Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 22
Found at i:2766478 original size:15 final size:15
Alignment explanation
Indices: 2766458--2766488 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2766448 ATTTCGTTTA
*
2766458 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2766473 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2766488 G
1 G
2766489 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:2768321 original size:21 final size:21
Alignment explanation
Indices: 2768292--2768336 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2768282 AAGTTTTCAT
*
2768292 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2768312 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2768334 TTT
1 TTT
2768337 CCACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2770558 original size:13 final size:13
Alignment explanation
Indices: 2770540--2770565 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2770530 CAATTTTTTG
2770540 TGTATCGATACAT
1 TGTATCGATACAT
2770553 TGTATCGATACAT
1 TGTATCGATACAT
2770566 ACTTGCTGTA
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:2770649 original size:20 final size:21
Alignment explanation
Indices: 2770604--2770656 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2770594 CTGCCAAGAA
* **
2770604 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTGTAAC
2770625 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTGTAAC
2770645 ATGTATCGATAC
1 ATGTATCGATAC
2770657 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTGTAAC
Found at i:2774521 original size:21 final size:20
Alignment explanation
Indices: 2774470--2774523 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2774460 CATTTGAGAC
*
2774470 ATGTATTGATACATTCACTT
1 ATGTATTGATACATTCACTA
2774490 ATGTATTGATACATTCACTA
1 ATGTATTGATACATTCACTA
*
2774510 ATTGTATCGATACA
1 A-TGTATTGATACA
2774524 AATCATAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATTGATACATTCACTA
Found at i:2775218 original size:52 final size:52
Alignment explanation
Indices: 2775140--2775968 Score: 384
Period size: 52 Copynumber: 15.4 Consensus size: 52
2775130 GCAGTGTGCA
* * * *
2775140 GATTCAAGGTCTGCGACATTGGACTTAAAGATAATAAGAGTGCCAATGTGTT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGAGTGCCAATATGCT
* *
2775192 GATTCAAGGTCAACGACATTGGACTTAAAGATGTAAATAATGATAAAGGTGCCAAT-TGGCT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGA--T-AATAA-G----A-GTGCCAATAT-GCT
* * * * *
2775253 GATTCATGGCCAGTGATATCAGGCTTGAAGA-TGAAAAGAATGATAAAAGTGCCAATATGCT
1 GATTCAAGGCCAGCG--A-CA---TTG--GACT-TAAAG-ATAATAAGAGTGCCAATATGCT
* * * * * *
2775314 GATTCAAGGCCAGCGATATCGGGCTGAAAGATGACA-AAG-GTGCCAATGTACT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGAT-A-ATAAGAGTGCCAATATGCT
* * * * * *
2775366 GATTCAAGGCCAGCGACATTTGACTTGAAGATGAGAAGAATGATAAAGGTGCCGATACGTT
1 GATTCAAGGCCAGCGACATTGGACTT--A-A--AG-ATAAT-A-AGA-GTGCCAATATGCT
* * * * *
2775427 GATTCAAGGCCAACGATATTGGACTTAAAGATGATAA-AGGCGCCAGTATGCT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGA-GTGCCAATATGCT
* * *
2775479 GATTCAAGGCCAGCGATATTGGACATAAAGATGAAAAAGA-TGCCAATATGCT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGAT-AATAAGAGTGCCAATATGCT
* * * * *
2775531 AATTCAAGACTAGCGATATTGGACTTAAAGATAACAA-AGGTGCCAATATGCT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGA-GTGCCAATATGCT
* * * * * * * *
2775583 AATTCAAGGCCAACGATATTGGACTTAAGAAAGAAAAAGA-TGCCAATTTGTT
1 GATTCAAGGCCAGCGACATTGGACTTAA-AGATAATAAGAGTGCCAATATGCT
* * * * * * *
2775635 GATTCAAAGCTAGCGACATTGGACTTAAAAATGATAAAGAATGCCAATGTGTT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAAT-AAGAGTGCCAATATGCT
* * * ** *
2775688 GATTCAAGGCCAGTGACATTGGGCTTAAAAATGGTTAAG-GTGCCAATATGTT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGAT-AATAAGAGTGCCAATATGCT
* * * * * * *
2775740 GATTCAAGGCCAACGATATTAGACTTAAAGATGACAAGGGTGCCAATGTGCT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGAGTGCCAATATGCT
* * * * * * * * * * *
2775792 AATTCAAGGCCAACGACAATGGACTTACATATGACAAGGGTTCTAATGTGCT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGAGTGCCAATATGCT
* * ** * ** * *
2775844 AATTTAAGGCCAGCGATGTGGGGTTTAGAA-AAAATAAGGGTGCCAATATGCT
1 GATTCAAGGCCAGCGACATTGGACTTA-AAGATAATAAGAGTGCCAATATGCT
* * * * * * * *
2775896 GATTCAAGGCCAGCGATATCGAACTTAAAGA-AAGAAGATTTGACAATGTGTT
1 GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGA-GTGCCAATATGCT
**
2775948 GATTCAAGGCCAATGACATTG
1 GATTCAAGGCCAGCGACATTG
2775969 AGCTTAGAAA
Statistics
Matches: 602, Mismatches: 127, Indels: 96
0.73 0.15 0.12
Matches are distributed among these distances:
50 1 0.00
51 19 0.03
52 389 0.65
53 60 0.10
54 9 0.01
55 11 0.02
56 4 0.01
57 3 0.00
58 4 0.01
59 3 0.00
60 2 0.00
61 76 0.13
62 2 0.00
63 1 0.00
64 2 0.00
67 7 0.01
68 2 0.00
69 6 0.01
70 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (52 bp):
GATTCAAGGCCAGCGACATTGGACTTAAAGATAATAAGAGTGCCAATATGCT
Found at i:2775284 original size:61 final size:61
Alignment explanation
Indices: 2775173--2775352 Score: 177
Period size: 61 Copynumber: 2.9 Consensus size: 61
2775163 CTTAAAGATA
* * * * * * * * * *
2775173 ATAAGAGTGCCAATGTGTTGATTCAAGGTCAACGACAT-TGGACTTAAAGATGTAAATAATG
1 ATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGG-CTGAAAGATGAAAAGAATG
* * *
2775234 ATAAAGGTGCCAAT-TGGCTGATTCATGGCCAGTGATATCAGGCTTG-AAGATGAAAAGAATG
1 ATAAAAGTGCCAATAT-GCTGATTCAAGGCCAGCGATATCAGGC-TGAAAGATGAAAAGAATG
*
2775295 ATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTGAAAGATGACAAAG
1 ATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGGCTGAAAGATGA-AAAG
2775353 GTGCCAATGT
Statistics
Matches: 97, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
60 3 0.03
61 86 0.89
62 8 0.08
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (61 bp):
ATAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATCAGGCTGAAAGATGAAAAGAATG
Found at i:2775434 original size:113 final size:112
Alignment explanation
Indices: 2775231--2775612 Score: 354
Period size: 113 Copynumber: 3.5 Consensus size: 112
2775221 GATGTAAATA
* * * *
2775231 ATGATAAAGGTGCCAATTGGCTGATTCATGGCCAGTGATATCAGGCTTGAAGATGAAAAGAATGA
1 ATGATAAAGGTGCCAATT-GCTGATTCAAGGCCAGCGATATTAGACTTGAAGATGAAAAGAATGA
* * *
2775296 TAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTGAAAG
65 TAAAAGTGCCAATACGCTGATTCAAGGCCAACGATATCGGACTGAAAG
* * * * *
2775344 ATGACAAAGGTGCCAATGTACTGATTCAAGGCCAGCGACATTTGACTTGAAGATGAGAAGAATGA
1 ATGATAAAGGTGCCAAT-TGCTGATTCAAGGCCAGCGATATTAGACTTGAAGATGAAAAGAATGA
* * * * *
2775409 TAAAGGTGCCGATACGTTGATTCAAGGCCAACGATATTGGACTTAAAG
65 TAAAAGTGCCAATACGCTGATTCAAGGCCAACGATATCGGACTGAAAG
* * *
2775457 ATGATAAAGGCGCCAGTATGCTGATTCAAGGCCAGCGATATT-G----G-ACAT--AAAG-ATGA
1 ATGATAAAGGTGCCAAT-TGCTGATTCAAGGCCAGCGATATTAGACTTGAAGATGAAAAGAATGA
* * * * * * *
2775513 -AAAAGATGCCAATATGCTAATTCAAGACTAGCGATATTGGACTTAAAG
65 TAAAAG-TGCCAATACGCTGATTCAAGGCCAACGATATCGGACTGAAAG
* * * * *
2775561 ATAACAAAGGTGCCAATATGCTAATTCAAGGCCAACGATATTGGACTT-AAGA
1 ATGATAAAGGTGCCAAT-TGCTGATTCAAGGCCAGCGATATTAGACTTGAAGA
2775613 AAGAAAAAGA
Statistics
Matches: 221, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
103 4 0.02
104 75 0.34
105 4 0.02
107 3 0.01
108 1 0.00
109 2 0.01
112 1 0.00
113 130 0.59
114 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (112 bp):
ATGATAAAGGTGCCAATTGCTGATTCAAGGCCAGCGATATTAGACTTGAAGATGAAAAGAATGAT
AAAAGTGCCAATACGCTGATTCAAGGCCAACGATATCGGACTGAAAG
Found at i:2775656 original size:156 final size:157
Alignment explanation
Indices: 2775410--2775927 Score: 423
Period size: 156 Copynumber: 3.3 Consensus size: 157
2775400 GAAGAATGAT
* * * * * *
2775410 AAAGGTGCCGATACGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGATAAAGGCGCCAGTA
1 AAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGAAGAAAAAGACGCCAATA
* * *
2775475 TGCTGATTCAAGGCCAGCGATATTGGACATAAAGATGAAAAAG-ATGCCAATATGCTAATTCAAG
66 TGCTGATTCAAAGCCAGCGACATTGGACATAAAAATGAAAAAGAATGCCAATATGCTAATTCAAG
* * *
2775539 ACTAGCGATATTGGACTTAAAGATAAC
131 ACCAGCGACATTGGACTTAAAAATAAC
* * *
2775566 AAAGGTGCCAATATGCTAATTCAAGGCCAACGATATTGGACTT-AAGAAAGAAAAAGATGCCAAT
1 AAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAG-AAGAAAAAGACGCCAAT
* * * * * * * *
2775630 TTGTTGATTCAAAGCTAGCGACATTGGACTTAAAAATGATAAAGAATGCCAATGTGTTGATTCAA
65 ATGCTGATTCAAAGCCAGCGACATTGGACATAAAAATGAAAAAGAATGCCAATATGCTAATTCAA
* * * ***
2775695 GGCCAGTGACATTGGGCTTAAAAATGGT
130 GACCAGCGACATTGGACTTAAAAATAAC
* * * * * ** *
2775723 TAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTAGACTTAAAGATGACAAGGGTGCCAATG
1 AAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGAAGAAAAAGACGCCAATA
* * * * * * * * ** * * * *
2775788 TGCTAATTCAAGGCCAACGACAATGGACTTACATATG-ACAAGGGTTCTAATGTGCTAATTTAAG
66 TGCTGATTCAAAGCCAGCGACATTGGACATAAAAATGAAAAAGAATGCCAATATGCTAATTCAAG
* ** * ** *
2775852 GCCAGCGATGTGGGGTTTAGAAAA-AAT
131 ACCAGCGACATTGGACTTA-AAAATAAC
* * * * *
2775879 AAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGAACTTAAAGAA
1 AAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGAA
2775928 AGAAGATTTG
Statistics
Matches: 288, Mismatches: 70, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
155 3 0.01
156 161 0.56
157 121 0.42
158 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.24
Consensus pattern (157 bp):
AAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTGGACTTAAAGAAGAAAAAGACGCCAATA
TGCTGATTCAAAGCCAGCGACATTGGACATAAAAATGAAAAAGAATGCCAATATGCTAATTCAAG
ACCAGCGACATTGGACTTAAAAATAAC
Found at i:2775759 original size:209 final size:214
Alignment explanation
Indices: 2775291--2775818 Score: 593
Period size: 209 Copynumber: 2.5 Consensus size: 214
2775281 AGATGAAAAG
* * *
2775291 AATGATAAAA-GTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTGAAAGATGACAAAGGT
1 AATGA-AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGT
* * * * * *
2775355 GCCAATGTACTGATTCAAGGCCAGCGACATTTGACTTGAAGATGAGAAGAATGATAAAGGTGCCG
65 GCCAATGTGCTAATTCAAGGCCAACGACATTGGACTT--AGATGAGAAGAA-GATAAAGATGCCA
* * * * *
2775420 ATACGTTGATTCAAGGCCAACGATATTGGACTTAAAGATGATAAAGGCGCCAGTATGCTGATTCA
127 ATACGTTGATTCAAAGCCAACGACATTGGACTTAAAAATGATAAAGACGCCAATATGCTGATTCA
*
2775485 AGGCCAGCGATATTGGACATAAA
192 AGGCCAGCGACATTGGACATAAA
* * * * * *
2775508 GATGAAAAAGATGCCAATATGCTAATTCAAGACTAGCGATATTGGACTTAAAGATAACAAAGGTG
1 AATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTG
* * **
2775573 CCAATATGCTAATTCAAGGCCAACGATATTGGACTTA-A-GA-AAG-A-A-AAAGATGCCAATTT
66 CCAATGTGCTAATTCAAGGCCAACGACATTGGACTTAGATGAGAAGAAGATAAAGATGCCAATAC
* * * * *
2775632 GTTGATTCAAAGCTAGCGACATTGGACTTAAAAATGATAAAGAATGCCAATGTGTTGATTCAAGG
131 GTTGATTCAAAGCCAACGACATTGGACTTAAAAATGATAAAG-ACGCCAATATGCTGATTCAAGG
* * *
2775697 CCAGTGACATTGGGCTTAAA
