577 CGTAATGGCC
Statistics
Matches: 194, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.02
80 68 0.35
81 119 0.61
82 4 0.02
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (81 bp):
GGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACTGAAATACTCTCAAAGGGTAAAATTAC
TAAAATACCCTCAATA
Found at i:23438597 original size:81 final size:81
Alignment explanation
Indices: 23438269--23438612 Score: 344
Period size: 81 Copynumber: 4.3 Consensus size: 81
23438259 TGCGATTCGT
* * *
23438269 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACTGAAATACCCTC-AATGGGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACTGAAATACCCTCGAA-GGGTAAAATT
* *
23438333 ACCGAAATACCCCCGAAA
65 ACCAAAATACCCTC-AAA
* * * *
23438351 -GGTAAAATTATCGAAATACCCT-AAAGGGTAAAATCA-TCGAAATACTCTCGAAGAGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACT-GAAATACCCTCGAAGGGTAAAATT
* *
23438413 ACTAAAATACCCTCAAT
65 ACCAAAATACCCTCAAA
* * * *
23438430 GGGTAAAATTATCGAAATACCCTTGAAA-GATAAAATTACTGAAGTACTCTCAAAGGGTAAAATT
1 GGGTAAAATTATCGAAATACCC-TCAAAGGATAAAATTACTGAAATACCCTCGAAGGGTAAAATT
* *
23438494 ACTAAAATACTCTCAATA
65 ACCAAAATACCCTCAA-A
* * *
23438512 -GGTAAAATTATCGAAATACCCTCAAAGGAAAAAATTA-TCAAAATACCCTTGAAGGGTAAAATT
1 GGGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACT-GAAATACCCTCGAAGGGTAAAATT
** *
23438575 ACCGTAATGGCCCT-AAA
65 ACCAAAAT-ACCCTCAAA
* *
23438592 GGGTAAAATTTTTGAAATACC
1 GGGTAAAATTATCGAAATACC
23438613 ACTGAGGGGT
Statistics
Matches: 221, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
79 3 0.01
80 68 0.31
81 143 0.65
82 7 0.03
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (81 bp):
GGGTAAAATTATCGAAATACCCTCAAAGGATAAAATTACTGAAATACCCTCGAAGGGTAAAATTA
CCAAAATACCCTCAAA
Found at i:23438869 original size:26 final size:26
Alignment explanation
Indices: 23438838--23438905 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
23438828 TTATTGGCAA
*
23438838 CTTTGCTGCGATATTGATACTGATAG
1 CTTTGCTGCGATATTGATACTGACAG
* * *
23438864 CTTTGCTGCGTTACTGATACTGGCAG
1 CTTTGCTGCGATATTGATACTGACAG
*
23438890 CTTTGCTACGATATTG
1 CTTTGCTGCGATATTG
23438906 GTGTGTTGGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (26 bp):
CTTTGCTGCGATATTGATACTGACAG
Found at i:23439051 original size:28 final size:29
Alignment explanation
Indices: 23439019--23439094 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
23439009 GATAAGTGTT
*
23439019 TTGGGCTAAGACCCACAC-TGTTACTGTA
1 TTGGGCTAAGACCCACACTTATTACTGTA
*
23439047 TTGGGCTAAGGCCCACACTTTATTACTGTA
1 TTGGGCTAAGACCCACAC-TTATTACTGTA
* *
23439077 TTGGGCTATGCCCCACAC
1 TTGGGCTAAGACCCACAC
23439095 ACTGCTATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 17 0.40
30 25 0.60
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (29 bp):
TTGGGCTAAGACCCACACTTATTACTGTA
Found at i:23439107 original size:30 final size:30
Alignment explanation
Indices: 23439019--23439113 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
23439009 GATAAGTGTT
*
23439019 TTGGGCTAAG-ACC-CACACTGTTACTGTA
1 TTGGGCTAAGCCCCACACACTGTTACTGTA
* ** *
23439047 TTGGGCTAAGGCCCACACTTTATTACTGTA
1 TTGGGCTAAGCCCCACACACTGTTACTGTA
* * *
23439077 TTGGGCTATGCCCCACACACTGCTATTGTA
1 TTGGGCTAAGCCCCACACACTGTTACTGTA
*
23439107 TAGGGCT
1 TTGGGCT
23439114 CAGGCCAAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 10 0.19
29 2 0.04
30 41 0.77
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (30 bp):
TTGGGCTAAGCCCCACACACTGTTACTGTA
Found at i:23444793 original size:27 final size:27
Alignment explanation
Indices: 23444755--23445100 Score: 257
Period size: 27 Copynumber: 12.8 Consensus size: 27
23444745 GTTTGGTTCG
* *
23444755 TGGGTAAAATTATCGAAATAGCCTCGA
1 TGGGTAAAATTATCGAAATACCCTCAA
*
23444782 TGGGTAAAATTA-CTGAAATACCCTTAA
1 TGGGTAAAATTATC-GAAATACCCTCAA
* *
23444809 TGGGTAAAATTACCAAAATACCC-CTAA
1 TGGGTAAAATTATCGAAATACCCTC-AA
*
23444836 AGGGTAAAATTATCGAAATACCCTCGAA
1 TGGGTAAAATTATCGAAATACCCTC-AA
23444864 -GGGTAAAATTA-CTGAAATACTCC-CGAA
1 TGGGTAAAATTATC-GAAATAC-CCTC-AA
* * *
23444891 -GGGTAAACTTACCGAAATACCTTCAA
1 TGGGTAAAATTATCGAAATACCCTCAA
* *
23444917 TGGGTAAAATTATCGAAACACCCTTGAA
1 TGGGTAAAATTATCGAAATACCC-TCAA
* *
23444945 -GGGTAAAATTACCGAAATACCCTTAA
1 TGGGTAAAATTATCGAAATACCCTCAA
* * *
23444971 TGAGTAAAATTATTGAAATACCCACGAA
1 TGGGTAAAATTATCGAAATACCCTC-AA
* * * *
23444999 T-GATGAAATTACCAAAATACCCTCAA
1 TGGGTAAAATTATCGAAATACCCTCAA
*
23445025 AGGG-AAAATT-TACTGAAATACCCTCGAA
1 TGGGTAAAATTAT-C-GAAATACCCTC-AA
* * *
23445053 -GGGTAAAATTACCGTAATGCTCC-CAA
1 TGGGTAAAATTATCGAAATAC-CCTCAA
* * *
23445079 AGGGTAAATTTATAGAAATACC
1 TGGGTAAAATTATCGAAATACC
23445101 TTCGAGAGGT
Statistics
Matches: 255, Mismatches: 44, Indels: 41
0.75 0.13 0.12
Matches are distributed among these distances:
26 19 0.07
27 212 0.83
28 24 0.09
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (27 bp):
TGGGTAAAATTATCGAAATACCCTCAA
Found at i:23444819 original size:54 final size:54
Alignment explanation
Indices: 23444755--23445120 Score: 336
Period size: 54 Copynumber: 6.8 Consensus size: 54
23444745 GTTTGGTTCG
* * *
23444755 TGGGTAAAATTATCGAAATAGCCTCGATGGGTAAAATTACTGAAATACCCTTAA
1 TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTTAA
* * * * *
23444809 TGGGTAAAATTACCAAAATACCC-CTAAAGGGTAAAATTATCGAAATACCCTCGAA
1 TGGGTAAAATTATCGAAATACCCTC-GAAGGGTAAAATTACCGAAATACCCT-TAA
*
23444864 -GGGTAAAATTA-CTGAAATACTCC-CGAAGGGTAAACTTACCGAAATA-CCTTCAA
1 TGGGTAAAATTATC-GAAATAC-CCTCGAAGGGTAAAATTACCGAAATACCCTT-AA
* *
23444917 TGGGTAAAATTATCGAAACACCCTTGAAGGGTAAAATTACCGAAATACCCTTAA
1 TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTTAA
* * * * * * * *
23444971 TGAGTAAAATTATTGAAATACCCACGAATGATGAAATTACCAAAATACCCTCAA
1 TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTTAA
* * * *
23445025 AGGG-AAAATT-TACTGAAATACCCTCGAAGGGTAAAATTACCGTAATGCTCC-CAA
1 TGGGTAAAATTAT-C-GAAATACCCTCGAAGGGTAAAATTACCGAAATAC-CCTTAA
* * * * *
23445079 AGGGTAAATTTATAGAAATACCTTCG-AGAGGTAAAATGACCG
1 TGGGTAAAATTATCGAAATACCCTCGAAG-GGTAAAATTACCG
23445121 TTATACCCCT
Statistics
Matches: 257, Mismatches: 40, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
52 1 0.00
53 17 0.07
54 221 0.86
55 17 0.07
56 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (54 bp):
TGGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTTAA
Found at i:23444895 original size:81 final size:80
Alignment explanation
Indices: 23444756--23445115 Score: 368
Period size: 81 Copynumber: 4.5 Consensus size: 80
23444746 TTTGGTTCGT
* * **
23444756 GGGTAAAATTATCGAAATAGCCTCGATGGGTAAAATTACTGAAATACCCTTAATGGGTAAAATTA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCCGAATGGGTAAAATTA
*
23444821 CCAAAATACCCCTAAA
66 CCGAAATACCCC-AAA
*
23444837 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACTCCCGAA-GGGTAAACTT
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATAC-CCCGAATGGGTAAAATT
* *
23444901 ACCGAAATACCTTCAAT
65 ACCGAAATACC-CCAAA
* * * ** *
23444918 GGGTAAAATTATCGAAACACCCTTGAAGGGTAAAATTACCGAAATACCCTTAATGAGTAAAATTA
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCCGAATGGGTAAAATTA
** *
23444983 TTGAAATACCCACGAA
66 CCGAAATACCC-CAAA
* * * * * *
23444999 TGATGAAATTACCAAAATACCCTCAAAGGG-AAAATTTACTGAAATACCCTCGAA-GGGTAAAAT
1 GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAA-TTACTGAAATACCC-CGAATGGGTAAAAT
* *
23445062 TACCGTAATGCTCCCAAA
64 TACCGAAATAC-CCCAAA
* * *
23445080 GGGTAAATTTATAGAAATACCTTCG-AGAGGTAAAAT
1 GGGTAAAATTATCGAAATACCCTCGAAG-GGTAAAAT
23445116 GACCGTTATA
Statistics
Matches: 224, Mismatches: 46, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
80 10 0.04
81 201 0.90
82 13 0.06
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (80 bp):
GGGTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACCCCGAATGGGTAAAATTA
CCGAAATACCCCAAA
Found at i:23445339 original size:26 final size:26
Alignment explanation
Indices: 23445310--23445416 Score: 101
Period size: 26 Copynumber: 4.1 Consensus size: 26
23445300 TTTGCCACAA
23445310 ATACTGTTACTGGCAGCTTTGC-ACTG
1 ATACTGTTACTGGCAGCTTTGCTAC-G
* * * *
23445336 ATACTGATACTGGTAGCTCTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTACG
*
23445362 ATACTGTTATTGGCAGCTTTGCTAC-
1 ATACTGTTACTGGCAGCTTTGCTACG
** * *
23445387 ATTACTAATACTGGCAGCTTTCCTGCG
1 A-TACTGTTACTGGCAGCTTTGCTACG
23445414 ATA
1 ATA
23445417 TTGGTGTGTT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.02
26 61 0.95
27 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTACG
Found at i:23445398 original size:52 final size:51
Alignment explanation
Indices: 23445310--23445416 Score: 135
Period size: 52 Copynumber: 2.1 Consensus size: 51
23445300 TTTGCCACAA
* * *
23445310 ATACTGTTACTGGCAGCTTTGCACTGATACTGATACTGGTAGCTCTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCACT-ATACTAATACTGGCAGCTCTCCTGCG
* *
23445362 ATACTGTTATTGGCAGCTTTGCTAC-ATTACTAATACTGGCAGCTTTCCTGCG
1 ATACTGTTACTGGCAGCTTTGC-ACTA-TACTAATACTGGCAGCTCTCCTGCG
23445414 ATA
1 ATA
23445417 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.02
52 45 0.94
53 2 0.04
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (51 bp):
ATACTGTTACTGGCAGCTTTGCACTATACTAATACTGGCAGCTCTCCTGCG
Found at i:23445564 original size:28 final size:28
Alignment explanation
Indices: 23445519--23445598 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
23445509 ACTGCATTTG
*
23445519 TACTGATTACTATTTTGGGCTAAGGCCTA
1 TACTG-TTACTATATTGGGCTAAGGCCTA
23445548 TACTGTTACTATATTGGGCTAAGGCCTA
1 TACTGTTACTATATTGGGCTAAGGCCTA
* *
23445576 CACTTTGTTACTGTATTGGGCTA
1 TAC--TGTTACTATATTGGGCTA
23445599 TAGCCTACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 24 0.52
29 5 0.11
30 17 0.37
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (28 bp):
TACTGTTACTATATTGGGCTAAGGCCTA
Found at i:23445587 original size:30 final size:28
Alignment explanation
Indices: 23445520--23445608 Score: 108
Period size: 30 Copynumber: 3.1 Consensus size: 28
23445510 CTGCATTTGT
* *
23445520 ACTGATTACTATTTTGGGCTAAGGCCTAT
1 ACTG-TTACTATATTGGGCTAAGGCCTAC
23445549 ACTGTTACTATATTGGGCTAAGGCCTAC
1 ACTGTTACTATATTGGGCTAAGGCCTAC
*
23445577 ACTTTGTTACTGTATTGGGCTATA-GCCTAC
1 AC--TGTTACTATATTGGGCTA-AGGCCTAC
23445607 AC
1 AC
23445609 ACTACTACTG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 24 0.44
29 4 0.07
30 25 0.46
31 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (28 bp):
ACTGTTACTATATTGGGCTAAGGCCTAC
Found at i:23448434 original size:20 final size:20
Alignment explanation
Indices: 23448411--23448457 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23448401 AACAAGAACT
23448411 GAAAAGAAA-AAATAAGAAAA
1 GAAAAGAAAGAAAT-AGAAAA
* *
23448431 GAAAGGAAAGAAATGGAAAA
1 GAAAAGAAAGAAATAGAAAA
*
23448451 GATAAGA
1 GAAAAGA
23448458 GTGGCGTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.06
Consensus pattern (20 bp):
GAAAAGAAAGAAATAGAAAA
Found at i:23449708 original size:11 final size:11
Alignment explanation
Indices: 23449692--23449735 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
23449682 ATTATTAAAA
23449692 TTATTAATTTT
1 TTATTAATTTT
23449703 TTATTAATTTT
1 TTATTAATTTT
*
23449714 CTAATTAA-TTT
1 -TTATTAATTTT
23449725 TTATTAATTTT
1 TTATTAATTTT
23449736 AATTTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.21
11 17 0.59
12 6 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
TTATTAATTTT
Found at i:23449730 original size:10 final size:10
Alignment explanation
Indices: 23449692--23449745 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
23449682 ATTATTAAAA
23449692 TTATTAATTTT
1 TTATTAA-TTT
23449703 TTATTAATTT
1 TTATTAATTT
23449713 TCTAATTAATTT
1 T-T-ATTAATTT
23449725 TTATTAATTT
1 TTATTAATTT
* *
23449735 TAATTTATTT
1 TTATTAATTT
23449745 T
1 T
23449746 CGACAGTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
10 21 0.54
11 9 0.23
12 9 0.23
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTAATTT
Found at i:23453309 original size:19 final size:19
Alignment explanation
Indices: 23453285--23453323 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23453275 AATATTTTCT
*
23453285 AGTAAATCATTTTACAGAA
1 AGTAAAACATTTTACAGAA
*
23453304 AGTAAAACATTTTCCAGAA
1 AGTAAAACATTTTACAGAA
23453323 A
1 A
23453324 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AGTAAAACATTTTACAGAA
Found at i:23453326 original size:33 final size:34
Alignment explanation
Indices: 23453273--23453337 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
23453263 CAAACAGCAG
* *
23453273 AAAATATTTTCTAGTAAATCATTTTACAGAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAGT
*
23453307 AAAACATTTTCCAG-AAATCATTTTACGGAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAA
23453338 ACATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAGT
Found at i:23453330 original size:14 final size:14
Alignment explanation
Indices: 23453307--23453346 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23453297 TACAGAAAGT
*
23453307 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
23453321 AAATCATTTTACGG
1 AAAACATTTTACAG
23453335 AAAACATTTTAC
1 AAAACATTTTAC
23453347 TAGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:23456338 original size:46 final size:46
