Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008303.1 Hibiscus syriacus cultivar Beakdansim tig00110989_pilon, whole genome shotgun sequence
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: 1196166
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:342970 original size:21 final size:21
Alignment explanation
Indices: 342946--342986 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
342936 GTCGTCACTT
*
342946 AAAGTACCGACCTCATCACGC
1 AAAGCACCGACCTCATCACGC
*
342967 AAAGCACTGACCTCATCACG
1 AAAGCACCGACCTCATCACG
342987 TAACTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAGCACCGACCTCATCACGC
Found at i:343163 original size:42 final size:42
Alignment explanation
Indices: 343104--343201 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
343094 GTGATGGAAT
* * *
343104 AGGTGATGGCTCTCGGTGTGGAGATGTATAATCCTCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGATGTAGAATCCGCTCGATC
* * *
343146 AGGTGATGACTCTCGGTGTCGAGCTGTAGAATCGGCTCGATC
1 AGGTGATGGCTCTCGGTGTCGAGATGTAGAATCCGCTCGATC
343188 AGGTGATGGCTCTC
1 AGGTGATGGCTCTC
343202 AAAGTGGGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (42 bp):
AGGTGATGGCTCTCGGTGTCGAGATGTAGAATCCGCTCGATC
Found at i:344700 original size:20 final size:20
Alignment explanation
Indices: 344676--344746 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
344666 ATTCACATCA
344676 CGAAAATGAAATTCGCAACG
1 CGAAAATGAAATTCGCAACG
* *
344696 TGAAAATAAAATTCGCAACG
1 CGAAAATGAAATTCGCAACG
* *
344716 CAAAAATGAAAATCGCAACG
1 CGAAAATGAAATTCGCAACG
344736 CGAAAATGAAA
1 CGAAAATGAAA
344747 ATCTGAAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.52, C:0.17, G:0.17, T:0.14
Consensus pattern (20 bp):
CGAAAATGAAATTCGCAACG
Found at i:350029 original size:25 final size:25
Alignment explanation
Indices: 349949--350054 Score: 67
Period size: 25 Copynumber: 4.3 Consensus size: 25
349939 GCTGTCTTCT
*
349949 AAATTTTTTAATTTTTTTATAT-TTT-
1 AAATTTTTTAA-TTTTATAT-TCTTTA
* * *
349974 AAA-TATTT-ATTTTATATTTCGTTC
1 AAATTTTTTAATTTTATA-TTCTTTA
*
349998 AATTTTTTTAATTTTATATTCTTTA
1 AAATTTTTTAATTTTATATTCTTTA
* * * *
350023 AAATTTTATAATCTCATATCCTTTA
1 AAATTTTTTAATTTTATATTCTTTA
*
350048 ATATTTT
1 AAATTTT
350055 AATATAATAT
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
22 7 0.11
23 4 0.06
24 6 0.10
25 38 0.60
26 8 0.13
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (25 bp):
AAATTTTTTAATTTTATATTCTTTA
Found at i:363269 original size:7 final size:7
Alignment explanation
Indices: 363252--363326 Score: 141
Period size: 7 Copynumber: 10.6 Consensus size: 7
363242 GAAACACGTG
363252 GAAATGGA
1 GAAA-GGA
363260 GAAAGGA
1 GAAAGGA
363267 GAAAGGA
1 GAAAGGA
363274 GAAAGGA
1 GAAAGGA
363281 GAAAGGA
1 GAAAGGA
363288 GAAAGGA
1 GAAAGGA
363295 GAAAGGA
1 GAAAGGA
363302 GAAAGGA
1 GAAAGGA
363309 GAAAGGA
1 GAAAGGA
363316 GAAAGGA
1 GAAAGGA
363323 GAAA
1 GAAA
363327 TGAAAAGTCT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
7 63 0.94
8 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.01
Consensus pattern (7 bp):
GAAAGGA
Found at i:371576 original size:20 final size:20
Alignment explanation
Indices: 371548--371585 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
371538 TTTGATCATT
371548 AAATCATATTTATATTTAAA
1 AAATCATATTTATATTTAAA
*
371568 AAATTATATTTATATTTA
1 AAATCATATTTATATTTA
371586 TGCATTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATCATATTTATATTTAAA
Found at i:376141 original size:16 final size:16
Alignment explanation
Indices: 376113--376145 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
376103 CCTTTAGGGC
376113 TAAACGTACTTATAGA
1 TAAACGTACTTATAGA
376129 TAAA-GTACATTATAGA
1 TAAACGTAC-TTATAGA
376145 T
1 T
376146 GTTCAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (16 bp):
TAAACGTACTTATAGA
Found at i:378519 original size:14 final size:14
Alignment explanation
Indices: 378477--378521 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
378467 ATTACATGAA
378477 GTAGGAGGATGGATT
1 GTAGGAGGATGGA-T
*
378492 GTA--A-GATTGAT
1 GTAGGAGGATGGAT
378503 GTAGGAGGATGGAT
1 GTAGGAGGATGGAT
378517 GTAGG
1 GTAGG
378522 TTTTTCTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 2 0.08
14 11 0.44
15 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.44, T:0.27
Consensus pattern (14 bp):
GTAGGAGGATGGAT
Found at i:391615 original size:96 final size:99
Alignment explanation
Indices: 391460--391675 Score: 255
Period size: 98 Copynumber: 2.2 Consensus size: 99
391450 AAATGTGAGT
* * *
391460 GGCGCTACATGTATTGTTAACTACATATAAACTGTTTTGTCTTACATTTTCATAAT-AAAAAGGT
1 GGCGCTACCTGTATTGTT-ACTA-ATATAAACTGGTTTATCTTACATTTTCATAATAAAAAAGGT
391524 -T-AAAATAATAACTTAAAAGGTTGACCAT-TTAAAAA
64 ATCAAAAT-ATAACTTAAAAGGTTGACCATGTT-AAAA
*
391559 GGCGCTACCTGTATTGTTA-T-ATATAAATCTGGTTTATCTTGCATTTTCATAATAAAAAAGGTA
1 GGCGCTACCTGTATTGTTACTAATATAAA-CTGGTTTATCTTACATTTTCATAATAAAAAAGGTA
** *
391622 TCAGCATATAACTTAAAATGTTGACCATGTTAAAA
65 TCAAAATATAACTTAAAAGGTTGACCATGTTAAAA
** *
391657 GATGCTACCTTTATTGTTA
1 GGCGCTACCTGTATTGTTA
391676 ACATGTAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
95 7 0.07
96 22 0.22
97 9 0.09
98 42 0.41
99 22 0.22
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (99 bp):
GGCGCTACCTGTATTGTTACTAATATAAACTGGTTTATCTTACATTTTCATAATAAAAAAGGTAT
CAAAATATAACTTAAAAGGTTGACCATGTTAAAA
Found at i:395451 original size:183 final size:181
Alignment explanation
Indices: 395089--395452 Score: 710
Period size: 183 Copynumber: 2.0 Consensus size: 181
395079 TTCAACTAAT
395089 CCAAAAAATTCTTAATCTCACTCATTTCTACCCTCAATTCACTCACTTCATTTACCACTAAACCT
1 CCAAAAAATTCTTAATCTCACTCATTTCTACCCTCAATTCACTCACTTCATTTACCACTAAACCT
395154 TTTTTTAGTTCATCAACCCCATCCACATTTTTTTCAAGCTCACCAATACAACACTTCATCTCCTT
66 TTTTTTAGTTCATCAACCCCATCCACATTTTTTTCAAGCTCACCAATACAACACTTCATCTCCTT
395219 TATTTCACCCCTCATTTTATCAACTTCTTTCACCACTCCATCCAATTTCGC
131 TATTTCACCCCTCATTTTATCAACTTCTTTCACCACTCCATCCAATTTCGC
395270 CCAAAAAATTCTTAATCTCACTCATTTCTACCCTCAATTCACTCACTTCATTTACCACTAAACCT
1 CCAAAAAATTCTTAATCTCACTCATTTCTACCCTCAATTCACTCACTTCATTTACCACTAAACCT
395335 TTTTTTAGTTCATCAACCCCATCCACACATTTTTTTCAAGCTCACCAATACAACACTTCATCTCC
66 TTTTTTAGTTCATCAACCCCAT-C-CACATTTTTTTCAAGCTCACCAATACAACACTTCATCTCC
395400 TTTATTTCACCCCTCATTTTATCAACTTCTTTCACCACTCCATCCAATTTCGC
129 TTTATTTCACCCCTCATTTTATCAACTTCTTTCACCACTCCATCCAATTTCGC
395453 ATAAGCTTTT
Statistics
Matches: 181, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
181 87 0.48
182 1 0.01
183 93 0.51
ACGTcount: A:0.27, C:0.34, G:0.02, T:0.37
Consensus pattern (181 bp):
CCAAAAAATTCTTAATCTCACTCATTTCTACCCTCAATTCACTCACTTCATTTACCACTAAACCT
TTTTTTAGTTCATCAACCCCATCCACATTTTTTTCAAGCTCACCAATACAACACTTCATCTCCTT
TATTTCACCCCTCATTTTATCAACTTCTTTCACCACTCCATCCAATTTCGC
Found at i:398891 original size:2 final size:2
Alignment explanation
Indices: 398884--398915 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
398874 TTCCCAAAGC
398884 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
398916 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:401459 original size:329 final size:329
Alignment explanation
Indices: 400831--402266 Score: 2017
Period size: 329 Copynumber: 4.4 Consensus size: 329
400821 TTTTGTTGAT
* * * * * *
400831 AGATAGCTCTTCTTGCCTTGAGCTATTCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * ** * * * * * ** * * ** *
400896 TCG-ACG-ATTT--TTAACATACAACCCTTCTAGCCTTGAGTTATATTGCAAATGAT-ATATCGT
66 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGGTGCCTT
* * * *
400956 TAAGATT-AGTGTAATCGAACTCAAAGGTCTTTCTTGGCAGATAACCCTTCTCGACTTAAGTTAT
131 TGAG-TTGAGTGTAATCAAACTCAAAGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* * * * * * * *
401020 GCTACAAATGATATGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTTTTTTGATGACATATAAC
192 ACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTGACAGATAAC
* * *
401085 CCTTCTAGCATTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCGAAG
256 CCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAG
401150 GTCTTTGGC
321 GTCTTTGGC
* * *
401159 AGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
401224 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGTTGGTGCCTT
66 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGGTGCCTT
*
401289 TGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTG
131 TGAGTTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTG
* * *
401354 CAAATGATGTGCCTTAGAGTTGAGTGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
196 CAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
* * *
401419 TAGCCTTGAGTTATACTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGAGGGTCTT
261 TAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
401484 TGGC
326 TGGC
* *
401488 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAATCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
*
401553 TCGAAGGTCTTTGGTTGGCAGATAACCATTCTCGACTTAAGTTATGCTGCAAATGTTGGTGCCTT
66 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGGTGCCTT
* * ** **
401618 TAAGTTGAGTGTAATCGAACTTGAAGGTCTTTGGCAGATAGCCCTTCTCGA-TGTAAGCTATGTT
131 TGAGTTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACT-TAAGCTATACT
* * * *
401682 GCAAATGATGTGCCTTATAGCTGAGCGTAGTCGAACTCGAAGGACTTTGGTGACAGATAACTCTT
195 GCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTT
* *
401747 CTAGCCTTGAGTTATGCTCTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGGATC
260 CTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGG-TC
*
401811 TTTGGT
324 TTTGGC
* *
401817 AGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * *
401882 TCGAAGGTCTTTTGG-TGGCAGATGACCCTTCTCGACTTAAGTTATGTTTCAAATGTTGGTGCCT
66 TCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGGTGCCT
* * *
401946 TTGAGTTGAGTGTAATCAAACTCGAAGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATATT
130 TTGAGTTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACT
* *
402011 GCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCT
195 GCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCT
* *
402076 TCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC
259 TCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTC
402141 TTTGGC
324 TTTGGC
*
402147 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* *
402212 TCGAAGGTTTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
66 TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
402267 ATTTCTTTAA
Statistics
Matches: 992, Mismatches: 103, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
328 63 0.06
329 603 0.61
330 263 0.27
331 3 0.00
332 33 0.03
333 27 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (329 bp):
AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGTTGGTGCCTT
TGAGTTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTG
CAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
TAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTT
TGGC
Found at i:401958 original size:494 final size:491
Alignment explanation
Indices: 400831--402268 Score: 1737
Period size: 494 Copynumber: 2.9 Consensus size: 491
400821 TTTTGTTGAT
* * * * * * * *
400831 AGATAGCTCTTCTTGCCTTGAGCTATTCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAAC
* * * * * * * * ** * ** * *
400896 TCGACGAT-TTT--TAACATACAACCCTTCTAGCCTTGAGTTATATTGCAAATGATATATCGT-T
66 TCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTATAAATGATGTGCCCTCG
* * * * * *
400957 AAGATTAGTGTAATCGAACTCAAAGGTCTTTCTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
