Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 39 of 141
Found at i:12625931 original size:30 final size:31
Alignment explanation
Indices: 12625896--12625959 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
12625886 TCAATATTTA
12625896 TGGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
*
12625926 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
12625957 TGG
1 TGG
12625960 CATAAGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.27
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:12625936 original size:15 final size:16
Alignment explanation
Indices: 12625894--12625944 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
12625884 CATCAATATT
12625894 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
12625910 TATGGGTA-TCAAATA
1 TATGGAAAGTCAAAGA
12625925 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
12625940 TATGG
1 TATGG
12625945 GTATCGAGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:12632778 original size:24 final size:25
Alignment explanation
Indices: 12632750--12632797 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
12632740 GGATAGAGCT
12632750 CATGGCAGAGTTA-TTTGTCTCAGG
1 CATGGCAGAGTTAGTTTGTCTCAGG
12632774 CATGGCAGAGTTAGTTTGTCTCAG
1 CATGGCAGAGTTAGTTTGTCTCAG
12632798 AAGCAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (25 bp):
CATGGCAGAGTTAGTTTGTCTCAGG
Found at i:12633763 original size:25 final size:25
Alignment explanation
Indices: 12633729--12633776 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
12633719 TTTATGGAAG
12633729 GTCAAAGATATGAGTATCAAATAAA
1 GTCAAAGATATGAGTATCAAATAAA
*
12633754 GTCAAAGATATGGGTATCAAATA
1 GTCAAAGATATGAGTATCAAATA
12633777 TTGGAAAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.25
Consensus pattern (25 bp):
GTCAAAGATATGAGTATCAAATAAA
Found at i:12633787 original size:30 final size:30
Alignment explanation
Indices: 12633723--12633811 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
12633713 TCAATATTTA
* *
12633723 TGGAAGGTCAAAGATATGAGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
12633750 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
12633778 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
12633809 TGG
1 TGG
12633812 CATAAGAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
25 19 0.36
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.40
31 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:12634602 original size:18 final size:18
Alignment explanation
Indices: 12634554--12634605 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
12634544 AATTTGGTTT
* *
12634554 TGCTGCTGCTACTACTAC
1 TGCTGCTGCTGCTTCTAC
* *
12634572 TGCTG-TCGATGCTTGTAC
1 TGCTGCT-GCTGCTTCTAC
12634590 TGCTGCTGCTGCTTCT
1 TGCTGCTGCTGCTTCT
12634606 TTTGCTTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.10, C:0.29, G:0.23, T:0.38
Consensus pattern (18 bp):
TGCTGCTGCTGCTTCTAC
Found at i:12638158 original size:44 final size:43
Alignment explanation
Indices: 12638103--12638458 Score: 190
Period size: 44 Copynumber: 8.5 Consensus size: 43
12638093 CAGTCCATTA
* *
12638103 CAACTTTAGGGAGATAAGATTGGTTTCTTCTGTCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATTGGTTTATTC-GTCTGCTCTACTG
* * * *
12638147 CAACTTCAGGGAGATAAGACT-G--TATGCGATCTGCTCTTCTA
1 CAACTTCAGGGAGATAAGATTGGTTTATTCG-TCTGCTCTACTG
* * * *
12638188 CAACTTCAGAGAGATAAGATCTGATGTTAATC--C-GCTCCACTG
1 CAACTTCAGGGAGATAAGAT-TGGT-TTATTCGTCTGCTCTACTG
* * ** * * *
12638230 CAACTTCAAGGAGATATGATTATTTTCTTCAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTGGTTTATTC-GTCTGCTCTACTG
* * * *
12638274 CAACTTCAGGGAGATAAG---GCTGTATGCGATCTGCTCTTCTG
1 CAACTTCAGGGAGATAAGATTGGTTTATTCG-TCTGCTCTACTG
* ** * *
12638315 CAACTTCAGAGAGATAAGATCTCATGTTAATC--C-GCTCCACTG
1 CAACTTCAGGGAGATAAGAT-TGGT-TTATTCGTCTGCTCTACTG
* ** * * *
12638357 CAACTTCAAGGAGATAAGATTATTTTCTTCAATCTACTCTACTG
1 CAACTTCAGGGAGATAAGATTGGTTTATTC-GTCTGCTCTACTG
* *
12638401 CAACTTCAGGGAGATAAGACTGG---ATGT-GTCTGCTCTTCTG
1 CAACTTCAGGGAGATAAGATTGGTTTAT-TCGTCTGCTCTACTG
12638441 CAACTTCA--GAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
12638459 CTGATTTTAA
Statistics
Matches: 235, Mismatches: 56, Indels: 48
0.69 0.17 0.14
Matches are distributed among these distances:
38 9 0.04
40 27 0.11
41 67 0.29
42 50 0.21
43 5 0.02
44 70 0.30
45 1 0.00
46 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
CAACTTCAGGGAGATAAGATTGGTTTATTCGTCTGCTCTACTG
Found at i:12638234 original size:127 final size:127
Alignment explanation
Indices: 12638043--12638511 Score: 637
Period size: 127 Copynumber: 3.7 Consensus size: 127
12638033 CTGAGAGTTG
* ** * * * *
12638043 ATGCGACCTGCTCTTCTGCAA-TTCATTGAGATAAGATCTGTTTTTTAATCCAG-TCCATTACAA
1 ATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTG-ATGTTAATCC-GCTCCACTGCAA
* * ** **
12638106 CTTTAGGGAGATAAGATTGGTTTCTTCTGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTGT
64 CTTCAAGGAGATAAGATTATTTTCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTGT
*
12638170 ATGCGATCTGCTCTTCTACAACTTCAGAGAGATAAGATCTGATGTTAATCCGCTCCACTGCAACT
1 ATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGATGTTAATCCGCTCCACTGCAACT
* * *
12638235 TCAAGGAGATATGATTATTTTCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGT
66 TCAAGGAGATAAGATTATTTTCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTGT
*
12638297 ATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTCATGTTAATCCGCTCCACTGCAACT
1 ATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGATGTTAATCCGCTCCACTGCAACT
* *
12638362 TCAAGGAGATAAGATTATTTTCTTCAATCTACTCTACTGCAACTTCAGGGAGATAAGACTGG
66 TCAAGGAGATAAGATTATTTTCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTGT
* * *
12638424 ATGTG-TCTGCTCTTCTGCAACTTC--AGAGATAAGATCTGATTTTAATTCGCTCCACTGCAACT
1 ATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGATGTTAATCCGCTCCACTGCAACT
* * *
12638486 T-TAGG-GAGAGGATTATTTTCTTCAAT
66 TCAAGGAGATAAGATTATTTTCTTCAAT
12638512 TTGTTTAACT
Statistics
Matches: 309, Mismatches: 31, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
122 19 0.06
123 3 0.01
124 36 0.12
126 20 0.06
127 214 0.69
128 17 0.06
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (127 bp):
ATGCGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGATGTTAATCCGCTCCACTGCAACT
TCAAGGAGATAAGATTATTTTCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTGT
Found at i:12638244 original size:83 final size:82
Alignment explanation
Indices: 12638138--12638486 Score: 233
Period size: 86 Copynumber: 4.2 Consensus size: 82
12638128 TCTTCTGTCT
* * ** *
12638138 GCTCTACTGCAACTTCAGGGAGATAAGACTGTATGCGATCTGCTCTTCTACAACTTCAGAGAGAT
1 GCTCTACTGCAACTTCAAGGAGATAAGACTGTATGCAATCTGCTCCACTGCAACTTCA-AGAGAT
12638203 AAGATCTGATGTTAATCC
65 AAGATCTGATGTTAATCC
* * * * * * *
12638221 GCTCCACTGCAACTTCAAGGAGATATGATTATTTTCTTCAATCTGCTCCACTGCAACTTCAGGGA
1 GCTCTACTGCAACTTCAAGGAGATA--A-GACTGTATGCAATCTGCTCCACTGCAACTTCA-AGA
* ** *
12638286 GATAAG-GCTGTATG-CGATCT
62 GATAAGATCTG-ATGTTAATCC
* * * *
12638306 GCTCTTCTGCAACTTC-AGAGAGATAAGATCT-CATGTTAATCCGCTCCACTGCAACTTCAAGGA
1 GCTCTACTGCAACTTCAAG-GAGATAAGA-CTGTATG-CAATCTGCTCCACTGCAACTTCAA-GA
* ** * *
12638369 GATAAGATTATTTTCTTCAATCT
62 GATAAGA-TCTGATGTT-AATCC
* * * ** **
12638392 ACTCTACTGCAACTTCAGGGAGATAAGACTGGATG-TGTCTGCTCTTCTGCAACTTC-AGAGATA
1 GCTCTACTGCAACTTCAAGGAGATAAGACTGTATGCAATCTGCTCCACTGCAACTTCAAGAGATA
* *
12638455 AGATCTGATTTTAATTC
66 AGATCTGATGTTAATCC
*
12638472 GCTCCACTGCAACTT
1 GCTCTACTGCAACTT
12638487 TAGGGAGAGG
Statistics
Matches: 202, Mismatches: 50, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
80 16 0.08
81 5 0.02
82 11 0.05
83 55 0.27
84 19 0.09
85 30 0.15
86 65 0.32
87 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (82 bp):
GCTCTACTGCAACTTCAAGGAGATAAGACTGTATGCAATCTGCTCCACTGCAACTTCAAGAGATA
AGATCTGATGTTAATCC
Found at i:12638690 original size:100 final size:100
Alignment explanation
Indices: 12638524--12638712 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 100
12638514 GTTTAACTGT
* * *
12638524 AATGTCGGGGAAACCAGATTCGCCATCCTAGCTTCAATCTGTTCCACTACATTGCTAAGGAGGTA
1 AATGTCGGGGAAACAAGATTCGCCATCCTAGCTTCAATCTGTTCCACTACACTGCTAAGGAAGTA
*
12638589 AGATTCACCGTTGTGGCTTCAATCTTTTTAATTTC
66 AGATTCACCGTTGTAGCTTCAATCTTTTTAATTTC
* * *
12638624 AATGTCGGGGAAACAAGATTCGCCGTCGT-GACTTCAATCTGTTCC-CTTACACTG-TCAGGAAA
1 AATGTCGGGGAAACAAGATTCGCCATCCTAG-CTTCAATCTGTTCCAC-TACACTGCTAAGG-AA
*
12638686 GTAAGATTCATCGTTGTAGCTTCAATC
63 GTAAGATTCACCGTTGTAGCTTCAATC
12638713 CATTCCACTG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
99 6 0.08
100 72 0.92
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (100 bp):
AATGTCGGGGAAACAAGATTCGCCATCCTAGCTTCAATCTGTTCCACTACACTGCTAAGGAAGTA
AGATTCACCGTTGTAGCTTCAATCTTTTTAATTTC
Found at i:12647421 original size:44 final size:44
Alignment explanation
Indices: 12647373--12647740 Score: 457
Period size: 44 Copynumber: 8.3 Consensus size: 44
12647363 GCAGTGGGGC
* * *
12647373 AGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCATGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
12647417 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
*** * *
12647461 AGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
* *
12647506 AGATCGAAGATAGTAGATCTTGTCTTCATGTATTGCCGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
* * *** * *
12647550 AGATCAAAGATAGCAGATCTTGTTTTCCCATACTGGTGGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
* * * *
12647595 AGATCAAAGATAGCAGATCTTGTCTTCCTGTACTGGTGGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGT
* * * *
12647640 AGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTAAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
* *
12647684 AGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGT
1 AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGT
12647729 AGATCGAAGATA
1 AGATCGAAGATA
12647741 CAAGTCTTAT
Statistics
Matches: 280, Mismatches: 41, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
44 146 0.52
45 134 0.48
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
Found at i:12647524 original size:89 final size:89
Alignment explanation
Indices: 12647411--12647740 Score: 464
Period size: 89 Copynumber: 3.7 Consensus size: 89
12647401 TGTATTGGCA
12647411 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
12647476 GATCTTGTCTTCCCATACTGGTGG
66 GATCTTGTCTTCCCATACTGGTGG
* * *
12647500 TGAAGTAGATCGAAGATAGTAGATCTTGTCTTCATGTATTGCCGTGAAGTAGATCAAAGATAGCA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
*
12647565 GATCTTGTTTTCCCATACTGGTGG
66 GATCTTGTCTTCCCATACTGGTGG
* * * * * * *
12647589 TGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTACTGGTGGTGAAGTAGATCGAAAAAAGT
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
*** * *
12647654 AGATCTTGTCTTCATGTATTGG-CG
65 AGATCTTGTCTTCCCATACTGGTGG
* * *
12647678 TAAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAGATA
1 TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATA
12647741 CAAGTCTTAT
Statistics
Matches: 212, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
89 178 0.84
90 34 0.16