195 CCAGCGACATTGGACATAAA
*** * * * *
2775717 AATGGTTAAGGTGCCAATATGTTGATTCAAGGCCAACGATATTAGACTTAAAGATGACAAGGGTG
1 AATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTG
*
2775782 CCAATGTGCTAATTCAAGGCCAACGACAATGGACTTA
66 CCAATGTGCTAATTCAAGGCCAACGACATTGGACTTA
2775819 CATATGACAA
Statistics
Matches: 260, Mismatches: 49, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
208 47 0.18
209 120 0.46
211 1 0.00
212 3 0.01
213 2 0.01
214 1 0.00
215 1 0.00
216 4 0.02
217 81 0.31
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (214 bp):
AATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTG
CCAATGTGCTAATTCAAGGCCAACGACATTGGACTTAGATGAGAAGAAGATAAAGATGCCAATAC
GTTGATTCAAAGCCAACGACATTGGACTTAAAAATGATAAAGACGCCAATATGCTGATTCAAGGC
CAGCGACATTGGACATAAA
Found at i:2776011 original size:31 final size:31
Alignment explanation
Indices: 2775976--2776291 Score: 226
Period size: 31 Copynumber: 10.0 Consensus size: 31
2775966 TTGAGCTTAG
** *
2775976 AAAGGGTTGCCATAAACTTGTGTGGACTTTA
1 AAAGGGTTGCCATCGACTTGTGTGGGCTTTA
* *
2776007 AAAGGATTGCCATCGACTTGTGTGGACTTTA
1 AAAGGGTTGCCATCGACTTGTGTGGGCTTTA
* * * * *
2776038 GAAGGGTCGACACCGACTTGTGTAGGCTTTA
1 AAAGGGTTGCCATCGACTTGTGTGGGCTTTA
*
2776069 GAAGGGTTGCCA-CTGACTTGTGTGGGCTTTGA
1 AAAGGGTTGCCATC-GACTTGTGTGGGCTTT-A
* * * * *
2776101 GAAGGGGTGCCACCAACTTGTATGGGCTTTA
1 AAAGGGTTGCCATCGACTTGTGTGGGCTTTA
*
2776132 GAGAAGGGTTGCCATTGACTTGTGTGGGCTTTAAA
1 -A-AAGGGTTGCCATCGACTTGTGTGGGCTTT--A
* *
2776167 AAAGGGTTGCCA-CTGACTTTTATGGGCTTTA
1 AAAGGGTTGCCATC-GACTTGTGTGGGCTTTA
* * * *
2776198 TAAGAGTTGCC-CCTGACTTGTGTGAGCTTTAA
1 AAAGGGTTGCCATC-GACTTGTGTGGGCTTT-A
* * * *
2776230 AAAGGGGTGCCA-CTAACTTGTATGGGCTTTC
1 AAAGGGTTGCCATC-GACTTGTGTGGGCTTTA
* * * * *
2776261 GAACGATTGCCACCGGCTTGTGTGGGCTTTA
1 AAAGGGTTGCCATCGACTTGTGTGGGCTTTA
2776292 GGAAATGGTG
Statistics
Matches: 228, Mismatches: 45, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
30 1 0.00
31 124 0.54
32 51 0.22
33 50 0.22
34 1 0.00
35 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (31 bp):
AAAGGGTTGCCATCGACTTGTGTGGGCTTTA
Found at i:2776130 original size:63 final size:63
Alignment explanation
Indices: 2775976--2776291 Score: 296
Period size: 63 Copynumber: 5.0 Consensus size: 63
2775966 TTGAGCTTAG
* ** * * * * *
2775976 AAAGGGTTGCCATAAACTTGTGTGGACTTTAAAAGGATTGCCA-TCGACTTGTGTGGACTTT-A
1 AAAGGGGTGCCACCAACTTGTATGGGCTTTAGAAGGGTTGCCACT-GACTTGTGTGGGCTTTAA
* * * * * *
2776038 GAA-GGGTCGACACCGACTTGTGTAGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTGA
1 AAAGGGGT-GCCACCAACTTGTATGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAA
* *
2776101 GAAGGGGTGCCACCAACTTGTATGGGCTTTAGAGAAGGGTTGCCATTGACTTGTGTGGGCTTTAA
1 AAAGGGGTGCCACCAACTTGTATGGGCTTT--AGAAGGGTTGCCACTGACTTGTGTGGGCTTT-A
2776166 A
63 A
* ** * * * * *
2776167 AAAGGGTTGCCACTGACTTTTATGGGCTTTATAAGAGTTGCCCCTGACTTGTGTGAGCTTTAA
1 AAAGGGGTGCCACCAACTTGTATGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAA
* * * * * *
2776230 AAAGGGGTGCCACTAACTTGTATGGGCTTTCGAACGATTGCCACCGGCTTGTGTGGGCTTTA
1 AAAGGGGTGCCACCAACTTGTATGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTA
2776292 GGAAATGGTG
Statistics
Matches: 208, Mismatches: 39, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
61 3 0.01
62 44 0.21
63 75 0.36
64 30 0.14
65 30 0.14
66 26 0.12
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (63 bp):
AAAGGGGTGCCACCAACTTGTATGGGCTTTAGAAGGGTTGCCACTGACTTGTGTGGGCTTTAA
Found at i:2776207 original size:129 final size:125
Alignment explanation
Indices: 2775967--2776291 Score: 346
Period size: 129 Copynumber: 2.6 Consensus size: 125
2775957 CCAATGACAT
* * ** * *
2775967 TGAGC-TTAGAAAGGGTTGCCATAAACTTGTGTGGACTTTAAAAGGATTGCCATCGACTTGTGTG
1 TGAGCTTTAAAAAGGGGTGCCACCAACTTGTATGGGCTTTAAAAGGATTGCCATCGACTTGTGTG
* * *
2776031 GACTTTAGAAGGGTCGACACCGACTTGTGTAGGCTTTAGAAGGGTTGCCACTGACTTGTG
66 GACTTTAAAAGGGTCGACACCGACTTGTATAGGCTTTAGAAGAGTTGCCACTGACTTGTG
* * * * *
2776091 TGGGCTTTGAGAAGGGGTGCCACCAACTTGTATGGGCTTTAGAGAAGGGTTGCCATTGACTTGTG
1 TGAGCTTTAAAAAGGGGTGCCACCAACTTGTATGGGCTTTA-A-AAGGATTGCCATCGACTTGTG
* * * * * * * *
2776156 TGGGCTTTAAAAAAGGGTTGCCACTGACTTTTATGGGCTTTATAAGAGTTGCCCCTGACTTGTG
64 TGGACTTT--AAAAGGGTCGACACCGACTTGTATAGGCTTTAGAAGAGTTGCCACTGACTTGTG
* ** * * *
2776220 TGAGCTTTAAAAAGGGGTGCCACTAACTTGTATGGGCTTTCGAACGATTGCCACCGGCTTGTGTG
1 TGAGCTTTAAAAAGGGGTGCCACCAACTTGTATGGGCTTTAAAAGGATTGCCATCGACTTGTGTG
*
2776285 GGCTTTA
66 GACTTTA
2776292 GGAAATGGTG
Statistics
Matches: 163, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
124 4 0.02
125 28 0.17
126 1 0.01
127 50 0.31
129 80 0.49
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (125 bp):
TGAGCTTTAAAAAGGGGTGCCACCAACTTGTATGGGCTTTAAAAGGATTGCCATCGACTTGTGTG
GACTTTAAAAGGGTCGACACCGACTTGTATAGGCTTTAGAAGAGTTGCCACTGACTTGTG
Found at i:2776481 original size:33 final size:33
Alignment explanation
Indices: 2776322--2776762 Score: 326
Period size: 33 Copynumber: 14.0 Consensus size: 33
2776312 GTGAAATTTG
* *
2776322 AAGAAAAAGGTGCCACAGAGATGTGGACTT---
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
* * *
2776352 -A-AAAAAGATACCACAGAGTTGTGGACTTAAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
* *
2776383 AAG----AGATGCCTTAGAGTTGTGGACTTTAAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGAC-TTAAA
* ** **
2776413 AGAGAAAAAAGTGCCACGGAGTTGTGTTCTT---
1 A-AGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
*
2776444 ---AAAAAGGTGCCATGGAGTTGTGGACTTAAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
* *
2776474 AAGAAAAATGTGCCATGGAGTTGTGGACTTAAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
*
2776507 AAGAAAAAGGTGCCATAGAGTTGTGGACTT--T
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
* * *
2776538 AAG--AAAGGTGCCACAGAGTTATGGACTTTAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
*
2776569 AAGAAAAATGTGCCATAGAGTTGTGGACTTAAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
** *
2776602 AAGAAAAAAATTGCCA-CGAAGTTGTGGACTT-AA
1 AAG-AAAAAGGTGCCATAG-AGTTGTGGACTTAAA
* * *
2776635 AAGAAAAAGGATGCCACAGAATTGTGGACTTTAA
1 AAGAAAAAGG-TGCCATAGAGTTGTGGACTTAAA
*
2776669 AAGAAAAAGGTACCAT-GAAGTTGTGGACTT-AA
1 AAGAAAAAGGTGCCATAG-AGTTGTGGACTTAAA
* * * *
2776701 AAG----A-GTACCACAAAGTTGTGGACTTTAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
* **
2776729 AAGAAAAAGGTGCCACAGAGTTAAGGACTTAAA
1 AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
2776762 A
1 A
2776763 GGGTGCCATA
Statistics
Matches: 332, Mismatches: 45, Indels: 65
0.75 0.10 0.15
Matches are distributed among these distances:
27 41 0.12
28 30 0.09
29 42 0.13
30 6 0.02
31 8 0.02
32 13 0.04
33 141 0.42
34 37 0.11
35 14 0.04
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.22
Consensus pattern (33 bp):
AAGAAAAAGGTGCCATAGAGTTGTGGACTTAAA
Found at i:2776495 original size:60 final size:64
Alignment explanation
Indices: 2776352--2776817 Score: 319
Period size: 60 Copynumber: 7.4 Consensus size: 64
2776342 ATGTGGACTT
* * *
2776352 AAAAAAGATACCACAGAGTTGTGGACTTAAAAAGAGATGCCTTAGAGTTGTGGACTTTAAAAGAG
1 AAAAAAG-TGCCACGGAGTTGTGGACTTAAAAAGAGATGCCATAGAGTTGTGGACTTTAAAAGAG
** *
2776417 AAAAAAGTGCCACGGAGTTGTGTTCTTAAAAAG-G-TGCCATGGAGTTGTGGAC-TTAAAA-AG
1 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGAGATGCCATAGAGTTGTGGACTTTAAAAGAG
* * *
2776477 AAAAATGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCATAGAGTTGTGGACTTT---A
1 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAAG----AGATGCCATAGAGTTGTGGACTTTAAAA
2776539 -AG
62 GAG
* * * * * *
2776541 --AAAGGTGCCACAGAGTTATGGACTTTAAAAGAAAAATGTGCCATAGAGTTGTGGACTTAAAAA
1 AAAAAAGTGCCACGGAGTTGTGGAC-TTAAAA-AGAGA--TGCCATAGAGTTGTGGACTTTAAAA
2776604 GA-
62 GAG
* * * * *
2776606 AAAAAATTGCCACGAAGTTGTGGACTTAAAAGAAAAAGGATGCCACAGAATTGTGGACTTT-AAA
1 AAAAAAGTGCCACGGAGTTGTGGACTT--AA-AAAGA-GATGCCATAGAGTTGTGGACTTTAAAA
2776670 -AG
62 GAG
* * * * * * *
2776672 AAAAAGGTACCATGAAGTTGTGGACTT-AAAAGAG-TACCACAAAGTTGTGGACTTT-AAA-AG
1 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGAGATGCCATAGAGTTGTGGACTTTAAAAGAG
* * ** * ** *
2776732 AAAAAGGTGCCACAGAGTTAAGGACTT-AAAAG-GGTGCCATAGAGTCATGGACTTT-GAAG-G
1 AAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGAGATGCCATAGAGTTGTGGACTTTAAAAGAG
** *
2776792 -AAAAAGTGCCACTAAGTAGTGGACTT
1 AAAAAAGTGCCACGGAGTTGTGGACTT
2776818 TGAGAAGGGA
Statistics
Matches: 323, Mismatches: 54, Indels: 54
0.75 0.13 0.13
Matches are distributed among these distances:
59 21 0.07
60 100 0.31
61 7 0.02
62 59 0.18
63 8 0.02
64 26 0.08
65 10 0.03
66 46 0.14
67 38 0.12
68 5 0.02
69 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.23
Consensus pattern (64 bp):
AAAAAAGTGCCACGGAGTTGTGGACTTAAAAAGAGATGCCATAGAGTTGTGGACTTTAAAAGAG
Found at i:2776545 original size:95 final size:94
Alignment explanation
Indices: 2776322--2776702 Score: 416
Period size: 95 Copynumber: 4.0 Consensus size: 94
2776312 GTGAAATTTG
* * * * *
2776322 AAGAAAAAGGTGCCACAGAGATGTGGACTTAAAAAAGATACCACAGAGTTGTGGACTTAAAAAG-
1 AAGAAAAAAGTGCCACAGAGTTGTGGACTTAAGAAAGGTGCCACAGAGTTGTGGACTTAAAAAGA
* *
2776386 -AGA--TGCCTTAGAGTTGTGGACTTTAAA
66 AAAATGTGCCATAGAGTTGTGGAC-TTAAA
* ** **
2776413 AGAGAAAAAAGTGCCACGGAGTTGTGTTCTTAA-AAAGGTGCCATGGAGTTGTGGACTTAAAAAG
1 A-AGAAAAAAGTGCCACAGAGTTGTGGACTTAAGAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
*
2776477 AAAAATGTGCCATGGAGTTGTGGACTTAAA
65 AAAAATGTGCCATAGAGTTGTGGACTTAAA
* * * *
2776507 AAGAAAAAGGTGCCATAGAGTTGTGGACTTTAAGAAAGGTGCCACAGAGTTATGGACTTTAAAAG
1 AAGAAAAAAGTGCCACAGAGTTGTGGAC-TTAAGAAAGGTGCCACAGAGTTGTGGACTTAAAAAG
2776572 AAAAATGTGCCATAGAGTTGTGGACTTAAA
65 AAAAATGTGCCATAGAGTTGTGGACTTAAA
* *
2776602 AAGAAAAAAATTGCCAC-GAAGTTGTGGACTTAAAAGAAAAAGGATGCCACAGAATTGTGGACTT
1 AAG-AAAAAAGTGCCACAG-AGTTGTGGACTT--AAG--AAAGG-TGCCACAGAGTTGTGGACTT
* * *
2776666 TAAAAGAAAAAGGTACCAT-GAAGTTGTGGACTTAAA
59 AAAAAGAAAAATGTGCCATAG-AGTTGTGGACTTAAA
2776702 A
1 A
2776703 GAGTACCACA
Statistics
Matches: 246, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
91 28 0.11
92 26 0.11
93 24 0.10
94 10 0.04
95 78 0.32
96 20 0.08
97 3 0.01
99 6 0.02
100 51 0.21
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (94 bp):
AAGAAAAAAGTGCCACAGAGTTGTGGACTTAAGAAAGGTGCCACAGAGTTGTGGACTTAAAAAGA
AAAATGTGCCATAGAGTTGTGGACTTAAA
Found at i:2776674 original size:162 final size:160
Alignment explanation
Indices: 2776459--2776762 Score: 425
Period size: 162 Copynumber: 1.9 Consensus size: 160
2776449 GGTGCCATGG
* ** * *
2776459 AGTTGTGGACTTAAAAAGAAAAATGTGCCATGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCAT-
1 AGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAATTGTGGACTTAAAAAGAAAAAGGTACCATG
* * * *
2776523 AGAGTTGTGGACTTTAAGAA-AGGTGCCACAGAGTTATGGACTTTAAAAGAAAAATGTGCCATAG
