Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 13 of 284
Found at i:4186203 original size:90 final size:93
Alignment explanation
Indices: 4186041--4186215 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 93
4186031 AGATGCCGAT
* *
4186041 GCCATGTCCCAGACATGGTCTTACATTGGCTCTCATCTATCGGTGTCGATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATC-GTGCCGATGCCATGTCCCAGACA
4186106 GGTCTTACACT-GACACACAACAAGCTGAC
65 GGTCTTACACTAG-CACACAACAAGCTGAC
* * * *
4186135 GCCATGTCCTAGACAT-GTCTTACACTGGCTCTTATACTGT-G-GCCGATG-CATGTCCCATACA
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTATCGTGCCGATGCCATGTCCCAGACA
*
4186196 TGTCTTACACTAGCACACAA
65 GGTCTTACACTAGCACACAA
4186216 ATGACCCAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
90 29 0.40
91 7 0.10
92 1 0.01
93 17 0.24
94 18 0.25
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGTGCCGATGCCATGTCCCAGACAG
GTCTTACACTAGCACACAACAAGCTGAC
Found at i:4188717 original size:43 final size:42
Alignment explanation
Indices: 4188670--4188750 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
4188660 ACCACGTTTT
* * *
4188670 GGACATGGCTTCGAAGATGAGGCTTCGTATAAGACCATATCTG
1 GGACATGGCATCG-AGATGAGACATCGTATAAGACCATATCTG
* *
4188713 GGACATGGCATCGATATGAGACATCGTGTAAGACCATA
1 GGACATGGCATCGAGATGAGACATCGTATAAGACCATA
4188751 GCTAGGCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 21 0.64
43 12 0.36
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (42 bp):
GGACATGGCATCGAGATGAGACATCGTATAAGACCATATCTG
Found at i:4188746 original size:42 final size:42
Alignment explanation
Indices: 4188616--4188808 Score: 138
Period size: 43 Copynumber: 4.5 Consensus size: 42
4188606 ATTCTGTATT
* * * * * *
4188616 AGACCATATCTGGGATATGACATCGTTATGCGATTTCATGTA
1 AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
** * * * * * * *
4188658 AGACCACGTTTTGGACATGGCTTCGAAGATGAGGCTTCGTATA
1 AGACCATATCTAGGACATGGCATCG-ATATGAGACTTCATGTA
* * *
4188701 AGACCATATCTGGGACATGGCATCGATATGAGACATCGTGTA
1 AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
* * *
4188743 AGACCATAGCTAGG-CTATTGGCATCGATATGTGA-TCCCATGTA
1 AGACCATATCTAGGAC-A-TGGCATCGATATGAGACT-TCATGTA
*
4188786 AGACCATATCTAGGATATGGCAT
1 AGACCATATCTAGGACATGGCAT
4188809 TGGCATCTTA
Statistics
Matches: 115, Mismatches: 31, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
41 1 0.01
42 50 0.43
43 64 0.56
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
AGACCATATCTAGGACATGGCATCGATATGAGACTTCATGTA
Found at i:4193245 original size:13 final size:13
Alignment explanation
Indices: 4193228--4193266 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
4193218 TGAATAATCA
4193228 ATTTAATTTAATT
1 ATTTAATTTAATT
*
4193241 TTTTAATTTTAATT
1 ATTTAA-TTTAATT
4193255 ATTTAATTTAAT
1 ATTTAATTTAAT
4193267 AATAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTAATTTAATT
Found at i:4196340 original size:17 final size:18
Alignment explanation
Indices: 4196320--4196353 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4196310 TGAAAAATAA
4196320 TGTG-AGAATAAAAGAAT
1 TGTGAAGAATAAAAGAAT
*
4196337 TGTGAAGATTAAAAGAA
1 TGTGAAGAATAAAAGAA
4196354 AAGCGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
TGTGAAGAATAAAAGAAT
Found at i:4206286 original size:54 final size:54
Alignment explanation
Indices: 4206093--4206289 Score: 281
Period size: 54 Copynumber: 3.6 Consensus size: 54
4206083 ATTGTAGAAA
*
4206093 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTCGACGAGTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
* * * * * *
4206147 GGGATTTAGCTTAGACTGGTAATCCC-ACCGTAAGATATAAG-GTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGA-CATTA-CTAGACGAGTTAATACTATAG
4206201 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
* *
4206255 GGAATTTAACCTAGACTGGTAATCCCGACATTACT
1 GGGATTTAGCCTAGACTGGTAATCCCGACATTACT
4206290 CGAGAGTGCA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
53 5 0.04
54 115 0.93
55 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (54 bp):
GGGATTTAGCCTAGACTGGTAATCCCGACATTACTAGACGAGTTAATACTATAG
Found at i:4207443 original size:19 final size:19
Alignment explanation
Indices: 4207407--4207445 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4207397 CAATATATAA
*
4207407 TATATAATAACAAAAAAAT
1 TATATAATAAAAAAAAAAT
*
4207426 TATATAAAAAAAATAAAAAT
1 TATATAATAAAAA-AAAAAT
4207446 ATGAGTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
TATATAATAAAAAAAAAAT
Found at i:4207646 original size:12 final size:12
Alignment explanation
Indices: 4207626--4207748 Score: 82
Period size: 12 Copynumber: 10.5 Consensus size: 12
4207616 TCTTAAAATT
4207626 ATAAATAATATA
1 ATAAATAATATA
*
4207638 ATGAATAATATA
1 ATAAATAATATA
*
4207650 A-ACATAA-ATA
1 ATAAATAATATA
4207660 ATATAATAA-ATA
1 ATA-AATAATATA
* *
4207672 ATATATGATATA
1 ATAAATAATATA
4207684 CAT-AATATATGATA
1 -ATAAATA-AT-ATA
*
4207698 AAAAATAATATA
1 ATAAATAATATA
*
4207710 ATAAGTAATAT-
1 ATAAATAATATA
4207721 ATATAATAA-A-A
1 ATA-AATAATATA
*
4207732 GTAAA-AATATA
1 ATAAATAATATA
4207743 ATAAAT
1 ATAAAT
4207749 GCTATATAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.02
10 7 0.08
11 19 0.22
12 43 0.51
13 7 0.08
14 7 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:4207674 original size:7 final size:7
Alignment explanation
Indices: 4207621--4207730 Score: 51
Period size: 7 Copynumber: 14.4 Consensus size: 7
4207611 ACAAATCTTA
*
4207621 AAATTAT
1 AAATAAT
4207628 AAATAAT
1 AAATAAT
4207635 ATAATGAAT
1 A-AAT-AAT
4207644 AATATAA-
1 AA-ATAAT
*
4207651 ACATAAAT
1 AAAT-AAT
4207659 AATATAAT
1 AA-ATAAT
4207667 AAATAAT
1 AAATAAT
*
4207674 ATATGATAT
1 AAAT-A-AT
*
4207683 ACATAAT
1 AAATAAT
* *
4207690 ATATGAT
1 AAATAAT
*
4207697 AAAAAAT
1 AAATAAT
4207704 AATATAAT
1 AA-ATAAT
*
4207712 AAGTAAT
1 AAATAAT
4207719 ATATATAAT
1 A-A-ATAAT
4207728 AAA
1 AAA
4207731 AGTAAAAATA
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
6 2 0.03
7 37 0.47
8 22 0.28
9 18 0.23
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (7 bp):
AAATAAT
Found at i:4207721 original size:38 final size:38
Alignment explanation
Indices: 4207628--4207745 Score: 92
Period size: 38 Copynumber: 3.2 Consensus size: 38
4207618 TTAAAATTAT
*
4207628 AAATAATATAATGAA-TAATATAAACATAA-ATAAT-ATAAT
1 AAATAATATAAT-AAGTAATAT--ACATAATAT-ATGATAAA
4207667 AAATAATAT-AT--G--ATATACATAATATATGATAAA
1 AAATAATATAATAAGTAATATACATAATATATGATAAA
* * *
4207700 AAATAATATAATAAGTAATATATATAATAAAAG-TAAA
1 AAATAATATAATAAGTAATATACATAATATATGATAAA
4207737 AATATAATA
1 AA-ATAATA
4207746 AATGCTATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
32 8 0.12
33 15 0.23
34 6 0.09
36 1 0.02
37 6 0.09
38 21 0.32
39 9 0.14
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (38 bp):
AAATAATATAATAAGTAATATACATAATATATGATAAA
Found at i:4207726 original size:16 final size:15
Alignment explanation
Indices: 4207635--4207729 Score: 69
Period size: 16 Copynumber: 6.3 Consensus size: 15
4207625 TATAAATAAT
4207635 ATAATGAATA-ATATA
1 ATAAT-AATATATATA
4207650 A-ACATAA-ATAATATA
1 ATA-ATAATAT-ATATA
4207665 ATAAATAATATATGAT-
1 AT-AATAATATAT-ATA
4207681 ATACATAATATATGATA
1 ATA-ATAATATAT-ATA
4207698 A-AA-AATA-ATATA
1 ATAATAATATATATA
4207710 ATAAGTAATATATATA
1 ATAA-TAATATATATA
4207726 ATAA
1 ATAA
4207730 AAGTAAAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
12 4 0.06
13 5 0.07
14 7 0.10
15 15 0.22
16 30 0.45
17 6 0.09
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATATATATA
Found at i:4207743 original size:17 final size:17
Alignment explanation
Indices: 4207698--4207747 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
4207688 ATATATGATA
4207698 AAAAATA-ATATAATAAGT
1 AAAAATATA-ATAA-AAGT
*
4207716 AATATATATAATAAAAGT
1 AA-AAATATAATAAAAGT
4207734 AAAAATATAATAAA
1 AAAAATATAATAAA
4207748 TGCTATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 11 0.39
18 8 0.29
19 8 0.29
20 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAAATATAATAAAAGT
Found at i:4207756 original size:33 final size:31
Alignment explanation
Indices: 4207688--4207748 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
4207678 GATATACATA
* * *
4207688 ATATATGATAAAAAATAATATAATAAGTAAT
1 ATATATAATAAAAAAAAATATAATAAATAAT
4207719 ATATATAATAAAAGTAAAAATATAATAAAT
1 ATATATAATAAAA--AAAAATATAATAAAT
4207749 GCTATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 12 0.48
33 13 0.52
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (31 bp):
ATATATAATAAAAAAAAATATAATAAATAAT
Found at i:4207771 original size:17 final size:17
Alignment explanation
Indices: 4207719--4207775 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
4207709 AATAAGTAAT
4207719 ATATATAATAAAAGTA-A
1 ATATATAATAAAA-TACA
* *
4207736 AAATATAAT-AAATGC-
1 ATATATAATAAAATACA
4207751 -TATATAATAAAATACA
1 ATATATAATAAAATACA
4207767 ATATA-AATA
1 ATATATAATA
4207776 TATATAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
14 7 0.22
15 6 0.19
16 7 0.22
17 12 0.38
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (17 bp):
ATATATAATAAAATACA
Found at i:4209775 original size:119 final size:119
Alignment explanation
Indices: 4209564--4210303 Score: 1187
Period size: 119 Copynumber: 6.2 Consensus size: 119
4209554 CTTGAGTCTG
* * *
4209564 TTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTGAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
*
4209629 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* * *
4209683 TTTGAGAACATCTGAGAGTCAAATCTGATATGTCCTCAATTTGTTCCTTATAAACACAAGAATAT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
* *
4209748 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAGAGCTAGATCTGCTACA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* *
4209802 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
* *
4209867 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAGAGCTAGATCTGCTACA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* * *
4209921 TTTGTGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
*
4209986 CAAATCATCTTGGATCTACTTCAGTATAAACATCT-AAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
*
4210040 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
*
4210105 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
* * * *
4210159 TTTGAGAAAATCTGAGAGCCAAATCTGCTATGTCCTTGATTTGTTTCTTATAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
* * *
4210224 CAAATCATCTTGGATCTACTTCACTATAAACATCT-AAAGGTTAAATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAA-GCTAGATCTGCTATA
* * *
4210278 TCTGGGAACGTCTGAGAGTCAAATCT