131 AAGCTGAGTGTAATCAAACTCGAAGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
* * * * *
401022 TACAAATGATATGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGTTTTTTGATGACATATAACCC
193 TGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGG-TCTTTGGTGACAGATAACCC
*
401087 TTCTAGCATTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCGAAGGT
257 TTCTAGC-TTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGT
* * *
401152 CTTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTA
321 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
*
401217 GTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGTTG
386 GTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATG
* *
401282 GTGCCTTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGC
450 GTGCCCTCGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGC
* * *
401324 AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGTTGAGTGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAAC
* *
401389 TCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTGCCCTCG
66 TCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTATAAATGATGTGCCCTCG
* * *
401454 AAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
131 AAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
* * * *
401519 AAATGATGTGCCTTGGAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCATTC
196 AAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGG-TGACAGATAACCCTTC
* * ** * * ** * *
401584 TCGACTTAAGTTATGCTGCAAATGTTGGTG-CCTTTAAGTTGAGTGTAATCGAACTTGAAGGTCT
260 TAG-CTTGAGTTATATTGTAAATGAT-GTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCT
* **
401648 TTGGCAGATAGCCCTTCTCGA-TGTAAGCTATGTTGCAAATGATGTGCCTTATAGCTGAGCGTAG
323 TTGGCAGATAGCCCTTCTCGACT-TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * * * *
401712 TCGAACTCGAAGGACTTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCT-CTAAATGAT-G
387 TCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTAC-AAATGATGG
* * *
401775 TGCCCTCGAAGCTGAGTGTAATCGAACTC-GAGGATCTTTGGT
451 TGCCCTCG-AGCTGAGTGTAATCAAACTCAAAGG-TCTTTGGC
* * *
401817 AGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAAC
* * * * * * *
401882 TCGAAGGTCTTTTGGTGGCAGATGACCCTTCTCGACTTAAGTTAT-GTTTCAAATGTTGGTGCCT
66 TCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTAT-AAATGAT-GTGCCC
* * * **
401946 TTG-AGTTGAGTGTAATCAAACTCGAAGGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATAT
128 TCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
* * * *
402010 TGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCC
193 TGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTC-TTTGGTGACAGATAACCC
*
402075 TTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT
257 TTCTAG-CTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGT
*
402140 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTA
321 CTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* * *
402205 GTCGAACTCGAAGGTTTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
386 GTCGAACTCGAAGG-TCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGAT
402269 TTCTTTAAAA
Statistics
Matches: 804, Mismatches: 122, Indels: 36
0.84 0.13 0.04
Matches are distributed among these distances:
492 11 0.01
493 201 0.25
494 472 0.59
495 57 0.07
496 40 0.05
497 23 0.03
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (491 bp):
AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTGGTGACAGATAACCCTTCTAGACTTAAGTTATACTATAAATGATGTGCCCTCG
AAGCTGAGTGTAATCAAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
AAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCT
AGCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
ACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGGTGCCC
TCGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGC
Found at i:402268 original size:165 final size:165
Alignment explanation
Indices: 400831--402268 Score: 1702
Period size: 165 Copynumber: 8.7 Consensus size: 165
400821 TTTTGTTGAT
* * * * * *
400831 AGATAGCTCTTCTTGCCTTGAGCTATTCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * ** * ** *
400896 TCG-ACG-ATTTT--TAACATACAACCCTTCTAGCCTTGAGTTATATTGCAAATGATATATCGT-
66 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGATGTGCCCTC
* * * *
400956 TAAGATTAGTGTAATCGAACTCAAAGGTCTTTCTTGGC
131 GAAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGC
* * * * * *
400994 AGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCCTTGGAGCTGAGCATAGTTGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * ** *
401059 TCGAAGGTTTTTTGATGACATATAACCCTTCTAG-CATTGAGTTATATTGTAAATGATGTGCCCT
66 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGAC-TTGAGTTATGCTGCAAATGATGTGCCCT
*
401123 CGAAGCTGAGTGTAATTGAACTCGAAGGTCTTTGGC
130 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
* * *
401159 AGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * *
401224 TCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGTTGGTGCCT
66 TCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGAT-GTGCCC
* * *
401288 TTG-AGCTGAGTGTAATCAAACTCAAAGGTCTTTGGC
129 TCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
* * * *
401324 AGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTAGAGTTGAGTGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * **
401389 TCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTGCCCTC
66 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGATGTGCCCTC
* *
401453 GAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGC
131 GAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
* *
401488 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCATAATCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * *
401553 TCGAAGGTC-TTTGGTTGGCAGATAACCATTCTCGACTTAAGTTATGCTGCAAATGTTGGTG-CC
66 TCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGAT-GTGCCC
** * *
401616 TTTAAGTTGAGTGTAATCGAACTTGAAGGTCTTTGGC
129 TCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
* **
401653 AGATAGCCCTTCTCGA-TGTAAGCTATGTTGCAAATGATGTGCCTTATAGCTGAGCGTAGTCGAA
1 AGATAGCCCTTCTCGACT-TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * *
401717 CTCGAAGGAC-TTTGGTGACAGATAACTCTTCTAGCCTTGAGTTATGCT-CTAAATGATGTGCCC
65 CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGC-AAATGATGTGCCC
*
401780 TCGAAGCTGAGTGTAATCGAACTCG-AGGATCTTTGGT
129 TCGAAGCTGAGTGTAATCGAACTCGAAGG-TCTTTGGC
* *
401817 AGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * * * * *
401882 TCGAAGGTCTTTTGGTGGCAGATGACCCTTCTCGACTTAAGTTATGTTTCAAATGTTGGTGCCTT
66 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGAT-GTGCCCT
* * *
401947 TG-AGTTGAGTGTAATCAAACTCGAAGGTCTTTGGC
130 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
* ** * *
401982 AAATAGCCCTTCTCGACTTAAGCTATATTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * ** *
402047 TCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTC
66 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGATGTGCCCTC
*
402112 GAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGC
131 GAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
*
402147 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGTTGAGCGTAGTCGAAC
1 AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
* * * * *
402212 TCGAAGGTTTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT
66 TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGAT
402269 TTCTTTAAAA
Statistics
Matches: 1094, Mismatches: 159, Indels: 42
0.84 0.12 0.03
Matches are distributed among these distances:
163 70 0.06
164 280 0.26
165 656 0.60
166 24 0.02
167 40 0.04
168 24 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (165 bp):
AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAC
TCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGACTTGAGTTATGCTGCAAATGATGTGCCCTC
GAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGC
Found at i:402924 original size:14 final size:14
Alignment explanation
Indices: 402905--402932 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
402895 TTTTCTTGTT
402905 TTAGGAGGAAAAAC
1 TTAGGAGGAAAAAC
402919 TTAGGAGGAAAAAC
1 TTAGGAGGAAAAAC
402933 GATAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.29, T:0.14
Consensus pattern (14 bp):
TTAGGAGGAAAAAC
Found at i:405665 original size:90 final size:90
Alignment explanation
Indices: 405509--405686 Score: 284
Period size: 90 Copynumber: 2.0 Consensus size: 90
405499 CCTAACACAC
* * * *
405509 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATATAT
*
405574 ATTTAATTAATTGAAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* * *
405599 CCTTTTATATCCAAGTTACCCTAATCATATCATGGATTTTATTATTTTAAATTAATTAAATATAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATATAT
405664 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
405687 TTCAGGATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATATAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:405673 original size:20 final size:21
Alignment explanation
Indices: 405648--405717 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
405638 TATTATTTTA
405648 AATTAATT-AAATATATATTT
1 AATTAATTAAAATATATATTT
* * *
405668 AATTAATTGAAATTAAATATTC
1 AATTAATT-AAAATATATATTT
*
405690 AGGATT-ATTAAAATATATACTT
1 A--ATTAATTAAAATATATATTT
405712 AATTAA
1 AATTAA
405718 CTCTAGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 11 0.29
21 1 0.03
22 20 0.53
23 3 0.08
24 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (21 bp):
AATTAATTAAAATATATATTT
Found at i:412512 original size:90 final size:88
Alignment explanation
Indices: 412364--412537 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 88
412354 CCTAATACAC
* * *
412364 CCTTTTATAGCCAAGTTACCCTAGTCATATAGGGTTTTTATTATTTCAAATTAATTAAATTTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATAGGGATTTTATTATTTCAAATTAATTAAATCTATA
*
412429 TTTAATTAATTAGAATTTAATAAT
66 TTTAATTAATT-GAAATTAATAAT
* *
412453 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTTAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATAT-AGGGATTTTATTATTTCAAATTAATTAAATCTAT
412518 ATTTAATTAATTGAAATTAA
65 ATTTAATTAATTGAAATTAA
412538 ATATTCAAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
89 35 0.45
90 43 0.55
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (88 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATAGGGATTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAATAAT
Found at i:415931 original size:17 final size:18
Alignment explanation
Indices: 415885--415931 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
415875 TGTTTCGGAG
415885 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
** *
415903 GGAATTAAAATCTGT-CA
1 GGAATTGGAATCTGTGAA
415920 GGAATTGGAATC
1 GGAATTGGAATC
415932 CAATTCCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:416577 original size:257 final size:254
Alignment explanation
Indices: 416291--416901 Score: 912
Period size: 257 Copynumber: 2.4 Consensus size: 254
416281 CCTCCATCGA
416291 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
* *
416356 CCGAAATAATTAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAATAATTATAT
66 CCGAAATAA-TAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAA-AAAT-TAT
416421 ATAGAAG-ATATTATTGTAATTATTCCTAAATATATAAGGTAAAA-T-TATATA-TTT-T-TTGG
128 ATAGAAGAATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTGTGTTGG
* *
416480 GTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTTAAAAAA
193 GTCGGATCGGGTATTTTTCACCCTAAA-CCG-A----ACCCGACCCGAATATAACACTT-AAAAA