Alignment explanation
Indices: 23456282--23456396 Score: 185
Period size: 46 Copynumber: 2.5 Consensus size: 46
23456272 GACACCGTAG
* * *
23456282 ACAGAACGGCTAAAAGCCATAAGTATCGCAGCAACGCTGCCAGTTA
1 ACAGAACGGCTAAAAGCCATAAGTATCACAACAACGCTGCCACTTA
*
23456328 ACGGAACGGCTAAAAGCCATAAGTATCACAACAACGCTGCCACTTA
1 ACAGAACGGCTAAAAGCCATAAGTATCACAACAACGCTGCCACTTA
*
23456374 ACAGAACGACTAAAAGCCATAAG
1 ACAGAACGGCTAAAAGCCATAAG
23456397 CAAAAAGGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (46 bp):
ACAGAACGGCTAAAAGCCATAAGTATCACAACAACGCTGCCACTTA
Found at i:23456869 original size:27 final size:27
Alignment explanation
Indices: 23456596--23456860 Score: 291
Period size: 27 Copynumber: 9.8 Consensus size: 27
23456586 CTCTTAGATC
* *
23456596 ATTTTACCCTTTG-GAGGTATTTTGATA
1 ATTTTACCCTTCGAG-GGTATTTTGGTA
* * *
23456623 ATTTTACCCTTCGAAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
23456650 ATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
23456677 ATTTTATCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* *
23456704 ATTTTACCCTTTGAGGGTACTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * * *
23456731 ATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* *
23456758 ATTTTACACTTCGGGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * *
23456785 ATTTTACCCTTTGAAGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* **
23456812 TTTTTACCAC-TCGAGGGTATTTCAGTA
1 ATTTTACC-CTTCGAGGGTATTTTGGTA
**
23456839 ATTTTACCCTTTAAGGGTATTT
1 ATTTTACCCTTCGAGGGTATTT
23456861 AAGTCATTTA
Statistics
Matches: 203, Mismatches: 32, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
26 1 0.00
27 201 0.99
28 1 0.00
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:23462414 original size:38 final size:38
Alignment explanation
Indices: 23462363--23462445 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
23462353 CACTAGCACG
* * *
23462363 AAGCCTACTAGGCACAAAGCCTGAATAACACCAGCATA
1 AAGCCTGCTAGGCACAAAGCCTGAATAACACCAACACA
*
23462401 AAGCCTGCTAGGCACAGAGCCTGAATAACACCAACACA
1 AAGCCTGCTAGGCACAAAGCCTGAATAACACCAACACA
23462439 AAGCCTG
1 AAGCCTG
23462446 AATAACACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.40, C:0.30, G:0.18, T:0.12
Consensus pattern (38 bp):
AAGCCTGCTAGGCACAAAGCCTGAATAACACCAACACA
Found at i:23462443 original size:22 final size:22
Alignment explanation
Indices: 23462413--23462466 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
23462403 GCCTGCTAGG
*
23462413 CACAGAGCCTGAATAACACCAA
1 CACAAAGCCTGAATAACACCAA
23462435 CACAAAGCCTGAATAACACCAA
1 CACAAAGCCTGAATAACACCAA
*
23462457 CATAAAGCCT
1 CACAAAGCCT
23462467 ACTAGGCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.46, C:0.31, G:0.11, T:0.11
Consensus pattern (22 bp):
CACAAAGCCTGAATAACACCAA
Found at i:23462472 original size:60 final size:60
Alignment explanation
Indices: 23462375--23462490 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
23462365 GCCTACTAGG
* * * *
23462375 CACAAAGCCTGAATAACACCAGCATAAAGCCTGCTAGGCACAGAGCCTGAATAACACCAA
1 CACAAAGCCTGAATAACACCAACATAAAGCCTACTAGGCACAAAGCCTAAATAACACCAA
23462435 CACAAAGCCTGAATAACACCAACATAAAGCCTACTAGGCACAAAGCCTAAATAACA
1 CACAAAGCCTGAATAACACCAACATAAAGCCTACTAGGCACAAAGCCTAAATAACA
23462491 TTATACTTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.45, C:0.29, G:0.14, T:0.12
Consensus pattern (60 bp):
CACAAAGCCTGAATAACACCAACATAAAGCCTACTAGGCACAAAGCCTAAATAACACCAA
Found at i:23465430 original size:27 final size:26
Alignment explanation
Indices: 23465400--23465450 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
23465390 ATGAAATTCT
*
23465400 TACAAA-CAACATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
23465427 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
23465451 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:23465763 original size:23 final size:23
Alignment explanation
Indices: 23465719--23465763 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23465709 ATAATAAGTT
**
23465719 TAAAAATAATATTAAGCCAATAA
1 TAAAAATAATATTAAAACAATAA
* *
23465742 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATATTAAAACAATA
23465764 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAATAATATTAAAACAATAA
Found at i:23467759 original size:44 final size:44
Alignment explanation
Indices: 23467704--23467935 Score: 144
Period size: 44 Copynumber: 5.0 Consensus size: 44
23467694 TTTTAATCCA
* *
23467704 CTCCACTGTAATCTCAGGGAGATAGGATTACTGGTTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* *
23467748 CTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATC---T--G
* * * *** * **
23467797 ATCTACTCTACTGTAA-CTTCAGAGAGATGAGA-TCCTTTATTTTAATCCA
1 --CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTAC-TGGCTTCAATCTG
* * * *
23467846 CTCTACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
* * * * *
23467890 CTCCGCTGTAATCTCAGAGAGATAAGATTTCTGGCTTTAATTTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
23467934 CT
1 CT
23467936 TCATTACACT
Statistics
Matches: 139, Mismatches: 35, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
44 99 0.71
45 3 0.02
46 1 0.01
47 3 0.02
49 1 0.01
51 2 0.01
52 1 0.01
53 4 0.03
54 25 0.18
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTG
Found at i:23467903 original size:142 final size:142
Alignment explanation
Indices: 23467647--23467926 Score: 472
Period size: 142 Copynumber: 2.0 Consensus size: 142
23467637 GAGATAAGAC
*
23467647 CTGATGCGATCCTTTCTACAGTAACTTCAGAGAGATGAGATACTTTATTTTAATCCACTCCACTG
1 CTGATGCGATCCTCTCTACAGTAACTTCAGAGAGATGAGATACTTTATTTTAATCCACTCCACTG
* * * *
23467712 TAATCTCAGGGAGATAGGATTACTGGTTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATT
23467777 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
23467789 CTGATGCGAT-CTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCACTCTACT
1 CTGATGCGATCCT-CTCTACAGTAACTTCAGAGAGATGAGATACTTTATTTTAATCCACTCCACT
23467853 GTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGAT
65 GTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGAT
23467918 TTCTGGCTT
130 TTCTGGCTT
23467927 TAATTTGCTT
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 2 0.02
142 127 0.98
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCCTCTCTACAGTAACTTCAGAGAGATGAGATACTTTATTTTAATCCACTCCACTG
TAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGATT
TCTGGCTTCAAT
Found at i:23482052 original size:12 final size:12
Alignment explanation
Indices: 23482035--23482060 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23482025 GCCCTTCCCC
23482035 TTATTTAATCCT
1 TTATTTAATCCT
