Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold279
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: 1516008
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 9 of 10
Found at i:1330025 original size:101 final size:99
Alignment explanation
Indices: 1329687--1330113 Score: 290
Period size: 101 Copynumber: 4.3 Consensus size: 99
1329677 GTGATAAAGC
* * * * * *
1329687 TGCCAATATACTGATTC-AGACTAGTGATATTGGGCTTAAAGATATAAAGAATGTCAATGTGCTG
1 TGCCAATATGCTGATTCAAGACCAGTGACATT-GGCTTAAAGATGTTAAG-ATGCCAATGTGCTG
* * * ** * *
1329751 ATTCATGGTCAGCGACATTAGACTTGAAGATGAGAAGAA
64 ATTCAAGGCCAACGACATCGGACTTAAAG-T-TGAAG-A
* * * * *
1329790 TGCCAATTTGCTGATTCAAGGCCAATGACATTCGG-TTAAGGAATGTTAAAGATGCCAATATGCT
1 TGCCAATATGCTGATTCAAGACCAGTGACATT-GGCTTAAAG-ATGTT-AAGATGCCAATGTGCT
* * **
1329854 GATTCGAGGCCAACGATATCGGACTTAAAAATGAAGA
63 GATTCAAGGCCAACGACATCGGACTTAAAGTTGAAGA
* * * * *
1329891 TGCCAATGTGCTGATTGAAGACCGGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAAGACCAGTGACATTGG-CTTAAAGAT-GTTAAGATGCCAATGTGCTG
* *
1329956 ATTCAAGGCCAACGACATCGGTCTTAAAGTTGAAGG
64 ATTCAAGGCCAACGACATCGGACTTAAAGTTGAAGA
* * *
1329992 TGCCAATATGCTGATTCAAGGCTAGTGATATTGGGC-T-----TG-T---A--CCAATGTGCTGA
1 TGCCAATATGCTGATTCAAGACCAGTGACATT-GGCTTAAAGATGTTAAGATGCCAATGTGCTGA
* * * *
1330045 TTCAAGGCCAGCGACATTGGTCTTAAA-TATGAAGG
65 TTCAAGGCCAACGACATCGGACTTAAAGT-TGAAGA
* * *
1330080 TGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 TGCCAATATGCTGATTCAAGACCAGTGACATTGG
1330114 GTTTGTGCCA
Statistics
Matches: 266, Mismatches: 50, Indels: 32
0.76 0.14 0.09
Matches are distributed among these distances:
87 3 0.01
88 73 0.27
93 1 0.00
94 1 0.00
95 1 0.00
100 3 0.01
101 100 0.38
102 14 0.05
103 20 0.08
104 47 0.18
105 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (99 bp):
TGCCAATATGCTGATTCAAGACCAGTGACATTGGCTTAAAGATGTTAAGATGCCAATGTGCTGAT
TCAAGGCCAACGACATCGGACTTAAAGTTGAAGA
Found at i:1330064 original size:39 final size:39
Alignment explanation
Indices: 1329991--1330239 Score: 183
Period size: 39 Copynumber: 5.9 Consensus size: 39
1329981 AAAGTTGAAG
* * *
1329991 GTGCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1330030 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC-----T-T
* *
1330075 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGTTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * *
1330118 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGCCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
* * * *
1330157 AAAGACAAGGTTCCAATATGCTAATTTAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
*
1330205 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
1330240 TCTTAAAGAC
Statistics
Matches: 163, Mismatches: 28, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
39 95 0.58
43 1 0.01
44 2 0.01
45 1 0.01
48 32 0.20
49 32 0.20
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:1330094 original size:88 final size:88
Alignment explanation
Indices: 1329945--1330373 Score: 610
Period size: 87 Copynumber: 4.9 Consensus size: 88
1329935 GGTTAAGGTG
* * * *
1329945 CCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGTTGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGATTCA
* *
1330010 AGGCTAGTGATATTGGGCTTGTA
66 AGGCCAGCGATATTGGGCTTGTA
* *
1330033 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGATTCA
* *
1330098 AGGCCAGCGATATTGGGTTTGTG
66 AGGCCAGCGATATTGGGCTTGTA
* * * * *
1330121 CCAATGTGCTGATTCAAGGCCAACGACATTGGCCTTAAAGA-CAAGGTTCCAATATGCTAATTTA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGATTCA
*
1330185 AGGCCAGCGATATTGGGCTTGTG
66 AGGCCAGCGATATTGGGCTTGTA
** *
1330208 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGTTAATATGCTGACTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGATTCA
* *
1330272 AGGCCAACGATATTGGGCTTATA
66 AGGCCAGCGATATTGGGCTTGTA
** * * *
1330295 CCAATGTGCTGAGACAAAGTCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGATTCA
1330360 AGGCCAGCGATATT
66 AGGCCAGCGATATT
1330374 ACACTTAGAA
Statistics
Matches: 304, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
87 154 0.51
88 150 0.49
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGGCTTGTA
Found at i:1330438 original size:29 final size:30
Alignment explanation
Indices: 1330390--1330498 Score: 108
Period size: 27 Copynumber: 3.8 Consensus size: 30
1330380 AGAAGAAGAC
*
1330390 GCCACCAACTTGTGT--TTTTGAAAGGGTT
1 GCCACGAACTTGTGTGCTTTTGAAAGGGTT
1330418 G-CACGAACTTGTGTGCTTTTGAAA--GTT
1 GCCACGAACTTGTGTGCTTTTGAAAGGGTT
* *
1330445 GCCACTAACTTGTGGGC-TTTGAAAGTGG-T
1 GCCACGAACTTGTGTGCTTTTGAAAG-GGTT
*
1330474 GCCACCG-ACTTGTGAGCTTTTGAAA
1 GCCA-CGAACTTGTGTGCTTTTGAAA
1330499 CATGAGGAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
27 23 0.34
28 14 0.21
29 22 0.32
30 9 0.13
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (30 bp):
GCCACGAACTTGTGTGCTTTTGAAAGGGTT
Found at i:1330463 original size:28 final size:28
Alignment explanation
Indices: 1330390--1330498 Score: 100
Period size: 29 Copynumber: 3.9 Consensus size: 28
1330380 AGAAGAAGAC
*
1330390 GCCACCAACTTGT--GTTTTTGAAAGGGTT
1 GCCACCAACTTGTGAGCTTTTGAAA--GTT
* *
1330418 G-CACGAACTTGTGTGCTTTTGAAAGTT
1 GCCACCAACTTGTGAGCTTTTGAAAGTT
* *
1330445 GCCACTAACTTGTGGGC-TTTGAAAGTGGT
1 GCCACCAACTTGTGAGCTTTTGAAAGT--T
*
1330474 GCCACCGACTTGTGAGCTTTTGAAA
1 GCCACCAACTTGTGAGCTTTTGAAA
1330499 CATGAGGAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
27 23 0.34
28 14 0.21
29 24 0.35
30 7 0.10
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (28 bp):
GCCACCAACTTGTGAGCTTTTGAAAGTT
Found at i:1331301 original size:49 final size:49
Alignment explanation
Indices: 1331243--1331583 Score: 281
Period size: 49 Copynumber: 7.3 Consensus size: 49
1331233 ATGCTAATTC
* ** *
1331243 GCTGATTCAAGGCCAACGATATCAAACTTAAAGATGAAGATGCCAATGT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
* * *
1331292 GCTGATTCAAGACCGACGACATTGGACTTAAAGATGGTTAAGGTGCCAATGT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGAT-G--AAGGTGCCAATGT
* *
1331344 GCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
* * * *
1331393 GCTGATTCAAGGCCAGCGATATTGGGCTT---G-T--A----CCAATGT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
* * * * *
1331432 GCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATAT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
* * **
1331481 GCTGATTCAAGGCCAGCG--AT---A-TT---G-GGATTGTGCCAATGT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
* * * *
1331520 GTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTTCCAATAT
1 GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
1331569 GCTGATTCAAGGCCA
1 GCTGATTCAAGGCCA
1331584 GCGATATTGG
Statistics
Matches: 233, Mismatches: 36, Indels: 46
0.74 0.11 0.15
Matches are distributed among these distances:
39 60 0.26
41 2 0.01
43 4 0.02
45 4 0.02
46 1 0.00
47 2 0.01
48 1 0.00
49 114 0.49
50 1 0.00
51 1 0.00
52 43 0.18
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
GCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGGTGCCAATGT
Found at i:1331320 original size:101 final size:100
Alignment explanation
Indices: 1331207--1331403 Score: 254
Period size: 101 Copynumber: 1.9 Consensus size: 100
1331197 TAACGGTCAG
* * *
1331207 CGACATTAGACTTGAAGATGAG-AAGAATGCTAAT-TCGCTGATTCAAGGCCAACGATATCAAAC
1 CGACATTAGACTTAAAGATG-GTAAG-ATGCCAATGT-GCTGATTCAAGGCCAACGACATCAAAC
*
1331270 TTAAAGATGAAGATGCCAATGTGCTGATTCAAGACCGA
63 TTAAAGATGAAGATGCCAATATGCTGATTCAAGACCGA
* * ***
1331308 CGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTT
1 CGACATTAGACTTAAAGATGG-TAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCAAACTT
*
1331373 AAAGATGAAGGTGCCAATATGCTGATTCAAG
65 AAAGATGAAGATGCCAATATGCTGATTCAAG
1331404 GCCAGCGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
100 1 0.01
101 78 0.94
102 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (100 bp):
CGACATTAGACTTAAAGATGGTAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCAAACTTA
AAGATGAAGATGCCAATATGCTGATTCAAGACCGA
Found at i:1331440 original size:39 final size:39
Alignment explanation
Indices: 1331383--1331799 Score: 213
Period size: 39 Copynumber: 9.7 Consensus size: 39
1331373 AAAGATGAAG
1331383 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * *
1331422 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-----T-T
*
1331467 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGATT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * *
1331510 GTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1331549 AAAGATGAAGGTTCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---G-T----G--CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * *
1331598 ATACCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAATAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-----T-T
* * *
1331643 GAAGGCGCCAATATACTGATTCAAGGCTAGCGATATTGGGCTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * *
1331686 GTGCCAATGTGCTAATTCAAGGCAAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1331725 AAAGGCAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* ** * *
1331773 CTGCCAAGGTGCTAATTGAAGGCCAGC
1 GTGCCAATATGCTGATTCAAGGCCAGC
1331800 AGCATTGGTC
Statistics
Matches: 285, Mismatches: 54, Indels: 78
0.68 0.13 0.19
Matches are distributed among these distances:
39 149 0.52
42 1 0.00
43 3 0.01
44 4 0.01
45 3 0.01
47 1 0.00
48 34 0.12
49 90 0.32
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:1331486 original size:88 final size:88
Alignment explanation
Indices: 1331334--1332027 Score: 943
Period size: 88 Copynumber: 7.9 Consensus size: 88
1331324 GATGGTTAAG
* *
1331334 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1331399 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
1331422 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
1331487 TCAAGGCCAGCGATATTGGGATT
66 TCAAGGCCAGCGATATTGGGCTT
* * * *
1331510 GTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTTCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1331575 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * *
1331598 ATACCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAATATGAAGGCGCCAATATACTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
1331663 TCAAGGCTAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
1331686 GTGCCAATGTGCTAATTCAAGGCAAGCGACATTGGTCTTAAAG--GCAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-AAGGTGCCAATATGCTGA
1331749 TTCAAGGCCAGCGATATTGGGCTT
65 TTCAAGGCCAGCGATATTGGGCTT
* * * * * * *
1331773 CTGCCAAGGTGCTAATTGAAGGCCAGC-AGCATTGGTCTTAAAGA-CAAGGTACCAACATGCTGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGA-CATTGGTCTTAAAGATGAAGGTGCCAATATGCTGA
** * *
1331836 TTGTAGGCCAACGATATTGGGCCT
65 TTCAAGGCCAGCGATATTGGGCTT
* ** * ** *
1331860 ATGCCAATGTGCTGAGACAAAGCCAATGACATTGGCCTTAAAGAT-AATGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAA-GGTGCCAATATGCTGA
* *
1331924 TTCAAGGCCAACGATATT--ACTT
65 TTCAAGGCCAGCGATATTGGGCTT
* *
1331946 GTGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
1332011 TCAAGGCTAGCGATATT
66 TCAAGGCCAGCGATATT
1332028 ACACTTAGAA
Statistics
Matches: 530, Mismatches: 69, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
86 73 0.14
87 148 0.28
88 309 0.58
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1331934 original size:49 final size:48
Alignment explanation
Indices: 1331861--1332017 Score: 129
Period size: 49 Copynumber: 3.5 Consensus size: 48
1331851 ATTGGGCCTA
* ** * *
1331861 TGCCAATGTGCTGAGACAAAGCCAATGACATTGGCCTTAAAGATAATGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGG-CTTAAAGATAATGG
* *
1331910 TGCCAATATGCTGATTCAAGGCCAACG--A-T--ATT--A-CT--T-G
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGGCTTAAAGATAATGG
* * *
1331947 TGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGACATTGG-CTTAAAGATAATGG
1331996 TGCCAATATGCTGATTCAAGGC
1 TGCCAATATGCTGATTCAAGGC
1332018 TAGCGATATT
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
37 26 0.31
38 1 0.01
39 1 0.01
40 2 0.02
41 1 0.01
43 4 0.05
45 1 0.01
46 2 0.02
47 1 0.01
49 44 0.53
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATTGGCTTAAAGATAATGG
Found at i:1333001 original size:49 final size:49
Alignment explanation
Indices: 1332940--1333923 Score: 518
Period size: 49 Copynumber: 21.9 Consensus size: 49
1332930 ATGTTAAAAA
* * * *
1332940 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * * *
1332989 TGCCAATGTGCTGATTCAAGACCGGCGATATTGGACTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGAT-G--AAGG
* * * * * * *
1333041 TGCCAATGTGCTTATTCAAGGCCAACGACATCGATCATAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
1333090 TGCCAAAATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
1333131 --CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
*
1333178 TGCCAATATGCTGATTCAAGGCCAGCGATATTGG-------GAT---TG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *** * *
1333217 TGCCAATGTGCTGATTCAAGGCCAATAACATTAGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
*
1333266 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
1333307 --CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
1333354 TGCCAATATGCTGATTTAAGGCCAGCGATATTGG-------GAT---TG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * * * *
1333393 TGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
1333442 TTCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---G-T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * * * * *
1333483 --CCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTTAAATATCAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
1333530 TGCCAATACGCTGATTCAAGGCTAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * * * *
1333569 TGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGA-CAGGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
1333617 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----C
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
** * * * ** *
1333656 TGCCAAGGTGCTGATTCATGGCCGGTGGCATTGTTCTTAAAGAT-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
1333704 TGCCAATATGCTAATTCAAGGCCAACGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *** * *
1333743 TGCCAATGTGCTGCGACACA-GCCAGCGACATTGGTCGTAAAGAT-AATGG
1 TGCCAATATGCTGATTCA-AGGCCAGCGATATTGGTCTTAAAGATGAA-GG
* * * *
1333792 TGCCAGTCTGCTGATTCAAGGCCAGCGATATTAGAC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
1333831 TGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
1333880 TGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA-AAGA
1333924 AGACGCCACC
Statistics
Matches: 700, Mismatches: 139, Indels: 191
0.68 0.13 0.19
Matches are distributed among these distances:
39 272 0.39
40 5 0.01
42 5 0.01
43 8 0.01
45 9 0.01
46 9 0.01
47 2 0.00
48 61 0.09
49 285 0.41
50 5 0.01
51 1 0.00
52 38 0.05
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
Found at i:1333045 original size:101 final size:101
Alignment explanation
Indices: 1332940--1333123 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
1332930 ATGTTAAAAA
* * **
1332940 TGCCAATATGCTGATTCAAGGCCAACGATATCGGA-CTTAAAGATGAAGATGCCAATGTGCTGAT
1 TGCCAATATGCTGATTCAAGGCCAACGACATC-GATCATAAAGATGAAGATGCCAAAATGCTGAT
*
1333004 TCAAGACCGGCGATATTGGACTTAAAGATGGTTAAGG
65 TCAAGACCAGCGATATTGGACTTAAAGATGGTTAAGG
* * *
1333041 TGCCAATGTGCTTATTCAAGGCCAACGACATCGATCATAAAGATGAAGGTGCCAAAATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACATCGATCATAAAGATGAAGATGCCAAAATGCTGATT
*
1333106 CAAGGCCAGCGATATTGG
66 CAAGACCAGCGATATTGG
1333124 GCTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 2 0.03
101 71 0.97
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (101 bp):
TGCCAATATGCTGATTCAAGGCCAACGACATCGATCATAAAGATGAAGATGCCAAAATGCTGATT
CAAGACCAGCGATATTGGACTTAAAGATGGTTAAGG
Found at i:1333917 original size:88 final size:88
Alignment explanation
Indices: 1333040--1333913 Score: 1243
Period size: 88 Copynumber: 10.0 Consensus size: 88
1333030 GATGGTTAAG
* * * * * *
1333040 GTGCCAATGTGCTTATTCAAGGCCAACGACATCGATCATAAAGATGAAGGTGCCAAAATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1333105 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
1333128 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