416545 AACC
251 AACC
*
416549 GACCCG-CCCAACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
416613 CCGAAATAATAAAAAATTTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAAAATTATAT
66 CCGAAATAATAAAAAA-TTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAAAATTATAT
*
416678 AGATGAATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGG
130 AGAAGAATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTT---GT---G
416743 TTGGGTCGGATCGGGTATTTTTCACCCTAAACCGAACCCGACCCGAATATAACACTTAAAAAAAC
189 TTGGGTCGGATCGGGTATTTTTCACCCTAAACCGAACCCGACCCGAATATAACACTTAAAAAAAC
416808 C
254 C
* * * *
416809 AACCCGACCTGACCAAAATAAAGTTTCACCCGACCCGACACGAATATATGAATTAGAAATCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
* *
416874 TCGAAATAATAAAAAAATATTTTTATTC
66 CCGAAATAATAAAAAATTATTTTTATTC
416902 TATATATGAA
Statistics
Matches: 326, Mismatches: 13, Indels: 26
0.89 0.04 0.07
Matches are distributed among these distances:
255 9 0.03
256 47 0.14
257 105 0.32
258 12 0.04
259 3 0.01
260 25 0.08
261 90 0.28
263 1 0.00
265 1 0.00
266 3 0.01
267 30 0.09
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (254 bp):
GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
CCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAAAATTATATA
GAAGAATATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTGTGTTGGGTC
GGATCGGGTATTTTTCACCCTAAACCGAACCCGACCCGAATATAACACTTAAAAAAACC
Found at i:422651 original size:14 final size:15
Alignment explanation
Indices: 422634--422663 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
422624 ATAAATTAGC
422634 TTATTATAAT-TATT
1 TTATTATAATATATT
422648 TTATTATAATATATT
1 TTATTATAATATATT
422663 T
1 T
422664 ATCTGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTATAATATATT
Found at i:426121 original size:25 final size:27
Alignment explanation
Indices: 426085--426147 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
426075 GTTAGCTATA
*
426085 ATAATTAAATTAATAAAT-TTAGATTTT
1 ATAATT-AATTAATAAATCTTAGATTAT
* *
426112 AT-ATTAATT-ATAATTCTTATATTAT
1 ATAATTAATTAATAAATCTTAGATTAT
426137 ATAATTAATTA
1 ATAATTAATTA
426148 TAATCATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
25 13 0.43
26 10 0.33
27 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
ATAATTAATTAATAAATCTTAGATTAT
Found at i:426585 original size:10 final size:10
Alignment explanation
Indices: 426534--426589 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
426524 TACTTAAATG
*
426534 TATATATATA
1 TATACATATA
*
426544 TATACATGTA
1 TATACATATA
426554 TCATACATGCAT-
1 T-ATACAT--ATA
426566 TATACATATA
1 TATACATATA
*
426576 TATACTTATA
1 TATACATATA
426586 TATA
1 TATA
426590 GACTTATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 2 0.05
10 22 0.58
11 12 0.32
12 1 0.03
13 1 0.03
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (10 bp):
TATACATATA
Found at i:426772 original size:31 final size:30
Alignment explanation
Indices: 426734--426806 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 30
426724 CATATATATA
*
426734 TATATATATATACATGCACCATACTTAAAT
1 TATATATATATACATGCACCATACATAAAT
* *
426764 GTATATATATATACATGCATCATACATACAT
1 -TATATATATATACATGCACCATACATAAAT
*
426795 TATACATATATA
1 TATATATATATA
426807 GACTTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (30 bp):
TATATATATATACATGCACCATACATAAAT
Found at i:426817 original size:12 final size:12
Alignment explanation
Indices: 426800--426827 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
426790 TACATTATAC
426800 ATATATAGACTT
1 ATATATAGACTT
426812 ATATATAGACTT
1 ATATATAGACTT
426824 ATAT
1 ATAT
426828 GCACTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (12 bp):
ATATATAGACTT
Found at i:426820 original size:229 final size:224
Alignment explanation
Indices: 426423--426856 Score: 755
Period size: 229 Copynumber: 1.9 Consensus size: 224
426413 CCAAAGCTAA
426423 TTAAATGGGAGCTTTAGATGATTTTTTTAATAATAATAATTTTTATTATTTTTACTTTTATTTTT
1 TTAAATGGGAGCTTTAGATGATTTTTTTAATAATAATAATTTTTATTATTTTTACTTTTATTTTT
*
426488 TAAAAATAAATCATATATATATATATACATGCACCATACTTAAATGTATATATATATATACATGT
66 TAAAAATAAATCATATATATATATATACATGCACCATACTTAAATG-ATATATATATATACATGC
* *
426553 ATCATACATGCATTATACATATATATACTTATATATAGACTTATATGCACTTATGTACAAACATC
130 ATCATACATACATTATACATATATAGACTTATATATAGACTTATATGCACTTATGTACAAACATC
426618 ATGCACTTGTATGTATGTATGTGTGTGTGT
195 ATGCACTTGTATGTATGTATGTGTGTGTGT
426648 TTAAATGGGAGCTTTAGATGAATTTTTTTAATAATAATAATTTTTATTATTTTTACTTTTATTTT
1 TTAAATGGGAGCTTTAGATG-ATTTTTTTAATAATAATAATTTTTATTATTTTTACTTTTATTTT
426713 TT-AAAATAAATCATATATATATATATATATATACATGCACCATACTTAAATG-TATATATATAT
65 TTAAAAATAAATC------ATATATATATATATACATGCACCATACTTAAATGATATATATATAT
426776 ACATGCATCATACATACATTATACATATATAGACTTATATATAGACTTATATGCACTTATGTACA
124 ACATGCATCATACATACATTATACATATATAGACTTATATATAGACTTATATGCACTTATGTACA
426841 AACATCATGCACTTGT
189 AACATCATGCACTTGT
426857 GTGTGTTGTT
Statistics
Matches: 199, Mismatches: 3, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
225 30 0.15
226 46 0.23
229 89 0.45
231 34 0.17
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (224 bp):
TTAAATGGGAGCTTTAGATGATTTTTTTAATAATAATAATTTTTATTATTTTTACTTTTATTTTT
TAAAAATAAATCATATATATATATATACATGCACCATACTTAAATGATATATATATATACATGCA
TCATACATACATTATACATATATAGACTTATATATAGACTTATATGCACTTATGTACAAACATCA
TGCACTTGTATGTATGTATGTGTGTGTGT
Found at i:437213 original size:17 final size:17
Alignment explanation
Indices: 437191--437232 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
437181 TTTACTAATA
*
437191 CTTTTACTGTTCTATAT
1 CTTTTACTGTACTATAT
*
437208 CTTTTATTGTACTATAT
1 CTTTTACTGTACTATAT
*
437225 ATTTTACT
1 CTTTTACT
437233 ATATTGTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.14, G:0.05, T:0.60
Consensus pattern (17 bp):
CTTTTACTGTACTATAT
Found at i:439370 original size:40 final size:40
Alignment explanation
Indices: 439320--439397 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
439310 TTTAGCGGTA
* * *
439320 TTTTTAAACAAATGCTGCAACAGGGTTGTTTAAAGTGGTG
1 TTTTTAAACAAACGCCGCAACAAGGTTGTTTAAAGTGGTG
*
439360 TTTTTAAACAAACGCCGCAACAAGGTTGTTTATAGTGG
1 TTTTTAAACAAACGCCGCAACAAGGTTGTTTAAAGTGG
439398 CGCTTGTCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (40 bp):
TTTTTAAACAAACGCCGCAACAAGGTTGTTTAAAGTGGTG
Found at i:441191 original size:84 final size:82
Alignment explanation
Indices: 441093--441348 Score: 229
Period size: 84 Copynumber: 3.1 Consensus size: 82
441083 TTTAGCGCGA
441093 TTTTATACAAACGCCGCAGTAGATTTAATCTATAGTGGCATTTTTTTTAAAAAACGCCGCAATAT
1 TTTTATACAAACGCCGCA-TAGATTTAATCT-TAGTGGCATTTTTTTTAAAAAACGCCGCAATAT
441158 AATAGAACTTTAGTGGCAT
64 AATAGAACTTTAGTGGCAT
* * * **
441177 TTTTATGA-ACACGCCGCTATAGAGGGTT-ATGTTAGTGGCA-TTTTTAAACAAAAACGCCGCTA
1 TTTTAT-ACAAACGCCGC-ATAGA--TTTAATCTTAGTGGCATTTTTTTTA-AAAAACGCCGC-A
* * *
441239 A-ATATTTAG-ACATTAGTGGCGT
60 ATATA-ATAGAACTTTAGTGGCAT
* * * *
441261 TTTTATACAAACACCGCAATAGATTTAATCTTTAGTGG--TGTTTTTTTAAAAAATGTCGTAATA
1 TTTTATACAAACGCCGC-ATAGATTTAATC-TTAGTGGCAT-TTTTTTTAAAAAACGCCGCAATA
* *
441324 TAATAAAACTTTAGCGGCAT
63 TAATAGAACTTTAGTGGCAT
441344 TTTTA
1 TTTTA
441349 GGCTTACGTT
Statistics
Matches: 135, Mismatches: 23, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
82 6 0.04
83 35 0.26
84 82 0.61
85 10 0.07
86 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (82 bp):
TTTTATACAAACGCCGCATAGATTTAATCTTAGTGGCATTTTTTTTAAAAAACGCCGCAATATAA
TAGAACTTTAGTGGCAT
Found at i:449680 original size:21 final size:21
Alignment explanation
Indices: 449591--449763 Score: 115
Period size: 21 Copynumber: 8.4 Consensus size: 21
449581 AGCGGAAAAT
* *
449591 GAAGCAAGGGAAGCATAGAGA
1 GAAGCAACGGAAGCACAGAGA
* ***
449612 GCAA-CAGCGGAAGCATTCAGA
1 G-AAGCAACGGAAGCACAGAGA
* *
449633 GCAGCAACGGAAGCATC-CAGA
1 GAAGCAACGGAAGCA-CAGAGA
* * *
449654 GCAGCAACGGAAGCAGAGAAA
1 GAAGCAACGGAAGCACAGAGA
* *
449675 GAAGC-A--GCAGTACAGAGA
1 GAAGCAACGGAAGCACAGAGA
* *
449693 GAAGTAACGGCAGCACAGAGA
1 GAAGCAACGGAAGCACAGAGA
* * *
449714 GAAGCAGCGGCAGCACTGAGA
1 GAAGCAACGGAAGCACAGAGA
449735 GAAGCAAC-GACAGCACAGAGA
1 GAAGCAACGGA-AGCACAGAGA
449756 GAAGCAAC
1 GAAGCAAC
449764 ATATCAGCAG
Statistics
Matches: 121, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
18 12 0.10
19 1 0.01
20 3 0.02
21 103 0.85
22 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.32, T:0.04
Consensus pattern (21 bp):
GAAGCAACGGAAGCACAGAGA
Found at i:449749 original size:42 final size:42
Alignment explanation
Indices: 449667--449761 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
449657 GCAACGGAAG
* * * *
449667 CAGAGA-AAGAAGCAGCAGTACAGAGAGAAGTAACGGCAGCA
1 CAGAGAGAAGCAGCAGCAGCACAGAGAGAAGCAACGACAGCA
* *
449708 CAGAGAGAAGCAGCGGCAGCACTGAGAGAAGCAACGACAGCA
1 CAGAGAGAAGCAGCAGCAGCACAGAGAGAAGCAACGACAGCA
449750 CAGAGAGAAGCA
1 CAGAGAGAAGCA
449762 ACATATCAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 6 0.13
42 41 0.87
ACGTcount: A:0.44, C:0.20, G:0.33, T:0.03
Consensus pattern (42 bp):
CAGAGAGAAGCAGCAGCAGCACAGAGAGAAGCAACGACAGCA
Found at i:450246 original size:43 final size:43
Alignment explanation
Indices: 450198--450440 Score: 333
Period size: 43 Copynumber: 5.7 Consensus size: 43
450188 AAATACCACG
* * *
450198 AAATCTCAACACGTATTGCGGCGTTTGTGAGAATAACGCCACT
1 AAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAACGCCGCT
*
450241 AAATCTCAACACTTATTGTGGCGTTTGTGAGAAAAACGCCGCT
1 AAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAACGCCGCT
*
450284 AAATCTCAACACTTATTGTGGCGTTTGTGAGAAAAACGCCGCT
1 AAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAACGCCGCT
* **
450327 AAATCTCAACACTTATTGCGGCGTTTGTGATAAAAACATCGCT
1 AAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAACGCCGCT
* * * * * *
450370 AAATCTCAACACCTATTGTGACATTTGTGGGGAAAACGCCGCT
1 AAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAACGCCGCT
* * *
450413 AAATATCAACACCTATTGCGGCATTTGT
1 AAATCTCAACACTTATTGCGGCGTTTGT
450441 CTTACAAACG
Statistics
Matches: 180, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 180 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
AAATCTCAACACTTATTGCGGCGTTTGTGAGAAAAACGCCGCT
Found at i:450450 original size:43 final size:43
Alignment explanation
Indices: 450198--450481 Score: 307
Period size: 43 Copynumber: 6.6 Consensus size: 43
450188 AAATACCACG
* * * *
450198 AAATCTCAACACGTATTGCGGCGTTTGTGAGAATAACGCCACT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
* * *
450241 AAATCTCAACACTTATTGTGGCGTTTGTGAGAAAAACGCCGCT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
* * *
450284 AAATCTCAACACTTATTGTGGCGTTTGTGAGAAAAACGCCGCT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
* * * **
450327 AAATCTCAACACTTATTGCGGCGTTTGTGATAAAAACATCGCT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
* * * *
450370 AAATCTCAACACCTATTGTGACATTTGTGGGGAAAACGCCGCT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
* *** * *
450413 AAATATCAACACCTATTGCGGCATTTGTCTTACAAACGTCGCT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
* * **
450456 ATATATCATTACCTATTGCGGCATTT
1 AAATCTCAACACCTATTGCGGCATTT
450482 TTCGTTAACA
Statistics
Matches: 212, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 212 1.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCGCT
Found at i:451126 original size:21 final size:21
Alignment explanation
Indices: 451097--451140 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
451087 ACCTTAACCA
451097 AATTCATTTGTAAACATT-TTC
1 AATTCATTT-TAAACATTATTC
*
451118 AATTGATTTTAAACATTATTC
