Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 162 of 221
Found at i:48663762 original size:8 final size:8
Alignment explanation
Indices: 48663749--48663785 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
48663739 TAAAAGGAAT
48663749 AGAATAAA
1 AGAATAAA
48663757 AGAATAAA
1 AGAATAAA
*
48663765 AGAAACAAA
1 AG-AATAAA
48663774 AGAATAAA
1 AGAATAAA
48663782 AGAA
1 AGAA
48663786 ACAGAGACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.08
Consensus pattern (8 bp):
AGAATAAA
Found at i:48663776 original size:17 final size:17
Alignment explanation
Indices: 48663754--48663788 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48663744 GGAATAGAAT
48663754 AAAAGAATAAAAGAAAC
1 AAAAGAATAAAAGAAAC
48663771 AAAAGAATAAAAGAAAC
1 AAAAGAATAAAAGAAAC
48663788 A
1 A
48663789 GAGACCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAGAATAAAAGAAAC
Found at i:48666400 original size:31 final size:31
Alignment explanation
Indices: 48666314--48666400 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
48666304 GAGGTAAGTT
*
48666314 TGTTAGGATAGTAAACACAAAACAGACAATC
1 TGTTAGGATAGTAAACACAAAATAGACAATC
*
48666345 CGTTAGGATAGTAAACACAAAATAGACAATC
1 TGTTAGGATAGTAAACACAAAATAGACAATC
* * *
48666376 TGTTAGGACAATAAACACAGAATAG
1 TGTTAGGATAGTAAACACAAAATAG
48666401 TCAGTTCATC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
TGTTAGGATAGTAAACACAAAATAGACAATC
Found at i:48668382 original size:15 final size:15
Alignment explanation
Indices: 48668358--48668402 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
48668348 AAATTGAATG
* *
48668358 GTCCCGTCCCGTCCA
1 GTCCCATCCCATCCA
48668373 GTCCCATCCCATCCCA
1 GTCCCATCCCAT-CCA
48668389 -TCCCATCCCATCCA
1 GTCCCATCCCATCCA
48668403 TAAACAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.16, C:0.56, G:0.09, T:0.20
Consensus pattern (15 bp):
GTCCCATCCCATCCA
Found at i:48668398 original size:5 final size:5
Alignment explanation
Indices: 48668374--48668401 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48668364 TCCCGTCCAG
48668374 TCCCA TCCCA TCCCA TCCCA TCCCA TCC
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCC
48668402 ATAAACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.61, G:0.00, T:0.21
Consensus pattern (5 bp):
TCCCA
Found at i:48687941 original size:98 final size:98
Alignment explanation
Indices: 48687767--48687963 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
48687757 GTACAATAAA
*
48687767 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
48687832 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
* *
48687865 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCTCACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
48687930 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
48687963 A
1 A
48687964 TTATTTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:48688651 original size:23 final size:24
Alignment explanation
Indices: 48688623--48688675 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
48688613 ATATACATAT
*
48688623 AAATAT-GAAAATATTCTTTAAAA
1 AAATATAGAAAATATTCGTTAAAA
48688646 AAATATAGGAAAATATTCGTTAAAA
1 AAATATA-GAAAATATTCGTTAAAA
48688671 AAATA
1 AAATA
48688676 CATGTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.22
25 21 0.78
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (24 bp):
AAATATAGAAAATATTCGTTAAAA
Found at i:48688756 original size:2 final size:2
Alignment explanation
Indices: 48688749--48688792 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
48688739 TTAATTTAAA
* * *
48688749 AT AT AT AT AT AT AT AT GT AT AT AT AC AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48688791 AT
1 AT
48688793 GAGAAAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:48689473 original size:19 final size:19
Alignment explanation
Indices: 48689449--48689561 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
48689439 AATCATATAT
48689449 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
48689468 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
48689487 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
48689506 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
48689527 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
48689546 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48689562 CTCAAAAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:48689536 original size:40 final size:40
Alignment explanation
Indices: 48689449--48689560 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
48689439 AATCATATAT
*
48689449 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
48689487 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
48689527 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
48689561 CCTCAAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:48690141 original size:15 final size:15
Alignment explanation
Indices: 48690121--48690160 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
48690111 AAAAACTAAT
48690121 GAAAATTGAAGCAAA
1 GAAAATTGAAGCAAA
* *
48690136 GAAAATGGATGCAAA
1 GAAAATTGAAGCAAA
*
48690151 GAAATTTGAA
1 GAAAATTGAA
48690161 TAAGAAGAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.17
Consensus pattern (15 bp):
GAAAATTGAAGCAAA
Found at i:48703127 original size:21 final size:20
Alignment explanation
Indices: 48703082--48703152 Score: 101
Period size: 19 Copynumber: 3.6 Consensus size: 20
48703072 ATCTTCAAGG
*
48703082 ATATCCAATCTTAGATATG-
1 ATATGCAATCTTAGATATGA
48703101 ATATGCAATCTTAGATATGA
1 ATATGCAATCTTAGATATGA
*
48703121 TATATGCAATCTTGGATAT-A
1 -ATATGCAATCTTAGATATGA
48703141 ATATGCAATCTT
1 ATATGCAATCTT
48703153 GAAAGATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 30 0.62
20 1 0.02
21 17 0.35
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
ATATGCAATCTTAGATATGA
Found at i:48710223 original size:15 final size:15
Alignment explanation
Indices: 48710205--48710233 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48710195 AGGATAGTGC
48710205 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
48710220 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
48710234 AACTCTTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:48712016 original size:88 final size:88
Alignment explanation
Indices: 48711826--48712499 Score: 834
Period size: 88 Copynumber: 7.7 Consensus size: 88
48711816 GTTTGCAGCA
* * * * * * *
48711826 GAGCATGTTGAAAATAACATATTTTGCCTTCCTGTA-CTGACGGTGAAGCAGATCGAAGATA-TA
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATC-GACAGTGAAGCAGATCGAAGATACCA
*
48711889 GCCTTGCCTCCCTAGATTGTAGTG
65 GCCTTGCCTCCCTAGGTTGTAGTG
* * * * *
48711913 GAGTAAGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
* *
48711978 CCCTGCCTCCCTAGGTTGTAGTT
66 CCTTGCCTCCCTAGGTTGTAGTG
*
48712001 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
48712066 CCTTGCCTTCCT-GAGTTGTAGTG
66 CCTTGCCTCCCTAG-GTTGTAGTG
* * * *
48712089 GAGCAGGTTGAAAATAGTAGATCTTGCATTCCTGTATCAACAGTGAAGCAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
48712154 CCTTGCCTCCCTAGGTTGTAGTG
66 CCTTGCCTCCCTAGGTTGTAGTG
* * * * ** * *
48712177 GAGCAGGTTAAAGATAGTAGATCTTGCATTCTTACATCGACAGCGAAACAGATCGAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
*
48712242 CCTTGCCTCCCTGGGTTGTAGTG
66 CCTTGCCTCCCTAGGTTGTAGTG
* *
48712265 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
* *
48712330 CCTTGCCTCCCTGGGTCGTAGTG
66 CCTTGCCTCCCTAGGTTGTAGTG
* * * *
48712353 GAGTAGGTTGAAGATAGCAGATCTTGCCTTACTGTATCGACAATGAAGCAGATCAAAGATACCAG
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
* *
48712418 CCTTGCCTCCCTGGGTTGTCGTG
66 CCTTGCCTCCCTAGGTTGTAGTG
* * * * * * * * * * * *
48712441 AAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGAT
1 GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGAT
48712500 GGCAGATCTT
Statistics
Matches: 516, Mismatches: 67, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
87 66 0.13
88 449 0.87
89 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (88 bp):
GAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAG
CCTTGCCTCCCTAGGTTGTAGTG
Found at i:48712505 original size:44 final size:44
Alignment explanation
Indices: 48712437--48712736 Score: 352
Period size: 44 Copynumber: 6.8 Consensus size: 44
48712427 CCTGGGTTGT
*
48712437 CGTGAAGTAGATCGAAA-AAAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATC-AAAGATAGCAGATCTTGTCTTCATGTATTGG
*
48712481 CGTGAAGTAGATCAAAGATGGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * *** *
48712525 TGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
48712569 TGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
1 -CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
48712614 CGTGAAGTAGATCAAATAT-GATAGATATTGTTTTTATGTATTGG
1 CGTGAAGTAGATCAAAGATAG-CAGATCTTGTCTTCATGTATTGG
* *
48712658 CGTGAAGTAGATCAAAGATAGCAAATCTTGTTTTCATGTATTGG
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
48712702 CGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTC
1 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
48712737 CCATAGTGGT
Statistics
Matches: 214, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.02
44 174 0.81
45 36 0.17
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (44 bp):
CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:48712601 original size:133 final size:133
Alignment explanation
Indices: 48712440--48712688 Score: 374
Period size: 133 Copynumber: 1.9 Consensus size: 133
48712430 GGGTTGTCGT
* * *
48712440 GAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATGGCAG
1 GAAGTAGATCGAAAAAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATCAAAGATGACAG
* * * *
48712505 ATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACTGGT
66 ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
48712570 GGC
131 GGC
* *
48712573 GAAGTAGATC-AAAGAAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATCAAATATGATA
1 GAAGTAGATCGAAA-AAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATCAAAGATGACA
* * *
48712637 GATATTGTTTTTATGTATTGGCGTGAAGTAGATCAAAGATAGCAAATCTTGT
65 GATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGT
48712689 TTTCATGTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
132 3 0.03
133 100 0.97
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (133 bp):
GAAGTAGATCGAAAAAAGCAGATCTTGTCTCCATATATTGGCGTGAAGTAGATCAAAGATGACAG
ATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCCCATACTGGT
GGC
Found at i:48712661 original size:177 final size:177
Alignment explanation
Indices: 48712437--48712767 Score: 511
Period size: 177 Copynumber: 1.9 Consensus size: 177
48712427 CCTGGGTTGT
* *
48712437 CGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATGG
1 CGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
* *
48712502 CAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
66 CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
*
48712567 GGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
131 GGTGGCAAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
* * * * *
48712614 CGTGAAGTAGATC-AAATATGATAGATATTGTTTTTATGTATTGGCGTGAAGTAGATCAAAGATA
1 CGTGAAGTAGATCGAAAAAAG-CAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
* * * *
48712678 GCAAATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTCCCATAG
65 GCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATAC
*
48712743 TGGTGGCAAAGTAGATCGAAGAAAG
130 TGGTGGCAAAGTAGATCAAAGAAAG
48712768 TAGGTATTGG
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 5 0.04
177 133 0.96
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (177 bp):
CGTGAAGTAGATCGAAAAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
CAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCATACT
GGTGGCAAAGTAGATCAAAGAAAGCAGATCTTGTCTCCATATATTGG
Found at i:48712759 original size:133 final size:134
Alignment explanation
Indices: 48712435--48712743 Score: 367
Period size: 133 Copynumber: 2.3 Consensus size: 134
48712425 TCCCTGGGTT
*
48712435 GTCGTGAAGTAGATCGAAAAAAGCAGATCTTGTCTT-CAT-GTATTGGCGTGAAGTAGATCAAAG
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCATAGTATTGGCG-GAAGTAGATCAAAG
* * * * * *
48712498 ATGGCAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCCA
65 ATGACAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCACA
48712563 TACTG
130 TACTG
* * * *
48712568 GTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTC-TCCATA-TATTGGCGTGAAGTAGATCAAAT
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCATAGTATTGGCG-GAAGTAGATCAAAG
* * * * * **
48712631 ATGATAGATATTGTTTTTATGTATTGGCGTGAAGTAGATCAAAGATAGCAAATCTTGTTTTCATG
65 ATGACAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCACA
*
48712696 TATTG
130 TACTG
* *
48712701 G-CGTGAAGTAGATCGAAGATAGCAGATTTTGTCTTCCCATAGT
1 GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT-CCATAGT
48712744 GGTGGCAAAG
Statistics
Matches: 147, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
132 28 0.19
133 113 0.77
134 5 0.03
135 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (134 bp):
GTCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCATAGTATTGGCGGAAGTAGATCAAAGA
TGACAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAAATCTTGTCTTCACAT
ACTG
Found at i:48712815 original size:118 final size:119
Alignment explanation
Indices: 48712651--48712880 Score: 329
Period size: 118 Copynumber: 1.9 Consensus size: 119
48712641 TTGTTTTTAT
** * * * *
48712651 GTATTGGCGTGAAGTAGATCAAAGATAGCAAATCTTGTTTTCATGTATTGGCGTGAAGTAGATCG
1 GTATTGGCG-GAAGTAGATCAAAGATAGCAAATCTTGTCCTCATGTATCGGCATGAAATAGATCA
* * *
48712716 AAGATAGCAGATTTTGTCTTCCCATAGTGGTGGCAAAGTAGATCGAAGAAAGTAG
65 AAGATAGCAGATCTTGTCTTCCCACACTGGTGGCAAAGTAGATCGAAGAAAGTAG
*
48712771 GTATTGGC-GAAGTAGATCGAAAGA-AGCAGATCTTGTCCTCATGTATCGGCATGAAATAGATCA
1 GTATTGGCGGAAGTAGATC-AAAGATAGCAAATCTTGTCCTCATGTATCGGCATGAAATAGATCA
*
48712834 AAGGTAGCAGATCTTGTCTTCCCACACTGGTGGCAAAGTAGATCGAA
65 AAGATAGCAGATCTTGTCTTCCCACACTGGTGGCAAAGTAGATCGAA
48712881 AATACAATTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
118 85 0.87
119 5 0.05
120 8 0.08
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (119 bp):
GTATTGGCGGAAGTAGATCAAAGATAGCAAATCTTGTCCTCATGTATCGGCATGAAATAGATCAA
AGATAGCAGATCTTGTCTTCCCACACTGGTGGCAAAGTAGATCGAAGAAAGTAG
Found at i:48713253 original size:21 final size:21
Alignment explanation
Indices: 48713228--48713305 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
48713218 ATCTTCAAGG
48713228 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
48713249 ATATGCAATTTTGGATATG--
1 ATATGCAATCTTAGATATGAT
48713268 ATATGCAATCTTGAAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
48713292 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
48713306 GATTTAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
19 11 0.24
20 3 0.07
21 17 0.37
22 6 0.13
23 9 0.20
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:48716553 original size:15 final size:15
Alignment explanation
Indices: 48716535--48716564 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48716525 CTAAATGAAC
*
48716535 AAATAAAAAATAACT
1 AAATAAAAAAAAACT
48716550 AAATAAAAAAAAACT
1 AAATAAAAAAAAACT
48716565 TGATACTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAAAAAACT
Found at i:48717091 original size:55 final size:55
Alignment explanation
Indices: 48717030--48717137 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
48717020 TCCTAAAATT
* *
48717030 CAATTTAGATTCTAATATAAAATCCTAAATTCTAAAATATAATCTTTTTTAAAGA
1 CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATATAATCTTTTTTAAAGA
* *
48717085 CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATCTATTCTTTTTTAAA
1 CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATATAATCTTTTTTAAA
48717138 AGAAAAGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (55 bp):
CAATTTAGATTCTAATAAAAAATCCTAAAGTCTAAAATATAATCTTTTTTAAAGA
Found at i:48722930 original size:13 final size:13
Alignment explanation
Indices: 48722914--48722938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48722904 AAGCTACTAT
48722914 AAAATCTTAAATA
1 AAAATCTTAAATA
48722927 AAAATCTTAAAT
1 AAAATCTTAAAT
48722939 TCTAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATCTTAAATA
Found at i:48723097 original size:41 final size:41
Alignment explanation
Indices: 48722993--48723145 Score: 98
Period size: 41 Copynumber: 4.0 Consensus size: 41
48722983 TTTATATTCT
* **
48722993 AATATAAAATCCTAAAGTATAA--AATCTATTCTAATATAAA
1 AATATAAAATCCTAAAATATAATTAA-AAATTCTAATATAAA
** * *
48723033 AATATAAAATCCTAGCATCTAATTAAAAATTCTACTATAAA
1 AATATAAAATCCTAAAATATAATTAAAAATTCTAATATAAA
* * *
48723074 AATCTTAAATTCT-AAA-AT-A-T---AATTCTAATAT--A
1 AATATAAAATCCTAAAATATAATTAAAAATTCTAATATAAA
*
48723106 AATATAAAATCCTAAAATCTAACTT--AAATTCTAATATAAA
1 AATATAAAATCCTAAAATATAA-TTAAAAATTCTAATATAAA
48723146 TGTCCTAAAG
Statistics
Matches: 85, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
32 11 0.13
33 3 0.04
34 11 0.13
35 1 0.01
37 2 0.02
38 12 0.14
39 1 0.01
40 20 0.24
41 22 0.26
42 2 0.02
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (41 bp):
AATATAAAATCCTAAAATATAATTAAAAATTCTAATATAAA
Found at i:48723221 original size:145 final size:143
Alignment explanation
Indices: 48722927--48723533 Score: 676
Period size: 145 Copynumber: 4.3 Consensus size: 143
48722917 ATCTTAAATA
* * *
48722927 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAATTCCTAAAAGTC-AATTTATATT
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAA-TCTAACTTAAATT
* * *
48722991 CTAATATAAAATCCTAAAGTATAAAATCTATTCTAATATAAAAATATAAAATCCTAGCATCTAAT
65 CTAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAAT
48723056 TAAAAATTCTACTAT
130 TAAAAA-TCTACTAT
*
48723071 AAAAATCTTAAATTCTAAAATATAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATT
1 -AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATT
* * * *
48723136 CTAATATAAATGTCCTAAAGTCTAGAATATATTCTAATATAAAAAAAATGAAACCCTAGCATCTA
65 CTAATATAAA-ATCCTAAAGTCTAGAATCTATTCTAATAT-AAAAATATGAAATCCTAGCATCTA
*
48723201 ATTTAAAATCTACTAT
128 ATTAAAAATCTACTAT
* * *
48723217 AAAATCTTAAATTCTAAAATTTAATT-TAATATAAATAAAAAATTCTAAAATCTAGCTTAAATTC
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATTC
* * * **
48723281 TAATATAAAAATCCTAAGGTCTAGATTCTATTCTAATATACAAATATGAAATCCTATAATCTAAT
66 TAATAT-AAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAAT
48723346 TAAAAAATCTACTAT
130 T-AAAAATCTACTAT
* * *
48723361 AAACTCTTAAATTC--CAA---AA-TCT-A-AT---TCT--AA---TAAAATCTAACTTAAATT-
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATTC
* * * * * * *
48723409 TCAATATAAAACTCCGAAAATCTACAATCTATTCTTATATAAAAATATGAAATCCTAGAATCCAT
66 T-AATATAAAA-TCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAA
* *
48723474 TTAAAAGAAACTACTAC
129 TT-AAA-AATCTACTAT
*
48723491 AAAATCTTAAATTCTAAAAATCTAATTCTAATATAAATATAAA
1 AAAATCTTAAATTCT-AAAATTTAATTCTAATATAAATATAAA
48723534 TATAAAATCC
Statistics
Matches: 393, Mismatches: 46, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
128 5 0.01
129 71 0.18
130 21 0.05
132 2 0.01
133 2 0.01
134 1 0.00
136 2 0.01
137 5 0.01
138 3 0.01
139 5 0.01
142 4 0.01
143 22 0.06
144 94 0.24
145 95 0.24
146 33 0.08
147 28 0.07
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (143 bp):
AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATTC
TAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAATT
AAAAATCTACTAT
Found at i:48723283 original size:144 final size:143
Alignment explanation
Indices: 48722927--48723529 Score: 652
Period size: 144 Copynumber: 4.3 Consensus size: 143
48722917 ATCTTAAATA
* * *
48722927 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAAT-ATAAATTCCTAAAAGTC-AATTTATAT
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATT-CTAAAA-TCTAACTTAAAT
* * *
48722990 TCTAATATAAAATCCTAAAGTATAAAATCTATTCTAATATAAAAATATAAAATCCTAGCATCTAA
64 TCTAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAA
48723055 TTAAAAATTCTACTAT
129 TTAAAAA-TCTACTAT
* * *
48723071 AAAAATCTTAAATTCTAAAATATAATTCTAATATAAATATAAAATCCTAAAATCTAACTTAAATT
1 -AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATT
* * * *
48723136 CTAATATAAATGTCCTAAAGTCTAGAATATATTCTAATATAAAAAAAATGAAACCCTAGCATCTA
65 CTAATATAAA-ATCCTAAAGTCTAGAATCTATTCTAATAT-AAAAATATGAAATCCTAGCATCTA
*
48723201 ATTTAAAATCTACTAT