23482047 TTATTTAATCCT
1 TTATTTAATCCT
23482059 TT
1 TT
23482061 TAATAATTGC
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:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTTAATCCT
Found at i:23482357 original size:19 final size:19
Alignment explanation
Indices: 23482333--23482378 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
23482323 AATAATCTTA
* *
23482333 AATGCATATG-ATGACATG
1 AATGCAGATGCATGAAATG
23482351 TAATGCAGATGCATGAAATG
1 -AATGCAGATGCATGAAATG
23482371 AATGCAGA
1 AATGCAGA
23482379 AAGGTGCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
AATGCAGATGCATGAAATG
Found at i:23486202 original size:23 final size:23
Alignment explanation
Indices: 23486158--23486202 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23486148 ATAATAAGTT
**
23486158 TAAAAATAATATTAAGCCAATAA
1 TAAAAATAATATTAAAACAATAA
* *
23486181 TAAAAATAATGTTAAAATAATA
1 TAAAAATAATATTAAAACAATA
23486203 TATGAACATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAATAATATTAAAACAATAA
Found at i:23494894 original size:38 final size:37
Alignment explanation
Indices: 23494826--23494974 Score: 201
Period size: 38 Copynumber: 4.0 Consensus size: 37
23494816 TAATACACCG
*
23494826 GCACAAAGTCTACTAGGCACAAAG-TCTGAATAACACT
1 GCACAAAGTCTGCTAGGCACAAAGCT-TGAATAACACT
* * *
23494863 AGCATAAAGCCTGCTAGGCACAGAGCTTGAATAACACT
1 -GCACAAAGTCTGCTAGGCACAAAGCTTGAATAACACT
* *
23494901 GCACAAAATCTGCTAGGCACAGAGCTTGAATAACACT
1 GCACAAAGTCTGCTAGGCACAAAGCTTGAATAACACT
*
23494938 GGCACAAAGTCTGCTAGGCACAAAGCCTGAATAACAC
1 -GCACAAAGTCTGCTAGGCACAAAGCTTGAATAACAC
23494975 CGACACTGAG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
37 34 0.34
38 64 0.65
39 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (37 bp):
GCACAAAGTCTGCTAGGCACAAAGCTTGAATAACACT
Found at i:23494952 original size:75 final size:75
Alignment explanation
Indices: 23494826--23494974 Score: 210
Period size: 75 Copynumber: 2.0 Consensus size: 75
23494816 TAATACACCG
* * * *
23494826 GCACAAAGTCTACTAGGCACAAAGTCTGAATAACACTAGCATAAAGCCTGCTAGGCACAGAGCTT
1 GCACAAAATCTACTAGGCACAAAGTCTGAATAACACTAGCACAAAGCCTGCTAGGCACAAAGCCT
23494891 GAATAACACT
66 GAATAACACT
* * * *
23494901 GCACAAAATCTGCTAGGCACAGAG-CTTGAATAACACTGGCACAAAGTCTGCTAGGCACAAAGCC
1 GCACAAAATCTACTAGGCACAAAGTC-TGAATAACACTAGCACAAAGCCTGCTAGGCACAAAGCC
23494965 TGAATAACAC
65 TGAATAACAC
23494975 CGACACTGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
74 1 0.02
75 64 0.98
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (75 bp):
GCACAAAATCTACTAGGCACAAAGTCTGAATAACACTAGCACAAAGCCTGCTAGGCACAAAGCCT
GAATAACACT
Found at i:23500124 original size:22 final size:22
Alignment explanation
Indices: 23500099--23500142 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23500089 TCTGCATCAT
23500099 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
23500121 TAATAAATGTTTTATCAACAGC
1 TAATAAATGTTTTATCAACAGC
23500143 GAAGAGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAAATGTTTTATCAACAGC
Found at i:23504770 original size:23 final size:23
Alignment explanation
Indices: 23504744--23504824 Score: 60
Period size: 23 Copynumber: 3.5 Consensus size: 23
23504734 TAATAATTTT
*
23504744 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
* **
23504767 TGGAATGAAAATCATAA---TAATTTT
1 TGGAATG-AAGT-ATAAGTTTAA--AA
*
23504791 TGGATTGAAGTATAAGTTTAAAA
1 TGGAATGAAGTATAAGTTTAAAA
23504814 TGGAATGAAGT
1 TGGAATGAAGT
23504825 TAACATTCTT
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
22 7 0.17
23 19 0.45
24 9 0.21
25 7 0.17
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGAATGAAGTATAAGTTTAAAA
Found at i:23504797 original size:47 final size:47
Alignment explanation
Indices: 23504728--23504822 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
23504718 AGTAATATAT
23504728 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
23504775 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
1 AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
23504822 A
1 A
23504823 GTTAACATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (47 bp):
AAATCATAATAATTTTTGGATTGAAGTATAAGTTTAAAATGGAATGA
Found at i:23512498 original size:23 final size:22
Alignment explanation
Indices: 23512450--23512502 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
23512440 CATAGTTATT
* * *
23512450 AATAATTATTAAGAAATTATAT
1 AATAAATATTAAGAAATAATAA
*
23512472 AATAAATATTAATTAAATAATAA
1 AATAAATATTAA-GAAATAATAA
23512495 AATAAATA
1 AATAAATA
23512503 ATTACAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AATAAATATTAAGAAATAATAA
Found at i:23515010 original size:31 final size:31
Alignment explanation
Indices: 23514972--23515040 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
23514962 AGGTCAAATT
23514972 GAGTTTTGATCCTTCTATTAGGCTCATATTC
1 GAGTTTTGATCCTTCTATTAGGCTCATATTC
23515003 GAGTTTTGATCCTTCTATTAGGCTCATATTC
1 GAGTTTTGATCCTTCTATTAGGCTCATATTC
23515034 GAGTTTT
1 GAGTTTT
23515041 AATCTTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (31 bp):
GAGTTTTGATCCTTCTATTAGGCTCATATTC
Found at i:23518371 original size:37 final size:37
Alignment explanation
Indices: 23518320--23518428 Score: 132
Period size: 37 Copynumber: 2.9 Consensus size: 37
23518310 AATAAAATGA
* *
23518320 CAAATGCTCTTAAGAGCTAGTCCAACCGAAATCACGC
1 CAAATGCTCATAAGAGCTAGTCCAACCGAAAACACGC
* * *
23518357 CAAAGGCTCATAAGAGCTAATCC-ACCCAATAACACGC
1 CAAATGCTCATAAGAGCTAGTCCAACCGAA-AACACGC
*
23518394 CAATTGCTCCA-AAGAGCTAGTCCAACCGAAAACAC
1 CAAATGCT-CATAAGAGCTAGTCCAACCGAAAACAC
23518429 ATTAAAACAA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
36 5 0.08
37 48 0.80
38 7 0.12
ACGTcount: A:0.39, C:0.31, G:0.15, T:0.16
Consensus pattern (37 bp):
CAAATGCTCATAAGAGCTAGTCCAACCGAAAACACGC
Found at i:23518380 original size:74 final size:74
Alignment explanation
Indices: 23518282--23518424 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 74
23518272 CAAAAATACA
* * * * **
23518282 CCAAATGCTCGTAAGAGCTCATCCACCCAATAAAATGACAAATGCTCTTAAGAGCTAGTCCAACC
1 CCAAAGGCTCATAAGAGCTAATCCACCCAATAAAACGACAAATGCTCCAAAGAGCTAGTCCAACC
23518347 GAAATCACG
66 GAAATCACG
* * *
23518356 CCAAAGGCTCATAAGAGCTAATCCACCCAATAACACGCCAATTGCTCCAAAGAGCTAGTCCAACC
1 CCAAAGGCTCATAAGAGCTAATCCACCCAATAAAACGACAAATGCTCCAAAGAGCTAGTCCAACC
23518421 GAAA
66 GAAA
23518425 ACACATTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.38, C:0.30, G:0.15, T:0.17
Consensus pattern (74 bp):
CCAAAGGCTCATAAGAGCTAATCCACCCAATAAAACGACAAATGCTCCAAAGAGCTAGTCCAACC
GAAATCACG
Found at i:23520282 original size:136 final size:138
Alignment explanation