1333193 TCAAGGCCAGCGATATTGGGATT
66 TCAAGGCCAGCGATATTGGGCTT
*** *
1333216 GTGCCAATGTGCTGATTCAAGGCCAATAACATTAGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1333281 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
1333304 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
* *
1333369 TTAAGGCCAGCGATATTGGGATT
66 TCAAGGCCAGCGATATTGGGCTT
* * * *
1333392 GTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTTCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1333457 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * *
1333480 GTACCAATGTGCCGATTCAAGGCCAGCAACATTGGTCTTAAATATCAAGGTGCCAATACGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
1333545 TCAAGGCTAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1333568 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGA-CAGGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1333632 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * * * *
1333655 CTGCCAAGGTGCTGATTCATGGCCGGTGGCATTGTTCTTAAAGAT-AAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
1333719 TCAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
*** * * *
1333742 GTGCCAATGTGCTGCGACACA-GCCAGCGACATTGGTCGTAAAGAT-AATGGTGCCAGTCTGCTG
1 GTGCCAATGTGCTGATTCA-AGGCCAGCGACATTGGTCTTAAAGATGAA-GGTGCCAATATGCTG
* *
1333805 ATTCAAGGCCAGCGATATTAGACTT
64 ATTCAAGGCCAGCGATATTGGGCTT
* * *
1333830 GTGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATACTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1333895 TCAAGGCCAGCGATATTGG
66 TCAAGGCCAGCGATATTGG
1333914 ACTTAGAAGA
Statistics
Matches: 693, Mismatches: 88, Indels: 10
0.88 0.11 0.01
Matches are distributed among these distances:
87 151 0.22
88 540 0.78
89 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1333980 original size:28 final size:28
Alignment explanation
Indices: 1333943--1334032 Score: 76
Period size: 28 Copynumber: 3.1 Consensus size: 28
1333933 CAACTTATGT
*
1333943 TTTTGAAAGGGTTGCACGAACTTGTGTGC
1 TTTT-AAAGGGTTGCACGAACTTGTGAGC
* * * *
1333972 TTTTAAAGGTTTCCACTAACTTGTGGGC
1 TTTTAAAGGGTTGCACGAACTTGTGAGC
*
1334000 TTTGAAAGTGG-TGCCACCG-ACTTGTGAGC
1 TTTTAAAG-GGTTG-CA-CGAACTTGTGAGC
1334029 TTTT
1 TTTT
1334033 GAAAAGTGAG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
28 28 0.58
29 19 0.40
30 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (28 bp):
TTTTAAAGGGTTGCACGAACTTGTGAGC
Found at i:1334906 original size:101 final size:100
Alignment explanation
Indices: 1334668--1335008 Score: 283
Period size: 101 Copynumber: 3.4 Consensus size: 100
1334658 GTGATAAAAG
* * * * * *
1334668 TGCCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGA-AGTAAAGAATGTCAATGTGC
1 TGCCAATATGCTGATTCAAGG-CCAGCGAAATTGGG-TTAAAGATGGTTAA-AATGCCAATATGC
* * * ** * ** *
1334731 CGATTCACGGTTAGCGACATTAGACTTGAAGATGAGAAGAA
63 TGATTAAAGGCCAACGACATCGGACTTAAAGAT--GAAG-A
* ** *
1334772 TGCCAATTTGCTGATTCAAGGCCAATGAAATTGGGTTAAGGAAT-GTTAAAAATGCCAATATGCT
1 TGCCAATATGCTGATTCAAGGCCAGCGAAATTGGGTTAAAG-ATGGTT-AAAATGCCAATATGCT
* *
1334836 GATTCAAGGCCAACGATATCGGACTTAAAGATGAAGA
64 GATTAAAGGCCAACGACATCGGACTTAAAGATGAAGA
* * * * * ** *
1334873 TGCCAATGTGCTGATTCAAGACCGGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGAAATTGG-GTTAAAGATGGTTAAAATGCCAATATGCTG
* * *
1334938 ATTAAAGGCCAATGACATCGGTCTTAAAGATGAAGG
65 ATTAAAGGCCAACGACATCGGACTTAAAGATGAAGA
*
1334974 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
1 TGCCAATATGCTGATTCAAGGCCAGCGAAATTGGG
1335009 CTTGTACCAA
Statistics
Matches: 194, Mismatches: 37, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
101 106 0.55
102 12 0.06
103 5 0.03
104 66 0.34
105 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (100 bp):
TGCCAATATGCTGATTCAAGGCCAGCGAAATTGGGTTAAAGATGGTTAAAATGCCAATATGCTGA
TTAAAGGCCAACGACATCGGACTTAAAGATGAAGA
Found at i:1334955 original size:52 final size:49
Alignment explanation
Indices: 1334823--1334997 Score: 215
Period size: 49 Copynumber: 3.5 Consensus size: 49
1334813 AATGTTAAAA
*
1334823 ATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAG
* * ** *
1334872 ATGCCAATGTGCTGATTCAAGACCGGCGACATTGGACTTAAAGATGGTTAAG
1 ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGAT-G--AAG
* * * * *
1334924 GTGCCAATGTGCTGATTAAAGGCCAATGACATCGGTCTTAAAGATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAG
*
1334973 GTGCCAATATGCTGATTCAAGGCCA
1 ATGCCAATATGCTGATTCAAGGCCA
1334998 GCGATATTGG
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
49 65 0.61
50 1 0.01
51 1 0.01
52 40 0.37
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAG
Found at i:1335091 original size:88 final size:87
Alignment explanation
Indices: 1334924--1335445 Score: 650
Period size: 88 Copynumber: 6.0 Consensus size: 87
1334914 GATGGTTAAG
* * ** *
1334924 GTGCCAATGTGCTGATTAAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
1334989 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * * * *
1335012 GTACCAAAGTGCCGATTCAAGGCCAGCAACATTGGTCTTAAATATCAAGGTGCCAATACGCTGAT
1 GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
*
1335077 TCAAGGCTAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * * *
1335100 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGACAGGGTGCCAATATGCTGATT
1 GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1335165 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * * * * *
1335187 CTGCCAAGGTGCTGATTCATGGCCGGTGGCATTGTTCTTAAAGATAAGGTACCAATATGCTGATT
1 GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
* *
1335252 CAAGGCCAACGATAATGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
*** * * * *
1335274 GTGCCAATA-TGCTGCGACAAAGCCAGCGACATTGGTCGTAAAGATAATGGTGCCAGTCTGCTGA
1 GTGCCAA-AGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAA-GGTGCCAATATGCTGA
* *
1335338 TTCAAGGCCAGCGATATTAGACTT
64 TTCAAGGCCAGCGATATTGGGCTT
** *
1335362 GTGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGAT
1 GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
*
1335427 TCAAGGCCAGCGACATTGG
65 TCAAGGCCAGCGATATTGG
1335446 TCTTAAAGAT
Statistics
Matches: 366, Mismatches: 64, Indels: 8
0.84 0.15 0.02
Matches are distributed among these distances:
87 147 0.40
88 217 0.59
89 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1335104 original size:39 final size:39
Alignment explanation
Indices: 1335061--1335205 Score: 128
Period size: 39 Copynumber: 3.5 Consensus size: 39
1335051 AAATATCAAG
* *
1335061 GTGCCAATACGCTGATTCAAGGCTAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCAAGCGATATTGGGCTT
* * *
1335100 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCAAGCGATATTGGGCTT
*
1335139 AAAGACAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCAAGCGATATTGGGCTT
* **
1335187 CTGCCAAGGTGCTGATTCA
1 GTGCCAATATGCTGATTCA
1335206 TGGCCGGTGG
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
39 50 0.59
48 35 0.41
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCAAGCGATATTGGGCTT
Found at i:1335228 original size:175 final size:175
Alignment explanation
Indices: 1334924--1335445 Score: 661
Period size: 175 Copynumber: 3.0 Consensus size: 175
1334914 GATGGTTAAG
* * * *
1334924 GTGCCAATGTGCTGATTAAAGGCCAA-TGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGG-CAAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGA
* * *
1334988 TTCAAGGCCAGCGATATTGGGCTTGTACCAAAGTGCCGATTCAAGGCCAGCAACATTGGTCTTAA
65 TTCAAGGCCAGCGATATTGGGCTTGTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA
* * *
1335053 ATATCAAGGTGCCAATACGCTGATTCAAGGCTAGCGATATTGGGCTT
130 AGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
1335100 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGA-CAGGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * * * * * *
1335164 TCAAGGCCAGCGATATTGGGCTTCTGCCAAGGTGCTGATTCATGGCCGGTGGCATTGTTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * *
1335229 GATAAGGTACCAATATGCTGATTCAAGGCCAACGATAATGGGCTT
131 GATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *** * * * * * *
1335274 GTGCCAATATGCTGCGACAAAGCCAGCGACATTGGTCGTAAAGATAATGGTGCCAGTCTGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * **
1335339 TCAAGGCCAGCGATATTAGACTTGTGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* *
1335404 GATAAAGGTGCCAATTTGCTGATTCAAGGCCAGCGACATTGG
131 GAT-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1335446 TCTTAAAGAT
Statistics
Matches: 296, Mismatches: 47, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
174 74 0.25
175 152 0.51
176 70 0.24
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (175 bp):
GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTTGTGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
GATAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:1335348 original size:49 final size:49
Alignment explanation
Indices: 1335295--1335488 Score: 246
Period size: 49 Copynumber: 4.2 Consensus size: 49
1335285 CTGCGACAAA
* * * *
1335295 GCCAGCGACATTGGTCGTAAAGATAATGGTGCCAGTCTGCTGATTCAAG
1 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGATTCAAG
* * *
1335344 GCCAGCGATATTAGAC-T-----T----GTGCCAATTTGCTGATTCAAG
1 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGATTCAAG
1335383 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGATTCAAG
1 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGATTCAAG
*
1335432 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAG
1 GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGATTCAAG
1335481 GCCAGCGA
1 GCCAGCGA
1335489 TATTAGACTT
Statistics
Matches: 126, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
39 32 0.25
40 1 0.01
43 1 0.01
45 1 0.01
48 1 0.01
49 90 0.71
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
GCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATTTGCTGATTCAAG
Found at i:1335561 original size:28 final size:29
Alignment explanation
Indices: 1335524--1335597 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 29
1335514 CAACTTATGT
*
1335524 TTTTGAAAGGGTTG-CACGAACTTGTGTGC
1 TTTT-AAAGGGTTGCCACGAACTTGTGGGC
*
1335553 TTTTAAA-GGTTGCCACTAACTTGTGGGC
1 TTTTAAAGGGTTGCCACGAACTTGTGGGC
*
1335581 TTTGAAAGTGG-TGCCAC
1 TTTTAAAG-GGTTGCCAC
1335598 CGACTTGCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 5 0.13
28 22 0.56
29 10 0.26
30 2 0.05
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (29 bp):
TTTTAAAGGGTTGCCACGAACTTGTGGGC
Found at i:1336467 original size:49 final size:49
Alignment explanation
Indices: 1336404--1336578 Score: 208
Period size: 49 Copynumber: 3.5 Consensus size: 49
1336394 AATGTTAAAA
* *
1336404 ATGCCAATATGCTGATTTAAGGCCAACGATATCGGACTTAAAGATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAG
* * *
1336453 ATGCCAATGTGCTGATTC-AGGACCGACGACATTGGACTTAAAGATGGTTAAG
1 ATGCCAATATGCTGATTCAAGG-CCAACGACATCGGACTTAAAGAT-G--AAG
* * * *
1336505 GTGCCAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAG
* *
1336554 GTGCCAATATGTTGATTCAAGGCCA
1 ATGCCAATATGCTGATTCAAGGCCA
1336579 GCGATATTGG
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
48 3 0.03
49 62 0.57
50 1 0.01
51 1 0.01
52 39 0.36
53 3 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAG
Found at i:1336487 original size:101 final size:100
Alignment explanation
Indices: 1336249--1336588 Score: 245
Period size: 101 Copynumber: 3.3 Consensus size: 100
1336239 GTGATAAAAG
** * * ** * * * *
1336249 TGCCAATATGCTGATTCAGGACCAGTGATATTGGGCTTAAA-AAAGTAAAGAATGTCAATGTGCC
1 TGCCAATATGCTGATTCAGG-CCAACGAAATTGGACTTAAAGATGGTTAA-AATGCCAATATGCT
* ** * ** *
1336313 GATTCACGATCAGCGACATTAGACTTGAAGATGAGAAGAA
64 GATTCAAGGCCAACGACATCGGACTTAAAGAT--GAAG-A
* * * * *
1336353 TGCCAATTTACTGATTCAAGGCCAATGAAATTGG-GTTAAGGAAT-GTTAAAAATGCCAATATGC
1 TGCCAATATGCTGATTC-AGGCCAACGAAATTGGACTTAAAG-ATGGTT-AAAATGCCAATATGC
* *
1336416 TGATTTAAGGCCAACGATATCGGACTTAAAGATGAAGA
63 TGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGA
* * * ** *
1336454 TGCCAATGTGCTGATTCAGGACCGACGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTG
1 TGCCAATATGCTGATTCAGG-CCAACGAAATTGGACTTAAAGATGGTTAAAATGCCAATATGCTG
* * *
1336519 ATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGG
65 ATTCAAGGCCAACGACATCGGACTTAAAGATGAAGA
* * *
1336555 TGCCAATATGTTGATTCAAGGCCAGCGATATTGG
1 TGCCAATATGCTGATTC-AGGCCAACGAAATTGG
1336589 GCTTGTACCA
Statistics
Matches: 188, Mismatches: 40, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
100 3 0.02
101 98 0.52
102 15 0.08
103 4 0.02
104 62 0.33
105 6 0.03
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (100 bp):
TGCCAATATGCTGATTCAGGCCAACGAAATTGGACTTAAAGATGGTTAAAATGCCAATATGCTGA
TTCAAGGCCAACGACATCGGACTTAAAGATGAAGA
Found at i:1336657 original size:88 final size:87
Alignment explanation
Indices: 1336505--1337026 Score: 693
Period size: 88 Copynumber: 6.0 Consensus size: 87
1336495 GATGGTTAAG
** * *
1336505 GTGCCAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
1336570 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * * * * * *
1336593 GTACCAATGTACCGATTCAAGGCCAGCAACATTGGTCTTAAATATGAAGGTGCCAATACGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
* * *
1336658 TCAAGGCTAGCGATATTAGGTTT
65 TCAAGGCCAGCGATATTGGGCTT
* *
1336681 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1336746 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * * * *
1336768 CTGCCAAGGTGCTGATTCAAGGCCGGTGGCATTGTTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
* *
1336833 CAAGGCCAACGATATTTGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* ** * * *
1336855 ATGCCAATGTGCTGAGACAAAGCCACCGACATTGGTCTTAAAGATAATGGTGCCAGTATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAA-GGTGCCAATATGCTGAT
* *
1336920 TCAAGGCCAGCGATATTAGACTT
65 TCAAGGCCAGCGATATTGGGCTT
* * *
1336943 GCGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGATGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATATGCTGAT
1337008 TCAAGGCCAGCGATATTGG
65 TCAAGGCCAGCGATATTGG
1337027 ACTTAGAAGA
Statistics
Matches: 374, Mismatches: 58, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
87 151 0.40
88 221 0.59
89 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1336697 original size:39 final size:38
Alignment explanation
Indices: 1336654--1336790 Score: 103
Period size: 39 Copynumber: 3.3 Consensus size: 38
1336644 GCCAATACGT
*
1336654 TGATTCAAGGCTAGCGATATTAGGTTTGTGCCAATGTGC
1 TGATTCAAGGCAAGCGATATT-GGTTTGTGCCAATGTGC
* *
1336693 TGATTCAAGGCAAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGC
1 TGATTCAAGGCAAGCGATATTGGT-TT---------GTGCCAATGTGC
* * * *
1336741 TGATTCAAGGCCAGCGATATTGGGCTTCTGCCAAGGTGC
1 TGATTCAAGGCAAGCGATATT-GGTTTGTGCCAATGTGC
1336780 TGATTCAAGGC
1 TGATTCAAGGC
1336791 CGGTGGCATT
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
38 3 0.04
39 41 0.53
48 32 0.41
49 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (38 bp):
TGATTCAAGGCAAGCGATATTGGTTTGTGCCAATGTGC
Found at i:1336809 original size:175 final size:173
Alignment explanation
Indices: 1336505--1337024 Score: 673
Period size: 175 Copynumber: 3.0 Consensus size: 173
1336495 GATGGTTAAG
* * * *
1336505 GTGCCAATGTGCTGATTCAAGGCCAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGTTGAT
1 GTGCCAATGTGCTGATTCAAGG-CAACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
* * * * *
1336570 TCAAGGCCAGCGATATTGGGCTTGTACCAATGTACCGATTCAAGGCCAGCAACATTGGTCTTAAA
64 TCAAGGCCAGCGATATTGGGCTTCTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * * *
1336635 TATGAAGGTGCCAATACGTTGATTCAAGGCTAGCGATATTAGGTTT
129 GAT-AAGGTGCCAATATGATGATTCAAGGCCAGCGATATTAGGCTT
1336681 GTGCCAATGTGCTGATTCAAGGCAAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCAA-CGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * * * *
1336746 CAAGGCCAGCGATATTGGGCTTCTGCCAAGGTGCTGATTCAAGGCCGGTGGCATTGTTCTTAAAG
65 CAAGGCCAGCGATATTGGGCTTCTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
* * *
1336811 ATAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTTGGCTT
130 ATAAGGTGCCAATATGATGATTCAAGGCCAGCGATATTAGGCTT
* ** * * * *
1336855 ATGCCAATGTGCTGAGACAAAGCCACCGACATTGGTCTTAAAGATAATGGTGCCAGTATGCTGAT
1 GTGCCAATGTGCTGATTC-AAGGCAACGACATTGGTCTTAAAGACAA-GGTGCCAATATGCTGAT
* * *
1336920 TCAAGGCCAGCGATATTAGACTTGC-GCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAA
64 TCAAGGCCAGCGATATTGGGCTT-CTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA
1336984 AGATAAAGGTGCCAATATGATGATTCAAGGCCAGCGATATT
128 AGAT-AAGGTGCCAATATGATGATTCAAGGCCAGCGATATT
1337025 GGACTTAGAA
Statistics
Matches: 301, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
174 71 0.24
175 157 0.52
176 73 0.24
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (173 bp):
GTGCCAATGTGCTGATTCAAGGCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGGCTTCTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
TAAGGTGCCAATATGATGATTCAAGGCCAGCGATATTAGGCTT
Found at i:1337106 original size:28 final size:28
Alignment explanation
Indices: 1337075--1337145 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
1337065 GGTTGCACGA
* *
1337075 ACTTGTATGCTTTTAAAG-GTTGCCACTG
1 ACTTGTA-GCTTTTAAAGTGGTGCCACCG
* *
1337103 ACTTGTGGGCTTTGAAAGTGGTGCCACCG
1 ACTTGT-AGCTTTTAAAGTGGTGCCACCG
1337132 ACTTGTGAGCTTTT
1 ACTTGT-AGCTTTT
1337146 GAAAAGAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
28 15 0.43
29 20 0.57
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (28 bp):
ACTTGTAGCTTTTAAAGTGGTGCCACCG
Found at i:1338003 original size:49 final size:49
Alignment explanation
Indices: 1337933--1338110 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 49
1337923 AGGAATGTTA
* * *
1337933 AAGATGCCATTATGCTAATTCAAGGCCAACAATATCGGACTTAAAGATG
1 AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGATG
* * * ** *
1337982 AAGATGCCAATGTGCTGATTCAAGACCGGCGACATTGGACTTAAAGATGG
1 AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGAT-G
* * * *
1338032 TTAAGGTGCCGATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATG
1 --AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGATG
* * *
1338083 AAGGTGCAAATATGCTGATTCAAGGCCA
1 AAGATGCCAATATGCTAATTCAAGGCCA
1338111 GCGATATTGG
Statistics
Matches: 105, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
49 63 0.60
50 1 0.01
51 1 0.01
52 40 0.38
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (49 bp):
AAGATGCCAATATGCTAATTCAAGGCCAACGACATCGGACTTAAAGATG
Found at i:1338207 original size:48 final size:47
Alignment explanation
Indices: 1338128--1338554 Score: 240
Period size: 39 Copynumber: 9.7 Consensus size: 47
1338118 TGGGCTTGTA
*
1338128 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATAT-AA-GTG
* *
1338177 CCAA-ATGCTGATTCAAGGCCAGCGATATTGGGC-----T-T--GTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAAGTG
* * * *
1338215 CTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAAACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAA-GTG
** * * * *
1338263 ATAATATGCTGATTTAAGGCCCGCGATATTGGGC-----T-T--GTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAAGTG
* * *
1338302 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAACGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAA-GTG
* * *
1338350 CCAATATGCTGATTCAAGGCCAACGATATTGGGC-----T-T-A-TG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAAGTG
* ** * *
1338389 CCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAAGATAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATAT-AA-GTG
* *
1338438 CCAATATGCTGATTCAAGGCCAGCGATATTGG-----ACT-T--GTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAAGTG
* * * *
1338477 CCAATGTGCTAAATCAACGCCAGCGACATTGGTCTT-AATA-AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAA-GTG
* * * *
1338523 CCAATGTGCTAATTCAAGGCCAACGATATTGG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGG
1338555 ACATTGAAGA
Statistics
Matches: 284, Mismatches: 57, Indels: 77
0.68 0.14 0.18
Matches are distributed among these distances:
38 6 0.02
39 115 0.40
41 1 0.00
42 1 0.00
43 4 0.01
44 1 0.00
45 1 0.00
46 31 0.11
47 1 0.00
48 90 0.32
49 33 0.12
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (47 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATAAGTG
Found at i:1338225 original size:87 final size:88
Alignment explanation
Indices: 1338037--1338554 Score: 724
Period size: 87 Copynumber: 6.0 Consensus size: 88
1338027 GATGGTTAAG
* * * * * *
1338037 GTGCCGATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCAAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
1338102 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1338125 GTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAA-ATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
1338189 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * **
1338212 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-AACAAGGTGATAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
* *
1338276 TTAAGGCCCGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
*
1338299 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAACGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
*
1338363 TCAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* ** * *
1338386 ATGCCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
*
1338451 TCAAGGCCAGCGATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * *
1338474 GTGCCAATGTGCTAAATCAACGCCAGCGACATTGGTCTT--A-ATAAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
*
1338536 TCAAGGCCAACGATATTGG
66 TCAAGGCCAGCGATATTGG
1338555 ACATTGAAGA
Statistics
Matches: 389, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
85 38 0.10
86 10 0.03
87 218 0.56
88 123 0.32
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1338669 original size:29 final size:30
Alignment explanation
Indices: 1338569--1338681 Score: 144
Period size: 29 Copynumber: 3.8 Consensus size: 30
1338559 TGAAGAAGAC
1338569 GCCACCAACTTGTGTAGGCTTTTGAAAGGGTT
1 GCCACCAACTTGTG--GGCTTTTGAAAGGGTT
*
1338601 G-CACCAACTTGTGCGCTTTTG-AA-GGTT
1 GCCACCAACTTGTGGGCTTTTGAAAGGGTT
* *
1338628 GCCACTAACTTGTGGGC-TTTGAAAGGGGT
1 GCCACCAACTTGTGGGCTTTTGAAAGGGTT
*
1338657 GCCACCGACTTGTGGGCTTTTGAAA
1 GCCACCAACTTGTGGGCTTTTGAAA
1338682 AGTGAGGAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.13
28 17 0.24
29 25 0.35
30 7 0.10
31 12 0.17
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (30 bp):
GCCACCAACTTGTGGGCTTTTGAAAGGGTT
Found at i:1338670 original size:57 final size:58
Alignment explanation
Indices: 1338569--1338680 Score: 156
Period size: 57 Copynumber: 1.9 Consensus size: 58
1338559 TGAAGAAGAC
*
1338569 GCCACCAACTTGTGTAGGCTTTTGAAAGGGTTGCACCAACTTGTGCGCTTTTGAAGGTT
1 GCCACCAACTTGTG-AGGCTTTTGAAAGGGGTGCACCAACTTGTGCGCTTTTGAAGGTT
* * *
1338628 GCCACTAACTTGTG-GGC-TTTGAAAGGGGTGCCACCGACTTGTGGGCTTTTGAA
1 GCCACCAACTTGTGAGGCTTTTGAAAGGGGTG-CACCAACTTGTGCGCTTTTGAA
1338681 AAGTGAGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 12 0.25
57 23 0.48
59 13 0.27
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (58 bp):
GCCACCAACTTGTGAGGCTTTTGAAAGGGGTGCACCAACTTGTGCGCTTTTGAAGGTT
Found at i:1339540 original size:49 final size:51
Alignment explanation
Indices: 1339348--1339642 Score: 192
Period size: 52 Copynumber: 5.8 Consensus size: 51
1339338 TGATATTGGG
* * * ** ** * **
1339348 CTTAAAGATGTAAAGAATGTCAATGTGGTGATTCACCGTTAGCGACATTAGA
1 CTTAAAGATGGAAAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * *
1339400 CTTGAAGAT-GAGAAGAATGCTAATGTGCTGATTCAAGGCCAACGGCATTGG-
1 CTTAAAGATGGA-AAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * * * * *
1339451 GTTAAGGAAAGTTAAATATGCCAATATGCTGATTCAAGGCCAACGATATCGGA
1 CTTAAAG-ATG-GAAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
** * *
1339504 CTTAAAGAT-G-AAGATGCCAATGTGCTGATTTC-AGGCCGGCAACATTGGA
1 CTTAAAGATGGAAAGATGCCAATGTGCTGA-TTCAAGGCCAACGACATCGGA
* * *
1339553 CTTAAAGATGGTAAAGGTGCCAATGTGCTGATTCTAGGCCAACGACATCGGT
1 CTTAAAGATGG-AAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* *
1339605 CTTAAAGAT--AAATG-TGCTAATATGCTGATTCAAGGCCA
1 CTTAAAGATGGAAA-GATGCCAATGTGCTGATTCAAGGCCA
1339643 GTGATGTTGG
Statistics
Matches: 189, Mismatches: 43, Indels: 25
0.74 0.17 0.10
Matches are distributed among these distances:
49 61 0.32
50 5 0.03
51 8 0.04
52 107 0.57
53 7 0.04
54 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
CTTAAAGATGGAAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
Found at i:1339592 original size:52 final size:49
Alignment explanation
Indices: 1339468--1339642 Score: 165
Period size: 49 Copynumber: 3.5 Consensus size: 49
1339458 AAAGTTAAAT
* * * *
1339468 ATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAG
1 ATGCCAATGTGCTGATTCTAGGCCAACAACATCGGACTTAAAGATGAAG
** *
1339517 ATGCCAATGTGCTGATT-TCAGGCCGGCAACATTGGACTTAAAGATGGTAAAG
1 ATGCCAATGTGCTGATTCT-AGGCCAACAACATCGGACTTAAAGAT-G--AAG
* * * *
1339569 GTGCCAATGTGCTGATTCTAGGCCAACGACATCGGTCTTAAAGATAAATG
1 ATGCCAATGTGCTGATTCTAGGCCAACAACATCGGACTTAAAGATGAA-G
* * *
1339619 -TGCTAATATGCTGATTCAAGGCCA
1 ATGCCAATGTGCTGATTCTAGGCCA
1339643 GTGATGTTGG
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 60 0.58
50 2 0.02
52 40 0.39
53 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (49 bp):
ATGCCAATGTGCTGATTCTAGGCCAACAACATCGGACTTAAAGATGAAG
Found at i:1339763 original size:39 final size:39
Alignment explanation
Indices: 1339706--1339865 Score: 115
Period size: 39 Copynumber: 3.9 Consensus size: 39
1339696 AAATATGAAG
* * *
1339706 GTGCCAATATTCTGATCCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTAATCCAAGGCCAGCGACATTGGGCTT
* **
1339745 GTGCCAATGTGCTAATCCAAGGCCAGCGACATTGGTTTTTAAGACAAG
1 GTGCCAATATGCTAATCCAAGGCCAGCGACATTGG-------G-C-TT
* * * *
1339793 GTGCCAATATGCTGATTCAAGGCAAGCGATATTGGGCTT
1 GTGCCAATATGCTAATCCAAGGCCAGCGACATTGGGCTT
* **
1339832 GTGCCAATGTGC-AATTTAAGGCCAGCGACATTGG
1 GTGCCAATATGCTAATCCAAGGCCAGCGACATTGG
1339866 TCTTAAAGAC
Statistics
Matches: 94, Mismatches: 18, Indels: 19
0.72 0.14 0.15
Matches are distributed among these distances:
38 18 0.19
39 42 0.45
40 1 0.01
41 1 0.01
46 1 0.01
47 1 0.01
48 30 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTAATCCAAGGCCAGCGACATTGGGCTT
Found at i:1339821 original size:48 final size:46
Alignment explanation
Indices: 1339745--1339903 Score: 136
Period size: 48 Copynumber: 3.5 Consensus size: 46
1339735 TATTGGGCTT
* *
1339745 GTGCCAATGTGCTAATCCAAGGCCAGCGACATTGGTTTTTAAGACAAG
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGG--TTTAAGACAAG
* * * **
1339793 GTGCCAATATGCTGATTCAAGGCAAGCGATATTGG-----G-C-TT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGTTTAAGACAAG
* *
1339832 GTGCCAATGTGC-AATTTAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGT-TT-AAGACAAG
*
1339879 GTGCCAATATGCTGATTCAAGGCCA
1 GTGCCAATATGCTAATTCAAGGCCA
1339904 ACGATTTTGG
Statistics
Matches: 84, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
38 18 0.21
39 11 0.13
40 1 0.01
41 1 0.01
45 1 0.01
46 1 0.01
47 11 0.13
48 40 0.48
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (46 bp):
GTGCCAATATGCTAATTCAAGGCCAGCGACATTGGTTTAAGACAAG
Found at i:1340093 original size:88 final size:88
Alignment explanation
Indices: 1339569--1340089 Score: 661
Period size: 88 Copynumber: 6.0 Consensus size: 88
1339559 GATGGTAAAG
* * * * * *
1339569 GTGCCAATGTGCTGATTCTAGGCCAACGACATCGGTCTTAAAGATAAATGTGCTAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1339634 TCAAGGCCAGTGATGTTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * * * * * * *
1339657 GTACCAATGTGTTGATGCAAGTCTAGCGACATTGGTCTTAAATATGAAGGTGCCAATATTCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
1339722 CCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * *
1339745 GTGCCAATGTGCTAATCCAAGGCCAGCGACATTGGTTTTTAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
1339809 TCAAGGCAAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* *
1339832 GTGCCAATGTGC-AATTTAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1339895 TCAAGGCCAACGATTTTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* ** * * *
1339918 GTGCCAATGTGCTGAGACAAAGCCAACGACATTGGTCTTAAAGATAAAGGTGCCGATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1339983 TCAAGGCCAGCAATATTGGACTT
66 TCAAGGCCAGCGATATTGGGCTT
* * ** *
1340006 GTGCCAATGTGTTAATTCACGGCCAGCGACATTATTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1340071 TCAAGGCCAGCGATATTGG
66 TCAAGGCCAGCGATATTGG
1340090 ACTTAGAAGA
Statistics
Matches: 371, Mismatches: 60, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
86 79 0.21
87 76 0.20
88 216 0.58
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (88 bp):
GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1340173 original size:29 final size:29
Alignment explanation
Indices: 1340104--1340185 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
1340094 AGAAGAAGAC
* * *
1340104 GCCACCAACTTGTGTGCTTTTG-AAGGTT
1 GCCACCGACTTGTGGGCTTTTGAAAGGGT
*
1340132 GCCACTGACTTGTGGGC-TTTGAAAGGGGT
1 GCCACCGACTTGTGGGCTTTTGAAA-GGGT
*
1340161 GCCACCGACTTGTAGGCTTTTGAAA
1 GCCACCGACTTGTGGGCTTTTGAAA
1340186 AGTGAGGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.09
28 16 0.36
29 18 0.40
30 7 0.16
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (29 bp):
GCCACCGACTTGTGGGCTTTTGAAAGGGT
Found at i:1340977 original size:52 final size:51
Alignment explanation
Indices: 1340921--1341157 Score: 200
Period size: 49 Copynumber: 4.7 Consensus size: 51
1340911 TTGAGAAGAA
* **
1340921 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAGGAATGTTAAATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAAG-ATGTTAAAGG
* * * * * *
1340973 TGCCAATATGCTGATTCAAGGCCATCGATATCGGACTTAAAGATG---AAGA
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAAGATGTTAAAGG
* ** * *
1341022 TGCCAATGTGCTGATTCCAGGCCGGCAACATTGGACTTAAAGATGGTT-AAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAAGAT-GTTAAAGG
* * * *
1341074 TGCCAATGTGATGATTCAAGGCTAACGACATCGGTCTTAAAGA---TAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAAGATGTTAAAGG
* *
1341123 TGCCAATATGCTGATTCAAGGCCAACGATATTGGG
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGG
1341158 CTTGTGCCAA
Statistics
Matches: 150, Mismatches: 30, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
48 1 0.01
49 72 0.48
50 1 0.01
52 71 0.47
53 5 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (51 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAAGATGTTAAAGG
Found at i:1341038 original size:49 final size:49
Alignment explanation
Indices: 1340872--1341150 Score: 220
Period size: 52 Copynumber: 5.5 Consensus size: 49
1340862 TAAAGAATAT
* * * ** * *
1340872 CAATGTGCTGATTCATGGTCAGCGACATTAGACTTGAAGTTGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGAT--GAAG-ATGC
* * *
1340924 CAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAGGAATGTTAA-ATTTGC
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAG-ATG--AAGA--TGC
* * *
1340976 CAATATGCTGATTCAAGGCCATCGATATCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
* ** * * *
1341025 CAATGTGCTGATTCCAGGCCGGCAACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGAT-G--AAGATGC
* * * * *
1341077 CAATGTGATGATTCAAGGCTAACGACATCGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
*
1341126 CAATATGCTGATTCAAGGCCAACGA
1 CAATGTGCTGATTCAAGGCCAACGA
1341151 TATTGGGCTT
Statistics
Matches: 183, Mismatches: 34, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
49 66 0.36
50 5 0.03
51 5 0.03
52 102 0.56
53 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAAGATGC
Found at i:1341044 original size:101 final size:100
Alignment explanation
Indices: 1340915--1341157 Score: 281
Period size: 101 Copynumber: 2.4 Consensus size: 100
1340905 TTGAAGTTGA
* **
1340915 GAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAGGAAT-GTTAAATTTGCCAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAAG-ATGGTT-AAGGTGCCAA
* * *
1340979 TATGCTGATTCAAGGCCATCGATATCGGACTTAAAGAT
63 TATGATGATTCAAGGCCAACGACATCGGACTTAAAGAT
* ** * * *
1341017 GAAGATGCCAATGTGCTGATTCCAGGCCGGCAACATTGGACTTAAAGATGGTTAAGGTGCCAATG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAAGATGGTTAAGGTGCCAATA
* *
1341082 TGATGATTCAAGGCTAACGACATCGGTCTTAAAGAT
65 TGATGATTCAAGGCCAACGACATCGGACTTAAAGAT
* * * *
1341118 AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGG
1341158 CTTGTGCCAA
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
101 104 0.90
102 12 0.10
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (100 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTAAAGATGGTTAAGGTGCCAATAT