128 ATTAAAAATCTACTAT
*
48723217 AAAATCTTAAATTCTAAAATTTAATT-TAATATAAATAAAAAATTCTAAAATCTAGCTTAAATTC
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATTC
* * * **
48723281 TAATATAAAAATCCTAAGGTCTAGATTCTATTCTAATATACAAATATGAAATCCTATAATCTAAT
66 TAATAT-AAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAAT
48723346 TAAAAAATCTACTAT
130 T-AAAAATCTACTAT
* * *
48723361 AAACTCTTAAATTC--CAA---AA-TCTAAT-T--CT----AA---TAAAATCTAACTTAAATT-
1 AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATTC
* * * * * * *
48723409 TCAATATAAAACTCCGAAAATCTACAATCTATTCTTATATAAAAATATGAAATCCTAGAATCCAT
66 T-AATATAAAA-TCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAA
* *
48723474 TTAAAAGAAACTACTAC
129 TT-AAA-AATCTACTAT
*
48723491 AAAATCTTAAATTCTAAAAATCTAATTCTAATATAAATA
1 AAAATCTTAAATTCT-AAAATTTAATTCTAATATAAATA
48723530 TAAATATAAA
Statistics
Matches: 390, Mismatches: 47, Indels: 46
0.81 0.10 0.10
Matches are distributed among these distances:
128 5 0.01
129 71 0.18
130 21 0.05
132 2 0.01
133 2 0.01
136 3 0.01
137 6 0.02
138 3 0.01
139 6 0.02
140 1 0.00
142 2 0.01
143 22 0.06
144 93 0.24
145 88 0.23
146 37 0.09
147 28 0.07
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (143 bp):
AAAATCTTAAATTCTAAAATTTAATTCTAATATAAATAAAAAATTCTAAAATCTAACTTAAATTC
TAATATAAAATCCTAAAGTCTAGAATCTATTCTAATATAAAAATATGAAATCCTAGCATCTAATT
AAAAATCTACTAT
Found at i:48723304 original size:33 final size:33
Alignment explanation
Indices: 48723250--48723325 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
48723240 ATTTAATATA
* *
48723250 AATA-AAAAATTCTAAAATCTAGCTTAAATTCT
1 AATATAAAAATCCTAAAATCTAGATTAAATTCT
** **
48723282 AATATAAAAATCCTAAGGTCTAGATTCTATTCT
1 AATATAAAAATCCTAAAATCTAGATTAAATTCT
*
48723315 AATATACAAAT
1 AATATAAAAAT
48723326 ATGAAATCCT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (33 bp):
AATATAAAAATCCTAAAATCTAGATTAAATTCT
Found at i:48723408 original size:129 final size:131
Alignment explanation
Indices: 48723262--48723528 Score: 351
Period size: 129 Copynumber: 2.0 Consensus size: 131
48723252 TAAAAAATTC
* * ** * * *
48723262 TAAAATCTAGCTTAAA-TTCTAATATAAAAATCCTAAGGTCTAGATTCTATTCTAATATACAAAT
1 TAAAATCTAACTTAAATTTC-AATATAAAAATCCGAAAATCTACAATCTATTCTAATATAAAAAT
* * * * * *
48723326 ATGAAATCCTATAATCTAATTAAAA-AATCTACTATAAACTCTTAAATTC-CAAAATCTAATTCT
65 ATGAAATCCTAGAATCCAATTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCT
48723389 AA
130 AA
* *
48723391 TAAAATCTAACTTAAATTTCAATATAAAACTCCGAAAATCTACAATCTATTCTTATATAAAAATA
1 TAAAATCTAACTTAAATTTCAATATAAAAATCCGAAAATCTACAATCTATTCTAATATAAAAATA
*
48723456 TGAAATCCTAGAATCCATTTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCTA
66 TGAAATCCTAGAATCCAATTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCTA
48723521 A
131 A
48723522 TATAAAT
1 TA-AAAT
48723529 ATAAATATAA
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
129 73 0.62
130 24 0.20
131 17 0.14
132 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (131 bp):
TAAAATCTAACTTAAATTTCAATATAAAAATCCGAAAATCTACAATCTATTCTAATATAAAAATA
TGAAATCCTAGAATCCAATTAAAAGAAACTACTACAAAATCTTAAATTCTAAAAATCTAATTCTA
A
Found at i:48726440 original size:26 final size:26
Alignment explanation
Indices: 48726402--48726453 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
48726392 AACATGGGAC
* *
48726402 ATAAGAAATTAACATTGGAATATAAA
1 ATAAGAAACTAACATTAGAATATAAA
48726428 ATAAGAAACTAACATTAGAATATAAA
1 ATAAGAAACTAACATTAGAATATAAA
48726454 CCAAATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.25
Consensus pattern (26 bp):
ATAAGAAACTAACATTAGAATATAAA
Found at i:48727466 original size:15 final size:15
Alignment explanation
Indices: 48727446--48727478 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
48727436 TGTAACATTT
48727446 ATTAAAAA-AAATATA
1 ATTAAAAATAAATA-A
48727461 ATTAAAAATAAATAA
1 ATTAAAAATAAATAA
48727476 ATT
1 ATT
48727479 TACAACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAATAAATAA
Found at i:48742274 original size:14 final size:15
Alignment explanation
Indices: 48742255--48742284 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48742245 AAGATTAGTT
48742255 TGTAATTAT-TTTTA
1 TGTAATTATATTTTA
48742269 TGTAATTATATTTTA
1 TGTAATTATATTTTA
48742284 T
1 T
48742285 TTTACATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TGTAATTATATTTTA
Found at i:48747330 original size:16 final size:17
Alignment explanation
Indices: 48747311--48747345 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48747301 TGCAAGAATA
*
48747311 ACTTAGTCATG-ATTTT
1 ACTTAGTCAAGCATTTT
48747327 ACTTAGTCAAGCATTTT
1 ACTTAGTCAAGCATTTT
48747344 AC
1 AC
48747346 CGAGGCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (17 bp):
ACTTAGTCAAGCATTTT
Found at i:48761728 original size:39 final size:39
Alignment explanation
Indices: 48761664--48761801 Score: 136
Period size: 39 Copynumber: 3.5 Consensus size: 39
48761654 ATTCAATTTT
* * *
48761664 AAGCATATATC-CTATTACACATATAATCACCTAACACTC
1 AAGCATATATCAC-AATACTCATATAATCACATAACACTC
* * * *
48761703 AAGCATATATCACAATACTCGTATAATAACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACACTC
* * *
48761742 AAGCATATATCACAGTACTCATATAATCATATAACA-TAT
1 AAGCATATATCACAATACTCATATAATCACATAACACT-C
* *
48761781 AAGCATAAATCAGAATACTCA
1 AAGCATATATCACAATACTCA
48761802 AAAACATGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 81 0.98
40 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACACTC
Found at i:48764861 original size:28 final size:28
Alignment explanation
Indices: 48764818--48764872 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
48764808 GGGCATGTCA
*
48764818 AGTACTTTTTAACGGTGTTACAGTATCT
1 AGTACTTTGTAACGGTGTTACAGTATCT
* *
48764846 AGTACTTTGTATCGGTGTTATAGTATC
1 AGTACTTTGTAACGGTGTTACAGTATC
48764873 AGGAACTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.44
Consensus pattern (28 bp):
AGTACTTTGTAACGGTGTTACAGTATCT
Found at i:48774592 original size:18 final size:17
Alignment explanation
Indices: 48774548--48774592 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
48774538 GTCTCAGATC
*
48774548 AAAAAATAATTAAAATT
1 AAAAAATATTTAAAATT
48774565 ATAAAAATATTTCAAAATT
1 A-AAAAATATTT-AAAATT
48774584 AAAAAATAT
1 AAAAAATAT
48774593 ATAAGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 17 0.68
19 7 0.28
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAAATATTTAAAATT
Found at i:48774601 original size:18 final size:17
Alignment explanation
Indices: 48774548--48774601 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 17
48774538 GTCTCAGATC
48774548 AAAAAATA-ATTAAAATT
1 AAAAAATATA-TAAAATT
*
48774565 ATAAAAATATTTCAAAATT
1 A-AAAAATATAT-AAAATT
48774584 AAAAAATATATAAGAATT
1 AAAAAATATATAA-AATT
48774602 TCATAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 3 0.10
18 21 0.68
19 7 0.23
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAAATATATAAAATT
Found at i:48777254 original size:24 final size:24
Alignment explanation
Indices: 48777225--48777294 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
48777215 TATATGAATA
48777225 ATAGCAGTTCGCATATATATATAT
1 ATAGCAGTTCGCATATATATATAT
*
48777249 ATAGCAGTTCGCATATGTATATTTAT
1 ATAGCAGTTCGCATA--TATATATAT
* * *
48777275 ACATCAGTTCGCATTTATAT
1 ATAGCAGTTCGCATATATAT
48777295 GGTTAACAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 20 0.50
26 20 0.50
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (24 bp):
ATAGCAGTTCGCATATATATATAT
Found at i:48777282 original size:26 final size:24
Alignment explanation
Indices: 48777227--48777294 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 24
48777217 TATGAATAAT
*
48777227 AGCAGTTCGCATATATATATATAT
1 AGCAGTTCGCATATATATATATAC
*
48777251 AGCAGTTCGCATATGTATATTTATAC
1 AGCAGTTCGCATA--TATATATATAC
* *
48777277 ATCAGTTCGCATTTATAT
1 AGCAGTTCGCATATATAT
48777295 GGTTAACAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.47
26 20 0.53
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (24 bp):
AGCAGTTCGCATATATATATATAC
Found at i:48777314 original size:24 final size:24
Alignment explanation
Indices: 48777229--48777314 Score: 79
Period size: 24 Copynumber: 3.6 Consensus size: 24
48777219 TGAATAATAG
* *
48777229 CAGTTCGCATATATATATATATAG
1 CAGTTCGCATATTTATATATATAA
* *
48777253 CAGTTCGCATATGTATATTTATACA
1 CAGTTCGCATATTTATATATATA-A
*
48777278 TCAGTTCGC--ATTTATATGGT-TAA
1 -CAGTTCGCATATTTATAT-ATATAA
48777301 CAGTTCGCATATTT
1 CAGTTCGCATATTT
48777315 GTACTTTATC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 8 0.15
23 1 0.02
24 34 0.65
25 1 0.02
26 8 0.15
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (24 bp):
CAGTTCGCATATTTATATATATAA
Found at i:48779338 original size:17 final size:16
Alignment explanation
Indices: 48779318--48779351 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48779308 GACTTTTATT
48779318 ATCAAGTATATATAGAA
1 ATCAAGTA-ATATAGAA
*
48779335 ATCATGTAATATAGAA
1 ATCAAGTAATATAGAA
48779351 A
1 A
48779352 GTATGGTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (16 bp):
ATCAAGTAATATAGAA
Found at i:48784473 original size:23 final size:22
Alignment explanation
Indices: 48784443--48784515 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 22
48784433 GTGTAACACC
*
48784443 CTAACCCGTATCCGATGCTGGAA
1 CTAACCCGTATCTGATG-TGGAA
48784466 CTAACCCGTATCTGATGTCGGAA
1 CTAACCCGTATCTGATGT-GGAA
48784489 CTAACCCGTATCTGATGTTGGAA
1 CTAACCCGTATCTGATG-TGGAA
48784512 CTAA
1 CTAA
48784516 TAATGTCAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (22 bp):
CTAACCCGTATCTGATGTGGAA
Found at i:48790092 original size:51 final size:52
Alignment explanation
Indices: 48790023--48790249 Score: 173
Period size: 51 Copynumber: 4.5 Consensus size: 52
48790013 TGTGGCATGG
* * *
48790023 ACTATGTGTAGGCCACTATGTGAAAGTGAAAGTGAT-GGTCACGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGTGAAAGTGATAGGTCACATGTGTAGT
* ***
48790074 ACTATGTGCAGGCTACTATGTGTACCAG-AA-TGATAGGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGTGAAAGTGATAGGTCACATGTGTAGT
* ** * * * * *
48790124 ACTATGTGCAGGCTACTATGCGTACCG-GATAGCT--TCGATCTCGTGTGTAGT
1 ACTATGTGCAGGCTACTATGTG-AAAGTGAAAG-TGATAGGTCACATGTGTAGT