66 A-AGTTGTGGAC-TTAA-AAGA-GTACCACAAAGTTATGGACTTTAAAAGAAAAAGGTGCCACAG
**
2776587 AGTTGTGGACTTAAAAAGAAAAAAATTGCCACGA
127 AGTTAAGGACTTAAAAAGAAAAAAATTGCCACGA
*
2776621 AGTTGTGGACTT-AAAAGAAAAAGGATGCCACAGAATTGTGGACTTTAAAAGAAAAAGGTACCAT
1 AGTTGTGGACTTAAAAAGAAAAAGG-TGCCACAGAATTGTGGACTTAAAAAGAAAAAGGTACCAT
*
2776685 GAAGTTGTGGACTTAAAAGAGTACCACAAAGTTGTGGACTTTAAAAGAAAAAGGTGCCACAGAGT
65 GAAGTTGTGGACTTAAAAGAGTACCACAAAGTTATGGACTTTAAAAGAAAAAGGTGCCACAGAGT
2776750 TAAGGACTTAAAA
130 TAAGGACTTAAAA
2776763 GGGTGCCATA
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
160 53 0.42
161 16 0.13
162 56 0.44
163 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (160 bp):
AGTTGTGGACTTAAAAAGAAAAAGGTGCCACAGAATTGTGGACTTAAAAAGAAAAAGGTACCATG
AAGTTGTGGACTTAAAAGAGTACCACAAAGTTATGGACTTTAAAAGAAAAAGGTGCCACAGAGTT
AAGGACTTAAAAAGAAAAAAATTGCCACGA
Found at i:2776710 original size:27 final size:28
Alignment explanation
Indices: 2776673--2776732 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
2776663 CTTTAAAAGA
**
2776673 AAAAG-GTACCATGAAGTTGTGGAC-TT
1 AAAAGAGTACCACAAAGTTGTGGACTTT
2776699 AAAAGAGTACCACAAAGTTGTGGACTTT
1 AAAAGAGTACCACAAAGTTGTGGACTTT
2776727 AAAAGA
1 AAAAGA
2776733 AAAAGGTGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.17
27 17 0.57
28 8 0.27
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (28 bp):
AAAAGAGTACCACAAAGTTGTGGACTTT
Found at i:2776791 original size:27 final size:27
Alignment explanation
Indices: 2776732--2776785 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
2776722 ACTTTAAAAG
* *
2776732 AAAAAGGTGCCACAGAGTTAAGGACTT
1 AAAAGGGTGCCACAGAGTCAAGGACTT
* *
2776759 AAAAGGGTGCCATAGAGTCATGGACTT
1 AAAAGGGTGCCACAGAGTCAAGGACTT
2776786 TGAAGGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTCAAGGACTT
Found at i:2784157 original size:29 final size:29
Alignment explanation
Indices: 2784125--2784190 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
2784115 AAATTTCATG
*
2784125 GCATGAATCGTGACAAAACACAAGTTGAT
1 GCATGAACCGTGACAAAACACAAGTTGAT
2784154 GCATGAACCGTGACAAAACACAAGTTGAT
1 GCATGAACCGTGACAAAACACAAGTTGAT
2784183 GCATGAAC
1 GCATGAAC
2784191 ATGCTTATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (29 bp):
GCATGAACCGTGACAAAACACAAGTTGAT
Found at i:2790014 original size:20 final size:20
Alignment explanation
Indices: 2789989--2790033 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2789979 CAAAGCATAT
2789989 TCAATCAAGTTCAAATCAAC
1 TCAATCAAGTTCAAATCAAC
* * *
2790009 TCAATCAGGTTTAAATTAAC
1 TCAATCAAGTTCAAATCAAC
2790029 TCAAT
1 TCAAT
2790034 TAACATGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (20 bp):
TCAATCAAGTTCAAATCAAC
Found at i:2800639 original size:156 final size:155
Alignment explanation
Indices: 2800056--2801035 Score: 894
Period size: 154 Copynumber: 6.3 Consensus size: 155
2800046 ATACCCCTAA
* * * * * *
2800056 GGTATACCTTTAATGTAAAAATATCTCGATAACCCCAAAGGAC-TTAAAAATGATCATAAATGGG
1 GGTATACCTTTGATGTGAAAGTATCTCGATAACCCTAATGGACACT-AAAATGATCATAAATGGG
* * * **
2800120 ATGAACCTATCCTAAATGCACACTTTTGGCATAAAATATCCCAGTGACAACCTAGGATTCGGTTC
65 ATGAACCTATCCTAAATGCACACCTTTGGCATAAAACATCTCAGTGACAACCTAGGATTCAATTC
* * * * *
2800185 TTAAAAAATTACAAAAATACCCCTAA
130 TAAAAAAATTACGAAAATGCCCATAG
* ** * * *
2800211 AGTATACCTTTGACATGAAAGTATC-CAATAACCTTGAA-GG--ACTTAAATGATCATAAATGGG
1 GGTATACCTTTGATGTGAAAGTATCTCGATAACCCT-AATGGACACTAAAATGATCATAAATGGG
* * * * *
2800272 ATAAACCAATCCTAATTGCACACCTTTGGCATAAAAACATCCCAATGACAA-CTAAGGATTCAAT
65 ATGAACCTATCCTAAATGCACACCTTTGGCAT-AAAACATCTCAGTGACAACCT-AGGATTCAAT
* * *
2800336 TTTAAAAAAATTATGAAAATACCTC-TAG
128 TCTAAAAAAATTACGAAAATGCC-CATAG
* * * * ** *
2800364 GGTATACCTTTGACGTGAAAGTATCCCGCTAAACCTAAAAGAC-TTAAAA-GATCATAAATGGGA
1 GGTATACCTTTGATGTGAAAGTATCTCGATAACCCTAATGGACACTAAAATGATCATAAATGGGA
* * * * * *
2800427 TGAACCTGTCCTAACTGCACACCTTTGGCATAAAAGAATCTCGGTGACAACCTGGGATTCGATTC
66 TGAACCTATCCTAAATGCACACCTTTGGCATAAAA-CATCTCAGTGACAACCTAGGATTCAATTC
* * *
2800492 TAGAAAAATTATGAAAATGCTCATAG
130 TAAAAAAATTACGAAAATGCCCATAG
*
2800518 GGTATACCTTTGATGTGAAAGTATCTCAATAACCCTAATGGACACTAAAATGATCATAAATGGGA
1 GGTATACCTTTGATGTGAAAGTATCTCGATAACCCTAATGGACACTAAAATGATCATAAATGGGA
* ** * * *
2800583 TGAACCTATCCTAAATGCACACCTTTGGCATAAAAGCTTCTTGGTGAAAACTTGGGATTCAATTC
66 TGAACCTATCCTAAATGCACACCTTTGGCATAAAA-CATCTCAGTGACAACCTAGGATTCAATTC
* * *
2800648 TAAAAAAAAGTACAAAAATGCCCCA-AA
130 T-AAAAAAATTACGAAAATG-CCCATAG
* * * * * *
2800675 GGTATAACTTTGACGTAAAAGTATGTCGGTAACCCTAATGGACACTAAAATAATCATAAATGGGA
1 GGTATACCTTTGATGTGAAAGTATCTCGATAACCCTAATGGACACTAAAATGATCATAAATGGGA
* * * * * * * *
2800740 TGAAACTATCTTAAGTGCACGCCTTTAGCATAAAATCATCTCGGTGATAA-CTTGAGATTCAATT
66 TGAACCTATCCTAAATGCACACCTTTGGCATAAAA-CATCTCAGTGACAACCTAG-GATTCAATT
* ** *
2800804 GTAAAAAAATTACGAAAATGCCTTTGG
129 CTAAAAAAATTACGAAAATGCCCATAG
* * * * *
2800831 GGTATACCTTTGATG-AAAAGTATCCCGGTAACCCTAATGAAAACTAAAATGATCATAAATGGGA
1 GGTATACCTTTGATGTGAAAGTATCTCGATAACCCTAATGGACACTAAAATGATCATAAATGGGA
* * ** ***
2800895 TGAACCTATCCTAAATGAACACCTTTGGCATAAAA-A-CT-AGTAATGACCTAGGATTTGGTTCT
66 TGAACCTATCCTAAATGCACACCTTTGGCATAAAACATCTCAGTGACAACCTAGGATTCAATTCT
* * * *
2800957 AAGAAAATTATGAAAATACCCCTAG
131 AAAAAAATTACGAAAATGCCCATAG
* * * *
2800982 GATATA-CTTTCGATGTGAAAATATCTCGGTAATCCTAATGGACACTAAAATGAT
1 GGTATACCTTT-GATGTGAAAGTATCTCGATAACCCTAATGGACACTAAAATGAT
2801036 AAATAAAAGG
Statistics
Matches: 676, Mismatches: 128, Indels: 45
0.80 0.15 0.05
Matches are distributed among these distances:
150 4 0.01
151 40 0.06
152 84 0.12
153 77 0.11
154 134 0.20
155 107 0.16
156 103 0.15
157 124 0.18
158 3 0.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (155 bp):
GGTATACCTTTGATGTGAAAGTATCTCGATAACCCTAATGGACACTAAAATGATCATAAATGGGA
TGAACCTATCCTAAATGCACACCTTTGGCATAAAACATCTCAGTGACAACCTAGGATTCAATTCT
AAAAAAATTACGAAAATGCCCATAG
Found at i:2803330 original size:153 final size:153
Alignment explanation
Indices: 2803018--2803332 Score: 320
Period size: 153 Copynumber: 2.1 Consensus size: 153
2803008 ATTGTTATCT
* * *
2803018 GAAAAAACTGTAAAACTCATAAAATAAATGAAATTTTCATAAACTGATTTAATATAAACTTAATA
1 GAAAAAATTCTAAAACTCATAAAATAAATGAAATTTTCATAAACTAATTTAATATAAACTTAATA
* * ** * *
2803083 AAAATATTCGATGAATTTTAAAAATTTTGAACTGAGAAAAATCCAACGGAAGAAATTTACATAAT
66 AAAATATTCAAAGAATTTTAAAAATTTAAAAATGAGAAAAATCCAAC-GAAAAAATTTACATAAT
* ** *
2803148 AGAAAACTTTGTATCTTGGCATTA
130 AGAAAACTTCGTATCTTGAAAATA
* * * *
2803172 G-AAAAATTCTAAAACTCATATAATAAATTGAATTTTTGA-AAACTAATTTAATATGAA-TTAA-
1 GAAAAAATTCTAAAACTCATAAAATAAA-TGAAATTTTCATAAACTAATTTAATATAAACTTAAT
* * *
2803233 ACAATAATATTTAAAGAATTTTGAAAATTATAAAAAT-AGAAAAATCCTAC-AAAAAATTTTAC-
65 A-AA-AATATTCAAAGAATTTTAAAAATT-TAAAAATGAGAAAAATCCAACGAAAAAA-TTTACA
* *
2803295 TGAGTAGAAAACTTCGTATTTTGAAAATA
126 T-AATAGAAAACTTCGTATCTTGAAAATA
2803324 GAAAAAATT
1 GAAAAAATT
2803333 TGAAAAAAAA
Statistics
Matches: 132, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
151 7 0.05
152 33 0.25
153 78 0.59
154 14 0.11
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.32
Consensus pattern (153 bp):
GAAAAAATTCTAAAACTCATAAAATAAATGAAATTTTCATAAACTAATTTAATATAAACTTAATA
AAAATATTCAAAGAATTTTAAAAATTTAAAAATGAGAAAAATCCAACGAAAAAATTTACATAATA
GAAAACTTCGTATCTTGAAAATA
Found at i:2804512 original size:31 final size:31
Alignment explanation
Indices: 2804477--2804547 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
2804467 GCTAAGATAC
2804477 AACCTCTCTACAATTTAATAGCTAGAGTAGT
1 AACCTCTCTACAATTTAATAGCTAGAGTAGT
2804508 AACCTCTCTACAATTTAATAGCTAGAGTAGT
1 AACCTCTCTACAATTTAATAGCTAGAGTAGT
2804539 AACCCTCTC
1 AA-CCTCTC
2804548 ATGCAACACC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (31 bp):
AACCTCTCTACAATTTAATAGCTAGAGTAGT
Found at i:2805882 original size:20 final size:20
Alignment explanation
Indices: 2805840--2805893 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
2805830 CTACCACTAT
*
2805840 TTGTATCGATACATGGCACA
1 TTGTATCGATACATGGAACA
*
2805860 TTGTATCGATACAT-GAAGGA
1 TTGTATCGATACATGGAA-CA
*
2805880 TTGTATTGATACAT
1 TTGTATCGATACAT
2805894 TGTCCCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGGAACA
Found at i:2812198 original size:32 final size:33
Alignment explanation
Indices: 2812172--2812245 Score: 66
Period size: 31 Copynumber: 2.3 Consensus size: 33
2812162 CATTTTCAAA
* **
2812172 TTTCATCAATTTCA-CATCAAAACA-TTTCATT
1 TTTCATCAAATTCATCATCAAAACATTTTCAAA
* *
2812203 TTTCATCAAATTCATCAACAAAAACATTTTTAAA
1 TTTCATCAAATTCATCATC-AAAACATTTTCAAA
2812237 --TCATCAAAT
1 TTTCATCAAAT
2812246 CTTTCATCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 13 0.37
32 12 0.34
33 6 0.17
34 4 0.11
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTCATCAAATTCATCATCAAAACATTTTCAAA
Found at i:2813545 original size:33 final size:33
Alignment explanation
Indices: 2813498--2813566 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
2813488 AGTTGATCAC
* *
2813498 TTCACTTTCGTAGCGCATGGATGAGCACTTTAG
1 TTCACTTTCATAGCGCATGGATGACCACTTTAG
2813531 TTCACTTTCATAGCGCATGGATGACCACTTTAG
1 TTCACTTTCATAGCGCATGGATGACCACTTTAG
2813564 TTC
1 TTC
2813567 TCTTAACCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (33 bp):
TTCACTTTCATAGCGCATGGATGACCACTTTAG
Found at i:2814632 original size:13 final size:13
Alignment explanation
Indices: 2814614--2814638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2814604 CAAGGTATAT
2814614 TGTATCGATACAA
1 TGTATCGATACAA
2814627 TGTATCGATACA
1 TGTATCGATACA
2814639 TGAAGAATTG
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:2819351 original size:97 final size:97
Alignment explanation
Indices: 2819177--2819368 Score: 246
Period size: 97 Copynumber: 2.0 Consensus size: 97
2819167 AATGTCTTTG
* ** *
2819177 ATGATGACAATTTAGACGAAAATAAGATTTAAATCTTGACGAGTTTAAAAGTGAGGTTGGAGTAT
1 ATGATGACAATTTAGACAAAAATAAGATTTAAATCTTGACGAGTTTAAAAAAGAGGTTGCAGTAT
**
2819242 CTCCCCAAAAGAATGGGGCTGGAGTATCCCTA
66 CTCCCCAAAAGAACAGGGCTGGAGTATCCCTA
*
2819274 ATGATGATAATTT-GAGCAAAAATAAGATTTAAATCTTGA-GAAGTTTAAAAAAGAGGTTGCAGT
1 ATGATGACAATTTAGA-CAAAAATAAGATTTAAATCTTGACG-AGTTTAAAAAAGAGGTTGCAGT
** *
2819337 ATC-CCCTCGGAAGAACAGGGTTGGAGTATCCC
64 ATCTCCC-CAAAAGAACAGGGCTGGAGTATCCC
2819369 CATGAGTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
96 6 0.07
97 76 0.93
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (97 bp):
ATGATGACAATTTAGACAAAAATAAGATTTAAATCTTGACGAGTTTAAAAAAGAGGTTGCAGTAT
CTCCCCAAAAGAACAGGGCTGGAGTATCCCTA
Found at i:2828125 original size:13 final size:13
Alignment explanation
Indices: 2828107--2828132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2828097 ACAAATATCG
2828107 ATGTATCGATACA
1 ATGTATCGATACA
2828120 ATGTATCGATACA
1 ATGTATCGATACA
2828133 CTTCCTTAAT
