Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold373
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: 3053563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 20
Found at i:2784039 original size:540 final size:541
Alignment explanation
Indices: 2783020--2784041 Score: 1266
Period size: 540 Copynumber: 1.9 Consensus size: 541
2783010 GTCACTTTTA
* ** * * * *
2783020 GTTGACTTTATTGGTTTTACCCTTGTCAACTTCTTTTCGACTTAGGTTTCACCTTGGTTACCCTT
1 GTTGACTTTATTAGTTTTACCCTTGTCAACCCCATTTCGACTTAGGTTTCACCTTAGTCACCATT
* ** * * *
2783085 TGTTGACTTGTTAGTTTTATCCTAGTTAACCTCATTTTAACTTAGATTTTAACCTAGTCCCTTTT
66 TGTTGACTTATTAACTTTATCCTAGTCAACCTCATTTTAACTTAGATTTCAACCTAGTCACTTTT
* * * * *
2783150 AGCTAGCTTTATTGTTTTTGCCCTGGTCAACTTCTTTTCGACTTGGGTTTCACACTAGTGACCCT
131 AGCTAACTTTATTGTTTTTGCCCTGATCAACTTCTTTTCGACTTAGATTTCACACTAGTCACCCT
* **
2783215 TTGTTGACTTATCGCTTTAATCCTTGTCAACCCCATTTTGACTTAGGTTTCACCTTTGTCACTTT
196 TTGTTGACTTATCGATTTAATCCCAGTCAACCCCATTTTGACTTAGGTTTCACCTTTGTCACTTT
** * * * * *
2783280 TAGGTCACTTTATTGGTTTCATTTTGGTTTACTTCATTTCGACTTAGGTTTCGCCTTTGACACCC
261 TAGGTCACTTTATTGGTTTCACCTTAGTTAACTTCATTTCAACTTAGGTGTCGCCTTGGACACCC
* **
2783345 TTTGTTGACTTATTGGTTTTATCCTGGTCAACCCCTTAAACTTGTTAACTTTATTAGTATCACCC
326 TTTGTTGACTTATTAGTTTTATCCTAATCAACCCCTTAAACTTGTTAACTTTATTAGTATCACCC
* * * *
2783410 TGTCAACCTCTTTTCGACTTAGGTTTCACCTTAGTCACTTTTGGTTGACCTTATTGGTTTTTGCC
391 TGTCAACCTCTTTTCAACTTAGGTTTCACCCTACTCACTTTTAGTTGACCTTATTGGTTTTTGCC
* ** * * * *
2783475 TTGGTTAACTTTTTTTTTACTTAGGTTTTGCCTTGGTCACTTTTTGTTGACTTCTCGATTTTGTC
456 CTAATCAACATCTTTTTAACTTAGGTTTTGCCTTGGTCACTTTTTGTTGACTTCTCGATTTTGTC
2783540 ATAGTTAACCCCCTTAAACTC
521 ATAGTTAACCCCCTTAAACTC
* *
2783561 GTTGACTTTATTAGTTTT-GCCTTGTCAAACCCCATTT-GACTTCGGTTTCACCTTAGTCA-CAT
1 GTTGACTTTATTAGTTTTACCCTTGTC-AACCCCATTTCGACTTAGGTTTCACCTTAGTCACCAT
* * * * * *
2783623 TTAGTTGACTTTATTAACTTTATCTTGGTCAACCTCTTTTTGACTTAGGTTTCACCCTAGTCACT
65 TT-GTTGAC-TTATTAACTTTATCCTAGTCAACCTCATTTTAACTTAGATTTCAACCTAGTCACT
* * * * *
2783688 TTTAGTTAACTTTATTAG-TTTTGCCTTGATCAAGTTCTTTT-GACTTAGATTTCACCCTGGTCA
128 TTTAGCTAACTTTATT-GTTTTTGCCCTGATCAACTTCTTTTCGACTTAGATTTCACACTAGTCA
* * ** *
2783751 CCTTTTGTTGACTTGTCGATTTTGTCCCAGTTAACCCCATTTTGACTTAGGTTTCACCTTAT-TC
192 CCCTTTGTTGACTTATCGATTTAATCCCAGTCAACCCCATTTTGACTTAGGTTTCACCTT-TGTC
* * * * * *
2783815 ACTTTTAGTTGACTTTATTGGTTTCGCCTTAGTTAACTTCTTTTCAATTTAGGTGTCGCCTTGGT
256 ACTTTTAGGTCACTTTATTGGTTTCACCTTAGTTAACTTCATTTCAACTTAGGTGTCGCCTTGGA
* * * * *
2783880 CACCCTTTGTTGTCTTGTTAGTTTTGTCTTAATCAACCCCTTAAACTTGTTAACTTTATTAGTTT
321 CACCCTTTGTTGACTTATTAGTTTTATCCTAATCAACCCCTTAAACTTGTTAACTTTATTAGTAT
* * * *
2783945 CACCCTGGTTAACCTCTTTTCAACTTAGGTTTTACCCTACTCACTTTTAGTTGACTTTATTTG-T
386 CACCCT-GTCAACCTCTTTTCAACTTAGGTTTCACCCTACTCACTTTTAGTTGACCTTATTGGTT
2784009 TTTGCCCTAATCAACATCTTTTTAACTTAGGTT
450 TTTGCCCTAATCAACATCTTTTTAACTTAGGTT
2784042 CACCCTAGTC
Statistics
Matches: 400, Mismatches: 75, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
539 4 0.01
540 245 0.61
541 150 0.38
542 1 0.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (541 bp):
GTTGACTTTATTAGTTTTACCCTTGTCAACCCCATTTCGACTTAGGTTTCACCTTAGTCACCATT
TGTTGACTTATTAACTTTATCCTAGTCAACCTCATTTTAACTTAGATTTCAACCTAGTCACTTTT
AGCTAACTTTATTGTTTTTGCCCTGATCAACTTCTTTTCGACTTAGATTTCACACTAGTCACCCT
TTGTTGACTTATCGATTTAATCCCAGTCAACCCCATTTTGACTTAGGTTTCACCTTTGTCACTTT
TAGGTCACTTTATTGGTTTCACCTTAGTTAACTTCATTTCAACTTAGGTGTCGCCTTGGACACCC
TTTGTTGACTTATTAGTTTTATCCTAATCAACCCCTTAAACTTGTTAACTTTATTAGTATCACCC
TGTCAACCTCTTTTCAACTTAGGTTTCACCCTACTCACTTTTAGTTGACCTTATTGGTTTTTGCC
CTAATCAACATCTTTTTAACTTAGGTTTTGCCTTGGTCACTTTTTGTTGACTTCTCGATTTTGTC
ATAGTTAACCCCCTTAAACTC
Found at i:2784243 original size:24 final size:24
Alignment explanation
Indices: 2784211--2784258 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2784201 AGTTTTCATA
2784211 ACTTATATTTTTCTAAACTATGTG
1 ACTTATATTTTTCTAAACTATGTG
2784235 ACTTATATTTTTCTAAACTATGTG
1 ACTTATATTTTTCTAAACTATGTG
2784259 TCAAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.50
Consensus pattern (24 bp):
ACTTATATTTTTCTAAACTATGTG
Found at i:2785072 original size:20 final size:21
Alignment explanation
Indices: 2785009--2785080 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 21
2784999 GCCAAGGAAA
*
2785009 TGTATCGATACATA--AGTAAA
1 TGTATCGATACATATTA-TAAT
2785029 TGTATCGATACATACTTATAAT
1 TGTATCGATACATA-TTATAAT
* *
2785051 TGTATTGATACAT-TTATCAT
1 TGTATCGATACATATTATAAT
2785071 TGTATCGATA
1 TGTATCGATA
2785081 TATTCTGGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 29 0.64
22 15 0.33
23 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATATTATAAT
Found at i:2787286 original size:13 final size:13
Alignment explanation
Indices: 2787268--2787297 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2787258 ATTTTTCACT
*
2787268 ATGTATCGATATA
1 ATGTATCGATACA
2787281 ATGTATCGATACA
1 ATGTATCGATACA
2787294 ATGT
1 ATGT
2787298 CCCATATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2787366 original size:20 final size:20
Alignment explanation
Indices: 2787341--2787378 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2787331 TACTGCCAGT
2787341 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
2787361 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
2787379 GTATCGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:2787382 original size:13 final size:13
Alignment explanation
Indices: 2787364--2787388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2787354 ACAATTCTTC
2787364 ATGTATCGATACA
1 ATGTATCGATACA
2787377 ATGTATCGATAC
1 ATGTATCGATAC
2787389 TTCTAGGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2791655 original size:49 final size:49
Alignment explanation
Indices: 2791581--2792393 Score: 632
Period size: 49 Copynumber: 17.0 Consensus size: 49
2791571 AGGAATGTTA
* * *
2791581 AAGATGCCAATATGCTGATTTAAGGCCAACGATATCGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
2791630 AACATGCCAATGTGCGGATTCAAGGCTAGCGACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
** *
2791679 ACAAAGGCGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
2791731 AAGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGCACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
2791780 ACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTCGAC-T-----T-
1 ---AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
2791825 ---CTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-C
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * * *
2791870 AAGGTGCTAATATGCTGATTCAAGGCTAGCAATATTGGGCTTATGGATGACG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA---AAGATG
* *
2791922 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
2791971 AAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
2792020 CAAAAGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
1 -AAGA-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
2792071 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGCACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
2792120 ACAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG
1 ---AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *** * *
2792172 AAGGTGCCAATGTGCTGATTCAAGGCCAATAACATTGGTC-T-----T-
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
2792214 --G-TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTTAAAGA-C
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
2792259 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * ** *
2792301 ---ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGA-C
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
2792346 AATG-TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
2792394 AGACGGCACC
Statistics
Matches: 618, Mismatches: 98, Indels: 96
0.76 0.12 0.12
Matches are distributed among these distances:
39 96 0.16
40 4 0.01
43 1 0.00
46 1 0.00
47 2 0.00
48 99 0.16
49 212 0.34
50 4 0.01
51 44 0.07
52 155 0.25
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:2791663 original size:101 final size:101
Alignment explanation
Indices: 2791580--2792199 Score: 418
Period size: 101 Copynumber: 6.3 Consensus size: 101
2791570 TAGGAATGTT
* * * *
2791580 AAAGATGCCAATATGCTGATTTAAGGCCAACGATATCGGACTTAAAGATGAACATGCCAATGTGC
1 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAACATGCCAATGTAC
* *
2791645 GGATTCAAGGCTAGCGACATTGGACTTAAAGATGAC
66 GAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
* * * **
2791681 AAAGGCGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTAC
1 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAACATGCCAATGTAC
* *
2791746 TAATTCAAGGCCAGCGACATTGCACTTAAAGATGAC
66 GAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
*
2791782 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTC-GAC-T-----T---C-TGCCAATGTG
1 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATA-TCGGACTTAAAGATGAACATGCCAATGTA
*
2791836 CTG-ATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC
65 C-GAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
** * * * * * **
2791870 -AAGGTGCTAATATGCTGATTCAAGGCTAGCAATATTGGGCTTATGGATG-ACGAAGGTGCCAAT
1 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAC--A--TGCC-A-
* *
2791933 ATGT-TG-ATTCAAGGCCAGCGATATTGGACTTAAAGATG--
60 ATGTACGAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
** * * * * * * *
2791971 -AAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGCAAAAGCGCCAATAT
1 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATG-AACA-TGCCAATGT
* * *
2792035 GCTG-ATTCAAGGCCAACGATATTGGACTTAAAGATG--
64 AC-GAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
** * * * * * * *
2792071 -AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGCACTTAAAGATGACAAAGGTGCCAATA
1 AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGA-ACA--TGCCAATG
* * *
2792135 TGCTG-ATTCAAGGCCAGTGATATTGGACTTAAAGATG--
63 TAC-GAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
** *
2792172 -AAGGTGCCAATGTGCTGATTCAAGGCCA
1 AAAGACGCCAATATGCTGATTCAAGGCCA
2792200 ATAACATTGG
Statistics
Matches: 441, Mismatches: 51, Indels: 54
0.81 0.09 0.10
Matches are distributed among these distances:
86 1 0.00
87 31 0.07
88 4 0.01
89 1 0.00
90 2 0.00
91 33 0.07
93 1 0.00
95 2 0.00
98 3 0.01
99 2 0.00
100 114 0.26
101 239 0.54
102 6 0.01
103 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (101 bp):
AAAGACGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAACATGCCAATGTAC
GAATTCAAGGCCAGCGACATTGGACTTAAAGATGAC
Found at i:2792129 original size:201 final size:200
Alignment explanation
Indices: 2791827--2792286 Score: 586
Period size: 201 Copynumber: 2.4 Consensus size: 200
2791817 TTCGACTTCT
* * * *
2791827 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCTAATATGCTGATTCA
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
* * * ** ** * *
2791892 AGGCTAGCAATATTGGGCTTATGGATGACGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATAT
66 AGGCCAACAACATTGCACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
2791957 TGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGCA
131 TGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGCA
2792022 AAAGC
196 AAAGC
* * *
2792027 GCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-CAAGGTGCCAATATGCTGATTC
* *
2792092 AAGGCCAACGACATTGCACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATA
65 AAGGCCAACAACATTGCACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
* *
2792157 TTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA-ATAACATTGGTCTT---G-T-
130 TTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGA-GACATTGGACTTAAAGATG
2792216 -------
194 CAAAAGC
* ** * *
2792216 GCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
2792281 AGGCCA
66 AGGCCA
2792287 GCGATATTGG
Statistics