Indices: 23519976--23520293 Score: 379
Period size: 136 Copynumber: 2.3 Consensus size: 138
23519966 GATATTGAAT
* * * * *
23519976 GTGAGCCCAACTCTAGTTGGGTAAACCAACGATGTTTGCCCCCAGCGCTAGTCGGTTATACCGAT
1 GTGAGCCCAACTCTAGTTGGATAAACCAACGATGTTTGCACCCAACGCTAGTCAGTTATACCGAC
*
23520041 GATTGTGTGCCCAGCACTAGTTAGACAAACTGACAAAAGTTGCGCCTAGCGCTAGTCGAATATAT
66 GATTGTGTGCCCAGCACTAGTT-----AAC-GACAAAAGTTGCGCCCAGCGCTAGTCGAATATAT
23520106 CGAAAAAATCCATA
125 CGAAAAAATCCATA
* * * * * * * *
23520120 GTGAGCCCAACTCTAGCTGGTTAAACCAATGATATTTGCACCCAACGCTATTTAGTTATACTGGC
1 GTGAGCCCAACTCTAGTTGGATAAACCAACGATGTTTGCACCCAACGCTAGTCAGTTATACCGAC
* * * * * *
23520185 GATTGTGTGCCTAGCACTAGTT-A-GACAAAATTTGCTCCCAGTGCTAGTCGAATATATTGACAA
66 GATTGTGTGCCCAGCACTAGTTAACGACAAAAGTTGCGCCCAGCGCTAGTCGAATATATCGAAAA
23520248 AATCCATA
131 AATCCATA
*
23520256 GTGAGCCCAGCTCTAGTTGGATAAACCAACGATGTTTG
1 GTGAGCCCAACTCTAGTTGGATAAACCAACGATGTTTG
23520294 TTTAATTATT
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
136 75 0.50
138 1 0.01
144 74 0.49
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (138 bp):
GTGAGCCCAACTCTAGTTGGATAAACCAACGATGTTTGCACCCAACGCTAGTCAGTTATACCGAC
GATTGTGTGCCCAGCACTAGTTAACGACAAAAGTTGCGCCCAGCGCTAGTCGAATATATCGAAAA
AATCCATA
Found at i:23521339 original size:14 final size:15
Alignment explanation
Indices: 23521320--23521358 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
23521310 ATTTCCTTTA
23521320 CATATTATAATTA-T
1 CATATTATAATTATT
23521334 CATATTATAATTATT
1 CATATTATAATTATT
*
23521349 AATATTATAA
1 CATATTATAA
23521359 CATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
CATATTATAATTATT
Found at i:23522044 original size:19 final size:19
Alignment explanation
Indices: 23522003--23522045 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
23521993 AACCATTTTT
* * *
23522003 ATTTTATTTTTATTTTTAA
1 ATTTTAATTTAATTTTGAA
*
23522022 ATTTTAATTTAATTTTGAG
1 ATTTTAATTTAATTTTGAA
23522041 ATTTT
1 ATTTT
23522046 GATTAGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTAATTTAATTTTGAA
Found at i:23533656 original size:25 final size:24
Alignment explanation
Indices: 23533628--23533716 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
23533618 ATGGGCTACA
*
23533628 AACGAGAAGCTCCTCTGAGCTGAAT
1 AACGAGAAGCTCAT-TGAGCTGAAT
*
23533653 AACGGGAAGCTCATGTGAGCTGAAT
1 AACGAGAAGCTCAT-TGAGCTGAAT
* * *
23533678 ATCGAAAAGCTCATTAGAGCTGTAT
1 AACGAGAAGCTCATT-GAGCTGAAT
23533703 AACG-GCAAGCTCAT
1 AACGAG-AAGCTCAT
23533717 AAGAGCTATG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.98
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (24 bp):
AACGAGAAGCTCATTGAGCTGAAT
Found at i:23533916 original size:22 final size:22
Alignment explanation
Indices: 23533865--23533917 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
23533855 TCATGGAAAT
23533865 TGTAC-ATTTAACAAATAATAA
1 TGTACAATTTAACAAATAATAA
*
23533886 T-T-CAATTTAACAGAT-ATGAA
1 TGTACAATTTAACAAATAAT-AA
23533906 TGTACAATTTAA
1 TGTACAATTTAA
23533918 TTACACGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 2 0.07
22 8 0.30
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (22 bp):
TGTACAATTTAACAAATAATAA
Found at i:23536776 original size:21 final size:21
Alignment explanation
Indices: 23536750--23536798 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
23536740 CAACTCTAAG
23536750 TCATGTGTTAGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
*
23536771 TCATGTGTTGGATAGTTCTTT
1 TCATGTGTTAGATAGTTCTTT
23536792 TCATGTG
1 TCATGTG
23536799 GCTGTAACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.22, T:0.51
Consensus pattern (21 bp):
TCATGTGTTAGATAGTTCTTT
Found at i:23541966 original size:2 final size:2
Alignment explanation
Indices: 23541959--23541983 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23541949 GGTAAAAACA
23541959 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23541984 CACACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23542467 original size:43 final size:45
Alignment explanation
Indices: 23542416--23542503 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 45
23542406 CTTGATCAGT
*
23542416 ATACGACACAT-AAGTACCTAAAAT-GACACACGAAGTGCCTGAA
1 ATACGACACATAAAGTACCTAAAATAGACACACAAAGTGCCTGAA
* *
23542459 ATACGACACATAAAGTGCCTAAAATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTACCTAAAATA-GACACACAAAGTGCCTGA
23542504 TCGACAAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
43 11 0.28
44 12 0.31
46 16 0.41
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (45 bp):
ATACGACACATAAAGTACCTAAAATAGACACACAAAGTGCCTGAA
Found at i:23542474 original size:23 final size:23
Alignment explanation
Indices: 23542416--23542503 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
23542406 CTTGATCAGT
*
23542416 ATACGACACAT-AAGTACCT-AA
1 ATACGACACATAAAGTGCCTGAA
* **
23542437 A-ATGACACACGAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
23542459 ATACGACACATAAAGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
23542482 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
23542504 TCGACAAAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.12
21 8 0.14
22 3 0.05
23 38 0.68
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:23548194 original size:22 final size:21
Alignment explanation
Indices: 23548169--23548224 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 21
23548159 ATATCAACAC
23548169 AAATATAATCAT-ATACATATCA
1 AAATATAAT-ATCAT-CATATCA
23548191 AAATATGAATATCATCATATCA
1 AAATAT-AATATCATCATATCA
23548213 ATAATTATAATA
1 A-AA-TATAATA
23548225 ATCACAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 16 0.53
23 11 0.37
24 3 0.10
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATATAATATCATCATATCA
Found at i:23548435 original size:26 final size:26
Alignment explanation
Indices: 23548362--23548439 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
23548352 TCATCCAATA
* *
23548362 ACATACCAT-TTGTGGACAAGCCACC
1 ACATAACATATTGTGGACAAACCACC
* * *
23548387 ACAT-A-A-ATT-TCGATAAACGACC
1 ACATAACATATTGTGGACAAACCACC
23548409 ACATAACATATTGTGGACAAACCACC
1 ACATAACATATTGTGGACAAACCACC
23548435 ACATA
1 ACATA
23548440 TTTGCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
22 13 0.32
23 4 0.10
24 1 0.03
25 7 0.17
26 15 0.38
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.21
Consensus pattern (26 bp):
ACATAACATATTGTGGACAAACCACC
Found at i:23548456 original size:47 final size:46
Alignment explanation
Indices: 23548362--23548461 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 46
23548352 TCATCCAATA
* *