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:2828143 original size:21 final size:21
Alignment explanation
Indices: 2828119--2828160 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2828109 GTATCGATAC
2828119 AATGTATCGATACACTTCCTT
1 AATGTATCGATACACTTCCTT
*
2828140 AATGTATCGATACATTTCCTT
1 AATGTATCGATACACTTCCTT
2828161 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACACTTCCTT
Found at i:2828209 original size:19 final size:20
Alignment explanation
Indices: 2828185--2828238 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
2828175 AGCGATACAT
*
2828185 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGAA
**
2828204 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACTGAA
2828225 TGTATCGATACAAA
1 TGTATCGATACAAA
2828239 TTATTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAAAACTGAA
Found at i:2828760 original size:12 final size:12
Alignment explanation
Indices: 2828743--2828767 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2828733 ACATTTCATT
2828743 TTTCATCAAAAA
1 TTTCATCAAAAA
2828755 TTTCATCAAAAA
1 TTTCATCAAAAA
2828767 T
1 T
2828768 GTTTTAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCATCAAAAA
Found at i:2831067 original size:20 final size:19
Alignment explanation
Indices: 2831020--2831077 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
2831010 TTTGTATCGA
*
2831020 CACATTGTATCAATACATG
1 CACATTGTATCGATACATG
**
2831039 TTCATTGTATCGATACATG
1 CACATTGTATCGATACATG
*
2831058 CACAATTGTATGGATACATG
1 CAC-ATTGTATCGATACATG
2831078 AAACTAGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (19 bp):
CACATTGTATCGATACATG
Found at i:2831341 original size:52 final size:50
Alignment explanation
Indices: 2831272--2831461 Score: 232
Period size: 52 Copynumber: 3.9 Consensus size: 50
2831262 CGTCTTCTTC
* *
2831272 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* *
2831324 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* *
2831368 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
*
2831419 TAAGTCCTATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
2831462 CATCTTTAAC
Statistics
Matches: 118, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
43 36 0.31
46 2 0.02
47 2 0.02
50 2 0.02
52 76 0.64
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:2831436 original size:95 final size:95
Alignment explanation
Indices: 2831273--2831460 Score: 317
Period size: 95 Copynumber: 2.0 Consensus size: 95
2831263 GTCTTCTTCT
*
2831273 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
2831338 CTGGCCTTGAATCAGCACATTGGCACCTCC
66 CTGGCCTTGAATCAGCACATTGGCACCTCC
*
2831368 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTAAGTCCTATAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAGTCCAATAT
*
2831431 CGCTGGCCTTGAATCAGCACATTGGCACCT
64 AGCTGGCCTTGAATCAGCACATTGGCACCT
2831461 TCATCTTTAA
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
94 2 0.02
95 84 0.95
96 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCACCTCC
Found at i:2832206 original size:21 final size:21
Alignment explanation
Indices: 2832181--2832257 Score: 145
Period size: 21 Copynumber: 3.7 Consensus size: 21
2832171 TTTTGGTCCA
*
2832181 AATGTATCGATACATTATTAT
1 AATGTATCGATACATTGTTAT
2832202 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
2832223 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
2832244 AATGTATCGATACA
1 AATGTATCGATACA
2832258 AGGTCCCAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTGTTAT
Found at i:2832333 original size:13 final size:13
Alignment explanation
Indices: 2832315--2832339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2832305 CATAAAGTGT
2832315 TGTATCGATACAA
1 TGTATCGATACAA
2832328 TGTATCGATACA
1 TGTATCGATACA
2832340 TATTTTTTTG
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:2832337 original size:33 final size:33
Alignment explanation
Indices: 2832295--2832361 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2832285 TTCAACGATT
2832295 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2832328 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2832361 T
1 T
2832362 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2832420 original size:13 final size:13
Alignment explanation
Indices: 2832402--2832426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2832392 ATCACTTAAA
2832402 TGTATCGATACAT
1 TGTATCGATACAT
2832415 TGTATCGATACA
1 TGTATCGATACA
2832427 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:2832491 original size:52 final size:52
Alignment explanation
Indices: 2832435--2832563 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2832425 CACTGATCTT
* *
2832435 TGTATCGATACATGCAGACAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
2832487 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2832539 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2832564 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2836716 original size:10 final size:10
Alignment explanation
Indices: 2836701--2836727 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2836691 TGCTAACTAA
2836701 GTTTTTGTTT
1 GTTTTTGTTT
2836711 GTTTTTGTTT
1 GTTTTTGTTT
2836721 GTTTTTG
1 GTTTTTG
2836728 CTTAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:2846244 original size:1 final size:1
Alignment explanation
Indices: 2846240--2846297 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
2846230 TGTCCTCCAC
* * * * * *
2846240 AAAAAAAAAAACAAAACAAAACAAAAAAAAAACAAAAACAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2846298 GGGTCTGGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2846263 original size:22 final size:23
Alignment explanation
Indices: 2846238--2846295 Score: 84
Period size: 21 Copynumber: 2.6 Consensus size: 23
2846228 GGTGTCCTCC
2846238 ACAAAAAAAAAAAC-AAAACAAA
1 ACAAAAAAAAAAACAAAAACAAA
2846260 AC-AAAAAAAAAACAAAAACAAA
1 ACAAAAAAAAAAACAAAAACAAA
*
2846282 AAAAACAAAAAAAA
1 ACAAA-AAAAAAAA
2846296 AAGGGTCTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.34
22 11 0.34
23 2 0.06
24 8 0.25
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (23 bp):
ACAAAAAAAAAAACAAAAACAAA
Found at i:2846269 original size:26 final size:26
Alignment explanation
Indices: 2846240--2846297 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
2846230 TGTCCTCCAC
2846240 AAAAAA-AAAAACAAAACAAAACAAAA
1 AAAAAACAAAAACAAAA-AAAACAAAA
2846266 AAAAAACAAAAACAAAAAAAACAAAA
1 AAAAAACAAAAACAAAAAAAACAAAA
2846292 AAAAAA
1 AAAAAA
2846298 GGGTCTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAACAAAAACAAAAAAAACAAAA
Found at i:2847441 original size:12 final size:12
Alignment explanation
Indices: 2847424--2847453 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2847414 AAGAAGCCTA
2847424 TTATCAGGAACT
1 TTATCAGGAACT
2847436 TTATCAGGAACT
1 TTATCAGGAACT
*
2847448 TCATCA
1 TTATCA
2847454 AAGACTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (12 bp):
TTATCAGGAACT
Found at i:2847730 original size:30 final size:29
Alignment explanation
Indices: 2847674--2848089 Score: 277
Period size: 30 Copynumber: 13.9 Consensus size: 29
2847664 TCACCCTTCA
* *
2847674 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
2847703 AAAGCCCACAAGTTAGTGACACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* * *
2847732 AAAAGCCCACAAATCGGTGGCAACC--TTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
2847760 AAAGCCCATAAATCAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* * * *
2847789 TGAAGCCCACAAGTCGGTGGCATCTTTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTC
*
2847819 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTT-C
* * *
2847849 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTT-C
* * * *
2847878 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCAC-C-----CTTTTC
* * * * *
2847913 TAAGCTCACAACTCTA-TAGCACTCTTTTTCC
1 AAAGCCCACAAGTC-AGTGGCAC-CCTTTT-C
* *
2847944 TTTTAAGCCCACAAGTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
2847976 AAAAGCCCACAAGTTAGTGGCATCTCTTTTC
1 -AAAGCCCACAAGTCAGTGGCA-CCCTTTTC
* * *
2848007 AAAATCCCACAAGTCAGTGGCAACC-TTTA
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTC
** *
2848036 AAAGCCCACAAGTCAGTGGCAATC-TTTA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
2848064 AAAGACCACAAGTCAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGCACCCTT
2848090 CAAAAGCACA
Statistics
Matches: 310, Mismatches: 57, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
27 21 0.07
28 51 0.16
29 79 0.25
30 86 0.28
31 27 0.09
32 1 0.00
33 6 0.02
34 16 0.05
35 18 0.06
36 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTC
Found at i:2847735 original size:59 final size:59
Alignment explanation
Indices: 2847670--2848104 Score: 375
Period size: 59 Copynumber: 7.3 Consensus size: 59
2847660 TTCCTCACCC
* *
2847670 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTTAGTGACACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
* * * * * *
2847729 TTCAAAAGCCCACAAATCGGTGGCAAC--CTTCAAAGCCCATAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
** * *
2847786 TTCTGAAGCCCACAAGTCGGTGGCATCTTTTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
** * * * * * *
2847845 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTT
** * * * * *
2847905 TTCTTTTGTAAGCTCACAACTCTA-TAGCACTCTTTTTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 TTC----AAAAGCCCACAAGTC-AGTGGCA-TCTTTTT-C---AAAGCCCACAAGTCAGTGGCAC
2847969 CCTT
56 CCTT
* * *
2847973 TTCAAAAGCCCACAAGTTAGTGGCATCTCTTTTCAAAATCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCATCT-TTTTC-AAAGCCCACAAGTCAGTGGCACCCTT
* * *
2848033 TT-AAAAGCCCACAAGTCAGTGGCAATC--TTTAAAAGACCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGC-ATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
*
2848088 TTCAAAAGCACACAAGT
1 TTCAAAAGCCCACAAGT
2848105 TGATGCAATC
Statistics
Matches: 310, Mismatches: 49, Indels: 37
0.78 0.12 0.09
Matches are distributed among these distances:
55 2 0.01
56 35 0.11
57 51 0.16
59 122 0.39
60 12 0.04
61 20 0.06
63 5 0.02
64 33 0.11
65 6 0.02
66 1 0.00
68 6 0.02
69 17 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (59 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:2847924 original size:35 final size:34
Alignment explanation
Indices: 2847883--2847957 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 34
2847873 TTTCCAAAGT
* * *
2847883 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTT-TAAGC
* *
2847918 TCACAACTCTATAGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
2847952 CCACAA
1 CCACAA
2847958 GTTAGTGGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 10 0.29
35 24 0.71
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (34 bp):
CCACAACTCCATAGCACTCTTTTTCCTTTTAAGC