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (89 bp):
TGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
GATCTTGTCTTCCCATACTGGTGG
Found at i:12647655 original size:134 final size:133
Alignment explanation
Indices: 12647373--12647740 Score: 574
Period size: 134 Copynumber: 2.8 Consensus size: 133
12647363 GCAGTGGGGC
*
12647373 AGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCTT
1 AGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTT
* * *
12647438 GTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGA
66 GTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGA
12647503 AGT
131 AGT
* * *
12647506 AGATCGAAGATAGTAGATCTTGTCTTCATGTATTGCCGTGAAGTAGATCAAAGATAGCAGATCTT
1 AGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTT
* * * * * **
12647571 GTTTTCCCATACTGGTGGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTGTACTGGTGGTG
66 GTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTG
12647636 AAGT
130 AAGT
* *
12647640 AGATCGAAAAAAGTAGATCTTGTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGATCTT
1 AGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTT
12647705 GTCTTCCTATATTGGCAGTGAAGTAGATCGAAGATA
66 GTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATA
12647741 CAAGTCTTAT
Statistics
Matches: 210, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
133 71 0.34
134 139 0.66
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (133 bp):
AGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTT
GTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGTGA
AGT
Found at i:12648610 original size:10 final size:11
Alignment explanation
Indices: 12648595--12648628 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
12648585 ACATATATAT
12648595 TTTTATTTTC-
1 TTTTATTTTCA
12648605 TTTTATTTTCA
1 TTTTATTTTCA
12648616 TTTTA-TTTCA
1 TTTTATTTTCA
12648626 TTT
1 TTT
12648629 AAAATAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 18 0.78
11 5 0.22
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:12651259 original size:37 final size:37
Alignment explanation
Indices: 12651213--12651286 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
12651203 ATTAATTTTT
* *
12651213 TAGACTGTTTATGTTTTCTTGTGA-TGTAAATTTAATC
1 TAGAATGTTTATATTTTCTTGT-ACTGTAAATTTAATC
*
12651250 TAGAATGTTTGTATTTTCTTGTATCTGTAAATTTAAT
1 TAGAATGTTTATATTTTCTTGTA-CTGTAAATTTAAT
12651287 TTGTTGCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 1 0.03
37 19 0.59
38 12 0.38
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.53
Consensus pattern (37 bp):
TAGAATGTTTATATTTTCTTGTACTGTAAATTTAATC
Found at i:12652938 original size:22 final size:22
Alignment explanation
Indices: 12652913--12652954 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12652903 ATGTGATTGC
12652913 TGACTAATGTATTGATATTTCA
1 TGACTAATGTATTGATATTTCA
*
12652935 TGACTAATGTGTTGATATTT
1 TGACTAATGTATTGATATTT
12652955 GACAATCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (22 bp):
TGACTAATGTATTGATATTTCA
Found at i:12653259 original size:35 final size:35
Alignment explanation
Indices: 12653188--12653265 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
12653178 TCTAGTGTGT
* * *
12653188 TGGATGGCACTGGCTCTTATGAGCAACTGGTGTGC
1 TGGATGGTACTGCCTCTTATGAGCAACTGGTATGC
**
12653223 TGGATGGTACTGCCTCTTATGAGCATTTGGTATGC
1 TGGATGGTACTGCCTCTTATGAGCAACTGGTATGC
*
12653258 TGAATGGT
1 TGGATGGT
12653266 TAACCGTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (35 bp):
TGGATGGTACTGCCTCTTATGAGCAACTGGTATGC
Found at i:12658496 original size:24 final size:24
Alignment explanation
Indices: 12658469--12658519 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
12658459 AGATTTAGAT
* *
12658469 TTTATTAGTAGAATATATTTGTTA
1 TTTATTAGCAGAAAATATTTGTTA
* *
12658493 TTTATTAGCATAAAATCTTTGTTA
1 TTTATTAGCAGAAAATATTTGTTA
12658517 TTT
1 TTT
12658520 CTTTTCCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTATTAGCAGAAAATATTTGTTA
Found at i:12660368 original size:2 final size:2
Alignment explanation
Indices: 12660356--12660389 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
12660346 AAAAATATGC
*
12660356 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12660390 GTTAATAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12664190 original size:43 final size:43
Alignment explanation
Indices: 12664141--12664435 Score: 430
Period size: 43 Copynumber: 6.9 Consensus size: 43
12664131 TTATGTGAGG
** *
12664141 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
12664184 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
*
12664227 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTCTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
* *
12664270 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
* * *
12664313 AAATGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
* * * *
12664356 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
* * * *
12664399 AAACGCCACTAAAAAACA-AACCTTTAGCGACGCTTCT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCT
12664436 CGCAAAAATG
Statistics
Matches: 233, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
42 17 0.07
43 216 0.93
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTGTCAC
Found at i:12669381 original size:38 final size:38
Alignment explanation
Indices: 12669338--12669419 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
12669328 TAAAACAATT
* * * *
12669338 GATAAACCAAACTTTGTGAGATAAACATGTAAAAAGCA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
*
12669376 GATAAAAGAAAATTTGTGAGATAAACATATAAAAAACA
1 GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
12669414 GATAAA
1 GATAAA
12669420 GTTTGTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.21
Consensus pattern (38 bp):
GATAAAACAAAATTTGTGAGATAAACATATAAAAAACA
Found at i:12669823 original size:34 final size:36
Alignment explanation
Indices: 12669780--12669850 Score: 128
Period size: 34 Copynumber: 2.0 Consensus size: 36
12669770 CCAAAGCTAA
12669780 AGTGTCGATGAGAAACAATCGC-TT-CATTAGATTT
1 AGTGTCGATGAGAAACAATCGCTTTCCATTAGATTT
12669814 AGTGTCGATGAGAAACAATCGCTTTCCATTAGATTT
1 AGTGTCGATGAGAAACAATCGCTTTCCATTAGATTT
12669850 A
1 A
12669851 ACGAGTTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 22 0.63
35 2 0.06
36 11 0.31
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (36 bp):
AGTGTCGATGAGAAACAATCGCTTTCCATTAGATTT
Found at i:12670287 original size:39 final size:39
Alignment explanation
Indices: 12670244--12670328 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
12670234 TGGGCCTAGG
*
12670244 TTTTTTGCGGCGCTTTTCT-AAAAACACCACTAATGCTCA
1 TTTTTAGCGGCG-TTTTCTGAAAAACACCACTAATGCTCA
* * *
12670283 TTTTTAGCGGCGTTTTCTGAAAAGCGCCACTAATGCTTA
1 TTTTTAGCGGCGTTTTCTGAAAAACACCACTAATGCTCA
12670322 TTTTTAG
1 TTTTTAG
12670329 TGGGAGACTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 6 0.15
39 35 0.85
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCTGAAAAACACCACTAATGCTCA
Found at i:12677277 original size:113 final size:113
Alignment explanation
Indices: 12677079--12677304 Score: 373
Period size: 113 Copynumber: 2.0 Consensus size: 113
12677069 TAATGAAAAG
* *
12677079 ATATATATATCAACAGTGTAAAATTTTAGTGGTTCTCTATTAATTTATAATTTTTTATACGATTA
1 ATATATATATCAACAGTGTAAAATTTGAGTGGTTCTCTATCAATTTATAATTTTTTATACGATTA
* *
12677144 ATATTTTAAAAATCTAATAATTGGATTTATCAAAATATTTGTACTTGT
66 ATATTTTAAAAATCTAATAATTGAATTTATCAAAATATTTATACTTGT
*
12677192 ATATATATA-CACACAGTGTACAATTTGAGTGGTTCTCTATCAATTTATAATTTTTTATACGATT
1 ATATATATATCA-ACAGTGTAAAATTTGAGTGGTTCTCTATCAATTTATAATTTTTTATACGATT
* *
12677256 AATATTTTAAAAATCTAATAATTGAATTTATTAATATATTTATACTTGT
65 AATATTTTAAAAATCTAATAATTGAATTTATCAAAATATTTATACTTGT
12677305 CATGCATGTA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
112 2 0.02
113 103 0.98
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (113 bp):
ATATATATATCAACAGTGTAAAATTTGAGTGGTTCTCTATCAATTTATAATTTTTTATACGATTA
ATATTTTAAAAATCTAATAATTGAATTTATCAAAATATTTATACTTGT
Found at i:12679583 original size:13 final size:14
Alignment explanation
Indices: 12679555--12679595 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
12679545 CCAGCCCAGT
* *
12679555 AAACACCAAAAGAA
1 AAACACAAAAATAA
12679569 AAAC-CAAAAAT-A
1 AAACACAAAAATAA
12679581 AAACACAAAAATAA
1 AAACACAAAAATAA
12679595 A
1 A
12679596 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.76, C:0.17, G:0.02, T:0.05
Consensus pattern (14 bp):
AAACACAAAAATAA
Found at i:12680745 original size:23 final size:20
Alignment explanation
Indices: 12680679--12680752 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 20
12680669 TTATTGTTGT
*
12680679 TATTAAATTAATTAGTTTA-A
1 TATT-AATTTATTAGTTTATA
12680699 TATTAATTTATTA--TTATA
1 TATTAATTTATTAGTTTATA
12680717 GGTATTATTATTGTATTAGTTTATA
1 --TATTA--ATT-TATTAGTTTATA
*
12680742 TATTTATTTAT
1 TATTAATTTAT
12680753 CTTTTTTATG
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
17 3 0.07
18 1 0.02
19 8 0.18
20 12 0.27
21 3 0.07
22 3 0.07
23 9 0.20
25 5 0.11
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (20 bp):
TATTAATTTATTAGTTTATA
Found at i:12680771 original size:22 final size:22
Alignment explanation
Indices: 12680745--12680795 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
12680735 GTTTATATAT
*
12680745 TTATTTATCTTTTTTATGTAC-A
1 TTATTTAT-TTTATTATGTACTA
12680767 TTATTTTATTTTATTATGTACTA
1 TTA-TTTATTTTATTATGTACTA
12680790 TTATTT
1 TTATTT
12680796 TAATTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTTATTTTATTATGTACTA
Found at i:12680792 original size:23 final size:23
Alignment explanation
Indices: 12680748--12680797 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
12680738 TATATATTTA
*
12680748 TTTATCTTTTTTATGTACATTAT
1 TTTATCTTTATTATGTACATTAT
12680771 TTTAT-TTTATTATGTACTATTAT
1 TTTATCTTTATTATGTAC-ATTAT
12680794 TTTA
1 TTTA
12680798 ATTCTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATCTTTATTATGTACATTAT
Found at i:12694341 original size:15 final size:16
Alignment explanation
Indices: 12694317--12694349 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12694307 ACTATTTATA
*
12694317 TTGAATTACTT-ATTC
1 TTGAAATACTTCATTC
12694332 TTGAAATACTTCATTC
1 TTGAAATACTTCATTC
12694348 TT
1 TT
12694350 TTTCAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.15, G:0.06, T:0.52
Consensus pattern (16 bp):
TTGAAATACTTCATTC
Found at i:12695739 original size:44 final size:44
Alignment explanation
Indices: 12695227--12695726 Score: 810
Period size: 44 Copynumber: 11.4 Consensus size: 44
12695217 CTGGTGAAAC
** *
12695227 TGTAAGTCCTATCTCCCTGGACAATAGTGGAATAGGTCGAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
** *
12695271 TGTAAGTCCTATCTCCCTAAACTA-CAGTAGAATAGGTTGAAGAT
1 TGTAAGTCCTATCTCCCTGGAC-AGCAGTGGAATAGGTTGAAGAT
*
12695315 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGGT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
*
12695359 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGGT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
12695403 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
12695447 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
