Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 167 of 378
Found at i:48734074 original size:47 final size:45
Alignment explanation
Indices: 48733962--48734084 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 45
48733952 GGGTTATTGT
*
48733962 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTTTGGGACATGGCATCGG-C-CATTATGA
*
48734008 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGA-GA
1 GAGCTAGTGTAAGA-CATGTTTGGGACATGGCATCGGCCATT-ATGA
*
48734053 CGAGTGCTAGTGTAAGACATGTTTGGCACATG
1 -GA--GCTAGTGTAAGACATGTTTGGGACATG
48734085 CATTGGCTAC
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
45 6 0.09
46 16 0.24
47 27 0.40
48 18 0.27
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTTTGGGACATGGCATCGGCCATTATGA
Found at i:48735469 original size:26 final size:26
Alignment explanation
Indices: 48735433--48735484 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
48735423 TGGGCAATGT
48735433 TTGTGTGCATAAGATCGAGTTAAGTA
1 TTGTGTGCATAAGATCGAGTTAAGTA
48735459 TTGTGTGCATAAGATCGAGTTAAGTA
1 TTGTGTGCATAAGATCGAGTTAAGTA
48735485 ATGCCTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
TTGTGTGCATAAGATCGAGTTAAGTA
Found at i:48735817 original size:32 final size:32
Alignment explanation
Indices: 48735771--48735848 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
48735761 TAACACAGAG
*
48735771 TAAGTATTTAAGCTTAGTAAGTTCATATAACT
1 TAAGAATTTAAGCTTAGTAAGTTCATATAACT
* *
48735803 TAAGCATTTAAGCTTAGTAAGTTCGTATAACT
1 TAAGAATTTAAGCTTAGTAAGTTCATATAACT
48735835 T-AGAATTTAA-CTTA
1 TAAGAATTTAAGCTTA
48735849 CCATTTAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 4 0.09
31 8 0.19
32 31 0.72
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (32 bp):
TAAGAATTTAAGCTTAGTAAGTTCATATAACT
Found at i:48739597 original size:23 final size:23
Alignment explanation
Indices: 48739553--48739597 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48739543 ATCAATTAAA
*
48739553 CATATTTTCAAGATAAATTCATT
1 CATATTTTCAAGATAAAGTCATT
*
48739576 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
48739598 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATT
Found at i:48745814 original size:14 final size:14
Alignment explanation
Indices: 48745795--48745821 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48745785 CCTTTTAACT
48745795 TAAGCATAACTTCC
1 TAAGCATAACTTCC
48745809 TAAGCATAACTTC
1 TAAGCATAACTTC
48745822 TTAGGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
TAAGCATAACTTCC
Found at i:48746001 original size:33 final size:34
Alignment explanation
Indices: 48745956--48746020 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
48745946 CCTTTATAAA
*
48745956 AAAAAGATTCTTATTATATCACATGATAATACTT
1 AAAAAGATTCTTATTATATCACACGATAATACTT
48745990 AAAAA-ATTCTTATTATATCACACGATAATAC
1 AAAAAGATTCTTATTATATCACACGATAATAC
48746021 CTACATCGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (34 bp):
AAAAAGATTCTTATTATATCACACGATAATACTT
Found at i:48751175 original size:26 final size:26
Alignment explanation
Indices: 48751144--48751211 Score: 127
Period size: 26 Copynumber: 2.6 Consensus size: 26
48751134 ATATTCTGAC
48751144 CTACAGCTCGTGTGAGCAAGCCCATT
1 CTACAGCTCGTGTGAGCAAGCCCATT
48751170 CTACAGCTCGTGTGAGCAAGCCCATT
1 CTACAGCTCGTGTGAGCAAGCCCATT
*
48751196 TTACAGCTCGTGTGAG
1 CTACAGCTCGTGTGAG
48751212 TATTGATGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (26 bp):
CTACAGCTCGTGTGAGCAAGCCCATT
Found at i:48755495 original size:46 final size:45
Alignment explanation
Indices: 48755428--48755601 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
48755418 TGTAACCCGC
*
48755428 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
48755474 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
48755520 ACATCTCTCGAACTCGGACTCAACTGAACGAGTTC-GACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
48755566 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
48755602 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
44 1 0.01
45 27 0.26
46 47 0.46
47 26 0.25
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:48755594 original size:92 final size:93
Alignment explanation
Indices: 48755436--48755605 Score: 279
Period size: 92 Copynumber: 1.8 Consensus size: 93
48755426 GCCCATAAGT
* * *
48755436 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48755501 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
48755529 GAACTCGGACTCAACTGAACGAGTTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48755593 CGAGTTCGGATGC
66 CGAGCTCGGATGC
48755606 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 48 0.68
93 23 0.32
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48758512 original size:171 final size:169
Alignment explanation
Indices: 48758285--48758755 Score: 665
Period size: 171 Copynumber: 2.7 Consensus size: 169
48758275 ATTCTACAAA
*
48758285 AGATGGAACTTGAACTTGGGACCCTTAACTAAATTTCATGCTTCCACATTTAATAACTAACCATT
1 AGATGGAACTTGAACTT-GGACCC-CAACTAAATTTCATGCTTCCACA-TTAATAACTAACCATT
*
48758350 AGACAAATTACTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTAAGC
63 AGACAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTAAGC
* *
48758415 ATTGGATGGCAACATATTAAAAAAAAT-AAGGGAATTTTGCAAG
128 ATTAGATGGCAACATATT--AAAAAATCAAGAGAATTTTGCAAG
* * *
48758458 AGATGGAACTTAAACTTGGACCCCATCTAACTTTCATGCTTCCACCATTAATAACTAACCATTAG
1 AGATGGAACTTGAACTTGGACCCCAACTAAATTTCATGCTTCCA-CATTAATAACTAACCATTAG
* *
48758523 AAAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTAAGCCT
65 ACAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTAAGCAT
48758588 TAGATGGCAACATATTAAAAAATCAAGAGAATTTTGCAAG
130 TAGATGGCAACATATTAAAAAATCAAGAGAATTTTGCAAG
* * ** * * *
48758628 AGATGAAACTTGAACTTGAGACCTTCAACTAAGGTTCATGTTTCCATCTTTAATAACTAATCATT
1 AGATGGAACTTGAACTTG-GACC-CCAACTAAATTTCATGCTTCCA-CATTAATAACTAACCATT
* * * * *
48758693 AGGCCAATTCCTTATTTTTGATACATTCCTACATTTTTATTTAGCTAAATTTTGGGATGTTAA
63 AGACAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTAA
48758756 AGCTATTTTT
Statistics
Matches: 269, Mismatches: 25, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
169 7 0.03
170 31 0.12
171 117 0.43
172 98 0.36
173 16 0.06
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (169 bp):
AGATGGAACTTGAACTTGGACCCCAACTAAATTTCATGCTTCCACATTAATAACTAACCATTAGA
CAAATTCCTTATTTTTGATATATTTCTACATTTTTATTAAGCTAAATTTTGGGATGTTAAGCATT
AGATGGCAACATATTAAAAAATCAAGAGAATTTTGCAAG
Found at i:48759770 original size:157 final size:157
Alignment explanation
Indices: 48759484--48759798 Score: 630
Period size: 157 Copynumber: 2.0 Consensus size: 157
48759474 AAAACTAACA
48759484 TACCCTATCCAACATTAGCACCTAAATTTGAGAAAATTTTATGTGAAACTATGCTTTGGGGAGAT
1 TACCCTATCCAACATTAGCACCTAAATTTGAGAAAATTTTATGTGAAACTATGCTTTGGGGAGAT
48759549 TCATTCCATTCAACTTGCTATTTCCTTAATGCTATTAGAACCAGAACACAACTTACAAATTTACT
66 TCATTCCATTCAACTTGCTATTTCCTTAATGCTATTAGAACCAGAACACAACTTACAAATTTACT
48759614 GTCGTAGACATAGTTGTGGTATCCCCT
131 GTCGTAGACATAGTTGTGGTATCCCCT
48759641 TACCCTATCCAACATTAGCACCTAAATTTGAGAAAATTTTATGTGAAACTATGCTTTGGGGAGAT
1 TACCCTATCCAACATTAGCACCTAAATTTGAGAAAATTTTATGTGAAACTATGCTTTGGGGAGAT
48759706 TCATTCCATTCAACTTGCTATTTCCTTAATGCTATTAGAACCAGAACACAACTTACAAATTTACT
66 TCATTCCATTCAACTTGCTATTTCCTTAATGCTATTAGAACCAGAACACAACTTACAAATTTACT
48759771 GTCGTAGACATAGTTGTGGTATCCCCT
131 GTCGTAGACATAGTTGTGGTATCCCCT
48759798 T
1 T
48759799 GTTTTGAACA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (157 bp):
TACCCTATCCAACATTAGCACCTAAATTTGAGAAAATTTTATGTGAAACTATGCTTTGGGGAGAT
TCATTCCATTCAACTTGCTATTTCCTTAATGCTATTAGAACCAGAACACAACTTACAAATTTACT
GTCGTAGACATAGTTGTGGTATCCCCT
Found at i:48761781 original size:48 final size:47
Alignment explanation
Indices: 48761723--48761817 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 47
48761713 ATTACATTTT
48761723 AAAATAAAATAATACAAATGTATTAAAATCATTAATTA-AAA-ATTTAA
1 AAAATAAAATAATACAAATGTATTAAAATC--TAATTACAAATATTTAA
* * *
48761770 AAAATTAAAATAATACAACTGTGTTAATATCTAATTACAAATATTTAA
1 AAAA-TAAAATAATACAAATGTATTAAAATCTAATTACAAATATTTAA
48761818 TGATTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
46 6 0.14
47 7 0.17
48 29 0.69
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (47 bp):
AAAATAAAATAATACAAATGTATTAAAATCTAATTACAAATATTTAA
Found at i:48762828 original size:19 final size:19
Alignment explanation
Indices: 48762796--48762843 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
48762786 TAAAGACCAA
* *
48762796 ATTATATTAAAAATTAAAAT
1 ATTAAATTAAATA-TAAAAT
*
48762816 ATATAAATTAAATATTAAAT
1 AT-TAAATTAAATATAAAAT
48762836 ATTAAATT
1 ATTAAATT
48762844 TAAACATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAATTAAATATAAAAT
Found at i:48762842 original size:7 final size:7
Alignment explanation
Indices: 48762799--48762847 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
48762789 AGACCAAATT
48762799 ATATTAA
1 ATATTAA
*
48762806 AAATTAA
1 ATATTAA
48762813 A-ATATATA
1 ATAT-TA-A
48762821 A-ATTAA
1 ATATTAA
48762827 ATATTAA
1 ATATTAA
48762834 ATATTAA
1 ATATTAA
48762841 AT-TTAA
1 ATATTAA
48762847 A
1 A
48762848 CATATTAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
6 9 0.24
7 25 0.66
8 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATTAA
Found at i:48762847 original size:20 final size:21
Alignment explanation