* * * * * *
48790175 ACTATGTGAAAGCTACTACGTG-TATTGGATAGTGAT-GGTCACATGTGTAGT
1 ACTATGTGCAGGCTACTATGTGAAAGT-GAAAGTGATAGGTCACATGTGTAGT
*
48790226 ACTATGTGCAGGCTACTAAGTGAA
1 ACTATGTGCAGGCTACTATGTGAA
48790250 CCGATATCAT
Statistics
Matches: 136, Mismatches: 30, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
49 4 0.03
50 39 0.29
51 91 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (52 bp):
ACTATGTGCAGGCTACTATGTGAAAGTGAAAGTGATAGGTCACATGTGTAGT
Found at i:48790125 original size:50 final size:48
Alignment explanation
Indices: 48790055--48790253 Score: 200
Period size: 51 Copynumber: 4.0 Consensus size: 48
48790045 AAAGTGAAAG
*
48790055 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAA
* *
48790104 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
* * * * * * * **
48790153 TAGCTTCGATCTCGTGTGTAGTACTATGTGAAAGCTACTACGTGTATTGGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGA-A
* *
48790206 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTAAGTGAACCGA
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGA
48790254 TATCATTAAT
Statistics
Matches: 119, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
49 7 0.06
50 42 0.35
51 65 0.55
52 2 0.02
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAA
Found at i:48790328 original size:46 final size:44
Alignment explanation
Indices: 48790252--48790341 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 44
48790242 TAAGTGAACC
* *
48790252 GATATCATTAATTATAAGGTGGTTGTTGTGTGCTG-ATCCCACCG
1 GATATCATTAATTAAAAGGTGGTTGCTGTGTGCTGAAT-CCACCG
*
48790296 GATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 GATATCATTAATTA-AAA-GGTGGTTGCTGTGTGCTGAATCCACCG
48790342 TGTATCTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
44 13 0.32
45 2 0.05
46 23 0.57
47 2 0.05
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (44 bp):
GATATCATTAATTAAAAGGTGGTTGCTGTGTGCTGAATCCACCG
Found at i:48795110 original size:10 final size:10
Alignment explanation
Indices: 48795095--48795122 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
48795085 CTTTAATTAT
48795095 AAAAAGATAA
1 AAAAAGATAA
48795105 AAAAAGATAA
1 AAAAAGATAA
48795115 AAAAAGAT
1 AAAAAGAT
48795123 TATCATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAAGATAA
Found at i:48800940 original size:17 final size:18
Alignment explanation
Indices: 48800915--48800948 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48800905 GAAGCTTTAG
*
48800915 TTATTCTTTAAA-AAGCC
1 TTATGCTTTAAACAAGCC
48800932 TTATGCTTTAAACAAGC
1 TTATGCTTTAAACAAGC
48800949 AACCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATGCTTTAAACAAGCC
Found at i:48808590 original size:41 final size:40
Alignment explanation
Indices: 48808545--48808623 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
48808535 TCAGTGCCTG
* * * *
48808545 TTATTTAACATCATTATTTAGTTTCGTACACTTAATGCTCA
1 TTATTCAACATCATCATTTA-ATTCGCACACTTAATGCTCA
* *
48808586 TTATTCAACCTCATCATTTAATTCGCACACTTAGTGCT
1 TTATTCAACATCATCATTTAATTCGCACACTTAATGCT
48808624 AATCATATAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 15 0.47
41 17 0.53
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.43
Consensus pattern (40 bp):
TTATTCAACATCATCATTTAATTCGCACACTTAATGCTCA
Found at i:48809503 original size:20 final size:20
Alignment explanation
Indices: 48809480--48809517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48809470 TGGTTTTATT
48809480 TTATTATCATTATACTAACA
1 TTATTATCATTATACTAACA
* *
48809500 TTATTATTATTTTACTAA
1 TTATTATCATTATACTAA
48809518 GTTAACCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATCATTATACTAACA
Found at i:48824121 original size:27 final size:26
Alignment explanation
Indices: 48824107--48824173 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
48824097 TTAAGTCCGT
48824107 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTCAGTGCTATAT-ATCAACTCGC
*
48824134 ACACTTAGTGCTATATAATCAAACTCGC
1 ACACTCAGTGCTATAT-ATC-AACTCGC
*
48824162 ACACTTAGTGCT
1 ACACTCAGTGCT
48824174 GTACAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (26 bp):
ACACTCAGTGCTATATATCAACTCGC
Found at i:48824167 original size:28 final size:28
Alignment explanation
Indices: 48824107--48824201 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
48824097 TTAAGTCCGT
*
48824107 ACACTCAGTGCTATATAATC-AACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
48824134 ACACTTAGTGCTATATAATCAAACTCGC
1 ACACTTAGTGCTATATAATCAAACTCGC
* * * *
48824162 ACACTTAGTGCTGTACAATTTAAACCCGC
1 ACACTTAGTGCTATATAA-TCAAACTCGC
48824191 ACACTTAGTGC
1 ACACTTAGTGC
48824202 CAATCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 19 0.31
28 23 0.38
29 19 0.31
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
ACACTTAGTGCTATATAATCAAACTCGC
Found at i:48832023 original size:28 final size:28
Alignment explanation
Indices: 48831960--48832057 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
48831950 TATATTAGTC
*
48831960 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48831987 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48832015 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48832044 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48832058 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48850042 original size:27 final size:26
Alignment explanation
Indices: 48849978--48850043 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
48849968 AACATGTTCG
* *
48849978 GAAAGAAAGCCTTTGTGGCATAATAT
1 GAAAGAAAGCCTTTGTGACATAATAC
* *
48850004 GAAAGAATGCCTTTGTGACA-AACTCC
1 GAAAGAAAGCCTTTGTGACATAA-TAC
48850030 GTAAAGAAAGCCTT
1 G-AAAGAAAGCCTT
48850044 CGTGGCGCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 2 0.06
26 20 0.61
27 11 0.33
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGACATAATAC
Found at i:48855176 original size:67 final size:69
Alignment explanation
Indices: 48855055--48855188 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 69
48855045 TAATTAAACT
* * * * * * *
48855055 TAATCACTTTAATATTAATTTACTATAATATTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTCAATATTAAATTACAAAAATATCTATCAAGATAAATATTAAATTAAATTCAATATT
48855120 AAGA
66 AAGA
* *
48855124 TAATCACTTCAATATTAAATTA-AAAAATA-CTATTAAGATAAGTATTAAATTAAATTCAATATT
1 TAATCACTTCAATATTAAATTACAAAAATATCTATCAAGATAAATATTAAATTAAATTCAATATT
48855187 AA
66 AA
48855189 ACTATTAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 31 0.55
68 5 0.09
69 20 0.36
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (69 bp):
TAATCACTTCAATATTAAATTACAAAAATATCTATCAAGATAAATATTAAATTAAATTCAATATT
AAGA
Found at i:48856361 original size:20 final size:18
Alignment explanation
Indices: 48856316--48856362 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
48856306 CTAAACATGC
48856316 TCACACATACAAAACATT
1 TCACACATACAAAACATT
* *
48856334 T-GCACATACAATCAAGATT
1 TCACACATACAA--AACATT
48856353 TCACACATAC
1 TCACACATAC
48856363 CTAAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
19 6 0.26
20 7 0.30
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.23
Consensus pattern (18 bp):
TCACACATACAAAACATT
Found at i:48857326 original size:15 final size:13
Alignment explanation
Indices: 48857295--48857319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48857285 TATTTAAAAA
48857295 TTATTTTGTGTGT
1 TTATTTTGTGTGT
48857308 TTATTTTGTGTG
1 TTATTTTGTGTG
48857320 AATTTATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:48869829 original size:27 final size:27
Alignment explanation
Indices: 48869799--48869888 Score: 103
Period size: 27 Copynumber: 3.3 Consensus size: 27
48869789 TTTAGTTTAC
48869799 TAAAATTA-TCGAAATACGCTTAG-TTTG
1 TAAAATTACT-GAAATAC-CTTAGATTTG
* * *
48869826 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCTTAGATTTG
* *
48869853 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCTTAGATTTG
48869880 TAAAATTAC
1 TAAAATTAC
48869889 CAAAGTACCC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.05
27 51 0.93
28 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCTTAGATTTG
Found at i:48869897 original size:27 final size:27
Alignment explanation
Indices: 48869823--48869888 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
48869813 TACGCTTAGT
* *
48869823 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACTGAAATACCCTCGAC
*
48869850 TTGTAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
48869877 TTGTAAAATTAC
1 TTGTAAAATTAC
48869889 CAAAGTACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:48869958 original size:81 final size:81
Alignment explanation
Indices: 48869867--48870034 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
48869857 ATTACTGAAA
* * *
48869867 TACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAGAATTATCGTTTTACCC-CTGAT
1 TACCCTCGACTTATAAAATTACCAAAGTACCCCCGATTTACAGAATTATCGTTTTACCCTC-GAT
* *
48869931 TTACATAATTA-TCATTT
65 TTACAAAACTACT-ATTT
* **** **
48869948 TACCCTCGACTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGACTTATAAAATTACCAAAGTACCCCCGATTTACAGAATTATCGTTTTACCCTCGATT
48870013 TACAAAACTACTATTT
66 TACAAAACTACTATTT
48870029 TACCCT
1 TACCCT
48870035 TGATTTACAG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
81 71 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGACTTATAAAATTACCAAAGTACCCCCGATTTACAGAATTATCGTTTTACCCTCGATT
TACAAAACTACTATTT
Found at i:48869996 original size:54 final size:54
Alignment explanation
Indices: 48869894--48870077 Score: 235
Period size: 54 Copynumber: 3.4 Consensus size: 54
48869884 ATTACCAAAG
* * * * *
48869894 TACCCCCGATTTATAGAATTATCGTTTTACCCCTGATTTACATAATTATCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTT
*
48869948 TACCCTCGACTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTT
* * * **
48870002 TACCCTCGATTTACAAAACTACTATTTTACCCTTGATTTACAGAATTA-CTGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATC-GTTT
* *
48870056 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
48870078 TAAAATACCC
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 115 0.99
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTATCGTTT
Found at i:48870047 original size:81 final size:81