1 TTTGAGAACATCTGAGAGTCAAATCT
4210304 TGTGACAGCC
Statistics
Matches: 580, Mismatches: 38, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
118 5 0.01
119 572 0.99
120 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTATAAACACAAGAATAC
CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
Found at i:4211519 original size:6 final size:6
Alignment explanation
Indices: 4211510--4211547 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
4211500 CATTCCGAAG
*
4211510 TATATA TATACA TATACA TATACA TATACA TATACA TA
1 TATACA TATACA TATACA TATACA TATACA TATACA TA
4211548 AGAATGCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (6 bp):
TATACA
Found at i:4212062 original size:27 final size:27
Alignment explanation
Indices: 4212031--4212208 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
4212021 TAAATTGTAC
4212031 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4212058 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4212084 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4212112 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
4212140 AGCATTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4212167 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4212194 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4212209 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4212149 original size:82 final size:81
Alignment explanation
Indices: 4212032--4212187 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
4212022 AAATTGTACA
* *
4212032 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4212096 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
4212113 GCACTAAGTGTGCGAGTTTGACTATGTAGCATTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
4212178 TGCGAGTTGA
65 TGCGAATTGA
4212188 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:4212199 original size:82 final size:81
Alignment explanation
Indices: 4212028--4212208 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
4212018 GATTAAATTG
* *
4212028 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4212093 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
4212109 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCATTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4212173 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4212191 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4212209 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:4220336 original size:50 final size:50
Alignment explanation
Indices: 4220126--4220324 Score: 325
Period size: 50 Copynumber: 4.1 Consensus size: 50
4220116 ACAGGACAAA
* * * * *
4220126 AATGAGCCATGTAAGTCCATATCAG----ATATATGGCTTTGGAGAGAGA
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
4220172 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
4220222 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
4220272 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
4220322 AAT
1 AAT
4220325 AATTCATGTA
Statistics
Matches: 144, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
46 23 0.16
50 121 0.84
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (50 bp):
AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
Found at i:4222451 original size:27 final size:27
Alignment explanation
Indices: 4222421--4222474 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
4222411 GTGAAGATTG
4222421 GAAGACGGTTGGAGAATCAACACACTA
1 GAAGACGGTTGGAGAATCAACACACTA
*
4222448 GAAGACGGTTGGAGAATCAATACACTA
1 GAAGACGGTTGGAGAATCAACACACTA
4222475 CCAACTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (27 bp):
GAAGACGGTTGGAGAATCAACACACTA
Found at i:4227348 original size:41 final size:41
Alignment explanation
Indices: 4227293--4227547 Score: 264
Period size: 41 Copynumber: 6.3 Consensus size: 41
4227283 GGGCACAAAA
* **
4227293 GTGC-ATTCAGGGGTACCGAAGTACAAACAAAGGCACGTAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * *
4227333 GTGCAATTCAAGGGTACCAAAGTGC-AACAGAGGCACATAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * * **
4227373 GTGCAATTCAAAGGTGCCAAAGTATAAGTAGGGGCACGTAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * *
4227414 GTGCAATTTAAGTGTACCGAAGTACAAACAGGGGCATGTAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
* * * * *
4227455 GTGCAATTTAGGGGTTCCGAAGTACAAATAGGGGCACATAT
1 GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
**
4227496 GTGCAATTC-AGGGTTATTGAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAAGGG-TACCGAAGTACAAACAGGGGCACGTAT
*
4227537 GTGGAATTCAA
1 GTGCAATTCAA
4227548 CAATAATATT
Statistics
Matches: 175, Mismatches: 36, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
40 41 0.23
41 133 0.76
42 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
GTGCAATTCAAGGGTACCGAAGTACAAACAGGGGCACGTAT
Found at i:4231208 original size:25 final size:23
Alignment explanation
Indices: 4231165--4231215 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
4231155 TAAAGTCTTT
*
4231165 AATAGATTAAACTAAAAGAAATTGA
1 AATACATTAAACTAAAAG--ATTGA
* *
4231190 AATACATTAAATTAGAAGATTGA
1 AATACATTAAACTAAAAGATTGA
4231213 AAT
1 AAT
4231216 TCCATTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
25 15 0.65
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (23 bp):
AATACATTAAACTAAAAGATTGA
Found at i:4231395 original size:10 final size:11
Alignment explanation
Indices: 4231378--4231410 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
4231368 AAAAAAGTGC
4231378 AGAGAAAACTA
1 AGAGAAAACTA
4231389 A-AGAAAACCTA
1 AGAGAAAA-CTA
4231400 AGAGAAAACTA
1 AGAGAAAACTA
4231411 TTTAAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.30
11 8 0.40
12 6 0.30
ACGTcount: A:0.64, C:0.12, G:0.15, T:0.09
Consensus pattern (11 bp):
AGAGAAAACTA
Found at i:4236721 original size:18 final size:20
Alignment explanation
Indices: 4236682--4236718 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4236672 AAATATTAAG
*
4236682 GTAATATAATCCTACAAAAT
1 GTAATATAATCATACAAAAT
4236702 GTAATATAAT-ATACAAA
1 GTAATATAATCATACAAA
4236719 TGTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (20 bp):
GTAATATAATCATACAAAAT
Found at i:4238876 original size:47 final size:46
Alignment explanation
Indices: 4238807--4238980 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
4238797 GTAAGGTACT
* * *
4238807 GATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTCGAAGCC
* *
4238854 GATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCAT-ATCTCGAAGCC
* * * * *
4238902 GATGCATGTCTCAGACATGTCTTACA-TGGCTTATGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAAGCC
*
4238947 GATGCATGTCCTAGACATGTCTTACACTAGCTCA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCA
4238981 CACACAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
45 35 0.32
46 17 0.16
47 49 0.45
48 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTCGAAGCC
Found at i:4247433 original size:47 final size:46
Alignment explanation
Indices: 4247324--4247434 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 46
4247314 CCGGGATAAG
*
4247324 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAG-A
* * *
4247371 CACAAAGTACTTCATCGGAACAAATCTGGAACTTTAACAGTAGTCA-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-T-AGA
4247418 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
4247435 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 1 0.02
49 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGA
Found at i:4248936 original size:329 final size:329
Alignment explanation
Indices: 4248338--4248942 Score: 1183
Period size: 329 Copynumber: 1.8 Consensus size: 329
4248328 TAAGAAAAAA
4248338 TACTTTAACACATTTAATATTGTTACCAACTATTACACATGTTATACAATATTAACACACACATG
1 TACTTTAACACATTTAATATTGTTACCAACTATTACACATGTTATACAATATTAACACACACATG
*
4248403 TCACTTAGGGTCTAATTGCTAGATTAGTCCCTTTACTAATCTTTAATCTATAATTAAAATTTTAT
66 ACACTTAGGGTCTAATTGCTAGATTAGTCCCTTTACTAATCTTTAATCTATAATTAAAATTTTAT
4248468 ACCTTATGCAATTTAGTCCTTATTCTAAATTCAAGCTACTTAACTTAATCAAACATTAATCAACC
131 ACCTTATGCAATTTAGTCCTTATTCTAAATTCAAGCTACTTAACTTAATCAAACATTAATCAACC
4248533 ACTCAACTATAATTCATAAATATTTCTAATAAATATTCATGAATTAATTTCACAAAAACAGTACT
196 ACTCAACTATAATTCATAAATATTTCTAATAAATATTCATGAATTAATTTCACAAAAACAGTACT
4248598 CAAGACTCGATTTCTGATACCGTAACTTTCGATTCATTGCAGGACTGGTAATTTTGCCATGAAAT
261 CAAGACTCGATTTCTGATACCGTAACTTTCGATTCATTGCAGGACTGGTAATTTTGCCATGAAAT
4248663 GTGC
326 GTGC
*
4248667 TACTTTAACACATTTAATATTTTTACCAACTATTACACATGTTATACAATATTAACACACACATG
1 TACTTTAACACATTTAATATTGTTACCAACTATTACACATGTTATACAATATTAACACACACATG
*
4248732 ACACTTAGGGTCTAATTGCTAGATTAGTCCCTTTACTAATCTTTAATCTATAATTAAACTTTTAT
66 ACACTTAGGGTCTAATTGCTAGATTAGTCCCTTTACTAATCTTTAATCTATAATTAAAATTTTAT
4248797 ACCTTATGCAATTTAGTCCTTATTCTAAATTCAAGCTACTTAACTTAATCAAACATTAATCAACC
131 ACCTTATGCAATTTAGTCCTTATTCTAAATTCAAGCTACTTAACTTAATCAAACATTAATCAACC
4248862 ACTCAACTATAATTCATAAATATTTCTAATAAATATTCATGAATTAATTTCACAAAAACAGTACT
196 ACTCAACTATAATTCATAAATATTTCTAATAAATATTCATGAATTAATTTCACAAAAACAGTACT
4248927 CAAGACTCGATTTCTG
261 CAAGACTCGATTTCTG
4248943 GAAACAGTAC
Statistics
Matches: 273, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
329 273 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (329 bp):
TACTTTAACACATTTAATATTGTTACCAACTATTACACATGTTATACAATATTAACACACACATG
ACACTTAGGGTCTAATTGCTAGATTAGTCCCTTTACTAATCTTTAATCTATAATTAAAATTTTAT
ACCTTATGCAATTTAGTCCTTATTCTAAATTCAAGCTACTTAACTTAATCAAACATTAATCAACC
ACTCAACTATAATTCATAAATATTTCTAATAAATATTCATGAATTAATTTCACAAAAACAGTACT
CAAGACTCGATTTCTGATACCGTAACTTTCGATTCATTGCAGGACTGGTAATTTTGCCATGAAAT
GTGC
Found at i:4255058 original size:47 final size:47
Alignment explanation
Indices: 4254949--4255051 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 47
4254939 CCGGGATAAG
** *
4254949 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCAAAACAAATCCGGAACTTTAACAGTATAGTA
* * * *
4254996 CACAAAGTACTTCATCAAAACAAATCTGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCAAAACAAATCCGGAACTTTAACAGTA-TAGTA
4255043 CACATAGTG
1 CACATAGTG
4255052 TCTCATCGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCAAAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:4261571 original size:17 final size:17
Alignment explanation
Indices: 4261549--4261590 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4261539 ACAAAATCTA
4261549 AATTT-ATTTCCCAATTT
1 AATTTAATTT-CCAATTT
*
4261566 AATTTAATTTTCAATTT
1 AATTTAATTTCCAATTT
4261583 AA-TTAATT
1 AATTTAATT
4261591 ATTTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTTAATTTCCAATTT
Found at i:4270944 original size:44 final size:44