**
12695491 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
*
12695535 TGTAAGTCCTATCTCCCTGGACAGCA-TGGAATAGGTCGAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
*
12695578 TGTAAGTCCTATCTCCCTGGACAGCA-TGGAATAGGTCGAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
* *
12695621 TGTAAGTCCTATCTCCCTGGACAGGAGTGGAATAGGTTGAAGGT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
*
12695665 TGTAAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGAT
1 TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
*
12695709 TGT-AGATCCTGTCTCCCT
1 TGTAAG-TCCTATCTCCCT
12695727 AAGCAGTAGT
Statistics
Matches: 432, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
43 87 0.20
44 344 0.80
45 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (44 bp):
TGTAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
Found at i:12696470 original size:441 final size:441
Alignment explanation
Indices: 12695648--12696535 Score: 1776
Period size: 441 Copynumber: 2.0 Consensus size: 441
12695638 TGGACAGGAG
12695648 TGGAATAGGTTGAAGGTTGTAAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
1 TGGAATAGGTTGAAGGTTGTAAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
12695713 GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACTTCCCTGATAGTG
66 GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACTTCCCTGATAGTG
12695778 CAGTGGAACAGATTAAAGCTACAACAGTGAAACTTACTTCCTCAACATTGCAGTCAAATAGATTA
131 CAGTGGAACAGATTAAAGCTACAACAGTGAAACTTACTTCCTCAACATTGCAGTCAAATAGATTA
12695843 AAGCTACAACAACGAATCTTATTTCCCTAGCGTTGCGGTAGAGTAGATAGCATCAAACTTATCTA
196 AAGCTACAACAACGAATCTTATTTCCCTAGCGTTGCGGTAGAGTAGATAGCATCAAACTTATCTA
12695908 TAAAGTTGCAACAGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGAC
261 TAAAGTTGCAACAGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGAC
12695973 TAAAGATAGCAAATTTTATTCTTTTGAGGAGCTACAAGGTACAAATCCTATCTCCCTGACGTTGC
326 TAAAGATAGCAAATTTTATTCTTTTGAGGAGCTACAAGGTACAAATCCTATCTCCCTGACGTTGC
12696038 AGTGGAGTGGATCGAAGCACCAATTCCTATACCTCTGAAGATGCAGTCGGT
391 AGTGGAGTGGATCGAAGCACCAATTCCTATACCTCTGAAGATGCAGTCGGT
12696089 TGGAATAGGTTGAAGGTTGTAAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
1 TGGAATAGGTTGAAGGTTGTAAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
12696154 GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACTTCCCTGATAGTG
66 GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACTTCCCTGATAGTG
12696219 CAGTGGAACAGATTAAAGCTACAACAGTGAAACTTACTTCCTCAACATTGCAGTCAAATAGATTA
131 CAGTGGAACAGATTAAAGCTACAACAGTGAAACTTACTTCCTCAACATTGCAGTCAAATAGATTA
12696284 AAGCTACAACAACGAATCTTATTTCCCTAGCGTTGCGGTAGAGTAGATAGCATCAAACTTATCTA
196 AAGCTACAACAACGAATCTTATTTCCCTAGCGTTGCGGTAGAGTAGATAGCATCAAACTTATCTA
12696349 TAAAGTTGCAACAGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGAC
261 TAAAGTTGCAACAGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGAC
12696414 TAAAGATAGCAAATTTTATTCTTTTGAGGAGCTACAAGGTACAAATCCTATCTCCCTGACGTTGC
326 TAAAGATAGCAAATTTTATTCTTTTGAGGAGCTACAAGGTACAAATCCTATCTCCCTGACGTTGC
12696479 AGTGGAGTGGATCGAAGCACCAATTCCTATACCTCTGAAGATGCAGTCGGT
391 AGTGGAGTGGATCGAAGCACCAATTCCTATACCTCTGAAGATGCAGTCGGT
12696530 TGGAAT
1 TGGAAT
12696536 GAGGCTACTT
Statistics
Matches: 447, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
441 447 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (441 bp):
TGGAATAGGTTGAAGGTTGTAAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAGATTGTA
GATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTACTTCCCTGATAGTG
CAGTGGAACAGATTAAAGCTACAACAGTGAAACTTACTTCCTCAACATTGCAGTCAAATAGATTA
AAGCTACAACAACGAATCTTATTTCCCTAGCGTTGCGGTAGAGTAGATAGCATCAAACTTATCTA
TAAAGTTGCAACAGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGAC
TAAAGATAGCAAATTTTATTCTTTTGAGGAGCTACAAGGTACAAATCCTATCTCCCTGACGTTGC
AGTGGAGTGGATCGAAGCACCAATTCCTATACCTCTGAAGATGCAGTCGGT
Found at i:12697906 original size:22 final size:22
Alignment explanation
Indices: 12697880--12697930 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
12697870 GTTTATATAT
* *
12697880 TTATTTATCTTTTTTATGTAC-A
1 TTATTTAT-TTTATTACGTACTA
12697902 TTATTTTATTTTATTACGTACTA
1 TTA-TTTATTTTATTACGTACTA
12697925 TTATTT
1 TTATTT
12697931 TAATTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.65
Consensus pattern (22 bp):
TTATTTATTTTATTACGTACTA
Found at i:12697927 original size:23 final size:23
Alignment explanation
Indices: 12697883--12697932 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
12697873 TATATATTTA
* *
12697883 TTTATCTTTTTTATGTACATTAT
1 TTTATCTTTATTACGTACATTAT
12697906 TTTAT-TTTATTACGTACTATTAT
1 TTTATCTTTATTACGTAC-ATTAT
12697929 TTTA
1 TTTA
12697933 ATTCTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTATCTTTATTACGTACATTAT
Found at i:12699419 original size:24 final size:24
Alignment explanation
Indices: 12699372--12699419 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12699362 CTAGATTAAT
* **
12699372 CAAAGTTTAAGTGAGAAATTAAAA
1 CAAAGTTTAACTGAGAAAACAAAA
12699396 CAAAGTTTAACTGAGAAAACAAAA
1 CAAAGTTTAACTGAGAAAACAAAA
12699420 TTGAGAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (24 bp):
CAAAGTTTAACTGAGAAAACAAAA
Found at i:12699535 original size:30 final size:28
Alignment explanation
Indices: 12699478--12699551 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 28
12699468 CGTTTCAACT
**
12699478 TTATAAAATCGTA-AAAAATATAAAAAA
1 TTATAAAATTTTATAAAAATATAAAAAA
*
12699505 TTGTAAAATTTTATAAAAATCATAAAAAAA
1 TTATAAAATTTTATAAAAAT-AT-AAAAAA
12699535 TTATAAAATTTTATAAA
1 TTATAAAATTTTATAAA
12699552 GTCAAAAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.25
28 6 0.15
29 2 0.05
30 22 0.55
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
TTATAAAATTTTATAAAAATATAAAAAA
Found at i:12699814 original size:10 final size:10
Alignment explanation
Indices: 12699801--12699891 Score: 69
Period size: 10 Copynumber: 9.2 Consensus size: 10
12699791 TTTTGATGTA
12699801 TTTTATAATT
1 TTTTATAATT
*
12699811 TTTTAT-GTT
1 TTTTATAATT
**
12699820 TTTTATAAAA
1 TTTTATAATT
*
12699830 TTTTACAATT
1 TTTTATAATT
*
12699840 TTTT-TACTT
1 TTTTATAATT
*
12699849 TTTTACAATT
1 TTTTATAATT
* *
12699859 TTATAAAATT
1 TTTTATAATT
*
12699869 TTTTCTAATT
1 TTTTATAATT
*
12699879 TTTAATAAATT
1 TTTTAT-AATT
12699890 TT
1 TT
12699892 AAAATTTTAT
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
9 15 0.25
10 39 0.65
11 6 0.10
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:12699818 original size:19 final size:20
Alignment explanation
Indices: 12699788--12699827 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
12699778 TGTTAAAAGG
12699788 ATTTTTTGATGTATTTTATA
1 ATTTTTTGATGTATTTTATA
*
12699808 ATTTTTT-ATGTTTTTTATA
1 ATTTTTTGATGTATTTTATA
12699827 A
1 A
12699828 AATTTTACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (20 bp):
ATTTTTTGATGTATTTTATA
Found at i:12699832 original size:29 final size:28
Alignment explanation
Indices: 12699800--12699924 Score: 103
Period size: 27 Copynumber: 4.4 Consensus size: 28
12699790 TTTTTGATGT
*
12699800 ATTTTATAATTTTTTATGTTTTTTATAAA
1 ATTTTATAATTTTTTATATTTTTT-TAAA
* * *
12699829 ATTTTACAATTTTTT-TACTTTTTTACA
1 ATTTTATAATTTTTTATATTTTTTTAAA
* * *
12699856 ATTTTATAAAATTTTTTCTAATTTTTAATAA
1 ATTTTAT--AATTTTTTATATTTTTTTA-AA
* *
12699887 ATTTTA-AA-ATTTTATATTTTATTAAA
1 ATTTTATAATTTTTTATATTTTTTTAAA
*
12699913 ATTTAATAATTT
1 ATTTTATAATTT
12699925 ATCTAAAATT
Statistics
Matches: 75, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
26 7 0.09
27 22 0.29
28 9 0.12
29 22 0.29
30 8 0.11
31 7 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTTTATAATTTTTTATATTTTTTTAAA
Found at i:12699833 original size:19 final size:19
Alignment explanation
Indices: 12699791--12699834 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12699781 TAAAAGGATT
**
12699791 TTTTGATGTATTTTATAATT
1 TTTT-ATGTATTTTATAAAA
*
12699811 TTTTATGTTTTTTATAAAA
1 TTTTATGTATTTTATAAAA
12699830 TTTTA
1 TTTTA
12699835 CAATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (19 bp):
TTTTATGTATTTTATAAAA
Found at i:12699841 original size:19 final size:19
Alignment explanation
Indices: 12699819--12699899 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
12699809 TTTTTTATGT
12699819 TTTTTATAAAATTTTACAA
1 TTTTTATAAAATTTTACAA
* ***
12699838 TTTTTTTACTTTTTTACAA
1 TTTTTATAAAATTTTACAA
*
12699857 -TTTTATAAAATTTTTTCTAA
1 TTTTTATAAAA-TTTTAC-AA
*
12699877 TTTTTA-ATAAATTTTAAAA
1 TTTTTATA-AAATTTTACAA
12699896 TTTT
1 TTTT
12699900 ATATTTTATT
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
18 6 0.13
19 26 0.55
20 7 0.15
21 8 0.17
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATAAAATTTTACAA
Found at i:12699931 original size:19 final size:18
Alignment explanation
Indices: 12699879--12699936 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
12699869 TTTTCTAATT
*
12699879 TTTAATAAATT-TTAAAA
1 TTTAATAATTTATTAAAA
* *
12699896 TTTTATATTTTATTAAAA
1 TTTAATAATTTATTAAAA
12699914 TTTAATAATTTATCTAAAA
1 TTTAATAATTTAT-TAAAA
12699933 TTTA
1 TTTA
12699937 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 8 0.24
18 17 0.50
19 9 0.26
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATAATTTATTAAAA
Found at i:12699943 original size:19 final size:18
Alignment explanation
Indices: 12699890--12699943 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
12699880 TTAATAAATT
*
12699890 TTAAAATTT-TATATTTTA
1 TTAAAATTTATTTA-TTTA
* *
12699908 TTAAAATTTAATAATTTA
1 TTAAAATTTATTTATTTA
12699926 TCTAAAATTTATTTATTT
1 T-TAAAATTTATTTATTT
12699944 TTATTTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAAATTTATTTATTTA
Found at i:12699948 original size:10 final size:10
Alignment explanation
Indices: 12699933--12699964 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
12699923 TTATCTAAAA
12699933 TTTATTTATT
1 TTTATTTATT
12699943 TTTATTTATT
1 TTTATTTATT
*
12699953 TTAATTTATT
1 TTTATTTATT
12699963 TT
1 TT
12699965 CTAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTATT
Found at i:12700070 original size:2 final size:2
Alignment explanation
Indices: 12700063--12700124 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
12700053 TGAGTGCAAA
12700063 AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12700104 AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
12700125 ACTTAATTGC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12700831 original size:18 final size:20
Alignment explanation
Indices: 12700791--12700833 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
12700781 AAAAATTAAA
*
12700791 AAAAATTAAAAGTAATTTTT
1 AAAAATTAAAAGTAATTTAT
*
12700811 AAAATTTAAAA-T-ATTTAT
1 AAAAATTAAAAGTAATTTAT
12700829 AAAAA
1 AAAAA
12700834 ATTCCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAAATTAAAAGTAATTTAT
Found at i:12704536 original size:10 final size:11
Alignment explanation
Indices: 12704506--12704535 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
12704496 GCAATAGTAC
12704506 AAAAAAAAATT
1 AAAAAAAAATT
12704517 AAAAAAAAATT
1 AAAAAAAAATT
12704528 AAAAAAAA
1 AAAAAAAA
12704536 TATCAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:12704543 original size:12 final size:11
Alignment explanation