1 AATTCATTTTAAACATTATTC
451139 AA
1 AA
451141 GCTTAGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (21 bp):
AATTCATTTTAAACATTATTC
Found at i:454530 original size:41 final size:40
Alignment explanation
Indices: 454438--454568 Score: 174
Period size: 42 Copynumber: 3.2 Consensus size: 40
454428 AATTATAAAA
* *
454438 AAATATTTATTTTTATTTAATATATTTTAAATATAAAAAATA
1 AAATATTTATTTTT-TTTAATTTATTTTAAATAT-AAAAATG
*
454480 AAATATTTATTTTTCTTTAATTTATTTTAATTATAAAAATG
1 AAATATTTATTTTT-TTTAATTTATTTTAAATATAAAAATG
* * *
454521 AAATTTTTATTTATTTTATTTTATTTTAAATATAAAAATG
1 AAATATTTATTTTTTTTAATTTATTTTAAATATAAAAATG
454561 AAAT-TTTA
1 AAATATTTA
454569 ATTTAAATAA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.05
40 28 0.35
41 18 0.22
42 31 0.38
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
AAATATTTATTTTTTTTAATTTATTTTAAATATAAAAATG
Found at i:454555 original size:40 final size:41
Alignment explanation
Indices: 454438--454573 Score: 166
Period size: 40 Copynumber: 3.3 Consensus size: 41
454428 AATTATAAAA
* * * * *
454438 AAATATTTATTTTTATTTAATATATTTTAAATATAAAAAATA
1 AAATTTTTATTTATCTTTAATTTATTTTAAATAT-AAAAATG
* * *
454480 AAATATTTATTTTTCTTTAATTTATTTTAATTATAAAAATG
1 AAATTTTTATTTATCTTTAATTTATTTTAAATATAAAAATG
*
454521 AAATTTTTATTTAT-TTTATTTTATTTTAAATATAAAAATG
1 AAATTTTTATTTATCTTTAATTTATTTTAAATATAAAAATG
*
454561 AAATTTTAATTTA
1 AAATTTTTATTTA
454574 AATAATAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 36 0.42
41 18 0.21
42 31 0.36
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (41 bp):
AAATTTTTATTTATCTTTAATTTATTTTAAATATAAAAATG
Found at i:456948 original size:78 final size:79
Alignment explanation
Indices: 456860--457018 Score: 216
Period size: 79 Copynumber: 2.0 Consensus size: 79
456850 GATAAAAAAT
* * * * **
456860 AATATTTTAGGTATC-ATCCAATGTTAATATTTTCGTTA-AAAAAATAATATTTTAGGTAGTACT
1 AATATTTTAGGTATCGCT-CAATATTAACATTTTCGATATAAAAAATAATATTTTAGGTAACACT
456923 TTA-TCGAAAATATTA
65 TTACT-GAAAATATTA
*
456938 AATATTTTAGGTATCGCTCAATATTAACATTTTCGATATAAAAAATAATATTTTAGGTAACATTT
1 AATATTTTAGGTATCGCTCAATATTAACATTTTCGATATAAAAAATAATATTTTAGGTAACACTT
457003 TACTGAAAATATTA
66 TACTGAAAATATTA
457017 AA
1 AA
457019 AATATTAACA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 32 0.45
79 38 0.54
80 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (79 bp):
AATATTTTAGGTATCGCTCAATATTAACATTTTCGATATAAAAAATAATATTTTAGGTAACACTT
TACTGAAAATATTA
Found at i:458179 original size:3 final size:3
Alignment explanation
Indices: 458173--458220 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
458163 TTTAAAAAAA
* *
458173 TAT TATT TAT TAT TAT TAT TTT TAT TATT TAT TAT TAT TAT TAA TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
458220 T
1 T
458221 TTTTTAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:458191 original size:13 final size:13
Alignment explanation
Indices: 458173--458215 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
458163 TTTAAAAAAA
458173 TATTATTTATTAT
1 TATTATTTATTAT
458186 TATTATTT-TTAT
1 TATTATTTATTAT
458198 TATT-TATTATTAT
1 TATTAT-TTATTAT
458211 TATTA
1 TATTA
458216 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 10 0.37
13 16 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:458199 original size:22 final size:22
Alignment explanation
Indices: 458173--458214 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
458163 TTTAAAAAAA
458173 TATTATTTATTATTATTATTTT
1 TATTATTTATTATTATTATTTT
458195 TATTATTTATTATTATTATT
1 TATTATTTATTATTATTATT
458215 AATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTATTTATTATTATTATTTT
Found at i:458204 original size:19 final size:19
Alignment explanation
Indices: 458182--458221 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
458172 ATATTATTTA
* *
458182 TTATTATTATTTTTATTAT
1 TTATTATTATTATTAATAT
458201 TTATTATTATTATTAATAT
1 TTATTATTATTATTAATAT
458220 TT
1 TT
458222 TTTTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTATTATTATTAATAT
Found at i:458220 original size:22 final size:22
Alignment explanation
Indices: 458171--458232 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
458161 AGTTTAAAAA
458171 AATATTATTTATTATTATTATT
1 AATATTATTTATTATTATTATT
**
458193 TTTATTATTTATTATTATTATT
1 AATATTATTTATTATTATTATT
458215 AATATT-TTT-TTAATTATT
1 AATATTATTTATT-ATTATT
458233 TTGTAGGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.06
21 9 0.26
22 24 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
AATATTATTTATTATTATTATT
Found at i:459364 original size:10 final size:10
Alignment explanation
Indices: 459341--459371 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
459331 TTTTTAACAC
459341 TTATTTTATTA
1 TTATTTT-TTA
459352 TTATTTTTTA
1 TTATTTTTTA
459362 TTATTTTTTA
1 TTATTTTTTA
459372 CCTTTCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTATTTTTTA
Found at i:462834 original size:22 final size:21
Alignment explanation
Indices: 462795--462836 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
462785 AATAATTCAT
**
462795 TTAAATTTTAATTTTATTAAA
1 TTAAATTTTAATAATATTAAA
462816 TTAAATTATTAATAATATTAA
1 TTAAATT-TTAATAATATTAA
462837 TGTGTATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAAATTTTAATAATATTAAA
Found at i:464394 original size:183 final size:183
Alignment explanation
Indices: 464086--464451 Score: 687
Period size: 183 Copynumber: 2.0 Consensus size: 183
464076 GAAACAGAAG
464086 AAAGCAGTGTTAAATCTATTGAAAAGTGGTACAAAAACATGAAATAAGCTATTTGGATGATCATT
1 AAAGCAGTGTTAAATCTATTGAAAAGTGGTACAAAAACATGAAATAAGCTATTTGGATGATCATT
* *
464151 GAACAATGAATTACATGAAAAAAGTAAGAAATATAAACAGGTCCTTAATAAGGTATACAAGTTTA
66 GAACAATGAATCACATGAAAAAAGTAAGAAATATAAACAGGTCCATAATAAGGTATACAAGTTTA
* * *
464216 ACTTCCTACCAGAGTTGAGGCAAATTATGCAGCTCACCTAAATTCACGTATAA
131 ACTTCCTACCAGAGTTGAGGCAAATAATGCAACTCACCTAAAATCACGTATAA
464269 AAAGCAGTGTTAAATCTATTGAAAAGTGGTACAAAAACATGAAATAAGCTATTTGGATGATCATT
1 AAAGCAGTGTTAAATCTATTGAAAAGTGGTACAAAAACATGAAATAAGCTATTTGGATGATCATT
464334 GAACAATGAATCACATGAAAAAAGTAAGAAATATAAACAGGTCCATAATAAGGTATACAAGTTTA
66 GAACAATGAATCACATGAAAAAAGTAAGAAATATAAACAGGTCCATAATAAGGTATACAAGTTTA
464399 ACTTCCTACCAGAGTTGAGGCAAATAATGCAACTCACCTAAAATCACGTATAA
131 ACTTCCTACCAGAGTTGAGGCAAATAATGCAACTCACCTAAAATCACGTATAA
464452 CACATTTTCC
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 178 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (183 bp):
AAAGCAGTGTTAAATCTATTGAAAAGTGGTACAAAAACATGAAATAAGCTATTTGGATGATCATT
GAACAATGAATCACATGAAAAAAGTAAGAAATATAAACAGGTCCATAATAAGGTATACAAGTTTA
ACTTCCTACCAGAGTTGAGGCAAATAATGCAACTCACCTAAAATCACGTATAA
Found at i:468498 original size:2 final size:2
Alignment explanation
Indices: 468491--468518 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
468481 CAACCAAAAG
468491 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
468519 AGATTTACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:470176 original size:18 final size:17
Alignment explanation
Indices: 470153--470195 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
470143 ATATATACAT
470153 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
470171 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
470188 ATAA-AATA
1 ATAATAATA
470196 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:470671 original size:34 final size:35
Alignment explanation
Indices: 470583--470685 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 35
470573 ATAGTATAAC
470583 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATT
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATT
*
470621 TTTATCCTATTTTTAGGAGTTTGAATCCTAAAA-T
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATT
*
470655 TCTATCATATTTTTAGGAGTTTGAATCCTAA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
470686 TAGGACGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 30 0.48
35 4 0.06
38 28 0.45
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.45
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATT
Found at i:471510 original size:105 final size:105
Alignment explanation
Indices: 471217--471974 Score: 1006
Period size: 105 Copynumber: 7.3 Consensus size: 105
471207 TTCCAAGTCT
* * ** * * *
471217 ATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTT-TGTGACAACCAGTC
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGAGAAGTTGTTGT-TGACAAGCAG-C
* * *
471280 -GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
63 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
**
471322 ATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-TGA-AA-TT-TTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGT
*
471382 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
471422 ATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGT
* * *
471487 CCCTTCGTCGTGAAGTTGAACTTGCATTGTATGGAGCCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
471527 ATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGT
*
471592 CCCTTCGTCG-GAAGTTGAACTTGCGTTGTCTGAAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
471631 ATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGA-ATTAAGAAG-TGTTTGTTGACAAGCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTG-TTGTTGACAAGCAGCGG
471694 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-
65 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
471734 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAATTGAGAAGTTGTTGTTGACAGGCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AGATTGAGAAGTTGTTGTTGACAAGCAGCGG
*
471799 TCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
65 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
471840 ATATTCTTCGTTGTGAAGTTGAAATT-GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTC-
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTG-TTGTTGACAAGCAG-CG
* *
471903 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC-GCGAGTGCCA
64 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG-GAGT-CCA
* * *
471946 CGATATCCTCCGTCGTGGAGTTGAAATTG
1 --ATATCCTTCGTTGTGAAGTTGAAATTG
471975 CAGATGGCCC
Statistics
Matches: 588, Mismatches: 44, Indels: 38
0.88 0.07 0.06
Matches are distributed among these distances:
99 1 0.00
100 80 0.14
101 4 0.01
102 6 0.01
103 70 0.12
104 103 0.18
105 271 0.46
106 31 0.05
108 22 0.04
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (105 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAGCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:471786 original size:313 final size:310
Alignment explanation
Indices: 471217--471974 Score: 1089
Period size: 313 Copynumber: 2.4 Consensus size: 310
471207 TTCCAAGTCT
* * ** *
471217 ATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTT-TGTGACAACCAGTC
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTGTTGT-TGACAACCAGTC
471280 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAA
64 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAA
471345 ATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
129 ATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
* *
471410 GTCTGGAATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTG
194 GTCTGGAATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTG
*
471475 ACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGGAGCCCA
259 ACAAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTATGGAGCCCA
* *
471527 ATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAGATTGGGAAGTTGTTGTTGACAAGCAG-CGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGTC-G