Indices: 48762801--48762843 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48762791 ACCAAATTAT
48762801 ATTAAAAATTAAAATATATAA
1 ATTAAAAATTAAAATATATAA
*
48762822 ATTAAATATT-AAATAT-TAA
1 ATTAAAAATTAAAATATATAA
48762841 ATT
1 ATT
48762844 TAAACATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAAAAATTAAAATATATAA
Found at i:48764739 original size:26 final size:26
Alignment explanation
Indices: 48764689--48764739 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48764679 TAAATAATTA
**
48764689 TAATAAATTTAATTTTTTATATTATT
1 TAATAAATTTAATTTTAAATATTATT
48764715 TAATAAAATTTAATTTTAAAT-TTAT
1 TAAT-AAATTTAATTTTAAATATTAT
48764740 GGTATTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAATAAATTTAATTTTAAATATTATT
Found at i:48766279 original size:16 final size:16
Alignment explanation
Indices: 48766260--48766293 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
48766250 CCAGAAATCT
48766260 AACAAAAT-ACAAATAG
1 AACAAAATAAC-AATAG
48766276 AACAAAATAACAATAG
1 AACAAAATAACAATAG
48766292 AA
1 AA
48766294 TGCATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.71, C:0.12, G:0.06, T:0.12
Consensus pattern (16 bp):
AACAAAATAACAATAG
Found at i:48770048 original size:3 final size:3
Alignment explanation
Indices: 48770042--48770085 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
48770032 TTTTTTTCTT
48770042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48770086 TACTAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48770478 original size:7 final size:7
Alignment explanation
Indices: 48770468--48770587 Score: 62
Period size: 7 Copynumber: 16.6 Consensus size: 7
48770458 GGGTTTTATA
48770468 ATTTAGG
1 ATTTAGG
48770475 ATTTAGG
1 ATTTAGG
* *
48770482 GTTTAAG
1 ATTTAGG
48770489 ATTTAGAG
1 ATTTAG-G
* *
48770497 CTTTATG
1 ATTTAGG
48770504 ATTTAGG
1 ATTTAGG
* *
48770511 ATTTTGT
1 ATTTAGG
48770518 ATTTAAAGG
1 ATTT--AGG
* *
48770527 CTTAAGG
1 ATTTAGG
*
48770534 GTTTAGTG
1 ATTTAG-G
*
48770542 ATTCAGG
1 ATTTAGG
48770549 -TTTAGG
1 ATTTAGG
* *
48770555 GTTTAAG
1 ATTTAGG
48770562 ATTTAGAG
1 ATTTAG-G
*
48770570 TTTTAGG
1 ATTTAGG
*
48770577 ATTTAAG
1 ATTTAGG
48770584 ATTT
1 ATTT
48770588 TATATTTAAG
Statistics
Matches: 82, Mismatches: 25, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
6 5 0.06
7 58 0.71
8 16 0.20
9 3 0.04
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.45
Consensus pattern (7 bp):
ATTTAGG
Found at i:48770521 original size:95 final size:95
Alignment explanation
Indices: 48770395--48770587 Score: 250
Period size: 95 Copynumber: 2.0 Consensus size: 95
48770385 ATTTTTACGG
* * * * *
48770395 TTTAGAGTTTTAGGATTTAGGATTTTTTATTTAAGGGTTTAAGGGTTTAGTGCCTAT-A-GTTTA
1 TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAAGGCTTAAGGGTTTAGTG-AT-TCAGGTTTA
*
48770458 GGGTTTTATA-ATTTAG-GATTTAGGGTTTAAGA
64 GGG-TTTA-AGATTTAGAGATTTAGGATTTAAGA
*
48770490 TTTAGAGCTTTATGATTTAGGATTTTGTATTTAAAGGCTTAAGGGTTTAGTGATTCAGGTTTAGG
1 TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAAGGCTTAAGGGTTTAGTGATTCAGGTTTAGG
*
48770555 GTTTAAGATTTAGAGTTTTAGGATTTAAGA
66 GTTTAAGATTTAGAGATTTAGGATTTAAGA
48770585 TTT
1 TTT
48770588 TATATTTAAG
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
93 2 0.02
94 12 0.14
95 72 0.84
ACGTcount: A:0.26, C:0.03, G:0.25, T:0.47
Consensus pattern (95 bp):
TTTAGAGCTTTAGGATTTAGGATTTTGTATTTAAAGGCTTAAGGGTTTAGTGATTCAGGTTTAGG
GTTTAAGATTTAGAGATTTAGGATTTAAGA
Found at i:48770603 original size:22 final size:21
Alignment explanation
Indices: 48770552--48770631 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
48770542 ATTCAGGTTT
*
48770552 AGGGTTTAAGA-TTTAGAGTTTT
1 AGGGTTTAAGATTTTA-A-TTTA
*
48770574 AGGATTTAAGATTTTATATTTA
1 AGGGTTTAAGATTTTA-ATTTA
* ** *
48770596 AGGGTTTAGTGATTCGAGTTTA
1 AGGGTTTA-AGATTTTAATTTA
48770618 AGGGTTTAAGATTT
1 AGGGTTTAAGATTT
48770632 AAGATTTTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
21 4 0.09
22 32 0.70
23 10 0.22
ACGTcount: A:0.29, C:0.01, G:0.25, T:0.45
Consensus pattern (21 bp):
AGGGTTTAAGATTTTAATTTA
Found at i:48770624 original size:73 final size:73
Alignment explanation
Indices: 48770476--48770638 Score: 184
Period size: 73 Copynumber: 2.2 Consensus size: 73
48770466 TAATTTAGGA
* * * * *
48770476 TTTAGGGTTTAAGATTTAGAGCTTTATGATTTAGGATTTTGTATTTAAAGGCTTAAGGGTTTAGT
1 TTTAGGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAAGGCTTAAGGGATTAGA
*
48770541 GATTCAGG
66 GATTAAGG
* * * * *
48770549 TTTAGGGTTTAAGATTTAGAGTTTTAGGATTTAAGATTTTATATTT-AAGGGTTTAGTGATTCGA
1 TTTAGGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAAGGCTTAAGGGATTAGA
*
48770613 GTTTAAGGG
66 GATTAA-GG
* *
48770622 TTTAAGATTTAAGATTT
1 TTTAGGGTTTAAGATTT
48770639 TGTATTTAAG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
72 16 0.21
73 59 0.79
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (73 bp):
TTTAGGGTTTAAGATTTAGAGCTTTAGGATTTAAGATTTTATATTTAAAGGCTTAAGGGATTAGA
GATTAAGG
Found at i:48771061 original size:40 final size:40
Alignment explanation
Indices: 48770975--48771094 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
48770965 CATTTTTCAG
* *
48770975 AAAGCGCCGCTAATGCTCAAATCTATAG-TGGCGTTTTTTAA
1 AAAGCGCCGCTAATGCTC-GATCTATAGCT-ACGTTTTTTAA
* *
48771016 AAAGCGCCGCTAATGCTCGGTCTTTAGCTACGTTTTTTAA
1 AAAGCGCCGCTAATGCTCGATCTATAGCTACGTTTTTTAA
* * *
48771056 AAAGCGCCTCTAATGCTCGATCTATAGCGACATTTTTTA
1 AAAGCGCCGCTAATGCTCGATCTATAGCTACGTTTTTTA
48771095 TCCAAACGCC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 50 0.72
41 19 0.28
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTCGATCTATAGCTACGTTTTTTAA
Found at i:48783299 original size:18 final size:18
Alignment explanation
Indices: 48783276--48783314 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
48783266 CACACAGAGT
48783276 AAGCTTGAATAGCTTAGC
1 AAGCTTGAATAGCTTAGC
48783294 AAGCTTGAATAGCTTAGC
1 AAGCTTGAATAGCTTAGC
48783312 AAG
1 AAG
48783315 TCATAAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (18 bp):
AAGCTTGAATAGCTTAGC
Found at i:48783773 original size:42 final size:43
Alignment explanation
Indices: 48783661--48783832 Score: 132
Period size: 43 Copynumber: 4.0 Consensus size: 43
48783651 AGCTCGTACA
* *
48783661 ATGCCAACATCCCAGACATGGTCTTACATGTAAGCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAGCACATATCG
* * * * * *
48783704 ATGCCACTATCCTAGGCAGGGTGTTACACG-AA-CTCATATACG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAGCACATAT-CG
* * * *
48783746 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAAATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGT-AAGCACATATCG
** ** * ** *
48783790 ATGCCAACGTCCCAGATGTTGTCTTACACAAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAAGCACATATCG
48783833 GAATCCTATG
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 6 0.06
42 27 0.26
43 34 0.33
44 30 0.29
45 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAAGCACATATCG
Found at i:48789559 original size:6 final size:6
Alignment explanation
Indices: 48789531--48789604 Score: 85
Period size: 6 Copynumber: 12.3 Consensus size: 6
48789521 ATATAAAGAC
* * * * *
48789531 AAAATA AACATA AAAAGA AAAATA AAAATG AAGATA AAAATG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
48789579 AAAATA AAAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
48789605 TGGACTCAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:48791781 original size:8 final size:8
Alignment explanation
Indices: 48791768--48791796 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
48791758 ATTTCAACAA
48791768 TAATGGGT
1 TAATGGGT
48791776 TAATGGGT
1 TAATGGGT
48791784 TAATGGGT
1 TAATGGGT
48791792 TAATG
1 TAATG
48791797 ATGAGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (8 bp):
TAATGGGT
Found at i:48795033 original size:21 final size:22
Alignment explanation
Indices: 48795007--48795047 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
48794997 CCTGGCTGTG
48795007 TGTTAGAAATAAAAA-AAAATA
1 TGTTAGAAATAAAAATAAAATA
48795028 TGTTAGAAATAAAAATAAAA
1 TGTTAGAAATAAAAATAAAA
48795048 AAAAGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (22 bp):
TGTTAGAAATAAAAATAAAATA
Found at i:48800704 original size:5 final size:5
Alignment explanation
Indices: 48800694--48800760 Score: 59
Period size: 5 Copynumber: 13.6 Consensus size: 5
48800684 TGCAAGAATC
* * *
48800694 AAAAT AAAAT -AATT AAAAT AAAAT AAAGT ATAAT AAAAT AAAAAT AATAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT
*
48800744 AAAAT -AAAG AAAAT AAA
1 AAAAT AAAAT AAAAT AAA
48800761 GAATAGGGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
4 8 0.16
5 34 0.69
6 7 0.14
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:48800742 original size:14 final size:14
Alignment explanation
Indices: 48800696--48800745 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
48800686 CAAGAATCAA
*
48800696 AATAAAATAATTAA-
1 AATAAAATAA-AAAT
*
48800710 AATAAAATAAAGTAT
1 AATAAAATAAA-AAT
48800725 AATAAAATAAAAAT
1 AATAAAATAAAAAT
48800739 AATAAAA
1 AATAAAA
48800746 AATAAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AATAAAATAAAAAT
Found at i:48809085 original size:11 final size:11
Alignment explanation
Indices: 48809069--48809093 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48809059 ACTGATCAAA
48809069 ACTTTTCTGGC
1 ACTTTTCTGGC
48809080 ACTTTTCTGGC
1 ACTTTTCTGGC
48809091 ACT
1 ACT