Indices: 12704505--12704543 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12704495 AGCAATAGTA
12704505 CAAAAAAAAAT
1 CAAAAAAAAAT
*
12704516 TAAAAAAAAAT
1 CAAAAAAAAAT
*
12704527 TAAAAAAAATAT
1 CAAAAAAAA-AT
12704539 CAAAA
1 CAAAA
12704544 TAATACAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (11 bp):
CAAAAAAAAAT
Found at i:12704660 original size:27 final size:27
Alignment explanation
Indices: 12704595--12704666 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
12704585 GAGTGGAGGG
12704595 ACTGCCACAGGCGGCACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
** * * *
12704622 GGTGGCAGAGGCGGTACCAAAGGTGCC
1 ACTGCCACAGGCGGCACCAAAGGTGCC
12704649 ACTGCCACAGGCGGCACC
1 ACTGCCACAGGCGGCACC
12704667 GCCTCCTTAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.24, C:0.33, G:0.35, T:0.08
Consensus pattern (27 bp):
ACTGCCACAGGCGGCACCAAAGGTGCC
Found at i:12704928 original size:17 final size:17
Alignment explanation
Indices: 12704906--12704938 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12704896 AAATATACTA
*
12704906 TTTTCGTTTTTTATTTC
1 TTTTCGTATTTTATTTC
12704923 TTTTCGTATTTTATTT
1 TTTTCGTATTTTATTT
12704939 TTGTTGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCGTATTTTATTTC
Found at i:12705016 original size:30 final size:30
Alignment explanation
Indices: 12704973--12705095 Score: 122
Period size: 30 Copynumber: 4.4 Consensus size: 30
12704963 TGGTTTTGAT
12704973 TTTAATT-TTTATGTTATGTACATTCTATG
1 TTTAATTATTTATGTTATGTACATTCTATG
*
12705002 TTTAATTATTTATGTTATGTACATACTATG
1 TTTAATTATTTATGTTATGTACATTCTATG
12705032 TCTT-ATTA--T-T-TTAT-T--ATT-TATG
1 T-TTAATTATTTATGTTATGTACATTCTATG
* *
12705054 TTATTATTATTTATGTTATGTACATTATATG
1 TT-TAATTATTTATGTTATGTACATTCTATG
*
12705085 TTTTATTATTT
1 TTTAATTATTT
12705096 TATTTAATTT
Statistics
Matches: 80, Mismatches: 2, Indels: 23
0.76 0.02 0.22
Matches are distributed among these distances:
21 1 0.01
22 6 0.08
23 6 0.08
25 2 0.03
26 5 0.06
27 5 0.06
28 2 0.03
29 7 0.09
30 38 0.47
31 8 0.10
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (30 bp):
TTTAATTATTTATGTTATGTACATTCTATG
Found at i:12705059 original size:20 final size:20
Alignment explanation
Indices: 12705034--12705074 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12705024 ATACTATGTC
*
12705034 TTATTATTTTATTAT-TTATG
1 TTATTATTAT-TTATGTTATG
12705054 TTATTATTATTTATGTTATG
1 TTATTATTATTTATGTTATG
12705074 T
1 T
12705075 ACATTATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (20 bp):
TTATTATTATTTATGTTATG
Found at i:12705060 original size:15 final size:15
Alignment explanation
Indices: 12705042--12705095 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
12705032 TCTTATTATT
12705042 TTATTATTTATGTTA
1 TTATTATTTATGTTA
12705057 TTATTATTTATGTTA
1 TTATTATTTATGTTA
*
12705072 TGTA-CATTATATGTT-
1 T-TATTATT-TATGTTA
12705087 TTATTATTT
1 TTATTATTT
12705096 TATTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.09
15 23 0.68
16 8 0.24
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (15 bp):
TTATTATTTATGTTA
Found at i:12705128 original size:58 final size:53
Alignment explanation
Indices: 12704998--12705114 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 53
12704988 ATGTACATTC
12704998 TATGTT-TAATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATT
1 TATGTTATAATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATT
* *
12705050 TATGTTATTATTATTTATGTTATGTACATTA-TATGTTTTATTATTTTATTTAATT
1 TATGTTATAATTATTTATGTTATGTACA-TACTATGTCTTATTATTTTA-TT-ATT
*
12705105 TATTTTATAA
1 TATGTTATAA
12705115 GTGTGTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
52 6 0.11
53 36 0.63
54 4 0.07
55 11 0.19
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (53 bp):
TATGTTATAATTATTTATGTTATGTACATACTATGTCTTATTATTTTATTATT
Found at i:12705403 original size:39 final size:37
Alignment explanation
Indices: 12705359--12705525 Score: 97
Period size: 39 Copynumber: 4.3 Consensus size: 37
12705349 AAAAATACAC
12705359 TAAAATAATACATTTCAAACATTATGTACTAAAATAATA
1 TAAAATAATACATTTCAAA-ATTATGTACTAAAA-AATA
* * * * ** *
12705398 TAAAATAATAAAATCCGAAAATAAAAATAC-AAACAAATGGC
1 TAAAATAATACATTTC-AAAAT-TATGTACTAAA-AAAT--A
* ****
12705439 CAAAATAAGGGTTTTCACTAAATT-TGTA-TAAAAAATA
1 TAAAATAATACATTTCA--AAATTATGTACTAAAAAATA
12705476 CTAAAATAATACATTTCAAACATTATGTACTAAAATAATA
1 -TAAAATAATACATTTCAAA-ATTATGTACTAAAA-AATA
12705516 TAAAATAATA
1 TAAAATAATA
12705526 AAATCTGAAA
Statistics
Matches: 92, Mismatches: 23, Indels: 26
0.65 0.16 0.18
Matches are distributed among these distances:
36 2 0.02
37 3 0.03
38 16 0.17
39 40 0.43
40 18 0.20
41 9 0.10
42 4 0.04
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.29
Consensus pattern (37 bp):
TAAAATAATACATTTCAAAATTATGTACTAAAAAATA
Found at i:12705448 original size:123 final size:124
Alignment explanation
Indices: 12705296--12705611 Score: 484
Period size: 118 Copynumber: 2.6 Consensus size: 124
12705286 ATAAAATCTG
* *
12705296 AAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTCTATAAAAAAAATACACTA
1 AAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAATACACTA
12705361 AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATCCGAAAAT
66 AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATCCGAAAAT
* *
12705420 -AAAAATACAAACAAATGGCCAAAATAAGGG-TTTTCACTAAATTTGTAT--AAAAAAT--ACTA
1 AAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAATACACTA
*
12705479 AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATCTGAAAAT
66 AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATCCGAAAAT
* * *
12705538 AAGAAAAATACGAACAAATGGCCAAAATAAGGATTTTTTACTAAATTTATA-AAAAAAAACACAC
1 -A-AAAAATACGAACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAATACAC
*
12705602 TAAATTAATA
64 TAAAATAATA
12705612 TAAGGGGACA
Statistics
Matches: 174, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
118 62 0.36
120 7 0.04
121 28 0.16
122 32 0.18
123 34 0.20
125 11 0.06
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.26
Consensus pattern (124 bp):
AAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAAAATACACTA
AAATAATACATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATCCGAAAAT
Found at i:12706752 original size:154 final size:154
Alignment explanation
Indices: 12706557--12707148 Score: 681
Period size: 154 Copynumber: 3.7 Consensus size: 154
12706547 TGTTTTATTG
* * *
12706557 AAAGTAATAAAAT-CTG-GGAAAAAATACGAACAAATGGCCGAAATAAGGAATTTTTACTAAATT
1 AAAGTAATAAAATCCAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATT
*
12706620 TATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATA
66 TATTTAAAAAACACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATA
12706685 AAATTAGAAAATAATATATTTTTT
131 AAATTAGAAAATAATATATTTTTT
12706709 AAAGTAATAAAATCCAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATT
1 AAAGTAATAAAATCCAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATT
* * * * *
12706774 TATTTAAAAAACAAAATTAATTAATACATTTCAAACATAATGTACTAAAAAAATGTAAAATAATA
66 TATTTAAAAAACACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATA
*
12706839 AAA-TACAAAAATAATATATTTTTATT
131 AAATTA-GAAAATAATATA-TTTT-TT
* * *
12706865 GAAAGTAATAAAA-CTCGGA-AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTNNNNNN
1 -AAAGTAATAAAATC-CAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTT------
* *
12706928 NNNNAAGGGCCGAAATAAGGGTTTTTTAATTTATTTAAAAAACACACTAAATGAATACATTTCAA
58 -----A----C--TA------------AATTTATTTAAAAAACACAATAAATGAATACATTTCAA
12706993 ACATAATGTATTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTT
100 ACATAATGTATTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTT
*
12707048 AAAGTAATAAAATCCAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTACTAAATT
1 AAAGTAATAAAATCCAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATT
* *
12707113 TATTTAAAAAACACAATTAATTAATACATTTCAAAC
66 TATTTAAAAAACACAATAAATGAATACATTTCAAAC
12707149 CCTAAAGGCC
Statistics
Matches: 374, Mismatches: 27, Indels: 76
0.78 0.06 0.16
Matches are distributed among these distances:
152 13 0.03
153 4 0.01
154 155 0.41
155 4 0.01
156 39 0.10
157 15 0.04
166 1 0.00
167 1 0.00
168 1 0.00
171 1 0.00
172 1 0.00
173 1 0.00
182 15 0.04
183 40 0.11
184 4 0.01
185 77 0.21
186 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.29
Consensus pattern (154 bp):
AAAGTAATAAAATCCAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATT
TATTTAAAAAACACAATAAATGAATACATTTCAAACATAATGTATTAAAATAATGTAAAATAATA
AAATTAGAAAATAATATATTTTTT
Found at i:12706987 original size:185 final size:176
Alignment explanation
Indices: 12706746--12707105 Score: 444
Period size: 185 Copynumber: 2.0 Consensus size: 176
12706736 ACGAACAAAT
* * *
12706746 GGCCGAAATAAGGATTTTTTACTAAATTTATTTAAAAAACAAAATTAATTAATACATTTCAAACA
1 GGCCGAAATAAGGAGTTTTTA-TAAATTTATTTAAAAAACAAAATAAATGAATACATTTCAAACA
12706811 TAATGTACTAAAAAAATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATA
65 TAATGTACTAAAAAAATGTAAAATAATAAAATTA-AAAAATAATATA-TTTT-TT-AAAGTAATA
*
12706875 AAA-CTCGGA-AAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTNNNNNNNNNNAAG
126 AAATC-CAGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT----------AAG
* *
12706935 GGCCGAAATAAGG-GTTTTT-T-AATTTATTTAAAAAACACACTAAATGAATACATTTCAAACAT
1 GGCCGAAATAAGGAGTTTTTATAAATTTATTTAAAAAACAAAATAAATGAATACATTTCAAACAT
* * *
12706997 AATGTATTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAATC
66 AATGTACTAAAAAAATGTAAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATC
*
12707062 CAGAGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTA
131 CAGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTA
12707106 CTAAATTTAT
Statistics
Matches: 158, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
173 1 0.01
182 15 0.09
183 40 0.25
184 4 0.03
185 77 0.49
186 3 0.02
188 5 0.03
189 13 0.08
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.29
Consensus pattern (176 bp):
GGCCGAAATAAGGAGTTTTTATAAATTTATTTAAAAAACAAAATAAATGAATACATTTCAAACAT
AATGTACTAAAAAAATGTAAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATC
CAGAGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTAAG
Found at i:12708117 original size:27 final size:27
Alignment explanation
Indices: 12708074--12708146 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
12708064 TGGTGGAGGG
*
12708074 AAAGAGATTGGCGGCACCAAAGGTGCC
1 AAAGTGATTGGCGGCACCAAAGGTGCC
* * *
12708101 AATGTGATTGGCGGCACCGATGGTGCC
1 AAAGTGATTGGCGGCACCAAAGGTGCC
*
12708128 AAAGTCATTGGCGGCACCA
1 AAAGTGATTGGCGGCACCA
12708147 GTCTTATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.16
Consensus pattern (27 bp):
AAAGTGATTGGCGGCACCAAAGGTGCC
Found at i:12708233 original size:28 final size:28
Alignment explanation
Indices: 12708192--12708246 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
12708182 AAGGAGAGGG
* *
12708192 AAAGAAAGAAAAGGAAAGGAGAGGAAAT
1 AAAGAAAGAAAAGGAAAGAAAAGGAAAT
12708220 AAAGAAA-AAGAAGGAAAGAAAAGGAAA
1 AAAGAAAGAA-AAGGAAAGAAAAGGAAA
12708247 GGAGAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (28 bp):
AAAGAAAGAAAAGGAAAGAAAAGGAAAT
Found at i:12708299 original size:41 final size:39