Alignment explanation
Indices: 48869894--48870076 Score: 244
Period size: 81 Copynumber: 2.3 Consensus size: 81
48869884 ATTACCAAAG
* * * *
48869894 TACCCCCGATTTATAGAATTATCGTTTTACCCCTGATTTACATAATTATCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCCTGATTTACAAAACTATCATTTTACCCTCGACT
*
48869959 TATAGAATTACCGTTT
66 TACAGAATTACCGTTT
* *
48869975 TACCCTTGATTTACAGAATTATCGTTTTA-CCCTCGATTTACAAAACTA-CTATTTTACCCTTGA
1 TACCCTCGATTTACAGAATTATCGTTTTACCCCT-GATTTACAAAACTATC-ATTTTACCCTCGA
* *
48870038 TTTACAGAATTACTGTTT
64 CTTACAGAATTACCGTTT
*
48870056 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
48870077 CTAAAATACC
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
80 5 0.06
81 84 0.94
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCCTGATTTACAAAACTATCATTTTACCCTCGACT
TACAGAATTACCGTTT
Found at i:48870077 original size:27 final size:28
Alignment explanation
Indices: 48869894--48870078 Score: 204
Period size: 27 Copynumber: 6.8 Consensus size: 28
48869884 ATTACCAAAG
* *
48869894 TACCCCCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACTCGTTT
* *
48869921 TACCC-CTGATTTACATAATTA-TCATTT
1 TACCCTC-GATTTACAGAATTACTCGTTT
* *
48869948 TACCCTCGACTTATAGAATTAC-CGTTT
1 TACCCTCGATTTACAGAATTACTCGTTT
*
48869975 TACCCTTGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACTCGTTT
* * *
48870002 TACCCTCGATTTACAAAACTACT-ATTT
1 TACCCTCGATTTACAGAATTACTCGTTT
*
48870029 TACCCTTGATTTACAGAATTACT-GTTT
1 TACCCTCGATTTACAGAATTACTCGTTT
*
48870056 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
48870079 AAAATACCCT
Statistics
Matches: 133, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 130 0.98
28 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (28 bp):
TACCCTCGATTTACAGAATTACTCGTTT
Found at i:48870086 original size:27 final size:27
Alignment explanation
Indices: 48870002--48870252 Score: 125
Period size: 27 Copynumber: 9.2 Consensus size: 27
48869992 ATTATCGTTT
* ***
48870002 TACCCTCGATTTACAAAACTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
48870029 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
48870056 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
48870083 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* * *** **
48870110 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** * *
48870137 TACCCTCAATTTGTAAAATTATTAACA
1 TACCCTCGATTTACAAAATTACTAAAA
*
48870164 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
48870191 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * *
48870220 TACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
48870247 TACCCT
1 TACCCT
48870253 TAGTTTGTAG
Statistics
Matches: 176, Mismatches: 37, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.02
27 146 0.83
28 8 0.05
29 19 0.11
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:48870114 original size:54 final size:54
Alignment explanation
Indices: 48870056--48870279 Score: 184
Period size: 54 Copynumber: 4.1 Consensus size: 54
48870046 ATTACTGTTT
48870056 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * *** ** * * ** *
48870110 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTATTAACA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
48870164 TACCC-CTGATTTACAAAGTTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAA
* * * * *
48870220 TACCATTGGTTTACAAAATTACTAAAATACCCTTAGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
48870274 CACCCT
1 TACCCT
48870280 TGTAGGATGA
Statistics
Matches: 128, Mismatches: 34, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
54 78 0.61
55 13 0.10
56 36 0.28
57 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:48870258 original size:27 final size:27
Alignment explanation
Indices: 48870065--48870258 Score: 126
Period size: 27 Copynumber: 7.1 Consensus size: 27
48870055 TTACCCTCGA
48870065 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACTAAAATACCCTTAG
** * *
48870092 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCCTTAG
*** ** * *
48870119 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACTAAAATACCCTTAG
** * * *
48870146 TTTGTAAAATTATTAACATACCCCT-G
1 TTTACAAAATTACTAAAATACCCTTAG
* *
48870172 ATTTACAAAGTTAC-AGAAATACCCTTGAC
1 -TTTACAAAATTACTA-AAATACCCTT-AG
* *
48870201 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACTA-AAATACCCTTAG
48870229 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACTAAAATACCCTTAG
48870256 TTT
1 TTT
48870259 GTAGATTTAC
Statistics
Matches: 128, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
26 1 0.01
27 101 0.79
28 8 0.06
29 18 0.14
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTTAG
Found at i:48870376 original size:27 final size:27
Alignment explanation
Indices: 48870299--48870376 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
48870289 AAATGACTAA
* *
48870299 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
48870326 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
48870353 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
48870377 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:48871036 original size:14 final size:14
Alignment explanation
Indices: 48871003--48871044 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
48870993 GTGGTTGATT
*
48871003 ATAGGAGAAATCGC
1 ATAGGAGATATCGC
48871017 ATAGGAGATATCGTC
1 ATAGGAGATATCG-C
48871032 A-AGGA-ATATCGC
1 ATAGGAGATATCGC
48871044 A
1 A
48871045 AATCAGGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 6 0.23
14 16 0.62
15 2 0.08
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (14 bp):
ATAGGAGATATCGC
Found at i:48871565 original size:25 final size:25
Alignment explanation
Indices: 48871536--48871583 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48871526 TTATAATATG
* *
48871536 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48871561 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48871584 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48871634 original size:9 final size:9
Alignment explanation
Indices: 48871622--48871678 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48871612 TTTGATAAAC
48871622 ATGATATGT
1 ATGATATGT
*
48871631 ATGATATGCAC
1 ATGATATG--T
*
48871642 ATGACATGT
1 ATGATATGT
*
48871651 ATGATATGCAC
1 ATGATATG--T
48871662 ATGATATGT
1 ATGATATGT
48871671 ATGATATG
1 ATGATATG
48871679 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48871645 original size:20 final size:20
Alignment explanation
Indices: 48871620--48871690 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
48871610 ATTTTGATAA
48871620 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48871640 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48871660 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48871680 ACATGAGATGT
1 ACATGATATGT
48871691 TTGTAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48871667 original size:11 final size:11
Alignment explanation
Indices: 48871631--48871685 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
48871621 CATGATATGT
48871631 ATGATATGCAC
1 ATGATATGCAC
* *
48871642 ATGACATG--T
1 ATGATATGCAC
48871651 ATGATATGCAC
1 ATGATATGCAC
*
48871662 ATGATATG--T
1 ATGATATGCAC
48871671 ATGATATGCAC
1 ATGATATGCAC
48871682 ATGA
1 ATGA
48871686 GATGTTTGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48871816 original size:25 final size:25
Alignment explanation
Indices: 48871737--48871937 Score: 263
Period size: 25 Copynumber: 8.2 Consensus size: 25
48871727 AGGAAGTGCA
48871737 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
48871760 AAAGGGCTTATGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
48871783 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
48871808 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
48871833 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
48871858 AAAGGGCTTATGCCCCAATTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
48871882 AAAGGGCTTTTGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
48871906 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
48871934 AAAG
1 AAAG
48871938 CAGCTATGCT
Statistics
Matches: 161, Mismatches: 9, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
23 45 0.28
24 29 0.18
25 78 0.48
26 1 0.01
27 4 0.02
28 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:48873140 original size:13 final size:13
Alignment explanation
Indices: 48873122--48873148 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48873112 CATTGTTTAG
48873122 TTGATTGGACATT
1 TTGATTGGACATT
48873135 TTGATTGGACATT
1 TTGATTGGACATT
48873148 T
1 T
48873149 ATGTACATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TTGATTGGACATT
Found at i:48874301 original size:124 final size:124
Alignment explanation
Indices: 48874079--48874322 Score: 353
Period size: 124 Copynumber: 2.0 Consensus size: 124
48874069 CCCTTCAGGC
* ** * *
48874079 CATGATATTTGCACTTCAGGTGTGAGTTATATGGATTTGGCTCCGAGCGATGAATATCGACTGAT
1 CATGATATTTGCACTTCAGGTATGAGTTATACCGATTTGGATCCGAGCCATGAATATCGACTGAT
* *
48874144 TTGGCTTTGGGCCATGATATCAGTATTTCAGATATAAATTACCTTGATTTGGCTTCGGA
66 TTGGCTTTAGGCCATGATATCAGTATTTCAGATATAAATCACCTTGATTTGGCTTCGGA
* * ** * *
48874203 CATGATATTTTCACTTCGGGTATGAGTTATACCGATTTGGATTTGGGCCATGAATATCGGCTGAT
1 CATGATATTTGCACTTCAGGTATGAGTTATACCGATTTGGATCCGAGCCATGAATATCGACTGAT
* *
48874268 TTGGCTTTAGGCCATTATATCAGTATTTTAGATATAAATCACCTTGATTTGGCTT
66 TTGGCTTTAGGCCATGATATCAGTATTTCAGATATAAATCACCTTGATTTGGCTT
48874323 TGGGCCATGG
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
124 105 1.00
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (124 bp):
CATGATATTTGCACTTCAGGTATGAGTTATACCGATTTGGATCCGAGCCATGAATATCGACTGAT
TTGGCTTTAGGCCATGATATCAGTATTTCAGATATAAATCACCTTGATTTGGCTTCGGA
Found at i:48875908 original size:3 final size:3
Alignment explanation
Indices: 48875900--48875934 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
48875890 CATCTCGTAT
*
48875900 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
48875935 TATTATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:48882129 original size:28 final size:28
Alignment explanation
