Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 4 of 17
Found at i:416788 original size:79 final size:79
Alignment explanation
Indices: 416657--417042 Score: 637
Period size: 79 Copynumber: 4.9 Consensus size: 79
416647 CCTTTAATCG
*
416657 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAG
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
*
416722 TCCCGTTATTTTCA
66 CCCCGTTATTTTCA
*
416736 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCAAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
*
416801 TCCCGTTATTTTCA
66 CCCCGTTATTTTCA
* *
416815 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAG
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
*
416880 CCCCGTTATTTTCG
66 CCCCGTTATTTTCA
* * *
416894 AGGGGATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
**
416959 CCCCGTTATTACCA
66 CCCCGTTATTTTCA
* * *
416973 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAA
1 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
417038 CCCCG
66 CCCCG
417043 ATTTTATTTT
Statistics
Matches: 290, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 290 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (79 bp):
AGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAA
CCCCGTTATTTTCA
Found at i:417122 original size:53 final size:50
Alignment explanation
Indices: 416974--417121 Score: 163
Period size: 53 Copynumber: 2.9 Consensus size: 50
416964 TTATTACCAA
* *
416974 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCTAACCCC-GTTTTATTTCTAAAACACCAATTTTTCATAATC
* * *
417025 GGGGATACTCTAACCCCGATTTTATTTTTTTAGAACACC-GTTTTTCCATAATC
1 GGGGATACTCTAACCCCG-TTTTA--TTTCTAAAACACCAATTTTT-CATAATC
* * *
417078 GGGGATACTCTAGCCCCGTTGTTATCTCTAAAATACCAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAAACACCAATTTTT
417122 TTCTCGTCAG
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
50 1 0.01
51 30 0.38
52 12 0.15
53 37 0.46
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (50 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAAACACCAATTTTTCATAATC
Found at i:422363 original size:11 final size:12
Alignment explanation
Indices: 422333--422372 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
422323 AATTATTAAT
422333 TATTTATTTCTC
1 TATTTATTTCTC
422345 TATTTATTTCT-
1 TATTTATTTCTC
*
422356 TGTTTATTT-TC
1 TATTTATTTCTC
422367 -ATTTAT
1 TATTTAT
422373 AGTCGAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 6 0.24
11 8 0.32
12 11 0.44
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (12 bp):
TATTTATTTCTC
Found at i:425647 original size:30 final size:30
Alignment explanation
Indices: 425577--425648 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
425567 TTTTAGGTAA
* *
425577 AAAAGTTTATGTGAGTAAAAATTAAAAGTT
1 AAAAGTTTATTTGAGTAAAAATTAAAAGTC
** * * *
425607 AAAAACTTATTTGATTACAAATTAAAGGTC
1 AAAAGTTTATTTGAGTAAAAATTAAAAGTC
425637 AAAAGTTTATTT
1 AAAAGTTTATTT
425649 TATCTATTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.36
Consensus pattern (30 bp):
AAAAGTTTATTTGAGTAAAAATTAAAAGTC
Found at i:436114 original size:24 final size:24
Alignment explanation
Indices: 436086--436155 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