Alignment explanation
Indices: 4270895--4271035 Score: 117
Period size: 43 Copynumber: 3.2 Consensus size: 44
4270885 ATTTTCTTGA
4270895 TTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGT
1 TTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGT
* * * * *** ** * *
4270939 TTCTTG-ATTTTCTT-GAA-AACAAGAAAGTGAATCTTGATTTTCTTGA
1 TTCTTGAAATCTCTTCGAACATC-A-AAATTGGGCCAAGA--TTC-GGT
4270985 TTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGT
1 TTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGT
4271029 TTCTTGA
1 TTCTTGA
4271036 TTTTCTTGAA
Statistics
Matches: 67, Mismatches: 22, Indels: 16
0.64 0.21 0.15
Matches are distributed among these distances:
41 2 0.03
42 4 0.06
43 14 0.21
44 14 0.21
45 6 0.09
46 7 0.10
47 14 0.21
48 4 0.06
49 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (44 bp):
TTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGT
Found at i:4270991 original size:90 final size:90
Alignment explanation
Indices: 4270875--4271077 Score: 390
Period size: 90 Copynumber: 2.3 Consensus size: 90
4270865 TTCCAAGATT
4270875 TGAATTCTTGATTTTCTTGATTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGTT
1 TGAA-TCTTGATTTTCTTGATTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGTT
4270940 TCTTGATTTTCTTGAAAACAAGAAAG
65 TCTTGATTTTCTTGAAAACAAGAAAG
4270966 TGAATCTTGATTTTCTTGATTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGTTT
1 TGAATCTTGATTTTCTTGATTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGTTT
4271031 CTTGATTTTCTTGAAAACAAGAAAG
66 CTTGATTTTCTTGAAAACAAGAAAG
4271056 TGAATCTTGATTTTCTTG-TTCT
1 TGAATCTTGATTTTCTTGATTCT
4271078 CTCGTGTATG
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
89 4 0.04
90 104 0.93
91 4 0.04
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (90 bp):
TGAATCTTGATTTTCTTGATTCTTGAAATCTCTTCGAACATCAAAATTGGGCCAAGATTCGGTTT
CTTGATTTTCTTGAAAACAAGAAAG
Found at i:4281421 original size:19 final size:18
Alignment explanation
Indices: 4281385--4281424 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4281375 TTTCCACTCG
*
4281385 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
4281403 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
4281422 TTT
1 TTT
4281425 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:4282540 original size:12 final size:12
Alignment explanation
Indices: 4282523--4282580 Score: 89
Period size: 12 Copynumber: 4.8 Consensus size: 12
4282513 AACGGAAACC
4282523 AATTTTTTTTTG
1 AATTTTTTTTTG
4282535 AATTTTTTTTTG
1 AATTTTTTTTTG
4282547 AATTTTTTTTTG
1 AATTTTTTTTTG
*
4282559 AATTTCTTTTTCG
1 AATTT-TTTTTTG
*
4282572 AGTTTTTTT
1 AATTTTTTT
4282581 CGAGAAACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
12 33 0.77
13 10 0.23
ACGTcount: A:0.16, C:0.03, G:0.09, T:0.72
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:4290286 original size:35 final size:35
Alignment explanation
Indices: 4290234--4290309 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
4290224 TAAGATGAAT
* *
4290234 TTAATTAACTAATATGAGCAATTTATTCCAACAAC
1 TTAAATAACTAAGATGAGCAATTTATTCCAACAAC
* * *
4290269 TTAAATAACTAAGATGAGTAATTTATTCGAGCAAC
1 TTAAATAACTAAGATGAGCAATTTATTCCAACAAC
4290304 -TAAATA
1 TTAAATA
4290310 CTTATTCCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 6 0.17
35 30 0.83
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
TTAAATAACTAAGATGAGCAATTTATTCCAACAAC
Found at i:4293522 original size:51 final size:51
Alignment explanation
Indices: 4293446--4293550 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 51
4293436 TACTATTTAC
*
4293446 TTTGATTCATGTTTATTAAGTGTGTCCTAATTCGAACAGCATCAATGCATG
1 TTTGATTCATGTTTATTAAGTGTGTCCTAATTCGAACAACATCAATGCATG
* * * *
4293497 TTTGATTTATGTTTATTAAGTGTGTCTTAATTGGGACAACATCAATGCATG
1 TTTGATTCATGTTTATTAAGTGTGTCCTAATTCGAACAACATCAATGCATG
4293548 TTT
1 TTT
4293551 TAAGTCAGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (51 bp):
TTTGATTCATGTTTATTAAGTGTGTCCTAATTCGAACAACATCAATGCATG
Found at i:4294191 original size:22 final size:23
Alignment explanation
Indices: 4294136--4294178 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4294126 AATATGTTTA
4294136 TTTACAGTTTATTAAATTAAGTG
1 TTTACAGTTTATTAAATTAAGTG
*
4294159 TTTACATTTTATT-AATTAAG
1 TTTACAGTTTATTAAATTAAG
4294179 CTTATTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (23 bp):
TTTACAGTTTATTAAATTAAGTG
Found at i:4300566 original size:24 final size:25
Alignment explanation
Indices: 4300513--4300566 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
4300503 AACAAATTCT
* *
4300513 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
4300538 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
4300561 TTTTTT
1 TTTTTT
4300567 TATCACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:4302838 original size:14 final size:14
Alignment explanation
Indices: 4302819--4302846 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4302809 CTAGACCGTA
4302819 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
4302833 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
4302847 CTTTCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (14 bp):
TGCAATTTTTTTTT
Found at i:4304709 original size:24 final size:26
Alignment explanation
Indices: 4304658--4304709 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
4304648 ATTTATGGCT
*
4304658 TCAAACACAAACATATATTTATATAC
1 TCAAACACAAACATATACTTATATAC
4304684 TCAAAC-C-AACATTATACTTATA-AC
1 TCAAACACAAACA-TATACTTATATAC
4304708 TC
1 TC
4304710 CATTTACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (26 bp):
TCAAACACAAACATATACTTATATAC
Found at i:4310979 original size:28 final size:28
Alignment explanation
Indices: 4310886--4311009 Score: 151
Period size: 28 Copynumber: 4.4 Consensus size: 28
4310876 GAGCCGTATA
4310886 CAATAACAGT-ATAGTGTAGGCCTTAGCC
1 CAAT-ACAGTAATAGTGTAGGCCTTAGCC
* * * * *
4310914 CAAAATAGTAACAATGTGGGCCTTAGCC
1 CAATACAGTAATAGTGTAGGCCTTAGCC
* *
4310942 CAATATAGTAATAGTGTGGGCCTTAGCC
1 CAATACAGTAATAGTGTAGGCCTTAGCC
* *
4310970 CAGTACAGTAATGGTGTAGGCCTTAGCC
1 CAATACAGTAATAGTGTAGGCCTTAGCC
4310998 CAATACAGTAAT
1 CAATACAGTAAT
4311010 TAGTACAGTG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 4 0.05
28 78 0.95
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
CAATACAGTAATAGTGTAGGCCTTAGCC
Found at i:4311364 original size:27 final size:27
Alignment explanation
Indices: 4311334--4311543 Score: 244
Period size: 27 Copynumber: 7.8 Consensus size: 27
4311324 TATAACAGTT
* *
4311334 ATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTTTGAGGGTATTTTAGTC
* *
4311361 ATTTTACCCTTTG-TGGTATTTCAGTC
1 ATTTTACCCTTTGAGGGTATTTTAGTC
* *
4311387 ATTTTACCTTTTGGGGGTATTTTAGTC
1 ATTTTACCCTTTGAGGGTATTTTAGTC
*
4311414 ATTTTATCCTTTGAGGGTATTTT-GATC
1 ATTTTACCCTTTGAGGGTATTTTAG-TC
* **
4311441 ATTTTACCTTTTGAGGGTATTTCGGTC
1 ATTTTACCCTTTGAGGGTATTTTAGTC
* *
4311468 ATTTTACCCTTTGGGGGTATTTCAGTC
1 ATTTTACCCTTTGAGGGTATTTTAGTC
* * *
4311495 ATTTTACCCTCTAAGGGTATTTTGGTC
1 ATTTTACCCTTTGAGGGTATTTTAGTC
**
4311522 ATTTTACCCTCCGAGGGTATTT
1 ATTTTACCCTTTGAGGGTATTT
4311544 CGATCATTTG
Statistics
Matches: 157, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 24 0.15
27 132 0.84
28 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTTAGTC
Found at i:4311486 original size:81 final size:81
Alignment explanation
Indices: 4311320--4311552 Score: 299
Period size: 81 Copynumber: 2.9 Consensus size: 81
4311310 TGATCTCCTA
** * * *
4311320 GGGGTATAACAGTTATTTTACCCTATAAGGGTATTTT-AGTCATTTTACCCTTTG-TGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTCTAAGGGTATTTTGA-TCATTTTACCCTTTGAGGGTATTTC
* *
4311383 AGTCATTTTACCTTTTG
65 GGTCATTTTACCCTTTG
* * * * *
4311400 GGGGTATTTTAGTCATTTTATCCTTTGAGGGTATTTTGATCATTTTACCTTTTGAGGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTCTAAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCG
4311465 GTCATTTTACCCTTTG
66 GTCATTTTACCCTTTG
* **
4311481 GGGGTATTTCAGTCATTTTACCCTCTAAGGGTATTTTGGTCATTTTACCCTCCGAGGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTCTAAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCG
*
4311546 ATCATTT
66 GTCATTT
4311553 GCCCACAAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 44 0.34
81 87 0.66
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (81 bp):
GGGGTATTTCAGTCATTTTACCCTCTAAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCG
GTCATTTTACCCTTTG
Found at i:4318516 original size:28 final size:28
Alignment explanation
Indices: 4318484--4318614 Score: 104
Period size: 28 Copynumber: 4.7 Consensus size: 28
4318474 ACAGTGTGGA
*
4318484 CCTTAGCCCAA-AGTAGTAACAATATGGG
1 CCTTAGCCCAATA-CAGTAACAATATGGG
* * *
4318512 CCTTAGCCCAATACAGTAATAGTGTGGG
1 CCTTAGCCCAATACAGTAACAATATGGG
* * * * *
4318540 CCTTAGCCCAGTACAATAATAGTGTGGG
1 CCTTAGCCCAATACAGTAACAATATGGG
* * * * * *
4318568 CCGTAGCCCAGTACAGTAATAGTGT-GT
1 CCTTAGCCCAATACAGTAACAATATGGG
4318595 CCTTAGCCCAATACAGTAAC
1 CCTTAGCCCAATACAGTAAC
4318615 CAGTACTGTG
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
27 18 0.20
28 71 0.79
29 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (28 bp):
CCTTAGCCCAATACAGTAACAATATGGG
Found at i:4318956 original size:27 final size:26
Alignment explanation
Indices: 4318926--4318977 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4318916 TTTGATCTCC
4318926 TAGGAGTATAACAGTCATTTTACCCTA
1 TAGG-GTATAACAGTCATTTTACCCTA
***
4318953 TAGGGTATTTTAGTCATTTTACCCT
1 TAGGGTATAACAGTCATTTTACCCT
4318978 TTGTGGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.40
Consensus pattern (26 bp):
TAGGGTATAACAGTCATTTTACCCTA
Found at i:4319066 original size:54 final size:54
Alignment explanation
Indices: 4318940--4319159 Score: 224
Period size: 54 Copynumber: 4.1 Consensus size: 54
4318930 AGTATAACAG
*
4318940 TCATTTTACCCTAT-A-GGGTATTTTAGTCATTTTACCCTTT-GTGGTATTTCTG-
1 TCATTTTACCCT-TCAGGGGTATTTTAGTCATTTTACCCTTTAGGGGTATTTC-GA
** *
4318992 TCATTTTACTTTTCAGGGGTATTTTAGTCATTTTA-TCTTTCAGGGGTATTTCGA
1 TCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTT-AGGGGTATTTCGA
* * *
4319046 TCATTTTACCCTTC-GAGGGTATTTCAATTATTTTACCCTTTAGGGGTATTTC-A
1 TCATTTTACCCTTCAG-GGGTATTTTAGTCATTTTACCCTTTAGGGGTATTTCGA
* * *
4319099 GCCATTTTACCC-TCTAGGGGTATTTTGGTCATTTTACCCTCT-GAGGGTATTTCGA
1 -TCATTTTACCCTTC-AGGGGTATTTTAGTCATTTTACCCTTTAG-GGGTATTTCGA
4319154 TCATTT
1 TCATTT
4319160 GCCTACAAAT
Statistics
Matches: 139, Mismatches: 17, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
51 1 0.01
52 15 0.11
53 25 0.18
54 92 0.66
55 6 0.04