Indices: 48882098--48882151 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
48882088 TCCAACACAT
*
48882098 CTTGGGTACTAAAAATTATACTTTTATC
1 CTTGGGTACTAAAAAGTATACTTTTATC
48882126 CTTGGGTACTAAAAAGTATACTTTTA
1 CTTGGGTACTAAAAAGTATACTTTTA
48882152 CGCTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (28 bp):
CTTGGGTACTAAAAAGTATACTTTTATC
Found at i:48887893 original size:5 final size:5
Alignment explanation
Indices: 48887885--48887912 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
48887875 CCAAAATAAA
48887885 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT
48887913 GTTGGCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:48892617 original size:39 final size:39
Alignment explanation
Indices: 48892573--48892664 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
48892563 ATTATATTAT
48892573 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
**
48892612 CAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
*
48892651 CAGCACGAAGCCTG
1 CAGCACAAAGCCTG
48892665 TAACACCCCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (39 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
Found at i:48894305 original size:39 final size:40
Alignment explanation
Indices: 48894234--48894339 Score: 135
Period size: 39 Copynumber: 2.6 Consensus size: 40
48894224 GCTACTCGTT
* *
48894234 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCA
*
48894274 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCA
* *
48894313 CAAATGCCTTCGGATCTTAGTCCGGAA
1 CAAATGCCTTCGG-GCTTAGCCCGGAA
48894340 ATGGTCACTT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 33 0.56
40 26 0.44
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCA
Found at i:48898083 original size:40 final size:40
Alignment explanation
Indices: 48898049--48898318 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
48898039 TCTTCGAGGT
* * * * *
48898049 TTAGCACGGATATATTACTAGCATGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
48898089 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
48898129 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
48898169 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
48898209 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCAGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTC--G-----G----GAC
*
48898260 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
48898300 TTAGCCCGGATATATCACT
1 TTAGCCCGGATATATCACT
48898319 CTCAATTCTC
Statistics
Matches: 211, Mismatches: 8, Indels: 22
0.88 0.03 0.09
Matches are distributed among these distances:
40 169 0.80
42 1 0.00
44 1 0.00
47 1 0.00
49 1 0.00
51 38 0.18
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:48898282 original size:51 final size:51
Alignment explanation
Indices: 48898206--48898306 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
48898196 TGCTCCTCGG
48898206 GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCA
1 GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCA
*
48898257 GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGGCTTAGCCC
1 GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCC
48898307 GGATATATCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.22
Consensus pattern (51 bp):
GACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCA
Found at i:48900196 original size:37 final size:37
Alignment explanation
Indices: 48900135--48900213 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
48900125 TTATTACGAA
* * *
48900135 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
48900172 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
48900209 GTCTT
1 GTCTT
48900214 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:48900456 original size:47 final size:47
Alignment explanation
Indices: 48900332--48900779 Score: 756
Period size: 47 Copynumber: 9.4 Consensus size: 47
48900322 CCCTTCGGGA
* * * *
48900332 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48900379 CCTGTCACATATAT--ATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900471 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900567 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48900710 CTTATCACATATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900759 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
48900780 GTCATTCCCA
Statistics
Matches: 382, Mismatches: 11, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
45 39 0.10
47 203 0.53
49 140 0.37
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48900526 original size:96 final size:96
Alignment explanation
Indices: 48900332--48900773 Score: 761
Period size: 96 Copynumber: 4.6 Consensus size: 96
48900322 CCCTTCGGGA
* * * * * *
48900332 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCACTCGGCCCTGTCACATATATAT--
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
48900395 --TTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
48900424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
48900489 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
48900520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
48900585 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
48900616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
48900679 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
48900710 CTTATCACATATATATACACTTTTACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
48900774 CACTTTGTCA
Statistics
Matches: 335, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
92 57 0.17
94 47 0.14
96 226 0.67
98 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48900786 original size:143 final size:143
Alignment explanation
Indices: 48900332--48900779 Score: 778
Period size: 143 Copynumber: 3.1 Consensus size: 143
48900322 CCCTTCGGGA
* * * * * * *
48900332 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCACTCGGCCCTGTCACATATAT--AT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
48900395 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
48900458 TCGGCCATTAGGC
131 TCGGCCATTAGGC
48900471 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
48900536 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
48900601 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
48900616 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
48900681 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTTACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
48900746 TCGGCCATTAGGC
131 TCGGCCATTAGGC
48900759 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
48900780 GTCATTCCCA
Statistics
Matches: 295, Mismatches: 8, Indels: 8
0.95 0.03 0.03
Matches are distributed among these distances:
139 8 0.03
141 47 0.16
143 193 0.65
145 47 0.16
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:48901054 original size:40 final size:39
Alignment explanation
Indices: 48901010--48901101 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
48901000 GCTACTCATT
*
48901010 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
48901050 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
48901089 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48901102 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 31 0.65
40 17 0.35
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:48901081 original size:39 final size:40
Alignment explanation
Indices: 48901010--48901151 Score: 148
Period size: 40 Copynumber: 3.6 Consensus size: 40
48901000 GCTACTCATT
* *
48901010 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
48901050 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * * *
48901089 CAAATGCCTTC-GGATCTTAGTCCGGAAATGGTCACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
48901130 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
48901152 AGACATCATT
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 29 0.34
40 45 0.52
41 10 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:48913613 original size:39 final size:39
Alignment explanation
Indices: 48913559--48913639 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
48913549 GGATGATACA
*
48913559 AAGCCTGCGGGACTTTGGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
48913598 AAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
48913637 AAG
1 AAG
48913640 TCCGCGGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.21
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:48914020 original size:39 final size:39
Alignment explanation
Indices: 48913966--48914055 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 39
48913956 GGGTTCTGTA
*
48913966 CCGGATATATTTCCAGCACGAAGCCTCCGGGACTTTAGC
1 CCGGATACATTTCCAGCACGAAGCCTCCGGGACTTTAGC
* *
48914005 CCGGATAGATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CCGGATACATTTCCAGCACGAAGCCTCCGGGACTTTAGC
*
48914044 CCAGATACATTT
1 CCGGATACATTT
48914056 TCAGTGTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATACATTTCCAGCACGAAGCCTCCGGGACTTTAGC
Found at i:48920781 original size:11 final size:10
Alignment explanation
Indices: 48920765--48920823 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
48920755 TCTGTTATAT
48920765 TTATATTTTTA
1 TTATA-TTTTA
*
48920776 TTATATGTTA
1 TTATATTTTA
48920786 -TATATTTTTA
1 TTATA-TTTTA
48920796 TTATATTTTA
1 TTATATTTTA
*
48920806 TT-TATTCTA
1 TTATATTTTA
*
48920815 CTATATTTT
1 TTATATTTT
48920824 TATATGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 11 0.28
10 20 0.50
11 9 0.22
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (10 bp):
TTATATTTTA
Found at i:48920791 original size:20 final size:20
Alignment explanation
Indices: 48920766--48920811 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
48920756 CTGTTATATT
48920766 TATATTTTTATTATATGTTA
1 TATATTTTTATTATATGTTA
*
48920786 TATATTTTTATTATATTTTA
1 TATATTTTTATTATATGTTA
*
48920806 TTTATT
1 TATATT
48920812 CTACTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TATATTTTTATTATATGTTA
Found at i:48920807 original size:30 final size:31
Alignment explanation
Indices: 48920765--48920826 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
48920755 TCTGTTATAT