Matches: 230, Mismatches: 28, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
188 27 0.12
189 36 0.16
197 1 0.00
198 1 0.00
200 39 0.17
201 126 0.55
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (200 bp):
GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
AGGCCAACAACATTGCACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
TGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGGACTTAAAGATGCA
AAAGC
Found at i:2792207 original size:101 final size:101
Alignment explanation
Indices: 2791826--2792209 Score: 540
Period size: 100 Copynumber: 3.8 Consensus size: 101
2791816 ATTCGACTTC
* * * * * *
2791826 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCTAATATGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* * * * ** *
2791890 CAAGGCTAGCAATATTGGGCTTATGGATGACGAAGG
66 CAAGGCCAACAACATTGGACTTAAAGATGACAAAGG
*
2791926 TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* *
2791991 CAAGGCCAGA-GACATTGGACTTAAAGATG-CAAAAG
66 CAAGGCCA-ACAACATTGGACTTAAAGATGACAAAGG
* *
2792026 CGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* *
2792091 CAAGGCCAACGACATTGCACTTAAAGATGACAAAGG
66 CAAGGCCAACAACATTGGACTTAAAGATGACAAAGG
*
2792127 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
*
2792192 CAAGGCCAATAACATTGG
66 CAAGGCCAACAACATTGG
2792210 TCTTGTGCCA
Statistics
Matches: 253, Mismatches: 27, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
99 1 0.00
100 131 0.52
101 121 0.48
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (101 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
CAAGGCCAACAACATTGGACTTAAAGATGACAAAGG
Found at i:2792229 original size:39 final size:39
Alignment explanation
Indices: 2792175--2792336 Score: 162
Period size: 39 Copynumber: 3.9 Consensus size: 39
2792165 AAAGATGAAG
* *
2792175 GTGCCAATGTGCTGATTCAAGGCCAATAACATTGGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTT
*
2792214 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTT
* * * *
2792253 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTT
* *
2792301 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
1 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGT
2792337 TTTAAAGACA
Statistics
Matches: 102, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
39 68 0.67
48 34 0.33
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTT
Found at i:2792306 original size:87 final size:87
Alignment explanation
Indices: 2792127--2792388 Score: 362
Period size: 87 Copynumber: 3.0 Consensus size: 87
2792117 ATGACAAAGG
* * * * *
2792127 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATT
*** * * *
2792192 CAAGGCCAATAACATTGGTCTTG
65 CAAGGCCAGCGATATTGGACTTA
*
2792215 TGCCAATGTGCTGATTCAAGGCCAGTGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
*
2792280 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGACTTA
* * * *
2792302 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGACAATGTGCCAATATGCTAATTC
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
2792367 AAGGCCAGCGATATTGGACTTA
66 AAGGCCAGCGATATTGGACTTA
2792389 GAAGAAGACG
Statistics
Matches: 156, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 117 0.75
88 39 0.25
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTA
Found at i:2792492 original size:29 final size:29
Alignment explanation
Indices: 2792410--2792504 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
2792400 CACCAACTTG
**
2792410 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGG-TGCCACTGACT
* *
2792439 TGTGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGTGCCACTGACT
2792467 TGTGGGC-TTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGGTGCCACTGACT
2792496 TGTGGGCTT
1 TGTGGGCTT
2792505 AGAAGGAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 6 0.11
28 16 0.29
29 33 0.59
30 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.34
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGGTGCCACTGACT
Found at i:2792558 original size:27 final size:26
Alignment explanation
Indices: 2792528--2792596 Score: 129
Period size: 26 Copynumber: 2.6 Consensus size: 26
2792518 TGACACGAAA
2792528 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGG-GCCACAGAG
2792555 TTGTGGACTTAAAAGGGGCCACAGAG
1 TTGTGGACTTAAAAGGGGCCACAGAG
2792581 TTGTGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
2792597 AAAAAGGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 25 0.60
27 17 0.40
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (26 bp):
TTGTGGACTTAAAAGGGGCCACAGAG
Found at i:2792618 original size:34 final size:34
Alignment explanation
Indices: 2792565--2792784 Score: 201
Period size: 34 Copynumber: 6.7 Consensus size: 34
2792555 TTGTGGACTT
*
2792565 AAAAGGG-GCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
2792598 AAAAGGGTGCCATGGAGTTGTGGGCTTTAAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGA
* *
2792634 ACAA-GGTGCCACGGAGTTGTGAACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
2792667 AAAAGAGTGCCACGGAGTTGTAGG-CTT-------
1 AAAAGGGTGCCACGGAGTTGT-GGACTTAAAAGGA
**
2792694 AAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * * * *
2792728 AACA-GGAGCCACGTAGTTGTGGGCTTTAAAAAGA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA
*
2792762 AAATGGGTGCCACGGAGTTGTGG
1 AAAAGGGTGCCACGGAGTTGTGG
2792785 GCTTTAGGAC
Statistics
Matches: 149, Mismatches: 23, Indels: 28
0.75 0.12 0.14
Matches are distributed among these distances:
26 2 0.01
27 21 0.14
33 33 0.22
34 47 0.32
35 36 0.24
36 10 0.07
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:2792684 original size:69 final size:66
Alignment explanation
Indices: 2792565--2792784 Score: 254
Period size: 69 Copynumber: 3.3 Consensus size: 66
2792555 TTGTGGACTT
* *
2792565 AAAAGGGGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGGTGCCATGGAGTTGTGGGCTTTAAAA
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTAAAA
2792630 AGG
65 A-G
* * *
2792633 AACAAGGTGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTAGGC-TT-AA
1 AA-AAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
2792696 AAG
64 AAG
* * * *
2792699 ----GGTGCCACAAAGTTGTGGACTTAAAAGGAAACAGGAGCCACGTAGTTGTGGGCTTTAAAAA
1 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
2792760 G
66 G
*
2792761 AAAATGGGTGCCACGGAGTTGTGG
1 AAAA--GGTGCCACAGAGTTGTGG
2792785 GCTTTAGGAC
Statistics
Matches: 128, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
60 16 0.12
61 32 0.25
62 5 0.04
66 1 0.01
67 4 0.03
68 21 0.16
69 49 0.38
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (66 bp):
AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
G
Found at i:2792714 original size:61 final size:61
Alignment explanation
Indices: 2792638--2792758 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
2792628 AAAGGAACAA
** *
2792638 GGTGCCACGGAGTTGTGAACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTAGGC-TTAAAAG
1 GGTGCCACAAAGTTGTGAACTTAAAAGGAAAAAG-GAGCCACGGAGTTGTAGGCTTTAAAAG
* * * *
2792699 GGTGCCACAAAGTTGTGGACTTAAAAGGAAACAGGAGCCACGTAGTTGTGGGCTTTAAAA
1 GGTGCCACAAAGTTGTGAACTTAAAAGGAAAAAGGAGCCACGGAGTTGTAGGCTTTAAAA
2792759 AGAAAATGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 16 0.31
61 36 0.69
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (61 bp):
GGTGCCACAAAGTTGTGAACTTAAAAGGAAAAAGGAGCCACGGAGTTGTAGGCTTTAAAAG
Found at i:2792723 original size:95 final size:96
Alignment explanation
Indices: 2792598--2792788 Score: 235
Period size: 95 Copynumber: 2.0 Consensus size: 96
2792588 CTTAAAAGGA
*** * *
2792598 AAAAGGGTGCCATGGAGTTGTGGGCTTTAAAAAGG-AACAAGGTGCCACGGAGTTGTGAAC-TTA
1 AAAAGGGTGCCACAAAGTTGTGGACTTT-AAAAGGAAAC-AGGAGCCACGGAGTTGTGAACTTTA
*
2792661 AAAGGAAAAAGAGTGCCACGGAGTTGTAGGCTT
64 AAAAGAAAAAGAGTGCCACGGAGTTGTAGGCTT
* **
2792694 AAAAGGGTGCCACAAAGTTGTGGAC-TTAAAAGGAAACAGGAGCCACGTAGTTGTGGGCTTTAAA
1 AAAAGGGTGCCACAAAGTTGTGGACTTTAAAAGGAAACAGGAGCCACGGAGTTGTGAACTTTAAA
* * *
2792758 AAGAAAATGGGTGCCACGGAGTTGTGGGCTT
66 AAGAAAAAGAGTGCCACGGAGTTGTAGGCTT
2792789 TAGGACAAGA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
94 23 0.28
95 37 0.46
96 21 0.26
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (96 bp):
AAAAGGGTGCCACAAAGTTGTGGACTTTAAAAGGAAACAGGAGCCACGGAGTTGTGAACTTTAAA
AAGAAAAAGAGTGCCACGGAGTTGTAGGCTT
Found at i:2792726 original size:27 final size:27
Alignment explanation
Indices: 2792667--2792726 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
2792657 CTTAAAAGGA
* **
2792667 AAAAGAGTGCCACGGAGTTGTAGGCTT
1 AAAAGGGTGCCACAAAGTTGTAGGCTT
2792694 AAAAGGGTGCCACAAAGTTGT-GGACTT
1 AAAAGGGTGCCACAAAGTTGTAGG-CTT
2792721 AAAAGG
1 AAAAGG
2792727 AAACAGGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAAAGTTGTAGGCTT
Found at i:2792746 original size:129 final size:128
Alignment explanation
Indices: 2792538--2792783 Score: 363
Period size: 129 Copynumber: 1.9 Consensus size: 128
2792528 TTGTGGACTT
* *
2792538 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGGCCACAGAGTTGTGGACTTAAAAGGAAAAAG
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGGGCCACAAAGTTGTGGACTTAAAAGGAAAAAG
* *
2792603 GGTGCCATGGAGTTGTGGGCTTTAAAAAGGAACAA-GGTGCCACGGAGTTGTGAACTTAAAAGGA
66 GGAGCCACGGAGTTGTGGGCTTTAAAAA-GAA-AAGGGTGCCACGGAGTTGTGAACTTAAAAGGA
* *
2792667 AAAAGAGTGCCACGGAGTTGTAGG-CTTAAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAC
1 AAAAGAGTGCCACAGAGTTGT-GGACTTAAAAGGG-GCCACAAAGTTGTGGACTTAAAAGGAAAA
*
2792731 A-GGAGCCACGTAGTTGTGGGCTTTAAAAAGAAAATGGGTGCCACGGAGTTGTG
64 AGGGAGCCACGGAGTTGTGGGCTTTAAAAAGAAAA-GGGTGCCACGGAGTTGTG
2792784 GGCTTTAGGA
Statistics
Matches: 106, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
127 2 0.02
128 3 0.03
129 71 0.67
130 30 0.28
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (128 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGGGCCACAAAGTTGTGGACTTAAAAGGAAAAAG
GGAGCCACGGAGTTGTGGGCTTTAAAAAGAAAAGGGTGCCACGGAGTTGTGAACTTAAAAGGA
Found at i:2792789 original size:35 final size:34
Alignment explanation
Indices: 2792694--2792790 Score: 108
Period size: 35 Copynumber: 2.9 Consensus size: 34
2792684 TTGTAGGCTT
* * *
2792694 AAAAGGGTGCCACAAAGTTGTGGAC-TTAAAAGG
1 AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAG
* *
2792727 AAACA-GGAGCCACGTAGTTGTGGGCTTTAAAAAG
1 AAA-AGGGTGCCACGAAGTTGTGGGCTTTAAAAAG
*
2792761 AAAATGGGTGCCACGGAGTTGTGGGCTTTA
1 AAAA-GGGTGCCACGAAGTTGTGGGCTTTA
2792791 GGACAAGATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 20 0.38
34 11 0.21
35 22 0.42
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (34 bp):
AAAAGGGTGCCACGAAGTTGTGGGCTTTAAAAAG
Found at i:2792889 original size:31 final size:31
Alignment explanation
Indices: 2792769--2792966 Score: 249
Period size: 31 Copynumber: 6.4 Consensus size: 31
2792759 AGAAAATGGG
* * * * *
2792769 TGCCACGGAGTTGTGGGCTTT-AGGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
2792799 TGCCACTGAATCGTGGACTTTG-GGACAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
2792829 TGCCACTGAGTCGTGGACTTTGGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTT-GAAGAAAAGA
2792861 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
2792892 TGCCACTGAGTCGTGGACTTTGAAGGAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
2792923 TGCCACTGAGTCGTAGACTTTGGGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTT--GAAGAAAAGA
2792955 TGCCACTGAGTC
1 TGCCACTGAGTC
2792967 ATGAACTTAG
Statistics
Matches: 152, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
30 45 0.30
31 61 0.40
32 43 0.28
33 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:2792986 original size:32 final size:31
Alignment explanation
Indices: 2792795--2792987 Score: 191
Period size: 31 Copynumber: 6.2 Consensus size: 31
2792785 GCTTTAGGAC
*
2792795 AAGATGCCACTGAATCGTGGACTTTGG---GA
1 AAGATGCCACTGAGTCGTGGAC-TTGGAAAGA