436076 AATAAAAATT
*
436086 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAAAA
*
436110 AGCCA-TAATTTTTGACAAACAAAA
1 AGCCACCAA-TTTTGACAAACAAAA
*
436134 AGGAACCACCATTTTTGACAAA
1 A-G--CCACCAATTTTGACAAA
436156 TACAAAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 2 0.05
24 20 0.54
25 1 0.03
27 13 0.35
28 1 0.03
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAAAA
Found at i:436155 original size:27 final size:27
Alignment explanation
Indices: 436088--436184 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
436078 TAAAAATTAG
* *
436088 CCACCAATTTTGACAAACAACAA-G--
1 CCACCATTTTTGACAAACAAAAAGGAA
**
436112 CCATAATTTTTGACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* * *
436139 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGGAA
*
436166 CCACCATTGTTGACAAACA
1 CCACCATTTTTGACAAACA
436185 CATGGTGGCT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
24 19 0.32
25 1 0.02
27 39 0.66
ACGTcount: A:0.45, C:0.24, G:0.09, T:0.22
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:436203 original size:24 final size:25
Alignment explanation
Indices: 436172--436229 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
436162 GTAACCACCA
*
436172 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
436196 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
436222 TTGTTGAC
1 TTGTTGAC
436230 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:438131 original size:21 final size:22
Alignment explanation
Indices: 438093--438138 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
438083 ATCTGTTGAA
* **
438093 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
438114 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
438136 ACT
1 ACT
438139 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:440710 original size:24 final size:24
Alignment explanation
Indices: 440682--440750 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
440672 AATAAAAATT
*
440682 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAAAA
*
440706 AGCCA-TAATTTTTGACAAACAAAA
1 AGCCACCAA-TTTTGACAAACAAAA
440730 AGGAACCACC-ATTTTGACAAA
1 A-G--CCACCAATTTTGACAAA
440751 TACAAAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.05
24 20 0.54
25 1 0.03
26 10 0.27
27 4 0.11
ACGTcount: A:0.46, C:0.23, G:0.10, T:0.20
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAAAA
Found at i:440757 original size:26 final size:26
Alignment explanation
Indices: 440715--440779 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
440705 AAGCCATAAT
440715 TTTTGACAAACAAAAAGGAACCACCA
1 TTTTGACAAACAAAAAGGAACCACCA
* * *
440741 TTTTGACAAATACAAAGTAACCACCA
1 TTTTGACAAACAAAAAGGAACCACCA
440767 TTGTTGACAAACA
1 TT-TTGACAAACA
440780 CATGGTGGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 25 0.74
27 9 0.26
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (26 bp):
TTTTGACAAACAAAAAGGAACCACCA
Found at i:440798 original size:24 final size:25
Alignment explanation
Indices: 440767--440824 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
440757 GTAACCACCA
*
440767 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