23548362 ACATACCATTTGTGGACAAGCCACCACATAAATTTCGATAAACGACC
1 ACATAACATTTGTGGACAAACCACCACAT-AATTTCGATAAACGACC
23548409 ACATAACATATTGTGGACAAACCACCACAT-ATTTGCTGAT-AACGACC
1 ACATAACAT-TTGTGGACAAACCACCACATAATTT-C-GATAAACGACC
23548456 ACATAA
1 ACATAA
23548462 TCGCAGATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
46 4 0.08
47 22 0.46
48 22 0.46
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (46 bp):
ACATAACATTTGTGGACAAACCACCACATAATTTCGATAAACGACC
Found at i:23548470 original size:21 final size:21
Alignment explanation
Indices: 23548432--23548471 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23548422 TGGACAAACC
* * *
23548432 ACCACATATTTGCTGATAACG
1 ACCACATAATCGCAGATAACG
23548453 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
23548472 GTTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.23
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACG
Found at i:23561601 original size:25 final size:25
Alignment explanation
Indices: 23561573--23561626 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
23561563 TTGGCTAATG
**
23561573 TGGCCATGTGTTTTGG-TTGTGGTTT
1 TGGCCATGTGACTTGGCTTGT-GTTT
*
23561598 TGGCCATTTGACTTGGCTTGTGTTT
1 TGGCCATGTGACTTGGCTTGTGTTT
23561623 TGGC
1 TGGC
23561627 ATATTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.06, C:0.13, G:0.33, T:0.48
Consensus pattern (25 bp):
TGGCCATGTGACTTGGCTTGTGTTT
Found at i:23568088 original size:25 final size:25
Alignment explanation
Indices: 23568011--23568094 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
23568001 ACAACTCGGG
* * *
23568011 TGAGCATACTGGTTTATAGTTCGTGA
1 TGAGCATACTGATTCACAGTTCGT-A
* * **
23568037 -GAGCATATTGA-TCTACAGCTCAAA
1 TGAGCATACTGATTC-ACAGTTCGTA
23568061 TGAGCATACTGATTCACAGTTCGTA
1 TGAGCATACTGATTCACAGTTCGTA
23568086 TGAGCATAC
1 TGAGCATAC
23568095 ATGTACATGA
Statistics
Matches: 44, Mismatches: 11, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (25 bp):
TGAGCATACTGATTCACAGTTCGTA
Found at i:23571761 original size:39 final size:38
Alignment explanation
Indices: 23571717--23571803 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 38
23571707 AATTTAATTC
23571717 AATTTATTAATTTAGATAGTAAAAAAATTTATTTTATGT
1 AATTTATT-ATTTAGATAGTAAAAAAATTTATTTTATGT
23571756 AA--T-TTATTTAGATAGTAAAAAAATTTATTTTATGT
1 AATTTATTATTTAGATAGTAAAAAAATTTATTTTATGT
23571791 AATTTATTCATTT
1 AATTTATT-ATTT
23571804 TTGACATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
35 32 0.73
36 2 0.05
37 2 0.05
38 2 0.05
39 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (38 bp):
AATTTATTATTTAGATAGTAAAAAAATTTATTTTATGT
Found at i:23571765 original size:35 final size:35
Alignment explanation
Indices: 23571726--23571798 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
23571716 CAATTTATTA
23571726 ATTTAGATAGTAAAAAAATTTATTTTATGTAATTT
1 ATTTAGATAGTAAAAAAATTTATTTTATGTAATTT
23571761 ATTTAGATAGTAAAAAAATTTATTTTATGTAATTT
1 ATTTAGATAGTAAAAAAATTTATTTTATGTAATTT
23571796 ATT
1 ATT
23571799 CATTTTTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (35 bp):
ATTTAGATAGTAAAAAAATTTATTTTATGTAATTT
Found at i:23577181 original size:29 final size:23
Alignment explanation
Indices: 23577112--23577243 Score: 119
Period size: 24 Copynumber: 5.7 Consensus size: 23
23577102 CAAAAACAAT
*
23577112 ATTATTTTAATAGTTTAATATTAA
1 ATTAATTTAATA-TTTAATATTAA
23577136 ATTAATTTAATATTTAATATTAA
1 ATTAATTTAATATTTAATATTAA
* *
23577159 ATTTAATTTAATATTT-CTCTTAA
1 A-TTAATTTAATATTTAATATTAA
* * *
23577182 TAATATTTTATTAATTTAATATTAA
1 -ATTAATTTAAT-ATTTAATATTAA
*
23577207 ATTAA-TT-AT-GTTAATATTAA
1 ATTAATTTAATATTTAATATTAA
*
23577227 ATATAATTTAATTTTTA
1 AT-TAATTTAATATTTA
23577244 TCCTGTAGAT
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
20 12 0.14
21 3 0.03
22 3 0.03
23 28 0.32
24 36 0.41
25 5 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTAATTTAATATTTAATATTAA
Found at i:23577202 original size:71 final size:68
Alignment explanation
Indices: 23577109--23577238 Score: 188
Period size: 71 Copynumber: 1.9 Consensus size: 68
23577099 TTCCAAAAAC
* * * *
23577109 AATATTATTTTAATAGTTTAATATTAAATTAATTTAATATTTAATATTAAATTTAATTTAATATT
1 AATAATATTTTAATAATTTAATATTAAATTAA-TT-AT-GTTAATATTAAATATAATTTAATATT
23577174 TCTCTT
63 TCTCTT
*
23577180 AATAATATTTTATTAATTTAATATTAAATTAATTATGTTAATATTAAATATAATTTAAT
1 AATAATATTTTAATAATTTAATATTAAATTAATTATGTTAATATTAAATATAATTTAAT
23577239 TTTTATCCTG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
68 21 0.39
69 2 0.04
70 2 0.04
71 29 0.54
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (68 bp):
AATAATATTTTAATAATTTAATATTAAATTAATTATGTTAATATTAAATATAATTTAATATTTCT
CTT
Found at i:23577307 original size:62 final size:59
Alignment explanation
Indices: 23577217--23577333 Score: 135
Period size: 62 Copynumber: 1.9 Consensus size: 59
23577207 ATTAATTATG
* ** * *
23577217 TTAATATTAAATATAATTTAATTTTTATCCTGTAGATAAAAATTCTATTATTTTAATAAGAT
1 TTAATATTAAATATAATCTAATACTTAT-CT-T-GATAAAAATTATATTAATTTAATAAGAT
* * *
23577279 TTAATATTAGATTTAATCTAATACTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATATAATCTAATACTTATCTTGATAAAAATTATATTAATTTAATA
23577334 GTAAAGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 21 0.45
60 1 0.02
61 2 0.04
62 23 0.49
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATATAATCTAATACTTATCTTGATAAAAATTATATTAATTTAATAAGAT
Found at i:23584639 original size:75 final size:76
Alignment explanation
Indices: 23584530--23584717 Score: 211
Period size: 75 Copynumber: 2.5 Consensus size: 76
23584520 TGAAATACCA
* * * ** *
23584530 AATATACTGAATGTTGCTCAATCGAGCAAAATCTA-TTGAACACACTGTGTGATGCTCAATGGAG
1 AATATACCGAATGTTGCTCAATCAAGAAAAATCTACTT-AACACACTGAATGATGCTCAATCGAG
*
23584594 CAA-AACCTACTT
65 -AATAACCTACTG
* * * * *
23584606 AATATACCAAATGTTTCTC-ATCAAGAAAAATCTACTTAATATACTGAATGTTGCTCAATCGAGA
1 AATATACCGAATGTTGCTCAATCAAGAAAAATCTACTTAACACACTGAATGATGCTCAATCGAGA
23584670 ATAACCTACTG
66 ATAACCTACTG
* *
23584681 AATATACCGAATATTGCTCAATCAAGTAAAATCTACT
1 AATATACCGAATGTTGCTCAATCAAGAAAAATCTACT
23584718 AAAATATACT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
74 2 0.02
75 57 0.61
76 34 0.37
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (76 bp):
AATATACCGAATGTTGCTCAATCAAGAAAAATCTACTTAACACACTGAATGATGCTCAATCGAGA
ATAACCTACTG
Found at i:23584686 original size:38 final size:38
Alignment explanation
Indices: 23584530--23584734 Score: 189
Period size: 38 Copynumber: 5.4 Consensus size: 38
23584520 TGAAATACCA
*
23584530 AATATACTGAATGTTGCTCAATCGAGCAAAATCTATTG
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
* * ** * * * *