48920765 TTATATTTTTATTATATGT-TA-TATATTTTTA
1 TTATATTTTTATT-TAT-TCTACTATATTTTTA
48920796 TTATA-TTTTATTTATTCTACTATATTTTTA
1 TTATATTTTTATTTATTCTACTATATTTTTA
48920826 T
1 T
48920827 ATGTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 1 0.03
29 5 0.17
30 18 0.62
31 5 0.17
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (31 bp):
TTATATTTTTATTTATTCTACTATATTTTTA
Found at i:48922330 original size:51 final size:51
Alignment explanation
Indices: 48922142--48922386 Score: 264
Period size: 51 Copynumber: 4.9 Consensus size: 51
48922132 TAGCCGAAGC
* * * * * *
48922142 TATCTGGTACGCATAGTAGCCTGAACTTAGAACTACACATGCGA-CCAA-T
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * * * *
48922191 TATCCA-GTACACATAATAGCCTGCACTTAGTACTACACATGTGACCTAA-C
1 TAT-CAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * * *
48922241 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
* * * *
48922292 TATCAGGTATGCATAGTAGCCTGCACTTAGTACAACACATGTGATCGAAGT
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
48922343 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
48922387 CCTCACAATA
Statistics
Matches: 163, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 37 0.23
50 43 0.26
51 83 0.51
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (51 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
Found at i:48922332 original size:101 final size:100
Alignment explanation
Indices: 48922135--48922387 Score: 276
Period size: 101 Copynumber: 2.5 Consensus size: 100
48922125 ACACTTGTAG
* * * * * * * * *
48922135 CCGAAGCTATCTGGTACGCATAGTAGCCTGAACTTAGAACTACACATGCGACCAATTATCCAGTA
1 CCGAAGCCATCAGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTA
*
48922200 CACATAATAGCCTGCACTTAGTACTACACATGTGA
66 CACATAATAGCCTGCACTTAGTACAACACATGTGA
* * *
48922235 CCTAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAT-CAG
1 CCGAAGCCATCAGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCCA-
** *
48922298 GTATGCATAGTAGCCTGCACTTAGTACAACACATGTGA
63 GTACACATAATAGCCTGCACTTAGTACAACACATGTGA
* ** * *
48922336 TCGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGAC
1 CCGAAGCCATCAGATACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
48922388 CTCACAATAG
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
99 37 0.29
100 9 0.07
101 42 0.33
102 39 0.31
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (100 bp):
CCGAAGCCATCAGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCCAGTA
CACATAATAGCCTGCACTTAGTACAACACATGTGA
Found at i:48923975 original size:17 final size:17
Alignment explanation
Indices: 48923933--48923985 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
48923923 ACTATATTTC
48923933 ATTATATTTTATCTAC--
1 ATTATATTTTAT-TACAT
48923949 A-TAT-TTTTATTACAT
1 ATTATATTTTATTACAT
*
48923964 ATTATATTTTATTATAT
1 ATTATATTTTATTACAT
48923981 ATTAT
1 ATTAT
48923986 TCATTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 6 0.19
15 4 0.12
16 4 0.12
17 15 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTATTACAT
Found at i:48923993 original size:14 final size:12
Alignment explanation
Indices: 48923966--48924088 Score: 53
Period size: 12 Copynumber: 9.9 Consensus size: 12
48923956 TATTACATAT
48923966 TATATTTTATTA
1 TATATTTTATTA
48923978 TATATTATTCATTA
1 TATATT-TT-ATTA
*
48923992 TAATATCTTT-CT-
1 T-ATAT-TTTATTA
* *
48924004 T-TCTTATA-TA
1 TATATTTTATTA
*
48924014 TATATATTA-TA
1 TATATTTTATTA
*
48924025 TACATTTTATTA
1 TATATTTTATTA
48924037 TATATATTTA-TA
1 TATAT-TTTATTA
48924049 TAT-TATTTATTA
1 TATAT-TTTATTA
48924061 TATGATTTATATATTTA
1 TAT-A-TT-T-TA-TTA
48924078 TATATTTTATT
1 TATATTTTATT
48924089 TGTAAATTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 32
0.68 0.07 0.25
Matches are distributed among these distances:
9 3 0.03
10 3 0.03
11 19 0.22
12 25 0.29
13 9 0.10
14 7 0.08
15 10 0.12
16 4 0.05
17 6 0.07
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:48924015 original size:2 final size:2
Alignment explanation
Indices: 48924008--48924082 Score: 52
Period size: 2 Copynumber: 39.5 Consensus size: 2
48923998 CTTTCTTTCT
* * *
48924008 TA TA TA TA TA TA T- TA TA TA CA T- TT TA T- TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
48924047 TA TA T- TA TT TA T- TA TA TGA TT TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T
48924083 TTTATTTGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
1 5 0.09
2 49 0.88
3 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (2 bp):
TA
Found at i:48924048 original size:29 final size:28
Alignment explanation
Indices: 48924008--48924088 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 28
48923998 CTTTCTTTCT
*
48924008 TATATATATATATTATATACATTTTATTA
1 TATATATTTATATTATATA-ATTTTATTA
48924037 TATATATTTATA-TAT-T-A-TTTATTA
1 TATATATTTATATTATATAATTTTATTA
48924061 TATGAT-TTATATATT-TATATATTTTATT
1 TAT-ATATT-TATATTATATA-ATTTTATT
48924089 TGTAAATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
24 12 0.27
25 8 0.18
26 2 0.05
27 1 0.02
28 4 0.09
29 17 0.39
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TATATATTTATATTATATAATTTTATTA
Found at i:48924074 original size:23 final size:24
Alignment explanation
Indices: 48924030--48924075 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
48924020 TTATATACAT
*
48924030 TTTATTATATATATTTATATATTA
1 TTTATTATATAGATTTATATATTA
48924054 TTTATTATAT-GATTTATATATT
1 TTTATTATATAGATTTATATATT
48924076 TATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTATTATATAGATTTATATATTA
Found at i:48924104 original size:33 final size:33
Alignment explanation
Indices: 48924037--48924120 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 33
48924027 CATTTTATTA
* *
48924037 TATATATTTATATA--TTATTTATTATATGATT
1 TATATATTTATATATTTTATTTAGTAAATGATT
*
48924068 TATATATTTATATATTTTATTT-GTAAATTATGT
1 TATATATTTATATATTTTATTTAGTAAATGAT-T
* *
48924101 TATACACTATATATATTTTA
1 TATATA-TTTATATATTTTA
48924121 CCATATTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 14 0.32
32 6 0.14
33 12 0.27
34 12 0.27
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (33 bp):
TATATATTTATATATTTTATTTAGTAAATGATT
Found at i:48936293 original size:78 final size:78
Alignment explanation
Indices: 48936146--48936773 Score: 945
Period size: 78 Copynumber: 8.1 Consensus size: 78
48936136 GTAACAGGTT
* * * *
48936146 AAGACATAGCAGATCTGACCTTCATTAAAGCAGATCCAAAATGATTTGGCGTCTCTGTATTAGAT
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
48936211 GGGGAGCAGATCG
66 GGGGAGCAGATCG
* * * * * *
48936224 AAGAAACAGCAGATCTGACCTTTATTGAAGCAGATCCAAGATAATTTGGCATCT-TCATATTCGA
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCT-GTATTAGA
48936288 CGGGGAGCAGATCG
65 CGGGGAGCAGATCG
* *
48936302 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGAT
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
48936367 GGGGAGCAGATCG
66 GGGGAGCAGATCG
* * ** *
48936380 AAGAAATAGCAGATCTGGCCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCAATATTCGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
48936445 GGAGAGCAGATCG
66 GGGGAGCAGATCG
*
48936458 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
48936523 GGGGAGCAGGTCG
66 GGGGAGCAGATCG
48936536 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
48936601 AGGGAGCAGATCG
66 GGGGAGCAGATCG
* * ** *
48936614 AAGACACAGCAGATCCGACCTTTTTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAT
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
48936679 GGGGAGCAGATCA
66 GGGGAGCAGATCG
* * *
48936692 AAGACATAACAGAT-TAGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATTTCTGTATTAGA
1 AAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA
*
48936756 CGGGGAGCAGATCA
65 CGGGGAGCAGATCG
48936770 AAGA
1 AAGA
48936774 TAGTAGATAT
Statistics
Matches: 495, Mismatches: 52, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
77 1 0.00
78 493 1.00
79 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
GGGGAGCAGATCG
Found at i:48938362 original size:11 final size:11
Alignment explanation
Indices: 48938346--48938382 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
48938336 TCTGTTATAT
48938346 TTATATTTTTA
1 TTATATTTTTA
*
48938357 TTATA-TGTTA
1 TTATATTTTTA
48938367 -TATATTTTTA
1 TTATATTTTTA
48938377 TTATAT
1 TTATAT
48938383 ATCATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.18
10 8 0.36
11 10 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:48938392 original size:20 final size:20
Alignment explanation
Indices: 48938347--48938392 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
48938337 CTGTTATATT
* *
48938347 TATATTTTTATTATATGTTA
1 TATATTTTTATTATATATCA
48938367 TATATTTTTATTATATATCA
1 TATATTTTTATTATATATCA
*
48938387 TTTATT
1 TATATT
48938393 GTACTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TATATTTTTATTATATATCA
Found at i:48938401 original size:56 final size:55
Alignment explanation
Indices: 48938296--48938403 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 55
48938286 ATTATTACAT
* * **
48938296 TTTTTATCATATATATATATTTGTTTTGTATATTATTTATTCTGTTATATTTATA
1 TTTTTATCATATATATATATTTGTTTTATATATCATTTATTCTACTATATTTATA
* * *
48938351 TTTTTATTATATGTTATATATTT-TTATTATATATCATTTATTGTACTATATTT
1 TTTTTATCATAT-ATATATATTTGTT-TTATATATCATTTATTCTACTATATTT
48938404 TTATATGTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
55 13 0.30
56 31 0.70
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.64
Consensus pattern (55 bp):
TTTTTATCATATATATATATTTGTTTTATATATCATTTATTCTACTATATTTATA
Found at i:48938508 original size:17 final size:17
Alignment explanation
Indices: 48938466--48938518 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
48938456 ACTATATTTC
48938466 ATTATATTTTATCTAC--
1 ATTATATTTTAT-TACAT
48938482 A-TAT-TTTTATTACAT
1 ATTATATTTTATTACAT
*
48938497 ATTATATTTTATTATAT
1 ATTATATTTTATTACAT
48938514 ATTAT
1 ATTAT
48938519 TCATTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 6 0.19
15 4 0.12
16 4 0.12
17 15 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTATTACAT
Found at i:48938526 original size:14 final size:12
Alignment explanation
Indices: 48938499--48938619 Score: 53