GATGATTCAAGGCCAACGACATCGGACTTAAAGAT
Found at i:1341176 original size:39 final size:39
Alignment explanation
Indices: 1341122--1341580 Score: 272
Period size: 39 Copynumber: 10.7 Consensus size: 39
1341112 AAAGATAAAG
*
1341122 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1341161 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * *
1341200 GTGCCAATGTGCTGATTCAAGGCTAGCGAGATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1341239 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * * * * *
1341287 GTGCCAATGTGCTGATTTAAAGGCTAGCAACATTGGTCTT
1 GTGCCAATATGCTGA-TTCAAGGCCAGCGATATTGGGCTT
* *
1341327 AAAGACAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * ** * * *
1341375 ATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T
* *
1341420 AAAAGTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* ** * *
1341463 CTGCCAACGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T
* *
1341508 AAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
1341551 GTGCCAA-AGTGTTGATTCACAGGCCAGCGA
1 GTGCCAATA-TGCTGATTCA-AGGCCAGCGA
1341581 CATTATTCTT
Statistics
Matches: 327, Mismatches: 52, Indels: 81
0.71 0.11 0.18
Matches are distributed among these distances:
38 1 0.00
39 164 0.50
40 30 0.09
43 2 0.01
45 2 0.01
48 54 0.17
49 74 0.23
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:1341367 original size:88 final size:88
Alignment explanation
Indices: 1341161--1341635 Score: 668
Period size: 88 Copynumber: 5.4 Consensus size: 88
1341151 TATTGGGCTT
* *
1341161 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCTAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTAAAGGCCAG
* *
1341226 CGAGATTGGTCTTAAAGA-CAAG
66 CGACATTGGTCTTAAAGATAAAG
*
1341248 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTTAAAGGCTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGA-TTAAAGGCCA
* *
1341313 GCAACATTGGTCTTAAAGA-CAAG
65 GCGACATTGGTCTTAAAGATAAAG
* * * * *
1341336 GTGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTTATGCCAATGTGCTGA-CACAAAGCCA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTA-AAGGCCA
*
1341400 GCGACATTGGTCTTAAAGATAAAA
65 GCGACATTGGTCTTAAAGATAAAG
* * * * *
1341424 GTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTTCTGCCAACGTGCTGATTCAAGGCCAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTAAAGGCCAG
1341489 CGACATTGGTCTTAAAGATAAAG
66 CGACATTGGTCTTAAAGATAAAG
* * * * *
1341512 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGTGCCAAAGTGTTGATTCACAGGCCA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATT-AAAGGCCA
** *
1341577 GCGACATTATTCTTAAAGATGAAG
65 GCGACATTGGTCTTAAAGATAAAG
1341601 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1341636 ACTTAGAAGA
Statistics
Matches: 350, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.00
87 77 0.22
88 211 0.60
89 61 0.17
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (88 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTAAAGGCCAG
CGACATTGGTCTTAAAGATAAAG
Found at i:1341719 original size:29 final size:29
Alignment explanation
Indices: 1341650--1341731 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
1341640 AGAAGAAGAC
* * *
1341650 GCCACCAACTTGTGTGCTTTTG-AAGGTT
1 GCCACCGACTTGTGGGCTTTTGAAAGGGT
*
1341678 GCCACTGACTTGTGGGC-TTTGAAAGGGGT
1 GCCACCGACTTGTGGGCTTTTGAAA-GGGT
*
1341707 GCCACCGACTTGTAGGCTTTTGAAA
1 GCCACCGACTTGTGGGCTTTTGAAA
1341732 AGTGAGGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.09
28 16 0.36
29 18 0.40
30 7 0.16
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (29 bp):
GCCACCGACTTGTGGGCTTTTGAAAGGGT
Found at i:1342584 original size:49 final size:49
Alignment explanation
Indices: 1342363--1343151 Score: 354
Period size: 49 Copynumber: 16.9 Consensus size: 49
1342353 GTGATAAAGC
* * * * * * * *
1342363 TGCCAATATACTGATTCAAGACTAGTGATATTGGGCTTAAAGATATAAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG--ATGAAG-G
* * * * * * * *
1342415 TGTCAATGTGCTGATTCATGGTCAGCGACATTAGACTTGAAGTTGAGAAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAG-G
* * * **
1342467 TGCCAATGTGCTGATTCAAGGCCAACGACATTAGG--TTAAGGAATGTTAAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAG-ATG---AAGG
* * * *
1342519 TGCCAATATGCTGATTCAAGGCCATCGATATCGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * *
1342568 TGCCAATGTGCTGATTCCAGGCCGGCAACATTGGACTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGG
* * * * ** * *
1342620 TGCCAATGTGATGATTCAAGGCTAACGACATCAGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
1342669 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
1342708 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * *
1342757 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * * *
1342796 TGCCAATGTGCTGATTCAAGGCTAGCGAGATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* *
1342844 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * * * *
1342883 TGCCAATGTGCTGATTTAAAGGCTAGCAACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGA-TTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* * * *
1342932 TGCCAATATGCTGATTCAAAGCCAACGATATTGGGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* ** * * * *
1342971 TGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* *
1343020 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T----C
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
** * *
1343059 TGCCAACGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
* *
1343108 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1343152 AGATGCCACC
Statistics
Matches: 561, Mismatches: 110, Indels: 134
0.70 0.14 0.17
Matches are distributed among these distances:
39 141 0.25
40 21 0.04
41 2 0.00
43 3 0.01
45 3 0.01
47 3 0.01
48 51 0.09
49 183 0.33
50 7 0.01
51 6 0.01
52 133 0.24
53 8 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
Found at i:1342659 original size:52 final size:51
Alignment explanation
Indices: 1342418--1342696 Score: 217
Period size: 52 Copynumber: 5.5 Consensus size: 51
1342408 TAAAGAATGT
* * * * * * ** *
1342418 CAATGTGCTGATTCATGGTCAGCGACATTAGACTTGAAGTTGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGTTAAG-GTGC
* * * **
1342470 CAATGTGCTGATTCAAGGCCAACGACATTAG-GTTAAGGAATGTTAAATTTGC
1 CAATGTGCTGATTCAAGGCCAACGACATCAGACTTAAAG-ATGTT-AAGGTGC
* * * * *
1342522 CAATATGCTGATTCAAGGCCATCGATATCGGACTTAAAGATG--AAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGTTAAGGTGC
* ** * **
1342571 CAATGTGCTGATTCCAGGCCGGCAACATTGGACTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATCAGACTTAAAGAT-GTTAAGGTGC
* * * *
1342623 CAATGTGATGATTCAAGGCTAACGACATCAGTCTTAAAGA--TAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGTTAAGGTGC
*
1342672 CAATATGCTGATTCAAGGCCAACGA
1 CAATGTGCTGATTCAAGGCCAACGA
1342697 TATTGGGCTT
Statistics
Matches: 180, Mismatches: 41, Indels: 15
0.76 0.17 0.06
Matches are distributed among these distances:
49 69 0.38
50 1 0.01
51 4 0.02
52 99 0.55
53 7 0.04
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (51 bp):
CAATGTGCTGATTCAAGGCCAACGACATCAGACTTAAAGATGTTAAGGTGC
Found at i:1342702 original size:101 final size:100
Alignment explanation
Indices: 1342466--1342702 Score: 262
Period size: 101 Copynumber: 2.4 Consensus size: 100
1342456 GTTGAGAAGA
* ** *
1342466 ATGCCAATGTGCTGATTCAAGGCCAACGACATTAGGTTAAGGAATGTTAAATTTGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATT-GGTTAAAGAATGTTAAAGGTGCCAATATGAT
* * * *
1342531 GATTCAAGGCCATCGATATCGGACTTAAAGATGAAG
65 GATTCAAGGCCAACGACATCAGACTTAAAGATAAAG
* ** * *
1342567 ATGCCAATGTGCTGATTCCAGGCCGGCAACATTGGACTTAAAG-ATGGTT-AAGGTGCCAATGTG
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGG--TTAAAGAAT-GTTAAAGGTGCCAATATG
* *
1342630 ATGATTCAAGGCTAACGACATCAGTCTTAAAGATAAAG
63 ATGATTCAAGGCCAACGACATCAGACTTAAAGATAAAG
* * *
1342668 GTGCCAATATGCTGATTCAAGGCCAACGATATTGG
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1342703 GCTTGTGCCA
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
100 2 0.02
101 101 0.91
102 8 0.07
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (100 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGTTAAAGAATGTTAAAGGTGCCAATATGATG
ATTCAAGGCCAACGACATCAGACTTAAAGATAAAG
Found at i:1342934 original size:175 final size:176
Alignment explanation
Indices: 1342619--1343141 Score: 798
Period size: 175 Copynumber: 3.0 Consensus size: 176
1342609 GATGGTTAAG
* * **
1342619 GTGCCAATGTGATGATTCAAGGCTAACGACATCAGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
1342684 TCAAGGCCAACGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * *
1342749 TATGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT
131 GATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
* *
1342795 GTGCCAATGTGCTGATTCAAGGCTAGCGAGATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * *
1342859 TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTTAAAGGCTAGCAACATTGGTCTTAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGA-TTCAAGGCCAGCGACATTGGTCTTAA
* *
1342924 AGA-CAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTT
130 AGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
* ** * * *
1342970 ATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * *
1343035 TCAAGGCCAGCGATATTGGACTTCTGCCAACGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
1343100 GATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
131 GATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
1343142 ACTTAGAAGA
Statistics
Matches: 313, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
175 159 0.51
176 154 0.49
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (176 bp):
GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
GATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
Found at i:1343094 original size:263 final size:264
Alignment explanation
Indices: 1342619--1343141 Score: 816
Period size: 263 Copynumber: 2.0 Consensus size: 264
1342609 GATGGTTAAG
* *
1342619 GTGCCAATGTGATGATTCAAGGCTAACGACATCAGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGATGATTAAAGGCTAACAACATCAGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* * ** *
1342684 TCAAGGCCAACGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
66 TCAAAGCCAACGATATTGGGCTTATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAAA
* * * * * * *
1342749 TATGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCA
131 GATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTCTGCCAACGTGCTGATTCA
* * * *
1342814 AGGCTAGCGAGATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
196 AGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
1342878 GCTT
261 GCTT
* * ** *
1342882 GTGCCAATGTGCTGATTTAAAGGCTAGCAACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGA
1 GTGCCAATGTGATGA-TTAAAGGCTAACAACATCAGTCTTAAAGATAAAGGTGCCAATATGCTGA
1342946 TTCAAAGCCAACGATATTGGGCTTATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAA
65 TTCAAAGCCAACGATATTGGGCTTATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAA
1343011 AGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTCTGCCAACGTGCTGATTC
130 AGATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTCTGCCAACGTGCTGATTC
1343076 AAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
195 AAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTG
1343141 G
260 G
1343142 ACTTAGAAGA
Statistics
Matches: 235, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
263 174 0.74
264 61 0.26
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (264 bp):
GTGCCAATGTGATGATTAAAGGCTAACAACATCAGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAAGCCAACGATATTGGGCTTATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAAA
GATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTCTGCCAACGTGCTGATTCA
AGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGG
GCTT
Found at i:1343145 original size:88 final size:88
Alignment explanation
Indices: 1342619--1343141 Score: 780
Period size: 88 Copynumber: 6.0 Consensus size: 88
1342609 GATGGTTAAG
* * * **
1342619 GTGCCAATGTGATGATTCAAGGCTAACGACATCAGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1342684 TCAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * *
1342707 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
1342772 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * *
1342795 GTGCCAATGTGCTGATTCAAGGCTAGCGAGATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
1342859 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * * *
1342882 GTGCCAATGTGCTGATTTAAAGGCTAGCAACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGA
1 GTGCCAATGTGCTGA-TTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGA
*
1342946 TTCAAAGCCAACGATATTGGGCTT
65 TTCAAGGCCAACGATATTGGGCTT
* ** * *
1342970 ATGCCAATGTGCTGACACAAAGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
1343035 TCAAGGCCAGCGATATTGGACTT
66 TCAAGGCCAACGATATTGGGCTT
* *
1343058 CTGCCAACGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1343123 TCAAGGCCAACGATATTGG
66 TCAAGGCCAACGATATTGG
1343142 ACTTAGAAGA
Statistics
Matches: 395, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
87 79 0.20
88 316 0.80
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAACGATATTGGGCTT
Found at i:1343210 original size:29 final size:29
Alignment explanation
Indices: 1343168--1343268 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 29
1343158 CACCAATTTG
1343168 TGTGGGCTTTTGAAAGGGTTGCACCAACT
1 TGTGGGCTTTTGAAAGGGTTGCACCAACT
* * * **
1343197 TGTGTGCTTTTG-AAGGTTTCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCACCAACT
* *
1343225 TGTGGGC-TTCGAAAAGGG-TGCCACCGACT
1 TGTGGGCTTTTG-AAAGGGTTG-CACCAACT
1343254 TGTGGGCTTTTGAAA
1 TGTGGGCTTTTGAAA
1343269 AGTGAGGTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.05
28 19 0.33
29 32 0.56
30 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTTGCACCAACT
Found at i:1344164 original size:19 final size:19
Alignment explanation
Indices: 1344120--1344175 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1344110 CTGTCAATTT
**
1344120 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1344140 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1344159 CATGTATCGATATAATG
1 CATGTATCGATACAATG
1344176 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1344182 original size:32 final size:33
Alignment explanation
Indices: 1344141--1344203 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
1344131 ACAATTGTCC
*
1344141 ATGTATCGATACAATG-A-ACATGTATCGATATA
1 ATGTATCGATACAAAGCAGA-ATGTATCGATATA
1344173 ATGTATCGATACAAAGCAGAATGTATCGATA
1 ATGTATCGATACAAAGCAGAATGTATCGATA
1344204 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAGAATGTATCGATATA
Found at i:1346644 original size:13 final size:13
Alignment explanation
Indices: 1346626--1346653 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1346616 AATAGTACCT
1346626 AATGTATCGATAC
1 AATGTATCGATAC
1346639 AATGTATCGATAC
1 AATGTATCGATAC
1346652 AA
1 AA
1346654 GGAATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1350197 original size:289 final size:289
Alignment explanation
Indices: 1349678--1350228 Score: 1066
Period size: 289 Copynumber: 1.9 Consensus size: 289
1349668 TGTCATAGTT
1349678 AAGGTATGTCATTGTTGTCGGCAACAAAACATACGTTTTGGGAACTTAAAACATCTAAATGTACA
1 AAGGTATGTCATTGTTGTCGGCAACAAAACATACGTTTTGGGAACTTAAAACATCTAAATGTACA
1349743 ATATAAATGTTCCCTTCCCTATGGCTTAAGAAAATTGTTTTATTATTACTAGTATCAATTACGTG
66 ATATAAATGTTCCCTTCCCTATGGCTTAAGAAAATTGTTTTATTATTACTAGTATCAATTACGTG
1349808 ACAATTTTGTGATTCGAAAACTACTTTTATACCTTTGTCACATAATTGACTAATGCTAAGGAGGT
131 ACAATTTTGTGATTCGAAAACTACTTTTATACCTTTGTCACATAATTGACTAATGCTAAGGAGGT
*
1349873 TGGGCTTAAGACCATTGACATATAAAACATTTTCAATGAAAAATAAAGAGATGTTACATATGGTG
196 TGGGCTTAAGACCATTGACATATAAAACATTTTCAATGAAAAATAAAGAGATGTTACAAATGGTG
1349938 CCCGTGTCCTAATTTTCGGTGCCATAGCC
261 CCCGTGTCCTAATTTTCGGTGCCATAGCC
1349967 AAGGTATGTCATTGTTGTCGGCAACAAAACATACGTTTTGGGAACTTAAAACATCTAAATGTACA
1 AAGGTATGTCATTGTTGTCGGCAACAAAACATACGTTTTGGGAACTTAAAACATCTAAATGTACA
*
1350032 ATATAAATGTTCCCTTCCCTATGGCTTAAGAAAATTGTTTTATTATTACTAGTATTAATTACGTG
66 ATATAAATGTTCCCTTCCCTATGGCTTAAGAAAATTGTTTTATTATTACTAGTATCAATTACGTG
1350097 ACAATTTTGTGATTCGAAAACTACTTTTATACCTTTGTCACATAATTGACTAATGCTAAGGAGGT