Alignment explanation
Indices: 12708194--12708355 Score: 211
Period size: 40 Copynumber: 4.0 Consensus size: 39
12708184 GGAGAGGGAA
* *
12708194 AGAAAGAAAAGGAAAGGAGAGGAAATAAAGAAA-AAGAAG
1 AGAAAGAAAAGGAAAGGAGAAGAAA-AAAGAAAGAAAAAG
12708233 -GAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAG
1 AGAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAG
*
12708271 AGTAAAGAAAAGGAGAGGAGAAGAAAAAAGAAAGAAAAAG
1 AG-AAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAG
*
12708311 AAGGAAAGAAAACGAAAGGAGAAGAGAAAAAAGAAAGAAAGAAG
1 -A-GAAAGAAAAGGAAAGGAG-A-AGAAAAAAGAAAGAAA-AAG
12708355 A
1 A
12708356 AGAAGAGGGA
Statistics
Matches: 110, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
37 7 0.06
38 28 0.25
39 1 0.01
40 36 0.33
41 16 0.15
42 2 0.02
43 17 0.15
44 3 0.03
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.01
Consensus pattern (39 bp):
AGAAAGAAAAGGAAAGGAGAAGAAAAAAGAAAGAAAAAG
Found at i:12708302 original size:47 final size:43
Alignment explanation
Indices: 12708251--12708362 Score: 106
Period size: 46 Copynumber: 2.5 Consensus size: 43
12708241 AGGAAAGGAG
12708251 AAGAAAAAAGAAAGAAAAAGAGTAAA-GAAAAGGAGAGGAGAAGAAAA
1 AAGAAAAAAGAAAGAAAAAGAG-AAACG-AAAGGAGA--AG-AGAAAA
*
12708298 AAGAAAGAA-AAAGAAGGAAAGA-AAACGAAAGGAGAAGAGAAAA
1 AAGAAAAAAGAAAGAA--AAAGAGAAACGAAAGGAGAAGAGAAAA
*
12708341 AAGAAAGAAAG-AAGAAGAAGAG
1 AAGAAA-AAAGAAAGAAAAAGAG
12708363 GGAAGGAAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
42 4 0.07
43 12 0.21
44 9 0.16
46 17 0.30
47 9 0.16
48 5 0.09
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.01
Consensus pattern (43 bp):
AAGAAAAAAGAAAGAAAAAGAGAAACGAAAGGAGAAGAGAAAA
Found at i:12708321 original size:81 final size:81
Alignment explanation
Indices: 12708196--12708355 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
12708186 AGAGGGAAAG
* * *
12708196 AAAGAAAAGGAAAGGAGAGGAAATAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG-A-AGAAAAA
1 AAAGAAAAGGAAAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAACGAAAGGAGAAGAGAAAAA
12708259 AGAAAGAAA-AAGAGT
66 AGAAAGAAAGAAGAGT
*
12708274 AAAGAAAAGGAGAGGAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAACGAAAGGAGAAGAGAA
1 AAAGAAAAGGAAAGGAG-AG--AAAAGAAAGAAAAAGAAGGAAAGAAAACGAAAGGAGAAGAGAA
12708339 AAAAGAAAGAAAGAAGA
63 AAAAGAAAGAAAGAAGA
12708356 AGAAGAGGGA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
78 16 0.22
79 2 0.03
81 33 0.46
82 1 0.01
83 16 0.22
84 4 0.06
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (81 bp):
AAAGAAAAGGAAAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAACGAAAGGAGAAGAGAAAAA
AGAAAGAAAGAAGAGT
Found at i:12708322 original size:23 final size:23
Alignment explanation
Indices: 12708255--12708360 Score: 65
Period size: 23 Copynumber: 4.4 Consensus size: 23
12708245 AAGGAGAAGA
* *
12708255 AAAAAGAAAGAAA-AAGAGTAAAG
1 AAAAAGAAGGAAAGAAAAG-AAAG
*
12708278 AAAAGGAGAGGAGAAGAAAAAAGAAAG
1 AAAAAGA-AGGA-AAG--AAAAGAAAG
12708305 AAAAAGAAGGAAAGAAAACGAAAGG
1 AAAAAGAAGGAAAGAAAA-GAAA-G
* *
12708330 AGAAGAGAA-AAAAG-AAAGAAAG
1 A-AAAAGAAGGAAAGAAAAGAAAG
*
12708352 AAGAAGAAG
1 AAAAAGAAG
12708361 AGGGAAGGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
21 5 0.08
22 2 0.03
23 14 0.21
24 10 0.15
25 11 0.17
26 10 0.15
27 10 0.15
28 4 0.06
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (23 bp):
AAAAAGAAGGAAAGAAAAGAAAG
Found at i:12711743 original size:13 final size:11
Alignment explanation
Indices: 12711717--12711756 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
12711707 TAAAAAATAC
12711717 CTTCTTTTTCT
1 CTTCTTTTTCT
*
12711728 CTTCTATTTCT
1 CTTCTTTTTCT
12711739 C-TCTTTTTCT
1 CTTCTTTTTCT
12711749 CTT-TTTTT
1 CTTCTTTTT
12711757 ACGCAGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 14 0.54
11 12 0.46
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:12711875 original size:27 final size:27
Alignment explanation
Indices: 12711845--12711922 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
12711835 CCACTTAGTA
* *
12711845 TGGCACCATCGGTGCCGCCAATCTCCT
1 TGGCACCATCGGTGCCGCCAATCACAT
*
12711872 TGGCACCATCGGTGCCACCAATCACAT
1 TGGCACCATCGGTGCCGCCAATCACAT
* * *
12711899 TGGCACCTTTGGTGCTGCCAATCA
1 TGGCACCATCGGTGCCGCCAATCA
12711923 GGAACCCTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.19, C:0.36, G:0.22, T:0.23
Consensus pattern (27 bp):
TGGCACCATCGGTGCCGCCAATCACAT
Found at i:12712068 original size:19 final size:21
Alignment explanation
Indices: 12712027--12712075 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
12712017 GTAAATAAAT
12712027 TTTTTTGTATATTATTTTGGTA
1 TTTTTT-TATATTATTTTGGTA
*
12712049 TTTTTTTAT-TTCTTTT-GTA
1 TTTTTTTATATTATTTTGGTA
*
12712068 TTATTTTA
1 TTTTTTTA
12712076 GTAAAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 3 0.12
22 6 0.24
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.73
Consensus pattern (21 bp):
TTTTTTTATATTATTTTGGTA
Found at i:12715343 original size:9 final size:9
Alignment explanation
Indices: 12715325--12715382 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
12715315 GTAGTGATTC
12715325 AATTCGGTT
1 AATTCGGTT
*
12715334 AATTCAGTT
1 AATTCGGTT
* *
12715343 AATTTGGGT
1 AATTCGGTT
*
12715352 AATTCAGTT
1 AATTCGGTT
12715361 AATTCGGTT
1 AATTCGGTT
*
12715370 AATTCGGGT
1 AATTCGGTT
12715379 AATT
1 AATT
12715383 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:12715361 original size:27 final size:27
Alignment explanation
Indices: 12715325--12715382 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
12715315 GTAGTGATTC
* *
12715325 AATTCGGTTAATTCAGTTAATTTGGGT
1 AATTCAGTTAATTCAGTTAATTCGGGT
*
12715352 AATTCAGTTAATTCGGTTAATTCGGGT
1 AATTCAGTTAATTCAGTTAATTCGGGT
12715379 AATT
1 AATT
12715383 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (27 bp):
AATTCAGTTAATTCAGTTAATTCGGGT
Found at i:12715382 original size:18 final size:18
Alignment explanation
Indices: 12715325--12715374 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
12715315 GTAGTGATTC
12715325 AATTCGGTTAATTCAGTT
1 AATTCGGTTAATTCAGTT
* *
12715343 AATTTGGGTAATTCAGTT
1 AATTCGGTTAATTCAGTT
12715361 AATTCGGTTAATTC
1 AATTCGGTTAATTC
12715375 GGGTAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (18 bp):
AATTCGGTTAATTCAGTT
Found at i:12716975 original size:18 final size:18
Alignment explanation
Indices: 12716952--12716996 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
12716942 AATTTAAGTG
* * *
12716952 TAATAATACTAGTAATAT
1 TAATAATAATAGAAATAA
12716970 TAATAATAATAGAAATAA
1 TAATAATAATAGAAATAA
12716988 TAATAATAA
1 TAATAATAA
12716997 GATTTTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (18 bp):
TAATAATAATAGAAATAA
Found at i:12717169 original size:16 final size:16
Alignment explanation
Indices: 12717148--12717198 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
12717138 ATAAAAAGCA
*
12717148 AATAAAAATTAATGAT
1 AATAAAAATTAATAAT
*
12717164 AATAAAAATTAGTAAT
1 AATAAAAATTAATAAT
**
12717180 AATAAGGA-TAATAAT
1 AATAAAAATTAATAAT
12717195 AATA
1 AATA
12717199 GTAATATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 10 0.33
16 20 0.67
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (16 bp):
AATAAAAATTAATAAT
Found at i:12718183 original size:2 final size:2
Alignment explanation
Indices: 12718176--12718213 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
12718166 GGTACTTCTT
* *
12718176 TA TA TA TA TA TA TA TA TA TG T- TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12718214 TTTAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:12718202 original size:13 final size:12
Alignment explanation
Indices: 12718176--12718213 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
12718166 GGTACTTCTT
*
12718176 TATATATATATA
1 TATATATGTATA
12718188 TATATATGTTATA
1 TATATATG-TATA
12718201 TATATATGTATA
1 TATATATGTATA
12718213 T
1 T
12718214 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (12 bp):
TATATATGTATA
Found at i:12719778 original size:18 final size:19
Alignment explanation
Indices: 12719740--12719791 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
12719730 TTTTTATAAT
*
12719740 TTATATATATATA-CATAC
1 TTATATATATATATTATAC
12719758 TTATATATATATATTAT-C
1 TTATATATATATATTATAC
*
12719776 TTATAATTTATATATT
1 TTAT-ATATATATATT
12719792 TATGTACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATATATATATATTATAC
Found at i:12725351 original size:14 final size:15
Alignment explanation
Indices: 12725327--12725359 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12725317 TGCCCAACTG
*
12725327 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
12725342 GGAA-GACCTTATCT
1 GGAAGGACCTTATCT
12725356 GGAA
1 GGAA
12725360 AAACGTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:12725448 original size:3 final size:3
Alignment explanation
Indices: 12725442--12725529 Score: 62
Period size: 3 Copynumber: 29.7 Consensus size: 3
12725432 ATTTCAAAAA
* * *
12725442 AAG AAG AAA AAA AAG AAA AAG AA- AA- AAG AAG AA- AAG AAAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG -AAG AAG
12725484 AA- AAG AAG AAG AAAG AAG AAAG AAAG AAAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG -AAG AAG -AAG -AAG -AAG AAG AAG AAG AAG AAG AA
12725530 AAAGGAGAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
2 12 0.16
3 45 0.61
4 17 0.23
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12725466 original size:25 final size:23
Alignment explanation
Indices: 12725438--12725530 Score: 102
Period size: 21 Copynumber: 4.0 Consensus size: 23
12725428 AAATATTTCA
12725438 AAAAAAGAAGAAAAAAAAGAAA-
1 AAAAAAGAAGAAAAAAAAGAAAG
*
12725460 AAGAAAA-AAG-AAGAAAAGAAAG
1 AA-AAAAGAAGAAAAAAAAGAAAG
*
12725482 AAAAAAGAAGAAGAAAGAAGAAAG
1 AAAAAAGAAGAA-AAAAAAGAAAG
12725506 AAAGAAAGAAGAAGAAGAAAAGAAA
1 AAA-AAAGAAGAA-AA-AAAAGAAA
12725531 AAGGAGAGGC
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
21 14 0.23
22 10 0.17
23 5 0.08
24 12 0.20
25 12 0.20
26 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAGAAAAAAAAGAAAG
Found at i:12725483 original size:4 final size:4
Alignment explanation
Indices: 12725459--12725515 Score: 63
Period size: 4 Copynumber: 15.5 Consensus size: 4
12725449 AAAAAAAGAA
12725459 AAAG AAA- AAAG -AAG AAAAG AAAG AAA- AAAG -AAG -AAG AAAG -AAG
1 AAAG AAAG AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
12725502 AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AA
12725516 GAAGAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
3 18 0.38
4 26 0.55
5 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:12725517 original size:28 final size:28
Alignment explanation
Indices: 12725441--12725533 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 28
12725431 TATTTCAAAA
* *
12725441 AAAGAAG-AA-AAA-AAAGAAAAAGAAA
1 AAAGAAGAAAGAAAGAAAGAAGAAGAAG
*
12725466 AAAGAAGAAAAGAAAGAAAAAAGAAGAAG
1 AAAGAAG-AAAGAAAGAAAGAAGAAGAAG
12725495 AAAGAAGAAAGAAAGAAAGAAGAAGAAG
1 AAAGAAGAAAGAAAGAAAGAAGAAGAAG
12725523 AAAAGAA-AAAG
1 -AAAGAAGAAAG
12725534 GAGAGGCTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.12
27 2 0.03
28 27 0.46
29 23 0.39