Found at i:2848047 original size:28 final size:29
Alignment explanation
Indices: 2847948--2848130 Score: 196
Period size: 28 Copynumber: 6.3 Consensus size: 29
2847938 TTTTCCTTTT
* *
2847948 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTT-AA
* *
2847978 AAGCCCACAAGTTAGTGGCATCTCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAAC-CTTTT-AA
*
2848009 AATCCCACAAGTCAGTGGCAACC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
*
2848037 AAGCCCACAAGTCAGTGGCAATC-TTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* *
2848065 AAGACCACAAGTCAGTGGCAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTTAA
* *
2848093 AAGCACACAAGT-TGAT-GCAATCCTTTTAA
1 AAGCCCACAAGTCAG-TGGCAA-CCTTTTAA
2848122 AAGCCCACA
1 AAGCCCACA
2848131 CAAGTTGGTG
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.04
28 66 0.49
29 15 0.11
30 22 0.16
31 27 0.20
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTTAA
Found at i:2848225 original size:52 final size:50
Alignment explanation
Indices: 2848152--2848341 Score: 214
Period size: 52 Copynumber: 3.9 Consensus size: 50
2848142 CGTCTTCTTC
* *
2848152 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTT-GTACC-T
* * *
2848204 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACC----T-CC-
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
* *
2848248 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGT-A-CCT
* *
2848299 TAAGTCCTATATCGCTGGCCTTAAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
2848342 CATCTTTAAC
Statistics
Matches: 115, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
43 35 0.30
46 2 0.02
47 2 0.02
50 2 0.02
52 74 0.64
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (50 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTACCT
Found at i:2848320 original size:95 final size:95
Alignment explanation
Indices: 2848153--2848340 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
2848143 GTCTTCTTCT
*
2848153 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATGTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
*
2848218 CTAGCCTTGAATCAGCACATTGGCACCTCC
66 CTAGCCTTAAATCAGCACATTGGCACCTCC
*
2848248 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTT-GTCATCC-TTAAGTCCTATAT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGT-A-CCTTTAAGTCCAATAT
* *
2848311 CGCTGGCCTTAAATCAGCACATTGGCACCT
64 AGCTAGCCTTAAATCAGCACATTGGCACCT
2848341 TCATCTTTAA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 2 0.02
95 82 0.95
96 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (95 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGTACCTTTAAGTCCAATATAG
CTAGCCTTAAATCAGCACATTGGCACCTCC
Found at i:2849086 original size:21 final size:21
Alignment explanation
Indices: 2849061--2849116 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
2849051 TTTTGGTCCA
2849061 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
2849082 AATGTATCGATACATTGTTAT
1 AATGTATCGATACATTGTTAT
2849103 AATGTATCGATACA
1 AATGTATCGATACA
2849117 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTGTTAT
Found at i:2849192 original size:13 final size:13
Alignment explanation
Indices: 2849174--2849198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2849164 CATAAAGTGT
2849174 TGTATCGATACAA
1 TGTATCGATACAA
2849187 TGTATCGATACA
1 TGTATCGATACA
2849199 TATTTTTTTG
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:2849196 original size:33 final size:33
Alignment explanation
Indices: 2849154--2849220 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2849144 TTCAACGATT
2849154 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2849187 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2849220 T
1 T
2849221 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2849323 original size:52 final size:51
Alignment explanation
Indices: 2849260--2849409 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
2849250 CATCACTTAA
** * *
2849260 ATGTATCGATACACTGATCTTTATATCGATACATGCAGACAAATTTGCCCAG
1 ATGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
2849312 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAG
2849364 ATGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
2849410 TCATATTTCG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.97
53 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:2852486 original size:13 final size:13
Alignment explanation
Indices: 2852468--2852492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2852458 TGTTACGACA
2852468 GTATCGATACATT
1 GTATCGATACATT
2852481 GTATCGATACAT
1 GTATCGATACAT
2852493 GAATAATTGT
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):
GTATCGATACATT
Found at i:2852571 original size:19 final size:20
Alignment explanation
Indices: 2852547--2852584 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2852537 ATAATTTCAA
*
2852547 ATGAA-TGTCTCGATACATT
1 ATGAATTGTATCGATACATT
2852566 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
2852585 AGCAACAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:2853904 original size:28 final size:27
Alignment explanation
Indices: 2853840--2853896 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
2853830 ATAGGAATAT
*
2853840 AAAAGGTTTAAAAAATAATAGATGTTG
1 AAAAGATTTAAAAAATAATAGATGTTG
*
2853867 AAAAGATTTAAAAAATAATCGATGTTG
1 AAAAGATTTAAAAAATAATAGATGTTG
2853894 AAA
1 AAA
2853897 TATCTTTACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.16, T:0.28
Consensus pattern (27 bp):
AAAAGATTTAAAAAATAATAGATGTTG
Found at i:2854702 original size:13 final size:12
Alignment explanation
Indices: 2854680--2854727 Score: 55
Period size: 11 Copynumber: 4.1 Consensus size: 12
2854670 TTTTTCATTA
*
2854680 TTTTTCTCT-TA
1 TTTTTCTCTCTT
2854691 TTTTTCTCTC-T
1 TTTTTCTCTCTT
2854702 TTTTTCTCTCTT
1 TTTTTCTCTCTT
*
2854714 TTTCTCCTCTCTT
1 TTT-TTCTCTCTT
2854727 T
1 T
2854728 GCTAGCTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 19 0.59
12 4 0.12
13 9 0.28
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTCTCTCTT
Found at i:2855291 original size:166 final size:166
Alignment explanation
Indices: 2855094--2855482 Score: 393
Period size: 165 Copynumber: 2.4 Consensus size: 166
2855084 TTATGGAAGT
* * ** * *
2855094 TAAATAAAAATA-TTGTATGAGTTTTAAAAATTTTAAACCGAGAAAAATCCCCCT-AAAAAGATT
1 TAAATAATAATATTTG-ATGAATTTTAAAAATTAAAAACAGAGAAAAATCCCCCTCAAAAAAATT
* ** * * * * *
2855157 TACGGAGAACAAAACT-TGGTTTCTTAGAAAAAAAAGGAATTTCAACAAAAAAATCCAAAACTT-
65 TACGAAGAACAAAA-TACCGTAT-TT-CAAAAAAAAGAAATTTCAACAAAAAAAT-AAAAAATTC
* * *
2855220 ATAAAAATG-ATTAATTTTTTAAAACT-AAATTACTATG-AA
126 ATAAAAATGAATGAATTTTTGAAAA-TGAAATTAATATGAAA
* * *
2855259 TCAAATAATGATATTTGATGAATTTTAAAAATTGAAAACAGAGAAAAAT-CCTCTCAAAAAAATT
1 T-AAATAATAATATTTGATGAATTTTAAAAATTAAAAACAGAGAAAAATCCCCCTCAAAAAAATT
* * *
2855323 TACGAAGTAGAAAATACCGTATTTCAAAAAAAAGAAATTTCAAGAAAAAAATAAAAAATTCATAA
65 TACGAAGAACAAAATACCGTATTTCAAAAAAAAGAAATTTCAACAAAAAAATAAAAAATTCATAA
* *
2855388 GAATGAATGAATTTTTGAAAATGCAATTAATATGAAA
130 AAATGAATGAATTTTTGAAAATGAAATTAATATGAAA
* *
2855425 TAAATGATAATATTTGATGAATTTTAAAAATTAAAAACTA-AGAAAAAT-CCACTCAAAA
1 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAAC-AGAGAAAAATCCCCCTCAAAA
2855483 GTGAATTAAT
Statistics
Matches: 187, Mismatches: 28, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
163 6 0.03
164 34 0.18
165 81 0.43
166 63 0.34
167 3 0.02
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (166 bp):
TAAATAATAATATTTGATGAATTTTAAAAATTAAAAACAGAGAAAAATCCCCCTCAAAAAAATTT
ACGAAGAACAAAATACCGTATTTCAAAAAAAAGAAATTTCAACAAAAAAATAAAAAATTCATAAA
AATGAATGAATTTTTGAAAATGAAATTAATATGAAA
Found at i:2855448 original size:165 final size:164
Alignment explanation
Indices: 2855184--2855482 Score: 408
Period size: 165 Copynumber: 1.8 Consensus size: 164
2855174 GGTTTCTTAG
* * * * *
2855184 AAAAAAAAGGAATTTCAACAAAAAAATCCAAAACTTATAAAAATGATTAATTTTTTAAAACTAAA
1 AAAAAAAAGAAATTTCAACAAAAAAATCAAAAAATTATAAAAATGATGAATTTTTGAAAACTAAA
* * * *
2855249 TTACTATGAATCAAATAATGATATTTGATGAATTTTAAAAATTGAAAAC-AGAGAAAAATCCTCT
66 TTAATATGAATCAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTA-AGAAAAATCCACT
2855313 CAAAAAAATTTACGAAGTAGAAAATACCGTATTTC
130 CAAAAAAATTTACGAAGTAGAAAATACCGTATTTC
* *
2855348 AAAAAAAAGAAATTTCAAGAAAAAAAT-AAAAAATTCATAAGAATGAATGAATTTTTGAAAA-TG
1 AAAAAAAAGAAATTTCAACAAAAAAATCAAAAAATT-ATAAAAATG-ATGAATTTTTGAAAACT-
* *
2855411 CAATTAATATGAAAT-AAATGATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCC
63 AAATTAATATG-AATCAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCC
2855475 ACTCAAAA
127 ACTCAAAA
2855483 GTGAATTAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
163 6 0.05
164 34 0.29
165 73 0.62
166 4 0.03
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (164 bp):
AAAAAAAAGAAATTTCAACAAAAAAATCAAAAAATTATAAAAATGATGAATTTTTGAAAACTAAA
TTAATATGAATCAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCACTC
AAAAAAATTTACGAAGTAGAAAATACCGTATTTC
Found at i:2855558 original size:35 final size:35
Alignment explanation
Indices: 2855509--2855577 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
2855499 AAACTAAATT
* *
2855509 AATGTATCTTAGAAAATGGAGAATTTCCAGAAAAC
1 AATGTATCTTAGAAAAAGGAGAATTTCCAAAAAAC
2855544 AATGTAT-TTCAGAAAAAGGAGAATTTCCAAAAAA
1 AATGTATCTT-AGAAAAAGGAGAATTTCCAAAAAA
2855578 AAAAAACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (35 bp):
AATGTATCTTAGAAAAAGGAGAATTTCCAAAAAAC
Found at i:2857513 original size:44 final size:44
Alignment explanation
Indices: 2857240--2857620 Score: 331
Period size: 44 Copynumber: 8.4 Consensus size: 44
2857230 TCATCGGGTA
* *
2857240 AAGACGAAAGGAGTTTGACTAGGACTAATGCCAATATAGTCAAAC
1 AAGA-GAAAAGAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
* * * * *
2857285 AACGATGAAAACAAAAGTTTAACCAGGTCCTAATGCCAATACGGTCAAAC
1 AA-GA-G--AA-AAGAGTTTGACTAGG-ACTAATGCCAATACAGTCAAAC
* ** *
2857335 AAGGGTAAAAGGAGTTTGACTAGGAAAAATGCCAATACAATCAAAC
1 AAGAG-AAAA-GAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
* * *
2857381 GAA-AGAAAAGAGTTTGACTAGG-GTAATGCTAATATAGTCAAAC
1 -AAGAGAAAAGAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
* ** *
2857424 AAGAGTGAAAAAGAGAGTTTGACCAAGTCCT-ATGCAAATACAGTCAAAC
1 AAGA--G--AAA-AGAGTTTGA-CTAGGACTAATGCCAATACAGTCAAAC
* *
2857473 GAA-AGAAAAGATTTTGACTAGGACTAATGCCAATATAGTCAAAC
1 -AAGAGAAAAGAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
* * *
2857517 GAGAGAAAAGAGTTTGACCAGGATTAATGCCAATACAGTCAAAC
1 AAGAGAAAAGAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
* *
2857561 GAA-AGAAAAGAGTTTGACCAGGACTAATGCCAATACAGTTAAAC
1 -AAGAGAAAAGAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
*
2857605 AAGAGAAAATAGTTTG
1 AAGAGAAAAGAGTTTG
2857621 TTTGGTAAGA