48809094 AATCAAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.44
Consensus pattern (11 bp):
ACTTTTCTGGC
Found at i:48817760 original size:34 final size:35
Alignment explanation
Indices: 48817684--48817762 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
48817674 GTAGCCCTAT
* *
48817684 TGATTACTGATACTATGATGGGCTAAGGCCCAAAC
1 TGATTACTGTTACTATGAAGGGCTAAGGCCCAAAC
* * **
48817719 TGA-TACTGTTACTGTGAAGGGCTTAGGCCCAGTC
1 TGATTACTGTTACTATGAAGGGCTAAGGCCCAAAC
48817753 T-ATTACTGTT
1 TGATTACTGTT
48817763 TACATTTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
33 1 0.03
34 33 0.89
35 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (35 bp):
TGATTACTGTTACTATGAAGGGCTAAGGCCCAAAC
Found at i:48818542 original size:6 final size:6
Alignment explanation
Indices: 48818525--48818566 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
48818515 CATAAACATA
*
48818525 AAAAAG ATAAAATA AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG A-AAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAAA
48818567 CAGATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 23 0.72
7 8 0.25
8 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:48818560 original size:18 final size:20
Alignment explanation
Indices: 48818525--48818576 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
48818515 CATAAACATA
48818525 AAAAAGATAAAATAAAAAAG
1 AAAAAGATAAAATAAAAAAG
*
48818545 AAAAAGA-AAAA-GAAAAAG
1 AAAAAGATAAAATAAAAAAG
48818563 AAAACAGATAAAAT
1 AAAA-AGATAAAAT
48818577 CAATGATCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.36
19 7 0.25
20 11 0.39
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.08
Consensus pattern (20 bp):
AAAAAGATAAAATAAAAAAG
Found at i:48822120 original size:31 final size:31
Alignment explanation
Indices: 48822082--48822156 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
48822072 GTTCCAAGCC
* **
48822082 ACACGGGCATTTGTAATTACACGCCCTACCT
1 ACACGGGCATGTGTAACCACACGCCCTACCT
* *
48822113 ACACGGGCGTGTGTAACCACACGGCCTACCT
1 ACACGGGCATGTGTAACCACACGCCCTACCT
* *
48822144 ACACTGGCGTGTG
1 ACACGGGCATGTG
48822157 ACTCCCCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (31 bp):
ACACGGGCATGTGTAACCACACGCCCTACCT
Found at i:48824754 original size:27 final size:27
Alignment explanation
Indices: 48824713--48824831 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
48824703 TGAATAAGTT
48824713 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
48824740 GTGGAATTACCGAAATAACCCTTTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
48824767 ATAGAATTAACGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
48824794 GTAGAAATACCGAAATACTCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
48824821 GTAAAATTACC
1 GTAGAATTACC
48824832 ATTTTGCCTC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:48825599 original size:33 final size:32
Alignment explanation
Indices: 48825550--48825612 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
48825540 TTCGCTGTAA
* *
48825550 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
*
48825583 TCTGGTGGCCTAGCCACAATATCTATATCT
1 TCTGGTGGCCTAGCCACAATATATATATCT
48825613 AGTGACTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:48830855 original size:27 final size:27
Alignment explanation
Indices: 48830817--48830962 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
48830807 TGGATAAGTT
48830817 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
48830844 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
48830871 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
48830898 GTAGAAATACCGAAATACCCCTGTAGA
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
48830925 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
48830952 GTAAAATTACC
1 GTAGAATTACC
48830963 ATTTTGTCCC
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 104 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:48831703 original size:2 final size:2
Alignment explanation
Indices: 48831696--48831723 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48831686 TGGCTTCGCC
48831696 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
48831724 TTTGGTGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48833063 original size:41 final size:41
Alignment explanation
Indices: 48832987--48833135 Score: 137
Period size: 40 Copynumber: 3.7 Consensus size: 41
48832977 AGCATAGCCA
* ** *
48832987 AAGCTATTGTAATCTCATA-ACTAAGAGCCTTTCATAGTCG
1 AAGCTATTGCAATCTCGCACACTAAGTGCCTTTCATAGTCG
* * *
48833027 AAGCTATTGTAATCTCGTACACTAAGTGCCTTTCATAGT-A
1 AAGCTATTGCAATCTCGCACACTAAGTGCCTTTCATAGTCG
* * * *
48833067 AAGCTATCT-CAGTTTCGCACACTAATTGCCATAT-ATAGTCG
1 AAGCTAT-TGCAATCTCGCACACTAAGTGCC-TTTCATAGTCG
*
48833108 AAGCTATTCCAAT-TCGCACACTAAGTGC
1 AAGCTATTGCAATCTCGCACACTAAGTGC
48833136 TTTATATAGC
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
40 61 0.66
41 31 0.34
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (41 bp):
AAGCTATTGCAATCTCGCACACTAAGTGCCTTTCATAGTCG
Found at i:48833177 original size:80 final size:81
Alignment explanation
Indices: 48833020--48833184 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 81
48833010 AGAGCCTTTC
** * * * *
48833020 ATAGTCGAAGCTATTGTAATCTCGTACACTAAGTGCCTTTCATAGTAAAGCTATCTCAGTTTCGC
1 ATAGTCGAAGCTATTCCAATCTCGCACACTAAGTGCCTTTCATAGTAAAGCTATCTCAGATACAC
* *
48833085 ACACTAATTGCCATAT
66 ACACTAAGTGCCAAAT
* * *
48833101 ATAGTCGAAGCTATTCCAAT-TCGCACACTAAGTG-CTTTATATAGCTGAAGCTATCT-TGATAC
1 ATAGTCGAAGCTATTCCAATCTCGCACACTAAGTGCCTTT-CATAG-TAAAGCTATCTCAGATAC
48833163 ACACACTAAGTGCCAAAT
64 ACACACTAAGTGCCAAAT
48833181 ATAG
1 ATAG
48833185 CTGATTTTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
79 4 0.06
80 39 0.55
81 28 0.39
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (81 bp):
ATAGTCGAAGCTATTCCAATCTCGCACACTAAGTGCCTTTCATAGTAAAGCTATCTCAGATACAC
ACACTAAGTGCCAAAT
Found at i:48834559 original size:17 final size:18
Alignment explanation
Indices: 48834534--48834568 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48834524 TAATAAACAG
*
48834534 ATAATAAGAATAAAAATA
1 ATAATAAGAAAAAAAATA
48834552 ATAA-AAGAAAAAAAATA
1 ATAATAAGAAAAAAAATA
48834569 GAAACAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
ATAATAAGAAAAAAAATA
Found at i:48834790 original size:8 final size:8
Alignment explanation
Indices: 48834725--48834807 Score: 67
Period size: 8 Copynumber: 9.8 Consensus size: 8
48834715 AAAGAGAATA
48834725 AATAAAAT
1 AATAAAAT
48834733 AAATAAAAAT
1 -AAT-AAAAT
*
48834743 AAGTAGAAT
1 AA-TAAAAT
*
48834752 AGTAAAAT
1 AATAAAAT
* *
48834760 AAATAGATT
1 -AATAAAAT
*
48834769 AAAGAAAAT
1 -AATAAAAT
48834778 AATAAAAT
1 AATAAAAT
*
48834786 GATAAAAT
1 AATAAAAT
48834794 AATAAAAT
1 AATAAAAT
48834802 AATAAA
1 AATAAA
48834808 GAATTAAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
8 32 0.54
9 21 0.36
10 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:48836578 original size:308 final size:308
Alignment explanation
Indices: 48835982--48837194 Score: 1644
Period size: 308 Copynumber: 3.9 Consensus size: 308
48835972 CTGAGGCTTC
** * * * * *
48835982 TCTTTCTTTCTATCAATTATTCTACCAAGGTAAGGTATAATTTGAGTATTGTTTACTTTAAATGT
1 TCTTTCTCGCTATCAATTATTCTACCAAGATAATGTCTAATTCGAGTATTGTTTACCTTAAATGT
* * * *
48836047 GTCAAATACAGAATGAGTTACCTCAACTGTATCGTAGGGGAAGACGTTCAGTACCGTAAATAGGT
66 GCCAAATTCAGAATGAGTTACCTCAACTGTATCGTAGGAGAAGACGTTCAGTACCATAAATAGGT
* * *
48836112 TTGATCCGTTTG-CTCGAGCTCTGAAGGGGAGATTCATGGATCCGTTTTTCCCAGCAGTACTTTG
131 TTGATCCGTTTGACTCGAGCTCCGAAGGGGAGATTTATGGATCCGTTTTTTCCAGCAGTACTTTG
* * * * * *
48836176 TCTCCAACTTTAAATTGGTTTGTTCTCATCACCTGTTCATCTTGGTGTCGCTTTGGCTCTTTATC
196 TCTCCAACCTTAAATTGGTTTGTTTTCATCACCTGCTCATCATGGCGTCGCTTTGGCTCTTCATC
* *
48836241 GTGCTTTTTCAGTTTCTCCTTGACATGTGTTTGCAAAGCCAAGGCTCT
261 ATGCTTTCTCAGTTTCTCCTTGACATGTGTTTGCAAAGCCAAGGCTCT
*
48836289 TCTTTCTCGCTATCAATTATTCTACCAAGATAATGTCTAATTCGAGTATTGTTTACCTTAAATGC
1 TCTTTCTCGCTATCAATTATTCTACCAAGATAATGTCTAATTCGAGTATTGTTTACCTTAAATGT
* * * * * * *
48836354 CCCAAATTTAGAATGATTTACGTCAACGGTATCGTAGGGGAAGACGTTTAGTACCATAAATAGGT
66 GCCAAATTCAGAATGAGTTACCTCAACTGTATCGTAGGAGAAGACGTTCAGTACCATAAATAGGT
* * *
48836419 TTGATACGTTTGACTCGAGCTCCGAAGGTGAGATTTATGGATCCATTTTTTCCAGCAGTACTTTG
131 TTGATCCGTTTGACTCGAGCTCCGAAGGGGAGATTTATGGATCCGTTTTTTCCAGCAGTACTTTG
* *
48836484 TCTCCAACCTTAAATTGCTTTGTTTTCATCACGTGCTCATCATGGCGTCGCTTTGGCTCTTCATC
196 TCTCCAACCTTAAATTGGTTTGTTTTCATCACCTGCTCATCATGGCGTCGCTTTGGCTCTTCATC
* * *
48836549 ATGCTTTATCTGTTTCTCCTTGACATGTGTTTGCGAAGCCAAGGCTCCT
261 ATGCTTTCTCAGTTTCTCCTTGACATGTGTTTGCAAAGCCAAGGCT-CT
* * * ** *
48836598 T-TTTCGCGCTATCAATTATTGTACCAAGATAATATCTAATTTAAGTATTGTGTACCTTAAATGT
1 TCTTTCTCGCTATCAATTATTCTACCAAGATAATGTCTAATTCGAGTATTGTTTACCTTAAATGT
* * * * * * *
48836662 GTCGAATTCATAATGAGTTACATCAACTGTATCATAGGAAAAGACGTTCAATACCATAAATAGGT
66 GCCAAATTCAGAATGAGTTACCTCAACTGTATCGTAGGAGAAGACGTTCAGTACCATAAATAGGT
* * * * *
48836727 TTGATCTGTTTGACTCGAGCTCCAAAGGGGAGATTTGTGGATCCGTTTCTTCCAACAGTACTTTG
131 TTGATCCGTTTGACTCGAGCTCCGAAGGGGAGATTTATGGATCCGTTTTTTCCAGCAGTACTTTG
* *
48836792 TCTCCAACCTTAAATTGGTTTGTTTTCATCACCTACTCATCATGGCGTCGCTTTGGCTCTTCATT
196 TCTCCAACCTTAAATTGGTTTGTTTTCATCACCTGCTCATCATGGCGTCGCTTTGGCTCTTCATC
* * * *
48836857 GTGCTTTCTCAGTTTCTCCTTGACACGAGTTTGCAAAGCCATGGCTCT
261 ATGCTTTCTCAGTTTCTCCTTGACATGTGTTTGCAAAGCCAAGGCTCT