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (54 bp):
TCATTTTACCCTTCAGGGGTATTTTAGTCATTTTACCCTTTAGGGGTATTTCGA
Found at i:4319092 original size:81 final size:81
Alignment explanation
Indices: 4318941--4319159 Score: 225
Period size: 81 Copynumber: 2.7 Consensus size: 81
4318931 GTATAACAGT
* * * * ** *
4318941 CATTTTACCCTATA-GGGTATTT-TAGTCATTTTACCCTTTG-TGGTATTTCTGTCATTTTACTT
1 CATTTTACCCTCTAGGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCAATCATTTTACCT
* *
4319003 TTCAGGGGTATTTTAGT
65 TTCAGGGGTATTTCAGC
* * *
4319020 CATTTTA-TCTTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATTATTTTACCC
1 CATTTTACCCTCT-AGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATCATTTTA-CC
4319084 TTT-AGGGGTATTTCAGC
64 TTTCAGGGGTATTTCAGC
* * *
4319101 CATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCC-TCTGAGGGTATTTCGATCATTT
1 CATTTTACCCTCTAGGGGTATTTCGATCATTTTACCCTTC-GAGGGTATTTCAATCATTT
4319160 GCCTACAAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 8 0.07
80 24 0.21
81 74 0.64
82 7 0.06
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (81 bp):
CATTTTACCCTCTAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAATCATTTTACCTT
TCAGGGGTATTTCAGC
Found at i:4319137 original size:27 final size:27
Alignment explanation
Indices: 4318937--4319159 Score: 201
Period size: 27 Copynumber: 8.3 Consensus size: 27
4318927 AGGAGTATAA
*
4318937 CAGTCATTTTACCCTATA-GGGTATTT
1 CAGTCATTTTACCCTTTAGGGGTATTT
* *
4318963 TAGTCATTTTACCCTTT-GTGGTATTT
1 CAGTCATTTTACCCTTTAGGGGTATTT
* *
4318989 CTGTCATTTTA-CTTTTCAGGGGTATTT
1 CAGTCATTTTACCCTTT-AGGGGTATTT
* *
4319016 TAGTCATTTTA-TCTTTCAGGGGTATTT
1 CAGTCATTTTACCCTTT-AGGGGTATTT
*
4319043 C-GATCATTTTACCC-TTCGAGGGTATTT
1 CAG-TCATTTTACCCTTTAG-GGGTATTT
* *
4319070 CAATTATTTTACCCTTTAGGGGTATTT
1 CAGTCATTTTACCCTTTAGGGGTATTT
* *
4319097 CAGCCATTTTACCCTCTAGGGGTATTT
1 CAGTCATTTTACCCTTTAGGGGTATTT
** *
4319124 TGGTCATTTTACCCTCT-GAGGGTATTT
1 CAGTCATTTTACCCTTTAG-GGGTATTT
4319151 C-GATCATTT
1 CAG-TCATTT
4319160 GCCTACAAAT
Statistics
Matches: 162, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
25 4 0.02
26 35 0.22
27 119 0.73
28 4 0.02
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTAGGGGTATTT
Found at i:4334880 original size:30 final size:28
Alignment explanation
Indices: 4334846--4334901 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
4334836 GTGATTAAAT
4334846 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
4334876 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
4334902 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:4336913 original size:23 final size:22
Alignment explanation
Indices: 4336861--4336913 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
4336851 TCCACGTCTT
*
4336861 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
4336883 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
4336906 TTTCTTTT
1 TTTCTTTT
4336914 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:4346239 original size:62 final size:61
Alignment explanation
Indices: 4346155--4346485 Score: 333
Period size: 62 Copynumber: 5.3 Consensus size: 61
4346145 GTCTGTACCT
* * * *
4346155 AGGCCATGTAACTCATTGTTTGTGGTACAATACCACACGACTAGGGACACGAGCTTGTGCCC
1 AGGCCGTGTAACTCACTGTTTGTGGTACAAGACCACACGAC-AGGGACACGAGCGTGTGCCC
* *
4346217 AGGCCGTGTAACTCACTATTTGTGGTACAAGACCACACGGCCAGGGACAC-AGGCGTGTGCCC
1 AGGCCGTGTAACTCACTGTTTGTGGTACAAGACCACAC-GACAGGGACACGA-GCGTGTGCCC
* * * * * *
4346279 AAGTCGTGTAACTCACTTTTTGTGATACAAGACCACACGAACAGGGACACGGGCGTGTGCCT
1 AGGCCGTGTAACTCACTGTTTGTGGTACAAGACCACACG-ACAGGGACACGAGCGTGTGCCC
* * * * * *
4346341 AGACCGTGTAACTCACGGTTTGTGGTACAAGATCACACAGGCAGGGACACGACCATGTGCCC
1 AGGCCGTGTAACTCACTGTTTGTGGTACAAGACCACAC-GACAGGGACACGAGCGTGTGCCC
* * * * * * * *
4346403 AGGTCATGTAACTCACTTTTTTTGGTACAAGATCACACGGGCAGGGACATG-GACGTGTGTCC
1 AGGCCGTGTAACTCACTGTTTGTGGTACAAGACCACAC-GACAGGGACACGAG-CGTGTGCCC
* *
4346465 AAGCCGTGTAACTCATTGTTT
1 AGGCCGTGTAACTCACTGTTT
4346486 ATGCTTCGGA
Statistics
Matches: 222, Mismatches: 41, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
61 2 0.01
62 217 0.98
63 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (61 bp):
AGGCCGTGTAACTCACTGTTTGTGGTACAAGACCACACGACAGGGACACGAGCGTGTGCCC
Found at i:4346349 original size:124 final size:122
Alignment explanation
Indices: 4346159--4346479 Score: 378
Period size: 124 Copynumber: 2.6 Consensus size: 122
4346149 GTACCTAGGC
* * * *
4346159 CATGTAACTCA-TTGTTTGTGGTACAATACCACACGACTAGGGACACGAGCTTGTGCCCAGGCCG
1 CATGTAACTCACTT-TTTGTGGTACAAGACCACACGAC-AGGGACACGGGCGTGTG-CCAAGCCG
* * *
4346223 TGTAACTCACTATTTGTGGTACAAGACCACAC-GGCCAGGGACAC-AGGCGTGTGCCCAAGT
63 TGTAACTCACGATTTGTGGTACAAGACCACACAGG-CAGGGACACGA-CCATGTGCCCAAGT
* * *
4346283 CGTGTAACTCACTTTTTGTGATACAAGACCACACGAACAGGGACACGGGCGTGTGCCTAGACCGT
1 CATGTAACTCACTTTTTGTGGTACAAGACCACACG-ACAGGGACACGGGCGTGTGCCAAG-CCGT
* * *
4346348 GTAACTCACGGTTTGTGGTACAAGATCACACAGGCAGGGACACGACCATGTGCCCAGGT
64 GTAACTCACGATTTGTGGTACAAGACCACACAGGCAGGGACACGACCATGTGCCCAAGT
* * * * *
4346407 CATGTAACTCACTTTTTTTGGTACAAGATCACACGGGCAGGGACATGGACGTGTGTCCAAGCCGT
1 CATGTAACTCACTTTTTGTGGTACAAGACCACAC-GACAGGGACACGGGCGTGTG-CCAAGCCGT
4346472 GTAACTCA
64 GTAACTCA
4346480 TTGTTTATGC
Statistics
Matches: 169, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
123 3 0.02
124 154 0.91
125 12 0.07
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.22
Consensus pattern (122 bp):
CATGTAACTCACTTTTTGTGGTACAAGACCACACGACAGGGACACGGGCGTGTGCCAAGCCGTGT
AACTCACGATTTGTGGTACAAGACCACACAGGCAGGGACACGACCATGTGCCCAAGT
Found at i:4346502 original size:186 final size:186
Alignment explanation
Indices: 4346152--4346488 Score: 455
Period size: 186 Copynumber: 1.8 Consensus size: 186
4346142 TAGGTCTGTA
* ** * * *
4346152 CCTAGGCCATGTAACTCATTGTTTGTGGTACAATACCACACGACTAGGGACACGAGCTTGTGCCC
1 CCTAGACCATGTAACTCACGGTTTGTGGTACAAGACCACACGACTAGGGACACGACCATGTGCCC
*
4346217 AGGCCGTGTAACTCACTATTTGTGGTACAAGACCACACGGCCAGGGACACAGGCGTGTGCCCAAG
66 AGGCCATGTAACTCACTATTTGTGGTACAAGACCACACGGCCAGGGACACAGGCGTGTGCCCAAG
* *
4346282 TCGTGTAACTCACTTTTTGTGATACAAGACCACACGAACAGGGACACGGGCGTGTG
131 CCGTGTAACTCACTTTTTATGATACAAGACCACACGAACAGGGACACGGGCGTGTG
* * *
4346338 CCTAGACCGTGTAACTCACGGTTTGTGGTACAAGATCACACAGGC-AGGGACACGACCATGTGCC
1 CCTAGACCATGTAACTCACGGTTTGTGGTACAAGACCACAC-GACTAGGGACACGACCATGTGCC
* * * * * * *
4346402 CAGGTCATGTAACTCACTTTTTTTGGTACAAGATCACACGGGCAGGGACA-TGGACGTGTGTCCA
65 CAGGCCATGTAACTCACTATTTGTGGTACAAGACCACACGGCCAGGGACACAGG-CGTGTGCCCA
4346466 AGCCGTGTAACTCA-TTGTTTATG
129 AGCCGTGTAACTCACTT-TTTATG
4346489 CTTCGGAACC
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
185 4 0.03
186 123 0.95
187 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (186 bp):
CCTAGACCATGTAACTCACGGTTTGTGGTACAAGACCACACGACTAGGGACACGACCATGTGCCC
AGGCCATGTAACTCACTATTTGTGGTACAAGACCACACGGCCAGGGACACAGGCGTGTGCCCAAG
CCGTGTAACTCACTTTTTATGATACAAGACCACACGAACAGGGACACGGGCGTGTG
Found at i:4350012 original size:64 final size:65
Alignment explanation
Indices: 4349903--4350063 Score: 157
Period size: 64 Copynumber: 2.5 Consensus size: 65
4349893 TGTTCTTCTT
*** * * **
4349903 ATACTAAAACCTTGTTCCCATCCACCGAACC-TCTACAAAGTCATAATTTACTTAATAATATTTA
1 ATACTAAAACCCCATTCTCATCCACCGAACCTTCTACAAAGCCATAATTTACTTAATAATATGCA
* * * * *
4349967 ATATTGAAACCCCATTTTCATCCACCGAACCTTCGTA-AAA-CCATAATTTTCTTAATGATATGC
1 ATACTAAAACCCCATTCTCATCCACCGAACCTTC-TACAAAGCCATAATTTACTTAATAATATGC
4350030 A
65 A
* * *
4350031 ATGCTAAAACCCTATTCTCATCCACTGAACCTT
1 ATACTAAAACCCCATTCTCATCCACCGAACCTT
4350064 TGCAAAGTAA
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
64 70 0.91
65 5 0.06
66 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (65 bp):
ATACTAAAACCCCATTCTCATCCACCGAACCTTCTACAAAGCCATAATTTACTTAATAATATGCA
Found at i:4354103 original size:15 final size:15
Alignment explanation
Indices: 4354085--4354114 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4354075 AAGAAGAAGG
4354085 AAAAAAAAAATTGCA
1 AAAAAAAAAATTGCA
4354100 AAAAAAAAAATTGCA
1 AAAAAAAAAATTGCA
4354115 TACGGTCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (15 bp):
AAAAAAAAAATTGCA
Found at i:4366603 original size:6 final size:6
Alignment explanation
Indices: 4366571--4366678 Score: 67
Period size: 6 Copynumber: 17.7 Consensus size: 6
4366561 AAAGAAATTG
* * ** *
4366571 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
* ** * * *
4366618 AAAGAA ATCA-AA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
4366669 AAAGAA AAAG
1 AAAGAA AAAG
4366679 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 22, Indels: 11
0.69 0.20 0.10
Matches are distributed among these distances:
5 4 0.05
6 59 0.79
7 8 0.11
8 4 0.05
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:4366658 original size:14 final size:13
Alignment explanation
Indices: 4366639--4366676 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4366629 AAAAGTGAGA
4366639 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
4366651 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
4366666 GAAAAAGAAAA
1 GAAAAAGAAAA
4366677 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:4366713 original size:12 final size:12
Alignment explanation
Indices: 4366682--4366713 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4366672 GAAAAAGCGA
*
4366682 AAAAAGAATTTG
1 AAAAAGAGTTTG
4366694 AAAAAGAGTTTG
1 AAAAAGAGTTTG
4366706 AAAAAGAG
1 AAAAAGAG
4366714 AAGAGTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (12 bp):
AAAAAGAGTTTG
Found at i:4384115 original size:21 final size:19
Alignment explanation
Indices: 4384072--4384115 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
4384062 GAGCTCAAAT
* *
4384072 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
4384091 GAGCTAGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
4384112 GAGC
1 GAGC
4384116 CCAATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 10 0.48
21 6 0.29
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:4388457 original size:529 final size:529
Alignment explanation
Indices: 4387459--4389560 Score: 4087
Period size: 529 Copynumber: 4.0 Consensus size: 529
4387449 GCACATCTGA
4387459 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
1 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
4387524 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
66 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
4387589 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
131 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