Statistics
Matches: 272, Mismatches: 44, Indels: 41
0.76 0.12 0.11
Matches are distributed among these distances:
42 2 0.01
43 25 0.09
44 125 0.46
45 11 0.04
46 23 0.08
47 18 0.07
48 12 0.04
49 32 0.12
50 24 0.09
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.20
Consensus pattern (44 bp):
AAGAGAAAAGAGTTTGACTAGGACTAATGCCAATACAGTCAAAC
Found at i:2857528 original size:136 final size:140
Alignment explanation
Indices: 2857245--2857560 Score: 394
Period size: 136 Copynumber: 2.3 Consensus size: 140
2857235 GGGTAAAGAC
*
2857245 GAAAGGAGTTTGACTAGGACTAATGCCAATATAGTCAAACAACGATGAAAACAAAAGTTTAACCA
1 GAAAAGAGTTTGACTAGGACTAATGCCAATATAGTCAAACAACGATGAAAACAAAAGTTTAACCA
* * * *
2857310 GGTCCTAATGCCAATACGGTCAAACAAGGGTAAAAGGAGTTTGACTAGGAAAAATGCCAATACAA
66 AGTCCTAATGCAAATACAGTCAAACAAGAGTAAAAGGAGTTTGACTAGGAAAAATGCCAATACAA
2857375 TCAAACGAAA
131 TCAAACGAAA
* * * *
2857385 GAAAAGAGTTTGACTAGG-GTAATGCTAATATAGTCAAACAA-GAGTGAAAA-AGAGAGTTTGAC
1 GAAAAGAGTTTGACTAGGACTAATGCCAATATAGTCAAACAACGA-TGAAAACA-AAAGTTTAAC
* **
2857447 CAAGTCCT-ATGCAAATACAGTCAAACGAA-AG-AAAA-GATTTTGACTAGGACTAATGCCAATA
64 CAAGTCCTAATGCAAATACAGTCAAAC-AAGAGTAAAAGGAGTTTGACTAGGAAAAATGCCAATA
* * *
2857508 TAGTCAAACGAGA
128 CAATCAAACGAAA
* * *
2857521 GAAAAGAGTTTGACCAGGATTAATGCCAATACAGTCAAAC
1 GAAAAGAGTTTGACTAGGACTAATGCCAATATAGTCAAAC
2857561 GAAAGAAAAG
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
136 50 0.33
137 22 0.14
138 20 0.13
139 44 0.29
140 17 0.11
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (140 bp):
GAAAAGAGTTTGACTAGGACTAATGCCAATATAGTCAAACAACGATGAAAACAAAAGTTTAACCA
AGTCCTAATGCAAATACAGTCAAACAAGAGTAAAAGGAGTTTGACTAGGAAAAATGCCAATACAA
TCAAACGAAA
Found at i:2859632 original size:10 final size:10
Alignment explanation
Indices: 2859619--2859688 Score: 70
Period size: 12 Copynumber: 6.6 Consensus size: 10
2859609 AATTTTTCAA
2859619 TTTTTTT-TT
1 TTTTTTTCTT
* *
2859628 GTTTTTACCTT
1 TTTTTTTC-TT
2859639 TTTTTCTTCTT
1 TTTTT-TTCTT
2859650 CTTTTTTTCTCT
1 -TTTTTTTCT-T
2859662 TCTTTTTTCTT
1 T-TTTTTTCTT
2859673 TTTTTTTCTT
1 TTTTTTTCTT
2859683 TTTTTT
1 TTTTTT
2859689 CAAAGAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 5 0.10
10 15 0.29
11 15 0.29
12 16 0.31
ACGTcount: A:0.01, C:0.14, G:0.01, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:2859653 original size:14 final size:13
Alignment explanation
Indices: 2859636--2859669 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
2859626 TTGTTTTTAC
2859636 CTTTTTTTCTTCTT
1 CTTTTTTTC-TCTT
2859650 CTTTTTTTCTCTT
1 CTTTTTTTCTCTT
2859663 CTTTTTT
1 CTTTTTT
2859670 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTTTTTCTCTT
Found at i:2859673 original size:20 final size:19
Alignment explanation
Indices: 2859648--2859689 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
2859638 TTTTTTCTTC
2859648 TTCTTTTTTTCTCTTCTTTT
1 TTCTTTTTTTCTCTT-TTTT
*
2859668 TTCTTTTTTTTTCTTTTTT
1 TTCTTTTTTTCTCTTTTTT
2859687 TTC
1 TTC
2859690 AAAGAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTCTTTTTTTCTCTTTTTT
Found at i:2863298 original size:39 final size:35
Alignment explanation
Indices: 2863195--2863348 Score: 160
Period size: 33 Copynumber: 4.5 Consensus size: 35
2863185 CTAGCTAGTG
2863195 CTCCGTGGCACTCTTTT-CTTTTTAAAGCCCACAA
1 CTCCGTGGCACTCTTTTCCTTTTTAAAGCCCACAA
* *
2863229 CTACGTGGCACTCTTTTCC-TTCT-AAGCCCACAA
1 CTCCGTGGCACTCTTTTCCTTTTTAAAGCCCACAA
2863262 CTCCGTGGCACTCTTTTTTTTCCTTTTTAAAGCCCACAA
1 CTCCGTGGCACTC----TTTTCCTTTTTAAAGCCCACAA
* *
2863301 CTCTGTGGCAC-CTTGTTCC-TTTT-AAGTCCACAA
1 CTCCGTGGCACTCTT-TTCCTTTTTAAAGCCCACAA
* *
2863334 CTTCGTGACA-TCTTT
1 CTCCGTGGCACTCTTT
2863349 CACCCTCTCT
Statistics
Matches: 102, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
32 1 0.01
33 41 0.40
34 25 0.25
35 5 0.05
37 6 0.06
38 4 0.04
39 20 0.20
ACGTcount: A:0.19, C:0.32, G:0.12, T:0.37
Consensus pattern (35 bp):
CTCCGTGGCACTCTTTTCCTTTTTAAAGCCCACAA
Found at i:2863300 original size:72 final size:70
Alignment explanation
Indices: 2863208--2863348 Score: 196
Period size: 72 Copynumber: 2.0 Consensus size: 70
2863198 CGTGGCACTC
*
2863208 TTTTCTTTTTAAAGCCCACAACTAC-GTGGCACTCTT-TTCCTTCTAAGCCCACAACTCCGTGGC
1 TTTTCTTTTTAAAGCCCACAACT-CTGTGGCAC-CTTGTTCCTTCTAAGCCCACAACTCCGTGAC
2863271 ACTCTTTT
64 A-TCTTTT
* * *
2863279 TTTTCCTTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGACA
1 TTTT-CTTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTCTAAGCCCACAACTCCGTGACA
2863344 TCTTT
65 TCTTT
2863349 CACCCTCTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
71 13 0.21
72 50 0.79
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.38
Consensus pattern (70 bp):
TTTTCTTTTTAAAGCCCACAACTCTGTGGCACCTTGTTCCTTCTAAGCCCACAACTCCGTGACAT
CTTTT
Found at i:2863392 original size:34 final size:31
Alignment explanation
Indices: 2863350--2863489 Score: 180
Period size: 34 Copynumber: 4.5 Consensus size: 31
2863340 GACATCTTTC
2863350 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTCTC-AAAGCCCACACAAGTCGGTGGC-A
*
2863383 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TCTC-AAAGCCCACACAAGTCGGTGGCA
* *
2863416 ACCCCCTCAAAGCCCACACAAGTTGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
2863447 A-CC-C-CAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
*
2863475 ACCC-CTCTAAGCCCA
1 ACCCTCTCAAAGCCCA
2863490 ATATAGCTGG
Statistics
Matches: 100, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
28 24 0.24
29 4 0.04
30 10 0.10
31 24 0.24
32 3 0.03
33 9 0.09
34 26 0.26
ACGTcount: A:0.29, C:0.39, G:0.18, T:0.14
Consensus pattern (31 bp):
ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:2863600 original size:49 final size:49
Alignment explanation
Indices: 2863482--2864598 Score: 1703
Period size: 49 Copynumber: 22.7 Consensus size: 49
2863472 GCAACCCCTC
* * * *
2863482 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
2863534 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2863583 TAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
2863635 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2863684 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2863733 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2863782 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2863831 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2863880 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * * *
2863929 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2863978 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2864027 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
2864076 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
*
2864128 TAAGTCCAATGTAGTTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2864177 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
2864226 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
2864274 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2864323 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
2864371 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
2864420 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
2864468 TAAATCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * * *
2864511 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC--TT-CATCTT
* *
2864563 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTG
2864599 ACATCCTTTT
Statistics
Matches: 985, Mismatches: 63, Indels: 34
0.91 0.06 0.03
Matches are distributed among these distances:
43 37 0.04
45 1 0.00
48 133 0.14
49 645 0.65
50 7 0.01
51 4 0.00
52 158 0.16
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:2864526 original size:43 final size:43
Alignment explanation
Indices: 2864414--2864554 Score: 174
Period size: 43 Copynumber: 3.2 Consensus size: 43
2864404 TTGGCACCTT
* *
2864414 CACCATTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* *
2864457 CACCTCACCTTTAAATCCAATGTAGCTAGCCTTGAATCAGCACATTGG
1 -----CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * *
2864505 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGG
1 CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
2864548 CACCTTT
1 CACCTTT
2864555 TCCATCTTTA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
43 45 0.54
48 39 0.46
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (43 bp):
CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:2864638 original size:56 final size:52
Alignment explanation
Indices: 2864508--2864646 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
2864498 ACATTGGCAC
* *
2864508 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
2864560 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
2864616 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
2864647 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:2865492 original size:33 final size:33
Alignment explanation
Indices: 2865455--2865521 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2865445 TTCAACGATT
2865455 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2865488 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2865521 T
1 T
2865522 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2865493 original size:13 final size:13
Alignment explanation
Indices: 2865475--2865499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2865465 CATAAAATGT
2865475 TGTATCGATACAA
1 TGTATCGATACAA
2865488 TGTATCGATACA
1 TGTATCGATACA
2865500 TATTTTTTTG
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:2865675 original size:52 final size:52
Alignment explanation
Indices: 2865561--2865709 Score: 225
Period size: 52 Copynumber: 2.9 Consensus size: 52
2865551 CATTACTCAA
*
2865561 ATGTATCGATACACTGATCT--TTGTATCGATACATGCAGGC-AATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
2865612 ATGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATT-AAATGTATCGATACATGCAGGCAAATTTGCCCAG
2865664 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
2865710 TCATATTTCG
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 32 0.36
52 52 0.58
53 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:2867178 original size:28 final size:28
Alignment explanation
Indices: 2867097--2867178 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2867087 TTTTGGAGAT
*
2867097 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2867125 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2867153 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2867179 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2867321 original size:51 final size:51
Alignment explanation
Indices: 2867161--2867331 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2867151 GAAATAACGA
* * *