* * *
48836905 TCTTTCTCACTATCAATTATTCTACCAAGATAATGTCCT-ATTCGACTATTTTTTACCTTAAATG
1 TCTTTCTCGCTATCAATTATTCTACCAAGATAATGT-CTAATTCGAGTATTGTTTACCTTAAATG
* * * *
48836969 TGCCGAATTTAGAATGAGTTACCTCAACTGTATTGTAGCAGAAGACGTTCAGTACCATAAATAGG
65 TGCCAAATTCAGAATGAGTTACCTCAACTGTATCGTAGGAGAAGACGTTCAGTACCATAAATAGG
* * ** *
48837034 TTTAATCCTTTTGACTCGAGCTTTGAAGGGGAGATTTATGGATCCGTTTTTTCCAGCAATACTTT
130 TTTGATCCGTTTGACTCGAGCTCCGAAGGGGAGATTTATGGATCCGTTTTTTCCAGCAGTACTTT
* ** * *
48837099 GTCTCCAACCTTAAATTGGTTTCTTCTT-ATCATGTGCTCATCATGGTGTCGCTTTGGCTTTTCA
195 GTCTCCAACCTTAAATTGGTTTGTT-TTCATCACCTGCTCATCATGGCGTCGCTTTGGCTCTTCA
48837163 TCATGCTTTCTC-GATTTCTCCTTGACATGTGT
259 TCATGCTTTCTCAG-TTTCTCCTTGACATGTGT
48837195 CCACCATTCA
Statistics
Matches: 788, Mismatches: 112, Indels: 11
0.86 0.12 0.01
Matches are distributed among these distances:
307 128 0.16
308 653 0.83
309 7 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (308 bp):
TCTTTCTCGCTATCAATTATTCTACCAAGATAATGTCTAATTCGAGTATTGTTTACCTTAAATGT
GCCAAATTCAGAATGAGTTACCTCAACTGTATCGTAGGAGAAGACGTTCAGTACCATAAATAGGT
TTGATCCGTTTGACTCGAGCTCCGAAGGGGAGATTTATGGATCCGTTTTTTCCAGCAGTACTTTG
TCTCCAACCTTAAATTGGTTTGTTTTCATCACCTGCTCATCATGGCGTCGCTTTGGCTCTTCATC
ATGCTTTCTCAGTTTCTCCTTGACATGTGTTTGCAAAGCCAAGGCTCT
Found at i:48839093 original size:42 final size:43
Alignment explanation
Indices: 48838994--48839156 Score: 120
Period size: 42 Copynumber: 3.8 Consensus size: 43
48838984 CAATGCCAAC
* * * * *
48838994 GTCCCAGACAT-GTTTTACATGTAATCAAATATCGATGCTACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGACGCGACT
* *
48839036 GTCCTAGACAGGGTCTTACACGAAATCAAATA-CGACGTCGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGACG-CGACT
* * * *
48839078 GTCCCAGACATGGTCTTACACGTAAACCATAA-GTCGATGCCAAC-
1 GTCCCAGACATGGTCTTACACG-AAATCA-AATATCGACG-CGACT
* * * *
48839122 GTCCCAAACATGGTCTGACACGAAAACACATATCG
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCG
48839157 GATCCTATGT
Statistics
Matches: 95, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
42 35 0.37
43 32 0.34
44 28 0.29
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGACGCGACT
Found at i:48840719 original size:18 final size:18
Alignment explanation
Indices: 48840692--48840728 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48840682 AACCAGCCAG
48840692 ATACGCTCGAT-AATCTC
1 ATACGCTCGATAAATCTC
48840709 ATACGGCTCGATAAATCTC
1 ATAC-GCTCGATAAATCTC
48840728 A
1 A
48840729 AACTCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 7 0.39
19 7 0.39
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (18 bp):
ATACGCTCGATAAATCTC
Found at i:48842656 original size:29 final size:29
Alignment explanation
Indices: 48842617--48842695 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
48842607 CTTAATAATC
*
48842617 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
48842647 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
48842676 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48842696 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:48843831 original size:17 final size:18
Alignment explanation
Indices: 48843794--48843831 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
48843784 CACTTTTTTT
48843794 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
48843813 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
48843830 TT
1 TT
48843832 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:48859304 original size:40 final size:40
Alignment explanation
Indices: 48859247--48859324 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
48859237 ACACACCTTG
* * *
48859247 TGGGGATAAAATTGACCCACCCATCCCTGCAAACCATATA
1 TGGGGATAAAATCGACCCACCCAACCCTACAAACCATATA
* *
48859287 TGGGGATAAAATCGACCCATCCAACCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCAACCCTACAAACCATA
48859325 AAGTACTGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACAAACCATATA
Found at i:48859687 original size:17 final size:18
Alignment explanation
Indices: 48859651--48859689 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
48859641 AAAATGGGCT
*
48859651 CACACGTCCGTGTAGGCC
1 CACACGCCCGTGTAGGCC
48859669 CACACGCCCGTGT-GGCC
1 CACACGCCCGTGTAGGCC
48859686 CACA
1 CACA
48859690 TAGTCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.18, C:0.44, G:0.26, T:0.13
Consensus pattern (18 bp):
CACACGCCCGTGTAGGCC
Found at i:48861561 original size:26 final size:26
Alignment explanation
Indices: 48861532--48861640 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
48861522 TGGTACAGAT
48861532 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48861558 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48861584 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
48861610 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48861636 TGATA
1 TGATA
48861641 GGCATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48863154 original size:26 final size:26
Alignment explanation
Indices: 48863124--48863176 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
48863114 TTTTCAGTTT
*
48863124 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
48863150 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
48863176 T
1 T
48863177 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:48866243 original size:78 final size:78
Alignment explanation
Indices: 48866130--48866326 Score: 220
Period size: 78 Copynumber: 2.5 Consensus size: 78
48866120 ACAATGGAGA
* * *
48866130 ATTATATTCGGGCT-AAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGG-TTAAGCCCCGAA
1 ATTATATTCGGGCTAAAGTCCTGCAGGC-TTTGTGCTGGTGTTATATCCGGGCTAAAGCCCCGAA
48866193 GGCATTCGTGCTGGT
65 GGC-TTCGTGCTGGT
* * *** *
48866208 GTTATATTCGGGCTAAAGTCCTGCAGGCTTTGTGCTGGTATTATATCCGGGCTAAAGTTTCGCAG
1 ATTATATTCGGGCTAAAGTCCTGCAGGCTTTGTGCTGGTGTTATATCCGGGCTAAAGCCCCGAAG
*
48866273 GCTTTGTGCTGGT
66 GCTTCGTGCTGGT
* * *
48866286 ATTATA-TCTGGGCTTAAAGTCCCGCATGCTTTGTGTTGGTG
1 ATTATATTC-GGGC-TAAAGTCCTGCAGGCTTTGTGCTGGTG
48866327 ATTGGATTTG
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
77 2 0.02
78 53 0.53
79 45 0.45
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (78 bp):
ATTATATTCGGGCTAAAGTCCTGCAGGCTTTGTGCTGGTGTTATATCCGGGCTAAAGCCCCGAAG
GCTTCGTGCTGGT
Found at i:48866317 original size:40 final size:39
Alignment explanation
Indices: 48866130--48866325 Score: 198
Period size: 39 Copynumber: 5.0 Consensus size: 39
48866120 ACAATGGAGA
* * * *
48866130 ATTATATTCGGGCT-AAGTCCTGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGT
* * * * *
48866169 GTTATATCCGGG-TTAAGCCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGT
* * *
48866208 GTTATATTCGGGCTAAAGTCCTGCAGGCTTTGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
**
48866247 ATTATATCCGGGCTAAAGTTTCGCAGGCTTTGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
* * *
48866286 ATTATATCTGGGCTTAAAGTCCCGCATGCTTTGTGTTGGT
1 ATTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGT
48866326 GATTGGATTT
Statistics
Matches: 134, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
38 1 0.01
39 100 0.75
40 33 0.25
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.35
Consensus pattern (39 bp):
ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
Found at i:48870140 original size:40 final size:39
Alignment explanation
Indices: 48869990--48870142 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
48869980 GAATGTTCGA
*
48869990 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
48870029 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
48870068 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
48870107 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
48870143 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:48870158 original size:40 final size:39
Alignment explanation
Indices: 48869991--48870173 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
48869981 AATGTTCGAG
* *
48869991 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48870030 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
48870069 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
48870108 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
48870148 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
48870174 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:48870200 original size:79 final size:78
Alignment explanation
Indices: 48869997--48870211 Score: 218
Period size: 78 Copynumber: 2.7 Consensus size: 78
48869987 CGAGTGATAT
** * * *
48869997 CCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATTGTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
** *
48870062 CGAGCTATGATAT
66 CGAGCTACCATAA
** * *
48870075 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAG-CCCGAAGGCAATTGT
* *
48870140 GCGGGTTACCATAA
65 GCGAGCTACCATAA
* ** *
48870154 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGGTTAAGC-CCGAAGG
48870212 TATGTGATTC
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 48 0.41
79 45 0.38
80 24 0.20
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGGTTAAGCCCGAAGGCAATTGTG
CGAGCTACCATAA
Found at i:48878128 original size:39 final size:39
Alignment explanation
Indices: 48878074--48878224 Score: 214
Period size: 39 Copynumber: 3.8 Consensus size: 39
48878064 GAATGTTCGA
*