23584568 AACACACTGTGTGATGCTCAATGGAGCAAAACCTACTT
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
** * * * *
23584606 AATATACCAAATGTTTCTC-ATCAAGAAAAATCTACTT
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
*
23584643 AATATACTGAATGTTGCTCAATCGAG-AATAACCTACTG
1 AATATACTGAATGTTGCTCAATCGAGCAA-AATCTACTG
* * * * *
23584681 AATATACCGAATATTGCTCAATCAAGTAAAATCTACTAA
1 AATATACTGAATGTTGCTCAATCGAGCAAAATCTACT-G
23584720 AATATACTGAATGTT
1 AATATACTGAATGTT
23584735 CTTCAACCGA
Statistics
Matches: 129, Mismatches: 34, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
37 32 0.25
38 82 0.64
39 15 0.12
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.30
Consensus pattern (38 bp):
AATATACTGAATGTTGCTCAATCGAGCAAAATCTACTG
Found at i:23584746 original size:77 final size:75
Alignment explanation
Indices: 23584597--23584747 Score: 205
Period size: 77 Copynumber: 2.0 Consensus size: 75
23584587 AATGGAGCAA
* * * *
23584597 AACCTACTTAATATACCAAATGTTTCTCATCAAGAAAAATCTACTTAATATACTGAATGTTGCTC
1 AACCTACTGAATATACCAAATATTGCTCATCAAGAAAAATCTACTAAATATACTGAATGTTGCTC
*
23584662 AATCGAGAAT
66 AACCGAGAAT
* *
23584672 AACCTACTGAATATACCGAATATTGCTCAATCAAGTAAAATCTACTAAAATATACTGAATGTT-C
1 AACCTACTGAATATACCAAATATTGCTC-ATCAAGAAAAATCTACT-AAATATACTGAATGTTGC
23584736 TTCAACCGAGAA
64 -TCAACCGAGAA
23584748 AAAAATCACT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
75 24 0.36
76 17 0.26
77 25 0.38
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (75 bp):
AACCTACTGAATATACCAAATATTGCTCATCAAGAAAAATCTACTAAATATACTGAATGTTGCTC
AACCGAGAAT
Found at i:23588514 original size:29 final size:29
Alignment explanation
Indices: 23588480--23588538 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
23588470 CCAAATATAT
* * *
23588480 TGAATGTTGCTCAATGGAGTAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
23588509 TGAATGTCGCTCAATCGAGCAAAATCTAC
1 TGAATGTCGCTCAATCGAGCAAAATCTAC
23588538 T
1 T
23588539 AAACACACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (29 bp):
TGAATGTCGCTCAATCGAGCAAAATCTAC
Found at i:23588562 original size:38 final size:38
Alignment explanation
Indices: 23588501--23588760 Score: 204
Period size: 38 Copynumber: 6.8 Consensus size: 38
23588491 CAATGGAGTA
* * * *
23588501 AAATCTACTGAATGTCGCTCAATCGAGCAAAATCTACT
1 AAATATACTAAATGTTGCTCAATCGAGCAAAACCTACT
* *
23588539 AAACACACTAAATGTTGCTCAATCGAGCAAAACCTA-T
1 AAATATACTAAATGTTGCTCAATCGAGCAAAACCTACT
* * *
23588576 AGAATATA-TCGAATGTTGCT-AATCGAACAAAATCTACT
1 A-AATATACT-AAATGTTGCTCAATCGAGCAAAACCTACT
* ** * * * *
23588614 AAATATACTGAATGCCGTTGAATCGAGAAAAATCTACT
1 AAATATACTAAATGTTGCTCAATCGAGCAAAACCTACT
* ** * *
23588652 GAGCACACTAAATGTTGCTCAATCGAGCGAAACCTA-T
1 AAATATACTAAATGTTGCTCAATCGAGCAAAACCTACT
** * *
23588689 CAAATATACCGAATGTTTCTCAATCGAGTAAAACCTACT
1 -AAATATACTAAATGTTGCTCAATCGAGCAAAACCTACT
* * *
23588728 AAAATATATTAAATGTTGTTCAATCAAGCAAAA
1 -AAATATACTAAATGTTGCTCAATCGAGCAAAA
23588761 ATTCACTGAC
Statistics
Matches: 170, Mismatches: 45, Indels: 13
0.75 0.20 0.06
Matches are distributed among these distances:
37 31 0.18
38 113 0.66
39 26 0.15
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (38 bp):
AAATATACTAAATGTTGCTCAATCGAGCAAAACCTACT
Found at i:23588704 original size:113 final size:115
Alignment explanation
Indices: 23588499--23588735 Score: 327
Period size: 113 Copynumber: 2.1 Consensus size: 115
23588489 CTCAATGGAG
* * *
23588499 TAAAATCTACTGAATGTCGCTCAATCGAGCAAAATCTACTAAACACACTAAATGTTGCTCAATCG
1 TAAAATATACTGAATGCCGCTCAATCGAGAAAAATCTACTAAACACACTAAATGTTGCTCAATCG
* *
23588564 AGCAAAACCTATAGAATATATCGAATGTTGCT-AATCGAACAAAATCTAC
66 AGCAAAACCTATAGAATATACCGAATGTTGCTCAATCGAACAAAACCTAC
* * * *
23588613 T-AAATATACTGAATGCCGTTGAATCGAGAAAAATCTACTGAGCACACTAAATGTTGCTCAATCG
1 TAAAATATACTGAATGCCGCTCAATCGAGAAAAATCTACTAAACACACTAAATGTTGCTCAATCG
* * **
23588677 AGCGAAACCTATCA-AATATACCGAATGTTTCTCAATCGAGTAAAACCTAC
66 AGCAAAACCTAT-AGAATATACCGAATGTTGCTCAATCGAACAAAACCTAC
23588727 TAAAATATA
1 TAAAATATA
23588736 TTAAATGTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
113 83 0.78
114 17 0.16
115 7 0.07
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (115 bp):
TAAAATATACTGAATGCCGCTCAATCGAGAAAAATCTACTAAACACACTAAATGTTGCTCAATCG
AGCAAAACCTATAGAATATACCGAATGTTGCTCAATCGAACAAAACCTAC
Found at i:23589448 original size:44 final size:44
Alignment explanation
Indices: 23589375--23589475 Score: 184
Period size: 44 Copynumber: 2.3 Consensus size: 44
23589365 CCTTGACATT
* *
23589375 TTTGAGTGTATTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
23589419 TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
1 TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
23589463 TTTGGGTGTTTTT
1 TTTGGGTGTTTTT
23589476 AGGTACCTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.20, C:0.02, G:0.25, T:0.53
Consensus pattern (44 bp):
TTTGGGTGTTTTTGAAGATGGTTTTTGTCTTATAAAATTGTGTA
Found at i:23589466 original size:21 final size:21
Alignment explanation
Indices: 23589398--23589466 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
23589388 GAAGATGGTT
23589398 TTTGTCTTATAAAATTGTGTA
1 TTTGTCTTATAAAATTGTGTA
* * * *
23589419 TTTGGGTGTTTTTGAAGA-TG-GTT
1 TTT--GT-CTTAT-AAAATTGTGTA
23589442 TTTGTCTTATAAAATTGTGTA
1 TTTGTCTTATAAAATTGTGTA
23589463 TTTG
1 TTTG
23589467 GGTGTTTTTA
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 11 0.32
23 7 0.21
24 5 0.15
25 3 0.09
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.54
Consensus pattern (21 bp):
TTTGTCTTATAAAATTGTGTA
Found at i:23604490 original size:25 final size:25
Alignment explanation
Indices: 23604462--23604511 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
23604452 TAGGTCATTG
*
23604462 TTTA-TTATTATTTATATTAATTTCT
1 TTTATTTACTATTTATATT-ATTTCT
23604487 TTTATTTACTATTTATATTATTTCT
1 TTTATTTACTATTTATATTATTTCT
23604512 ATACAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTATTTACTATTTATATTATTTCT
Found at i:23614583 original size:15 final size:15
Alignment explanation
Indices: 23614563--23614593 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23614553 TGAAAAAGAA
23614563 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
23614578 TCAAAAGCAACTAAG
1 TCAAAAGCAACTAAG
23614593 T
1 T
23614594 AAGCTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.16
Consensus pattern (15 bp):
TCAAAAGCAACTAAG
Found at i:23619699 original size:11 final size:11
Alignment explanation
Indices: 23619683--23619708 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23619673 ACTTCTTTCC
23619683 CCTTATAAAGA
1 CCTTATAAAGA
23619694 CCTTATAAAGA