* * *
471591 TCCCTTCGTCG-GAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTTGTTGTGAAGTTGAA
65 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG-AGTCCAATATCCTTCGTTGTGAAGTTGAA
** *
471654 ATTGGCTCTGAATTAAGAAGTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
129 ATTGAATCTGAA-T--GAAAT-TTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
* *
471719 CGTTGTCTGGAGTCC-ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAATTGAGAAGTTGT
190 CGTTGTCTGGAATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTG-AAATTGAGAAGTTGT
* * * *
471783 TGTTGACAGGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
254 TGTTGACAAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTATGGAGCCCA
* * *
471840 ATATTCTTCGTTGTGAAGTTGAAATT-GCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTCG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAACCAGTCG
* * * *
471904 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCGCGAGTGCCACGATATCCTCCGTCGTGGAGTTG
65 TCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CCA--ATATCCTTCGTTGTGAAGTTG
471969 AAATTG
127 AAATTG
471975 CAGATGGCCC
Statistics
Matches: 398, Mismatches: 34, Indels: 25
0.87 0.07 0.05
Matches are distributed among these distances:
308 1 0.00
309 59 0.15
310 62 0.16
311 2 0.01
312 53 0.13
313 171 0.43
314 23 0.06
315 4 0.01
317 23 0.06
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (310 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGTCGT
CCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
TGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGAC
AAGCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCATTGTATGGAGCCCA
Found at i:472681 original size:35 final size:36
Alignment explanation
Indices: 472633--472773 Score: 223
Period size: 35 Copynumber: 4.0 Consensus size: 36
472623 CATATTCAAT
*
472633 TTTGTTTCTAGGGAAACTGTCTC-AGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
472668 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
472704 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
472739 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
472774 CTCTTAGTGA
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
35 55 0.57
36 41 0.43
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:472721 original size:71 final size:71
Alignment explanation
Indices: 472633--472770 Score: 224
Period size: 71 Copynumber: 1.9 Consensus size: 71
472623 CATATTCAAT
* * *
472633 TTTGTTTCTAGGGAAACTGTCTC-AGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAATTTATTTCAAGGGAAACTGTCTCAAGAGA
472697 GACGAAA
65 GACGAAA
*
472704 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTATTTCAAGGGAAACTGTCTCAAGAGAG
472769 AC
66 AC
472771 AAACTCTTAG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 54 0.87
72 8 0.13
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (71 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAATTTATTTCAAGGGAAACTGTCTCAAGAGAG
ACGAAA
Found at i:473273 original size:18 final size:18
Alignment explanation
Indices: 473246--473281 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
473236 TGTTGAATCC
* *
473246 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
473264 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
473282 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:473702 original size:22 final size:22
Alignment explanation
Indices: 473677--473727 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
473667 TTGTGTTTGG
473677 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
473699 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
473721 TCAAAGG
1 TCAAAGG
473728 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:474394 original size:45 final size:42
Alignment explanation
Indices: 474334--474443 Score: 107
Period size: 45 Copynumber: 2.5 Consensus size: 42
474324 TGCATGTGCT
474334 TTTTGTTCCTCTTTCTTTTTGATTC-TTGTTTTT-TTTATTTTTTCC
1 TTTTGTT-CT-TTTCTTTTT--TTCTTTGTTTTTCTTTATTTTTT-C
* *
474379 TTTTGTTCGTGTTTCTCTTTTTTCTTTGTTTTTCTTTGTTTTTTT
1 TTTTGTTC-T-TTTCT-TTTTTTCTTTGTTTTTCTTTATTTTTTC
474424 TTTTGCTTCTTTTCTTTTTT
1 TTTTG-TTCTTTTCTTTTTT
474444 CTTCTTGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
43 5 0.09
44 9 0.16
45 27 0.47
46 16 0.28
ACGTcount: A:0.02, C:0.14, G:0.08, T:0.76
Consensus pattern (42 bp):
TTTTGTTCTTTTCTTTTTTTCTTTGTTTTTCTTTATTTTTTC
Found at i:474408 original size:17 final size:16
Alignment explanation
Indices: 474364--474445 Score: 60
Period size: 17 Copynumber: 4.9 Consensus size: 16
474354 GATTCTTGTT
*
474364 TTTTTTATTTTTTC-C
1 TTTTTTCTTTTTTCTC
* *
474379 TTTTGTTCGTGTTTCTC
1 TTTT-TTCTTTTTTCTC
*
474396 TTTTTTCTTTGTTTTTC
1 TTTTTTCTTT-TTTCTC
*
474413 TTTGTTT-TTTTTTTTGC
1 TTT-TTTCTTTTTTCT-C
474430 TTCTTTTCTTTTTTCT
1 TT-TTTTCTTTTTTCT
474446 TCTTGATTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
15 4 0.08
16 16 0.30
17 22 0.42
18 11 0.21
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.78
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTC
Found at i:474412 original size:10 final size:10
Alignment explanation
Indices: 474397--474421 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
474387 GTGTTTCTCT
474397 TTTTTCTTTG
1 TTTTTCTTTG
474407 TTTTTCTTTG
1 TTTTTCTTTG
474417 TTTTT
1 TTTTT
474422 TTTTTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTG
Found at i:474436 original size:15 final size:15
Alignment explanation
Indices: 474407--474449 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
474397 TTTTTCTTTG
* *
474407 TTTTTCTTTGTTTTTT
1 TTTTTC-TTCTTTTCT
474423 TTTTTGCTTCTTTTCT
1 TTTTT-CTTCTTTTCT
474439 TTTTTCTTCTT
1 TTTTTCTTCTT
474450 GATTGGATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 17 0.71
17 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (15 bp):
TTTTTCTTCTTTTCT
Found at i:474443 original size:7 final size:7
Alignment explanation
Indices: 474364--474446 Score: 53
Period size: 7 Copynumber: 11.3 Consensus size: 7
474354 GATTCTTGTT
*
474364 TTTTTTA
1 TTTTTTC
474371 TTTTTTCC
1 TTTTTT-C
474379 TTTTGTTC
1 TTTT-TTC
*
474387 GTGTTTCTC
1 -T-TTTTTC
474396 TTTTTTC
1 TTTTTTC
474403 TTTGTTT-
1 TTT-TTTC
* *
474410 TTCTTTG
1 TTTTTTC
474417 TTTTTT-
1 TTTTTTC
*
474423 TTTTTGC
1 TTTTTTC
474430 TTCTTTTC
1 TT-TTTTC
474438 TTTTTTC
1 TTTTTTC
474445 TT
1 TT
474447 CTTGATTGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
6 8 0.13
7 30 0.49
8 15 0.25
9 5 0.08
10 3 0.05
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:474448 original size:10 final size:9
Alignment explanation
Indices: 474390--474449 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
474380 TTTGTTCGTG
*
474390 TTTCTCTTT
1 TTTCTTTTT
474399 TTTCTTTGTT
1 TTTCTTT-TT
*
474409 TTTCTTTGT
1 TTTCTTTTT
474418 TTT-TTTTT
1 TTTCTTTTT
* *
474426 TTGC-TTCT
1 TTTCTTTTT
474434 TTTCTTTTT
1 TTTCTTTTT
474443 TCTTCTT
1 T-TTCTT
474450 GATTGGATCT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
8 12 0.30
9 14 0.35
10 14 0.35
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:475559 original size:8 final size:8
Alignment explanation
Indices: 475543--475581 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
475533 AATGTAGATG
475543 AAAATGCA
1 AAAATGCA
*
475551 AAAAGGCA
1 AAAATGCA
475559 AAAATGC-
1 AAAATGCA
475566 AAAATGCA
1 AAAATGCA
*
475574 AGAATGCA
1 AAAATGCA
475582 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:475569 original size:15 final size:15
Alignment explanation
Indices: 475543--475581 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
475533 AATGTAGATG
475543 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
475559 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
475574 AGAATGCA
1 AAAATGCA
475582 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:478138 original size:2 final size:2
Alignment explanation
Indices: 478127--478164 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
478117 AAAAGGAAAA
*
478127 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
478165 CAAAGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:478688 original size:18 final size:17
Alignment explanation
Indices: 478667--478709 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
478657 ATATATACAT
478667 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
478685 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
478702 ATAA-AATA
1 ATAATAATA
478710 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:479266 original size:31 final size:30
Alignment explanation
Indices: 479213--479276 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
479203 CACATATATC
*
479213 AATAAAAAAACAAGTAAACGTTCATGTCTA
1 AATAAAAAAACAAATAAACGTTCATGTCTA
**
479243 AATAAAAATAACAAATAGTCGTTCATGTCTA
1 AATAAAAA-AACAAATAAACGTTCATGTCTA
479274 AAT
1 AAT
479277 TAGTAAATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (30 bp):
AATAAAAAAACAAATAAACGTTCATGTCTA
Found at i:480083 original size:2 final size:2
Alignment explanation
Indices: 480078--480102 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
480068 AAAAAAAAAA
480078 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
480103 AATCATGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:480273 original size:15 final size:16
Alignment explanation
Indices: 480229--480291 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
480219 GTTAAGTTTG
*
480229 ATTGAAATTTAAAATTT
1 ATTG-AATTTAAAAATT
480246 AATT-AAGTTTAAAAATCT
1 -ATTGAA-TTTAAAAAT-T
480264 A-T-AATTT-AAAATT
1 ATTGAATTTAAAAATT
480277 ATTGAATTTAAAAAT
1 ATTGAATTTAAAAAT
480292 AAAAATTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 2 0.05
14 6 0.15
15 8 0.21
16 10 0.26
17 9 0.23
18 4 0.10
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTGAATTTAAAAATT
Found at i:480972 original size:32 final size:32
Alignment explanation
Indices: 480911--480978 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
480901 GTTGTGGACA
* ** *
480911 TCATCTTCAATCTCTTACATTAAACACTCCTT
1 TCATCTTCAATCTCCTACACAAAAAACTCCTT
*
480943 TCATCTTCAATCTCCTACGCAAAAAACTCCTT
1 TCATCTTCAATCTCCTACACAAAAAACTCCTT
480975 TCAT
1 TCAT
480979 TAAACCAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.32, G:0.01, T:0.37
Consensus pattern (32 bp):
TCATCTTCAATCTCCTACACAAAAAACTCCTT
Found at i:485346 original size:5 final size:5
Alignment explanation
Indices: 485322--485386 Score: 51
Period size: 5 Copynumber: 12.4 Consensus size: 5
485312 ACTTTGGCCC
* *
485322 TTATT TTATGT TTATGT TTATT TTATT TTGTTT TTACTT TTCTT TTATT
1 TTATT TTAT-T TTAT-T TTATT TTATT TT-ATT TTA-TT TTATT TTATT
* *
485371 GT-TG TTATT TTATT TT
1 TTATT TTATT TTATT TT
485387 TTTAAAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
4 2 0.04
5 27 0.56
6 19 0.40
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:485372 original size:20 final size:19
Alignment explanation
Indices: 485322--485386 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 19
485312 ACTTTGGCCC
485322 TTATTTTA-TG-T-TTATGT
1 TTATTTTATTGTTGTTAT-T
*
485339 TTATTTTATTTTGTTTTTACTT
1 TTATTTTA--TTGTTGTTA-TT
*
485361 TTCTTTTATTGTTGTTATT
1 TTATTTTATTGTTGTTATT
485380 TTATTTT
1 TTATTTT
485387 TTTAAAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.21
19 8 0.21
20 10 0.26
21 1 0.03
22 11 0.28
23 1 0.03
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (19 bp):
TTATTTTATTGTTGTTATT
Found at i:487310 original size:779 final size:778
Alignment explanation
Indices: 485813--487376 Score: 2950