48878074 GTGATATCCGGGCTAAGCCCGAAGGCCATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
48878113 GTGATATCCGGGCTAAGCCCGAAGACAATTGTGC-AAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAA-TT
* *
48878152 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
48878191 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTG
48878225 TGGGTTACCA
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.02
39 81 0.82
40 16 0.16
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:48878173 original size:78 final size:79
Alignment explanation
Indices: 48878075--48878224 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 79
48878065 AATGTTCGAG
*
48878075 TGATATCCGGGCTAAGCCCGAAGGCCATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGAC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGAC
48878139 AATTGTGCAAGCTA
66 AATTGTGCAAGCTA
* * *
48878153 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGAC
*
48878218 ATTTGTG
66 AATTGTG
48878225 TGGGTTACCA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 52 0.79
79 14 0.21
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGAC
AATTGTGCAAGCTA
Found at i:48884412 original size:12 final size:12
Alignment explanation
Indices: 48884382--48884415 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
48884372 CCCAGAAAAT
*
48884382 AAAGTAAAAACA
1 AAAGTAGAAACA
48884394 AAAGTAGAAACA
1 AAAGTAGAAACA
48884406 AAAGTAGAAA
1 AAAGTAGAAA
48884416 GTTCATAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.15, T:0.09
Consensus pattern (12 bp):
AAAGTAGAAACA
Found at i:48885271 original size:17 final size:19
Alignment explanation
Indices: 48885243--48885279 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
48885233 GTGGTTCACT
48885243 CGTGTGGGCCCACAC-GCC
1 CGTGTGGGCCCACACAGCC
48885261 CGTGT-GGCCCACACAGCC
1 CGTGTGGGCCCACACAGCC
48885279 C
1 C
48885280 ATTTGCCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.14, C:0.46, G:0.30, T:0.11
Consensus pattern (19 bp):
CGTGTGGGCCCACACAGCC
Found at i:48894056 original size:17 final size:19
Alignment explanation
Indices: 48894034--48894073 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
48894024 TTTCTTTTCT
48894034 TTTTAT-AAAT-TTATATA
1 TTTTATAAAATCTTATATA
*
48894051 TTTTATAAAATCTTATGTA
1 TTTTATAAAATCTTATATA
48894070 TTTT
1 TTTT
48894074 TTATTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 10 0.50
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATCTTATATA
Found at i:48897683 original size:23 final size:21
Alignment explanation
Indices: 48897657--48897698 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
48897647 TGCCATTAGG
48897657 GTTCAAATGGAAAAAAGGAAATT
1 GTTCAAAT-G-AAAAAGGAAATT
*
48897680 GTTCAACTGAAAAAGGAAA
1 GTTCAAATGAAAAAGGAAA
48897699 ATGAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 1 0.06
23 7 0.39
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.19
Consensus pattern (21 bp):
GTTCAAATGAAAAAGGAAATT
Found at i:48901088 original size:31 final size:31
Alignment explanation
Indices: 48901010--48901093 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
48901000 CAAGTGTTTA
*
48901010 TATTTTTGGTAAATTT-AAATTTAATTTTTTT
1 TATTTTT-TTAAATTTAAAATTTAATTTTTTT
* **
48901041 TATATTTTTATTTTTAAAAGTTTAA-TTTTTT
1 TATTTTTTTAAATTTAAAA-TTTAATTTTTTT
48901072 TATTTTTTTAAATTT-AAATTTA
1 TATTTTTTTAAATTTAAAATTTA
48901094 GGTCAAGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
29 4 0.09
30 8 0.18
31 27 0.61
32 5 0.11
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (31 bp):
TATTTTTTTAAATTTAAAATTTAATTTTTTT
Found at i:48902306 original size:31 final size:31
Alignment explanation
Indices: 48902271--48902330 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
48902261 AATATTATAT
48902271 ATAAA-AATATTTCAAAAAATTAAATATAAGA
1 ATAAATAA-ATTTCAAAAAATTAAATATAAGA
* * *
48902302 ATAAATAAATTTTAAATAATTTAATATAA
1 ATAAATAAATTTCAAAAAATTAAATATAA
48902331 AACAGAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (31 bp):
ATAAATAAATTTCAAAAAATTAAATATAAGA
Found at i:48904119 original size:50 final size:50
Alignment explanation
Indices: 48904044--48904186 Score: 223
Period size: 50 Copynumber: 2.9 Consensus size: 50
48904034 ATCTATTGTG
* **
48904044 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGTTGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT
48904094 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT
* * * *
48904144 AGGTCACCTATGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
48904187 GATAGCTTTG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT
Found at i:48904178 original size:24 final size:24
Alignment explanation
Indices: 48904104--48904179 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
48904094 AGGTCACGTG
48904104 TGTAGTACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
* * * *
48904128 CGT-GTACCAAATGGTTAGG-TCACCTA
1 TGTAGTACTAAGT-G-CAGGCT-A-CTA
48904154 TGTAGTACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
48904178 TG
1 TG
48904180 CGTACCAGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
23 7 0.18
24 9 0.24
25 8 0.21
26 7 0.18
27 7 0.18
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (24 bp):
TGTAGTACTAAGTGCAGGCTACTA
Found at i:48906159 original size:20 final size:20
Alignment explanation
Indices: 48906136--48906189 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
48906126 GTTACTCGAA
48906136 ATGAATGAC-ATGATTGAAGT
1 ATGAATG-CTATGATTGAAGT
*
48906156 ATGATTGCTATGATTGAAGT
1 ATGAATGCTATGATTGAAGT
*
48906176 ATGATTGCTATGAT
1 ATGAATGCTATGAT
48906190 GAAAACTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (20 bp):
ATGAATGCTATGATTGAAGT
Found at i:48906161 original size:11 final size:11
Alignment explanation
Indices: 48906145--48906182 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
48906135 AATGAATGAC
48906145 ATGATTGAAGT
1 ATGATTGAAGT
*
48906156 ATGATTG--CT
1 ATGATTGAAGT
48906165 ATGATTGAAGT
1 ATGATTGAAGT
48906176 ATGATTG
1 ATGATTG
48906183 CTATGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (11 bp):
ATGATTGAAGT
Found at i:48909247 original size:50 final size:50
Alignment explanation
Indices: 48909113--48909309 Score: 259
Period size: 50 Copynumber: 3.9 Consensus size: 50
48909103 ATCTATTGTG
* * ** **
48909113 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTTATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTT
* * * *
48909164 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
48909214 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
* * * *
48909264 AGGTCACTTGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGAT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
48909310 AGCTTTGGCT
Statistics
Matches: 128, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 90 0.70
51 38 0.30
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTT
Found at i:48913006 original size:27 final size:27
Alignment explanation
Indices: 48912976--48913028 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
48912966 ATTTTTAGGG
* *
48912976 TCCCAATGGACTATCCCATGTTTACTA
1 TCCCAATAGACTATCACATGTTTACTA
* *
48913003 TCCCAGTAGACTATCACGTGTTTACT
1 TCCCAATAGACTATCACATGTTTACT
48913029 GTCTCGACGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (27 bp):
TCCCAATAGACTATCACATGTTTACTA
Found at i:48913797 original size:19 final size:19
Alignment explanation
Indices: 48913773--48913870 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
48913763 AATCTTTAAG
48913773 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48913792 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48913811 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48913828 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48913847 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
48913868 GAT
1 GAT
48913871 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48913803 original size:36 final size:35
Alignment explanation
Indices: 48913763--48913870 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
48913753 ATGGAAATAT
48913763 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
48913799 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
48913835 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
48913871 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:48921754 original size:132 final size:132
Alignment explanation
Indices: 48921491--48921764 Score: 476
Period size: 132 Copynumber: 2.1 Consensus size: 132
48921481 TGTTTATAAA
*
48921491 GAATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGCGAAGTAGATCGAAGATTTCAGCATG
1 GAATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGCGAAGCAGATCGAAGATTTCAGCATG
* * *
48921556 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGA
66 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAAGGA
48921621 AC
131 AC
* *
48921623 GAATTGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATG
1 GAATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGCGAAGCAGATCGAAGATTTCAGCATG
*
48921688 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCTTGTGCTTACAAGGA
66 GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAAGGA
48921753 AC
131 AC
*
48921755 AAATCGAAGA
1 GAATCGAAGA
48921765 CATAGCTAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 133 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
GAATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGCGAAGCAGATCGAAGATTTCAGCATG
GCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAAGGA
AC
Found at i:48921764 original size:44 final size:44
Alignment explanation
Indices: 48921554--48921764 Score: 228
Period size: 44 Copynumber: 4.8 Consensus size: 44
48921544 GATTTCAGCA
*
48921554 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATT
* *
48921598 TGGCATCCCTGTGTTTATAGGGAACGAATTGAAGATAGCAGATC
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATT
* * * * * * * **
48921642 TGACATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGTTTATAGGGAA-CAAATTGAAGATAGCAG-ATT
*
48921686 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATT
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATT
* * * * *
48921730 TGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGA
48921765 CATAGCTAAT
Statistics
Matches: 134, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.01
43 12 0.09
44 108 0.81
45 12 0.09
46 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (44 bp):
TGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATT
Found at i:48922897 original size:50 final size:49
Alignment explanation
Indices: 48922723--48922960 Score: 316
Period size: 49 Copynumber: 4.8 Consensus size: 49
48922713 TAGCCAAAGC
* * * *
48922723 TATCTGGTACGCATAGTAGCCTGCA-TATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACT-TAGTACTACACACGTGACCAAT
*
48922772 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
48922821 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
48922871 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
48922922 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
48922961 TGCGACCTTA
Statistics
Matches: 168, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 87 0.52
50 45 0.27
51 35 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:48922911 original size:99 final size:100
Alignment explanation
Indices: 48922723--48922967 Score: 343
Period size: 99 Copynumber: 2.5 Consensus size: 100
48922713 TAGCCAAAGC
* ** *
48922723 TATCTGGTACGCATAGTAGCCTGCA-TATAGTACTACACATGCGACCAATTATCCGGTACACGTA
1 TATCTGGTACGCATAGTAGCCTGCACT-TAGTACTACACACGCGACCAACCATCCGATACACGTA
48922787 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * * *
48922821 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTA
*
48922886 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCACAAT
* * *
48922922 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
48922968 TTACAATAGA
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
98 40 0.31
99 44 0.34
100 1 0.01
101 43 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCACAAT
Found at i:48926210 original size:40 final size:39
Alignment explanation
Indices: 48926124--48926307 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
48926114 AAATTGAATG
* * * * *
48926124 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
48926164 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
48926204 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
48926244 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
48926283 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48926308 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:48934314 original size:40 final size:39
Alignment explanation
Indices: 48934228--48934411 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
48934218 AAATTGAATG
* * * * *
48934228 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
48934268 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
48934308 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
48934348 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
48934387 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
48934412 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:48936568 original size:15 final size:15
Alignment explanation
Indices: 48936525--48936585 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
48936515 CAAGAAAATC
* *
48936525 GAATAAATAAATCCAA
1 GAATAAAGAAA-CCCA
*
48936541 GAGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
48936557 GAATAAAGAAACCTA
1 GAATAAAGAAACCCA
*
48936572 GAGTAAA-AAACCCA
1 GAATAAAGAAACCCA
48936586 AGATACGATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 6 0.16
15 17 0.46
16 7 0.19
17 7 0.19
ACGTcount: A:0.57, C:0.16, G:0.15, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:48940152 original size:40 final size:40
Alignment explanation
Indices: 48940097--48940306 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48940087 AACATTGGAA
48940097 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48940137 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48940177 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48940217 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48940256 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48940297 CTATATCCGG
1 ATATATCCGG
48940307 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48948285 original size:40 final size:40
Alignment explanation
Indices: 48948230--48948479 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
48948220 AACATTGGAA
48948230 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48948270 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48948310 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48948350 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48948390 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48948429 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48948470 CTATATCCGG
1 ATATATCCGG
48948480 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48950769 original size:24 final size:25
Alignment explanation
Indices: 48950741--48950804 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
48950731 TCAACCAAAT
* * *
48950741 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
48950765 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
48950790 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
48950805 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:48950855 original size:24 final size:24
Alignment explanation
Indices: 48950828--48950877 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
48950818 CATGCATCGA
*
48950828 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
48950852 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
48950876 CA
1 CA
48950878 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:48950950 original size:94 final size:94
Alignment explanation
Indices: 48950833--48951141 Score: 537
Period size: 94 Copynumber: 3.3 Consensus size: 94
48950823 ATCGACATTC
* *
48950833 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
48950898 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
48950927 AAATCTGCACACAAAGTGACATTTAATTCCGTACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
* * *
48950992 GGAAACTTGCTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* *
48951021 AAATCTACACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAGTAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
48951086 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
48951115 AAATCTGCACACAAAGTGACATTTAAT
1 AAATCTGCACACAAAGTGACATTTAAT
48951142 GTGACAGCCC
Statistics
Matches: 200, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 200 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:48952882 original size:40 final size:40
Alignment explanation
Indices: 48952827--48953004 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
48952817 TGGATGATAA
48952827 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48952867 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48952907 CCGGGCTAAGTCCCAAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48952947 TCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48952987 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48953005 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.13
40 110 0.87
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48960806 original size:40 final size:40
Alignment explanation
Indices: 48960751--48960888 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
48960741 TGGATGATAA
48960751 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48960791 CCGGGCTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48960831 CCGGGCTAAGTCTCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
48960871 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48960889 TACTTGGCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 15 0.17
40 74 0.83
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48970542 original size:44 final size:43
Alignment explanation
Indices: 48970479--48970637 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 43
48970469 TATGTGTTTT
48970479 CGTGTAAGACCATGTCTGGGACGTTGGCATCA-ACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCATA-TT-TGATTTA
*
48970523 CGTGTAAGACCATGTCTGGGACGTGGGCATCATATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCATATTTGATTTA
* * *
48970565 CGTGTAAGACCTTGTTTGGGATAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGA-CGTTGGCATC-ATATTTGATTTA
* ** *
48970608 CATGTAAGACCACATCTTGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
48970638 TGTACAAGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 28 0.29