440791 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
440817 TTGTTGAC
1 TTGTTGAC
440825 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:445282 original size:167 final size:168
Alignment explanation
Indices: 444768--445641 Score: 1203
Period size: 167 Copynumber: 5.2 Consensus size: 168
444758 TTTTCCTACA
* * * * * * *
444768 AATTAAGATTTTTGATATTCTCA-AAAATAAAATCGTGAAAACAAATCACATAACTTTTAAAATA
1 AATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
* * * *
444832 AATAAACTTCATTGTGAGAATAATCTAACTATTTTTACATCAAAATAATGATCTAAAAT-TAAAA
66 AATAAACTTCATTGTGAGAATAATCAAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAA
* * *
444896 AATCCTATGCATACTAAATCATTCTTTTTACACCAACC
131 AATTCTATGCATACTAAGTCATTCTTTTTGCACCAACC
**
444934 AATTAAGATTTTTGTTTTTCTTTTAAAACAAAATCGT-AAAACAAATCACTTGACTATT-AAACA
1 AATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
* *
444997 AATAAAGTTCATTGTGAGAATAATCAAACTATTTTTACATCATGATAATGATCCAAAATAAAAAA
66 AATAAACTTCATTGTGAGAATAATCAAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAA
*
445062 AATTCTATGCATACTAAGTTATTCTTTTTGCACCAACC
131 AATTCTATGCATACTAAGTCATTCTTTTTGCACCAACC
* *
445100 GATTAAGATTTTTGTTTTTCTCATTAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
1 AATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
* * *
445165 AAT-AACTTTAATTGTGAGAATAATCTAACTATTTTTACATCAAGATAATGATCCAAAAT-AAAT
66 AATAAAC-TTCATTGTGAGAATAATCAAACTATTTTTACATCAAGATAATGATCCAAAATAAAAA
* * * * *
445228 AAATTCTATGCATGCTAAGCCATACATTTTGCTCCAACC
130 AAATTCTATGCATACTAAGTCATTCTTTTTGCACCAACC
* * *
445267 AATTAA-ATTTTTTGTTTTTCTCATAAAACAAAATTGTGAAAATAAATCACTTGACTCTTAAAAC
1 AATTAAGA-TTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAAC
* * * * *
445331 AAATAAACTTCATTATAAGAACAATCCAACTATTTTTACATCAAGATAAAGATCCAAAATAAAAA
65 AAATAAACTTCATTGTGAGAATAATCAAACTATTTTTACATCAAGATAATGATCCAAAAT---AA
*
445396 AAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACC
127 AAAAAATTCTATGCATACTAAGTCATTCTTTTTGCACCAACC
* * *
445438 AATTAAG-TTTTT-TTTTTCTAATAAAACAAAATCGTGAAAACAAATCACTTAACTATTGAAACA
1 AATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
* * * *
445501 AATAAACATT-TTTGTGAAAATAATCAAATTATTTTTACATCAAGATAATGATCCAACATAAAAA
66 AATAAAC-TTCATTGTGAGAATAATCAAACTATTTTTACATCAAGATAATGATCCAAAATAAAAA
445565 AAATT-TATGCATACTAAGTCATTCTTTTTGCACCAACC
130 AAATTCTATGCATACTAAGTCATTCTTTTTGCACCAACC
*
445603 AATTAAGATATTTGTTTTTCTCATAAAACAAAATCGTGA
1 AATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGA
445642 GAATAATCCA
Statistics
Matches: 625, Mismatches: 68, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
165 97 0.16
166 123 0.20
167 202 0.32
168 60 0.10
169 92 0.15
170 7 0.01
171 44 0.07
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.34
Consensus pattern (168 bp):
AATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
AATAAACTTCATTGTGAGAATAATCAAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAA
AATTCTATGCATACTAAGTCATTCTTTTTGCACCAACC
Found at i:445540 original size:336 final size:332
Alignment explanation
Indices: 444768--445647 Score: 1207
Period size: 336 Copynumber: 2.6 Consensus size: 332
444758 TTTTCCTACA
* * * * * * *