2792824 CAAGATGCCACTGAGTCGTGGACTTTGG-AAGAA
1 -AAGATGCCACTGAGTCGTGGAC-TTGGAAAG-A
*
2792857 AAGATGCCACTGAGTCGTGGACTTTG-AAGAA
1 AAGATGCCACTGAGTCGTGGACTTGGAAAG-A
* *
2792888 AAGATGCCACTGAGTCGTGGACTTTGAAGGA
1 AAGATGCCACTGAGTCGTGGACTTGGAAAGA
*
2792919 AAGATGCCACTGAGTCGTAGACTTTGGGAAA-A
1 AAGATGCCACTGAGTCGTGGAC-TT-GGAAAGA
* * *
2792951 GAGATGCCACTGAGTCATGAACTTAGGAAAGA
1 AAGATGCCACTGAGTCGTGGACTT-GGAAAGA
*
2792983 GAGAT
1 AAGAT
2792988 TTGAAGAGTT
Statistics
Matches: 145, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
30 26 0.18
31 63 0.43
32 52 0.36
33 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (31 bp):
AAGATGCCACTGAGTCGTGGACTTGGAAAGA
Found at i:2794005 original size:13 final size:13
Alignment explanation
Indices: 2793987--2794012 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2793977 ACAAAAATCC
2793987 ATGTATCGATACA
1 ATGTATCGATACA
2794000 ATGTATCGATACA
1 ATGTATCGATACA
2794013 TCGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2794892 original size:22 final size:22
Alignment explanation
Indices: 2794867--2794911 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2794857 CATAATATAA
* **
2794867 CTCCCATTTAATTGAAAATTTT
1 CTCCCACTTAATAAAAAATTTT
*
2794889 CTCCCCCTTAATAAAAAATTTT
1 CTCCCACTTAATAAAAAATTTT
2794911 C
1 C
2794912 CTTTTAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (22 bp):
CTCCCACTTAATAAAAAATTTT
Found at i:2802979 original size:63 final size:63
Alignment explanation
Indices: 2802880--2803038 Score: 264
Period size: 63 Copynumber: 2.5 Consensus size: 63
2802870 TCTCATTATT
* *
2802880 ATGTATCGATACTTTTCATAATGTATCGATACATGCATTTAAAATTTATAGCCGTTGGGCACA
1 ATGTATCGATACTTTTCATAATGTATCAATACATGCATTTAAAATTTATAGCCATTGGGCACA
*
2802943 ATGTATCGATACTTTTCATAATGTATCAATACATGCATTTAAAATTTATAGCCATTGGGCATA
1 ATGTATCGATACTTTTCATAATGTATCAATACATGCATTTAAAATTTATAGCCATTGGGCACA
* * *
2803006 ATGTATCAATACTTTTCATTATGTATCCATACA
1 ATGTATCGATACTTTTCATAATGTATCAATACA
2803039 ATGTCCCATG
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (63 bp):
ATGTATCGATACTTTTCATAATGTATCAATACATGCATTTAAAATTTATAGCCATTGGGCACA
Found at i:2803111 original size:20 final size:20
Alignment explanation
Indices: 2803086--2803142 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
2803076 TACTGCCAGT
2803086 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
*
2803106 TTCATGTATCGATACAA-TG
1 TTCATGTATCGATACAATTC
**
2803125 AACATGTATCGATACAAT
1 TTCATGTATCGATACAAT
2803143 GTATCGATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:2803132 original size:19 final size:19
Alignment explanation
Indices: 2803088--2803143 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2803078 CTGCCAGTTT
***
2803088 CATGTATCGATACAATTCTT
1 CATGTATCGATACAA-TGAA
2803108 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2803127 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2803144 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:0.18, G:0.14, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2803146 original size:13 final size:13
Alignment explanation
Indices: 2803128--2803154 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2803118 TACAATGAAC
2803128 ATGTATCGATACA
1 ATGTATCGATACA
2803141 ATGTATCGATACA
1 ATGTATCGATACA
2803154 A
1 A
2803155 AGCAATATGT
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:2804032 original size:131 final size:131
Alignment explanation
Indices: 2803793--2804082 Score: 316
Period size: 131 Copynumber: 2.2 Consensus size: 131
2803783 TGAGCTTACA
* ** * *
2803793 TCACCCTTTGTTGACTTGTTGGTTTTGTCCAGATCAACCCTATTTTGCCTTAGGACTCACCCTAA
1 TCACCCTTTGTTGACTTATCAGTTTTGTCCAGATCAACCCCATTTTGACTTAGGACTCACCCTAA
* * * ** *
2803858 TCACTTTTAGTTAACTTTATTGGTTTCGCCCTAGTCAATTTCTTTTTGACATAGGTTTTGCCCTA
66 TCACTTTTAGTTAACTTTATTAGTCTCGCCCTAGTCAACTTCTTTTCAACATAGATTTTGCCCTA
2803923 G
131 G
* * **
2803924 TCACCCTTTGTTGACTTATCAATTTTGTCCTA-ATCAACCCCATTTTTACTTAGGTTTCA-CCTG
1 TCACCCTTTGTTGACTTATCAGTTTTGTCC-AGATCAACCCCATTTTGACTTAGGACTCACCCT-
* * * *
2803987 AGTCACTTTTAGTTGACTTTATTAGTGCT-GCCCTGGTCAACTTCTTTTCAACTTAGATTTTGCC
64 AATCACTTTTAGTTAACTTTATTAGT-CTCGCCCTAGTCAACTTCTTTTCAACATAGATTTTGCC
*
2804051 CTTG
128 CTAG
* * * *
2804055 CCAACCTTTATTGACATATCAGTTTTGT
1 TCACCCTTTGTTGACTTATCAGTTTTGT
2804083 TTCGATCAAC
Statistics
Matches: 131, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
130 3 0.02
131 126 0.96
132 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (131 bp):
TCACCCTTTGTTGACTTATCAGTTTTGTCCAGATCAACCCCATTTTGACTTAGGACTCACCCTAA
TCACTTTTAGTTAACTTTATTAGTCTCGCCCTAGTCAACTTCTTTTCAACATAGATTTTGCCCTA
G
Found at i:2804186 original size:66 final size:66
Alignment explanation
Indices: 2804108--2804253 Score: 163
Period size: 66 Copynumber: 2.2 Consensus size: 66
2804098 AAACTTGTTG
* *
2804108 ACTTTATTGGTTTTA-CCT-TAGTCAACCCCATTTT-GACTTAGGTTTTACTCTAGTCACTTTTA
1 ACTTTATTGGTTTTACCCTATA-T-AACCCC-TTTTCGACTTAGGTTTCACCCTAGTCACTTTTA
*
2804170 ATTT
63 ATTA
* * ** *
2804174 ACTTTGTTGGTTTCACCCTATATAACTTCTTTTCGACTTAGGTTTCACCCTAGTCACTTTTAGTT
1 ACTTTATTGGTTTTACCCTATATAACCCCTTTTCGACTTAGGTTTCACCCTAGTCACTTTTAATT
2804239 A
66 A
*
2804240 ACTTTTTTGGTTTT
1 ACTTTATTGGTTTT
2804254 GCTCTAGTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
65 4 0.06
66 57 0.85
67 4 0.06
68 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.12, T:0.49
Consensus pattern (66 bp):
ACTTTATTGGTTTTACCCTATATAACCCCTTTTCGACTTAGGTTTCACCCTAGTCACTTTTAATT
A
Found at i:2804267 original size:66 final size:66
Alignment explanation
Indices: 2804138--2804284 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 66
2804128 GTCAACCCCA
* * * *
2804138 TTTT-GACTTAGGTTTTACTCTAGTCACTTTTAATTTACTTTGTTGGTTTCACCCTATATAACTT
1 TTTTCGACTTAGGTTTCACCCTAGTCACTTTTAATTAACTTTGTTGGTTTCACCCTATACAACTT
2804202 C
66 C
* * ** *
2804203 TTTTCGACTTAGGTTTCACCCTAGTCACTTTTAGTTAACTTTTTTGGTTTTGCTCTAGT-CAACT
1 TTTTCGACTTAGGTTTCACCCTAGTCACTTTTAATTAACTTTGTTGGTTTCACCCTA-TACAACT
2804267 TC
65 TC
*
2804269 TTTTCAACTTAGGTTT
1 TTTTCGACTTAGGTTT
2804285 TGCCTTTTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
65 4 0.06
66 65 0.93
67 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.50
Consensus pattern (66 bp):
TTTTCGACTTAGGTTTCACCCTAGTCACTTTTAATTAACTTTGTTGGTTTCACCCTATACAACTT
C
Found at i:2804288 original size:238 final size:238
Alignment explanation
Indices: 2803971--2804465 Score: 606
Period size: 238 Copynumber: 2.1 Consensus size: 238
2803961 CCCCATTTTT
* *
2803971 ACTTAGGTTTCA-CCTGAGTCACTTTTAGTTGACTTTATTAGTGCTGCCCTGGTCAACTTCTTTT
1 ACTTAGGTTTCACCCT-AGTCACTTTTAGTTAACTTTATTAGTGCTGCCCTAGTCAACTTCTTTT
2804035 CAACTTAGATTTTGCCCTTGCCAACCT-TTATTGACATATC-AGTTTTGT-TTCGATCAACCCTT
65 CAACTTAGATTTTGCCCTTGCC-ACCTCTTATTGACATATCGA-TTTTGTCTT-GATCAACCCTT
* * * * * *
2804097 TAAACTTGTTGACTTTATTGGTTTTACCTTAGTCAACCCCATTTTGACTTAGGTTTTACTCTAGT
127 TAAACTCGTTGAATTTATTAGTTTTACCCTAGTCAACCCCATTTTGACTTAGGTTTCACCCTAGT
*
2804162 CACTTTTAATTTACTTTGTTGGTTTCACCCTAT-AT-AACTTCTTTTCG
192 CACTTTTAATTTACTTTGTTAGTTTC-CCCT-TGATCAACTTCTTTTCG
* * ** *
2804209 ACTTAGGTTTCACCCTAGTCACTTTTAGTTAACTTTTTTGGTTTTGCTCTAGTCAACTTCTTTTC
1 ACTTAGGTTTCACCCTAGTCACTTTTAGTTAACTTTATTAGTGCTGCCCTAGTCAACTTCTTTTC
* * ** * * * *
2804274 AACTTAGGTTTTGCCTTTTTCACCTCTTGTTGACGTGTCGATTTTGTCTTGGTCAACCCTTTAAA
66 AACTTAGATTTTGCCCTTGCCACCTCTTATTGACATATCGATTTTGTCTTGATCAACCCTTTAAA
* * * *
2804339 CTCGTTGAATTTATTAGTTTTGCCCTGGTCAACCCCATTTTGACTTTGGTTTCACCCTAGTCATT
131 CTCGTTGAATTTATTAGTTTTACCCTAGTCAACCCCATTTTGACTTAGGTTTCACCCTAGTCACT
* * * * *
2804404 TTTAGTTTACTTTGTTATTTTCGCCTTGGTCAACTTTTTTTCG
196 TTTAATTTACTTTGTTAGTTTCCCCTTGATCAACTTCTTTTCG
*
2804447 ACTTAGGTTCCACCCTAGT
1 ACTTAGGTTTCACCCTAGT
2804466 TAGCCTTTCA
Statistics
Matches: 219, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
236 1 0.00
237 8 0.04
238 204 0.93
239 6 0.03
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (238 bp):
ACTTAGGTTTCACCCTAGTCACTTTTAGTTAACTTTATTAGTGCTGCCCTAGTCAACTTCTTTTC
AACTTAGATTTTGCCCTTGCCACCTCTTATTGACATATCGATTTTGTCTTGATCAACCCTTTAAA
CTCGTTGAATTTATTAGTTTTACCCTAGTCAACCCCATTTTGACTTAGGTTTCACCCTAGTCACT
TTTAATTTACTTTGTTAGTTTCCCCTTGATCAACTTCTTTTCG
Found at i:2805248 original size:218 final size:218
Alignment explanation
Indices: 2804869--2805298 Score: 639
Period size: 218 Copynumber: 2.0 Consensus size: 218
2804859 AAAATTTTAT
* * ***
2804869 TTTTAAATATTTTCTTATGAAATTTTGAAAACTATTTTTGCAAATGTTGTCATGGTCAAATTCCT
1 TTTTAAATATTTACTTATGAAAATTTGAAAACTAACCTTGCAAATGTTGTCATGGTCAAATTCCT
* * ** * * *
2804934 TATTTTTTTAGAAATTTTTGAGATTTTTTGTAAAAATTAGGAATTTGACTGTCGTATATTTTTAC
66 TATTTTTTAAGAAATTTTTGAGATTTTTGGTAAAAATTAAAAAATTAACTATCGTATATTTTTAC
* * *
2804999 CAACCCTTTTGTAGCATTGTTGCCGATATGCACTTTGAAAAATTAAAAATATTCAAGAAAAATAC
131 CAACCCTTTTGTAGCATTGTTGCCAATATGCACTTTAAAAAATTAAAAATATCCAAGAAAAATAC
2805064 ATATTGGCATTATCCACCACGAG
196 ATATTGGCATTATCCACCACGAG
* **
2805087 TTTTAAATATTTACTTGTGAAAATTTGAAAACTAACCTTGCGGATGTTGTCATGGTCAAATTCCT
1 TTTTAAATATTTACTTATGAAAATTTGAAAACTAACCTTGCAAATGTTGTCATGGTCAAATTCCT
*
2805152 TATTTTTTAAGAAATTTTTGAGATTTTTGGTAAAATTTAAAAAATTAACTATCGTATATTTTTAC
66 TATTTTTTAAGAAATTTTTGAGATTTTTGGTAAAAATTAAAAAATTAACTATCGTATATTTTTAC
* *
2805217 CGACCCTTTTTGTA-TATT-TATGCCAATATGCACTTTAAAAAATTAAAAATATCCAAGAAAAAT
131 CAACCC-TTTTGTAGCATTGT-TGCCAATATGCACTTTAAAAAATTAAAAATATCCAAGAAAAAT
2805280 ACATATTGGCATTATCCAC
194 ACATATTGGCATTATCCAC
2805299 TATGAGCTGT
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
217 1 0.01
218 181 0.96
219 7 0.04
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (218 bp):
TTTTAAATATTTACTTATGAAAATTTGAAAACTAACCTTGCAAATGTTGTCATGGTCAAATTCCT
TATTTTTTAAGAAATTTTTGAGATTTTTGGTAAAAATTAAAAAATTAACTATCGTATATTTTTAC
CAACCCTTTTGTAGCATTGTTGCCAATATGCACTTTAAAAAATTAAAAATATCCAAGAAAAATAC
ATATTGGCATTATCCACCACGAG
Found at i:2807374 original size:158 final size:157
Alignment explanation
Indices: 2807143--2807533 Score: 457
Period size: 157 Copynumber: 2.5 Consensus size: 157
2807133 ATCATTTTAG
* * *
2807143 TCATTTTTAGAGATTTTTATTATTCCTATGGCTTTTATAGAGGTATAGAAATTTTCAAGACTTTT
1 TCATTTTTAAAGATTTTTATTATTCCTATGGCTTTTATAGAGGCATAAAAATTTTCAAGACTTTT
** **
2807208 CGTATCCTTTCGGTTTTTCATTGAGTACAAAAT-AAAATTTTCAAAAGTTTAAGGAATAAATATT
66 CGTATCCTTTCGGTTTTTCATCAAGTACAAAATCAAAATTTTCAAAAGTTTAAGGAATAAATACC
* *
2807272 AAATTTTAGTTTTTAGAGGTAAAAATCA
131 AAATTGTAGTTTTTAGAAGT-AAAATCA
* * * *
2807300 TCATTTTTAAAGATTTTTATTATTTCTATTGCTTTTTGTAGAGGCCTAAAAATTTTCAAGACTTT
1 TCATTTTTAAAGATTTTTATTATTCCTATGGC-TTTTATAGAGGCATAAAAATTTTCAAGACTTT
* * * * * *
2807365 TCGTTTCCTTTCGGTTTTTCGTCAAGTACGAAATCAAAATTTTTAAAAGTTTAGGGATTAAATAC
65 TCGTATCCTTTCGGTTTTTCATCAAGTACAAAATCAAAATTTTCAAAAGTTTAAGGAATAAATAC
2807430 CAAATTGTAGTTTTTAGAAGTAAAATCA
130 CAAATTGTAGTTTTTAGAAGTAAAATCA
*** * * ** *
2807458 TCA-TTTTAGTCATTTTTACTATTCCTATGGCCTTTCGTA-AG-GGTATAGCAATTTTCAATACT
1 TCATTTTTAAAGATTTTTATTATTCCTATGG-CTTT--TATAGAGGCATAAAAATTTTCAAGACT
*
2807520 TTTCATATCCTTTC
63 TTTCGTATCCTTTC
2807534 AATTTTTTGT
Statistics
Matches: 196, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
157 81 0.41
158 70 0.36
159 45 0.23
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (157 bp):
TCATTTTTAAAGATTTTTATTATTCCTATGGCTTTTATAGAGGCATAAAAATTTTCAAGACTTTT
CGTATCCTTTCGGTTTTTCATCAAGTACAAAATCAAAATTTTCAAAAGTTTAAGGAATAAATACC
AAATTGTAGTTTTTAGAAGTAAAATCA
Found at i:2811162 original size:25 final size:25
Alignment explanation
Indices: 2811134--2811183 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2811124 ATAGGCATTC
2811134 TATCATGCCTAGCCTAAAATAATCA
1 TATCATGCCTAGCCTAAAATAATCA
* *
2811159 TATCATGCCTAGCCTGAAATGATCA
1 TATCATGCCTAGCCTAAAATAATCA
2811184 GTGGTGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (25 bp):
TATCATGCCTAGCCTAAAATAATCA
Found at i:2812041 original size:156 final size:154
Alignment explanation