43 36 0.37
44 33 0.34
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCATATTTGATTTA
Found at i:48972545 original size:48 final size:48
Alignment explanation
Indices: 48972471--48972802 Score: 396
Period size: 48 Copynumber: 6.9 Consensus size: 48
48972461 GGTGAATTGT
* ** * *
48972471 CGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACACGTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* * **
48972519 CGATGCCATGTCCCAGACATGCTCTTACACTAGCTCTCAGCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* *
48972567 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* * * *
48972615 CGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCTCATATC-GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAT-GC
* * * * * *
48972663 TGACGCCATTTCCAAGACATGGTCTTACACTAGCGCACATATCAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* * *
48972711 TGATGCCATGTCTCAGACATGGTCTTACACTAGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
* * * *
48972759 CAATGCCATGTCTCAGACATGGTCTTACACTGGCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
48972803 CCTAAATGTC
Statistics
Matches: 244, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
47 1 0.00
48 242 0.99
49 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGC
Found at i:48972728 original size:144 final size:144
Alignment explanation
Indices: 48972468--48972801 Score: 461
Period size: 144 Copynumber: 2.3 Consensus size: 144
48972458 GAGGGTGAAT
* * ** * *
48972468 TGTCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCACACGTCGAGGCCGATGCCATGTCCC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCCATGTCCA
* * * *
48972533 AGACATGCTCTTACACTAGCTCTCAGCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
66 AGACATGCTCTTACACTAGCGCACAGATCAATGACGATGCCATGTCCCAGACATGGTCTTACACT
48972598 AGCACACATATCAA
131 AGCACACATATCAA
* * * * *
48972612 TGTCGATGCCATGTCCCAGAAATGGTCTTACACTGGCTCTCATATCGTGGCTGACGCCATTTCCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCCATGTCCA
* * * *
48972677 AGACATGGTCTTACACTAGCGCACATATCAATGATGATGCCATGTCTCAGACATGGTCTTACACT
66 AGACATGCTCTTACACTAGCGCACAGATCAATGACGATGCCATGTCCCAGACATGGTCTTACACT
48972742 AGCACACATATCAA
131 AGCACACATATCAA
* * * *
48972756 TGCCAATGCCATGTCTCAGACATGGTCTTACACTGGCACACATATC
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
48972802 ACCTAAATGT
Statistics
Matches: 165, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
144 165 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (144 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAGGCCGACGCCATGTCCA
AGACATGCTCTTACACTAGCGCACAGATCAATGACGATGCCATGTCCCAGACATGGTCTTACACT
AGCACACATATCAA
Found at i:48978413 original size:27 final size:29
Alignment explanation
Indices: 48978383--48978498 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
48978373 AACGCAAGAG
*
48978383 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
48978410 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
48978439 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
48978469 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
48978498 T
1 T
48978499 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:48978451 original size:30 final size:29
Alignment explanation
Indices: 48978396--48978498 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
48978386 ATAGTGAATC
48978396 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
48978425 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
48978455 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
48978484 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48978499 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:48978472 original size:59 final size:60
Alignment explanation
Indices: 48978395--48978528 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
48978385 TATAGTGAAT
* * *
48978395 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
48978454 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
48978514 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48978529 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:48987447 original size:20 final size:20
Alignment explanation
Indices: 48987422--48987473 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
48987412 CGGGTTAGGG
48987422 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
*
48987442 ACACGGGCGTGACCCAAACC
1 ACACGGGCGTGTCCCAAACC
*
48987462 ACACAGGCGTGT
1 ACACGGGCGTGT
48987474 GACCCTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAACC
Found at i:48990841 original size:56 final size:56
Alignment explanation
Indices: 48990755--48990888 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
48990745 CATGGCATCA
* **
48990755 ATATATGTGTGCGAGTAAGACTGCATTTAATACGTTGACATCGATATGTGATTCCG
1 ATATATGTGTACGAGTAAGACCACATTTAATACGTTGACATCGATATGTGATTCCG
* * * *
48990811 ATATATGAGTACGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTG
1 ATATATGTGTACGAGTAAGACCACATTTAATACGTTGACATCGATATGTGATTCCG
*
48990867 ATTTATGTGTACGAGTAAGACC
1 ATATATGTGTACGAGTAAGACC
48990889 CTATCTAGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (56 bp):
ATATATGTGTACGAGTAAGACCACATTTAATACGTTGACATCGATATGTGATTCCG
Found at i:48991975 original size:2 final size:2
Alignment explanation
Indices: 48991968--48992005 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
48991958 TGATAATGAA
48991968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48992006 TCGAATAGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48993008 original size:17 final size:17
Alignment explanation
Indices: 48992986--48993018 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
48992976 AAATTAGTGT
48992986 CTTTTATGGTTAGGTAA
1 CTTTTATGGTTAGGTAA
48993003 CTTTTATGGTTAGGTA
1 CTTTTATGGTTAGGTA
48993019 CCATTATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (17 bp):
CTTTTATGGTTAGGTAA
Found at i:48996125 original size:17 final size:17
Alignment explanation
Indices: 48996070--48996126 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
48996060 ACATAAGTAA
48996070 AAATAATATAAAATTTAT
1 AAATAA-ATAAAATTTAT
* **
48996088 AATATATATAACTTTTAT
1 AA-ATAAATAAAATTTAT
*
48996106 AAATAAATAAAAATTAT
1 AAATAAATAAAATTTAT
48996123 AAAT
1 AAAT
48996127 TGTCTAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
17 15 0.48
18 13 0.42
19 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATAAATAAAATTTAT
Found at i:48996525 original size:37 final size:37
Alignment explanation
Indices: 48996477--48996551 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
48996467 TAAGAAATTT
*
48996477 TTTTATTATAACTATTCCAAACACTCATATGTATTCA
1 TTTTATCATAACTATTCCAAACACTCATATGTATTCA
48996514 TTTTATCATAACTATTCCAAACACTCATATGTATTCA
1 TTTTATCATAACTATTCCAAACACTCATATGTATTCA
48996551 T
1 T
48996552 ACTTATAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.43
Consensus pattern (37 bp):
TTTTATCATAACTATTCCAAACACTCATATGTATTCA
Found at i:48996548 original size:19 final size:19
Alignment explanation
Indices: 48996489--48996549 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
48996479 TTATTATAAC
48996489 TATTCCAAACACTCATATG
1 TATTCCAAACACTCATATG
*** **
48996508 TATT-CATTTTA-TCATAAC
1 TATTCCA-AACACTCATATG
48996526 TATTCCAAACACTCATATG
1 TATTCCAAACACTCATATG
48996545 TATTC
1 TATTC
48996550 ATACTTATAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.39
Consensus pattern (19 bp):
TATTCCAAACACTCATATG
Found at i:48997018 original size:13 final size:13
Alignment explanation
Indices: 48997000--48997025 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48996990 TTGTTCATAC
48997000 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
48997013 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
48997026 CGTCGTAGAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAAA
Found at i:49000185 original size:12 final size:12
Alignment explanation
Indices: 49000162--49000195 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
49000152 ACTATGGTTA
49000162 TTATTGTTATCAT
1 TTATT-TTATCAT
49000175 TTATTTTATCAT
1 TTATTTTATCAT
*
49000187 TCATTTTAT
1 TTATTTTAT
49000196 TTTTGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (12 bp):
TTATTTTATCAT
Found at i:49006959 original size:5 final size:5
Alignment explanation
Indices: 49006912--49006940 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
49006902 AAATTTATAA
49006912 AAATT AAATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAAT
49006941 CAAAACCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:49007148 original size:16 final size:16
Alignment explanation
Indices: 49007116--49007149 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49007106 CTAAATTATT
*
49007116 TTAAATTTTAATCATC
1 TTAAATTTTAATAATC
*
49007132 TTAAATTTTTATAATC
1 TTAAATTTTAATAATC
49007148 TT
1 TT
49007150 TTATGAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAATTTTAATAATC
Found at i:49015496 original size:34 final size:34
Alignment explanation
Indices: 49015431--49015501 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
49015421 CTTATACAGT
* * *
49015431 TATCATATCAGAATGTCACATAACCAGAAACATA
1 TATCATATCAAAATGTCACATAACCAAAAACACA
* * **
49015465 TATCTTATCAAAATGTCATATTTCCAAAAACACA
1 TATCATATCAAAATGTCACATAACCAAAAACACA
49015499 TAT
1 TAT
49015502 ACCGGATGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.30