2867161 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2867213 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2867266 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2867317 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2867332 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2867377 original size:27 final size:28
Alignment explanation
Indices: 2867314--2867389 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
2867304 AAAATAAAGT
*
2867314 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2867342 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2867369 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2867390 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2869871 original size:13 final size:13
Alignment explanation
Indices: 2869853--2869878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2869843 ACAAAGATCC
2869853 ATGTATCGATACA
1 ATGTATCGATACA
2869866 ATGTATCGATACA
1 ATGTATCGATACA
2869879 CAGAAAAATG
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:2869874 original size:33 final size:33
Alignment explanation
Indices: 2869832--2869898 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2869822 AAAATTTCCA
***
2869832 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2869865 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2869898 A
1 A
2869899 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2869942 original size:19 final size:18
Alignment explanation
Indices: 2869918--2869985 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
2869908 CAGTAGCTAA
2869918 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2869937 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2869952 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
2869969 TTATGTGTCGATACAAA
1 TTATGTATCGATACAAA
2869986 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2869958 original size:13 final size:13
Alignment explanation
Indices: 2869940--2869964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2869930 ACAATACTTA
2869940 TGTATCGATACAT
1 TGTATCGATACAT
2869953 TGTATCGATACA
1 TGTATCGATACA
2869965 AAACTTATGT
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:2869962 original size:32 final size:32
Alignment explanation
Indices: 2869921--2869983 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2869911 TAGCTAATTA
*
2869921 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
2869953 TGTATCGATACAAAACTTATGTGTCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2869984 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2870785 original size:55 final size:55
Alignment explanation
Indices: 2870699--2871532 Score: 1231
Period size: 55 Copynumber: 15.2 Consensus size: 55
2870689 ATCTTTCTCA
* * * * * *
2870699 TTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGACAGGCGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
2870754 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
* ** * *
2870809 TTGGGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
**
2870864 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * *
2870919 TCGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
2870974 TTGAGGACT-AGAGGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGG-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* * *
2871029 TTGGGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
2871084 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCG
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
* *
2871139 TTGAGGACTGGAAA-ATGCCACCAACTTGTATGGGCTTTGAAAGGTGTCCTGCTCT
1 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
2871194 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
2871249 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
*
2871304 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
* *
2871359 TTGAGAACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
2871414 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
*
2871469 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGACGTGTCCTGCTCT
1 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCT
2871524 TTGAGGACT
1 TTGAGGACT
2871533 AAAAAACGGA
Statistics
Matches: 732, Mismatches: 38, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
54 12 0.02
55 709 0.97
56 11 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (55 bp):
TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
Found at i:2871100 original size:26 final size:26
Alignment explanation
Indices: 2871011--2871100 Score: 65
Period size: 26 Copynumber: 3.3 Consensus size: 26
2871001 GTGTGGGCTT
*
2871011 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
* ** * * *
2871037 TGGAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
*
2871064 TTTGAGAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
2871092 TGAAAGGTG
1 TGAAAGGTG
2871101 CCACCAACTT
Statistics
Matches: 45, Mismatches: 14, Indels: 10
0.65 0.20 0.14
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 5 0.11
28 5 0.11
29 10 0.22
30 3 0.07
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:2871207 original size:27 final size:27
Alignment explanation
Indices: 2871177--2871317 Score: 74
Period size: 27 Copynumber: 5.1 Consensus size: 27
2871167 TATGGGCTTT
2871177 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
2871204 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
2871232 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
2871259 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
2871287 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
2871314 GAAA
1 GAAA
2871318 ATGCCACCAA
Statistics
Matches: 76, Mismatches: 28, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 10 0.13
27 24 0.32
28 20 0.26
29 10 0.13
30 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:2871485 original size:26 final size:26
Alignment explanation
Indices: 2871400--2871485 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
2871390 GGGCTTTAAG
2871400 AGGTGTCCTGCTCTTTGAGGACTGAA
1 AGGTGTCCTGCTCTTTGAGGACTGAA
** * * * *
2871426 AGGTG-CCACCAACTTGTGTGGGCTTTAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGAA
2871454 GAGGTGTCCTGCTCTTTGAGGACTGAA
1 -AGGTGTCCTGCTCTTTGAGGACTGAA
2871481 AGGTG
1 AGGTG
2871486 CCACCAACTT
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 13 0.30
27 8 0.19
28 8 0.19
29 8 0.19
30 3 0.07
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGAGGACTGAA
Found at i:2872541 original size:13 final size:14
Alignment explanation
Indices: 2872517--2872582 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
2872507 CTTTTCTCTC
*
2872517 TTTTTCTTTG-TTT
1 TTTTTTTTTGCTTT
* *
2872530 TGTTTTTTTGTTTT
1 TTTTTTTTTGCTTT
2872544 TTTTTTTTTGCTTT
1 TTTTTTTTTGCTTT
*
2872558 TTTTTTTTTGCTCCT
1 TTTTTTTTTGCT-TT
2872573 TTTTTTTTTG
1 TTTTTTTTTG
2872583 AAGAGAAGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.17
14 27 0.59
15 11 0.24
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGCTTT
Found at i:2872574 original size:17 final size:15
Alignment explanation
Indices: 2872517--2872581 Score: 60
Period size: 15 Copynumber: 4.1 Consensus size: 15
2872507 CTTTTCTCTC
2872517 TTTTT-CTTTGTTTTGT
1 TTTTTCCTTT-TTTT-T
**
2872533 TTTTTTGTTTTTTTT
1 TTTTTCCTTTTTTTT
*
2872548 TTTTTGCTTTTTTTT
1 TTTTTCCTTTTTTTT
2872563 TTTTGCTCCTTTTTTTT
1 TTTT--TCCTTTTTTTT
2872580 TT
1 TT
2872582 GAAGAGAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
15 18 0.43
16 9 0.21
17 15 0.36
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (15 bp):
TTTTTCCTTTTTTTT
Found at i:2872575 original size:15 final size:14
Alignment explanation
Indices: 2872500--2872582 Score: 73
Period size: 14 Copynumber: 5.9 Consensus size: 14
2872490 TTAAGTAGGT
*
2872500 TCTTTTTCTTTT-C
1 TCTTTTTTTTTTGC
*
2872513 TCTCTTTTTCTTTG-
1 TCT-TTTTTTTTTGC
*
2872527 T-TTTGTTTTTTTGT
1 TCTTT-TTTTTTTGC
*
2872541 TTTTTTTTTTTTGC
1 TCTTTTTTTTTTGC
*
2872555 TTTTTTTTTTTTGC
1 TCTTTTTTTTTTGC
2872569 TCCTTTTTTTTTTG
1 T-CTTTTTTTTTTG
2872583 AAGAGAAGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
12 2 0.03
13 11 0.19
14 32 0.54
15 14 0.24
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (14 bp):
TCTTTTTTTTTTGC
Found at i:2880448 original size:8 final size:8
Alignment explanation
Indices: 2880435--2880464 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
2880425 AAACACATGA
2880435 AAAAAAAG
1 AAAAAAAG
2880443 AAAAAAAG
1 AAAAAAAG
2880451 AAAAAAA-
1 AAAAAAAG
2880458 AAAAAAA
1 AAAAAAA
2880465 TTGGGTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2880455 original size:17 final size:16
Alignment explanation
Indices: 2880433--2880464 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
2880423 TGAAACACAT
2880433 GAAAAAAAAGAAAAAAA
1 GAAAAAAAA-AAAAAAA
2880450 GAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAA
2880465 TTGGGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAA
Found at i:2880456 original size:16 final size:15
Alignment explanation
Indices: 2880435--2880464 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2880425 AAACACATGA
2880435 AAAAAAAGAAAAAAAG
1 AAAAAAA-AAAAAAAG
2880451 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
2880465 TTGGGTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:2884414 original size:33 final size:33
Alignment explanation
Indices: 2884377--2884443 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2884367 TTCAACGATT
2884377 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2884410 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2884443 T
1 T
2884444 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2884415 original size:13 final size:13
Alignment explanation
Indices: 2884397--2884421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2884387 CATAAAATGT
2884397 TGTATCGATACAA
1 TGTATCGATACAA
2884410 TGTATCGATACA
1 TGTATCGATACA
2884422 TATTTTTTTG
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:2884597 original size:52 final size:52
Alignment explanation
Indices: 2884483--2884631 Score: 225
Period size: 52 Copynumber: 2.9 Consensus size: 52
2884473 CATTACTCAA
*
2884483 ATGTATCGATACACTGATCT--TTGTATCGATACATGCAGGC-AATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
2884534 ATGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATT-AAATGTATCGATACATGCAGGCAAATTTGCCCAG
2884586 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
2884632 TCATATTTCG
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 32 0.36
52 52 0.58
53 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:2886100 original size:28 final size:28
Alignment explanation
Indices: 2886019--2886100 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2886009 TTTTGGAGAT
*