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (28 bp):
AAAGAAGAAAGAAAGAAAGAAGAAGAAG
Found at i:12727275 original size:580 final size:580
Alignment explanation
Indices: 12726175--12727334 Score: 2140
Period size: 580 Copynumber: 2.0 Consensus size: 580
12726165 AAATTAAGAC
*
12726175 CATCCTTTTGGATTTTGTCATCAAAACATTGATTGAACAAAATGACAAGATGCTAGAGCTTCAAT
1 CATCCTTTTGGATTTTGTCATCAAAACATTGATTGAACAAAATGACAAGATGCCAGAGCTTCAAT
*
12726240 GAACAAACAAGCGGTGTTCACCAAGCAATAAGAAAAGGTTTCCTGGGAGAAGAAAATTCTTCATT
66 GAACAAACAAGCGATGTTCACCAAGCAATAAGAAAAGGTTTCCTGGGAGAAGAAAATTCTTCATT
12726305 GGTGCATGAGCATTTGGTATGACACCCTAGGAATGGGGTAAAAAACCAAAGAGCTTCACATTCTT
131 GGTGCATGAGCATTTGGTATGACACCCTAGGAATGGGGTAAAAAACCAAAGAGCTTCACATTCTT
* *
12726370 TATCCTTGAATTGCGATAGGAGAAGATTGATAAAAAGCCATATTTTTCTACCCTTGAGTTACAGT
196 TATCCTTAAATTGCGATAAGAGAAGATTGATAAAAAGCCATATTTTTCTACCCTTGAGTTACAGT
*
12726435 GGGAGAATGATGATACAAATTTTGAGTCCCAGTGGATTGAACTTTGACGTTCACAGTAGAGGGCA
261 GGGAGAATGATGATACAAATTTTGAGTCCCAGTGGATTGAACTTTGACGTTCACAATAGAGGGCA
* *
12726500 ATCTGATTAAGTGTTTTCTTTGGATATGCCAGCCGAGCAAGAAGGCGTTGTAGCGCGTCAATGAT
326 ATCTGATTAAGAGTTTTCTTTGGATATACCAGCCGAGCAAGAAGGCGTTGTAGCGCGTCAATGAT
12726565 AAAACCTTAATAAACTTTGAGTAATGATAACCTAAGTGATAAAGAAGGATCGTTCTCGAAAAAAT
391 AAAACCTTAATAAACTTTGAGTAATGATAACCTAAGTGATAAAGAAGGATCGTTCTCGAAAAAAT
12726630 AACATTCTGCATTCATTCAAATGTCATTCATACACGTCTAGTTAGGAGCATTTGATTCATTCTGA
456 AACATTCTGCATTCATTCAAATGTCATTCATACACGTCTAGTTAGGAGCATTTGATTCATTCTGA
* *
12726695 TCATGTCATGCTAATCACTAGGTATAATTAGGTTCATAAAATAGATTATACAGGTCATGT
521 TCATGTCATCCTAATCACTAGGCATAATTAGGTTCATAAAATAGATTATACAGGTCATGT
12726755 CATCCTTTTGGATTTTGTCATCAAAACATTGATTGAACAAAATGACAAGATGCCAGAGCTTCAAT
1 CATCCTTTTGGATTTTGTCATCAAAACATTGATTGAACAAAATGACAAGATGCCAGAGCTTCAAT
* *
12726820 GAACAAACAAGCGATGTTCACCAAGCAATAAGAAAAGGTTTCTTGGGAGCAGAAAATTCTTCATT
66 GAACAAACAAGCGATGTTCACCAAGCAATAAGAAAAGGTTTCCTGGGAGAAGAAAATTCTTCATT
* *
12726885 GGTGCATGAGCATTTGGTATGACACCCTGGGAATGGGGTAAAAGACCAAAGAGCTTCACATTCTT
131 GGTGCATGAGCATTTGGTATGACACCCTAGGAATGGGGTAAAAAACCAAAGAGCTTCACATTCTT
* *
12726950 TATCCTTAAATTGCGATAAGAGAGGATTGATAAAAAGCCATATTTTTTTACCCTTGAGTTACAGT
196 TATCCTTAAATTGCGATAAGAGAAGATTGATAAAAAGCCATATTTTTCTACCCTTGAGTTACAGT
* * * *
12727015 GGGAGAATGATGATACAAATTTTGCGTCCCAGTGGATTGAACTTTGACGTTCATAATGGGGGGCA
261 GGGAGAATGATGATACAAATTTTGAGTCCCAGTGGATTGAACTTTGACGTTCACAATAGAGGGCA
*
12727080 ATCTGATTAAGAGTTTTCTTTGGATATACCAGCCGAGCAAGAAGGTGTTGTAGCGCGTCAATGAT
326 ATCTGATTAAGAGTTTTCTTTGGATATACCAGCCGAGCAAGAAGGCGTTGTAGCGCGTCAATGAT
12727145 AAAACCTTAATAAACTTTGAGTAATGATAACCTAAGTGATAAAGAAGGATCGTTCTCGAAAAAAT
391 AAAACCTTAATAAACTTTGAGTAATGATAACCTAAGTGATAAAGAAGGATCGTTCTCGAAAAAAT
12727210 AACATTCTGCATTCATTCAAATGTCATTCATACACGTCTAGTTAGGAGCATTTGATTCATTCTGA
456 AACATTCTGCATTCATTCAAATGTCATTCATACACGTCTAGTTAGGAGCATTTGATTCATTCTGA
12727275 TCATGTCATCCTAATCACTAGGCATAATTAGGTTCATAAAATAGATTATACAGGTCATGT
521 TCATGTCATCCTAATCACTAGGCATAATTAGGTTCATAAAATAGATTATACAGGTCATGT
12727335 TCCCTAGAGA
Statistics
Matches: 560, Mismatches: 20, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
580 560 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (580 bp):
CATCCTTTTGGATTTTGTCATCAAAACATTGATTGAACAAAATGACAAGATGCCAGAGCTTCAAT
GAACAAACAAGCGATGTTCACCAAGCAATAAGAAAAGGTTTCCTGGGAGAAGAAAATTCTTCATT
GGTGCATGAGCATTTGGTATGACACCCTAGGAATGGGGTAAAAAACCAAAGAGCTTCACATTCTT
TATCCTTAAATTGCGATAAGAGAAGATTGATAAAAAGCCATATTTTTCTACCCTTGAGTTACAGT
GGGAGAATGATGATACAAATTTTGAGTCCCAGTGGATTGAACTTTGACGTTCACAATAGAGGGCA
ATCTGATTAAGAGTTTTCTTTGGATATACCAGCCGAGCAAGAAGGCGTTGTAGCGCGTCAATGAT
AAAACCTTAATAAACTTTGAGTAATGATAACCTAAGTGATAAAGAAGGATCGTTCTCGAAAAAAT
AACATTCTGCATTCATTCAAATGTCATTCATACACGTCTAGTTAGGAGCATTTGATTCATTCTGA
TCATGTCATCCTAATCACTAGGCATAATTAGGTTCATAAAATAGATTATACAGGTCATGT
Found at i:12727478 original size:45 final size:45
Alignment explanation
Indices: 12727354--12727752 Score: 438
Period size: 45 Copynumber: 9.0 Consensus size: 45
12727344 AACAGATCAG
** **
12727354 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGTAAAGCAGA-
1 TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* *
12727398 TCGAAGACACCAG-CCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
1 T-GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
12727443 TGAAGATAACAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGAT
1 TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
12727488 TGAAGACACCAG--CTATGCCTTCCTGTACTGACAGCGGAGCATAC
1 TGAAGATACCAGATCT-TGCCTTCCTGTACTGACAGCGAAGCAGAC
** ** * *
12727532 TGAAGATAGTAGATCTTGCCTTCCTACAATGACAGTGAAGCAGA-
1 TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* *
12727576 TCGAAGACACCAG-CCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
1 T-GAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
12727621 TGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAACAGA-
1 TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
* * *
12727665 TGAAGACACCA-ACCTTGCCTTCATGTACTGACAGC-AGAGCAGAC
1 TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGA-AGCAGAC
* * *
12727709 TAAAGATAACATATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
1 TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA
12727753 TCTTGCCTTC
Statistics
Matches: 292, Mismatches: 50, Indels: 25
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.00
43 28 0.10
44 125 0.43
45 135 0.46
46 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAAGATACCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGAC
Found at i:12727507 original size:89 final size:89
Alignment explanation
Indices: 12727354--12727754 Score: 583
Period size: 89 Copynumber: 4.5 Consensus size: 89
12727344 AACAGATCAG
** **
12727354 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
12727419 TCCTGTACTGACAGCGAAGCAGAC
66 TCCTGTACTGACAGCGAAGCAGAC
* *
12727443 TGAAGATAACAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATTGAAGACACCAG-CTATGCC
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCT-TGCC
* *
12727507 TTCCTGTACTGACAGCGGAGCATAC
65 TTCCTGTACTGACAGCGAAGCAGAC
** ** * *
12727532 TGAAGATAGTAGATCTTGCCTTCCTACAATGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
12727597 TCCTGTACTGACAGCGAAGCAGAC
66 TCCTGTACTGACAGCGAAGCAGAC
* * *
12727621 TGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAACAGAT-GAAGACACCAACCTTGCCT
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
12727685 TCATGTACTGACAGC-AGAGCAGAC
66 TCCTGTACTGACAGCGA-AGCAGAC
* *
12727709 TAAAGATAACATATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
1 TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC
12727755 TTGCCTTCTT
Statistics
Matches: 278, Mismatches: 30, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
87 1 0.00
88 82 0.29
89 193 0.69
90 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (89 bp):
TGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
TCCTGTACTGACAGCGAAGCAGAC
Found at i:12727658 original size:178 final size:175
Alignment explanation
Indices: 12727354--12727866 Score: 618
Period size: 178 Copynumber: 3.0 Consensus size: 175
12727344 AACAGATCAG
* *
12727354 TGAAGATAGTAGATCTTGCCTTCCTGTACTGACAGTAAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGTAGATCTTGCCTTCC--TAATGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
12727419 TCCTGTACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGTACTAACAGCGAAGC
64 TCCTGTACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAGC
* *
12727484 AGATTGAAGACACCAGCTATGCCTTCCTGTACTGACAGCGGAGCATAC
129 AGATTGAAGACACCAGCT-TGCCTTCATGTACTGACAGCGGAGCAGAC
12727532 TGAAGATAGTAGATCTTGCCTTCCTACAATGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAGATAGTAGATCTTGCCTTCCT--AATGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCT
*
12727597 TCCTGTACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAAC
64 TCCTGTACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAGC
* *
12727662 AGA-TGAAGACACCAACCTTGCCTTCATGTACTGACAGCAGAGCAGAC
129 AGATTGAAGACACC-AGCTTGCCTTCATGTACTGACAGCGGAGCAGAC
* ** * * * *
12727709 TAAAGATAACATATCTTGCCTTCCT-GT-AC--TG-A-CAG--CGAAG-CA-GA-TCTTGCCTTC
1 TGAAGATAGTAGATCTTGCCTTCCTAATGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTTC
* * * * * * * *
12727763 TTGTACTGACAGCGGAGCAGACTGAAGATAACAGATATTGCCTTCTTTTACTGACAGCGGAGAAT
66 CTGTACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAGCAG
* ** *
12727828 ATTGAAGATAATAGATCTTGCCTTCTTGTACTGACAGCG
131 ATTGAAGACACCAG--CTTGCCTTCATGTACTGACAGCG
12727867 AAACAGATCG
Statistics
Matches: 298, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
164 67 0.22
165 8 0.03
166 23 0.08
167 5 0.02
169 3 0.01
170 1 0.00
171 2 0.01
173 2 0.01
174 1 0.00
176 1 0.00
177 57 0.19
178 128 0.43
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (175 bp):
TGAAGATAGTAGATCTTGCCTTCCTAATGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTTC
CTGTACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCGAAGCAG
ATTGAAGACACCAGCTTGCCTTCATGTACTGACAGCGGAGCAGAC
Found at i:12727759 original size:31 final size:31
Alignment explanation
Indices: 12727721--12727783 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
12727711 AAGATAACAT
12727721 ATCTTGCCTTCCTGTACTGACAGCGAAGCAG
1 ATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* *
12727752 ATCTTGCCTTCTTGTACTGACAGCGGAGCAG
1 ATCTTGCCTTCCTGTACTGACAGCGAAGCAG
12727783 A
1 A
12727784 CTGAAGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (31 bp):
ATCTTGCCTTCCTGTACTGACAGCGAAGCAG
Found at i:12727804 original size:45 final size:45
Alignment explanation
Indices: 12727749--12727866 Score: 182
Period size: 45 Copynumber: 2.6 Consensus size: 45
12727739 GACAGCGAAG
*
12727749 CAGATCTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAAGATAA
1 CAGATCTTGCCTTCTTGTACTGACAGCGGAGAAGACTGAAGATAA
* * * *
12727794 CAGATATTGCCTTCTTTTACTGACAGCGGAGAATATTGAAGATAA
1 CAGATCTTGCCTTCTTGTACTGACAGCGGAGAAGACTGAAGATAA
*
12727839 TAGATCTTGCCTTCTTGTACTGACAGCG
1 CAGATCTTGCCTTCTTGTACTGACAGCG
12727867 AAACAGATCG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 65 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (45 bp):
CAGATCTTGCCTTCTTGTACTGACAGCGGAGAAGACTGAAGATAA
Found at i:12727804 original size:76 final size:76
Alignment explanation
Indices: 12727678--12727821 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 76
12727668 AGACACCAAC
* *
12727678 CTTGCCTTCATGTACTGACAGCAGAGCAGACTAAAGATAACATATCTTGCCTTCCTGTACTGACA
1 CTTGCCTTCATGTACTGACAGCAGAGCAGACTAAAGATAACAGATATTGCCTTCCTGTACTGACA
12727743 GCGAAGCAGAT
66 GCGAAGCAGAT
* * * * *
12727754 CTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAAGATAACAGATATTGCCTTCTTTTACTGACA
1 CTTGCCTTCATGTACTGACAGCAGAGCAGACTAAAGATAACAGATATTGCCTTCCTGTACTGACA
12727819 GCG
66 GCG
12727822 GAGAATATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (76 bp):
CTTGCCTTCATGTACTGACAGCAGAGCAGACTAAAGATAACAGATATTGCCTTCCTGTACTGACA
GCGAAGCAGAT
Found at i:12727846 original size:121 final size:119
Alignment explanation
Indices: 12727628--12727875 Score: 307
Period size: 121 Copynumber: 2.1 Consensus size: 119
12727618 GACTGAAGAT
* *
12727628 AACAGATCTTGCCTTCCTATACTGACAGCGAAACAGATGAAGACACCAACCTTGCCTTCATGTAC