131 ACAATTTTGTGATTCGAAAACTACTTTTATACCTTTGTCACATAATTGACTAATGCTAAGGAGGT
* *
1350162 TGGGCTTAAGACCATTGACATATAAAATATTTTCAATGAAAAATGAAGAGATGTTACAAATGGTG
196 TGGGCTTAAGACCATTGACATATAAAACATTTTCAATGAAAAATAAAGAGATGTTACAAATGGTG
1350227 CC
261 CC
1350229 GATTCCTTCG
Statistics
Matches: 258, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
289 258 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (289 bp):
AAGGTATGTCATTGTTGTCGGCAACAAAACATACGTTTTGGGAACTTAAAACATCTAAATGTACA
ATATAAATGTTCCCTTCCCTATGGCTTAAGAAAATTGTTTTATTATTACTAGTATCAATTACGTG
ACAATTTTGTGATTCGAAAACTACTTTTATACCTTTGTCACATAATTGACTAATGCTAAGGAGGT
TGGGCTTAAGACCATTGACATATAAAACATTTTCAATGAAAAATAAAGAGATGTTACAAATGGTG
CCCGTGTCCTAATTTTCGGTGCCATAGCC
Found at i:1352818 original size:13 final size:13
Alignment explanation
Indices: 1352800--1352830 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1352790 ACATTTCTTC
1352800 ATGTATTGATACA
1 ATGTATTGATACA
1352813 ATGTATTGATACA
1 ATGTATTGATACA
*
1352826 TTGTA
1 ATGTA
1352831 CCATGCATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:1352919 original size:19 final size:19
Alignment explanation
Indices: 1352875--1352930 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1352865 CAACCAGTTT
**
1352875 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1352895 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1352914 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1352931 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1352933 original size:13 final size:13
Alignment explanation
Indices: 1352915--1352941 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1352905 TACAATGAAC
1352915 ATGTATCGATACA
1 ATGTATCGATACA
1352928 ATGTATCGATACA
1 ATGTATCGATACA
1352941 A
1 A
1352942 AGCAGAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1353926 original size:52 final size:52
Alignment explanation
Indices: 1353861--1354163 Score: 142
Period size: 52 Copynumber: 5.9 Consensus size: 52
1353851 GTGATAAAGG
* * * ** *
1353861 TGCCAATATGCTGATTCA-GGACTAGTGATATTGGGCTTAAAGATGTA-AAGAA
1 TGCCAATGTGCTGATTCACGGAC-AGCGACATCAGACTTAAAGATG-AGAAGAA
* * *
1353913 TGTCAATGTGCTGATTCACGGTCAGCGACATCAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCACGGACAGCGACATCAGACTTAAAGATGAGAAGAA
* * * * ** *
1353965 TGCCAATGTGCTGATTCAAGGCCAACGACAT-TGGGTTAAGGAATGCTA-AAG-A
1 TGCCAATGTGCTGATTCACGGACAGCGACATCAGACTTAAAG-ATG--AGAAGAA
* * * * * * *
1354017 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAAAT--GAAG-A
1 TGCCAATGTGCTGATTCACGGACAGCGACATCAGACTTAAAGATGAGAAGAA
* * ** *
1354066 TGCCAATGTGCTGATTCAAGG-CTGACGACATTGGACTTAAAGATG-GTTAAG-G
1 TGCCAATGTGCTGATTCACGGACAG-CGACATCAGACTTAAAGATGAG--AAGAA
* * * * * * *
1354118 TGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCATAAAGATGA
1 TGCCAATGTGCTGATTCACGGACAGCGACATCAGACTTAAAGATGA
1354164 AGGTGCCAAT
Statistics
Matches: 200, Mismatches: 38, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
48 1 0.00
49 40 0.20
50 1 0.00
51 6 0.03
52 139 0.69
53 12 0.06
54 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCACGGACAGCGACATCAGACTTAAAGATGAGAAGAA
Found at i:1354031 original size:104 final size:101
Alignment explanation
Indices: 1353890--1354204 Score: 321
Period size: 101 Copynumber: 3.1 Consensus size: 101
1353880 GACTAGTGAT
* * * * * * *
1353890 ATTGGGCTTAAAGATGTAAAGAATGTCAATGTGCTGATTCACGGTCAGCGACATCAGACTTGAAG
1 ATTGGGCTTAAAGATGTAAAGAATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAA
1353955 ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGAC
66 AT--GAAG-ATGCCAATGTGCTGATTCAAGGCCAACGAC
* * *
1353994 ATTGGG-TTAAGGAATGCTAAAG-ATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAA
1 ATTGGGCTTAAAG-ATG-TAAAGAATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTAA
**
1354057 AAATGAAGATGCCAATGTGCTGATTCAAGGCTGACGAC
64 AAATGAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
* * * * * * * *
1354095 ATTGGACTTAAAGATGGTTAAG-GTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCATAAA
1 ATTGGGCTTAAAGAT-GTAAAGAATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTAAA
* * * * * *
1354159 GATGAAGGTGCCAATATGATGATTCAAGGCCAGCGAT
65 AATGAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
1354196 ATTGGGCTT
1 ATTGGGCTT
1354205 GTACCAATGT
Statistics
Matches: 177, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
101 112 0.63
102 10 0.06
103 5 0.03
104 45 0.25
105 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
ATTGGGCTTAAAGATGTAAAGAATGCCAATATGCTGATTCAAGGCCAACGACATCAGACTTAAAA
ATGAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
Found at i:1354082 original size:49 final size:49
Alignment explanation
Indices: 1353896--1354433 Score: 269
Period size: 49 Copynumber: 11.4 Consensus size: 49
1353886 TGATATTGGG
* * * * *
1353896 CTTAAAGATGTAAAGAATGTCAATGTGCTGATTCACGGTCAGCGACATCAGA
1 CTTAAAGATG--AAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* *
1353948 CTTGAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTGG-
1 CTTAAAGAT--GAAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * *
1353999 GTTAAGGAATGCTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGA
1 CTTAAAG-ATG---AAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* ** *
1354052 CTTAAAAATGAAGATGCCAATGTGCTGATTCAAGGCTGACGACATTGGA
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * *
1354101 CTTAAAGATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAACGACATCGGT
1 CTTAAAGAT-G--AAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * * * * * *
1354153 CATAAAGATGAAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGGG
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * * *
1354202 CTT---G-T----A--CCAATGTGCTGATTCCAGGCCAGCAACATTGGT
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * * * * *
1354241 CTTAAATATGAAGGTGCCAATATGCTGACTCAAGGCCAACGATATTGGG
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * *
1354290 C-T-----T---G-TGCCAATGTGCTGATTCAAGGCCAACGATATTGGG
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * *
1354329 C-T-----T---G-TGCCAATGTGCTGATTCAAGGCCAAAGACATTGGT
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
* * * * * *
1354368 CTTAAAGATAAAGCTGCCAATGTGCTAATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
*
1354417 CTT--AGAAGAAGATGCCA
1 CTTAAAGATGAAGATGCCA
1354434 CCAACTTGTG
Statistics
Matches: 391, Mismatches: 65, Indels: 65
0.75 0.12 0.12
Matches are distributed among these distances:
39 100 0.26
40 2 0.01
43 2 0.01
45 2 0.01
46 1 0.00
47 11 0.03
48 2 0.01
49 137 0.35
50 2 0.01
51 5 0.01
52 119 0.30
53 7 0.02
54 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACGACATCGGA
Found at i:1354228 original size:39 final size:39
Alignment explanation
Indices: 1354166--1354366 Score: 195
Period size: 39 Copynumber: 4.9 Consensus size: 39
1354156 AAAGATGAAG
* * *
1354166 GTGCCAATATGATGATTCAAGGCCAGCGATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTT
* * * * * *
1354205 GTACCAATGTGCTGATTCCAGGCCAGCAACATTGGTCTTAAATAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGC-----T-T
* *
1354250 GAAGGTGCCAATATGCTGACTCAAGGCCAACGATATTGGGCTT
1 ----GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTT
1354293 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTT
1 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTT
* *
1354332 GTGCCAATGTGCTGATTCAAGGCCAAAGACATTGG
1 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGG
1354367 TCTTAAAGAT
Statistics
Matches: 133, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
39 100 0.75
43 1 0.01
44 2 0.02
45 1 0.01
49 29 0.22
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTT
Found at i:1354327 original size:88 final size:88
Alignment explanation
Indices: 1354117--1354327 Score: 314
Period size: 88 Copynumber: 2.4 Consensus size: 88
1354107 GATGGTTAAG
* * *
1354117 GTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCATAAAGATGAAGGTGCCAATATGATGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCATAAAGATGAAGGTGCCAATATGATGAC
*
1354182 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
* * * * * * *
1354205 GTACCAATGTGCTGATTCCAGGCCAGCAACATTGGTCTTAAATATGAAGGTGCCAATATGCTGAC
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCATAAAGATGAAGGTGCCAATATGATGAC
1354270 TCAAGGCCAACGATATTGGGCTT
66 TCAAGGCCAACGATATTGGGCTT
*
1354293 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGG
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1354328 GCTTGTGCCA
Statistics
Matches: 107, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCATAAAGATGAAGGTGCCAATATGATGAC
TCAAGGCCAACGATATTGGGCTT
Found at i:1354401 original size:127 final size:127
Alignment explanation
Indices: 1354166--1354415 Score: 367
Period size: 127 Copynumber: 2.0 Consensus size: 127
1354156 AAAGATGAAG
* *
1354166 GTGCCAATATGATGATTCAAGGCCAGCGATATTGGGCTTGTACCAATGTGCTGATTCCAGGCCAG
1 GTGCCAATATGATGATTCAAGGCCAACGATATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAG
* * * * *
1354231 CAACATTGGTCTTAAATATGAAGGTGCCAATATGCTGACTCAAGGCCAACGATATTGGGCTT
66 AAACATTGGTCTTAAAGATAAAGCTGCCAATATGCTAACTCAAGGCCAACGATATTGGGCTT
* * *
1354293 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCA-
1 GTGCCAATATGATGATTCAAGGCCAACGATATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAG
* * *
1354357 AAGACATTGGTCTTAAAGATAAAGCTGCCAATGTGCTAATTCAAGGCCAGCGATATTGG
66 AA-ACATTGGTCTTAAAGATAAAGCTGCCAATATGCTAACTCAAGGCCAACGATATTGG
1354416 ACTTAGAAGA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
126 1 0.01
127 108 0.99
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (127 bp):
GTGCCAATATGATGATTCAAGGCCAACGATATTGGGCTTGTACCAATGTGCTGATTCAAGGCCAG
AAACATTGGTCTTAAAGATAAAGCTGCCAATATGCTAACTCAAGGCCAACGATATTGGGCTT
Found at i:1354527 original size:29 final size:30
Alignment explanation
Indices: 1354442--1354542 Score: 113
Period size: 29 Copynumber: 3.5 Consensus size: 30
1354432 CACCAACTTG
*
1354442 TGTGGGCTTTTGAAAGGGTTG-CACCAACTT
1 TGTGGGCTTTTGAAAGGGTTGCCACCGAC-T
*
1354472 TGTGGGC-TTTG-AA-GGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACCGACT
* *
1354499 TATGGG-TTTTGAAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACCGACT
*
1354528 TGTGGGCTCTTGAAA
1 TGTGGGCTTTTGAAA
1354543 AGTGAGGAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
27 15 0.25
28 9 0.15
29 21 0.36
30 14 0.24
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.32
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGTTGCCACCGACT
Found at i:1355392 original size:49 final size:50
Alignment explanation
Indices: 1355202--1355512 Score: 284
Period size: 52 Copynumber: 6.1 Consensus size: 50
1355192 GACTAGTGAT
* * * *
1355202 ATTGGGCTTAAAGATGTAAAGAATGTCAATGTGCTGATTCACGGTCAACGAC
1 ATTGGACTTAAAGATGT-AAG-ATGCCAATGTGCTGATTCAAGGCCAACGAC
* * * *
1355254 ATTAGACTTGAAGATGAGAAGAATGCCAACGTGCTGATTCAAGGCCAACGAC
1 ATTGGACTTAAAGATG-TAAG-ATGCCAATGTGCTGATTCAAGGCCAACGAC
** * * * *
1355306 ATTGGGGTTAAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAATGAT
1 ATTGGACTTAAAG-ATG-T-AAGATGCCAATGTGCTGATTCAAGGCCAACGAC
* * * *
1355359 ATCGGACTTAAAGATG-AAGATGCCAATGTGCTGATTCACGACCGACGAC
1 ATTGGACTTAAAGATGTAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
* * *
1355408 ATTGGACTTAAAGATGGTTAAGCTGCCAATGTGCTGATTCCAGGCCAACGGC
1 ATTGGACTTAAAGAT-G-TAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
* * * * * *
1355460 ATCGGTCTTAAAGATG-AAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
1 ATTGGACTTAAAGATGTAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
1355509 ATTG
1 ATTG
1355513 AGCTTGTACT
Statistics
Matches: 208, Mismatches: 45, Indels: 15
0.78 0.17 0.06
Matches are distributed among these distances:
49 71 0.34
50 1 0.00
51 1 0.00
52 94 0.45
53 38 0.18
54 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (50 bp):
ATTGGACTTAAAGATGTAAGATGCCAATGTGCTGATTCAAGGCCAACGAC
Found at i:1355456 original size:154 final size:152
Alignment explanation
Indices: 1355169--1355503 Score: 383
Period size: 154 Copynumber: 2.2 Consensus size: 152
1355159 AAGAGTGATA
* * * * * *
1355169 AAAGTGCCAATATGCTGATT-TAGGACTAGTGATATTGGGCTTAAAGATGTAAAGAATGTCAATG
1 AAAGTGCCAATATGCTGATTCAAGG-CCAATGATATCGGACTTAAAGATG-AAAGAATGCCAATG
** *
1355233 TGCTGATTCACGGTCAACGACATTAGACTTGAAGATGAGAAGAATGCCAACGTGCTGATTCAAGG
64 TGCTGATTCACGACCAACGACATTAGACTTAAAGATGAGAAGAATGCCAACGTGCTGATTCAAGG
* * *
1355298 CCAACGACATTGGGGTTAAGGAATG
129 CCAACGACATCGGGCTTAAAG-ATG
1355323 TTAAAGATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG-AAG-ATGCCAAT
1 --AAAG-TGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAAGAATGCCAAT
* * * * *
1355386 GTGCTGATTCACGACCGACGACATTGGACTTAAAGATG-GTTAAG-CTGCCAATGTGCTGATTCC
63 GTGCTGATTCACGACCAACGACATTAGACTTAAAGATGAG--AAGAATGCCAACGTGCTGATTCA
* *
1355449 AGGCCAACGGCATCGGTCTTAAAGATG
126 AGGCCAACGACATCGGGCTTAAAGATG
*
1355476 AAGGTGCCAATATGCTGATTCAAGGCCA
1 AAAGTGCCAATATGCTGATTCAAGGCCA
1355504 GCGATATTGA
Statistics
Matches: 155, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
150 24 0.15
151 3 0.02
153 4 0.03
154 75 0.48
155 6 0.04
156 4 0.03
157 36 0.23
158 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (152 bp):
AAAGTGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAAGAATGCCAATGTG
CTGATTCACGACCAACGACATTAGACTTAAAGATGAGAAGAATGCCAACGTGCTGATTCAAGGCC
AACGACATCGGGCTTAAAGATG
Found at i:1355470 original size:101 final size:102
Alignment explanation
Indices: 1355202--1355499 Score: 307
Period size: 101 Copynumber: 2.9 Consensus size: 102
1355192 GACTAGTGAT
* * * * * ** *
1355202 ATTGGGCTTAAAG-ATG-TAAAGAATGTCAATGTGCTGATTCACGGTCAACGACATTAGACTTGA
1 ATTGGACTTAAAGAATGTTAAAG-ATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAA
* *
1355265 AGATGAGAAGAATGCCAACGTGCTGATTCAAGGCCAACGAC
65 AGAT--GAAG-ATGCCAATGTGCTGATTCAAGACCAACGAC
** * * *
1355306 ATTGGGGTTAAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAA
1 ATTGGACTTAAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAA
* *
1355371 GATGAAGATGCCAATGTGCTGATTCACGACCGACGAC
66 GATGAAGATGCCAATGTGCTGATTCAAGACCAACGAC
* * * * *
1355408 ATTGGACTTAAAG-ATGGTT-AAGCTGCCAATGTGCTGATTCCAGGCCAACGGCATCGGTCTTAA
1 ATTGGACTTAAAGAAT-GTTAAAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAA
* *
1355471 AGATGAAGGTGCCAATATGCTGATTCAAG
65 AGATGAAGATGCCAATGTGCTGATTCAAG
1355500 GCCAGCGATA
Statistics
Matches: 163, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
101 65 0.40
102 39 0.24
103 4 0.02
104 11 0.07
105 39 0.24
106 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (102 bp):
ATTGGACTTAAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTAAA
GATGAAGATGCCAATGTGCTGATTCAAGACCAACGAC
Found at i:1355623 original size:39 final size:39
Alignment explanation
Indices: 1355568--1355814 Score: 152
Period size: 39 Copynumber: 5.9 Consensus size: 39
1355558 AATATGAAAG
* *
1355568 TGCCAATATGCGGATTCAAGGCCAACGATATTGGGCTTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTC
* * * **
1355607 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTATTAAAGAC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-----C
* *
1355651 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTG
1 ----TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTC
* * * *
1355694 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGAC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-----C
* *
1355738 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 ----TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTC
* ** * *
1355781 TGCCAATGTGCTGAGACAAAGCCAGCGACATTGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1355815 TCTTAAATAA
Statistics
Matches: 158, Mismatches: 32, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
39 92 0.58
44 1 0.01
48 65 0.41
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTC
Found at i:1355678 original size:48 final size:48
Alignment explanation
Indices: 1355607--1355765 Score: 192
Period size: 48 Copynumber: 3.5 Consensus size: 48
1355597 ATTGGGCTTC
*
1355607 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTATTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGTATTAAAGACAAGG
* * **
1355655 TGCCAATATGCTGATTCAAGGCCA--G-C---GATATT--AGGC-TTG
1 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGTATTAAAGACAAGG
* *
1355694 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGTATTAAAGACAAGG
1355742 TGCCAATATGCTGATTCAAGGCCA
1 TGCCAATATGCTGATTCAAGGCCA
1355766 ACGATATTGG
Statistics
Matches: 90, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
39 24 0.27
40 3 0.03
41 1 0.01
42 6 0.07
45 5 0.06
46 1 0.01
47 3 0.03
48 47 0.52
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGTGACATTGGTATTAAAGACAAGG
Found at i:1355692 original size:87 final size:87
Alignment explanation
Indices: 1355431--1355956 Score: 655
Period size: 88 Copynumber: 6.0 Consensus size: 87
1355421 ATGGTTAAGC
* * * * *
1355431 TGCCAATGTGCTGATTCCAGGCCAACGGCATCGGTCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1355496 CAAGGCCAGCGATATTGAGCTTG
66 CAAGGCCAGCGATATTG-GCTTA
* * * * * * * *
1355519 TACTAGTGTGCTGATTAAAGGCTAGTGACATTGGTCTTAAATATGAAA-GTGCCAATATGCGGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAAGGTGCCAATATGCTGAT
* *
1355583 TCAAGGCCAACGATATTGGGCTTC
65 TCAAGGCCAGCGATATT-GGCTTA
* * *
1355607 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTATTAAAGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1355671 CAAGGCCAGCGATATTAGGCTTG
66 CAAGGCCAGCGATATT-GGCTTA
* *
1355694 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
*
1355758 CAAGGCCAACGATATTGGGCTTA
66 CAAGGCCAGCGATATT-GGCTTA
** * * *
1355781 TGCCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAATA-AAATGGTGCCAACATGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAA-GGTGCCAATATGCTGAT
1355845 TCAAGGCCAGCGATATTGGACTTA
65 TCAAGGCCAGCGATATTGG-CTTA
* * ** *
1355869 TGCCAATGTACTGATTCTACACCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1355934 CAAGGCCAGCGATATTGGACTTA
66 CAAGGCCAGCGATATTGG-CTTA
1355957 GAAGAAGACG
Statistics
Matches: 384, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
86 2 0.01
87 161 0.42
88 215 0.56
89 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGCTTA
Found at i:1355723 original size:175 final size:173
Alignment explanation
Indices: 1355430--1355951 Score: 702
Period size: 175 Copynumber: 3.0 Consensus size: 173
1355420 GATGGTTAAG
* * * * *
1355430 CTGCCAATGTGCTGATTCCAGGCCAACGGCATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 CTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-AAAGGTGCCAATATGCTGAT
* * * * *
1355495 TCAAGGCCAGCGATATTGAGCTTGTACTAGTGTGCTGATTAAAGGCTAGTGACATTGGTCTTAAA
65 TCAAGGCCAGCGATATTG-GCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAA
* *
1355560 TATGAAAGTGCCAATATGCGGATTCAAGGCCAACGATATTGGGCTT
129 GAT-AAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
* * *
1355606 CTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTATTAAAGACAAGGTGCCAATATGCTGATT
1 CTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATT
1355671 CAAGGCCAGCGATATTAGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAG
66 CAAGGCCAGCGATATT-GGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAG
* *
1355736 ACAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
130 ATAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
* ** * * *
1355780 ATGCCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAATAAAATGGTGCCAACATGCTGAT
1 CTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAA-GGTGCCAATATGCTGAT
* * * ** *
1355845 TCAAGGCCAGCGATATTGGACTTATGCCAATGTACTGATTCTACACCAGCGACATTGGTCTTAAA
65 TCAAGGCCAGCGATATTGG-CTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAA
* *
1355910 GATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGG
129 GATAAA-GTGCCAATATGCTGATTCAAGGCCAACGATATTGG
1355952 ACTTAGAAGA
Statistics
Matches: 307, Mismatches: 35, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
174 81 0.26
175 154 0.50
176 72 0.23
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (173 bp):
CTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGCTTGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA
TAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
Found at i:1356020 original size:29 final size:30
Alignment explanation
Indices: 1355966--1356080 Score: 139
Period size: 29 Copynumber: 3.9 Consensus size: 30
1355956 AGAAGAAGAC
1355966 GCCACCAACTTGTGTGGGCTTTTGAAAAGGTT
1 GCCACCAAC-T-TGTGGGCTTTTGAAAAGGTT
*
1355998 G-CACCAACTTGTGTGCTTTTG--AAGGTT
1 GCCACCAACTTGTGGGCTTTTGAAAAGGTT
** *
1356025 GCCACTGACTTGTGGGC-TTTGAAAAGGGT
1 GCCACCAACTTGTGGGCTTTTGAAAAGGTT
*
1356054 GCCACCGACTTGTGGGCTTTTGAAAAG
1 GCCACCAACTTGTGGGCTTTTGAAAAG
1356081 TGAGGAATGC
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.15
28 12 0.16
29 32 0.44
30 10 0.14
31 7 0.10
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (30 bp):
GCCACCAACTTGTGGGCTTTTGAAAAGGTT
Found at i:1356930 original size:49 final size:49
Alignment explanation
Indices: 1356866--1357039 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
1356856 ATGTTAAAGA
1356866 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGAG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAG-G
* * * * *
1356916 -GCCAATGTGCTGATTCAAGGTCGACGACATTGGACTTAAAGATGGTTAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT-G--AAGG
* *
1356967 TGCCAATGTGCTGATTCAAGGCCAACGATATCGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
*
1357016 TGCCAGTATGCTGATTCAAGGCCA
1 TGCCAATATGCTGATTCAAGGCCA
1357040 GCATTGTTGG
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
49 64 0.59
50 1 0.01
51 2 0.02
52 41 0.38
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGG
Found at i:1356971 original size:101 final size:101
Alignment explanation
Indices: 1356818--1357039 Score: 297
Period size: 101 Copynumber: 2.2 Consensus size: 101
1356808 GAAGAATGCT
* * * *
1356818 AATGTGTTGATTCAAGGCCAATGACATTGGGTTAAGGAATGTTAAAGATGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAACGACATTGGCTTAAAGAATGTTAAAGATGCCAATATGCTGATTC
1356883 AAGGCCAACGATATCGGACTTAAAGATGAAGAG-GCC
66 AAGGCCAACGATATCGGACTTAAAGATGAAG-GTGCC
* * * *
1356919 AATGTGCTGATTCAAGGTCGACGACATTGGACTTAAAG-ATGGTT-AAGGTGCCAATGTGCTGAT
1 AATGTGCTGATTCAAGGCCAACGACATTGG-CTTAAAGAAT-GTTAAAGATGCCAATATGCTGAT
*
1356982 TCAAGGCCAACGATATCGGTCTTAAAGATGAAGGTGCC
64 TCAAGGCCAACGATATCGGACTTAAAGATGAAGGTGCC
* *
1357020 AGTATGCTGATTCAAGGCCA
1 AATGTGCTGATTCAAGGCCA
1357040 GCATTGTTGG
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
100 1 0.01
101 96 0.91
102 8 0.08
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (101 bp):
AATGTGCTGATTCAAGGCCAACGACATTGGCTTAAAGAATGTTAAAGATGCCAATATGCTGATTC
AAGGCCAACGATATCGGACTTAAAGATGAAGGTGCC
Found at i:1357229 original size:87 final size:87
Alignment explanation
Indices: 1356966--1357795 Score: 1087
Period size: 87 Copynumber: 9.5 Consensus size: 87
1356956 GATGGTTAAG
* * * * *
1356966 GTGCCAATGTGCTGATTCAAGGCCAACGATATCGGTCTTAAAGATGAAGGTGCCAGTATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
*
1357031 TCAAGGCCAGC-ATTGTTGGGCTT
65 TCAAGGCCAGCGA-TATTGGGCTT
* * * * * *
1357054 CTACCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATATGAAGGTGCCAACATGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1357119 TCAAGGCCAGCGATATTGGGCTT
65 TCAAGGCCAGCGATATTGGGCTT
* * * *
1357142 GTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGTGTTAAAGACAAGATGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1357207 CAAGGCCAGCGATATTAGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
1357229 GTGCCAATGTGCTGATTCAAGACCAGCAACATTGGTCTTAAAGACAAGGTGCCAATCTGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1357294 CAAGGTCC-GCAATATTGGGCTT
66 CAAGG-CCAGCGATATTGGGCTT
*
1357316 GTGCCAATGTGCTGATTCAAGGCCTGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1357381 CAAGGCCAACGATGTTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * **
1357403 ATGCCAATGTGCTGAGAT-AAAGCCAGCGACAACGGTCTTAAAGACAAGGTGCCAATATGCAT-A
1 GTGCCAATGTGCTGA-TTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGC-TGA
*
1357466 TTCAAGGCTAGCGATATTGGGCTT
64 TTCAAGGCCAGCGATATTGGGCTT
*
1357490 GTGCCAATGTGCTGATTCATGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1357555 TAAGGCGAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * ** *
1357577 GTGCCGATGTGCTGATTTAAGGCCAGTAACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1357642 CAAGGGCAACGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* ** * * *
1357664 ATGCCAATGTGCTGAGACAAAG-CAG-GATCATTGGTCTTAAAGATAAAAGTGCCAATATGCTGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGA-CATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGA
*
1357727 TTCAAGGCCAGCGATATTGGACTT
64 TTCAAGGCCAGCGATATTGGGCTT
* * *
1357751 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAGAAGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
1357796 AGACGCCCCC
Statistics
Matches: 648, Mismatches: 82, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.00
86 22 0.03
87 489 0.75
88 129 0.20
89 7 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1357311 original size:48 final size:48
Alignment explanation
Indices: 1357229--1357646 Score: 221
Period size: 48 Copynumber: 9.5 Consensus size: 48
1357219 TATTAGGCTT
*
1357229 GTGCCAATGTGCTGATTCAAGACCAGCAACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* * *
1357277 GTGCCAATCTGCTGATTCAAGGTCC-GCAATATTGGGCTT---------
1 GTGCCAATGTGCTGATTCAAGG-CCAGCAACATTGGTCTTAAAGACAAG
* *
1357316 GTGCCAATGTGCTGATTCAAGGCCTGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* * * ** *
1357364 GTGCCAATATGCTGATTCAAGGCCAACGATGTTGGGCTT-------A-
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* * * **
1357404 -TGCCAATGTGCTGAGAT-AAAGCCAGCGACAACGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGA-TTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* * * * *
1357451 GTGCCAATATGCAT-ATTCAAGGCTAGCGATATTGGGCTT---------
1 GTGCCAATGTGC-TGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* *
1357490 GTGCCAATGTGCTGATTCATGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* * * * * *
1357538 GTGCCAATATGCTGATTTAAGGCGAGCGATATTGGGCTT---------
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* * *
1357577 GTGCCGATGTGCTGATTTAAGGCCAGTAACATTGGTCTTAAAGACAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
* *
1357625 GTGCCAATATGTTGATTCAAGG
1 GTGCCAATGTGCTGATTCAAGG
1357647 GCAACGATAT
Statistics
Matches: 275, Mismatches: 53, Indels: 84
0.67 0.13 0.20
Matches are distributed among these distances:
38 3 0.01
39 123 0.45
40 1 0.00
41 1 0.00
46 1 0.00
47 1 0.00
48 142 0.52
49 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAG
Found at i:1357786 original size:39 final size:39
Alignment explanation
Indices: 1357712--1357789 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1357702 AAAGATAAAA
*
1357712 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
*
1357751 GTGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTT
1 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
1357790 AGAAGAAGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
Found at i:1357899 original size:29 final size:29
Alignment explanation
Indices: 1357866--1357936 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
1357856 GTTGCCACTA
1357866 ACTTGTGGGCTTTAAAAGGGGTGCCACCG
1 ACTTGTGGGCTTTAAAAGGGGTGCCACCG
1357895 ACTTGTGGGCTTTAAAAGGGGTGCCACCG
1 ACTTGTGGGCTTTAAAAGGGGTGCCACCG
1357924 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
1357937 TGAAAAGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.28
Consensus pattern (29 bp):
ACTTGTGGGCTTTAAAAGGGGTGCCACCG
Found at i:1357899 original size:57 final size:58
Alignment explanation
Indices: 1357812--1357936 Score: 128
Period size: 57 Copynumber: 2.2 Consensus size: 58
1357802 CCCCTACTTG
* * * * ** * *
1357812 TGTGGGCTTTCGAAAGGGTTGCACTAACTTGTATGCTTTTGAA-GGTTGCCACTAACT
1 TGTGGGCTTTCAAAAGGGGTGCACCAACTTGTAGGCTTTAAAAGGGGTGCCACCAACT
* * *
1357869 TGTGGGCTTT-AAAAGGGGTGCCACCGACTTGTGGGCTTTAAAAGGGGTGCCACCGACT
1 TGTGGGCTTTCAAAAGGGGTG-CACCAACTTGTAGGCTTTAAAAGGGGTGCCACCAACT
1357927 TGTGGGCTTT
1 TGTGGGCTTT
1357937 TGAAAAGTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 8 0.15
57 26 0.47
58 21 0.38
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.31
Consensus pattern (58 bp):
TGTGGGCTTTCAAAAGGGGTGCACCAACTTGTAGGCTTTAAAAGGGGTGCCACCAACT
Found at i:1358732 original size:52 final size:51
Alignment explanation
Indices: 1358575--1358900 Score: 261
Period size: 52 Copynumber: 6.4 Consensus size: 51
1358565 GATAAAGGTT
* * * * * *
1358575 CCAATATGCTGATTC-AGGACCAGTGATATTGGGCTTAAAGATGTAAAGAATG
1 CCAATGTGCTGATTCAAGG-CTAATGACATTGGACTTAAAGATGTTAAG-ATG
* * ** ** * **
1358627 TCAATGTGCTGATTCACGG-TCAGCGACATTATACTTGAAGATGAGAAGAATG
1 CCAATGTGCTGATTCAAGGCT-AATGACATTGGACTTAAAGATGTTAAG-ATG
* * *
1358679 CCAATGTGTTGATTCAAGGCTAATGACATTGG-GTTAAGGAATGTTAAAGATG
1 CCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAG-ATGTT-AAGATG
* * * *
1358731 CCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG--AAGATG
1 CCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAGATGTTAAGATG
* *** *
1358780 CCAATGTGCGGATTCAAGGCTGGCGACATTGGACTTAAAGATGGTTAAGGTG
1 CCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAGAT-GTTAAGATG
* * *
1358832 CCAATGTGCTGATTCAAGGCTAATGACATCGGTCTTAAAGATG--AAGGTG
1 CCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAGATGTTAAGATG
*
1358881 CCAATATGCTGATTCAAGGC
1 CCAATGTGCTGATTCAAGGC
1358901 CAGCGATATT
Statistics
Matches: 218, Mismatches: 47, Indels: 21
0.76 0.16 0.07
Matches are distributed among these distances:
49 65 0.30
50 1 0.00
51 5 0.02
52 136 0.62
53 11 0.05
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
CCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAGATGTTAAGATG
Found at i:1358808 original size:101 final size:101
Alignment explanation
Indices: 1358671--1358900 Score: 293
Period size: 101 Copynumber: 2.3 Consensus size: 101
1358661 TTGAAGATGA
* * * *
1358671 GAAGAATGCCAATGTGTTGATTCAAGGCTAATGACATTGG-GTTAAGGAAT-GTTAAAGATGCCA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAG-ATGGTT-AAGATGCCA
*
1358734 ATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGAT
63 ATATGCTGATTCAAGGCCAATGACATCGGACTTAAAGAT
* ** * *
1358773 GAAGATGCCAATGTGCGGATTCAAGGCTGGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATG
1 GAAGATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATGGTTAAGATGCCAATA
* *
1358838 TGCTGATTCAAGGCTAATGACATCGGTCTTAAAGAT
66 TGCTGATTCAAGGCCAATGACATCGGACTTAAAGAT
* *
1358874 GAAGGTGCCAATATGCTGATTCAAGGC
1 GAAGATGCCAATGTGCTGATTCAAGGC
1358901 CAGCGATATT
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
101 99 0.89
102 12 0.11
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (101 bp):
GAAGATGCCAATGTGCTGATTCAAGGCTAACGACATTGGACTTAAAGATGGTTAAGATGCCAATA
TGCTGATTCAAGGCCAATGACATCGGACTTAAAGAT
Found at i:1358981 original size:88 final size:88
Alignment explanation
Indices: 1358829--1359351 Score: 773
Period size: 88 Copynumber: 6.0 Consensus size: 88
1358819 GATGGTTAAG
* ** * *
1358829 GTGCCAATGTGCTGATTCAAGGCTAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
1358894 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * * *
1358917 GTACCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAATATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
* *
1358982 TCAAGGCCAACGATATTAGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1359005 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAGGA-CAAGGTGCTAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
1359069 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGGCTT
* * *
1359092 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTGAAGA-CAAGGAGCCAATATGCCTGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATG-CTGA
*
1359156 TTCAAGGCCAACGATATTGGGCTT
65 TTCAAGGCCAGCGATATTGGGCTT
** * *
1359180 GTGCCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAAGAT-AATGGTGCCAAAATGCTGA
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAA-GGTGCCAATATGCTGA
* *
1359244 TTCAAGGCCAGTGATATTGGACTT
65 TTCAAGGCCAGCGATATTGGGCTT
* *
1359268 GTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
1359333 TCAAGGCCAGCGATATTGG
66 TCAAGGCCAGCGATATTGG
1359352 ACTTAGAGGA
Statistics
Matches: 394, Mismatches: 37, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
87 92 0.23
88 290 0.74
89 12 0.03