4387654 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
196 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
4387719 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
261 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
4387784 CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
326 CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
4387849 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
391 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
4387914 GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACGCCATA
456 GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACGCCATA
4387979 GGAGCGACG
521 GGAGCGACG
4387988 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
1 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
4388053 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
66 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
4388118 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
131 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
4388183 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
196 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
*
4388248 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCAATGAGTACCTGT
261 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
4388313 CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
326 CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
4388378 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
391 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
4388443 GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACGCCATA
456 GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACGCCATA
4388508 GGAGCGACG
521 GGAGCGACG
4388517 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
1 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
4388582 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
66 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
4388647 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
131 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
4388712 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
196 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
4388777 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
261 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
* * *
4388842 CTTGTTCCATAGAGTAAATTGCAATGTTTACAATTAATGTGAAATGACGAATAAATGTATGTTAA
326 CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
4388907 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
391 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
* *
4388972 GAGACGAGACAATTCCAAGGCTACACCATAGGAGCGACAATTCATGTTGATATGCATACGCCATA
456 GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACGCCATA
4389037 GGAGCGACG
521 GGAGCGACG
*
4389046 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGATTCAGAAGTAAT
1 AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
4389111 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
66 GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
*
4389176 GGACATTTTATGTTGAGAAACAGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
131 GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
*
4389241 TATGTCATGAGTTTAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
196 TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
*
4389306 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATATTCTTGCTGAGTTCGATGAGTACCTGT
261 TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
* *
4389371 CTTGTTCCATAGAGTAAATTGCAATGTTTACAATTAATGTGAAATGACAAATAAATGTATGTTAA
326 CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
4389436 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
391 TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
*
4389501 GAGACGAGACAATTCCAAGGCTATGCCATAGGAGCGACGATTCATGTTGATATGCATACG
456 GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACG
4389561 AAGGAAAGGA
Statistics
Matches: 1558, Mismatches: 15, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
529 1558 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (529 bp):
AGTCAAGGATACGCCTTAGTAGCATAATTTGTGAAATGACCTCGGGACAACGCTTCAGAAGTAAT
GCTAAATTAGAAAACTCTGAATGGAAGTGCAACTAATTAGCTTGCGATAATGAAAGATTGGCCAG
GGACATTTTATGTTGAGAAACGGATGAAGTCTACCTTGTCCAAAAACTGAAAGGTGAAATGAAAG
TATGTCATGAGTTCAGGACCAAAGTAAGTCAAATGATTCTAGCTAAGGTAAGAACACTTACAGAA
TATAAAGGATGATGAAGTAAATAAAGATTTAATACATGTTCTTGCTGAGTTCGATGAGTACCTGT
CTTGTTCCATACAGTAAATTGCAATGTTTACAATTAATGTGAAAAGACAAATAAATGTATGTTAA
TGTCTCACTAAGTTCTTGTAAACTTATTATGGATGCCTCTGATTTTAGGATCTATTAGAAGATAG
GAGACGAGACAATTCCAAGGCTACGCCATAGGAGCGACGATTCATGTTGATATGCATACGCCATA
GGAGCGACG
Found at i:4391421 original size:27 final size:27
Alignment explanation
Indices: 4391292--4391437 Score: 125
Period size: 27 Copynumber: 5.4 Consensus size: 27
4391282 GAAAGGTTGT
* *
4391292 TAAAATAACTAAAATACCCCTACAGGG
1 TAAAATGACTAAAATACCCCTAAAGGG
* * * *
4391319 TAAAATGA-TCGAATTACCTCTGAAGGG
1 TAAAATGACT-AAAATACCCCTAAAGGG
* * * *
4391346 TAAAATGACTAAAATGCTCTTGAAGGG
1 TAAAATGACTAAAATACCCCTAAAGGG
* *
4391373 TAAAATTA-TCGAAATACCCCTAAAGGG
1 TAAAATGACT-AAAATACCCCTAAAGGG
* **
4391400 TAAAATGACTAAAATACCCCTATAGAA
1 TAAAATGACTAAAATACCCCTAAAGGG
4391427 TAAAATGACTA
1 TAAAATGACTA
4391438 TTTTACCCAT
Statistics
Matches: 92, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
26 2 0.02
27 88 0.96
28 2 0.02
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (27 bp):
TAAAATGACTAAAATACCCCTAAAGGG
Found at i:4391432 original size:54 final size:53
Alignment explanation
Indices: 4391292--4391421 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 53
4391282 GAAAGGTTGT
* * * *
4391292 TAAAATAACTAAAATACCCCTACAGGGTAAAATGATCGAATTACCTCTGAAGGG
1 TAAAATGACTAAAATACCCCTA-AGGGTAAAATGATCGAAATACCCCTAAAGGG
* * * *
4391346 TAAAATGACTAAAATGCTCTTGAAGGGTAAAATTATCGAAATACCCCTAAAGGG
1 TAAAATGACTAAAATACCCCT-AAGGGTAAAATGATCGAAATACCCCTAAAGGG
4391400 TAAAATGACTAAAATACCCCTA
1 TAAAATGACTAAAATACCCCTA
4391422 TAGAATAAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.02
54 62 0.97
55 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (53 bp):
TAAAATGACTAAAATACCCCTAAGGGTAAAATGATCGAAATACCCCTAAAGGG
Found at i:4391951 original size:28 final size:28
Alignment explanation
Indices: 4391909--4391996 Score: 133
Period size: 28 Copynumber: 3.1 Consensus size: 28
4391899 GGCCCAATTG
*
4391909 CCACACTG-TTACTGTATGGGGCTAAGGC
1 CCACACTGATT-CTGTATTGGGCTAAGGC
4391937 CCACACTGATTCTGTATTGGGCTAAGGC
1 CCACACTGATTCTGTATTGGGCTAAGGC
* *
4391965 CCACATTGATTCTTTATTGGGCTAAGGC
1 CCACACTGATTCTGTATTGGGCTAAGGC
4391993 CCAC
1 CCAC
4391997 TTGTACTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 54 0.96
29 2 0.04
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (28 bp):
CCACACTGATTCTGTATTGGGCTAAGGC
Found at i:4398344 original size:88 final size:88
Alignment explanation
Indices: 4398235--4398420 Score: 345
Period size: 88 Copynumber: 2.1 Consensus size: 88
4398225 TGATGATGTT
4398235 CCATGAGATGCATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTG
1 CCATG-GATGCATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTG
*
4398300 CTATGTGATGGAAATGACATTTGA
65 CTATGTGATGGAAATGACACTTGA
4398324 CCATGGATGCATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGC
1 CCATGGATGCATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGC
*
4398389 TATGTGATGGAAATGGCACTTGA
66 TATGTGATGGAAATGACACTTGA
4398412 CCATGGATG
1 CCATGGATG
4398421 AATCATTCTT
Statistics
Matches: 95, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 90 0.95
89 5 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (88 bp):
CCATGGATGCATGCATGTTTTAGTTGTTAGCTTGAGTTCTACCTAGCCCATGGTCTAAATCTTGC
TATGTGATGGAAATGACACTTGA
Found at i:4410913 original size:40 final size:40
Alignment explanation
Indices: 4410829--4411049 Score: 315
Period size: 40 Copynumber: 5.5 Consensus size: 40
4410819 TTGAATGCTG
* *
4410829 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGA-T-ACTAAT
** * * *
4410868 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCCTTTGTGCGAGATACTAAT
4410909 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
4410949 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
4410989 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
4411029 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
4411050 ATTGTATGAG
Statistics
Matches: 166, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 153 0.92
41 12 0.07
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:4411042 original size:120 final size:120
Alignment explanation
Indices: 4410829--4411088 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 120
4410819 TTGAATGCTG
*
4410829 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
* *
4410894 GTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
66 GTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
* **
4410949 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
* * ** *
4411010 CTTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGG-CATTGTATGAGTTACT-AT
62 ATTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
* *
4411067 AACCGGGCTATGTCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGC
4411089 ACTTGAACGA
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.02
119 31 0.26
120 78 0.64
121 9 0.07
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:4420328 original size:34 final size:34
Alignment explanation
Indices: 4420285--4420351 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
4420275 ACAGATACCA
* *
4420285 AAGTATGCAAAATTTTTAAATGAGCTGTTAACAG
1 AAGTATGCAAAATTTTTAAAGGAACTGTTAACAG
4420319 AAGTATGCAAAATTTTTAAAGGAACTGTTAACA
1 AAGTATGCAAAATTTTTAAAGGAACTGTTAACA
4420352 AATAAAAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (34 bp):
AAGTATGCAAAATTTTTAAAGGAACTGTTAACAG
Found at i:4421455 original size:5 final size:6
Alignment explanation
Indices: 4421439--4421464 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4421429 CATGTTATTT
4421439 CAAAAA CAAAAA CAAAAA CAAAAA CA
1 CAAAAA CAAAAA CAAAAA CAAAAA CA
4421465 TTAGTACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:4431876 original size:26 final size:24
Alignment explanation
Indices: 4431811--4431880 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
4431801 AACACACCAT
4431811 TTGTGGACAAGCCACCACAT--AA
1 TTGTGGACAAGCCACCACATAAAA
* * *
4431833 TTTTTGACAA-ACAGCCACATAAGACA
1 TTGTGGACAAGCCA-CCACATAA-A-A
4431859 TTGTGGACAAGCCACCACATAA
1 TTGTGGACAAGCCACCACATAA