1 AACAGATCTTGCCTTCCTATACTGACAGCGAAACAGATGAAGACAACAACATTGCCTTCATGTAC
* *
12727693 TGACAGCAGAGCAGACTAAAGATAACATATCTTGCCTTCCTGTACTGACAGCGA
66 TGACAGCAGAGAAGACTAAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGA
* * * * * * * * *
12727747 AGCAGATCTTGCCTTCTTGTACTGACAGCGGAGCAGACTGAAGATAACAGATATTGCCTTCTTTT
1 AACAGATCTTGCCTTCCTATACTGACAGCGAAACAGA-TGAAGACAACA-ACATTGCCTTCATGT
* * * * * *
12727812 ACTGACAGCGGAGAATATTGAAGATAATAGATCTTGCCTTCTTGTACTGACAGCGA
64 ACTGACAGCAGAGAAGACTAAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGA
12727868 AACAGATC
1 AACAGATC
12727876 GAATACACCA
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
119 32 0.30
120 9 0.08
121 66 0.62
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (119 bp):
AACAGATCTTGCCTTCCTATACTGACAGCGAAACAGATGAAGACAACAACATTGCCTTCATGTAC
TGACAGCAGAGAAGACTAAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGA
Found at i:12728070 original size:44 final size:44
Alignment explanation
Indices: 12728022--12728119 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
12728012 TATGTCTCTA
* * * *
12728022 AAGTTGTAGTAGTGTAGGTTGAAGTA-GCAAACCTTATCCCCCTG
1 AAGTTGCAGTAGGGCAGGTTGAA-TATGCAAACCTTATCACCCTG
* **
12728066 AAGTTGCAGTGGGGCAGGTTGAATATGCAAGTCTTATCACCCTG
1 AAGTTGCAGTAGGGCAGGTTGAATATGCAAACCTTATCACCCTG
*
12728110 AAGTTACAGT
1 AAGTTGCAGT
12728120 GGAGTAGACT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
AAGTTGCAGTAGGGCAGGTTGAATATGCAAACCTTATCACCCTG
Found at i:12728120 original size:44 final size:44
Alignment explanation
Indices: 12728037--12728121 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
12728027 GTAGTAGTGT
* *
12728037 AGGTTGAAGTAGCAAACCTTATCCCCCTGAAGTTGCAGTGGGGC
1 AGGTTGAAGTAGCAAACCTTATCACCCTGAAGTTACAGTGGGGC
**
12728081 AGGTTGAA-TATGCAAGTCTTATCACCCTGAAGTTACAGTGG
1 AGGTTGAAGTA-GCAAACCTTATCACCCTGAAGTTACAGTGG
12728122 AGTAGACTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (44 bp):
AGGTTGAAGTAGCAAACCTTATCACCCTGAAGTTACAGTGGGGC
Found at i:12728415 original size:115 final size:115
Alignment explanation
Indices: 12728209--12728444 Score: 339
Period size: 115 Copynumber: 2.1 Consensus size: 115
12728199 CCCTGACGTT
* * *
12728209 CAGTGGAGCAGACTAAAACCACAAATCTCGTCCCCCTAAAGTTGCTGCGAAGAAGATTAAAGTTA
1 CAGTGGAGCAGACTAAAACCACAAATCTCGTCCCCCTAAAGTTACAGCGAAGAAGATTAAAGCTA
* * *
12728274 CAAGTCATATCTCTTTAAAGTGCAGTAGAGTGGATTGAAGCAACGAGACA
66 CAAGCCATATCTCTTTAAAGTACAGTAGAGTGGATTGAAGCAACAAGACA
* * ** *
12728324 CAGTGGAGCAGACTAAAACCACAAATCTTGTCCCCTTAAAGTTACAGC-AGAGTGGATTGAAGCT
1 CAGTGGAGCAGACTAAAACCACAAATCTCGTCCCCCTAAAGTTACAGCGA-AGAAGATTAAAGCT
* *
12728388 ACAAGCCGTATCTCTTTAAAGTACAGTAGAGTGGATTGACGCAACAAGACA
65 ACAAGCCATATCTCTTTAAAGTACAGTAGAGTGGATTGAAGCAACAAGACA
12728439 CAGTGG
1 CAGTGG
12728445 GCTGGAACGA
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
114 1 0.01
115 106 0.99
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (115 bp):
CAGTGGAGCAGACTAAAACCACAAATCTCGTCCCCCTAAAGTTACAGCGAAGAAGATTAAAGCTA
CAAGCCATATCTCTTTAAAGTACAGTAGAGTGGATTGAAGCAACAAGACA
Found at i:12730018 original size:18 final size:19
Alignment explanation
Indices: 12729980--12730031 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
12729970 TTTTTATAAT
*
12729980 TTATATATATATA-CATAC
1 TTATATATATATATTATAC
12729998 TTATATATATATATTAT-C
1 TTATATATATATATTATAC
*
12730016 TTATAATTTATATATT
1 TTAT-ATATATATATT
12730032 TATGTACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATATATATATATTATAC
Found at i:12731595 original size:13 final size:13
Alignment explanation
Indices: 12731577--12731602 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12731567 TTTCCTTCTC
12731577 TCGTATTTGTATG
1 TCGTATTTGTATG
12731590 TCGTATTTGTATG
1 TCGTATTTGTATG
12731603 GTTTAGGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
TCGTATTTGTATG
Found at i:12740532 original size:19 final size:20
Alignment explanation
Indices: 12740508--12740545 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12740498 AAGATCTACC
12740508 ATCTTCAA-CTTCTCCACTA
1 ATCTTCAACCTTCTCCACTA
12740527 ATCTTCAACCTTCTCCACT
1 ATCTTCAACCTTCTCCACT
12740546 GCTACTCAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (20 bp):
ATCTTCAACCTTCTCCACTA
Found at i:12740899 original size:29 final size:29
Alignment explanation
Indices: 12740857--12740914 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
12740847 TAATGATTAG
12740857 GATGGCATGATCAAAATGAATCAAATGCT
1 GATGGCATGATCAAAATGAATCAAATGCT
12740886 GATGGCATGATCAAAATGAATCAAATGCT
1 GATGGCATGATCAAAATGAATCAAATGCT
12740915 CCCACCTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (29 bp):
GATGGCATGATCAAAATGAATCAAATGCT
Found at i:12741862 original size:11 final size:11
Alignment explanation
Indices: 12741837--12741869 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
12741827 GGCCTCTCCA
12741837 TTTTCTTTCTTC
1 TTTTCTTT-TTC
12741849 TTTTCTTTTTC
1 TTTTCTTTTTC
12741860 TTTT-TTTTTC
1 TTTTCTTTTTC
12741870 GAAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 7 0.33
12 8 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:12749413 original size:19 final size:19
Alignment explanation
Indices: 12749389--12749455 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
12749379 NNNNNNNNNN
12749389 TATCATATCTAAGATTGCA
1 TATCATATCTAAGATTGCA
12749408 TATCATATCTAAGATTGCACA
1 TATCATATCTAAGATTG--CA
**
12749429 TATCATATCTTGGATTGCA
1 TATCATATCTAAGATTGCA
*
12749448 TACCATAT
1 TATCATAT
12749456 GTGAGCCCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 26 0.60
21 17 0.40
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
TATCATATCTAAGATTGCA
Found at i:12749432 original size:21 final size:21
Alignment explanation
Indices: 12749389--12749447 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
12749379 NNNNNNNNNN
12749389 TATCATATCTAAGATTG--CA
1 TATCATATCTAAGATTGCACA
12749408 TATCATATCTAAGATTGCACA
1 TATCATATCTAAGATTGCACA
**
12749429 TATCATATCTTGGATTGCA
1 TATCATATCTAAGATTGCA
12749448 TACCATATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 17 0.47
21 19 0.53
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
TATCATATCTAAGATTGCACA
Found at i:12750302 original size:64 final size:63
Alignment explanation
Indices: 12750154--12750320 Score: 228
Period size: 63 Copynumber: 2.6 Consensus size: 63
12750144 GGTTGGTAGT
* * * **
12750154 TGGAAGTACATAAAAGAAATTAATAATTAATAAATATAGCCAACTAAGAGGTAGGTTGATGGG
1 TGGAAGTACATAAAATAAATTAATAATTAATAAATATAGTCAACTAAGACGTAACTTGATGGG
* * * *
12750217 TGGAAGCACATAAAACT-AATTAATAATTAATAAATATAGTCAAGTAGGACGTCAACTTGGTGGG
1 TGGAAGTACATAAAA-TAAATTAATAATTAATAAATATAGTCAACTAAGACGT-AACTTGATGGG
12750281 TGGAAGTACATAAAATAAATTAATAATTAATAAATATAGT
1 TGGAAGTACATAAAATAAATTAATAATTAATAAATATAGT
12750321 AATAAGGAGA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 46 0.51
64 45 0.49
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.28
Consensus pattern (63 bp):
TGGAAGTACATAAAATAAATTAATAATTAATAAATATAGTCAACTAAGACGTAACTTGATGGG
Found at i:12750672 original size:12 final size:12
Alignment explanation
Indices: 12750655--12750682 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
12750645 ATTGTTGGTT
12750655 CAAAAATTTCTC
1 CAAAAATTTCTC
12750667 CAAAAATTTCTC
1 CAAAAATTTCTC
12750679 CAAA
1 CAAA
12750683 CTTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (12 bp):
CAAAAATTTCTC
Found at i:12751065 original size:21 final size:20
Alignment explanation
Indices: 12751036--12751090 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
12751026 TAATTTTTAC
*
12751036 TCTAAACCCTAAATATAAAA
1 TCTAAACCCTAAATACAAAA
* *
12751056 TCTCAAACCCTAGATCCAAAA
1 TCT-AAACCCTAAATACAAAA
12751077 TCTAGAACCCTAAA
1 TCTA-AACCCTAAA
12751091 CCCAAACCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.22
Consensus pattern (20 bp):
TCTAAACCCTAAATACAAAA
Found at i:12751095 original size:21 final size:21
Alignment explanation
Indices: 12751052--12751096 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12751042 CCCTAAATAT
* *
12751052 AAAATCTCAAACCCTAGATCC
1 AAAATCTCAAACCCTAAACCC
12751073 AAAATCT-AGAACCCTAAACCC
1 AAAATCTCA-AACCCTAAACCC
12751094 AAA
1 AAA
12751097 CCCATAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAATCTCAAACCCTAAACCC
Found at i:12751164 original size:21 final size:21
Alignment explanation
Indices: 12751140--12751179 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12751130 AGCCCATAAC
12751140 CCTAAATCATAAACCTTAAAT
1 CCTAAATCATAAACCTTAAAT
*
12751161 CCTAAATCCTAAACCTTAA
1 CCTAAATCATAAACCTTAA
12751180 GGTTTAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.28
Consensus pattern (21 bp):
CCTAAATCATAAACCTTAAAT
Found at i:12754485 original size:50 final size:50
Alignment explanation
Indices: 12754447--12754925 Score: 373
Period size: 50 Copynumber: 9.6 Consensus size: 50
12754437 ATGTCGGGGA
* *
12754447 AACT-AGATCCGCCGTCGTGGCTTCAATCTGTTCCACTGCACTGCTAAGG
1 AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCTAAGG
* * * * * * *
12754496 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGG
1 AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCT-AAGG
* * * * * *
12754546 AAAC-CAGATCTGCCGCCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG
1 -AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCTAAGG
* * * * * * *
12754596 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGG
1 AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCT-AAGG
* * * *
12754646 AAAC-CAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG
1 -AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCTAAGG
* * * * * * *
12754696 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGG
1 AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCT-AAGG
* * * *
12754746 AAAC-CAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG
1 -AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCTAAGG
* * * * * * *
12754796 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGG
1 AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCT-AAGG
* * * *
12754846 AAAC-CAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGG
1 -AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCTAAGG
* *
12754896 AAGTAAGATCCGCCGTTGTGGCTTCAATCT
1 AACTAAGATCCGCCGTCGTGGCTTCAATCT
12754926 TTTTACTTTT
Statistics
Matches: 319, Mismatches: 94, Indels: 33
0.72 0.21 0.07
Matches are distributed among these distances:
49 15 0.05
50 292 0.92
51 12 0.04
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
AACTAAGATCCGCCGTCGTGGCTTCAATCTGTTCAACTGCAATGCTAAGG
Found at i:12754585 original size:100 final size:100
Alignment explanation
Indices: 12754433--12754930 Score: 942
Period size: 100 Copynumber: 5.0 Consensus size: 100
12754423 TTTGCTCAAC
* * * *
12754433 TGCAATGTCGGGGAAACTAGATCCGCCGTCGTGGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
12754498 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
12754533 TGCAATATCAGGGAAACCAGATCTGCCGCCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
12754598 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
12754633 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