1 CCTTATAAAGA
23619705 CCTT
1 CCTT
23619709 GTTGATCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (11 bp):
CCTTATAAAGA
Found at i:23623595 original size:172 final size:173
Alignment explanation
Indices: 23623309--23623659 Score: 679
Period size: 172 Copynumber: 2.0 Consensus size: 173
23623299 GCACTAACAC
23623309 TGATCTTGGTATTCTATGTTTAAGTTCTATGATATGCAATTTTTTTTAAGTTTTATTTTGAGAAT
1 TGATCTTGGTATTCTATGTTTAAGTTCTATGATATGCAATTTTTTTTAAGTTTTATTTTGAGAAT
23623374 AAATTATTTTTATAAATTTTATATAGAACAATAACAAAAATTTCTTACAGTCGTATACTAGTATT
66 AAATTATTTTTATAAATTTTATATAGAACAATAACAAAAATTTCTTACAGTCGTATACTAGTATT
23623439 TCTTTTTTTAAAGAATTGTTTTAATTTTTTTC-ATTAAATTTG
131 TCTTTTTTTAAAGAATTGTTTTAATTTTTTTCAATTAAATTTG
23623481 TGATCTTGGTATTCTATGTTTAAGTTCTATGATATGCAATTTTTTTTAAGTTTTATTTTGAGAAT
1 TGATCTTGGTATTCTATGTTTAAGTTCTATGATATGCAATTTTTTTTAAGTTTTATTTTGAGAAT
23623546 AAATTATTTTTATAAATTTTATATAGAACAATAACAAAAATTTCTTACAGTCGTATACTAGTATT
66 AAATTATTTTTATAAATTTTATATAGAACAATAACAAAAATTTCTTACAGTCGTATACTAGTATT
23623611 TCTTTTTTTAAAGAATTGTTTTAATTTTTTTCTAATTAAATTTG
131 TCTTTTTTTAAAGAATTGTTTTAATTTTTTTC-AATTAAATTTG
23623655 T-ATCT
1 TGATCT
23623660 AGTTAGTTCA
Statistics
Matches: 177, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
172 162 0.92
173 4 0.02
174 11 0.06
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (173 bp):
TGATCTTGGTATTCTATGTTTAAGTTCTATGATATGCAATTTTTTTTAAGTTTTATTTTGAGAAT
AAATTATTTTTATAAATTTTATATAGAACAATAACAAAAATTTCTTACAGTCGTATACTAGTATT
TCTTTTTTTAAAGAATTGTTTTAATTTTTTTCAATTAAATTTG
Found at i:23626714 original size:43 final size:43
Alignment explanation
Indices: 23626649--23626954 Score: 364
Period size: 43 Copynumber: 7.1 Consensus size: 43
23626639 CGCTATTATC
*
23626649 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTCTCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTC-CCACA
23626692 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * *
23626735 AACGCCGCTATAGATCAAGACCTTTAGAGGCGCTTTTTCCATA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * * * * * *
23626778 GACGCAGCTACAGCTCGAGACCTTTAGCGGCGCTTTTTCCATA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* ** * *
23626821 AACGCCGCTATAGCTTGAGACCTTTAGTGACGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * *
23626864 AACGCCGCTTTAGCTCGAGACCTTTAGCGGCGCTTTTCCCACA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
* * * * * *
23626907 AACGCCGCTATAGAACAA-ACCTTTACCGACACTTTTCGCAAA
1 AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
23626949 AACGCC
1 AACGCC
23626955 ACTAAAAACT
Statistics
Matches: 231, Mismatches: 31, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
42 25 0.11
43 202 0.87
44 4 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (43 bp):
AACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACA
Found at i:23629330 original size:48 final size:49
Alignment explanation
Indices: 23629272--23629371 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
23629262 GAAAGTGACT
*
23629272 TCAAATTTGATCCTATA-TTCATCATTTGCTATCTCCAAGGCATTGAGG
1 TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
23629320 TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
1 TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
23629369 TCA
1 TCA
23629372 TTTCAATCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 16 0.32
49 34 0.68
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (49 bp):
TCAAAATTGATCCTATATTTCATCATTTGCTATCTCCAAGGCATTGAGG
Found at i:23632025 original size:7 final size:7
Alignment explanation
Indices: 23632009--23632070 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
23631999 ACTAATTAAT
*
23632009 CTAAAAC
1 CTAAACC
23632016 CTAAACC
1 CTAAACC
23632023 CTAAACC
1 CTAAACC
*
23632030 CTTAACC
1 CTAAACC
*
23632037 CTTAACC
1 CTAAACC
*
23632044 CTTAACCC
1 C-TAAACC
**
23632052 CTATCCC
1 CTAAACC
*
23632059 CTAACCC
1 CTAAACC
23632066 CTAAA
1 CTAAA
23632071 TTATAAAACA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
7 42 0.89
8 5 0.11
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:23632043 original size:14 final size:14
Alignment explanation
Indices: 23632019--23632065 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
23632009 CTAAAACCTA
*
23632019 AACCCTAAACCCTT
1 AACCCTTAACCCTT
23632033 AACCCTTAACCCTT
1 AACCCTTAACCCTT
* * *
23632047 AACCCCTATCCCCT
1 AACCCTTAACCCTT
23632061 AACCC
1 AACCC
23632066 CTAAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTTAACCCTT
Found at i:23632044 original size:21 final size:21
Alignment explanation
Indices: 23632019--23632070 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
23632009 CTAAAACCTA
* *
23632019 AACCCTAAACCCTTAACCCTT
1 AACCCTAAACCCCTAACCCCT
* *
23632040 AACCCTTAACCCCTATCCCCT
1 AACCCTAAACCCCTAACCCCT
23632061 AACCCCTAAA
1 AA-CCCTAAA
23632071 TTATAAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:23633388 original size:41 final size:41
Alignment explanation
Indices: 23633135--23633384 Score: 238
Period size: 41 Copynumber: 6.1 Consensus size: 41
23633125 TAAATTATTT
* * * *
23633135 TAAATCCCTGAGCATTAGTGGCGCTTT-TTAGAAAACGCCGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGC
* *
23633176 TAAA--ACTAGAGCATTAGCGGCGCTTTCTCAAAAAACGCCGT
1 TAAAGCCCT-GAGCATTAGCGGCGCTTTCTC-AAAAACGCCGC
* * * *
23633217 TAAAGCCTTGAGCATTAGTGGCGCCTCCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
** * * * *
23633258 TAAAGCCCCAAGCATTAGCGACGCCTCCTCAAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
23633299 TATAGCCCCGAGCATTAGCGGCGCTTT-TCCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCT-CAAAAACGCCGC
* * * *
23633340 TAAATCCCTGAGCATTAGCGGCGCTTTATTAAAAACGCCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
23633381 TAAA
1 TAAA
23633385 TCCCCGAAAC
Statistics
Matches: 176, Mismatches: 26, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
39 2 0.01
40 18 0.10
41 135 0.77
42 20 0.11
43 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:23635226 original size:27 final size:27
Alignment explanation
Indices: 23635196--23635286 Score: 121
Period size: 27 Copynumber: 3.3 Consensus size: 27
23635186 GCCTTAATTC
* *
23635196 AATACAGTAACAACGTGG-GTCTAGCCT
1 AATACAGTAACAATGTGGCCT-TAGCCT
23635223 AATACAGTAACAATGTGGCCTTAGCCT
1 AATACAGTAACAATGTGGCCTTAGCCT
* *
23635250 AATATAGTAACAATGTAGGCCTTAGCCC
1 AATACAGTAACAATGT-GGCCTTAGCCT
23635278 AATACAGTA
1 AATACAGTA
23635287 TCGGTACAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
27 38 0.67
28 19 0.33
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
AATACAGTAACAATGTGGCCTTAGCCT
Done.