Indices: 2811473--2812064 Score: 619
Period size: 156 Copynumber: 3.8 Consensus size: 154
2811463 TCTTAGAGGC
* * * * * * *
2811473 ATTTTAGTAATTTTTCTA-AAATCGAGTCTTAGGTTATCATCGGGATGCTTTTATACCAAAGGT-
1 ATTTTCGTAATTTTT-TAGAACT-GAGTCATAGGTTGTCACCGAGATGCTTTTATGCCAAAGGTG
* * * * ** *
2811536 T--A--TAGGGTAAGTTCATCCC-TTATATGCTCCTTTTGTA-TCCTTTATGGTTACCG-GATAC
64 TGCATTTAGGATAGGTTCATCCCATT-TATGATCATTTTAAAGTCCTTTAGGGTTACCGAGATAC
*
2811594 TTTCACGTTGAAGGTATACCCTAAGGAC
128 TTTCACGTTGAAGGTATACCCTAAGG-T
* *
2811622 ATTTTCATAATTTTTCTAGAATTGAGTCATAGGTTGTCACCGAGATGCTTTTATGCCAAAGGTGT
1 ATTTTCGTAATTTTT-TAGAACTGAGTCATAGGTTGTCACCGAGATGCTTTTATGCCAAAGGTGT
* * * * *
2811687 GCATTGAGGATAGGTTCATCCCATTTATGATCATTTTGAAGCCCTTTAGGGCTACCGGGATACTT
65 GCATTTAGGATAGGTTCATCCCATTTATGATCATTTTAAAGTCCTTTAGGGTTACCGAGATACTT
* * * * *
2811752 TCATGTCGAAGATATTTCAC-AAGGGT
130 TCACGTTGAAGGTA-TACCCTAA-GGT
* * * *
2811778 ATTTTTGTAATTTTTTTAGAACCGAGTCCTAGGTTGTCACCGAGATCCTTTTATGCCAAAGGTGT
1 ATTTTCGTAA-TTTTTTAGAACTGAGTCATAGGTTGTCACCGAGATGCTTTTATGCCAAAGGTGT
* * * *
2811843 GCATTTAGGAAAGATTCATCCCATTTATGATCATTTTTAAGTCCTTTAGGGTTACCAAGATACTT
65 GCATTTAGGATAGGTTCATCCCATTTATGATCATTTTAAAGTCCTTTAGGGTTACCGAGATACTT
*
2811908 TCACGTTAAAGGTATACCCTAAGTGT
130 TCACGTTGAAGGTATACCCTAAG-GT
* * * * *
2811934 ATTTTCGTAATTTTCTTAAAACTGAGTCTTTGGTTGTCACCGGGATGCTTTTATGCCAAATGTGT
1 ATTTTCGTAATTTT-TTAGAACTGAGTCATAGGTTGTCACCGAGATGCTTTTATGCCAAAGGTGT
* * * *
2811999 GCATTTAGGATAGGTTTATCCCATTTATGATCATTTTAAAGTCTTTTAGAGTTATCGAGATACTT
65 GCATTTAGGATAGGTTCATCCCATTTATGATCATTTTAAAGTCCTTTAGGGTTACCGAGATACTT
2812064 T
130 T
2812065 TATACTGAAA
Statistics
Matches: 369, Mismatches: 59, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
149 51 0.14
150 4 0.01
152 1 0.00
154 26 0.07
155 23 0.06
156 254 0.69
157 10 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (154 bp):
ATTTTCGTAATTTTTTAGAACTGAGTCATAGGTTGTCACCGAGATGCTTTTATGCCAAAGGTGTG
CATTTAGGATAGGTTCATCCCATTTATGATCATTTTAAAGTCCTTTAGGGTTACCGAGATACTTT
CACGTTGAAGGTATACCCTAAGGT
Found at i:2816345 original size:27 final size:27
Alignment explanation
Indices: 2816278--2816502 Score: 279
Period size: 27 Copynumber: 8.3 Consensus size: 27
2816268 GATCATCACC
* ** *
2816278 CTTAAAAGAATGCCATAGAGTTATGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
2816305 CTTTAAAATGATGCCACGGAGTTGTAGA
1 C-TTAAAAGGATGCCACGGAGTTGTGGA
**
2816333 CTTAAAAGGATGCCACAAAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* * *
2816360 CTTAAAAGGCTACCACGAAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
2816387 CTTAAAAGGATGCCATGGAGTTGTAGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
2816414 CTTAAAAGGATGCCACGGAGTTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
2816441 CTTAAAAGGATGCCATGGAGTTGTAGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
* *
2816468 CTTAAAAGGATGTCACGGAATTGTGGA
1 CTTAAAAGGATGCCACGGAGTTGTGGA
2816495 CTTTAAAA
1 C-TTAAAA
2816503 AGAAATGCCA
Statistics
Matches: 170, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
27 143 0.84
28 27 0.16
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (27 bp):
CTTAAAAGGATGCCACGGAGTTGTGGA
Found at i:2817920 original size:23 final size:21
Alignment explanation
Indices: 2817894--2817943 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
2817884 GTTGTTCCCT
2817894 TTTTTTTTATTTTGCTTTTGCA
1 TTTTTTTTATTTTGCTTTT-CA
* *
2817916 GTTTTTTTTGTTTTTCTTTTCA
1 -TTTTTTTTATTTTGCTTTTCA
2817938 TTTTTT
1 TTTTTT
2817944 GTGCTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 2 0.08
23 17 0.68
ACGTcount: A:0.06, C:0.08, G:0.08, T:0.78
Consensus pattern (21 bp):
TTTTTTTTATTTTGCTTTTCA
Found at i:2825289 original size:13 final size:13
Alignment explanation
Indices: 2825271--2825295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2825261 CATAAAGTGT
2825271 TGTATCGATACAA
1 TGTATCGATACAA
2825284 TGTATCGATACA
1 TGTATCGATACA
2825296 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2825311 original size:32 final size:33
Alignment explanation
Indices: 2825251--2825316 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2825241 TTCAATGATT
2825251 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
2825284 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2825316 T
1 T
2825317 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2828596 original size:13 final size:13
Alignment explanation
Indices: 2828578--2828603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2828568 CAATTTTTTG
2828578 TGTATCGATACAT
1 TGTATCGATACAT
2828591 TGTATCGATACAT
1 TGTATCGATACAT
2828604 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2828618 original size:32 final size:33
Alignment explanation
Indices: 2828558--2828621 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2828548 TACAAGCCAA
** *
2828558 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2828591 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2828622 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2831109 original size:13 final size:13
Alignment explanation
Indices: 2831091--2831129 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2831081 ATAATCACCC
2831091 TGTATCGATACAA
1 TGTATCGATACAA
2831104 TGTATCGATACAA
1 TGTATCGATACAA
2831117 TGTATCGATACAA
1 TGTATCGATACAA
2831130 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2833230 original size:15 final size:15
Alignment explanation
Indices: 2833210--2833240 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2833200 ATTTCGTTTG
*
2833210 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2833225 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2833240 G
1 G
2833241 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2837455 original size:20 final size:20
Alignment explanation
Indices: 2837415--2837455 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2837405 TCGCAACATG
**
2837415 TATCGATACTTTGAATTGTT
1 TATCGATACTTTGAAGGGTT
*
2837435 TATCGATACTTTTAAGGGTT
1 TATCGATACTTTGAAGGGTT
2837455 T
1 T
2837456 TGACAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (20 bp):
TATCGATACTTTGAAGGGTT
Found at i:2838525 original size:20 final size:20
Alignment explanation
Indices: 2838449--2838522 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
2838439 TTTTACCCAT
2838449 ATGTATCGATACATATTTCA
1 ATGTATCGATACATATTTCA
* * *
2838469 ATGTATCGATACATGTATGA
1 ATGTATCGATACATATTTCA
2838489 ATGTATCGATACAT-TCTTCA
1 ATGTATCGATACATAT-TTCA
*
2838509 ATGCATCGATACAT
1 ATGTATCGATACAT
2838523 TCTGTCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.02
20 46 0.98
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATATTTCA
Found at i:2845518 original size:24 final size:23
Alignment explanation
Indices: 2845483--2845530 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
2845473 GCAAAAGTAC
*
2845483 AAAATATGAAAAGAAAAACAAAA
1 AAAAAATGAAAAGAAAAACAAAA
* *
2845506 AAAAAATGTAAAAGTAAAATAAAA
1 AAAAAATG-AAAAGAAAAACAAAA
2845530 A
1 A
2845531 GGGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.12
Consensus pattern (23 bp):
AAAAAATGAAAAGAAAAACAAAA
Found at i:2846868 original size:27 final size:27
Alignment explanation
Indices: 2846818--2847365 Score: 544
Period size: 27 Copynumber: 20.1 Consensus size: 27
2846808 TAGCATTCCT
* *
2846818 TTTTAAGTCCACAACTCTGT-GCAACC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* *
2846844 TTTTAAGTCCATAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* *
2846871 TTCTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* *
2846898 TTTTAAGTCCACAACTTCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
2846925 TTTTAAGTCCACAACTTCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * *
2846952 TTTTAAAGTTCACAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* *
2846980 TTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
2847007 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* *
2847035 TTTAAAGTCCACCACTCCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* ** **
2847061 TTTTTAAGTTCACAACTCTATAACATCC
1 -TTTTAAGTCCACAACTCCGTGGCATCC
* * *
2847089 TTTTAAGTCCACAACTTCATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
2847116 TTTTAAGTCCACAACTCCATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * * *
2847143 GTTTCAAGTCCACAACTCTGTGGCGTTC
1 -TTTTAAGTCCACAACTCCGTGGCATCC
* * * * *
2847171 TTTTAAAATCCACAACTTCGCGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
*
2847199 TTTTAAGTCCACAACTTCGTGGCA-CTC
1 TTTTAAGTCCACAACTCCGTGGCATC-C
* *
2847226 TTTTAAGTCCATAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* *
2847253 TTTTAAGCCCACAACTTCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * * *
2847280 TTTTTAAGCCCACAAGTCAGTGGCACCC
1 -TTTTAAGTCCACAACTCCGTGGCATCC
** **
2847308 TTCCAAAGTCCACAACTTTGTGGCATCC
1 TT-TTAAGTCCACAACTCCGTGGCATCC
* * *
2847336 TTTTTAAGCCCACAAGTCAGTGGCATCC
1 -TTTTAAGTCCACAACTCCGTGGCATCC
2847364 TT
1 TT
2847366 CCAAAGCCCA
Statistics
Matches: 435, Mismatches: 75, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.05
27 261 0.60
28 151 0.35
29 2 0.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCATCC
Found at i:2847056 original size:137 final size:136
Alignment explanation
Indices: 2846793--2847407 Score: 627
Period size: 137 Copynumber: 4.5 Consensus size: 136
2846783 AACCTCTTCA
* * * *
2846793 AAGTCCACGA-TTCAGTAGCATTCCTTTTTAAGTCCACAACTCTGT-GCAACCTTTTAAGTCCAT
1 AAGTCCACAACTTCAGTGGCA-TCC-TTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCAC
* * *
2846856 AACTCCGTGGCAACCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGC
64 AACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTTCGTGGC
2846921 ACCCTTTT
129 ACCCTTTT
* *
2846929 AAGTCCACAACTTC-GTGGCATCCTTTTAAAGTTCACAACTCTGTGGCACCCTTTAAAGTCCACA
1 AAGTCCACAACTTCAGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACA
* * * *
2846993 ACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTCCACCACTCCGTGGC
65 ACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTTCGTGGC
*
2847058 ACCTTTTT
129 ACCCTTTT
* ** *
2847066 AAGTTCACAAC-TCTA-TAACATCCTTTTAAGTCCACAACT-TCATGGCACCCTTTTAAGTCCAC
1 AAGTCCACAACTTC-AGTGGCATCCTTTTAAGTCCACAACTCT-GTGGCACCCTTTTAAGTCCAC
* * * ** * * *
2847128 AACTCCATGGCATCCGTTTCAAGTCCACAACTCTGTGGCGTTCTTTTAAAATCCACAACTTCGCG
64 AACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGC-ACCCTTTAAAGTCCACAACTTCGTG
*
2847193 GTACCCTTTT
127 GCACCCTTTT
* * *
2847203 AAGTCCACAACTTC-GTGGCA-CTCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGCCCACA
1 AAGTCCACAACTTCAGTGGCATC-CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACA
* * * * * *
2847266 ACTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGTCCACAACTTTGTGG
65 ACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCACCCTT-TAAAGTCCACAACTTCGTGG
*
2847331 CATCCTTTTT
128 CA-CCCTTTT
* * ** * * * *
2847341 AAGCCCACAA-GTCAGTGGCATCCTTCCAAAGCCCACAAGTCAGTGGCACCTCTTTTTAAGCCCA
1 AAGTCCACAACTTCAGTGGCATCCTT-TTAAGTCCACAACTCTGTGGCACC-C-TTTTAAGTCCA
2847405 CAA
63 CAA
2847408 GTCAGTGGTA
Statistics
Matches: 396, Mismatches: 63, Indels: 35
0.80 0.13 0.07
Matches are distributed among these distances:
134 4 0.01
135 19 0.05
136 113 0.29
137 200 0.51
138 27 0.07
139 18 0.05
140 1 0.00
141 14 0.04
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (136 bp):
AAGTCCACAACTTCAGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA
CTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTTCGTGGCAC
CCTTTT
Found at i:2847120 original size:164 final size:162
Alignment explanation
Indices: 2846822--2847407 Score: 642
Period size: 164 Copynumber: 3.6 Consensus size: 162
2846812 ATTCCTTTTT
* * *
2846822 AAGTCCACAACTCTGT-GCAACCTTTT-AAGTCCATAACTCCGTGGCAACCTTCTAAGTCCACAA
1 AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTT-TAAGTCCACAA
* *