444768 AATTAAGATTTTTGATATTCTCA-AAAATAAAATCGTGAAAACAAATCACATAACTTTTAAAATA
1 AATTAAGATTTTTGTTTTTCTAATAAAACAAAATCGTGAAAACAAATCACTTAACTATTAAAACA
* * *
444832 AATAAACTTCATTGTGAGAATAATCTAACTATTTTTACATCAAAATAATGATCTAAAATTAAAAA
66 AATAAACTT-TTTGTGAGAATAATCTAACTATTTTTACATCAAGATAATGATCCAAAA-TAAAAA
* * * **
444897 ATCCTATGCATACTAAATCATTCTTTTTACACCAACCAATTAAGATTTTTGTTTTTCTTTTAAAA
129 ATTCTATGCATACTAAGTCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAA
* * * * *
444962 CAAAATCGT-AAAACAAATCACTTGACTATTAAACAAATAAAGTTCATTGTGAGAATAATCAAAC
194 CAAAATCGTGAAAATAAATCACTTGACTATTAAACAAATAAACTTCATTATAAGAACAATCAAAC
* * **
445026 TATTTTTACATCATGATAATGATCCAAAATAAAAAAAATTCTATGCATACTAAGTTATTCTTTTT
259 TATTTTTACATCAAGATAAAGATCCAAAATAAAAAAAATTCTATGCATACTAAGCCATTCTTTTT
445091 GCACCAACC
324 GCACCAACC
* * * *
445100 GATTAAGATTTTTGTTTTTCTCATTAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAACA
1 AATTAAGATTTTTGTTTTTCTAATAAAACAAAATCGTGAAAACAAATCACTTAACTATTAAAACA
445165 AAT-AACTTTAATTGTGAGAATAATCTAACTATTTTTACATCAAGATAATGATCCAAAATAAATA
66 AATAAACTTT--TTGTGAGAATAATCTAACTATTTTTACATCAAGATAATGATCCAAAATAAA-A
* * * * *
445229 AATTCTATGCATGCTAAGCCATACATTTTGCTCCAACCAATTAA-ATTTTTTGTTTTTCTCATAA
128 AATTCTATGCATACTAAGTCATTCTTTTTGCACCAACCAATTAAGA-TTTTTGTTTTTCTCATAA
* * *
445293 AACAAAATTGTGAAAATAAATCACTTGACTCTTAAAACAAATAAACTTCATTATAAGAACAATCC
192 AACAAAATCGTGAAAATAAATCACTTGACTATT-AAACAAATAAACTTCATTATAAGAACAATCA
445358 AACTATTTTTACATCAAGATAAAGATCCAAAATAAAAAAAAAAATTCTATGCATACTAAGCCATT
256 AACTATTTTTACATCAAGATAAAGATCCAAAAT---AAAAAAAATTCTATGCATACTAAGCCATT
445423 CTTTTTGCACCAACC
318 CTTTTTGCACCAACC
*
445438 AATTAAG-TTTTT-TTTTTCTAATAAAACAAAATCGTGAAAACAAATCACTTAACTATTGAAACA
1 AATTAAGATTTTTGTTTTTCTAATAAAACAAAATCGTGAAAACAAATCACTTAACTATTAAAACA
* * * *
445501 AATAAACATTTTTGTGAAAATAATCAAATTATTTTTACATCAAGATAATGATCCAACATAAAAAA
66 AATAAAC-TTTTTGTGAGAATAATCTAACTATTTTTACATCAAGATAATGATCCAA-A-ATAAAA
*
445566 AATT-TATGCATACTAAGTCATTCTTTTTGCACCAACCAATTAAGATATTTGTTTTTCTCATAAA
128 AATTCTATGCATACTAAGTCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAA
*
445630 ACAAAATCGTGAGAATAA
193 ACAAAATCGTGAAAATAA
445648 TCCAATTATT
Statistics
Matches: 482, Mismatches: 51, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
332 30 0.06
333 146 0.30
334 19 0.04
335 57 0.12
336 160 0.33
337 15 0.03
338 55 0.11
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (332 bp):
AATTAAGATTTTTGTTTTTCTAATAAAACAAAATCGTGAAAACAAATCACTTAACTATTAAAACA
AATAAACTTTTTGTGAGAATAATCTAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAT
TCTATGCATACTAAGTCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACA
AAATCGTGAAAATAAATCACTTGACTATTAAACAAATAAACTTCATTATAAGAACAATCAAACTA
TTTTTACATCAAGATAAAGATCCAAAATAAAAAAAATTCTATGCATACTAAGCCATTCTTTTTGC
ACCAACC
Found at i:446162 original size:434 final size:430
Alignment explanation
Indices: 445289--446104 Score: 1097
Period size: 429 Copynumber: 1.9 Consensus size: 430
445279 TGTTTTTCTC
**
445289 ATAAAACAAAATTGTGAAAATAAATCACTTGACTCTTAAAACAAATAAACTTCATTATAAGAACA
1 ATAAAACAAAATCATGAAAATAAATCACTTGACTCTTAAAACAAATAAACTTCATTATAAGAACA
* *
445354 ATCCAACTATTTTTACATCAAGATAAAGATCCAAAATAAAAAAAAAAATTCTATGCATACTAAGC