Consensus pattern (34 bp):
TATCATATCAAAATGTCACATAACCAAAAACACA
Found at i:49019397 original size:47 final size:47
Alignment explanation
Indices: 49019343--49019720 Score: 544
Period size: 47 Copynumber: 8.1 Consensus size: 47
49019333 TTAGGATTTT
** * * *
49019343 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49019390 ATGTGATGAATGTGAACATGCATATATGAGATAAGACCGAATGGCGA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49019437 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49019484 ATATGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGGCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49019531 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49019577 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49019624 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49019671 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
49019718 ATG
1 ATG
49019721 CGAAATGTGT
Statistics
Matches: 304, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 46 0.15
47 255 0.84
48 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49019677 original size:22 final size:22
Alignment explanation
Indices: 49019602--49019677 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
49019592 ATATGCATAT
*
49019602 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
49019624 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
49019648 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
49019671 ATGTGAT
1 ATGTGAT
49019678 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:49019744 original size:140 final size:139
Alignment explanation
Indices: 49019343--49019766 Score: 484
Period size: 140 Copynumber: 3.0 Consensus size: 139
49019333 TTAGGATTTT
** * * *
49019343 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
49019408 TGCATATATGAGAT-AAGACCGAATGGCGAATGTGATGAATGTGAACATG-CAT-ATATGTGATA
66 TGCATATATGTGATAAAG-CCGAATGGC-AATGTGA-GAATGTG--TATGACATGATATGTGATA
*
49019470 AGGCTGAATGGCCA
126 AGGCCGAATGGCCA
* * * *
49019484 ATATGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGGCAATGTGATGAATGTGAATA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
49019549 TGCATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAATATG-CAT-ATATGTGATAAG
66 TGCATATATGTGATAAAGCCGAATGGCAATGTGA-GAATGTG--TATGACATGATATGTGATAAG
49019612 GCCGAATGGCCA
128 GCCGAATGGCCA
* *
49019624 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGAA-
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAAC
* * * * * * * *
49019688 GTGTATATATGTGGTAAAGCCGAATGGCTAATGCGA-AATGTGTATGAGATGGATATGAGGTAAA
65 ATGCATATATGTGATAAAGCCGAATGGC-AATGTGAGAATGTGTATGACAT-GATATGTGATAAG
*
49019752 GCCGAATGGCTA
128 GCCGAATGGCCA
49019764 ATG
1 ATG
49019767 CGAAACGTGT
Statistics
Matches: 249, Mismatches: 28, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
137 4 0.02
138 2 0.01
139 6 0.02
140 148 0.59
141 87 0.35
142 2 0.01
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.26
Consensus pattern (139 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGTGATAAAGCCGAATGGCAATGTGAGAATGTGTATGACATGATATGTGATAAGGCC
GAATGGCCA
Found at i:49019750 original size:46 final size:46
Alignment explanation
Indices: 49019694--49019873 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
49019684 GGAAGTGTAT
* *
49019694 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
49019740 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
49019786 ATATGAGGTAAAGCCGAATGGCTAAT--G-TACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
49019829 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
49019874 TGTATATATA
Statistics
Matches: 123, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
43 39 0.32
44 1 0.01
45 1 0.01
46 82 0.67
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:49019842 original size:89 final size:91
Alignment explanation
Indices: 49019694--49019873 Score: 256
Period size: 89 Copynumber: 2.0 Consensus size: 91
49019684 GGAAGTGTAT
* * *
49019694 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGCCGAAT
1 ATATGAGGTAAAGCCGAATGGCTAAT-CGAAACGTGTATGAGATGGATATGAGGTAAAGCCAAAT
*
49019759 GGCTAATGCGAAACGTGTATGAGATGG
65 GGCTAATGCGAAACATGTATGAGATGG
* *
49019786 ATATGAGGTAAAGCCGAATGGCTAAT-G-TACGTGTATGAGATGGATATGTGGTAAAGCCAAATG
1 ATATGAGGTAAAGCCGAATGGCTAATCGAAACGTGTATGAGATGGATATGAGGTAAAGCCAAATG
* * *
49019849 GCTAATGTGAGATATGTATGAGATG
66 GCTAATGCGAAACATGTATGAGATG
49019874 TGTATATATA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 53 0.67
90 1 0.01
92 25 0.32
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.26
Consensus pattern (91 bp):
ATATGAGGTAAAGCCGAATGGCTAATCGAAACGTGTATGAGATGGATATGAGGTAAAGCCAAATG
GCTAATGCGAAACATGTATGAGATGG
Found at i:49025632 original size:11 final size:11
Alignment explanation
Indices: 49025615--49025645 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49025605 AGGCAAGTAA
49025615 ATTAATTAAAT
1 ATTAATTAAAT
*
49025626 TTTAATTAAAT
1 ATTAATTAAAT
49025637 ATTAATTAA
1 ATTAATTAA
49025646 TTAAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTAATTAAAT
Found at i:49031073 original size:21 final size:20
Alignment explanation
Indices: 49031032--49031076 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
49031022 ACAGTACGTA
*
49031032 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAAAATTT
*
49031052 TTCATCAAAA-TTTAAAACTT
1 TTCAT-AAAATTTTAAAATTT
49031072 TTCAT
1 TTCAT
49031077 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTAAAATTT
Found at i:49034479 original size:41 final size:41
Alignment explanation
Indices: 49034421--49034502 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
49034411 AACCTAATTT
* *
49034421 GGAAAATAATTCTCTTATTCTAATAAACTATTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
*
49034462 GGAAAATAATTCCCTTATTCTAATCAACTACTAAAAGATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
49034503 AATAAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
Found at i:49034563 original size:19 final size:19
Alignment explanation
Indices: 49034539--49034578 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
49034529 TAATTTATTC
*
49034539 TAAGATTTATCTACCTAAA
1 TAAGATATATCTACCTAAA
*
49034558 TAAGATATATCTACTTAAA
1 TAAGATATATCTACCTAAA
49034577 TA
1 TA
49034579 GCTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (19 bp):
TAAGATATATCTACCTAAA
Found at i:49035258 original size:2 final size:2
Alignment explanation
Indices: 49035251--49035281 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49035241 TTTTTCAGAT
49035251 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49035282 TGTTCTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49039233 original size:15 final size:15
Alignment explanation
Indices: 49039221--49039264 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
49039211 ATAAATTATT
49039221 ATAATTAAAATTAAA
1 ATAATTAAAATTAAA
*
49039236 ATAATTATAATTTAAA
1 ATAATTA-AAATTAAA
49039252 A-AATTGAAAATTA
1 ATAATT-AAAATTA
49039265 TTTGAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
ATAATTAAAATTAAA
Found at i:49046555 original size:22 final size:21
Alignment explanation
Indices: 49046508--49046565 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
49046498 ATAAAGCAAC
* *
49046508 TAAAACAAAATTAAAAAGAAAGA
1 TAAAA-AAAA-TAAAAAAAAAAA
49046531 TAAAAAAAATAAAACAAAAAAA
1 TAAAAAAAATAAAA-AAAAAAA
* *
49046553 TAATAATAATAAA
1 TAAAAAAAATAAA
49046566 CTCAATGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 5 0.17
22 20 0.67
23 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (21 bp):
TAAAAAAAATAAAAAAAAAAA
Found at i:49046700 original size:5 final size:5
Alignment explanation
Indices: 49046692--49046751 Score: 72
Period size: 5 Copynumber: 12.0 Consensus size: 5
49046682 AAAAAGTTAG
49046692 TAAAA TAAAA -AATAA TAAATA TAAAA -AATAA T-AAA TAAAA TAAAA
1 TAAAA TAAAA TAA-AA TAAA-A TAAAA TAA-AA TAAAA TAAAA TAAAA
49046737 TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA
49046752 ATAGGGTGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
4 7 0.14
5 35 0.71
6 7 0.14
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:49046754 original size:16 final size:15
Alignment explanation
Indices: 49046672--49046754 Score: 78
Period size: 16 Copynumber: 5.3 Consensus size: 15
49046662 TAAGAATAAT
49046672 AAATAAAATAAAAAA
1 AAATAAAATAAAAAA
* *
49046687 GTTAGTAAAATAAAAAA
1 --AAATAAAATAAAAAA
*
49046704 TAATAAATATAAAAAA
1 AAATAAA-ATAAAAAA
* *
49046720 TAAT-AAATAAAATA
1 AAATAAAATAAAAAA
49046734 AAATAAAATAAAATAA
1 AAATAAAATAAAA-AA
49046750 AAATA
1 AAATA
49046755 GGGTGATTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
14 10 0.18
15 16 0.28
16 18 0.32
17 13 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATAAAATAAAAAA
Found at i:49047093 original size:33 final size:33
Alignment explanation
Indices: 49047051--49047123 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
49047041 TCTCTCACGC
*
49047051 CCATGTGAGATCCCACACGCCCGTGTGGCCAGG
1 CCATGTGAGATCCCACACACCCGTGTGGCCAGG
*
49047084 CCATGTGAGATCCCACACACCCGTGTGGCTAGG
1 CCATGTGAGATCCCACACACCCGTGTGGCCAGG
*
49047117 CCGTGTG
1 CCATGTG
49047124 GGTCACACGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.18, C:0.34, G:0.30, T:0.18
Consensus pattern (33 bp):
CCATGTGAGATCCCACACACCCGTGTGGCCAGG
Done.