2886019 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2886047 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2886075 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2886101 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2886243 original size:51 final size:51
Alignment explanation
Indices: 2886083--2886253 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2886073 GAAATAACGA
* * *
2886083 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2886135 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2886188 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2886239 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2886254 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2886299 original size:27 final size:28
Alignment explanation
Indices: 2886236--2886311 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
2886226 AAAATAAAGT
*
2886236 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2886264 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2886291 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2886312 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2888792 original size:13 final size:13
Alignment explanation
Indices: 2888774--2888799 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2888764 ACAAAGATCC
2888774 ATGTATCGATACA
1 ATGTATCGATACA
2888787 ATGTATCGATACA
1 ATGTATCGATACA
2888800 CAGAAAAATG
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:2888795 original size:33 final size:33
Alignment explanation
Indices: 2888753--2888819 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2888743 AAAATTTCCA
***
2888753 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2888786 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2888819 A
1 A
2888820 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2888863 original size:19 final size:18
Alignment explanation
Indices: 2888839--2888906 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
2888829 CAGTAGCTAA
2888839 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2888858 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2888873 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
2888890 TTATGTGTCGATACAAA
1 TTATGTATCGATACAAA
2888907 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2888879 original size:13 final size:13
Alignment explanation
Indices: 2888861--2888885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2888851 ACAATACTTA
2888861 TGTATCGATACAT
1 TGTATCGATACAT
2888874 TGTATCGATACA
1 TGTATCGATACA
2888886 AAACTTATGT
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:2888883 original size:32 final size:32
Alignment explanation
Indices: 2888842--2888904 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2888832 TAGCTAATTA
*
2888842 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
2888874 TGTATCGATACAAAACTTATGTGTCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2888905 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2888986 original size:21 final size:21
Alignment explanation
Indices: 2888962--2889018 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
2888952 CATTTGTAGG
* *
2888962 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCAAAAA
2888983 ATGTATCGATACATTCAAAAA
1 ATGTATCGATACATTCAAAAA
2889004 ATGTATCGATACATT
1 ATGTATCGATACATT
2889019 TAAATATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCAAAAA
Found at i:2895877 original size:13 final size:13
Alignment explanation
Indices: 2895837--2895886 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
2895827 CCGTTATAAG
2895837 CAATGTATCGATA
1 CAATGTATCGATA
2895850 CAA--T-TC-AT-
1 CAATGTATCGATA
2895858 C-ATGTATCGATA
1 CAATGTATCGATA
2895870 CAATGTATCGATA
1 CAATGTATCGATA
2895883 CAAT
1 CAAT
2895887 ATACCATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.13
11 3 0.10
12 1 0.03
13 18 0.58
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2895978 original size:19 final size:20
Alignment explanation
Indices: 2895934--2895987 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
2895924 CTGCCAGTTT
**
2895934 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
2895954 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2895973 CATGTATCGATACAA
1 CATGTATCGATACAA
2895988 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2896605 original size:22 final size:22
Alignment explanation
Indices: 2896580--2896621 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2896570 AGATAAACAT
2896580 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
2896602 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
2896622 TATCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:2904103 original size:20 final size:20
Alignment explanation
Indices: 2904078--2904131 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2904068 GTTATAAGCA
*
2904078 ATGTATTGATACAAT-TCATC
1 ATGTATTGATACAATGT-ACC
2904098 ATGTATTGATACAATGTACC
1 ATGTATTGATACAATGTACC
*
2904118 ATGTATCGATACAA
1 ATGTATTGATACAA
2904132 ATAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATTGATACAATGTACC
Found at i:2904218 original size:13 final size:13
Alignment explanation
Indices: 2904200--2904226 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2904190 TACAATAAAC
2904200 ATGTATCGATACA
1 ATGTATCGATACA
2904213 ATGTATCGATACA
1 ATGTATCGATACA
2904226 A
1 A
2904227 AGCATAATGT
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:2905191 original size:22 final size:21
Alignment explanation
Indices: 2905142--2905196 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
2905132 TTCAATATCT
*
2905142 ATAAATGTTTTAGAGTTATGA
1 ATAAATGTTTTTGAGTTATGA
2905163 ATAAATGTTTTTGAGCTT-TGA
1 ATAAATGTTTTTGAG-TTATGA
*
2905184 ATCGAATGTTTTT
1 AT-AAATGTTTTT
2905197 AAGTAAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (21 bp):
ATAAATGTTTTTGAGTTATGA
Found at i:2905384 original size:20 final size:19
Alignment explanation
Indices: 2905335--2905390 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2905325 TGTACCGATA
**
2905335 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGCG
*
2905354 CATTATATCGATACATGCG
1 CATTGTATCGATACATGCG
2905373 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
2905391 AAACTGGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGCG
Found at i:2905456 original size:13 final size:13
Alignment explanation
Indices: 2905438--2905462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2905428 TACATGGCAT
2905438 AATGTATCAATAA
1 AATGTATCAATAA
2905451 AATGTATCAATA
1 AATGTATCAATA
2905463 CATAACAAAT
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AATGTATCAATAA
Found at i:2909731 original size:21 final size:20
Alignment explanation
Indices: 2909693--2909731 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2909683 ACTGTATTTC
* *
2909693 GAAAAAAAAGAAATTTCAAG
1 GAAAAAAAAAAAAATTCAAG
2909713 GAAAAAAATAAAAAATTCA
1 GAAAAAAA-AAAAAATTCA
2909732 TGAGAATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (20 bp):
GAAAAAAAAAAAAATTCAAG
Found at i:2909805 original size:167 final size:166
Alignment explanation
Indices: 2909460--2909970 Score: 579
Period size: 167 Copynumber: 3.1 Consensus size: 166
2909450 TTTAGATGAG
** * * * *
2909460 TTTTAAAAATTTTAAACCAATAAAAATCTCC-C-AAAAAAAATTTACAGAGAAGAAAACTCAGT-
1 TTTTAAAAATTGAAAACCAAGAAAAATC-CCTCTCAAAAAAATTTACAGAGTAGAAAACAC-GTA
* * * *** *
2909522 TTCTCGTAATAAAGGAAATTTCAA-CAAAAAAATCTGAAACTCATGAAAATGAATTACTTTTTTA
64 TT-TCG-AAAAAAAGAAATTTCAAGGAAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTTA
*
2909586 AAACTGAATTAATAT-AAATAAAATAATAATATTTGATAAA
127 AAACTGAATTAATATGAAAT-AAATAATAATATTTGATTAA
* *
2909626 TTTTAAAAATTGAAAACGAGGAAAAATCCC-CTCAAAAAAATTTACAGAGTAGAAAACACTGTAT
1 TTTTAAAAATTGAAAACCAAGAAAAATCCCTCTCAAAAAAATTTACAGAGTAGAAAACAC-GTAT
* * * *
2909690 TTCGAAAAAAAAGAAATTTCAAGGAAAAAAATAAAAAATTCATGAGAATGAATGAATTTTTGAAA
65 TTCG-AAAAAAAGAAATTTCAAGGAAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTTAAA
* * * *
2909755 ACTAAATTACTATGAAATAAATGATAATATTTGATTAT
129 ACTGAATTAATATGAAATAAATAATAATATTTGATTAA
* * * * *
2909793 TTTTAGAAATTGAAAACCAAGAAAAATCCCTTTGAAAAAAA-TTAC-GAAGTAGTAAACAACATA
1 TTTTAAAAATTGAAAACCAAGAAAAATCCCTCTCAAAAAAATTTACAG-AGTAGAAAAC-ACGTA
* * *
2909856 TTTTGGAAAAATGAGAATTTCAAGGAAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTTAA
64 TTTCGAAAAAAAGA-AATTTCAAGGAAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTTAA
*
2909921 AACTGAATTAATATGAAATAAATAATAATATTTAATTAA
128 AACTGAATTAATATGAAATAAATAATAATATTTGATTAA
2909960 TTTTAAAAATT
1 TTTTAAAAATT
2909971 AAGAAAAATC
Statistics
Matches: 291, Mismatches: 46, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
165 3 0.01
166 75 0.26
167 199 0.68
168 14 0.05
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.30
Consensus pattern (166 bp):
TTTTAAAAATTGAAAACCAAGAAAAATCCCTCTCAAAAAAATTTACAGAGTAGAAAACACGTATT
TCGAAAAAAAGAAATTTCAAGGAAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTTAAAAC
TGAATTAATATGAAATAAATAATAATATTTGATTAA
Found at i:2910998 original size:31 final size:32
Alignment explanation
Indices: 2910931--2911009 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
2910921 AATATATTGA
* *
2910931 AGAATGTATTGATATATTTGGGTCAAAAACCT
1 AGAATGTATCGATACATTTGGGTCAAAAACCT
* *
2910963 AGAATGTATCGATACATTTTGGT-TAAAA-CT
1 AGAATGTATCGATACATTTGGGTCAAAAACCT
*
2910993 CAGAATGTATCAATACA
1 -AGAATGTATCGATACA
2911010 ATGAAAAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.05
31 19 0.46
32 20 0.49
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (32 bp):
AGAATGTATCGATACATTTGGGTCAAAAACCT
Found at i:2911591 original size:16 final size:16
Alignment explanation
Indices: 2911572--2911639 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
2911562 TTGTTTGAGG
2911572 CATTTCAGGTTTATGT
1 CATTTCAGGTTTATGT
*
2911588 CATTTCATGTTTATGT
1 CATTTCAGGTTTATGT
* * **
2911604 AATTTCTGGTTTAACT
1 CATTTCAGGTTTATGT
*
2911620 CATTTCTAGTTTTA-GT
1 CATTTC-AGGTTTATGT
2911636 CATT
1 CATT
2911640 CTAGATTCGG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 36 0.88
17 5 0.12
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (16 bp):
CATTTCAGGTTTATGT
Found at i:2913728 original size:38 final size:38
Alignment explanation
Indices: 2913686--2913760 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
2913676 ATACTTATAA
*
2913686 ATAAATTAGAATTTTAGGTTAACGAA-TTATTATTAGTC
1 ATAAATTAGAATTTTAGGTTAAC-AACTTATAATTAGTC
*
2913724 ATAAATTAGAATTTTAGGTTGACAACTTATAATTAGT
1 ATAAATTAGAATTTTAGGTTAACAACTTATAATTAGT
2913761 TTTAAGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 32 0.94
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (38 bp):
ATAAATTAGAATTTTAGGTTAACAACTTATAATTAGTC
Done.