2846885 CTCCGTGGCACCCTTTTAAGTCCACAACT-TCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCA
65 CTCCGTGGCACCTTTTTAAGTCCACAACTCT-GTGGCATCCTTTTAAGTCCACAACTTCGTGGCA
* *
2846949 TCCTTTTAAAGTTCACAACTCTGTGGCACCCTTTA
129 TCCTTTT-AAGTCCACAACTCAGTGGCACCCTTTA
* * *
2846984 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAAGTCCACCA
1 AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTT-AAGTCCACAA
* * ** * *
2847049 CTCCGTGGCACCTTTTTAAGTTCACAACTCTATAACATCCTTTTAAGTCCACAACTTCATGGCAC
65 CTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCAT
* *
2847114 CCTTTTAAGTCCACAACTCCA-TGGCATCCGTTTC
130 CCTTTTAAGTCCACAACT-CAGTGGCA-CCCTTTA
* * * * * * *
2847148 AAGTCCACAACTCTGTGGCGTTCTTTTAAAATCCACAACTTCGCGGTACCCTTTTAAGTCCACAA
1 AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCC-TTTAAGTCCACAA
* * *
2847213 CTTCGTGGCA-CTCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGCCCACAACTTCGTGGCA
65 CTCCGTGGCACCT-TTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCA
* * *
2847277 TCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCA
129 TCC-TTTTAAGTCCACAACTCAGTGGCACCCTT-TA
* * * * * * *
2847313 AAGTCCACAACTTTGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACA
1 AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTT--TAAGTCCACA
* * *
2847378 AGTCAGTGGCACCTCTTTTTAAGCCCACAA
64 ACTCCGTGGCA-C-CTTTTTAAGTCCACAA
2847408 GTCAGTGGTA
Statistics
Matches: 348, Mismatches: 60, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
162 15 0.04
163 28 0.08
164 213 0.61
165 62 0.18
166 16 0.05
168 12 0.03
169 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (162 bp):
AAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCATCCTTTAAGTCCACAAC
TCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTTCGTGGCATC
CTTTTAAGTCCACAACTCAGTGGCACCCTTTA
Found at i:2847372 original size:28 final size:28
Alignment explanation
Indices: 2847244--2847818 Score: 564
Period size: 28 Copynumber: 19.8 Consensus size: 28
2847234 CCATAACTCT
* *
2847244 GTGGCATCCTTT-TAAGCCCACAACTTC-
1 GTGGCATCCTTTCAAAGCCCACAA-GTCA
**
2847271 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * * **
2847299 GTGGCACCCTTCCAAAGTCCACAACTTT
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
**
2847327 GTGGCATCCTTTTTAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2847355 GTGGCATCCTTCCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* **
2847383 GTGGCACCTCTTTTTAAGCCCACAAGTCA
1 GTGGCATC-CTTTCAAAGCCCACAAGTCA
* ** *
2847412 GTGGTATTATTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAG-CC-CACAAGTCA
* *
2847442 GTGGCAACCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
*
2847474 GTGGCAACCCATTTCAAAGCCCACAAGTCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCA
* *
2847504 ATGGCATCCTTTCAAAGCCCACAAATCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2847532 GTGGCATCCTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* * *
2847561 GTAGCATCCTTCTCAAAGCACATAAGTC-
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* *
2847589 GTTGGCAACCCATTTTAAAGCTCACACAAGTC-
1 G-TGGC-ATCC-TTTCAAAGC-C-CACAAGTCA
*
2847621 GATGGCAACCCATTTCAAAGCCCACAAGTCA
1 G-TGGC-ATCC-TTTCAAAGCCCACAAGTCA
*
2847652 GTGGCATCCTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2847680 GTAGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
* *
2847709 GTGGCATCTTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
*
2847740 GTGGCATCCTTTCAAAGCCCACAAGTAA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
2847768 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
2847796 GTGACATCCTTTCAAAGCCCACA
1 GTGGCATCCTTTCAAAGCCCACA
2847819 CAAGTCGGTG
Statistics
Matches: 466, Mismatches: 65, Indels: 33
0.83 0.12 0.06
Matches are distributed among these distances:
27 14 0.03
28 202 0.43
29 106 0.23
30 53 0.11
31 25 0.05
32 66 0.14
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:2847644 original size:148 final size:147
Alignment explanation
Indices: 2847341--2847818 Score: 614
Period size: 148 Copynumber: 3.3 Consensus size: 147
2847331 CATCCTTTTT
* * **
2847341 AAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCACAAGTCAGTGGCA-CCTCTTTTTAAGCCCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT-TCTCAAAGCCCA
* *
2847405 CAAGTCAGTGGTATTATT-TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACA
65 CAAGTCAGTGGCATCATTCTCAAAG-CCACACAAGTC-GTGGCAACCCATTTCAAAG-CCACACA
*
2847469 AGTCGGTGGCAACCCATTTCA
127 AGTCGATGGCAACCCATTTCA
* *
2847490 AAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAATCAGTGGCATCCTTCTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
* * * * *
2847555 AAGTTAGTAGCATCCTTCTCAAAG-CACATAAGTCGTTGGCAACCCATTTTAAAGCTCACACAAG
66 AAGTCAGTGGCATCATTCTCAAAGCCACACAAGTCG-TGGCAACCCATTTCAAAGC-CACACAAG
2847619 TCGATGGCAACCCATTTCA
129 TCGATGGCAACCCATTTCA
* *
2847638 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTAGCATCCTTCTCAAAGCCCAC
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
* * *
2847703 AAGTCAGTGGCATCTTTCTCAAAGCCCACACAAATCAGTGGC-ATCC-TTTCAAAGCC-CACAAG
66 AAGTCAGTGGCATCATTCTCAAAG-CCACACAAGTC-GTGGCAACCCATTTCAAAGCCACACAAG
* *
2847765 T-AAGTGGC-ATCC-TTTCA
129 TCGA-TGGCAACCCATTTCA
*
2847782 AAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACA
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
2847819 CAAGTCGGTG
Statistics
Matches: 292, Mismatches: 29, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
144 40 0.14
145 4 0.01
146 11 0.04
147 3 0.01
148 142 0.49
149 70 0.24
150 21 0.07
151 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (147 bp):
AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAC
AAGTCAGTGGCATCATTCTCAAAGCCACACAAGTCGTGGCAACCCATTTCAAAGCCACACAAGTC
GATGGCAACCCATTTCA
Found at i:2847855 original size:25 final size:25
Alignment explanation
Indices: 2847806--2847855 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2847796 GTGACATCCT
**
2847806 TTCAAAGCCCACACAAGTCGGTGGC
1 TTCAAAGCCCACACAAGTCAATGGC
* *
2847831 TTCAAAGCCCACATAAGTTAATGGC
1 TTCAAAGCCCACACAAGTCAATGGC
2847856 ACCTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (25 bp):
TTCAAAGCCCACACAAGTCAATGGC
Found at i:2847874 original size:86 final size:84
Alignment explanation
Indices: 2847327--2847843 Score: 281
Period size: 87 Copynumber: 5.9 Consensus size: 84
2847317 CCACAACTTT
** * *
2847327 GTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCATCCTTC-CAAAG-CC-CACAAGTCAGTGGCA
1 GTGGCATCCTTTAAAAGCCCACAAGTCAGTGACATCCTTCTCAAAGCCCACACAAATCAGTGG--
** *
2847389 CCTCTTTTTAAGCCCACAAGTCA
64 -C-CTTTCAAAGCCCACAAGTAA
* ** * * * * * *
2847412 GTGGTATTATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT-TCAAAGCCCACACAAGTCGGT
1 GTGGCATCCTTTAAAAG-CC-CACAAGTCAGTGAC-ATCC-TTCTCAAAGCCCACACAAATCAGT
2847476 GGCAACCCATTTCAAAGCCCACAAGTCAA
62 GG----CC-TTTCAAAGCCCACAAGT-AA
* * * * *
2847505 -TGGCATCCTTTCAAAGCCCACAAATCAGTGGCATCCTTCTCAAAG-CC-CACAAGTTAGTAGCA
1 GTGGCATCCTTTAAAAGCCCACAAGTCAGTGACATCCTTCTCAAAGCCCACACAAATCAGT-G--
* * * *
2847567 TCCTTCTCAAAGCACATAAGT-C
63 GCCTT-TCAAAGCCCACAAGTAA
* * * * *
2847589 GTTGGCAACCCATTTTAAAGCTCACACAAGTC-GATGGCAACCCATT-TCAAAG-CC-CACAAGT
1 G-TGGC-ATCC-TTTAAAAGC-C-CACAAGTCAG-TGAC-ATCC-TTCTCAAAGCCCACACAAAT
* *
2847650 CAGTGGCATCCTTTCAAAGCCCATAAGTCA
58 CAGTGG---CCTTTCAAAGCCCACAAGTAA
* * * *
2847680 GTAGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCACACAAATCAGTGGC
1 GTGGCATCCTT-TAAAAGCCCACAAGTCAGTGACATCCTTCTCAAAGCCCACACAAATCAGTGG-
2847745 ATCCTTTCAAAGCCCACAAGTAA
64 --CCTTTCAAAGCCCACAAGTAA
* * *
2847768 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGACATCCTT-TCAAAGCCCACACAAGTCGGTGG-C
1 GTGGCATCCTTTAAAAGCCCACAAGTCAGTGACATCCTTCTCAAAGCCCACACAAATCAGTGGCC
2847831 -TTCAAAGCCCACA
66 TTTCAAAGCCCACA
2847844 TAAGTTAATG
Statistics
Matches: 354, Mismatches: 45, Indels: 70
0.75 0.10 0.15
Matches are distributed among these distances:
81 13 0.04
82 1 0.00
85 16 0.05
86 50 0.14
87 65 0.18
88 64 0.18
89 27 0.08
90 43 0.12
91 41 0.12
92 33 0.09
93 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (84 bp):
GTGGCATCCTTTAAAAGCCCACAAGTCAGTGACATCCTTCTCAAAGCCCACACAAATCAGTGGCC
TTTCAAAGCCCACAAGTAA
Found at i:2847881 original size:116 final size:113
Alignment explanation
Indices: 2847272--2847861 Score: 384
Period size: 116 Copynumber: 5.1 Consensus size: 113
2847262 CACAACTTCG
** * * * * * ** *
2847272 TGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGTCCACAACTTTGTGGCATCCT
1 TGGCATCCTTTAAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCATCCT
** * *
2847337 T-TTTAAGCCCACAAGTCAGTGGCATCCTTC-CAAAG-CC-CACAAGTCAG
66 TCTCAAAGCCCACAAGTCAGTGG-A--CTTCTCAAAGCCCACACAAATCAA
* ** * * ** * *
2847384 TGGCACCTCTTTTTAAGCCCACAAGTCAGTGGTATTATTTCAAAGCCCACACAAGTCGGTGGCAA
1 TGGCATC-CTTTAAAAGCCCACAAGTAAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTAGC-A
* * *
2847449 CCCATT-TCAAAGCCCACACAAGTCGGTGGCAACCCATT-TCAAAG-CC-CACAAGTCAA
62 TCC-TTCTCAAAG-CC-CACAAGTCAGTGG--A--C-TTCTCAAAGCCCACACAAATCAA
* * * *
2847505 TGGCATCCTTTCAAAGCCCACAAATCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTAGCATCC
1 TGGCATCCTTTAAAAGCCCACAAGTAAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTAGCATCC
* * * * * *
2847570 TTCTCAAAGCACATAAGTC-GTTGGCAACCCATT-TTAAAGCTCACACAAGTCGA
65 TTCTCAAAGCCCACAAGTCAG-TGG--A--C-TTCTCAAAGCCCACACAAATCAA
* * * *
2847623 TGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTAGCATC
1 TGGC-ATCC-TTTAAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCATC
*
2847688 CTTCTCAAAGCCCACAAGTCAGTGGCATCTTTCTCAAAGCCCACACAAATCAG
64 CTTCTCAAAGCCCACAAGTCAGTGG-A-C-TTCTCAAAGCCCACACAAATCAA
*
2847741 TGGCATCCTTTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGT-GACATCC
1 TGGCATCCTTTAAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAG-CATCC
* * * *
2847805 TT-TCAAAGCCCACACAAGTCGGTGG-C-T-TCAAAGCCCACATAAGTTAA
65 TTCTCAAAG-CC-CACAAGTCAGTGGACTTCTCAAAGCCCACACAAATCAA
2847852 TGGCA-CCTTT
1 TGGCATCCTTT
2847862 TTTTAAAAGC
Statistics
Matches: 401, Mismatches: 55, Indels: 46
0.80 0.11 0.09
Matches are distributed among these distances:
110 5 0.01
111 21 0.05
112 7 0.02
113 32 0.08
114 2 0.00
115 19 0.05
116 83 0.21
117 28 0.07
118 44 0.11
119 70 0.17
120 60 0.15
121 30 0.07
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (113 bp):
TGGCATCCTTTAAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTAGCATCCT
TCTCAAAGCCCACAAGTCAGTGGACTTCTCAAAGCCCACACAAATCAA
Found at i:2848021 original size:48 final size:48
Alignment explanation
Indices: 2847966--2848134 Score: 241
Period size: 48 Copynumber: 3.5 Consensus size: 48
2847956 AGCACCTTTA
* *
2847966 TTAGCTCAATGTCGCTAGCCTAGAATTAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
2848014 TTAGCTCAATGTCACTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
2848062 TTAGCTCAATGTCGCTCGCCTTGAATCAGCGCATTGTCCACTTTT-CC
1 TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * * *
2848109 TTTGCTCGATGTCGTTGGCCTTGAAT
1 TTAGCTCAATGTCGCTAGCCTTGAAT
2848135 TGGCATGATG
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 24 0.22
48 86 0.78
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTAGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:2848026 original size:23 final size:23
Alignment explanation
Indices: 2847991--2848074 Score: 55
Period size: 23 Copynumber: 3.6 Consensus size: 23
2847981 TAGCCTAGAA
*
2847991 TTAGCACATTGTCCACTTTTCCC
1 TTAGCACAATGTCCACTTTTCCC
* ** *
2848014 TTAGCTCAATGT-CAC-TGGCCT
1 TTAGCACAATGTCCACTTTTCCC
*
2848035 TGAATCAGCACATTGTCCACTTTTCCC
1 T---T-AGCACAATGTCCACTTTTCCC
*
2848062 TTAGCTCAATGTC
1 TTAGCACAATGTC
2848075 GCTCGCCTTG
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
21 4 0.09
22 3 0.07
23 19 0.44
24 2 0.05
25 8 0.19
26 3 0.07
27 4 0.09
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (23 bp):
TTAGCACAATGTCCACTTTTCCC