4431881 TTGACGATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.06
22 14 0.39
25 1 0.03
26 17 0.47
27 2 0.06
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.20
Consensus pattern (24 bp):
TTGTGGACAAGCCACCACATAAAA
Found at i:4439277 original size:22 final size:22
Alignment explanation
Indices: 4439249--4439293 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4439239 ACTATTTGTA
4439249 CTCAGTTTCTTATGTTCATGGT
1 CTCAGTTTCTTATGTTCATGGT
4439271 CTCAGTTTCTTATGTTCATGGT
1 CTCAGTTTCTTATGTTCATGGT
4439293 C
1 C
4439294 AATCATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.20, G:0.18, T:0.49
Consensus pattern (22 bp):
CTCAGTTTCTTATGTTCATGGT
Found at i:4448288 original size:20 final size:20
Alignment explanation
Indices: 4448235--4448327 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
4448225 GAGCTAATAA
* *
4448235 TGAGCTC-AATGAGCTGAAT
1 TGAGCTCGAGTGAGCTGACT
* * * *
4448254 TGAGTTCGTGGGAGCTTACT
1 TGAGCTCGAGTGAGCTGACT
*
4448274 TGAGCTCGAATGAGCTGACT
1 TGAGCTCGAGTGAGCTGACT
* *
4448294 TGAGCTCGAGTGAACTGAAT
1 TGAGCTCGAGTGAGCTGACT
4448314 TGAGCTCGAGTGAG
1 TGAGCTCGAGTGAG
4448328 ATGAACCGCA
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
19 6 0.10
20 52 0.90
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (20 bp):
TGAGCTCGAGTGAGCTGACT
Found at i:4448317 original size:40 final size:40
Alignment explanation
Indices: 4448235--4448332 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
4448225 GAGCTAATAA
* * * * *
4448235 TGAGCTC-AATGAGCTGAATTGAGTTCGTGGGAGCTTACT
1 TGAGCTCGAATGAGCTGAATTGAGCTCGAGGGAACTGAAT
* *
4448274 TGAGCTCGAATGAGCTGACTTGAGCTCGAGTGAACTGAAT
1 TGAGCTCGAATGAGCTGAATTGAGCTCGAGGGAACTGAAT
* *
4448314 TGAGCTCGAGTGAGATGAA
1 TGAGCTCGAATGAGCTGAA
4448333 CCGCATGGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 7 0.15
40 41 0.85
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (40 bp):
TGAGCTCGAATGAGCTGAATTGAGCTCGAGGGAACTGAAT
Found at i:4450031 original size:15 final size:15
Alignment explanation
Indices: 4449996--4450034 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4449986 TCTTTTCAGG
4449996 CTCTCTTTCTTTTCC
1 CTCTCTTTCTTTTCC
* *
4450011 CACTCTTTCTTTTTC
1 CTCTCTTTCTTTTCC
*
4450026 TTCTCTTTC
1 CTCTCTTTC
4450035 AATTTCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (15 bp):
CTCTCTTTCTTTTCC
Found at i:4450063 original size:18 final size:18
Alignment explanation
Indices: 4450037--4450076 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4450027 TCTCTTTCAA
* *
4450037 TTTCTTTTTCAATCTCTT
1 TTTCCTTTTCAATCACTT
*
4450055 TTTCCTTTTCACTCACTT
1 TTTCCTTTTCAATCACTT
4450073 TTTC
1 TTTC
4450077 AATTTCCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCCTTTTCAATCACTT
Found at i:4450091 original size:18 final size:18
Alignment explanation
Indices: 4450070--4450127 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
4450060 TTTTCACTCA
*
4450070 CTTTTTCAATTTCCTTTT
1 CTTTTTCAATTTCTTTTT
*
4450088 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
4450106 CTTTTTCAATGTCTTTTT
1 CTTTTTCAATTTCTTTTT
4450124 CTTT
1 CTTT
4450128 CATTTCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.67
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:4450104 original size:30 final size:29
Alignment explanation
Indices: 4450026--4450106 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
4450016 TTTCTTTTTC
*
4450026 TTCTCTTTCAATTTCTTTTTCAATCTCTTT
1 TTCT-TTTCAATTTCTTTTTCAATCTCCTT
* ** *
4450056 TTCCTTTTCACTCACTTTTTCAATTTCCTT
1 TT-CTTTTCAATTTCTTTTTCAATCTCCTT
4450086 TTCTTTTGCAATTTCTTTTTC
1 TTCTTTT-CAATTTCTTTTTC
4450107 TTTTTCAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.12
30 34 0.83
31 2 0.05
ACGTcount: A:0.12, C:0.25, G:0.01, T:0.62
Consensus pattern (29 bp):
TTCTTTTCAATTTCTTTTTCAATCTCCTT
Found at i:4454098 original size:19 final size:19
Alignment explanation
Indices: 4454071--4454109 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4454061 TTATTCCAGC
*
4454071 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
4454090 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
4454109 A
1 A
4454110 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:4460357 original size:35 final size:35
Alignment explanation
Indices: 4460311--4460400 Score: 162
Period size: 35 Copynumber: 2.6 Consensus size: 35
4460301 AACTAAGTTG
*
4460311 AACTTAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
4460346 AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
1 AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
*
4460381 AACTTAATTAATTAAGATGA
1 AACTTAATTAACTAAGATGA
4460401 ACTCAATTAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
AACTTAATTAACTAAGATGAGTAATTTATTCCAAC
Found at i:4460402 original size:89 final size:90
Alignment explanation
Indices: 4460281--4460473 Score: 318
Period size: 89 Copynumber: 2.2 Consensus size: 90
4460271 ACATTAAAAG
* * *
4460281 TTTAATCCAACAAC-TAAGTGAACTAAGTTGAACTTAATTAACTAAGATGAGTAATTTATTCCAG
1 TTTATTCCAACAACTTAAGTGAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCCAG
4460345 CAACTTAATTAACTAAGATGAGTAA
66 CAACTTAATTAACTAAGATGAGTAA
* *
4460370 TTTATTCCAACAACTTAA-TTAATTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCCAG
1 TTTATTCCAACAACTTAAGTGAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCCAG
4460434 CAACTTAATTAACTAAGATGAGTAA
66 CAACTTAATTAACTAAGATGAGTAA
*
4460459 TTTATTCCAGCAACT
1 TTTATTCCAACAACT
4460474 AAATACTTAT
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 94 0.97
90 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (90 bp):
TTTATTCCAACAACTTAAGTGAACTAAGATGAACTCAATTAACTAAGATGAGTAATTTATTCCAG
CAACTTAATTAACTAAGATGAGTAA
Found at i:4460408 original size:19 final size:19
Alignment explanation
Indices: 4460381--4460419 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4460371 TTATTCCAAC
* *
4460381 AACTTAATTAATTAAGATG
1 AACTCAATTAACTAAGATG
4460400 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
4460419 A
1 A
4460420 GTAATTTATT
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:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:4460409 original size:54 final size:54
Alignment explanation
Indices: 4460346--4460454 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
4460336 TTATTCCAGC
* *
4460346 AACTTAATTAACTAAGATGAGTAATTTATTCCAACAACTTAATTAATTAAGATG
1 AACTCAATTAACTAAGATGAGTAATTTATTCCAACAACTTAATTAACTAAGATG
*
4460400 AACTCAATTAACTAAGATGAGTAATTTATTCCAGCAACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATGAGTAATTTATTCCAACAACTTAATTAACTAAGATG
4460454 A
1 A
4460455 GTAATTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (54 bp):
AACTCAATTAACTAAGATGAGTAATTTATTCCAACAACTTAATTAACTAAGATG
Found at i:4460444 original size:35 final size:35
Alignment explanation
Indices: 4460400--4460473 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
4460390 AATTAAGATG
4460400 AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
*
4460435 AACTTAATTAACTAAGATGAGTAATTTATTCCAGC
1 AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
4460470 AACT
1 AACT
4460474 AAATACTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (35 bp):
AACTCAATTAACTAAGATGAGTAATTTATTCCAGC
Found at i:4466308 original size:12 final size:13
Alignment explanation
Indices: 4466289--4466322 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4466279 CTACCCTTTC
*
4466289 CTTTTTTTTTTTT
1 CTTTTTTTTGTTT
4466302 CTTTTTTTTGTTT
1 CTTTTTTTTGTTT
4466315 CTTTTTTT
1 CTTTTTTT
4466323 CGTCTCTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (13 bp):
CTTTTTTTTGTTT
Found at i:4468567 original size:75 final size:73
Alignment explanation
Indices: 4468443--4468591 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 73
4468433 GTATTCTTCA
4468443 AGTGTAATGTGTATAAGGGGGGCTGGCCAAGCCATACATATAGGCCTTCTAACTATTTTCCTAGT
1 AGTGTAATGTGTATAAGGGGGGCTGGCCAAGCCATACATATAGGCCTTCTAACTATTTT-CTAGT
4468508 CCTAATAGG
65 CCTAATAGG
*
4468517 ANGTGTAATGTGTATAAGGGTGGCTGGCCAAGCCATACATATAGGCCTTCTAACTATTTTCTAGT
1 A-GTGTAATGTGTATAAGGGGGGCTGGCCAAGCCATACATATAGGCCTTCTAACTATTTTCTAGT
4468582 CCTAATAGG
65 CCTAATAGG
4468591 A
1 A
4468592 AAGCTAAAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
74 16 0.22
75 57 0.78
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (73 bp):
AGTGTAATGTGTATAAGGGGGGCTGGCCAAGCCATACATATAGGCCTTCTAACTATTTTCTAGTC
CTAATAGG
Found at i:4469206 original size:35 final size:35
Alignment explanation
Indices: 4469160--4469227 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
4469150 TGGTTCACTA
* *
4469160 TAATGAAATAAAGCTATAATGGAATAGAGCTGTTG
1 TAATGAAATAAAGCTATAATAGAATAGAACTGTTG
* *
4469195 TAATGGAATAAAGCTGTAATAGAATAGAACTGT
1 TAATGAAATAAAGCTATAATAGAATAGAACTGT
4469228 AATAACAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.22, T:0.28
Consensus pattern (35 bp):
TAATGAAATAAAGCTATAATAGAATAGAACTGTTG
Found at i:4469214 original size:16 final size:16
Alignment explanation
Indices: 4469160--4469230 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
4469150 TGGTTCACTA
* *
4469160 TAATGAAATAAAGCTA
1 TAATGGAATAAAGCTG
*
4469176 TAATGGAATAGAGCTGTTG
1 TAATGGAATAAAGC---TG
4469195 TAATGGAATAAAGCTG
1 TAATGGAATAAAGCTG
*
4469211 TAATAGAATAGAA-CTG
1 TAATGGAATA-AAGCTG
4469227 TAAT
1 TAAT
4469231 AACAATTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 30 0.65
17 2 0.04
19 14 0.30
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (16 bp):
TAATGGAATAAAGCTG
Found at i:4469535 original size:22 final size:22
Alignment explanation
Indices: 4469519--4469561 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4469509 AAATATGAAT
*
4469519 TAATAAAAATAATAATATATAA
1 TAATAAAAAAAATAATATATAA
*
4469541 TATTAAAAAAAATAATATATA
1 TAATAAAAAAAATAATATATA
4469562 GCCTACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATAAAAAAAATAATATATAA
Found at i:4472858 original size:20 final size:20
Alignment explanation
Indices: 4472833--4472898 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
4472823 ATGTGCAATT
4472833 CAGGGGTATCAAAGTGCAAA
1 CAGGGGTATCAAAGTGCAAA
* * * *
4472853 CAGGGGCA-CTATGTGCAATT
1 CAGGGGTATCAAAGTGCAA-A
4472873 CAGGGGTATCAAAGTGCAAA
1 CAGGGGTATCAAAGTGCAAA
4472893 CAGGGG
1 CAGGGG
4472899 CACATATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 8 0.22
20 20 0.56
21 8 0.22
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (20 bp):
CAGGGGTATCAAAGTGCAAA
Found at i:4472877 original size:40 final size:41
Alignment explanation
Indices: 4472801--4472958 Score: 237
Period size: 41 Copynumber: 3.9 Consensus size: 41