Period size: 12 Copynumber: 9.9 Consensus size: 12
48938489 TATTACATAT
48938499 TATATTTTATTA
1 TATATTTTATTA
48938511 TATATTATTCATTA
1 TATATT-TT-ATTA
*
48938525 TAATATCTTT-CT-
1 T-ATAT-TTTATTA
*
48938537 T-TCTTTTA-TA
1 TATATTTTATTA
48938547 TATA--TTA-TA
1 TATATTTTATTA
*
48938556 TACATTTTATTA
1 TATATTTTATTA
48938568 TATATATTTA-TA
1 TATAT-TTTATTA
48938580 TAT-TATTTATTA
1 TATAT-TTTATTA
48938592 TATGATTTATATATTTA
1 TAT-A-TT-T-TA-TTA
48938609 TATATTTTATT
1 TATATTTTATT
48938620 TGTAAATTAT
Statistics
Matches: 86, Mismatches: 5, Indels: 36
0.68 0.04 0.28
Matches are distributed among these distances:
9 12 0.14
10 3 0.03
11 10 0.12
12 25 0.29
13 9 0.10
14 7 0.08
15 10 0.12
16 4 0.05
17 6 0.07
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:48938572 original size:23 final size:23
Alignment explanation
Indices: 48938542--48938604 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
48938532 TTTCTTTCTT
48938542 TTATATATATTATATACAT-TTTA
1 TTATATATATTATATA-ATATTTA
*
48938565 TTATATATATTTATATATTATTTA
1 TTATATATA-TTATATAATATTTA
48938589 TTATATGAT-TTATATA
1 TTATAT-ATATTATATA
48938605 TTTATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 17 0.47
24 17 0.47
25 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATATATATTATATAATATTTA
Found at i:48938583 original size:31 final size:31
Alignment explanation
Indices: 48938545--48938614 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
48938535 CTTTCTTTTA
* *
48938545 TATATATTATATA-CATTTTATTATATATATT
1 TATATATTATATATCATATGATT-TATATATT
* *
48938576 TATATATTATTTATTATATGATTTATATATT
1 TATATATTATATATCATATGATTTATATATT
48938607 TATATATT
1 TATATATT
48938615 TTATTTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (31 bp):
TATATATTATATATCATATGATTTATATATT
Found at i:48938614 original size:24 final size:22
Alignment explanation
Indices: 48938545--48938614 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 22
48938535 CTTTCTTTTA
*
48938545 TATATATTATATACATTTTATTA-
1 TATATATT-TATATA-TTTATTAT
48938568 TATATATTTATATA-TTATTTAT
1 TATATATTTATATATTTA-TTAT
48938590 TATATGATTTATATATTTATATAT
1 TATAT-ATTTATATATTTAT-TAT
48938614 T
1 T
48938615 TTATTTGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 3 0.07
21 3 0.07
22 10 0.24
23 18 0.44
24 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (22 bp):
TATATATTTATATATTTATTAT
Found at i:48938635 original size:33 final size:33
Alignment explanation
Indices: 48938568--48938651 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 33
48938558 CATTTTATTA
* *
48938568 TATATATTTATATA--TTATTTATTATATGATT
1 TATATATTTATATATTTTATTTAGTAAATGATT
*
48938599 TATATATTTATATATTTTATTT-GTAAATTATGT
1 TATATATTTATATATTTTATTTAGTAAATGAT-T
* *
48938632 TATACACTATATATATTTTA
1 TATATA-TTTATATATTTTA
48938652 CCATATTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 14 0.32
32 6 0.14
33 12 0.27
34 12 0.27
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (33 bp):
TATATATTTATATATTTTATTTAGTAAATGATT
Found at i:48941125 original size:23 final size:23
Alignment explanation
Indices: 48941095--48941169 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
48941085 AGACTCACCA
48941095 CAGCTCGTATGAGCTTACTAATT
1 CAGCTCGTATGAGCTTACTAATT
** *
48941118 CAGCTCGTAAAAGCTTACTATTT
1 CAGCTCGTATGAGCTTACTAATT
*
48941141 CAGCTCAT-TGCAGCTTAC-AGATT
1 CAGCTCGTATG-AGCTTACTA-ATT
48941164 CAGCTC
1 CAGCTC
48941170 AAAAAAGCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTAATT
Found at i:48941192 original size:22 final size:22
Alignment explanation
Indices: 48941152--48941231 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
48941142 AGCTCATTGC
* * * *
48941152 AGCTTACAGATTCAGCTCAAAAA
1 AGCTTACTG-TTCAACTCAATAG
48941175 AGCTTACTGTTCAACTCAATAG
1 AGCTTACTGTTCAACTCAATAG
*
48941197 AGCTTACCGTTTTCAACTCAATAG
1 AGCTTA-C-TGTTCAACTCAATAG
*
48941221 AGCATACTGTT
1 AGCTTACTGTT
48941232 TATTGGCTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 19 0.40
23 10 0.21
24 19 0.40
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (22 bp):
AGCTTACTGTTCAACTCAATAG
Found at i:48941215 original size:24 final size:24
Alignment explanation
Indices: 48941184--48941232 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
48941174 AAGCTTACTG
*
48941184 TTCAACTCAATAGAGCTTACCGTT
1 TTCAACTCAATAGAGCATACCGTT
*
48941208 TTCAACTCAATAGAGCATACTGTT
1 TTCAACTCAATAGAGCATACCGTT
48941232 T
1 T
48941233 ATTGGCTCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (24 bp):
TTCAACTCAATAGAGCATACCGTT
Found at i:48955862 original size:83 final size:83
Alignment explanation
Indices: 48955712--48955876 Score: 226
Period size: 83 Copynumber: 2.0 Consensus size: 83
48955702 CAGTGATATA
* * *
48955712 ATATCAAGCTTATTACCTAGTAGGCTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGTAG
1 ATATCAAGCTTAATACCTAGCAGGCTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAG
* *
48955777 GCTTTGATGCCGGTGTATG
66 GCTCTG-TGCCGATGTATG
* * *
48955796 ATATCAGGCTTAATACCTAGCAGGCTTT-ATGCCGGTGTATTA-ACTCAGGTTTATTGCCTAGCA
1 ATATCAAGCTTAATACCTAGCAGGCTTTGATGCCGGTGTATGATA-TCAGGCTTATTGCCTAGCA
48955859 GGCTCTGTGCCGATGTAT
65 GGCTCTGTGCCGATGTAT
48955877 TATACTAGGC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
82 11 0.15
83 36 0.50
84 25 0.35
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (83 bp):
ATATCAAGCTTAATACCTAGCAGGCTTTGATGCCGGTGTATGATATCAGGCTTATTGCCTAGCAG
GCTCTGTGCCGATGTATG
Found at i:48955878 original size:41 final size:42
Alignment explanation
Indices: 48955712--48955876 Score: 210
Period size: 42 Copynumber: 4.0 Consensus size: 42
48955702 CAGTGATATA
* * *
48955712 ATATCAAGCTTATTACCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
*
48955754 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
48955796 ATATCAGGCTTAATACCTAGCAGGCTTT-ATGCCGGTGTATT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
48955837 A-ACTCAGGTTTATTGCCTAGCAGGCTCTG-TGCCGATGTAT
1 ATA-TCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTAT
48955877 TATACTAGGC
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 44 0.40
42 65 0.59
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:48955895 original size:41 final size:43
Alignment explanation
Indices: 48955712--48955896 Score: 199
Period size: 42 Copynumber: 4.5 Consensus size: 43
48955702 CAGTGATATA
* * *
48955712 ATATCAAGC-TTATTACCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
*
48955754 ATATCAGGC-TTATTGCCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
48955796 ATATCAGGC-TTAATACCTAGCAGGCTTT-ATGCCGGTGTATT
1 ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
* * *
48955837 A-ACTCAGG-TTTATTGCCTAGCAGGCTCTG-TGCCGATGTATT
1 ATA-TCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
48955878 ATA-CTAGGCTTTA-TGCCTA
1 ATATC-AGGCTTTATTGCCTA
48955897 ACAAATTTTA
Statistics
Matches: 127, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
40 2 0.02
41 55 0.43
42 70 0.55
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (43 bp):
ATATCAGGCTTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:48987092 original size:24 final size:26
Alignment explanation
Indices: 48987065--48987115 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
48987055 TAGAAGTTTT
48987065 AACA-AATATAATAAT-AG-AAAAAAG
1 AACACAATA-AATAATAAGTAAAAAAG
*
48987089 AACACAATACATAATAAGTAAAAAAG
1 AACACAATAAATAATAAGTAAAAAAG
48987115 A
1 A
48987116 GATGAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.16
Consensus pattern (26 bp):
AACACAATAAATAATAAGTAAAAAAG
Found at i:48998092 original size:46 final size:46
Alignment explanation
Indices: 48998036--48998170 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
48998026 AGAACAGAAA
*
48998036 TGAGCCATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCAATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
48998082 TGAGCAATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCAATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
* * * *
48998128 TGAGCAATGTAAGTCCATATT--ATATATGGCATTAGAGACAGGA
1 TGAGCAATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGA
48998171 ATAATTCATG
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
44 19 0.23
46 65 0.77
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (46 bp):
TGAGCAATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
Found at i:49005553 original size:44 final size:45
Alignment explanation
Indices: 49005465--49005553 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 45
49005455 AGAACAGAAA
* * *
49005465 TGAGCCATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCAATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
49005511 TGAGCAATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCAATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
49005554 ATAATTCATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 20 0.51
46 19 0.49
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (45 bp):
TGAGCAATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:49005565 original size:44 final size:44
Alignment explanation
Indices: 49005470--49005591 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 44
49005460 AGAAATGAGC
* * * *
49005470 CATGTAAGTCTATATTAGAAATATGGCTTTGGAGACAGGATTGAG
1 CATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATAAG
* *
49005515 CAATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATAATT
1 C-ATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAA-G
* * *
49005560 CATGTAAGTCCATGTCAAAGACATGGCATTGG
1 CATGTAAGTCCATATTAAA-ATATGGCATTGG
49005592 CAGGGTATTG
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
44 35 0.56
45 3 0.05
46 25 0.40
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (44 bp):
CATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATAAG
Found at i:49006848 original size:10 final size:10
Alignment explanation
Indices: 49006833--49006864 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
49006823 GTTACACATT
49006833 TAATTAAAGA
1 TAATTAAAGA
49006843 TAATTAAAGA
1 TAATTAAAGA
49006853 TAATTAAA-A
1 TAATTAAAGA
49006862 TAA
1 TAA
49006865 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Done.