12754698 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
12754733 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
12754798 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
12754833 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
12754898 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
12754931 CTTTTCAACC
Statistics
Matches: 390, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 390 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:12770411 original size:6 final size:6
Alignment explanation
Indices: 12770400--12770426 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12770390 AAATGATTTT
12770400 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
12770427 GATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:12771857 original size:18 final size:17
Alignment explanation
Indices: 12771827--12771885 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
12771817 AAAAACCGTG
12771827 AATTTATTGAAACACGAA
1 AATTT-TTGAAACACGAA
12771845 AATTTTTGAAAACACGAGA
1 AATTTTTG-AAACACGA-A
12771864 AA-TTTTGAAACACGAA
1 AATTTTTGAAACACGAA
12771880 AATTTT
1 AATTTT
12771886 GATAAATTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.08
17 14 0.37
18 18 0.47
19 3 0.08
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:12772305 original size:9 final size:8
Alignment explanation
Indices: 12772293--12772361 Score: 68
Period size: 9 Copynumber: 8.0 Consensus size: 8
12772283 CGAGCTCCTC
12772293 CTTTTTTT
1 CTTTTTTT
12772301 CCTTTTTCTT
1 -CTTTTT-TT
*
12772311 TTTTCTCTTT
1 CTTT-T-TTT
12772321 CTTTTTTT
1 CTTTTTTT
12772329 CTCTTTTTT
1 CT-TTTTTT
12772338 CTTTTTTT
1 CTTTTTTT
12772346 CTTTTCTTT
1 CTTTT-TTT
12772355 -TTTTTTT
1 CTTTTTTT
12772362 TGCTGGGCTG
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
7 3 0.06
8 20 0.38
9 21 0.40
10 8 0.15
11 1 0.02
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
CTTTTTTT
Found at i:12772321 original size:13 final size:14
Alignment explanation
Indices: 12772295--12772357 Score: 69
Period size: 14 Copynumber: 4.4 Consensus size: 14
12772285 AGCTCCTCCT
12772295 TTTTTTC-CTTTTTC
1 TTTTTTCTC-TTTTC
12772309 TTTTTTCTC-TTTC
1 TTTTTTCTCTTTTC
12772322 TTTTTTTCTCTTTTTTC
1 -TTTTTTCTC--TTTTC
12772339 TTTTTT-TCTTTTC
1 TTTTTTCTCTTTTC
12772352 TTTTTT
1 TTTTTT
12772358 TTTTTGCTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
13 15 0.34
14 16 0.36
15 3 0.07
16 6 0.14
17 4 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTCTTTTC
Found at i:12772329 original size:21 final size:20
Alignment explanation
Indices: 12772303--12772358 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 20
12772293 CTTTTTTTCC
12772303 TTTTTCTTTTTTCTCTTTCTT
1 TTTTTCTTTTTT-TCTTTCTT
*
12772324 TTTTTCTCTTTTTTCTTTTTT
1 TTTTTCT-TTTTTTCTTTCTT
12772345 TCTTTTCTTTTTTT
1 T-TTTTCTTTTTTT
12772359 TTTTGCTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTCTTTTTTTCTTTCTT
Found at i:12772334 original size:29 final size:29
Alignment explanation
Indices: 12772293--12772358 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 29
12772283 CGAGCTCCTC
12772293 CTTTTTTTCC-TTTTTC-TTTTTTCTCTTT
1 CTTTTTTTCCTTTTTTCTTTTTTTCT-TTT
12772321 CTTTTTTTCTCTTTTTTCTTTTTTTCTTTT
1 CTTTTTTTC-CTTTTTTCTTTTTTTCTTTT
12772351 CTTTTTTT
1 CTTTTTTT
12772359 TTTTGCTGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.26
29 1 0.03
30 17 0.49
31 8 0.23
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (29 bp):
CTTTTTTTCCTTTTTTCTTTTTTTCTTTT
Found at i:12772358 original size:14 final size:14
Alignment explanation
Indices: 12772293--12772359 Score: 73
Period size: 15 Copynumber: 4.6 Consensus size: 14
12772283 CGAGCTCCTC
*
12772293 CTTTTTTTCCTTTT
1 CTTTTTTTTCTTTT
*
12772307 -TCTTTTTTCTCTTT
1 CTTTTTTTTCT-TTT
12772321 CTTTTTTTCTCTTTT
1 CTTTTTTT-TCTTTT
*
12772336 TTCTTTTTTTCTTTT
1 CT-TTTTTTTCTTTT
12772351 CTTTTTTTT
1 CTTTTTTTT
12772360 TTTGCTGGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 8 0.18
14 10 0.23
15 17 0.39
16 9 0.20
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
CTTTTTTTTCTTTT
Found at i:12772412 original size:26 final size:25
Alignment explanation
Indices: 12772365--12772414 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
12772355 TTTTTTTTGC
12772365 TGGGCTGCCTGCTGTGGGCTGTTGT
1 TGGGCTGCCTGCTGTGGGCTGTTGT
* *
12772390 TGGGCTGCGCTGGTTTGGGCTGTTG
1 TGGGCTGC-CTGCTGTGGGCTGTTG
12772415 CACTGCTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.00, C:0.18, G:0.46, T:0.36
Consensus pattern (25 bp):
TGGGCTGCCTGCTGTGGGCTGTTGT
Found at i:12772535 original size:20 final size:21
Alignment explanation
Indices: 12772497--12772536 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
12772487 GCTTCTTCCT
**
12772497 TTTTTTTCTGCTTTTTTTTTC
1 TTTTTTTCTGCTTAATTTTTC
12772518 TTTTTTT-TGCTTAATTTTT
1 TTTTTTTCTGCTTAATTTTT
12772537 TTGGGGGGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTGCTTAATTTTTC
Found at i:12772672 original size:22 final size:23
Alignment explanation
Indices: 12772636--12772678 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
12772626 TTTCTTTTTC
*
12772636 TTTCCTTCCTTCTTCCTCTTCTT
1 TTTCCTTCCTCCTTCCTCTTCTT
12772659 TTTCC-TCCTCCTTCCTCTTC
1 TTTCCTTCCTCCTTCCTCTTC
12772679 ACGCCTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTCCTTCCTCCTTCCTCTTCTT
Found at i:12773087 original size:29 final size:29
Alignment explanation
Indices: 12773036--12773189 Score: 195
Period size: 30 Copynumber: 5.2 Consensus size: 29
12773026 GGCCAAAACA
*
12773036 TAATTTCGAGAAAA-TTTAGGGGTCATAATG
1 TAATTTC-A-AAAAGTTTAGGGGTCAAAATG
*
12773066 TAATTTCAAAAAGTTTATGGGTCAAAATG
1 TAATTTCAAAAAGTTTAGGGGTCAAAATG
*
12773095 TAATTTCAAAAAAGTTTAGGGGTCAAAATA
1 TAATTTC-AAAAAGTTTAGGGGTCAAAATG
* *
12773125 TAATTTTAGGAAAA-TTTAAGGGTCAAAATG
1 TAATTTCA--AAAAGTTTAGGGGTCAAAATG
*
12773155 TAATTTCAAAAAGTTTAGGGGCCAAAATG
1 TAATTTCAAAAAGTTTAGGGGTCAAAATG
12773184 TAATTT
1 TAATTT
12773190 TATATTTTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
28 8 0.07
29 43 0.39
30 54 0.50
31 4 0.04
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (29 bp):
TAATTTCAAAAAGTTTAGGGGTCAAAATG
Found at i:12773190 original size:59 final size:59
Alignment explanation
Indices: 12773036--12773191 Score: 210
Period size: 59 Copynumber: 2.6 Consensus size: 59
12773026 GGCCAAAACA
* * * *
12773036 TAATTTCGAGAAAA-TTTAGGGGTCATAATGTAATTTCAAAAAGTTTATGGGTCAAAATG
1 TAATTTC-AAAAAAGTTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAAGGGTCAAAATG
*
12773095 TAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAA-TTTAAGGGTCAAAATG
1 TAATTTCAAAAAAGTTTAGGGGTCAAAATGTAATTTTA--AAAAGTTTAAGGGTCAAAATG
*
12773155 TAATTTC-AAAAAGTTTAGGGGCCAAAATGTAATTTTA
1 TAATTTCAAAAAAGTTTAGGGGTCAAAATGTAATTTTA
12773192 TATTTTTTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
58 5 0.06
59 56 0.64
60 22 0.25
61 4 0.05
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (59 bp):
TAATTTCAAAAAAGTTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAAGGGTCAAAATG
Found at i:12773209 original size:10 final size:10
Alignment explanation
Indices: 12773194--12773219 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12773184 TAATTTTATA
12773194 TTTTTTGTAT
1 TTTTTTGTAT
12773204 TTTTTTGTAT
1 TTTTTTGTAT
12773214 TTTTTT
1 TTTTTT
12773220 AAAAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (10 bp):
TTTTTTGTAT
Found at i:12773713 original size:83 final size:79
Alignment explanation
Indices: 12773375--12773960 Score: 747
Period size: 83 Copynumber: 7.4 Consensus size: 79
12773365 CAGAAATTGA
* * * * * * * *
12773375 AAATACCTTGGCGTGTGACCCGAGGTTTAACTCACCTTTAGCATTATGAGTTGATTTT-TGAAAA
1 AAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTATGAAAA
*
12773439 ACATAAATTTAAAAG
65 ACAGAAATTTAAAAG
* * * * *
12773454 --ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTTGCATTATAAGTTGATTTTA--AAAA
1 AAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTATGAAAA
12773515 ACAGAAATTTAAAAG
65 ACAGAAATTTAAAAG
* * * **
12773530 AAATACCTCAGCATGTGTCCGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTGAAAAAAAA
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTATGAAAAA
12773595 CAGAAATTTAAAAG
66 CAGAAATTTAAAAG
*
12773609 AAATACCTCGACATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGA
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTATGA
*
12773674 AAAACATAAATTTAAAAG
62 AAAACAGAAATTTAAAAG
*
12773692 AAATACATCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTATGA
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTATGA
12773757 AAAACAGAAATTTAAAAG
62 AAAACAGAAATTTAAAAG
* * *
12773775 AAATATCTCGGCATGTGTCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT-TGAAAAA
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTATGAAAAA
*
12773839 CAAAAATTTAAAAG
66 CAGAAATTTAAAAG
*
12773853 AAATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAAA
1 AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTATG-AAAA
*
12773917 ACAGAAATTGAAAAG
65 ACAGAAATTTAAAAG
**
12773932 AAATACCTCGGCATG-ACCCGAGGCTCAAC
1 AAATACCTCGGCATGTGTCCGAGGCTCAAC
12773961 ACTTCTGAGG
Statistics
Matches: 456, Mismatches: 41, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
76 18 0.04
77 83 0.18
78 100 0.22
79 104 0.23
83 151 0.33
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (79 bp):
AAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTATGAAAAA
CAGAAATTTAAAAG
Found at i:12774030 original size:29 final size:29
Alignment explanation
Indices: 12773989--12774133 Score: 186
Period size: 30 Copynumber: 5.0 Consensus size: 29
12773979 TAATTTCGAG
*
12773989 AAAA-TTTAGGGGTCATAATGTAATTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTA
* *
12774017 AAAAGTTTATGGGTCAAAATGTAATTTCAA
1 AAAAGTTTAGGGGTCAAAATGTAATTT-TA
*
12774047 AAAAGTTTAGGGGTCAAAATATAATTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTA
* *
12774076 GGAAAA-TTTAAGGGTCAAAATGTAATTTCA
1 --AAAAGTTTAGGGGTCAAAATGTAATTTTA
*
12774106 AAAAGTTTAGGGGCCAAAATGTAATTTT
1 AAAAGTTTAGGGGTCAAAATGTAATTTT
12774134 TTATTTTTTG
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 8 0.08
29 41 0.41
30 47 0.47
31 4 0.04
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (29 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTA
Found at i:12774035 original size:59 final size:58
Alignment explanation
Indices: 12773979--12774133 Score: 215
Period size: 59 Copynumber: 2.6 Consensus size: 58
12773969 GGCCAAAACA
* *
12773979 TAATTTCGAGAAAA-TTTAGGGGTCATAATGTAATTTTA-AAAAGTTTATGGGTCAAAATG
1 TAATTTC-A-AAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAA-TTTAAGGGTCAAAATG
*
12774038 TAATTTCAAAAAAGTTTAGGGGTCAAAATATAATTTTAGGAAAATTTAAGGGTCAAAATG
1 TAATTTC-AAAAAGTTTAGGGGTCAAAATGTAATTTTA-GAAAATTTAAGGGTCAAAATG
*
12774098 TAATTTCAAAAAGTTTAGGGGCCAAAATGTAATTTT
1 TAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTT
12774134 TTATTTTTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
58 4 0.05
59 57 0.66
60 22 0.25
61 4 0.05
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (58 bp):
TAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTTAGAAAATTTAAGGGTCAAAATG
Done.