4472791 TTGAAGTTAC
*
4472801 CAAAGTGTAAACAGGGGCACGTATGTGCAATTCAGGGGTAT
1 CAAAGTGCAAACAGGGGCACGTATGTGCAATTCAGGGGTAT
4472842 CAAAGTGCAAACAGGGGCAC-TATGTGCAATTCAGGGGTAT
1 CAAAGTGCAAACAGGGGCACGTATGTGCAATTCAGGGGTAT
* * *
4472882 CAAAGTGCAAACAGGGGCACATATGTGCAATTTAGGGGTAC
1 CAAAGTGCAAACAGGGGCACGTATGTGCAATTCAGGGGTAT
* * * *
4472923 CGAAGTACAAATAGGGACACGTATGTGCAATTCAGG
1 CAAAGTGCAAACAGGGGCACGTATGTGCAATTCAGG
4472959 AAATAATTAA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 40 0.37
41 67 0.63
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (41 bp):
CAAAGTGCAAACAGGGGCACGTATGTGCAATTCAGGGGTAT
Found at i:4478740 original size:26 final size:27
Alignment explanation
Indices: 4478703--4478755 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4478693 ATTTAATGTG
4478703 ATTTTAAGTATTTA-ATATTTAATTAAA
1 ATTTTAAGTA-TTACATATTTAATTAAA
*
4478730 ATTTTAA-TATTACATTTTTAATTAAA
1 ATTTTAAGTATTACATATTTAATTAAA
4478756 GTAATTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 3 0.12
26 14 0.58
27 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTAAGTATTACATATTTAATTAAA
Found at i:4479593 original size:22 final size:23
Alignment explanation
Indices: 4479565--4479607 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
4479555 TATATAAAAC
4479565 AATATGAT-TATCTAA-TATATTA
1 AATATGATATATC-AATTATATTA
4479587 AATATGATATATCAATTATAT
1 AATATGATATATCAATTATAT
4479608 GTTATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
AATATGATATATCAATTATATTA
Found at i:4480004 original size:173 final size:167
Alignment explanation
Indices: 4479663--4480010 Score: 441
Period size: 173 Copynumber: 2.0 Consensus size: 167
4479653 GTATCATTTT
* * *
4479663 TAAAATATCATCTTTTTATTTAACCTTTAAAAACTTTTAAAATATTTAATTTTAATTTAAAAAAA
1 TAAAATATCATCTCTTTAGTTAACCTTTAAAAACTTTTAAAACATTTAATTTTAATTTAAAAAAA
* * *
4479728 TTATATTTCGAATTTAGAATTAATAAAATTATCTTAAAACTTAAAATATACCTAACAAATTCCAT
66 TTATATTTCGAATTTAGAATTAAAAAAATTATCATAAAACTTAAAAGATACCTAACAAATTCCAT
4479793 TTCAAATTCCAAAATTAATTTTTTAATTATTTAAAAA
131 TTCAAATTCCAAAATTAATTTTTTAATTATTTAAAAA
* * *
4479830 TAAAATATCTTCTCTTTAGTTAACCTTTAAATACTTTTAATACATTTAATTTTGATTATTTTAAA
1 TAAAATATCATCTCTTTAGTTAACCTTTAAAAACTTTTAAAACATTTAATTTT-A--A-TTTAAA
* * * *
4479895 AATTACA-TATATTTCGAATTTATGATTTAAAAAAATTATCATAAATCTTAAAAGATATCTAA-T
62 AA--A-ATTATATTTCGAATTTA-GAATTAAAAAAATTATCATAAAACTTAAAAGATACCTAACA
* * * *
4479958 AATTTCATTTCAAATTTCAAAA-TGATCTTTTTACTTATTTAAAAA
123 AATTCCATTTCAAATTCCAAAATTAAT-TTTTTAATTATTTAAAAA
4480003 TAAAATAT
1 TAAAATAT
4480011 AAAAATTTAG
Statistics
Matches: 155, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
167 47 0.30
168 1 0.01
170 1 0.01
171 8 0.05
172 3 0.02
173 61 0.39
174 34 0.22
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (167 bp):
TAAAATATCATCTCTTTAGTTAACCTTTAAAAACTTTTAAAACATTTAATTTTAATTTAAAAAAA
TTATATTTCGAATTTAGAATTAAAAAAATTATCATAAAACTTAAAAGATACCTAACAAATTCCAT
TTCAAATTCCAAAATTAATTTTTTAATTATTTAAAAA
Found at i:4480272 original size:76 final size:75
Alignment explanation
Indices: 4480179--4480325 Score: 249
Period size: 76 Copynumber: 1.9 Consensus size: 75
4480169 TTAATGGGTC
* * *
4480179 TACAGAACGTGAAGGATTAATCACTAGGCTTGCCCTAATGATTACTTTAAGAAATCCCCTAAAAA
1 TACAGAACGTGAAGGATTAATCACTAGACTTGCCCTAATGAGTACTTTAAGAAACCCCCT-AAAA
4480244 AAGTATGAGCT
65 AAGTATGAGCT
*
4480255 TACAGAATGTGAAGGATTAATCACTAGACTTGCCCTAATGAGTACTTTAAGAAACCCCCTAAAAA
1 TACAGAACGTGAAGGATTAATCACTAGACTTGCCCTAATGAGTACTTTAAGAAACCCCCTAAAAA
4480320 AGTATG
66 AGTATG
4480326 GGAATGTGAC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 11 0.16
76 56 0.84
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (75 bp):
TACAGAACGTGAAGGATTAATCACTAGACTTGCCCTAATGAGTACTTTAAGAAACCCCCTAAAAA
AGTATGAGCT
Found at i:4487140 original size:13 final size:12
Alignment explanation
Indices: 4487122--4487171 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
4487112 AACCTTATTT
4487122 TTTAATATTTTA
1 TTTAATATTTTA
4487134 TTATAATATCATTT-
1 TT-TAATAT--TTTA
4487148 TTTAATATTTTA
1 TTTAATATTTTA
*
4487160 TTTTAT-TTTTA
1 TTTAATATTTTA
4487171 T
1 T
4487172 AGAACACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
11 9 0.27
12 7 0.21
13 12 0.36
14 2 0.06
15 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATATTTTA
Found at i:4489674 original size:40 final size:39
Alignment explanation
Indices: 4489643--4489852 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
4489633 GGACTAAGAT
* *
4489643 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
4489683 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
4489723 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
4489763 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
4489803 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
4489842 CCGAAGGCATT
1 CCGAAGGCATT
4489853 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:4489806 original size:120 final size:120
Alignment explanation
Indices: 4489590--4489852 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
4489580 TTGAATGCTG
* *
4489590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
4489654 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
4489710 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
4489773 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
4489829 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
4489853 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:4489872 original size:79 final size:80
Alignment explanation
Indices: 4489643--4489887 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
4489633 GGACTAAGAT
* * * * * * * ** *
4489643 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
4489706 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
4489723 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
4489788 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
4489803 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
4489867 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
4489881 CCGAAGG
1 CCGAAGG
4489888 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:4497702 original size:39 final size:39
Alignment explanation
Indices: 4497538--4497720 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
4497528 TTGAATGCTG
* * * * * * *
4497538 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
4497578 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
4497618 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
4497658 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
4497697 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
4497721 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:4497740 original size:79 final size:80
Alignment explanation
Indices: 4497574--4497755 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
4497564 GCTAAGTGAA
* * * *
4497574 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
4497638 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
4497654 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
4497718 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
4497733 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
4497756 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:4503802 original size:8 final size:8
Alignment explanation
Indices: 4503783--4503821 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
4503773 AAAAATTCAG
4503783 AATAAT-A
1 AATAATAA
4503790 AATAATAA
1 AATAATAA
4503798 AATAATAA
1 AATAATAA
4503806 AATAATAA
1 AATAATAA
*
4503814 AGTAATAA
1 AATAATAA
4503822 GAGCTGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:4507671 original size:20 final size:20
Alignment explanation
Indices: 4507625--4507671 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4507615 AGCTTGTTTC
*
4507625 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
4507645 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
4507665 CAGCTCA
1 CAGCTCA
4507672 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:4508818 original size:18 final size:18
Alignment explanation
Indices: 4508797--4508881 Score: 55
Period size: 18 Copynumber: 4.6 Consensus size: 18
4508787 GGAACAAGAA
4508797 ATTGAAAAAGAGAGTGAG
1 ATTGAAAAAGAGAGTGAG
*
4508815 ATTGAAGAAAGA-AATGAG
1 ATTGAA-AAAGAGAGTGAG
* * **
4508833 AGTGTAAAAGAAACGAGTGTC
1 ATTG-AAAA-AGA-GAGTGAG
* * *
4508854 ATGGAAAAAGAAATTGAG
1 ATTGAAAAAGAGAGTGAG
4508872 ATTGAAAAAG
1 ATTGAAAAAG
4508882 GATGTGAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
18 28 0.58
19 11 0.23
20 4 0.08
21 5 0.10
ACGTcount: A:0.52, C:0.02, G:0.28, T:0.18
Consensus pattern (18 bp):
ATTGAAAAAGAGAGTGAG
Found at i:4508936 original size:48 final size:47
Alignment explanation
Indices: 4508857--4508962 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
4508847 GAGTGTCATG
*
4508857 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
4508905 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
4508953 GAAAAAGAAA
1 GAAAAAGAAA
4508963 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:4510679 original size:20 final size:20
Alignment explanation
Indices: 4510633--4510679 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4510623 AGCTCGTTTC
*
4510633 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
4510653 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
4510673 CAGCTCA
1 CAGCTCA
4510680 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:4512871 original size:30 final size:30
Alignment explanation
Indices: 4512837--4512939 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
4512827 TCATCGATTA
4512837 ATGAAAAGGGATAGTTTCGACTATTGAATT
1 ATGAAAAGGGATAGTTTCGACTATTGAATT
* ** * *
4512867 ATGAAAAGGGATGGTGACGACCATCG-ATAT
1 ATGAAAAGGGATAGTTTCGACTATTGAAT-T
* * * * *
4512897 ACGAAAAGGGATGGCTTC-ATCTGTTGAATC
1 ATGAAAAGGGATAGTTTCGA-CTATTGAATT
4512927 ATGAAAAGGGATA
1 ATGAAAAGGGATA
4512940 ACTCTGGCTA
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
29 3 0.05
30 50 0.91
31 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGTTTCGACTATTGAATT
Found at i:4513024 original size:31 final size:31
Alignment explanation
Indices: 4512952--4513061 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 31
4512942 TCTGGCTATC
* *
4512952 AAATTATGAAAAAGGATGGTGACGACCATCA
1 AAATTATGAAAAGGGATGGTAACGACCATCA
* *
4512983 ACA--ATGAAAAGGGATGGTAACGGCCATCA
1 AAATTATGAAAAGGGATGGTAACGACCATCA
* * * *
4513012 AAATTATGAAAAGGGTTAGCT-TCGACTATC-
1 AAATTATGAAAAGGGAT-GGTAACGACCATCA
*
4513042 GAATTATGAAAAGGGATGGT
1 AAATTATGAAAAGGGATGGT