Period size: 779 Copynumber: 2.0 Consensus size: 778
485803 TTTCAAACTA
*
485813 GTCTTTTAATTTAGGGAATAATTTGAGGTGGCCCTCGCATAAATGCTCAAGGGAGCATCTTAGTT
1 GTCTTTTAATTTAGGGAATAATTTGAGGTGGCCCTCGCATAAATGCTCAAGGGACCATCTTAGTT
485878 ATTCGATCCGATAATTGATTAAAATCAAATAGGGTTAATATTAGAGCATATATTTAGGTTTAATT
66 ATTCGATCCGATAATTGATTAAAATCAAATAGGGTTAATATTAGAGCATATATTTAGGTTTAATT
*
485943 CCCTAGGTTCCTTAATTTTCATAATTTGACACTTTAAGCTAGAAAAGACCTTAATTTACCCTTAG
131 CCCTAGGTTCCGTAATTTTCATAATTTGACACTTTAAGCTAGAAAAGACCTTAATTTACCCTTAG
486008 CTTAACTAAGACGAATAAAAATTTGTTTGATCGCATTCTATTTTCAAACCTAAGGCAATATTCAC
196 CTTAACTAAGACGAATAAAAATTTGTTTGATCGCATTCTATTTTCAAACCTAAGGCAATATTCAC
486073 TTATTAGGAAATTGATGGTACATCTCCTGCAAGTATGCTCAGGGGGTGACTACTGGTGATTCCCG
261 TTATTAGGAAATTGATGGTACATCTCCTGCAAGTATGCTCAGGGGGTGACTACTGGTGATTCCCG
486138 AAATAGGTCGACATCCTTTTCAAAACCGTATCATGTTTTCTAAAATTAAGGCAATGTACAGTTAT
326 AAATAGGTCGACATCCTTTTCAAAACCGTATCATGTTTTCTAAAATTAAGGCAATGTACAGTTAT
*
486203 TAGACACAATAGTTGATATCCCGCATCTATGCTAGGGGTGAATGCTATCGGTCTTAATAAATGGA
391 TAGACACAATAGTTGATATCCCGCATCTATGCTAGGGGTGAATGCTATCGGTCTTAATAAATGAA
486268 TACCCTTTTCAAATTTGCACCCATAATGATTTTCAAATTAAATAAAGATCGAACTCAAAATTTTT
456 TACCCTTTTCAAATTTGCACCCATAATGATTTTCAAATTAAATAAAGATCGAACTCAAAATTTTT
486333 GATTTTAAATATATGGTAATCAACTAGGTACCAATTTTTGGGCGCTTGTGGGATGCTAATCCTTC
521 GATTTTAAATATATGGTAATCAACTAGGTACCAATTTTTGGGCGCTTGTGGGATGCTAATCCTTC
486398 CCTACGCGTAACTGACTCTCGAACCTGATTTCTGGATTTTCGCAGACCTTAAAACTTGGTATTTT
586 CCTACGCGTAACTGACTCTCGAACCTGATTTCTGGATTTTCGCAGACCTTAAAACTTGGTATTTT
* *
486463 TATTAAAAAAATGTTTTATTAAAATCACCCAATTTTTACGGTGTCCCAATCATACCTTAAATGAT
651 TATTAAAAAAAAGTTTTATTAAAATCACCCAATTTTTACGGTGTCCCAATCACACCTTAAATGAT
*
486528 TGGCGACGACTCCTCACATTTCGAAAAAAACCTTTTCAAAAGAGAAAACTCTGAGTCGGTATCG
716 TGGCGACGACTCCTCACATTTCG-AAAAAACCTTTTCAAAAGAGAAAACTCCGAGTCGGTATCG
* *
486592 GTCTTTTAATTTAGGGAATAATTTGAGGTGGCCCTCGCATAAATGCTCGATGGACCATCTTAGTT
1 GTCTTTTAATTTAGGGAATAATTTGAGGTGGCCCTCGCATAAATGCTCAAGGGACCATCTTAGTT
* *
486657 ATTCGATCTGATAATTGATTAAAATCAAATAGGGTTAATATTAGAGCCTATATTTAGGTTTAATT
66 ATTCGATCCGATAATTGATTAAAATCAAATAGGGTTAATATTAGAGCATATATTTAGGTTTAATT
486722 CCCTAGGTTCCGTAATTTTCATAATTTGACACTTTAAGCTAGAAAAGACCTTAATTTACCCTTAG
131 CCCTAGGTTCCGTAATTTTCATAATTTGACACTTTAAGCTAGAAAAGACCTTAATTTACCCTTAG
*
486787 CTTAACTAAGACGAATAAAAATTTGTTTGATCGCATTCTATTTTCAAACCTAAGGCAATGTTCAC
196 CTTAACTAAGACGAATAAAAATTTGTTTGATCGCATTCTATTTTCAAACCTAAGGCAATATTCAC
486852 TTATTAGGAAATTGATGGTACATCTCCTGCAAGTATGCTCAGGGGGTGACTACTGGTGATTCCCG
261 TTATTAGGAAATTGATGGTACATCTCCTGCAAGTATGCTCAGGGGGTGACTACTGGTGATTCCCG
*
486917 AAATAGGTCGACATCCTTTTCAAAATCGTATCATGTTTTCTAAAATTAAGGCAATGTACAGTTAT
326 AAATAGGTCGACATCCTTTTCAAAACCGTATCATGTTTTCTAAAATTAAGGCAATGTACAGTTAT
*
486982 TAGACACAATAGTTGATATCCCGCATCTATGTTAGGGGTGAATGCTATCGGTCTTAATAAATGAA
391 TAGACACAATAGTTGATATCCCGCATCTATGCTAGGGGTGAATGCTATCGGTCTTAATAAATGAA
*
487047 TACCCTTTTCAAATTTGCACCTATAATGATTTTCAAATTAAATAAAGATCGAACTCAAAATTTTT
456 TACCCTTTTCAAATTTGCACCCATAATGATTTTCAAATTAAATAAAGATCGAACTCAAAATTTTT
*
487112 GATTTTAAATATATGGTAATCAATTAGGTACCAATTTTTGGGCGCTTGTGGGATGCTAATCCTTC
521 GATTTTAAATATATGGTAATCAACTAGGTACCAATTTTTGGGCGCTTGTGGGATGCTAATCCTTC
487177 CCTACGCGTTAA-TGACTCTCGAACCTGATTTCTGGATTTTCGCAGACCTTAAAACTTGGTATTT
586 CCTACGCG-TAACTGACTCTCGAACCTGATTTCTGGATTTTCGCAGACCTTAAAACTTGGTATTT
* *
487241 TTATTAAAAAAAAGTTTTATTAAAATCACCCGATTTTTACGTTGTCCCAATCACACCTTAAATGA
650 TTATTAAAAAAAAGTTTTATTAAAATCACCCAATTTTTACGGTGTCCCAATCACACCTTAAATGA
487306 TTGGCGACGACTCCTCACATTTCGAAAAAACCTTTTCAAAAGAGAAAACTCCGAGTCGGTATCG
715 TTGGCGACGACTCCTCACATTTCGAAAAAACCTTTTCAAAAGAGAAAACTCCGAGTCGGTATCG
487370 GTCTTTT
1 GTCTTTT
487377 CTCCGCACGG
Statistics
Matches: 767, Mismatches: 17, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
778 46 0.06
779 718 0.94
780 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (778 bp):
GTCTTTTAATTTAGGGAATAATTTGAGGTGGCCCTCGCATAAATGCTCAAGGGACCATCTTAGTT
ATTCGATCCGATAATTGATTAAAATCAAATAGGGTTAATATTAGAGCATATATTTAGGTTTAATT
CCCTAGGTTCCGTAATTTTCATAATTTGACACTTTAAGCTAGAAAAGACCTTAATTTACCCTTAG
CTTAACTAAGACGAATAAAAATTTGTTTGATCGCATTCTATTTTCAAACCTAAGGCAATATTCAC
TTATTAGGAAATTGATGGTACATCTCCTGCAAGTATGCTCAGGGGGTGACTACTGGTGATTCCCG
AAATAGGTCGACATCCTTTTCAAAACCGTATCATGTTTTCTAAAATTAAGGCAATGTACAGTTAT
TAGACACAATAGTTGATATCCCGCATCTATGCTAGGGGTGAATGCTATCGGTCTTAATAAATGAA
TACCCTTTTCAAATTTGCACCCATAATGATTTTCAAATTAAATAAAGATCGAACTCAAAATTTTT
GATTTTAAATATATGGTAATCAACTAGGTACCAATTTTTGGGCGCTTGTGGGATGCTAATCCTTC
CCTACGCGTAACTGACTCTCGAACCTGATTTCTGGATTTTCGCAGACCTTAAAACTTGGTATTTT
TATTAAAAAAAAGTTTTATTAAAATCACCCAATTTTTACGGTGTCCCAATCACACCTTAAATGAT
TGGCGACGACTCCTCACATTTCGAAAAAACCTTTTCAAAAGAGAAAACTCCGAGTCGGTATCG
Found at i:487644 original size:11 final size:11
Alignment explanation
Indices: 487628--487652 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
487618 GGGTAAGTGG
487628 TCTATTTTAGA
1 TCTATTTTAGA
487639 TCTATTTTAGA
1 TCTATTTTAGA
487650 TCT
1 TCT
487653 TAATATGTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (11 bp):
TCTATTTTAGA
Found at i:489185 original size:19 final size:19
Alignment explanation
Indices: 489161--489197 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
489151 ATGACCAATA
*
489161 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
489180 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
489198 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:489294 original size:21 final size:19
Alignment explanation
Indices: 489223--489316 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 19
489213 GTTTCCAGAT
**
489223 TCGCAATGCGATTTTGACGT
1 TCGCAATGCGATTTTGA-AA
*
489243 TCGCATTGCGATTTTCGAAA
1 TCGCAATGCGATTTT-GAAA
**
489263 TCCGCGTTGCGATTTTAGATAA
1 T-CGCAATGCGATTTT-GA-AA
* *
489285 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGATTTTG-AAA
*
489305 TCGCAACGCGAT
1 TCGCAATGCGAT
489317 AACACTTGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 28 0.47
21 28 0.47
22 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (19 bp):
TCGCAATGCGATTTTGAAA
Found at i:489349 original size:41 final size:39
Alignment explanation
Indices: 489304--489389 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 39
489294 GAATATGTAA
*
489304 ATCGCAACGCGATAAC-ACTTGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAT-ACGAC-T-ATCGCAACGAGATTCTGACT
*
489345 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATAC-GACTATCGCAACGAGATTCTGACT
489385 ATCGC
1 ATCGC
489390 GTTGAGATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
40 25 0.61
41 14 0.34
42 2 0.05
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
ATCGCAACGCGATACGACTATCGCAACGAGATTCTGACT
Found at i:489350 original size:20 final size:20
Alignment explanation
Indices: 489325--489389 Score: 121
Period size: 20 Copynumber: 3.2 Consensus size: 20
489315 ATAACACTTG
489325 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
489345 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
489365 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
489385 ATCGC
1 ATCGC
489390 GTTGAGATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:489584 original size:22 final size:22
Alignment explanation
Indices: 489552--489631 Score: 124
Period size: 22 Copynumber: 3.6 Consensus size: 22
489542 TCACTCTCTA
* *
489552 CGGCGACATCCATCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
* *
489574 CGACGAAATCCGTCCCCATTTC
1 CGGCGAAATCCGTCCCCATCTC
489596 CGGCGAAATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
489618 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
489632 TATCTTCATC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.19
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:489914 original size:12 final size:12
Alignment explanation
Indices: 489897--489921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
489887 GAAGTTAGTA
489897 TTTGTCTTTTGT
1 TTTGTCTTTTGT
489909 TTTGTCTTTTGT
1 TTTGTCTTTTGT
489921 T
1 T
489922 GAAGAAATGC
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:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (12 bp):
TTTGTCTTTTGT
Found at i:490089 original size:20 final size:20
Alignment explanation
Indices: 490031--490118 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
490021 GCAATTATCT
*
490031 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGTCATTTTCG
* **
490050 CGTTACGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
490070 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
490090 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
490110 TGTTGCGAT
1 CGTTGCGAT
490119 TTTAAGTTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
19 12 0.21
20 46 0.79
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:490128 original size:20 final size:20
Alignment explanation
Indices: 490085--490128 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
490075 CGATAATCAT
* *
490085 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
490105 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
490125 TTTC
1 TTTC
490129 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:491863 original size:18 final size:18
Alignment explanation
Indices: 491840--491887 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
491830 TACTCGTAAA
*
491840 TTCACTTATATTAACCAT
1 TTCACTTAGATTAACCAT
*
491858 TTCACTTGGATTAACCAT
1 TTCACTTAGATTAACCAT
*
491876 TTCACTTGGATT
1 TTCACTTAGATT
491888 GCTTAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (18 bp):
TTCACTTAGATTAACCAT
Found at i:492170 original size:20 final size:20
Alignment explanation
Indices: 492142--492278 Score: 82
Period size: 20 Copynumber: 7.5 Consensus size: 20
492132 AGAATAGTCA
* *
492142 CAACACGAAAATGATTATCG
1 CAACGCGAAAATGACTATCG
**
492162 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
*
492182 CAACG-G--GAT-A--ATCG
1 CAACGCGAAAATGACTATCG
* *
492196 CAATGCGAAAACGACTATCG
1 CAACGCGAAAATGACTATCG
**
492216 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
*
492236 CAACG-G--GAT-A--ATCG
1 CAACGCGAAAATGACTATCG
* *
492250 CAATGTGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
492270 CAACGCGAA
1 CAACGCGAA
492279 TTTAGTTTCG
Statistics
Matches: 86, Mismatches: 19, Indels: 24
0.67 0.15 0.19
Matches are distributed among these distances:
14 16 0.19
15 2 0.02
16 2 0.02
17 5 0.06
18 2 0.02
19 2 0.02
20 57 0.66
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:492215 original size:54 final size:54
Alignment explanation
Indices: 492147--492281 Score: 243
Period size: 54 Copynumber: 2.5 Consensus size: 54
492137 AGTCACAACA
*
492147 CGAAAATGATTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
1 CGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
*
492201 CGAAAACGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
1 CGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
*
492255 TGAAAATGACTATCGCAACGCGAATTT
1 CGAAAATGACTATCGCAACGCGAATTT
492282 AGTTTCGCGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (54 bp):
CGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
Found at i:492330 original size:33 final size:34
Alignment explanation
Indices: 492285--492364 Score: 126
Period size: 33 Copynumber: 2.4 Consensus size: 34
492275 CGAATTTAGT
* *
492285 TTCGCGTTGCGATTTTCTCGTTGCGATAGTC-AT
1 TTCGCGTTGCGATTATCTCGTTGCGATAGTCAAA
*
492318 TTTGCGTTGCGATTATCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTATCTCGTTGCGATAGTCAAA
492352 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