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (88 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATCAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGGCTT
Found at i:1359254 original size:49 final size:49
Alignment explanation
Indices: 1359180--1359356 Score: 167
Period size: 49 Copynumber: 3.8 Consensus size: 49
1359170 TATTGGGCTT
* ** *
1359180 GTGCCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAAGATAATG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAATG
* * * *
1359229 GTGCCAAAATGCTGATTCAAGGCCAGTGATATTGG------A-CT--T-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAATG
* * *
1359268 GTGCCAATGTGCTGATTCTAGGCCAGCGACATTGGTCTTAAAGATAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAATG
* *
1359317 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA
1359357 GAGGAAGACG
Statistics
Matches: 99, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
39 30 0.30
40 1 0.01
42 1 0.01
43 1 0.01
45 1 0.01
46 1 0.01
49 64 0.65
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAATG
Found at i:1359298 original size:263 final size:264
Alignment explanation
Indices: 1358829--1359351 Score: 784
Period size: 263 Copynumber: 2.0 Consensus size: 264
1358819 GATGGTTAAG
* * * * *
1358829 GTGCCAATGTGCTGATTCAAGGCTAATGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATCAAGGAGCCAATATGCTGAT
* ** * *
1358894 TCAAGGCCAGCGATATTGGGCTTGTACCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAA
66 TCAAGGCCAACGATATTGGGCTTGTACCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAA
* *
1358959 TATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTAGGCTTGTGCCAATGTGCTGATTCA
131 GATGAAGGTGCCAAAATGCTGATTCAAGGCCAACGATATTAGGCTTGTGCCAATGTGCTGATTCA
* * * *
1359024 AGGCTAGCGACATTGGTCTTAAGGA-CAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGG
196 AGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1359088 GCTT
261 GCTT
* * *
1359092 GTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTGAAGA-CAAGGAGCCAATATGCCTGA
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATCAAGGAGCCAATATG-CTGA
*
1359156 TTCAAGGCCAACGATATTGGGCTTGTGCCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAA
65 TTCAAGGCCAACGATATTGGGCTTGTACCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAA
**
1359221 AGAT-AATGGTGCCAAAATGCTGATTCAAGGCCAGTGATATT-GGACTTGTGCCAATGTGCTGAT
130 AGATGAA-GGTGCCAAAATGCTGATTCAAGGCCAACGATATTAGG-CTTGTGCCAATGTGCTGAT
*
1359284 TCTAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
193 TCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
1359349 TGG
258 TGG
1359352 ACTTAGAGGA
Statistics
Matches: 233, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
262 17 0.07
263 179 0.77
264 37 0.16
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (264 bp):
GTGCCAATGTGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATCAAGGAGCCAATATGCTGAT
TCAAGGCCAACGATATTGGGCTTGTACCAATGTGCTGAGACAAAGCCAGCGACATTGGTCTTAAA
GATGAAGGTGCCAAAATGCTGATTCAAGGCCAACGATATTAGGCTTGTGCCAATGTGCTGATTCA
AGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
GCTT
Found at i:1359443 original size:28 final size:29
Alignment explanation
Indices: 1359378--1359477 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
1359368 CACCAACTTG
*
1359378 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTG-AAGGGTTGCCACCGACT
* *
1359407 TGTGTGCTTTTGAA-GGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGGTTGCCACCGACT
* * *
1359435 TATGGGC-TTTAACAGGGGTGCCACCGACT
1 TGTGGGCTTTTGA-AGGGTTGCCACCGACT
1359464 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
1359478 AAGTGAGGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
27 9 0.16
28 14 0.25
29 30 0.53
30 4 0.07
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAGGGTTGCCACCGACT
Found at i:1360350 original size:33 final size:33
Alignment explanation
Indices: 1360313--1360377 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
1360303 AAAACCTAGA
*
1360313 TGTATCGATGCTACATTCTTAGTATCGATACAT
1 TGTATCGATACTACATTCTTAGTATCGATACAT
* * *
1360346 TGTATCGATACTGCGTTCTTTGTATCGATACA
1 TGTATCGATACTACATTCTTAGTATCGATACA
1360378 AGGATACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACTACATTCTTAGTATCGATACAT
Found at i:1363067 original size:19 final size:20
Alignment explanation
Indices: 1363026--1363074 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
1363016 CACCCAGATT
*
1363026 TATCGATACATATTGCTTTG
1 TATCGATACATATTGCATTG
*
1363046 TATCGATACATGTT-CATTG
1 TATCGATACATATTGCATTG
1363065 TATCGATACA
1 TATCGATACA
1363075 CACTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
TATCGATACATATTGCATTG
Found at i:1364239 original size:58 final size:59
Alignment explanation
Indices: 1364110--1364375 Score: 241
Period size: 58 Copynumber: 4.6 Consensus size: 59
1364100 TTCTATGCCG
** * ** * * *
1364110 AATGTCATTAGCCTTGAATCAATACATTAGCTTTTATCAAACCTTTTTTTCTCAAACCC
1 AATGTCATTAGCCTTGAATCAGCACATTGGCACTTGTCAAACCTTTCTTTCTCAAGCCC
*** * *
1364169 AATGTTGCTAGCCTTGTATCAGCACATTGGCACTTGTCAAA-CATTCTTTCTCAAGCCC
1 AATGTCATTAGCCTTGAATCAGCACATTGGCACTTGTCAAACCTTTCTTTCTCAAGCCC
* * *
1364227 AATGTCATTAGCCTTAAATCAGTACATTGGCACTTGTCAAA-CTTTCTATCTCAAGCCC
1 AATGTCATTAGCCTTGAATCAGCACATTGGCACTTGTCAAACCTTTCTTTCTCAAGCCC
* * * * * * * * * *
1364285 TATGTCATTGGCTTTGTATCAGCACATTAGCACTTTTCAAAGC-TTATGTCCCAAGCCC
1 AATGTCATTAGCCTTGAATCAGCACATTGGCACTTGTCAAACCTTTCTTTCTCAAGCCC
* * * *
1364343 AATGTCACTGGCCTTGAATTAACACATTGGCAC
1 AATGTCATTAGCCTTGAATCAGCACATTGGCAC
1364376 CTTGCCTATG
Statistics
Matches: 167, Mismatches: 39, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
58 135 0.81
59 32 0.19
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (59 bp):
AATGTCATTAGCCTTGAATCAGCACATTGGCACTTGTCAAACCTTTCTTTCTCAAGCCC
Found at i:1364325 original size:116 final size:117
Alignment explanation
Indices: 1364110--1364349 Score: 277
Period size: 116 Copynumber: 2.1 Consensus size: 117
1364100 TTCTATGCCG
* ** * * *
1364110 AATGTCATTAGCCTTGAATCAATACATTAGCTTTTATCAAACCTTTTTTTCTCAAACCCAATGTT
1 AATGTCATTAGCCTTAAATCAATACATTAGCACTTATCAAACCTTTCTATCTCAAACCCAATGTC
* * * * *
1364175 GCTAGCCTTGTATCAGCACATTGGCACTTGTCAAA-CATTCTTTCTCAAGCCC
66 ACTAGCCTTGTATCAGCACATTAGCACTTGTCAAAGC-TTATGTCCCAAGCCC
* * * * *
1364227 AATGTCATTAGCCTTAAATCAGTACATTGGCACTTGTCAAA-CTTTCTATCTCAAGCCCTATGTC
1 AATGTCATTAGCCTTAAATCAATACATTAGCACTTATCAAACCTTTCTATCTCAAACCCAATGTC
* * * *
1364291 ATTGGCTTTGTATCAGCACATTAGCACTTTTCAAAGCTTATGTCCCAAGCCC
66 ACTAGCCTTGTATCAGCACATTAGCACTTGTCAAAGCTTATGTCCCAAGCCC
1364343 AATGTCA
1 AATGTCA
1364350 CTGGCCTTGA
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
116 66 0.65
117 36 0.35
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (117 bp):
AATGTCATTAGCCTTAAATCAATACATTAGCACTTATCAAACCTTTCTATCTCAAACCCAATGTC
ACTAGCCTTGTATCAGCACATTAGCACTTGTCAAAGCTTATGTCCCAAGCCC
Found at i:1368940 original size:28 final size:26
Alignment explanation
Indices: 1368908--1368960 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
1368898 AGGTAAAAAA
*
1368908 TGGGGTTGGAGTATCCCCTCAAAGATGG
1 TGGGGTTGAAGTAT-CCC-CAAAGATGG
1368936 TGGGGTTGAAGTATCCCCAAAGATG
1 TGGGGTTGAAGTATCCCCAAAGATG
1368961 AAAAATGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.33
27 3 0.12
28 13 0.54
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (26 bp):
TGGGGTTGAAGTATCCCCAAAGATGG
Found at i:1369186 original size:80 final size:78
Alignment explanation
Indices: 1368857--1369195 Score: 285
Period size: 78 Copynumber: 4.3 Consensus size: 78
1368847 AGAGATGATG
* * * *
1368857 GGGTTGGAGTATCCCCAAAGATGAAGAAT-TTAGTATTGTAGAGGTAAAAAAT-GGGGTTGGAGT
1 GGGTTGGAGTATCCCCAAAGATGAA-AATGTAAGTCTT-TAGAAGT--AAAATCGAGGTTGGAGT
1368920 ATCCCCTCAAAGATGGT
62 ATCCCCTCAAAGATGGT
* * * *
1368937 GGGGTTGAAGTATCCCCAAAGATGAAAAATGT-AGTGCTTTAGAAGTAAAAACGGGGTTAGAGTA
1 -GGGTTGGAGTATCCCCAAAGATG-AAAATGTAAGT-CTTTAGAAGTAAAATCGAGGTTGGAGTA
* *
1369001 T-CCTTCAGAGATGGT
63 TCCCCTCAAAGATGGT
* * * * * **
1369016 GGAATTAGAGTATCCCTAGAGATGAAAATGCAACACTTTAGAAGTAAAA-C-AGGGTTGGAGTAT
1 GG-GTTGGAGTATCCCCAAAGATGAAAATGTAAGTCTTTAGAAGTAAAATCGA-GGTTGGAGTAT
*
1369079 CCCCTCAGAGATGGT
64 CCCCTCAAAGATGGT
** ** * * *
1369094 GTAATTAAAGTATCCTCAAAGATGAAAATATAATGTTTTTAGAAGTAAAATCGAGGTTGGAGTAT
1 G-GGTTGGAGTATCCCCAAAGATGAAAATGTAA-GTCTTTAGAAGTAAAATCGAGGTTGGAGTAT
* *
1369159 CCCTTCAAAGATAGT
64 CCCCTCAAAGATGGT
1369174 AGGGTTGGAGTATCCCCAAAGA
1 -GGGTTGGAGTATCCCCAAAGA
1369196 CAAAAAATTT
Statistics
Matches: 209, Mismatches: 36, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
77 11 0.05
78 60 0.29
79 46 0.22
80 51 0.24
81 36 0.17
82 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCAAAGATGAAAATGTAAGTCTTTAGAAGTAAAATCGAGGTTGGAGTATCC
CCTCAAAGATGGT
Found at i:1369237 original size:80 final size:78
Alignment explanation
Indices: 1368857--1369242 Score: 289
Period size: 80 Copynumber: 4.9 Consensus size: 78
1368847 AGAGATGATG
* * * * *
1368857 GGGTTGGAGTATCCCCAAAGATGAAGAATTTAGTATTGTAGAGGTAAAAAATGGGGTTGGAGTAT
1 GGGTTGGAGTATCCCCAAAGA-GAAAAATGTAGTGTTTTAGAAGT-AAAAATGGGGTTGGAGTAT
*
1368922 CCCCTCAAAGATGGT
64 CCCTTCAAAGATGGT
* * * *
1368937 GGGGTTGAAGTATCCCCAAAGATGAAAAATGTAGTGCTTTAGAAGTAAAAACGGGGTTAGAGTAT
1 -GGGTTGGAGTATCCCCAAAGA-GAAAAATGTAGTGTTTTAGAAGTAAAAATGGGGTTGGAGTAT
*
1369002 -CCTTCAGAGATGGT
64 CCCTTCAAAGATGGT
* * * * * ****
1369016 GGAATTAGAGTATCCCTAGAGATG-AAAATGCAACACTTTAGAAGTAAAACA--GGGTTGGAGTA
1 GG-GTTGGAGTATCCCCAAAGA-GAAAAATGTAGTGTTTTAGAAGTAAAA-ATGGGGTTGGAGTA
* *
1369078 TCCCCTCAGAGATGGT
63 TCCCTTCAAAGATGGT
** ** * * * *
1369094 GTAATTAAAGTATCCTCAAAGATG-AAAATATAATGTTTTTAGAAGT-AAAATCGAGGTTGGAGT
1 G-GGTTGGAGTATCCCCAAAGA-GAAAAATGTAGTG-TTTTAGAAGTAAAAAT-GGGGTTGGAGT
*
1369157 ATCCCTTCAAAGATAGT
62 ATCCCTTCAAAGATGGT
* * * * *
1369174 AGGGTTGGAGTATCCCCAAAGACAAAAAATTTAGTGTTTTAAAAGTAAAAATGGGGTTAGAGTAC
1 -GGGTTGGAGTATCCCCAAAGA-GAAAAATGTAGTGTTTTAGAAGTAAAAATGGGGTTGGAGTAT
1369239 CCCT
64 CCCT
1369243 CTTAATGTTT
Statistics
Matches: 245, Mismatches: 49, Indels: 23
0.77 0.15 0.07
Matches are distributed among these distances:
77 12 0.05
78 64 0.26
79 38 0.16
80 78 0.32
81 53 0.22
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCAAAGAGAAAAATGTAGTGTTTTAGAAGTAAAAATGGGGTTGGAGTATCC
CTTCAAAGATGGT
Found at i:1372851 original size:164 final size:165
Alignment explanation
Indices: 1372413--1373041 Score: 568
Period size: 165 Copynumber: 3.8 Consensus size: 165
1372403 AAAAACGGAG
* * * * * *
1372413 TTTTCTACTCCGTAAATTTTTTC-GGGGAGATTTTATTTGGTTTTAAATTTTTAAAATTCATCAA
1 TTTTCTACTCCATAAATATTTTCAGGAGA-ATTTTATTTGATTTAAAATTTTTAAAATTCATCTA
* * * ** * * *
1372477 ATATTATTTTTTAATTCAAATTAAATCAGTTTTGAAAAATTGATTCATTTTTAAGAGTTTTTG-A
65 ATATTATTATTAAACTCCTATTAAATCAGTTTTGAAAAATTAATTTATTTTCAAGAG-TTTTGAA
* * *
1372541 TTTTTTTTCTTG-AA-CCTTCTTTTTCCTAAAAAA-TCAA
129 TTTTTTCT-TTGAAATCC-T-TTTTTCCCAAAAAATTGAA
* * * * *
1372578 GTTTTCTAATCCATAAATATTTACAGG-GGATTTTATTTGGTTTAAAATTTTTAAAATGT-ATTT
1 -TTTTCTACTCCATAAATATTTTCAGGAGAATTTTATTTGATTTAAAATTTTTAAAAT-TCATCT
* *** ** * *
1372641 AATAATGCCATGGAA-TTCTCATTAAAACAGTTTTGAAAAATTAATTTATTTTCAAGAGTTTTGA
64 AATATTATTATTAAACTCCT-ATTAAATCAGTTTTGAAAAATTAATTTATTTTCAAGAGTTTTGA
1372705 ATTTTTTCTTTGAAATCCTTTTTTCCCAAAAAATTGAA
128 ATTTTTTCTTTGAAATCCTTTTTTCCCAAAAAATTGAA
* * * * *
1372743 TTTTCTACTCCGTAAATATTTTTAGGAGAATTTTCTTCGATTTAAAATTTTTAGAATTCATCTAA
1 TTTTCTACTCCATAAATATTTTCAGGAGAATTTTATTTGATTTAAAATTTTTAAAATTCATCTAA
* * * *
1372808 TATTATAATTAAACTCCTATTAAATCAGTTTTG-AAAATTAATTTATTTTTATGAGTTTTAAATT
66 TATTATTATTAAACTCCTATTAAATCAGTTTTGAAAAATTAATTTATTTTCAAGAGTTTTGAATT
* * *
1372872 TTTTCTTCGAAACCTCCTTATTTT--CAAAAAATCGAG
131 TTTTCTTTGAAA--TCCTT-TTTTCCCAAAAAATTGAA
* *
1372908 CTTTCTACTCCATAAATATTTTCAGG-GAGATTTT-TCTTAATTTAAAATTTTTAAAATTCATCT
1 TTTTCTACTCCATAAATATTTTCAGGAGA-ATTTTAT-TTGATTTAAAATTTTTAAAATTCATCT
* * * * * *
1372971 AATATTGTTATTAAACTCCTATAAAATCAGTTTCT-AGAAATTAAATTAATTTCATA-AATTTTG
64 AATATTATTATTAAACTCCTATTAAATCAGTTT-TGAAAAATTAATTTATTTTCA-AGAGTTTTG
1373034 AATTTTTT
127 AATTTTTT
1373042 TTGTATATAC
Statistics
Matches: 380, Mismatches: 65, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
164 87 0.23
165 228 0.60
166 59 0.16
167 6 0.02
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (165 bp):
TTTTCTACTCCATAAATATTTTCAGGAGAATTTTATTTGATTTAAAATTTTTAAAATTCATCTAA
TATTATTATTAAACTCCTATTAAATCAGTTTTGAAAAATTAATTTATTTTCAAGAGTTTTGAATT
TTTTCTTTGAAATCCTTTTTTCCCAAAAAATTGAA
Found at i:1373014 original size:330 final size:329
Alignment explanation
Indices: 1372413--1373041 Score: 738
Period size: 330 Copynumber: 1.9 Consensus size: 329
1372403 AAAAACGGAG
* * * * *
1372413 TTTTCTACTCCGTAAATTTTTTCGGGGAGATTTTATTTGGTTTTAAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTAGGAGAGATTTTATTCGATTTAAAATTTTTAAAATTCATCAAA
** * * * **
1372478 TATTATTTTTTAATTCAAATTAAATCAGTTTTGAAAAATTGATTCATTTTTAAGAGTTTTTGATT
66 TATTATAATTAAACTCAAATTAAATCAGTTTTGAAAAATTAATTCATTTTTAAGAGTTTTAAATT
* *
1372543 TTTTTTCTTGAACCTTCTTTTTCCTAAAAAATCAAGTTTTCTAATCCATAAATATTTACAGGGGA
131 TTTTTTC-TGAACCTCCTTTTTCCTAAAAAATCAAGCTTTCTAATCCATAAATATTTACAGGGGA
** * * *
1372608 TTTTATTTGGTTTAAAATTTTTAAAATGTATTTAATAATGCCATGGAATTCTCATTAAAACAGTT
195 TTTTATTTAATTTAAAATTTTTAAAATGTATCTAATAATGCCATGAAATCCTCATTAAAACAGTT
* * *
1372673 TTGAAAAATTAATTTATTTTCA-AGAGTTTTGAATTTTTTCTTTGAAATCCTTTTTTCCCAAAAA
260 TTGAAAAATTAAATTAATTTCATA-AATTTTGAATTTTTTCTTTGAAATCCTTTTTTCCCAAAAA
1372737 ATTGAA
324 ATTGAA
* * *
1372743 TTTTCTACTCCGTAAATATTTTTAGGAGA-ATTTTCTTCGATTTAAAATTTTTAGAATTCATCTA
1 TTTTCTACTCCGTAAAT-TTTTTAGGAGAGATTTTATTCGATTTAAAATTTTTAAAATTCATCAA
** * *
1372807 ATATTATAATTAAACTCCTATTAAATCAGTTTTG-AAAATTAATTTATTTTTATGAGTTTTAAAT
65 ATATTATAATTAAACTCAAATTAAATCAGTTTTGAAAAATTAATTCATTTTTAAGAGTTTTAAAT
* * * *
1372871 TTTTTCTTC-GAAACCTCCTTATTTTC-AAAAAATCGAGCTTTCTACTCCATAAATATTTTCAGG
130 TTTTT-TTCTG-AACCTCCTT-TTTCCTAAAAAATCAAGCTTTCTAATCCATAAATATTTACAGG
* ** *
1372934 GAGATTTT-TCTTAATTTAAAATTTTTAAAAT-TCATCTAATATTGTTATTAAACTCCT-A-TAA
192 G-GATTTTAT-TTAATTTAAAATTTTTAAAATGT-ATCTAATAATGCCATGAAA-TCCTCATTAA
*
1372995 AATCAGTTTCT-AGAAATTAAATTAATTTCATAAATTTTGAATTTTTT
253 AA-CAGTTT-TGAAAAATTAAATTAATTTCATAAATTTTGAATTTTTT
1373042 TTGTATATAC
Statistics
Matches: 250, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
328 1 0.00
329 79 0.32
330 156 0.62
331 14 0.06
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (329 bp):
TTTTCTACTCCGTAAATTTTTTAGGAGAGATTTTATTCGATTTAAAATTTTTAAAATTCATCAAA
TATTATAATTAAACTCAAATTAAATCAGTTTTGAAAAATTAATTCATTTTTAAGAGTTTTAAATT
TTTTTTCTGAACCTCCTTTTTCCTAAAAAATCAAGCTTTCTAATCCATAAATATTTACAGGGGAT
TTTATTTAATTTAAAATTTTTAAAATGTATCTAATAATGCCATGAAATCCTCATTAAAACAGTTT
TGAAAAATTAAATTAATTTCATAAATTTTGAATTTTTTCTTTGAAATCCTTTTTTCCCAAAAAAT
TGAA
Found at i:1373361 original size:21 final size:21
Alignment explanation
Indices: 1373337--1373382 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1373327 AACTCAGCAA
1373337 AAAAAGAGAGAAAAAAT-AGAG
1 AAAAAGA-AGAAAAAATGAGAG
* *
1373358 AAAAATAAGAAAAAATGGGAG
1 AAAAAGAAGAAAAAATGAGAG
1373379 AAAA
1 AAAA
1373383 TAGTTTAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.07
Consensus pattern (21 bp):
AAAAAGAAGAAAAAATGAGAG
Found at i:1374129 original size:10 final size:10
Alignment explanation
Indices: 1374116--1374141 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1374106 CCATTTTAGC
1374116 TATTTTTATA
1 TATTTTTATA
1374126 TATTTTTATA
1 TATTTTTATA
1374136 TATTTT
1 TATTTT
1374142 AAATATTCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTTATA
Found at i:1375370 original size:20 final size:19
Alignment explanation
Indices: 1375327--1375371 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1375317 CTTTTCAAGG
* *
1375327 TGTATCGATACTATGAACA
1 TGTATCGATACAAAGAACA
*
1375346 TGTATCGATACAAAGCAATA
1 TGTATCGATACAAAG-AACA
1375366 TGTATC
1 TGTATC
1375372 AATATATCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAGAACA
Found at i:1378086 original size:20 final size:21
Alignment explanation
Indices: 1378056--1378095 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1378046 ATCTAGGTTT
1378056 TTCAGATGTATCGATACATTG
1 TTCAGATGTATCGATACATTG
1378077 TTCA-ATGTATCGATACATT
1 TTCAGATGTATCGATACATT