4513062 GTCAACCATC
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
29 27 0.43
30 15 0.24
31 19 0.30
32 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (31 bp):
AAATTATGAAAAGGGATGGTAACGACCATCA
Found at i:4517675 original size:21 final size:21
Alignment explanation
Indices: 4517637--4517676 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4517627 TGGACAAGCC
* *
4517637 ACCACATAATTGTCGATAACG
1 ACCACATAATCGTAGATAACG
*
4517658 ACCACATCATCGTAGATAA
1 ACCACATAATCGTAGATAA
4517677 ACTGCCACAT
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):
ACCACATAATCGTAGATAACG
Found at i:4523260 original size:27 final size:27
Alignment explanation
Indices: 4523228--4523459 Score: 272
Period size: 27 Copynumber: 8.6 Consensus size: 27
4523218 TACCTTATGG
* * *
4523228 GGGTATTTCGATAATTTTACCCTTTGA
1 GGGTATTTTGATAATTTTACCCATCGA
* * * *
4523255 GAGTATTTTGGTAATTTTACCCTTCGG
1 GGGTATTTTGATAATTTTACCCATCGA
**
4523282 GGGTATTACGATAATTTTACCCATCG-
1 GGGTATTTTGATAATTTTACCCATCGA
*
4523308 GGAGTATTTTGGTAATTTTACCCATCGA
1 GG-GTATTTTGATAATTTTACCCATCGA
*
4523336 GGGTATTTTGATAA-TTTACCTATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
*
4523362 GGGTATTTT-AGTAATTTTACCCATTGA
1 GGGTATTTTGA-TAATTTTACCCATCGA
*
4523389 GGGTATTTTGATAATTTAACCCATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* *
4523416 GGATATTTTGGTAATTTTACCCATCGA
1 GGGTATTTTGATAATTTTACCCATCGA
* *
4523443 GGGTATTTCGGTAATTT
1 GGGTATTTTGATAATTT
4523460 ATGCCCATTA
Statistics
Matches: 176, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.01
26 25 0.14
27 147 0.84
28 3 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGATAATTTTACCCATCGA
Found at i:4523296 original size:54 final size:54
Alignment explanation
Indices: 4523228--4523459 Score: 315
Period size: 54 Copynumber: 4.3 Consensus size: 54
4523218 TACCTTATGG
* * * *
4523228 GGGTATTTCGATAATTTTACCCTTTGAGAGTATTTTGGTAATTTTACCCTTCGG
1 GGGTATTTCGATAATTTTACCCATCGAGAGTATTTTGGTAATTTTACCCATCGA
* *
4523282 GGGTATTACGATAATTTTACCCATCGGGAGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGAGAGTATTTTGGTAATTTTACCCATCGA
* * * * *
4523336 GGGTATTTTGATAA-TTTACCTATCGAGGGTATTTTAGTAATTTTACCCATTGA
1 GGGTATTTCGATAATTTTACCCATCGAGAGTATTTTGGTAATTTTACCCATCGA
* *
4523389 GGGTATTTTGATAATTTAACCCATCGAG-GATATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGAGAG-TATTTTGGTAATTTTACCCATCGA
*
4523443 GGGTATTTCGGTAATTT
1 GGGTATTTCGATAATTT
4523460 ATGCCCATTA
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 49 0.31
54 108 0.69
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACCCATCGAGAGTATTTTGGTAATTTTACCCATCGA
Found at i:4523402 original size:107 final size:107
Alignment explanation
Indices: 4523228--4523460 Score: 328
Period size: 107 Copynumber: 2.2 Consensus size: 107
4523218 TACCTTATGG
* * *
4523228 GGGTATTTCGATAATTTTACCCTTTGAGAGTATTTTGGTAATTTTACCCTTCGGGGGTATTACGA
1 GGGTATTTCGATAA-TTTACCCTTCGAGAGTATTTTAGTAATTTTACCCTTCGAGGGTATTACGA
*
4523293 TAATTTTACCCATCG-GGAGTATTTTGGTAATTTTACCCATCGA
65 TAATTTAACCCATCGAGGA-TATTTTGGTAATTTTACCCATCGA
* * **
4523336 GGGTATTTTGATAATTTA-CCTATCGAGGGTATTTTAGTAATTTTACCCATT-GAGGGTATTTTG
1 GGGTATTTCGATAATTTACCCT-TCGAGAGTATTTTAGTAATTTTACCC-TTCGAGGGTATTACG
4523399 ATAATTTAACCCATCGAGGATATTTTGGTAATTTTACCCATCGA
64 ATAATTTAACCCATCGAGGATATTTTGGTAATTTTACCCATCGA
*
4523443 GGGTATTTCGGTAATTTA
1 GGGTATTTCGATAATTTA
4523461 TGCCCATTAT
Statistics
Matches: 112, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
106 3 0.03
107 91 0.81
108 18 0.16
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (107 bp):
GGGTATTTCGATAATTTACCCTTCGAGAGTATTTTAGTAATTTTACCCTTCGAGGGTATTACGAT
AATTTAACCCATCGAGGATATTTTGGTAATTTTACCCATCGA
Found at i:4527679 original size:27 final size:27
Alignment explanation
Indices: 4527579--4527679 Score: 80
Period size: 27 Copynumber: 3.7 Consensus size: 27
4527569 GTAATATTTA
* *
4527579 TAAAATGACCTTAATGCCCCTAT-AGG
1 TAAAATGACCGTAATACCCCTATAAGG
* ** *
4527605 ATAAAATTG-TCGTAATACCGTTATAGGG
1 -TAAAA-TGACCGTAATACCCCTATAAGG
* * *
4527633 TTAAATGACTGAAATACCCCTATAAGG
1 TAAAATGACCGTAATACCCCTATAAGG
*
4527660 TAAAATGACCGTAATGCCCC
1 TAAAATGACCGTAATACCCC
4527680 CAGAGGGTAA
Statistics
Matches: 54, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
26 2 0.04
27 48 0.89
28 4 0.07
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTATAAGG
Found at i:4527742 original size:24 final size:24
Alignment explanation
Indices: 4527711--4527783 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
4527701 ACCTCTTGAG
*
4527711 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAATGATTGATTTGTCTGTGA
4527735 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
* *
4527759 TTTAAATGACTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
4527783 T
1 T
4527784 TGGTATTACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (24 bp):
TGTAAATGATTGATTTGTCTGTGA
Found at i:4527784 original size:24 final size:24
Alignment explanation
Indices: 4527713--4527821 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 24
4527703 CTCTTGAGTG
* * *
4527713 TAAATGATTGATTTGTCCGTGATG
1 TAAATGACTGATTTGTCTGTGATT
*
4527737 TAAATGATTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
4527761 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
*** * * *
4527785 GGTATTACTAATTTGTTTGTGATT
1 TAAATGACTGATTTGTCTGTGATT
**
4527809 TGTATGACTGATT
1 TAAATGACTGATT
4527822 CTGAGCATGA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.24, C:0.06, G:0.22, T:0.48
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATT
Found at i:4527934 original size:27 final size:27
Alignment explanation
Indices: 4527891--4527943 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4527881 GATGTACTGT
4527891 ACTGGTGGCTCTGCCACA-ATCACTATC
1 ACTGGTGGCTCTGCCACATAT-ACTATC
4527918 ACTGGTGGCT-TGCCCACATATACTAT
1 ACTGGTGGCTCTG-CCACATATACTAT
4527944 TACAAGCTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.08
27 20 0.83
28 2 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (27 bp):
ACTGGTGGCTCTGCCACATATACTATC
Found at i:4528024 original size:32 final size:32
Alignment explanation
Indices: 4527988--4528137 Score: 205
Period size: 32 Copynumber: 4.7 Consensus size: 32
4527978 TTATGTTGAA
4527988 CATATTACCGTTACTGATGGCTTTGTGCCGAT
1 CATATTACCGTTACTGATGGCTTTGTGCCGAT
4528020 CATATTACCGTTACTGATGGCTTTGTGCCGAT
1 CATATTACCGTTACTGATGGCTTTGTGCCGAT
* *
4528052 CATATTACCGTTACTGATGGCTATGGGCCGAT
1 CATATTACCGTTACTGATGGCTTTGTGCCGAT
* * * *
4528084 CATATCACTGCTACTGATGGCTTTGT-ACGAAT
1 CATATTACCGTTACTGATGGCTTTGTGCCG-AT
* *
4528116 CATATTACTG-TACTTATGGCTT
1 CATATTACCGTTACTGATGGCTT
4528138 GTAGCCATTC
Statistics
Matches: 107, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 13 0.12
32 94 0.88
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
CATATTACCGTTACTGATGGCTTTGTGCCGAT
Found at i:4528154 original size:22 final size:21
Alignment explanation
Indices: 4528129--4528197 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
4528119 ATTACTGTAC
*
4528129 TTATGGCTTGTAGCCATTCTGT
1 TTATAGCTT-TAGCCATTCTGT
*
4528151 TTATAGCTTATAGCTA-TCATGT
1 TTATAGCTT-TAGCCATTC-TGT
*
4528173 TTAAAGCTCTTAGCCATTCTGT
1 TTATAGCT-TTAGCCATTCTGT
4528195 TTA
1 TTA
4528198 CTGGCAGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 34 0.87
23 3 0.08
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.45
Consensus pattern (21 bp):
TTATAGCTTTAGCCATTCTGT
Found at i:4529293 original size:35 final size:35
Alignment explanation
Indices: 4529247--4529364 Score: 164
Period size: 35 Copynumber: 3.4 Consensus size: 35
4529237 AACACAGTGA
* * *
4529247 CATGCTTAACATGTGAGTCATCATCAGAATAATGG
1 CATGCTTAACATGTGAATCATAATCAGAATAATAG
* *
4529282 CATGCTTAACATGTGAATCATGATTAGAATAATAG
1 CATGCTTAACATGTGAATCATAATCAGAATAATAG
** *
4529317 CATGCTTAACATGCAAATCATAACCAGAATAATAG
1 CATGCTTAACATGTGAATCATAATCAGAATAATAG
4529352 CATGCTTAACATG
1 CATGCTTAACATG
4529365 CAAATAAGAA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 74 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (35 bp):
CATGCTTAACATGTGAATCATAATCAGAATAATAG
Found at i:4529383 original size:35 final size:34
Alignment explanation
Indices: 4529272--4529376 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 34
4529262 AGTCATCATC
* ** * *
4529272 AGAATAATGGCATGCTTAACATGTGAATCATGATT
1 AGAATAATAGCATGCTTAACATGCAAAT-AAGAAT
* * *
4529307 AGAATAATAGCATGCTTAACATGCAAATCATAACC
1 AGAATAATAGCATGCTTAACATGCAAATAAGAA-T
4529342 AGAATAATAGCATGCTTAACATGCAAATAAGAAT
1 AGAATAATAGCATGCTTAACATGCAAATAAGAAT
4529376 A
1 A
4529377 TCAATAAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
34 2 0.03
35 56 0.97
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (34 bp):
AGAATAATAGCATGCTTAACATGCAAATAAGAAT
Found at i:4529383 original size:70 final size:70
Alignment explanation
Indices: 4529247--4529383 Score: 159
Period size: 70 Copynumber: 2.0 Consensus size: 70
4529237 AACACAGTGA
** * * * * ** * * *
4529247 CATGCTTAACATGTGAGTCATCATCAGAATAATGGCATGCTTAACATGTGAATCATGATTAGAAT
1 CATGCTTAACATGCAAATCATAACCAGAATAATAGCATGCTTAACATGCAAATCAAGAATACAAT
4529312 AATAG
66 AATAG
4529317 CATGCTTAACATGCAAATCATAACCAGAATAATAGCATGCTTAACATGCAAAT-AAGAATATCAA
1 CATGCTTAACATGCAAATCATAACCAGAATAATAGCATGCTTAACATGCAAATCAAGAATA-CAA
4529381 TAA
65 TAA
4529384 ATAAATGTCA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
69 5 0.09
70 50 0.91
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (70 bp):
CATGCTTAACATGCAAATCATAACCAGAATAATAGCATGCTTAACATGCAAATCAAGAATACAAT
AATAG
Found at i:4531277 original size:27 final size:27
Alignment explanation
Indices: 4531256--4531481 Score: 233
Period size: 27 Copynumber: 8.4 Consensus size: 27
4531246 AGTATAACAC
4531256 TCATTTTACCCTATGGGGGTATTTC-G
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
4531282 ATCATTCTACGCTATGGGGGTATTTC-G
1 -TCATTTTACCCTATGGGGGTATTTCAG
* * **
4531309 ATTACTTTACCCTATGGGGGTATTTTGG
1 -TCATTTTACCCTATGGGGGTATTTCAG
* *
4531337 TCATTTTACCCTCTAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* **
4531364 TCATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAG
* **
4531391 TCATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAG
* **
4531418 TCATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
4531445 TTATTTTACCCTATAGGGGTATTTC-G
1 TCATTTTACCCTATGGGGGTATTTCAG
4531471 ATCATTTTACC
1 -TCATTTTACC
4531482 TATTTTGGGG
Statistics
Matches: 174, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 172 0.99
28 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Done.