Found at i:2848924 original size:40 final size:39
Alignment explanation
Indices: 2848868--2849002 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 39
2848858 TTTTACCCAG
*
2848868 ATGTATCGATATATTTTTCAATGTCTCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGT-TCGATACATGTATGA
**
2848908 ATGTATCGATACATTTTGTC--T-TTC--TAC--CCA-G-
1 ATGTATCGATACATTTT-TCAATGTTCGATACATGTATGA
*
2848939 ATGTATCAATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCAATGT-TCGATACATGTATGA
*
2848979 ATGTATCGATACATTCTTCAATGT
1 ATGTATCGATACATTTTTCAATGT
2849003 ATCATTACAT
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
30 2 0.03
31 16 0.21
32 2 0.03
33 2 0.03
34 2 0.03
35 3 0.04
36 3 0.04
37 2 0.03
38 2 0.03
39 2 0.03
40 38 0.50
41 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTTTCAATGTTCGATACATGTATGA
Found at i:2848964 original size:20 final size:20
Alignment explanation
Indices: 2848939--2849015 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
2848929 TTCTACCCAG
2848939 ATGTATCAATACATTTTTCA
1 ATGTATCAATACATTTTTCA
* * * *
2848959 ATGTATCGATACATGTATGA
1 ATGTATCAATACATTTTTCA
* *
2848979 ATGTATCGATACATTCTTCA
1 ATGTATCAATACATTTTTCA
*
2848999 ATGTATCATTACATTTT
1 ATGTATCAATACATTTT
2849016 ATCTTTTTAC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.43
Consensus pattern (20 bp):
ATGTATCAATACATTTTTCA
Found at i:2848977 original size:71 final size:71
Alignment explanation
Indices: 2848861--2848993 Score: 239
Period size: 71 Copynumber: 1.9 Consensus size: 71
2848851 GTCACATTTT
* * *
2848861 TACCCAGATGTATCGATATATTTTTCAATGTCTCGATACATGTATGAATGTATCGATACATTTTG
1 TACCCAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTTTG
2848926 TCTTTC
66 TCTTTC
2848932 TACCCAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATT
1 TACCCAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATT
2848994 CTTCAATGTA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (71 bp):
TACCCAGATGTATCAATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATACATTTTG
TCTTTC
Found at i:2851049 original size:97 final size:97
Alignment explanation
Indices: 2850883--2851131 Score: 453
Period size: 97 Copynumber: 2.6 Consensus size: 97
2850873 AAATTTTTAT
*
2850883 TCATCGGGGATACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTGTCA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTGTCA
2850948 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
66 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
*
2850980 TCATCGGGGACACTCCAATCCCATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTGTCA
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTGTCA
2851045 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
66 AGATTCAAATCTTATTCTCGCTTAAATTGTCA
* * *
2851077 TCATCGAGGACATTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTGTTTTT
1 TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTGCTTTT
2851132 TTCAATCAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 146 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (97 bp):
TCATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCTGCTTTTAAACTTGTCA
AGATTCAAATCTTATTCTCGCTTAAATTGTCA
Found at i:2853363 original size:21 final size:21
Alignment explanation
Indices: 2853339--2853396 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
2853329 TTTATTAGTT
*
2853339 AACTCA-TCATTTTCATTTTGC
1 AACTCATTCATTTTC-TTTTCC
2853360 AACTCATTTC-TTTTCTTTTCC
1 AACTCA-TTCATTTTCTTTTCC
2853381 AACTCATTCATTTTCT
1 AACTCATTCATTTTCT
2853397 CCTCTAGTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 23 0.70
22 5 0.15
23 2 0.06
ACGTcount: A:0.21, C:0.26, G:0.02, T:0.52
Consensus pattern (21 bp):
AACTCATTCATTTTCTTTTCC
Found at i:2858176 original size:33 final size:34
Alignment explanation
Indices: 2858113--2858203 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
2858103 CAACATTATC
*
2858113 TTTC-AAGGCTAAGGTAGAAA-C-CTCCCTATC-T
1 TTTCAAAGGCTAAGATA-AAACCTCTCCCTATCTT
2858144 TTTCACAA-GCTAAGATAAAACCTCTCCCTATCTT
1 TTTCA-AAGGCTAAGATAAAACCTCTCCCTATCTT
*
2858178 TTTCAAAGGCTAAGATAGAACCTCTC
1 TTTCAAAGGCTAAGATAAAACCTCTC
2858204 AATCACTTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
31 7 0.13
32 9 0.17
33 13 0.25
34 23 0.44
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (34 bp):
TTTCAAAGGCTAAGATAAAACCTCTCCCTATCTT
Found at i:2858714 original size:24 final size:24
Alignment explanation
Indices: 2858682--2858729 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2858672 ATACTATATC
2858682 GATACATGAACAATGATGAACAGT
1 GATACATGAACAATGATGAACAGT
2858706 GATACATGAACAATGATGAACAGT
1 GATACATGAACAATGATGAACAGT
2858730 AATGTATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (24 bp):
GATACATGAACAATGATGAACAGT
Found at i:2861640 original size:21 final size:21
Alignment explanation
Indices: 2861616--2861655 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2861606 TATTTTTATT
2861616 TAAAT-TTAATTATAAAATATA
1 TAAATATT-ATTATAAAATATA
2861637 TAAATATTATTATAAAATA
1 TAAATATTATTATAAAATA
2861656 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTATTATAAAATATA
Found at i:2862008 original size:13 final size:13
Alignment explanation
Indices: 2861990--2862020 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
2861980 TTATAATATT
2861990 TAACTGATAATAC
1 TAACTGATAATAC
2862003 TAACTGATAATAC
1 TAACTGATAATAC
2862016 TAACT
1 TAACT
2862021 CAATTAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (13 bp):
TAACTGATAATAC
Found at i:2862202 original size:3 final size:3
Alignment explanation
Indices: 2862194--2862230 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
2862184 TCACTCATCC
* *
2862194 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
2862231 TTTTATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2862304 original size:39 final size:39
Alignment explanation
Indices: 2862250--2862365 Score: 94
Period size: 39 Copynumber: 3.0 Consensus size: 39
2862240 ATTAAATTCG
**
2862250 ATATAATTAAATAAAATATTAATAATTTTTAAATATTTT
1 ATATAATTATTTAAAATATTAATAATTTTTAAATATTTT
* **
2862289 ATATAATTATTTAAAAAAACAATAATTTTTTAAA-ATTTAT
1 ATATAATTATTTAAAATATTAATAA-TTTTTAAATATTT-T
* * * * * *
2862329 CTATACTT-TTTAAACT-TTACTTATTTTTAAATTTTTT
1 ATATAATTATTTAAAATATTAATAATTTTTAAATATTTT
2862366 TCTTTAAAAT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
37 9 0.15
38 6 0.10
39 30 0.50
40 15 0.25
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (39 bp):
ATATAATTATTTAAAATATTAATAATTTTTAAATATTTT
Found at i:2862338 original size:19 final size:18
Alignment explanation
Indices: 2862315--2862359 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
2862305 AAACAATAAT
2862315 TTTTTAAAATTTATCTATAC
1 TTTTTAAAATTTA-CT-TAC
*
2862335 TTTTTAAACTTTACTTA-
1 TTTTTAAAATTTACTTAC
2862352 TTTTTAAA
1 TTTTTAAA
2862360 TTTTTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 2 0.08
19 2 0.08
20 12 0.50
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTAAAATTTACTTAC
Found at i:2862428 original size:3 final size:3
Alignment explanation
Indices: 2862420--2862454 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2862410 TGCCAATTCC
2862420 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2862455 CAAAAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2863324 original size:2 final size:2
Alignment explanation
Indices: 2863319--2863384 Score: 89
Period size: 2 Copynumber: 33.5 Consensus size: 2
2863309 GATATGTGTG
* * * *
2863319 TA TA TA TA TA TA TA TG TA TG TG TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2863361 TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2863385 TGCTACAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2863891 original size:2 final size:2
Alignment explanation
Indices: 2863884--2863953 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
2863874 TTTCAACGTC
* *
2863884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2863926 AT AT AT AA AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2863954 TCATGAAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:2864184 original size:10 final size:10
Alignment explanation
Indices: 2864169--2864245 Score: 86
Period size: 10 Copynumber: 7.7 Consensus size: 10
2864159 TTTCAACGTC
2864169 ATATATACAT
1 ATATATACAT
*
2864179 ATATATATAT
1 ATATATACAT
2864189 ATACATATACAT
1 AT--ATATACAT
*
2864201 ATATAAACAT
1 ATATATACAT
2864211 ATATAT--AT
1 ATATATACAT
*
2864219 ACATATACAT
1 ATATATACAT
*
2864229 ATATAAACAT
1 ATATATACAT
2864239 ATATATA
1 ATATATA
2864246 TATTCATGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
8 7 0.13
10 39 0.71
12 9 0.16
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATATACAT
Found at i:2864186 original size:6 final size:6
Alignment explanation
Indices: 2864169--2864248 Score: 79
Period size: 6 Copynumber: 13.3 Consensus size: 6
2864159 TTTCAACGTC
* * * * *
2864169 ATATAT ACATAT ATATAT ATATAC ATATAC ATATAT AAACAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
2864217 ATACAT ATACAT ATATAA ACATAT ATATAT AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT AT
2864249 TCATGAAACA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAT
Found at i:2864190 original size:16 final size:16
Alignment explanation
Indices: 2864169--2864248 Score: 97
Period size: 16 Copynumber: 4.9 Consensus size: 16
2864159 TTTCAACGTC
2864169 ATATATACATATATAT
1 ATATATACATATATAT
*
2864185 ATATATACATATACAT
1 ATATATACATATATAT
*
2864201 ATATAAACATATATAT
1 ATATATACATATATAT
*
2864217 ATACATATACATATATAA
1 AT--ATATACATATATAT
* *
2864235 ACATATATATATAT
1 ATATATACATATAT
2864249 TCATGAAACA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
16 42 0.76
18 13 0.24
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATATACATATATAT
Found at i:2864212 original size:28 final size:28
Alignment explanation
Indices: 2864181--2864247 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
2864171 ATATACATAT
2864181 ATATATATATACATATACATATATAAAC
1 ATATATATATACATATACATATATAAAC
2864209 ATATATATATACATATACATATATAAAC
1 ATATATATATACATATACATATATAAAC
2864237 ATATATATATA
1 ATATATATATA
2864248 TTCATGAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATATATATACATATACATATATAAAC
Found at i:2864332 original size:295 final size:281
Alignment explanation
Indices: 2863812--2864630 Score: 1292
Period size: 295 Copynumber: 2.9 Consensus size: 281
2863802 AAATTTTTTC
2863812 AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTATTTT
1 AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTATTTT
* * * * * *
2863877 CAACGTCATATATATATATATATATATATATATATATATATACATATACATATATAAACATATAT
66 CAACGTCATATATATATATA-ATATACATATATA-ACATATATATATAC--ATATACATATATAA
2863942 ATATATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATTACCACTGTTC
127 ATATATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATTACCACTGTTC
*
2864007 TCACTAAAAGACTAAGTATATATTGTGTTTCAGTTAGCTTCCCACCCCTAACTACTTATATATTG
192 TCACTAAAAGACTAAGTATATATTGTGTTTCGGTTAGCTTCCCACCCCTAACTACTTATATATTG
2864072 GCAGATTATATATTGTGTTTCGGTT
257 GCAGATTATATATTGTGTTTCGGTT
*
2864097 AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTCTTTT
1 AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTATTTT
2864162 CAACGTCATATATACATATATATATATATACATATACATATATAAACATATATATATACATATAC
66 CAACG-------T-C--ATATATATATATA-ATATACATATAT-AACATATATATATACATATAC
2864227 ATATATAAACATATATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATT
119 ATATAT-AA-ATATATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATT
2864292 ACCACTGTTCTCACTAAAAGACTAAGTATATATTGTGTTTCGGTTAGCTTCCCACCCCTAACTAC
182 ACCACTGTTCTCACTAAAAGACTAAGTATATATTGTGTTTCGGTTAGCTTCCCACCCCTAACTAC
2864357 TTATATATTGGCAGATTATATATTGTGTTTCGGTT
247 TTATATATTGGCAGATTATATATTGTGTTTCGGTT
2864392 AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTATTTT
1 AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTATTTT
2864457 CAACGTCATATATATATAT-ATATAC--ATAT-AC----ATATAT--A-A-AC--ATAT--ATAT
66 CAACGTCATATATATATATAATATACATATATAACATATATATATACATATACATATATAAATAT
2864506 ATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATTACCACTGTTCTCAC
131 ATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATTACCACTGTTCTCAC
2864571 TAAAAGACTAAGTATATATTGTGTTTCGGTTAGCTTCCCACCCCTAACTACTTATATATT
196 TAAAAGACTAAGTATATATTGTGTTTCGGTTAGCTTCCCACCCCTAACTACTTATATATT
2864631 ACTCTTTTGA
Statistics
Matches: 511, Mismatches: 10, Indels: 46
0.90 0.02 0.08
Matches are distributed among these distances:
265 129 0.25
269 4 0.01
271 2 0.00
272 1 0.00
273 1 0.00
275 6 0.01
279 2 0.00
281 4 0.01
283 6 0.01
285 81 0.16
287 1 0.00
288 1 0.00
292 1 0.00
293 11 0.02
294 1 0.00
295 259 0.51
296 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (281 bp):
AACTTCGTAGATATAAAATAAATCATAAGATAGTGGCAGATTATATAAGGGATCAAAATTATTTT
CAACGTCATATATATATATAATATACATATATAACATATATATATACATATACATATATAAATAT
ATATATATTCATGAAACATTTAAAGGTTTAGCCCATTTAATTTGGCTCATTACCACTGTTCTCAC
TAAAAGACTAAGTATATATTGTGTTTCGGTTAGCTTCCCACCCCTAACTACTTATATATTGGCAG
ATTATATATTGTGTTTCGGTT
Found at i:2864471 original size:2 final size:2
Alignment explanation
Indices: 2864464--2864513 Score: 64
Period size: 2 Copynumber: 25.0 Consensus size: 2
2864454 TTTCAACGTC
* * * *
2864464 AT AT AT AT AT AT AT AT AC AT AT AC AT AT AT AA AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2864506 AT AT AT AT
1 AT AT AT AT
2864514 TCATGAAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:2874612 original size:21 final size:20
Alignment explanation
Indices: 2874579--2874619 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
2874569 GAGGTGTTGG
*
2874579 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGAATGAA
*
2874599 ACATAGCTCAAAATGAATGAA
1 ACATA-CTAAAAATGAATGAA
2874620 CATGGGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (20 bp):
ACATACTAAAAATGAATGAA
Found at i:2876105 original size:20 final size:20
Alignment explanation
Indices: 2876061--2876118 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2876051 ATTTCAACGA
***
2876061 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
2876081 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
2876101 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
2876119 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:2876175 original size:13 final size:13
Alignment explanation
Indices: 2876157--2876181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2876147 ATTACTCAAA
2876157 TGTATCGATACAT
1 TGTATCGATACAT
2876170 TGTATCGATACA
1 TGTATCGATACA
2876182 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2876246 original size:52 final size:52
Alignment explanation
Indices: 2876190--2876314 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
2876180 CACTGATCTT
*
2876190 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2876242 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2876294 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2876315 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2880011 original size:18 final size:17
Alignment explanation
Indices: 2879983--2880017 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2879973 CACTAGACTT
*
2879983 AAAGATGATAAAGATGC
1 AAAGATGATAAACATGC
2880000 AAAGAGTGATAAACATGC
1 AAAGA-TGATAAACATGC
2880018 CAATATGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (17 bp):
AAAGATGATAAACATGC
Found at i:2880297 original size:49 final size:51
Alignment explanation
Indices: 2880227--2880354 Score: 143
Period size: 49 Copynumber: 2.5 Consensus size: 51
2880217 TAGAAATGTT
* * * *
2880227 AAAGATGCCAATATGCCGATTCAAGGCCAACAATATCGGACTTAAAGAT-G-
1 AAAG-TGCCAATGTGCTGATTCAAGGCCAACAACATCAGACTTAAAGATGGA
* * * *
2880277 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGGTA
1 AAAGTGCCAATGTGCTGATTCAAGGCCAACAACATCAGACTTAAAGATGG-A
*
2880329 AAAGTGCCAATGTGCTAATTCAAGGC
1 AAAGTGCCAATGTGCTGATTCAAGGC
2880355 TAGCGATATT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 37 0.57
50 4 0.06
52 24 0.37
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (51 bp):
AAAGTGCCAATGTGCTGATTCAAGGCCAACAACATCAGACTTAAAGATGGA
Found at i:2880313 original size:101 final size:98
Alignment explanation
Indices: 2880072--2880407 Score: 270
Period size: 101 Copynumber: 3.4 Consensus size: 98
2880062 AAGGATGATA
* * * * * **
2880072 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTTAAATATGCAAAGAATGTTAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGTAAAG-ATGCCAATAT
* * *
2880137 GCTGATTCATGGCTAGCAACATTAGACATGAAGATGAG
65 GCTGATTCAAGGCTAGCAATATTGGAC-T-AAGAT--G
* * * * * * *
2880175 AAGAATGCTAATGTGCTAATTGAAGGCTAGTGACATTAGGCTTAGAA-ATGTTAAAGATGCCAAT
1 AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTA-AAGATG-TAAAGATGCCAAT
* * * *
2880239 ATGCCGATTCAAGGCCAACAATATCGGACTTAAAGATG
63 ATGCTGATTCAAGGCTAGCAATATTGGAC-T-AAGATG
*
2880277 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGGTAAA-AGTGCCAATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGAT-GTAAAGA-TGCCAATA
* * *
2880341 TGCTAATTCAAGGCTAGCGATATTGGACT--CA--
64 TGCTGATTCAAGGCTAGCAATATTGGACTAAGATG
* * *
2880372 AAGGTGCCAATGTGTTGATTCAAGGTCAGCAACATT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT
2880408 GGGCTTAGAA
Statistics
Matches: 187, Mismatches: 40, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
95 33 0.18
97 1 0.01
100 4 0.02
101 68 0.36
102 5 0.03
103 3 0.02
104 67 0.36
105 6 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (98 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGTAAAGATGCCAATATG
CTGATTCAAGGCTAGCAATATTGGACTAAGATG
Found at i:2880353 original size:52 final size:51
Alignment explanation
Indices: 2880065--2880374 Score: 205
Period size: 52 Copynumber: 6.0 Consensus size: 51
2880055 AGATGATAAG
* * *
2880065 GATGATAAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTTAAA
1 GATG-TAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * ** * * * * *
2880117 TATGCAAAGAATGTTAATATGCTGATTCATGGCTAGCAACATTAGACATGAA
1 GATGTAAA-AGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * * * * * *
2880169 GATG-AGAAGAATGCTAATGTGCTAATTGAAGGCTAGTGACATTAGGCTTAGAA
1 GATGTA-AA-AGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTA-AA
* * * * * **
2880222 -ATGTTAAAGATGCCAATATGCCGATTCAAGGCCAACAATATCGGACTTAAA
1 GATGTAAAAG-TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* *
2880273 GATG--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA
1 GATGTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
* * * * * *
2880322 GATGGTAAAAGTGCCAATGTGCTAATTCAAGGCTAGCGATATTGGACTCAAA
1 GAT-GTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
2880374 G
1 G
2880375 GTGCCAATGT
Statistics
Matches: 196, Mismatches: 53, Indels: 18
0.73 0.20 0.07
Matches are distributed among these distances:
49 37 0.19
50 4 0.02
51 7 0.04
52 146 0.74
53 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (51 bp):
GATGTAAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAA
Found at i:2880500 original size:32 final size:32
Alignment explanation
Indices: 2880464--2880615 Score: 182
Period size: 32 Copynumber: 4.8 Consensus size: 32
2880454 TTGCTACCGA
2880464 CTTGTGTGGGCTTTA-AGAAAGGTTACCACCAG
1 CTTGTGTGGGCTTTAGAG-AAGGTTACCACCAG
*
2880496 CTTGTGTGGGCTTT-GAAAAGGGTTACCACCAG
1 CTTGTGTGGGCTTTAGAGAA-GGTTACCACCAG
* * *
2880528 CTTGTGTGGGCTTTGGAGGAGGTTGCCACCAG
1 CTTGTGTGGGCTTTAGAGAAGGTTACCACCAG
* * ** *
2880560 CTTGTGTGTGCTTTGGAGAAGGTTGTCACCAA
1 CTTGTGTGGGCTTTAGAGAAGGTTACCACCAG
*
2880592 CTTGTGTGGGCTTTGGAGAAGGTT
1 CTTGTGTGGGCTTTAGAGAAGGTT
2880616 TCTCCACTGG
Statistics
Matches: 108, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
31 2 0.02
32 103 0.95
33 3 0.03
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.31
Consensus pattern (32 bp):
CTTGTGTGGGCTTTAGAGAAGGTTACCACCAG
Found at i:2880816 original size:165 final size:165
Alignment explanation
Indices: 2880586--2880908 Score: 515
Period size: 165 Copynumber: 2.0 Consensus size: 165
2880576 AGAAGGTTGT
* ** *
2880586 CACCAACTTGTGTGGGCTTTGGAGAAGGTTTCTCCACTGGGGATATTAAACCTTTTGGGGATGAC
1 CACCAACTTGTGTGAGCTTTGGAGAAGGTTTCTCCACTGGGGATATTAAACCTCCTGGAGATGAC
2880651 AAGCTTGTGATGCATATCTAACTATGAACTTGGTGCCACCAATATTGGT-GGGCTTAAAAAGATT
66 AAGCTTGTGATGCATATCTAACTATGAACTTGGTGCCACCAATATT-GTCGGGCTTAAAAAGATT
*
2880715 GGGTG-TCACTAACTCGTGTGGGCTTTGGTGTCTTGC
130 AGGTGCT-ACTAACTCGTGTGGGCTTTGGTGTCTTGC
* *
2880751 CACCAACTTGTGTGAGTTTTGGAGAAGGTTTCTCCATTGGGGATATTAAACCTCCTGGAGATGAC
1 CACCAACTTGTGTGAGCTTTGGAGAAGGTTTCTCCACTGGGGATATTAAACCTCCTGGAGATGAC
* * *
2880816 ATGCTTGTGATGCATATCTGACTATGAACTTGGTGCCACCAATATTTTCGGGCTTAAAAAGATTA
66 AAGCTTGTGATGCATATCTAACTATGAACTTGGTGCCACCAATATTGTCGGGCTTAAAAAGATTA
*
2880881 GGTGCTACTAGCTCGTGTGGGCTTTGGT
131 GGTGCTACTAACTCGTGTGGGCTTTGGT
2880909 ATCTAGCTCC
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
164 1 0.01
165 143 0.99
166 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (165 bp):
CACCAACTTGTGTGAGCTTTGGAGAAGGTTTCTCCACTGGGGATATTAAACCTCCTGGAGATGAC
AAGCTTGTGATGCATATCTAACTATGAACTTGGTGCCACCAATATTGTCGGGCTTAAAAAGATTA
GGTGCTACTAACTCGTGTGGGCTTTGGTGTCTTGC
Found at i:2880998 original size:28 final size:28
Alignment explanation
Indices: 2880953--2881023 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2880943 ATACAGCAAT
2880953 TGCCACTAA-TTGTGGACTTCGAAAAGA
1 TGCCACTAACTTGTGGACTTCGAAAAGA
* *
2880980 TGCCACTAACTTGTGGACTTCGAAGAGG
1 TGCCACTAACTTGTGGACTTCGAAAAGA
* *
2881008 TGCCACTGACTAGTGG
1 TGCCACTAACTTGTGG
2881024 GCTTTGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 9 0.23
28 30 0.77
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
TGCCACTAACTTGTGGACTTCGAAAAGA
Found at i:2882394 original size:12 final size:12
Alignment explanation
Indices: 2882369--2882439 Score: 74
Period size: 12 Copynumber: 5.8 Consensus size: 12
2882359 TTTCTTCCCC
2882369 TTTTTTTGTT-TG
1 TTTTTTT-TTGTG
*
2882381 TTGTTTTTTGTG
1 TTTTTTTTTGTG
2882393 TTTTTTGTTTGT-
1 TTTTTT-TTTGTG
*
2882405 TTTTTTGTTTTTG
1 TTTTTT-TTTGTG
2882418 TTTTTTTTTGTG
1 TTTTTTTTTGTG
2882430 TGTTTTTTTT
1 T-TTTTTTTT
2882440 ATGAAGGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
11 2 0.04
12 30 0.59
13 19 0.37
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:2882424 original size:28 final size:30
Alignment explanation
Indices: 2882369--2882439 Score: 59
Period size: 27 Copynumber: 2.6 Consensus size: 30
2882359 TTTCTTCCCC
2882369 TTTTTTTG-TTTG--TTGTTTTTTGTGTTT
1 TTTTTTTGTTTTGTTTTGTTTTTTGTGTTT
*
2882396 TTTGTTTG-TTT-TTTTG-TTTTTGT-TTT
1 TTTTTTTGTTTTGTTTTGTTTTTTGTGTTT
2882422 TTTTTGTGTGTTTT-TTTT
1 TTTTT-T-TGTTTTGTTTT
2882440 ATGAAGGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 7 0.19
27 18 0.49
28 5 0.14
29 7 0.19
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (30 bp):
TTTTTTTGTTTTGTTTTGTTTTTTGTGTTT
Found at i:2887690 original size:42 final size:42
Alignment explanation
Indices: 2887631--2887712 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
2887621 CGATACATTA
2887631 TATCGATACAAACTGTAAAAATTCAAAATGTTCGACCGTTTG
1 TATCGATACAAACTGTAAAAATTCAAAATGTTCGACCGTTTG
*
2887673 TATCGATACAAATTGTAAAAATTCAAAATGTTCGACCGTT
1 TATCGATACAAACTGTAAAAATTCAAAATGTTCGACCGTT
2887713 GGGATCTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (42 bp):
TATCGATACAAACTGTAAAAATTCAAAATGTTCGACCGTTTG
Found at i:2889055 original size:2 final size:2
Alignment explanation
Indices: 2889048--2889079 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2889038 ATCTAACCTC
2889048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2889080 TGGATTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2889900 original size:18 final size:19