492365 AATCATTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 29 0.69
34 13 0.31
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (34 bp):
TTCGCGTTGCGATTATCTCGTTGCGATAGTCAAA
Found at i:492375 original size:20 final size:20
Alignment explanation
Indices: 492296--492375 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
492286 TCGCGTTGCG
*
492296 ATTTTCTCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
492316 ATTTT-GCGTTGCGAT--T-
1 ATTTTCGCGTTGCGATAGTC
*
492332 A---TCTCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTC
** *
492349 AAATTCGCGTTGCGATAATC
1 ATTTTCGCGTTGCGATAGTC
492369 ATTTTCG
1 ATTTTCG
492376 TGTTTCGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
13 1 0.02
14 9 0.19
16 2 0.04
17 2 0.04
19 9 0.19
20 24 0.51
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGTC
Found at i:492394 original size:20 final size:20
Alignment explanation
Indices: 492371--492414 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
492361 CGATAATCAT
*
492371 TTTCGTGTTTCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
492391 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
492411 TTTC
1 TTTC
492415 AGAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:492986 original size:21 final size:21
Alignment explanation
Indices: 492895--492999 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 21
492885 GACTTACCTG
*
492895 TCATCGTTCAAGAGGCCTCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
492916 TTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
492937 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * *
492958 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
* *
492979 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
493000 CAAACATTCT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:492999 original size:42 final size:42
Alignment explanation
Indices: 492891--493000 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
492881 GCCCGACTTA
** *
492891 CCTGTCATCGTTCAAGAGG-CCTCTCTTATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGTCC-CTCCCACCGTTCAAGAGGCC
* **
492933 CCTATCATCCCTCAAGA-GTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGT-CCCTCCCACCGTTCAAGAGGCC
*
492975 CCTGTCATCGTTGAAGAGGTCCCTCC
1 CCTGTCATCGTTCAAGAGGTCCCTCC
493001 AAACATTCTA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
41 1 0.02
42 50 0.91
43 4 0.07
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAGGCC
Found at i:494454 original size:36 final size:30
Alignment explanation
Indices: 494374--494439 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
494364 ATAAGAGTTG
494374 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
494404 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
494434 ATTTGT
1 ATTTGT
494440 GCTTGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:494614 original size:20 final size:20
Alignment explanation
Indices: 494589--494946 Score: 313
Period size: 20 Copynumber: 18.9 Consensus size: 20
494579 GCGATTTTCT
*
494589 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
494609 CGTTGCGATAGTTAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
494629 CGTTGTGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
494649 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
494669 TGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
494688 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
*
494702 CGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
494722 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
494742 CGTTGCGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCG
** *
494762 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCG
**
494782 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
494802 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
494816 CATTGCGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
**
494836 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
494856 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
494870 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
494890 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
494910 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
494930 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
494947 GAATGTGTAA
Statistics
Matches: 279, Mismatches: 41, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
14 31 0.11
16 3 0.01
17 1 0.00
18 2 0.01
19 16 0.06
20 226 0.81
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:494719 original size:93 final size:94
Alignment explanation
Indices: 494609--494790 Score: 258
Period size: 93 Copynumber: 1.9 Consensus size: 94
494599 GTCAAATTCC
* * * **
494609 CGTTGCGATAGTTAAATTCCCGTTGTGATAGTCAAATTCCCGTTGCGATAATCAAATTCGTGTTG
1 CGTTGCAATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTG
494674 CGATAGTCA-TTTCGCGTTGCGATTATCT
66 CGATAGTCATTTTCGCGTTGCGATTATCT
* * * * *
494702 CGTTGCAATAGTCAAATTCGCGTTGCGATAGTTAAATTCGCGTTGCGATAGTCATATTCACGTTG
1 CGTTGCAATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTG
*
494767 CGATAGTCATTTTTGCGTTGCGAT
66 CGATAGTCATTTTCGCGTTGCGAT
494791 AGTCATTTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 64 0.83
94 13 0.17
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (94 bp):
CGTTGCAATAGTCAAATTCCCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTG
CGATAGTCATTTTCGCGTTGCGATTATCT
Found at i:494828 original size:54 final size:54
Alignment explanation
Indices: 494577--494918 Score: 335
Period size: 54 Copynumber: 6.1 Consensus size: 54
494567 CTAATACACT
* * * * ** *
494577 TTGCGATTTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAGTTAAATTCCCG
1 TTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
* * *
494631 TTGTGATAGTCAAATTCCCGTTGCGATAATCAAATTCGTGTTGCGATAGTCA-TTTCGCG
1 TTGCGAT--T---A-TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
* * * **
494690 TTGCGATTATCTCGTTGCAATAGTCAAATTCGCGTTGCGATAGTTAAATTCGCG
1 TTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
* ** * *
494744 TTGCGATAGTCATATTCACGTTGCGATAGTCATTTTTGCGTTGCGATAGTCATTTTCGCA
1 TTGCG--A-T--TA-TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
* * *
494804 TTGCGATTATCCCATTGCGATAGTCAAATTTGCGTTGCGATAGTCATTTTCGCA
1 TTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
* * *
494858 TTGCGATTATCCCGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCGCG
1 TTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
494912 TTGCGAT
1 TTGCGAT
494919 AGTCATATTC
Statistics
Matches: 240, Mismatches: 35, Indels: 26
0.80 0.12 0.09
Matches are distributed among these distances:
53 32 0.13
54 114 0.47
55 2 0.01
56 2 0.01
57 3 0.01
58 1 0.00
59 13 0.05
60 73 0.30
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (54 bp):
TTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCG
Found at i:494840 original size:74 final size:74
Alignment explanation
Indices: 494722--494943 Score: 227
Period size: 74 Copynumber: 3.0 Consensus size: 74
494712 GTCAAATTCG
* * * * *
494722 CGTTGCGATA-GTTAAATTCGCGTTGCGATAGTCATATTCACGTTGCGATAGTCATTTTTGCGTT
1 CGTTGCGATATG-CAAATTCACATTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTT
494786 GCGATAGTCA
65 GCGATAGTCA
* * * * * * * *
494796 -TTTTCGCAT-TGCGATTATCCCATTGCGATAGTCAAATTTGCGTTGCGATAGTCATTTTCGCAT
1 CGTTGCG-ATATGCAAAT-TCACATTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGT
*
494859 TGCGATTA-TCC
64 TGCGA-TAGTCA
* * *
494870 CGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGATAGTCATATTCGCGTTG
1 CGTTGCGATATGCAAATTCACATTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTTG
494935 CGATAGTCA
66 CGATAGTCA
494944 AATGAATGTG
Statistics
Matches: 116, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
73 8 0.07
74 98 0.84
75 10 0.09
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (74 bp):
CGTTGCGATATGCAAATTCACATTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTTG
CGATAGTCA
Found at i:495144 original size:18 final size:18
Alignment explanation
Indices: 495121--495155 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
495111 AAGCCGGTTG
*
495121 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
495139 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
495156 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:497212 original size:14 final size:14
Alignment explanation
Indices: 497193--497229 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
497183 TCCCGTGGCA
497193 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
497207 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
497221 TTCTTCTTC
1 TT-TTCTTC
497230 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:497453 original size:24 final size:23
Alignment explanation
Indices: 497422--497473 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
497412 AAACATCATC
497422 AAAATCCGAGTATTGACCAAGAT
1 AAAATCCGAGTATTGACCAAGAT
*
497445 AAAAGTCCGGGTATTGACCAAGAT
1 AAAA-TCCGAGTATTGACCAAGAT
*
497469 CAAAT
1 AAAAT
497474 TTCGAATACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (23 bp):
AAAATCCGAGTATTGACCAAGAT
Found at i:498323 original size:22 final size:22
Alignment explanation
Indices: 498293--498335 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
498283 AATTCAGTGA
*
498293 TGCGTTAGTCAGAATCGCATTT
1 TGCGATAGTCAGAATCGCATTT
498315 TGCGATAGTCAGAATCGCATT
1 TGCGATAGTCAGAATCGCATT
498336 GCGATCACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (22 bp):
TGCGATAGTCAGAATCGCATTT
Found at i:498358 original size:21 final size:21
Alignment explanation
Indices: 498328--498464 Score: 165
Period size: 21 Copynumber: 6.6 Consensus size: 21
498318 GATAGTCAGA
*
498328 ATCGCATTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
498349 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
498369 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
*
498390 ATCTCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
498411 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
*
498431 ATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
498452 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
498465 TTACATATTC
Statistics
Matches: 98, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.04
20 30 0.31
21 60 0.61
22 4 0.04
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:498365 original size:41 final size:41
Alignment explanation
Indices: 498314--498402 Score: 160
Period size: 41 Copynumber: 2.2 Consensus size: 41
498304 GAATCGCATT
498314 TTGCGATAGTCAGAATCGCATTGCGATCACGTATTATCGCG
1 TTGCGATAGTCAGAATCGCATTGCGATCACGTATTATCGCG
* *
498355 TTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCTCG
1 TTGCGATAGTCAGAATCGCATTGCGATCACGTATTATCGCG
498396 TTGCGAT
1 TTGCGAT
498403 CACGTATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TTGCGATAGTCAGAATCGCATTGCGATCACGTATTATCGCG
Found at i:498408 original size:62 final size:62
Alignment explanation
Indices: 498328--498464 Score: 247
Period size: 62 Copynumber: 2.2 Consensus size: 62
498318 GATAGTCAGA
*
498328 ATCGCATTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATT
* *
498390 ATCTCGTTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATT
498452 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
498465 TTACATATTC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (62 bp):
ATCGCGTTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATT
Found at i:498496 original size:62 final size:62
Alignment explanation
Indices: 498328--498497 Score: 202