1378096 CTAGCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCGATACATTG
Found at i:1385174 original size:158 final size:155
Alignment explanation
Indices: 1384832--1385209 Score: 409
Period size: 158 Copynumber: 2.4 Consensus size: 155
1384822 CATTTTCGTA
* ** * *
1384832 TCCTTTAGGGGTATCGGGTACTTTTATATCAAAGGTATCCTCTAGGGGTATTTTTGTAATTTTTA
1 TCCTTTAGGGGTATCGGATACTTTTACGTCAAAGATATCCCCTA-GGGTATTTTTGTAATTTTTA
* * * * * *
1384897 TAATCGAGTCCTAGTTTATCACCAAGTCTGTTTTTCTGCCAAATGTGGGTATTTAGGATAGGTTC
65 TAAACGAGTCCTAGGTTATCACCAAGTCTGCTTTTATGCCAAAGGTCGGTATTTAGGATAGGTTC
*
1384962 ATCCCATTTTTAAAATCATTTTTAAG
130 ATCCCATTTTTAAAATCATTTTAAAG
** * ** * *
1384988 TCCTAGAGAGGCGTC-AAGTACTTTTACGTCGAAGATATCCCCTAGGAGTATTTTTGTAATTTTT
1 TCCTTTAGGGGTATCGGA-TACTTTTACGTCAAAGATATCCCCTAGG-GTATTTTTGTAATTTTT
* * ** * *
1385052 TTAAAACTGAGTCCTAGGTTGTCACCGGGTTTGCTTTTATGCCGAAGGTCGGTATTTAGGATAGG
64 AT-AAAC-GAGTCCTAGGTTATCACCAAGTCTGCTTTTATGCCAAAGGTCGGTATTTAGGATAGG
* * *
1385117 TTTATCTCATTTTTAAAATCCTTTTAAAG
127 TTCATCCCATTTTTAAAATCATTTTAAAG
**
1385146 TCCTTTAGGGGTATCGGATA-TTTCTACGTCAAAGATATCCCCTAAGGGTATTTTCATAATTTTT
1 TCCTTTAGGGGTATCGGATACTTT-TACGTCAAAGATATCCCCT-AGGGTATTTTTGTAATTTTT
1385210 CTTGAACTTA
Statistics
Matches: 178, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
155 2 0.01
156 49 0.28
157 6 0.03
158 117 0.66
159 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (155 bp):
TCCTTTAGGGGTATCGGATACTTTTACGTCAAAGATATCCCCTAGGGTATTTTTGTAATTTTTAT
AAACGAGTCCTAGGTTATCACCAAGTCTGCTTTTATGCCAAAGGTCGGTATTTAGGATAGGTTCA
TCCCATTTTTAAAATCATTTTAAAG
Found at i:1386416 original size:21 final size:21
Alignment explanation
Indices: 1386390--1386443 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
1386380 CAAAACTTAA
* *
1386390 TGTATCGATACATTCTA-GAAT
1 TGTATCGATACATT-TACAAAG
*
1386411 TGTATCAATACATTTACAAAG
1 TGTATCGATACATTTACAAAG
1386432 TGTATCGATACA
1 TGTATCGATACA
1386444 ATTAAAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTTACAAAG
Found at i:1386517 original size:20 final size:21
Alignment explanation
Indices: 1386478--1386526 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
1386468 AAATGTTATT
1386478 GATACATTCACATGATGTATC
1 GATACATTCACATGATGTATC
1386499 GATACATTGCA-AT-ATGTATC
1 GATACATT-CACATGATGTATC
1386519 GATACATT
1 GATACATT
1386527 TTTATGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.56
21 10 0.37
22 2 0.07
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
GATACATTCACATGATGTATC
Found at i:1390976 original size:21 final size:20
Alignment explanation
Indices: 1390942--1390980 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1390932 CGATACCTTC
1390942 ACTTATGAATCAATACATTA
1 ACTTATGAATCAATACATTA
*
1390962 ACTTATTGTATCAATACAT
1 ACTTA-TGAATCAATACAT
1390981 ATTATAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
ACTTATGAATCAATACATTA
Found at i:1391267 original size:2 final size:2
Alignment explanation
Indices: 1391260--1391290 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1391250 TGTTTACATC
1391260 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1391291 CTTTGATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1397429 original size:92 final size:93
Alignment explanation
Indices: 1397205--1397429 Score: 224
Period size: 92 Copynumber: 2.4 Consensus size: 93
1397195 CTTGATAATA
* *** * *
1397205 TTTTTAACCAATGGTTTTGTCCCAGTCATCTTCTTGACT-AATAGGTTTTGCCCTAGTCATTTTC
1 TTTTTGACCAATGGTTTTGT-TTTGTCATCTTCTTGACTAAATAGATTTTGCCCTAGTCATTTCC
*
1397269 TTTGACTAACAAGTTTCACCTTAGTCATC
65 CTTGACTAACAAGTTTCACCTTAGTCATC
* * * * * *
1397298 TTTTCGATCGATGGTTTT-TTTCTATCATTTTCTCGACTAAAT-GATTTTGCCCTAGTCATTTCC
1 TTTTTGACCAATGGTTTTGTTT-TGTCATCTTCTTGACTAAATAGATTTTGCCCTAGTCATTTCC
* * * *
1397361 CTTGACTAATAGGTTTTACC-TAGTCATT
65 CTTGACTAACAAGTTTCACCTTAGTCATC
* *
1397389 TTTTTGACCAATGGTTTTGTTTTGGTTATCTTCTTAACTAA
1 TTTTTGACCAATGGTTTTGTTTT-GTCATCTTCTTGACTAA
1397430 TTAGTTCCGC
Statistics
Matches: 103, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
91 23 0.22
92 63 0.61
93 17 0.17
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (93 bp):
TTTTTGACCAATGGTTTTGTTTTGTCATCTTCTTGACTAAATAGATTTTGCCCTAGTCATTTCCC
TTGACTAACAAGTTTCACCTTAGTCATC
Found at i:1397566 original size:91 final size:92
Alignment explanation
Indices: 1397441--1397681 Score: 299
Period size: 91 Copynumber: 2.6 Consensus size: 92
1397431 TAGTTCCGCT
* ** * * *
1397441 TTAGTCATTTTCTTTTACTAATAGGTTTCGCTCTAGTCTTCATTTTGAATGATGGTTTTGCCCCA
1 TTAGTCATTTTCTTTGACTAATAGGTTTTTCTCTAGTCATC-TTTTCAATGATGGTTTCGCCCCA
1397506 ATCATTTTCTAGACTAACTAG-TTTGCC
65 ATCATTTTCTAGACTAACTAGTTTTGCC
* *
1397533 -TAGTCATTTTCTTTGACTAATAGGTTTTTCTCTAGTCATCTTTTCAATGGATGGTTTCGTCCTA
1 TTAGTCATTTTCTTTGACTAATAGGTTTTTCTCTAGTCATCTTTTCAAT-GATGGTTTCGCCCCA
* * * *
1397597 GTCATTTTCTCGACTAATTAGTTTTTCC
65 ATCATTTTCTAGACTAACTAGTTTTGCC
* *
1397625 TTAGTCATTTCCTTGGACTAATAGGTTTTGTCT-TAGTCATCTTTTCAACTGATGGTT
1 TTAGTCATTTTCTTTGACTAATAGGTTTT-TCTCTAGTCATCTTTTCAA-TGATGGTT
1397682 CTATCTCGAT
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
90 7 0.05
91 66 0.51
92 5 0.04
93 48 0.37
94 4 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (92 bp):
TTAGTCATTTTCTTTGACTAATAGGTTTTTCTCTAGTCATCTTTTCAATGATGGTTTCGCCCCAA
TCATTTTCTAGACTAACTAGTTTTGCC
Found at i:1397653 original size:32 final size:31
Alignment explanation
Indices: 1397586--1397664 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
1397576 TCAATGGATG
* * *
1397586 GTTTCGTCCTAGTCATTTTCTCGACTAATTA
1 GTTTTGTCTTAGTCATTTCCTCGACTAATTA
*
1397617 GTTTT-TCCTTAGTCATTTCCTTGGACTAA-TA
1 GTTTTGT-CTTAGTCATTTCC-TCGACTAATTA
1397648 GGTTTTGTCTTAGTCAT
1 -GTTTTGTCTTAGTCAT
1397665 CTTTTCAACT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 1 0.03
31 17 0.43
32 21 0.52
33 1 0.03
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
GTTTTGTCTTAGTCATTTCCTCGACTAATTA
Found at i:1397663 original size:93 final size:92
Alignment explanation
Indices: 1397215--1397808 Score: 443
Period size: 93 Copynumber: 6.4 Consensus size: 92
1397205 TTTTTAACCA
* * *
1397215 ATGGTTTTGTCCCAGTCATCTTCTTGACTAA-TAGGTTTTGCCCTAGTCATTTTCTTTGACTAAC
1 ATGGTTTTGTCCTAGTCATTTTCTTGACTAATTA-GTTTTGCCCTAGTCATTTTCTTTGACTAAT
* *** *
1397279 AAGTTTCACCTTAGTCATCTTTTCGATCG
65 AGGTTTTGTCTTAGTCATCTTTTCAAT-G
* * * * * *
1397308 ATGGTTTTTTTCTA-TCATTTTCTCGACTAAAT-GATTTTGCCCTAGTCATTTCCCTTGACTAAT
1 ATGGTTTTGTCCTAGTCATTTTCTTGACTAATTAG-TTTTGCCCTAGTCATTTTCTTTGACTAAT
* * * * ***
1397371 AGGTTTT-ACCTAGTCATTTTTTTGACCA
65 AGGTTTTGTCTTAGTCA-TCTTTTCAATG
** * * * * ** ** *
1397399 ATGGTTTTGTTTTGGTTATCTTCTTAACTAATTAGTTCCGCTTTAGTCATTTTCTTTTACTAATA
1 ATGGTTTTGTCCTAGTCATTTTCTTGACTAATTAGTTTTGCCCTAGTCATTTTCTTTGACTAATA
* * *
1397464 GGTTTCG-CTCTAGTCTTCATTTTGAATG
66 GGTTTTGTCT-TAGTCATC-TTTTCAATG
* * * * *
1397492 ATGGTTTTGCCCCAATCATTTTCTAGACTAACTAG-TTTG-CCTAGTCATTTTCTTTGACTAATA
1 ATGGTTTTGTCCTAGTCATTTTCTTGACTAATTAGTTTTGCCCTAGTCATTTTCTTTGACTAATA
1397555 GGTTTT-TCTCTAGTCATCTTTTCAATGG
66 GGTTTTGTCT-TAGTCATCTTTTCAAT-G
* * * * * *
1397583 ATGGTTTCGTCCTAGTCATTTTCTCGACTAATTAGTTTTTCCTTAGTCATTTCCTTGGACTAATA
1 ATGGTTTTGTCCTAGTCATTTTCTTGACTAATTAGTTTTGCCCTAGTCATTTTCTTTGACTAATA
1397648 GGTTTTGTCTTAGTCATCTTTTCAACTG
66 GGTTTTGTCTTAGTCATCTTTTCAA-TG
* * * * * ** * ** *
1397676 ATGGTTCTAT-CTCGATCATTTTCTTGATTAATTGGTTTCACCCAAGTTGTTTACTTTGACTAAT
1 ATGGTTTTGTCCTAG-TCATTTTCTTGACTAATTAGTTTTGCCCTAGTCATTTTCTTTGACTAAT
* * *
1397740 AGGTTTTGTCCTAGTCATCTTATCAACTA
65 AGGTTTTGTCTTAGTCATCTTTTCAA-TG
* * *
1397769 ATGGTTTTGT-CTAAATTATCTTCTTGACTAATTAGTTTTG
1 ATGGTTTTGTCCT-AGTCATTTTCTTGACTAATTAGTTTTG
1397809 ATTTTCTTTA
Statistics
Matches: 388, Mismatches: 97, Indels: 32
0.75 0.19 0.06
Matches are distributed among these distances:
90 7 0.02
91 85 0.22
92 101 0.26
93 191 0.49
94 4 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (92 bp):
ATGGTTTTGTCCTAGTCATTTTCTTGACTAATTAGTTTTGCCCTAGTCATTTTCTTTGACTAATA
GGTTTTGTCTTAGTCATCTTTTCAATG
Found at i:1397680 original size:184 final size:182
Alignment explanation
Indices: 1397205--1397808 Score: 527
Period size: 184 Copynumber: 3.3 Consensus size: 182
1397195 CTTGATAATA
* * *
1397205 TTTTTAACCAATGGTTTTGTCCCAGTCATCTTCTTGACTAA-TAGGTTTTGCCCTAGTCATTTTC
1 TTTTCAACCAATGGTTTTGTCCTAGTCATCTTCTTGACTAATTA-GTTTTGCCTTAGTCATTTTC
* * * * *** * *
1397269 TTTGACTAACAAGTTTCACCTTAGTCATCTTTTCGATCGATGGTTTTTTTCTATCATTTTCTCGA
65 TTTGACTAATAGGTTTC-GCTTAGTCATCTTTTCAAT-GATGGTTTTCCCCAATCATTTTCTAGA
* *
1397334 CTAAATGATTTTGCCCTAGTCATTTCCCTTGACTAATAGGTTTTACCTAGTCATT
128 CTAAATGAGTTTGCCCTAGTCATTTCCCTTGACTAATAGGTTTTACCTAGTCATC
** ** * * * ** *
1397389 TTTTTGACCAATGGTTTTGTTTTGGTTATCTTCTTAACTAATTAGTTCCGCTTTAGTCATTTTCT
1 TTTTCAACCAATGGTTTTGTCCTAGTCATCTTCTTGACTAATTAGTTTTGCCTTAGTCATTTTCT
* * *
1397454 TTTACTAATAGGTTTCGCTCTAGTCTTCATTTTGAATGATGGTTTTGCCCCAATCATTTTCTAGA
66 TTGACTAATAGGTTTCGCT-TAGTCATC-TTTTCAATGATGGTTTT-CCCCAATCATTTTCTAGA
* * * *
1397519 CTAACT-AGTTTG-CCTAGTCATTTTCTTTGACTAATAGGTTTTTCTCTAGTCATC
128 CTAAATGAGTTTGCCCTAGTCATTTCCCTTGACTAATAGGTTTTAC-CTAGTCATC
*** * * * * *
1397573 TTTTCAATGGATGGTTTCGTCCTAGTCATTTTCTCGACTAATTAGTTTTTCCTTAGTCATTTCCT
1 TTTTCAACCAATGGTTTTGTCCTAGTCATCTTCTTGACTAATTAGTTTTGCCTTAGTCATTTTCT
* * * * *
1397638 TGGACTAATAGGTTTTGTCTTAGTCATCTTTTCAACTGATGGTTCTAT-CTCGATCATTTTCTTG
66 TTGACTAATAGGTTTCG-CTTAGTCATCTTTTCAA-TGATGGTT-T-TCCCCAATCATTTTCTAG
* * * * ** * * *
1397702 ATTAATTG-GTTTCACCCAAGTTGTTTACTTTGACTAATAGGTTTTGTCCTAGTCATC
127 ACTAAATGAGTTT-GCCCTAGTCATTTCCCTTGACTAATAGGTTTT-ACCTAGTCATC
* * * *
1397759 TTATCAACTAATGGTTTTGT-CTAAATTATCTTCTTGACTAATTAGTTTTG
1 TTTTCAACCAATGGTTTTGTCCT-AGTCATCTTCTTGACTAATTAGTTTTG
1397809 ATTTTCTTTA
Statistics
Matches: 334, Mismatches: 72, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
183 37 0.11
184 191 0.57
185 31 0.09
186 73 0.22
187 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (182 bp):
TTTTCAACCAATGGTTTTGTCCTAGTCATCTTCTTGACTAATTAGTTTTGCCTTAGTCATTTTCT
TTGACTAATAGGTTTCGCTTAGTCATCTTTTCAATGATGGTTTTCCCCAATCATTTTCTAGACTA
AATGAGTTTGCCCTAGTCATTTCCCTTGACTAATAGGTTTTACCTAGTCATC
Found at i:1405016 original size:79 final size:80
Alignment explanation
Indices: 1404925--1405096 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
1404915 AAATTTAATA
* *
1404925 TTTTAGAGATAAAAAT-GAGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCTCGA-
1 TTTTAGAAATAAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCCCGAT
*
1404988 TGATTGAAAATCAATG
66 TG-TGGAAAATCAATG
* * * ** *
1405004 TTTTAGAAAT-AAAATCGAGGTTGGAGTATCCCTTTGGAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTAGAAATAAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCCCGAT
**
1405068 TGTGGAAAATCGGTG
66 TGTGGAAAATCAATG
*
1405083 TTTTGGAAATAAAA
1 TTTTAGAAATAAAA
1405097 GCATCGATGC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 5 0.06
79 68 0.87
80 5 0.06
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (80 bp):
TTTTAGAAATAAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGAAGTATCCCCGAT
TGTGGAAAATCAATG
Found at i:1406960 original size:50 final size:50
Alignment explanation
Indices: 1406901--1407009 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 50
1406891 TGAGAAATGC
* *
1406901 ATCGATACATCTGGGTGAAACCTAGAATGTATCGATACAATAAAAAATAT
1 ATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAATAAAAAATAT
* * *
1406951 ATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAATGAAGAATGT
1 ATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAATAAAAAATAT
1407001 ATCGATACA
1 ATCGATACA
1407010 AATTGTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCGATACATCTGGGTAAAACCCAGAATGTATCGATACAATAAAAAATAT
Found at i:1410208 original size:26 final size:24
Alignment explanation
Indices: 1410179--1410232 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
1410169 ACCCTAATTA
*
1410179 ATTTATGTAATTTTAATTTTAATGTT
1 ATTTATGTAATTTTAAATTT-AT-TT
* *
1410205 ATTTATTTTATTTTAAATTTATTT
1 ATTTATGTAATTTTAAATTTATTT
1410229 ATTT
1 ATTT
1410233 TTTGCAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.24
25 2 0.08
26 17 0.68
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTATGTAATTTTAAATTTATTT
Found at i:1410219 original size:20 final size:21
Alignment explanation
Indices: 1410178--1410233 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
1410168 GACCCTAATT
*
1410178 AATTTATGTAATTTTAATTTT-
1 AATTTAT-TTATTTTAATTTTA
1410199 AATGTTATTTATTTT-ATTTTA
1 AAT-TTATTTATTTTAATTTTA
1410220 AATTTATTTATTTT
1 AATTTATTTATTTT
1410234 TTGCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 16 0.50
21 12 0.38
22 4 0.12
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (21 bp):
AATTTATTTATTTTAATTTTA
Found at i:1410302 original size:17 final size:17
Alignment explanation
Indices: 1410279--1410319 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1410269 CTAATTTTCC
1410279 ATAATTTATTCATTTTT
1 ATAATTTATTCATTTTT
* *
1410296 GTAATTTATTTATTTTT
1 ATAATTTATTCATTTTT
1410313 ATAATTT
1 ATAATTT
1410320 TTTTTGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
ATAATTTATTCATTTTT
Found at i:1410376 original size:4 final size:4
Alignment explanation
Indices: 1410367--1410412 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
1410357 TTTTATTATG
*
1410367 TTTA TTTA TTTTA TGTA TTTA TTTTA TTTA TTTA TTTA TTTTA TTT
1 TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA TTTA TTTA -TTTA TTT
1410413 TCATTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 25 0.68
5 12 0.32
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1410376 original size:13 final size:13
Alignment explanation
Indices: 1410358--1410412 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
1410348 TTATCTCACT
*
1410358 TTTATTATGTTTA
1 TTTATTATATTTA
* *
1410371 TTTATTTTATGTA
1 TTTATTATATTTA
*
1410384 TTTATTTTATTTA
1 TTTATTATATTTA
1410397 TTTATT-TATTTTA
1 TTTATTATA-TTTA
1410410 TTT
1 TTT
1410413 TCATTTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
12 2 0.05
13 35 0.95
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTATTATATTTA
Found at i:1410379 original size:9 final size:9
Alignment explanation
Indices: 1410357--1410424 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
1410347 TTTATCTCAC
1410357 TTTTA-TTA
1 TTTTATTTA
1410365 TGTTTATTTA
1 T-TTTATTTA
*
1410375 TTTTATGTA
1 TTTTATTTA
1410384 -TTTATTT-
1 TTTTATTTA
1410391 TATTTATTTA
1 T-TTTATTTA
1410401 -TTTATTTTA
1 TTTTA-TTTA
1410410 TTTTCATTTAA
1 TTTT-ATTT-A
1410421 TTTT
1 TTTT
1410425 CTACCCATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
8 11 0.22
9 22 0.45
10 10 0.20
11 6 0.12
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:1410389 original size:17 final size:17
Alignment explanation
Indices: 1410367--1410413 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
1410357 TTTTATTATG
1410367 TTTATTTATTTTATGTA
1 TTTATTTATTTTATGTA
*
1410384 TTTATTT-TATTTATTTA
1 TTTATTTAT-TTTATGTA
1410401 TTTATTTTATTTT
1 TTTA-TTTATTTT
1410414 CATTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 1 0.04
17 18 0.69
18 6 0.23
19 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTATTTATTTTATGTA
Found at i:1412336 original size:35 final size:35
Alignment explanation
Indices: 1412265--1412336 Score: 108
Period size: 35 Copynumber: 2.1 Consensus size: 35
1412255 GGATATGAAC
* * * *
1412265 TTTTGATCTTTGAACTTGTTGGATCGCTAAATAAA
1 TTTTGATCTTTGAACTTGCTGGATCACCAAACAAA
1412300 TTTTGATCTTTGAACTTGCTGGATCACCAAACAAA
1 TTTTGATCTTTGAACTTGCTGGATCACCAAACAAA
1412335 TT
1 TT
1412337 ATCTGATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (35 bp):
TTTTGATCTTTGAACTTGCTGGATCACCAAACAAA
Found at i:1413602 original size:35 final size:36
Alignment explanation
Indices: 1413520--1413607 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 36
1413510 TATTTTATTT
* *
1413520 TTTTTAGATTTGTTA-TTATTCTTTAGAATTTTTAAA
1 TTTTTAGATTT-TTATTTACTCTTTAGAATTTATAAA
**
1413556 TTTTTTTATTTTTATTTACT-TTTA-AATTTATAAA
1 TTTTTAGATTTTTATTTACTCTTTAGAATTTATAAA
1413590 TTTTTAGAATTTTTATTT
1 TTTTTAG-ATTTTTATTT
1413608 TTTTCTTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
34 14 0.32
35 17 0.39
36 13 0.30
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (36 bp):
TTTTTAGATTTTTATTTACTCTTTAGAATTTATAAA
Done.