Alignment explanation
Indices: 2889866--2889902 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2889856 TTTAAACTCC
*
2889866 ATATTTATCTAAATAAATA
1 ATATTCATCTAAATAAATA
2889885 ATATTCATCT-AATAAATA
1 ATATTCATCTAAATAAATA
2889903 TAATTATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATTCATCTAAATAAATA
Found at i:2894362 original size:40 final size:39
Alignment explanation
Indices: 2894314--2894391 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
2894304 GGTAAAAAGA
* *
2894314 CATAATGTATCAATACATTGTAGAATATATCGATACATT
1 CATAATGTATCAATACATTGAAAAATATATCGATACATT
* * *
2894353 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCAATACATTGAAAAATATATCGATACAT
2894392 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCAATACATTGAAAAATATATCGATACATT
Found at i:2894364 original size:20 final size:20
Alignment explanation
Indices: 2894317--2894391 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
2894307 AAAAAGACAT
* ** *
2894317 AATGTATCAATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
2894337 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
2894357 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
2894377 AATGTATCGATACAT
1 AATGTATCGATACAT
2894392 CAGGGTATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:2897166 original size:20 final size:21
Alignment explanation
Indices: 2897141--2897180 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2897131 TTGCCTGCAC
2897141 GTATCGATACAT-TGAGTAAT
1 GTATCGATACATCTGAGTAAT
2897161 GTATCGATACATCTGAGTAA
1 GTATCGATACATCTGAGTAA
2897181 AATTTCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (21 bp):
GTATCGATACATCTGAGTAAT
Found at i:2897346 original size:19 final size:19
Alignment explanation
Indices: 2897287--2897347 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
2897277 TAGCGATACA
***
2897287 TTGTATCGATACAACACAT
1 TTGTATCGATACAACTTGT
*
2897306 ATGTATCGATACAGTTACTTGT
1 TTGTATCGATACA---ACTTGT
2897328 TTGTATCGATACAACTTGT
1 TTGTATCGATACAACTTGT
2897347 T
1 T
2897348 GAATTTCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.56
22 15 0.44
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACAACTTGT
Found at i:2903275 original size:37 final size:37
Alignment explanation
Indices: 2903203--2903277 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
2903193 GATGATTCTA
* ***
2903203 TGTGGAAACTCTACTTCACAGCTCCAATGTTTTGGTT
1 TGTGGAAACTCTACTTCAAAGCTCCAATCCATTGGTT
* *
2903240 TGTGGGAACTCTTCTTCAAAGCTCCAATCCATTGGTT
1 TGTGGAAACTCTACTTCAAAGCTCCAATCCATTGGTT
2903277 T
1 T
2903278 AAGATAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (37 bp):
TGTGGAAACTCTACTTCAAAGCTCCAATCCATTGGTT
Found at i:2903367 original size:12 final size:12
Alignment explanation
Indices: 2903306--2903368 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
2903296 TTAAAAAAAA
*
2903306 AAATTAAAATTT
1 AAATTATAATTT
2903318 AAATT-TAACTTT
1 AAATTATAA-TTT
*
2903330 AAATT-TGATTT
1 AAATTATAATTT
*
2903341 AATTTAATAATTT
1 AAATT-ATAATTT
*
2903354 AAATTATTATTT
1 AAATTATAATTT
2903366 AAA
1 AAA
2903369 ATATTAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.21
12 24 0.57
13 9 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (12 bp):
AAATTATAATTT
Found at i:2903452 original size:19 final size:19
Alignment explanation
Indices: 2903403--2903459 Score: 53
Period size: 23 Copynumber: 2.8 Consensus size: 19
2903393 TATTTATTTT
2903403 ATAATTTAATTTAAATAAAA
1 ATAATTTAATTT-AATAAAA
2903423 ATATTATTTTAATTT-ATAAATA
1 ATA--A-TTTAATTTAATAAA-A
*
2903445 ATAATTTAAATTAAT
1 ATAATTTAATTTAAT
2903460 TCGTATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
19 7 0.23
20 6 0.19
21 5 0.16
22 5 0.16
23 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATTTAATTTAATAAAA
Found at i:2904206 original size:18 final size:19
Alignment explanation
Indices: 2904183--2904230 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
2904173 TTTAATCAAT
*
2904183 ATATTATTTAAA-ATATTA
1 ATATTATTTAAATATAGTA
2904201 ATATTATATTAAATATAGTA
1 ATATTAT-TTAAATATAGTA
2904221 ATGATTATTT
1 AT-ATTATTT
2904231 TATTTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 5 0.19
20 9 0.35
21 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
ATATTATTTAAATATAGTA
Found at i:2904411 original size:13 final size:14
Alignment explanation
Indices: 2904393--2904421 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2904383 TTAAAAAATA
2904393 ATAAGTTAA-AGAT
1 ATAAGTTAATAGAT
2904406 ATAAGTTAATAGAT
1 ATAAGTTAATAGAT
2904420 AT
1 AT
2904422 TTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAGTTAATAGAT
Found at i:2904592 original size:3 final size:3
Alignment explanation
Indices: 2904584--2904643 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
2904574 AATCAGCCAC
2904584 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2904632 ATA ATA ATA ATA
1 ATA ATA ATA ATA
2904644 CAGATGAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2905209 original size:3 final size:3
Alignment explanation
Indices: 2905201--2905238 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
2905191 GCGGCCCAAC
* *
2905201 ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT AGT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2905239 ATAATCTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:2905223 original size:15 final size:15
Alignment explanation
Indices: 2905203--2905238 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
2905193 GGCCCAACAT
2905203 TATTATTATTATTAG
1 TATTATTATTATTAG
2905218 TATTATTATTATTAG
1 TATTATTATTATTAG
2905233 TATTAT
1 TATTAT
2905239 ATAATCTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TATTATTATTATTAG
Found at i:2905937 original size:23 final size:23
Alignment explanation
Indices: 2905911--2905958 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2905901 TTAAAAATAT
2905911 TTTAAAGATAA-ATTAATATATTA
1 TTTAAA-ATAATATTAATATATTA
* *
2905934 TTTATAATAATATTATTATATTA
1 TTTAAAATAATATTAATATATTA
2905957 TT
1 TT
2905959 GGCAATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTAAAATAATATTAATATATTA
Found at i:2906026 original size:17 final size:16
Alignment explanation
Indices: 2905995--2906028 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2905985 TTTTTGATAA
2905995 ATTAAATAAAAATATT
1 ATTAAATAAAAATATT
*
2906011 ATTATATAATAAATATT
1 ATTAAATAA-AAATATT
2906028 A
1 A
2906029 AAAATCGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAATAAAAATATT
Found at i:2906072 original size:2 final size:2
Alignment explanation
Indices: 2906067--2906095 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2906057 TTTTTTATTT
2906067 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 T
2906096 CTCATTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2906330 original size:24 final size:23
Alignment explanation
Indices: 2906297--2906351 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
2906287 ATTTTTTATA
*
2906297 AATATAAATATAA-TATAAATTATT
1 AATAT-AATAAAATTATAAA-TATT
*
2906321 AATTATAATAAAATTTTAAATATT
1 AA-TATAATAAAATTATAAATATT
2906345 AATATAA
1 AATATAA
2906352 CACATGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATATAATAAAATTATAAATATT
Found at i:2906347 original size:18 final size:19
Alignment explanation
Indices: 2906293--2906351 Score: 72
Period size: 17 Copynumber: 3.3 Consensus size: 19
2906283 TTGTATTTTT
2906293 TATAAA-TA-TAAATATAA
1 TATAAATTATTAAATATAA
*
2906310 TATAAATTATTAATTATAA
1 TATAAATTATTAAATATAA
2906329 TA-AAATT-TTAAATATTAA
1 TATAAATTATTAAATA-TAA
2906347 TATAA
1 TATAA
2906352 CACATGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 12 0.33
18 12 0.33
19 12 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAATTATTAAATATAA
Found at i:2912667 original size:148 final size:149
Alignment explanation
Indices: 2912447--2912724 Score: 360
Period size: 148 Copynumber: 1.9 Consensus size: 149
2912437 TACCCTAGGA
* * * * * *
2912447 GTATTTTCATAATTTTCCTAGAATCGAGTCCTAATTCATCACTGGGTCATTTCTATGCCGAGGTT
1 GTATTTTCATAATTTTCCTAGAATCAAGTCCTAATTCATCACCGAGTCACTTCTAGGCCGAGGGT
* * * * *
2912512 ACATATTAGGCGTTG-TTCACTTTTCTTTTTTAAGTCTTTTAGGGTTACTAGGACACTTTCATGT
66 ACATATTAGGCATAGTTTCACTTTTCCTTTTTAAGACTTTTAGGGTTACCAGGACACTTTCATGT
2912576 TGAAAGTATACATATAAGG
131 TGAAAGTATACATATAAGG
** ** ** *
2912595 GTATTTTCATAATTTTTTTAGAATCAAGTCCTAATTTGTCACCGAGTTGCTTCTAGGCTGAGGGT
1 GTATTTTCATAATTTTCCTAGAATCAAGTCCTAATTCATCACCGAGTCACTTCTAGGCCGAGGGT
* * *
2912660 ACGTATTAGGCATAGTTTCACTTTTCCTTTTTAAGACTTTTAGGGTTACCGGGATACTTTCATGT
66 ACATATTAGGCATAGTTTCACTTTTCCTTTTTAAGACTTTTAGGGTTACCAGGACACTTTCATGT
2912725 CACCCATAAG
Statistics
Matches: 108, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
148 64 0.59
149 44 0.41
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (149 bp):
GTATTTTCATAATTTTCCTAGAATCAAGTCCTAATTCATCACCGAGTCACTTCTAGGCCGAGGGT
ACATATTAGGCATAGTTTCACTTTTCCTTTTTAAGACTTTTAGGGTTACCAGGACACTTTCATGT
TGAAAGTATACATATAAGG
Found at i:2920304 original size:20 final size:20
Alignment explanation
Indices: 2920281--2920353 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
2920271 ACAATTCAAA
2920281 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*****
2920301 GTATCGATACATAAAAAAAAT
1 GTATCGATACAT-GTTGCAAT
2920322 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2920342 GTATCGATACAT
1 GTATCGATACAT
2920354 AAAAAGGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2920324 original size:21 final size:21
Alignment explanation
Indices: 2920298--2920374 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
2920288 TACATGTTGC
2920298 AATGTATCGATACATAAAAAA
1 AATGTATCGATACATAAAAAA
*****
2920319 AATGTATCGATACAT-GTTGC
1 AATGTATCGATACATAAAAAA
*
2920339 AATGTATCGATACATAAAAAG
1 AATGTATCGATACATAAAAAA
*
2920360 GATGTATCGATACAT
1 AATGTATCGATACAT
2920375 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATAAAAAA
Found at i:2920332 original size:41 final size:41
Alignment explanation
Indices: 2920281--2920374 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2920271 ACAATTCAAA
2920281 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAAT
**
2920322 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAAT
2920363 GTATCGATACAT
1 GTATCGATACAT
2920375 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAAT
Found at i:2920431 original size:13 final size:13
Alignment explanation
Indices: 2920413--2920438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2920403 TACAGCAAGT
2920413 ATGTATCGATACA
1 ATGTATCGATACA
2920426 ATGTATCGATACA
1 ATGTATCGATACA
2920439 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2924520 original size:15 final size:15
Alignment explanation
Indices: 2924500--2924530 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2924490 TAAAAATGTC
*
2924500 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2924515 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2924530 C
1 C
2924531 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2926627 original size:13 final size:13
Alignment explanation
Indices: 2926609--2926647 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2926599 ACATTTTTCC
2926609 TTGTATCGATACA
1 TTGTATCGATACA
2926622 TTGTATCGATACA
1 TTGTATCGATACA
*
2926635 CTGTATCGATACA
1 TTGTATCGATACA
2926648 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2928476 original size:30 final size:30
Alignment explanation
Indices: 2928442--2928499 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
2928432 TTTTGATATG
2928442 AATTACTTGATTAAGGGGGAGATTTTTTTT
1 AATTACTTGATTAAGGGGGAGATTTTTTTT
2928472 AATTACTTGATTAAGGGGGAGATTTTTT
1 AATTACTTGATTAAGGGGGAGATTTTTT
2928500 AATAAACGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.45
Consensus pattern (30 bp):
AATTACTTGATTAAGGGGGAGATTTTTTTT
Done.