Period size: 62 Copynumber: 2.7 Consensus size: 62
498318 GATAGTCAGA
* * * *
498328 ATCGCATTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCACATATTATCGCATTGCGATAGTCAAAATCGCGTTGCGATCACGTATT
* * * * *
498390 ATCTCGTTGCGATCACGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACATATTATCGCATTGCGATAGTCAAAATCGCGTTGCGATCACGTATT
*
498452 ATCGCGTTGCGATTTACATA-T-TCGCATTGCGATTA-TCTAAAATCGC
1 ATCGCGTTGCGA-TCACATATTATCGCATTGCGA-TAGTC-AAAATCGC
498498 AACGCGGATT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
61 12 0.12
62 80 0.82
63 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (62 bp):
ATCGCGTTGCGATCACATATTATCGCATTGCGATAGTCAAAATCGCGTTGCGATCACGTATT
Found at i:498583 original size:20 final size:19
Alignment explanation
Indices: 498559--498605 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
498549 TGGAAACTGA
*
498559 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
498579 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
498598 ATTGCGAT
1 ATTGCGAT
498606 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:498595 original size:19 final size:19
Alignment explanation
Indices: 498571--498607 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
498561 TGCGATAATG
*
498571 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
498590 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
498608 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:506978 original size:23 final size:24
Alignment explanation
Indices: 506938--506991 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
506928 CAACGATTAA
506938 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
506962 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
506985 ATGTAAA
1 ATGTAAA
506992 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATTT
Found at i:509243 original size:15 final size:15
Alignment explanation
Indices: 509223--509264 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
509213 CTACAAAGGA
509223 AATGAATAATATATT
1 AATGAATAATATATT
509238 AATGAATAATATATT
1 AATGAATAATATATT
*
509253 AATGAATGATAT
1 AATGAATAATAT
509265 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (15 bp):
AATGAATAATATATT
Found at i:509522 original size:24 final size:24
Alignment explanation
Indices: 509474--509525 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
509464 TTTGGGTTCA
*
509474 GGTTCGGGTATGGGTTTAGGTTTG
1 GGTTCGGGTATGGGTTGAGGTTTG
*
509498 GGTTCGGGTTTGGGGTTGAGG-TTG
1 GGTTCGGGTAT-GGGTTGAGGTTTG
509522 GGTT
1 GGTT
509526 ACAAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.06, C:0.04, G:0.50, T:0.40
Consensus pattern (24 bp):
GGTTCGGGTATGGGTTGAGGTTTG
Found at i:509524 original size:18 final size:17
Alignment explanation
Indices: 509465--509525 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
509455 TTTTTTATGT
*
509465 TTGGGTTCA-GGTTCGGG
1 TTGGGTTTAGGGTT-GGG
*
509482 TATGGGTTTAGGTTTGGG
1 T-TGGGTTTAGGGTTGGG
*
509500 TTCGGGTTTGGGGTTGAGG
1 TT-GGGTTTAGGGTTG-GG
509519 TTGGGTT
1 TTGGGTT
509526 ACAAAATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 2 0.06
18 27 0.75
19 7 0.19
ACGTcount: A:0.07, C:0.05, G:0.48, T:0.41
Consensus pattern (17 bp):
TTGGGTTTAGGGTTGGG
Found at i:510228 original size:6 final size:6
Alignment explanation
Indices: 510217--510289 Score: 66
Period size: 6 Copynumber: 12.3 Consensus size: 6
510207 TCCATATATA
*
510217 ATTAAT ATTAAT A--AACT ATTTAT AATTAAT ATTAAT ATTAAT A-T-AT
1 ATTAAT ATTAAT ATTAA-T ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
510263 ATTATAT ATT-AT AATTAAT ATTAAT AT
1 ATTA-AT ATTAAT -ATTAAT ATTAAT AT
510290 AAACTATATT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
4 5 0.09
5 6 0.11
6 32 0.57
7 13 0.23
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:510271 original size:23 final size:21
Alignment explanation
Indices: 510212--510283 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 21
510202 TTTCATCCAT
*
510212 ATATAATTAATATTAATAAACTA
1 ATATAATTAATATT-AT-AATTA
*
510235 TTTATAATTAATATTA-ATATTA
1 -ATATAATTAATATTATA-ATTA
510257 ATATATATTATATATTATAATTA
1 ATATA-ATTA-ATATTATAATTA
510280 ATAT
1 ATAT
510284 TAATATAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 15 0.37
24 14 0.34
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATAATTAATATTATAATTA
Found at i:510278 original size:35 final size:36
Alignment explanation
Indices: 510236--510311 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 36
510226 AATAAACTAT
* *
510236 TTATAATTAATATTAATATTAA-TATATATTATATA
1 TTATAATTAATATTAATATAAACTATATATTATAAA
*
510271 TTATAATTAATATTAATATAAACTATATTTTATAAA
1 TTATAATTAATATTAATATAAACTATATATTATAAA
510307 TTATA
1 TTATA
510312 TAGTATAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 21 0.57
36 16 0.43
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (36 bp):
TTATAATTAATATTAATATAAACTATATATTATAAA
Found at i:510312 original size:41 final size:36
Alignment explanation
Indices: 510227--510298 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 36
510217 ATTAATATTA
*
510227 ATAAACTAT-TTATAATTAATATTAATATTAATATAT
1 ATAAA-TATATTATAATTAATATTAATATAAATATAT
*
510263 AT-TATATATTATAATTAATATTAATATAAACTATAT
1 ATAAATATATTATAATTAATATTAATATAAA-TATAT
510299 TTTATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 3 0.09
35 22 0.69
36 7 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (36 bp):
ATAAATATATTATAATTAATATTAATATAAATATAT
Found at i:510362 original size:50 final size:49
Alignment explanation
Indices: 510237--510362 Score: 114
Period size: 50 Copynumber: 2.5 Consensus size: 49
510227 ATAAACTATT
* * *
510237 TATAATTAATATTAATATTAATATATATTATATATTATAATTAATATTAA
1 TATAATTTATATTAATA-TAATATATAGTATATATTATAACTAATATTAA
** *
510287 TATAAACTATATT-TTATAAATTATATAGTATAGT-TTATAAACT-ATAGTTAA
1 TATAATTTATATTAATAT-AA-TATATAGTATA-TATTAT-AACTAATA-TTAA
*
510338 TATAATTTATATTAATATAGTATAT
1 TATAATTTATATTAATATAATATAT
510363 GGTTTATAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
48 1 0.02
49 4 0.07
50 32 0.53
51 20 0.33
52 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (49 bp):
TATAATTTATATTAATATAATATATAGTATATATTATAACTAATATTAA
Found at i:510443 original size:117 final size:117
Alignment explanation
Indices: 510315--510565 Score: 502
Period size: 117 Copynumber: 2.1 Consensus size: 117
510305 AATTATATAG
510315 TATAGTTTATAAACTATAGTTAATATAATTTATATTAATATAGTATATGGTTTATAGACTAATAC
1 TATAGTTTATAAACTATAGTTAATATAATTTATATTAATATAGTATATGGTTTATAGACTAATAC
510380 TAAATACTATATTAACATAAACTATAGTTAATATGTTAATATTAATGTAAAC
66 TAAATACTATATTAACATAAACTATAGTTAATATGTTAATATTAATGTAAAC
510432 TATAGTTTATAAACTATAGTTAATATAATTTATATTAATATAGTATATGGTTTATAGACTAATAC
1 TATAGTTTATAAACTATAGTTAATATAATTTATATTAATATAGTATATGGTTTATAGACTAATAC
510497 TAAATACTATATTAACATAAACTATAGTTAATATGTTAATATTAATGTAAAC
66 TAAATACTATATTAACATAAACTATAGTTAATATGTTAATATTAATGTAAAC
510549 TATAGTTTATAAACTAT
1 TATAGTTTATAAACTAT
510566 CTACTACATT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 134 1.00
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (117 bp):
TATAGTTTATAAACTATAGTTAATATAATTTATATTAATATAGTATATGGTTTATAGACTAATAC
TAAATACTATATTAACATAAACTATAGTTAATATGTTAATATTAATGTAAAC
Found at i:510485 original size:45 final size:44
Alignment explanation
Indices: 510396--510525 Score: 124
Period size: 45 Copynumber: 3.0 Consensus size: 44
510386 CTATATTAAC
* *
510396 ATAAACTATAGTTAATATGTTAATATTAATGTAAACTATAGTTT
1 ATAAACTATAGTTAATATATTAATATTAATATAAACTATAGTTT
* * *
510440 ATAAACTATAGTTAATATAATTTATATTAATATAGTA-TATGGTTT
1 ATAAACTATAGTTAATAT-ATTAATATTAATATA-AACTATAGTTT
* * * *
510485 ATAGACTAATA-CTAA-ATACT-ATATTAACATAAACTATAGTT
1 ATAAACT-ATAGTTAATATATTAATATTAATATAAACTATAGTT
510526 AATATGTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 16 0.23
43 2 0.03
44 20 0.28
45 28 0.39
46 4 0.06
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (44 bp):
ATAAACTATAGTTAATATATTAATATTAATATAAACTATAGTTT
Found at i:510594 original size:36 final size:36
Alignment explanation
Indices: 510549--510624 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
510539 TAATGTAAAC
* *
510549 TATAGTTTATAAACTATCTACTACATTAATACAAAT
1 TATAATTTATAAACTATATACTACATTAATACAAAT
* *
510585 TATAATTTATAAACTATATACTATATTAATATAAAT
1 TATAATTTATAAACTATATACTACATTAATACAAAT
510621 TATA
1 TATA
510625 GTTAAGATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.42
Consensus pattern (36 bp):
TATAATTTATAAACTATATACTACATTAATACAAAT
Found at i:510624 original size:15 final size:15
Alignment explanation
Indices: 510606--510656 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
510596 AACTATATAC
510606 TATATTAATATAAAT
1 TATATTAATATAAAT
*
510621 TATAGTTAAGAT-AAT
1 TATA-TTAATATAAAT
* *
510636 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
510652 TATAT
1 TATAT
510657 AGTACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:510782 original size:20 final size:19
Alignment explanation
Indices: 510753--510854 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 19
510743 ACTATAGGTT
510753 ACATAT-ATAGTTTATATA
1 ACATATAATAGTTTATATA
510771 ACATATAAATAGATTGTATATA
1 ACATAT-AATAG-TT-TATATA
*
510793 TACATATATTATAGGTTATAT-
1 -ACATATA--ATAGTTTATATA
*
510814 --ATAT-ATAGTTTATATTT
1 ACATATAATAGTTTATA-TA
510831 AC-TATACATAGTTTATATA
1 ACATATA-ATAGTTTATATA
510850 TACAT
1 -ACAT
510855 GTACTATAAG
Statistics
Matches: 66, Mismatches: 3, Indels: 27
0.69 0.03 0.28
Matches are distributed among these distances:
15 9 0.14
16 1 0.02
18 13 0.20
19 1 0.02
20 16 0.24
21 3 0.05
22 12 0.18
23 7 0.11
24 4 0.06
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (19 bp):
ACATATAATAGTTTATATA
Found at i:510806 original size:24 final size:21
Alignment explanation
Indices: 510755--510816 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
510745 TATAGGTTAC
510755 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
510775 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
*
510798 ATATTATAGGTTATATATA
1 ATA-TATAGTTTATATATA
510817 TATAGTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 7 0.20
21 2 0.06
22 14 0.40
23 8 0.23
24 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:510816 original size:57 final size:55
Alignment explanation
Indices: 510743--510880 Score: 170
Period size: 57 Copynumber: 2.4 Consensus size: 55
510733 TTGTTTATAA
510743 ACTATAGGTTACATATATAGTTTATA-TAACATATAAATAGATTGTATATATACATAT
1 ACTATAGGTTACATATATAGTTTATATTAAC-TATAAATAG-TT-TATATATACATAT
* * * * *
510800 ATTATAGGTTATATATATATAGTTTATATTTACTATACATAGTTTATATATACATGT
1 ACTATAGG-T-TACATATATAGTTTATATTAACTATAAATAGTTTATATATACATAT
*
510857 ACTATAAGTTACATATATAGTTTA
1 ACTATAGGTTACATATATAGTTTA
510881 CATGTATACA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
55 14 0.20
56 1 0.01
57 25 0.36
58 3 0.04
59 24 0.34
60 3 0.04
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (55 bp):
ACTATAGGTTACATATATAGTTTATATTAACTATAAATAGTTTATATATACATAT
Found at i:510817 original size:24 final size:22
Alignment explanation
Indices: 510755--510818 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
510745 TATAGGTTAC
510755 ATATATA-GTTTATATA-ACAT
1 ATATATAGGTTTATATATACAT
* *
510775 ATAAATAGATTGTATATATACAT
1 ATATATAGGTT-TATATATACAT
510798 ATATTATAGGTTATATATATA
1 ATA-TATAGGTT-TATATATA
510819 TAGTTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.17
21 2 0.06
22 6 0.17
23 7 0.20
24 14 0.40
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (22 bp):
ATATATAGGTTTATATATACAT
Done.