66 ATCCAACTACTTTAACATCAAGATAAAGATCCAAAAT--AAAAAAAAATTCTATGCATACTAAGC
* *
445419 CATTCTTTTTGCACCAACCAATTAAGTTTTTTTTTTCTAATAAAACAAAATCGTGAAAACAAATC
129 CATTCTTTTCGCACCAACCAATTAAG-TTTTTTTTTCTAATAAAACAAAATCATGAAAACAAATC
* * * *
445484 ACTTAACTATTGAAACAAATAAACATTTTTGTGAAAATAATCAAATTATTTTTACATCAAGATAA
193 ACTTAACTATTAAAACAAATAAACATTATTGTGAAAATAATCAAACTACTTTTACATCAAGATAA
* * *
445549 TGATCCAACATAAAAAAAATTTATGCATACTAAGTCATTCTTTTTGCACCAACCAATTAAGATAT
258 TGATCCAAAATAAAAAAAATTTATACATACTAAGTCATTCTTTTTGCACCAACCAATTAAAATAT
* * * * * *** *
445614 TTGTTTTTCTCATAAAACAAAATCGTGAGAATAATCCAATTATTTTTACGCCAAGATAATGATTC
323 TTGTTTTTCTCATAAAACAAAATCATGAAAAAAATCCAATTACTCTTAAAACAAGATAATCATTC
* * ** * * *
445679 AAAATAAAAAAAATTCTATGCATACTAAGATTTTTGTTTTTCTA
388 AAAATAAAAAAAATTCTATGCACACCAAGATTAATG-TATCCAA
* * *
445723 ATAAAACAAAATCATGAAAATAAATCACTTGACTCTTAAAACAAATAAACTTTATTGTAAGAATA
1 ATAAAACAAAATCATGAAAATAAATCACTTGACTCTTAAAACAAATAAACTTCATTATAAGAACA
* *
445788 ATCCAACTACTTTAACATCAAGATAATGGTCCAAAAT-AAAAAAAATTCTATGCATACTAAGCCA
66 ATCCAACTACTTTAACATCAAGATAAAGATCCAAAATAAAAAAAAATTCTATGCATACTAAGCCA
*
445852 TTCTTTTCGCACCAACCAATTAAG-TTTTTTTTCTAATAAAACAAAATTATGAAAACAAATCACT
131 TTCTTTTCGCACCAACCAATTAAGTTTTTTTTTCTAATAAAACAAAATCATGAAAACAAATCACT
* * * *
445916 TGACTATTAAAACAAATAAAC-TTCATTGTGAGAATAATCCAACTACTTTTACATCACGATAATG
196 TAACTATTAAAACAAATAAACATT-ATTGTGAAAATAATCAAACTACTTTTACATCAAGATAATG
445980 ATCCAAAATTAAAAAAAAAATTCTATACATACTAAG-CTATTCTTTTTGCACCAACCAATTAAAA
260 ATCCAAAA-T--AAAAAAAATT-TATACATACTAAGTC-ATTCTTTTTGCACCAACCAATTAAAA
* * *
446044 T-TTTGTTTTTCTCATTAAATAAAATCATGAAAACAAAT-CACTTGACTCTTAAAACAA-ATAA
320 TATTTGTTTTTCTCATAAAACAAAATCATGAAAA-AAATCCAATT-ACTCTTAAAACAAGATAA
446105 ACTTCATTTT
Statistics
Matches: 340, Mismatches: 34, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
428 2 0.01
429 98 0.29
430 1 0.00
431 50 0.15
432 47 0.14
433 49 0.14
434 93 0.27
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (430 bp):
ATAAAACAAAATCATGAAAATAAATCACTTGACTCTTAAAACAAATAAACTTCATTATAAGAACA
ATCCAACTACTTTAACATCAAGATAAAGATCCAAAATAAAAAAAAATTCTATGCATACTAAGCCA
TTCTTTTCGCACCAACCAATTAAGTTTTTTTTTCTAATAAAACAAAATCATGAAAACAAATCACT
TAACTATTAAAACAAATAAACATTATTGTGAAAATAATCAAACTACTTTTACATCAAGATAATGA
TCCAAAATAAAAAAAATTTATACATACTAAGTCATTCTTTTTGCACCAACCAATTAAAATATTTG
TTTTTCTCATAAAACAAAATCATGAAAAAAATCCAATTACTCTTAAAACAAGATAATCATTCAAA
ATAAAAAAAATTCTATGCACACCAAGATTAATGTATCCAA
Found at i:446590 original size:168 final size:168
Alignment explanation
Indices: 445704--447334 Score: 2257
Period size: 169 Copynumber: 9.7 Consensus size: 168
445694 CTATGCATAC
* * *
445704 TAAGATTTTTGTTTTTCTAATAAAACAAAATCATGAAAATAAATCACTTGACTCTTAAAACAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
* * * * *
445769 AAACTTTATTGTAAGAATAATCCAACTACTTTAACATCAAGATAATGGTCCAAAATAAAAAAAAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
*
445834 TCTATGCATACTAAGCCATTCTTTTCGCACCAACCAAT
131 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * * *
445872 TAAG---TTT-TTTTTCTAATAAAACAAAATTATGAAAACAAATCACTTGACTATTAAAACAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
* *
445933 AAACTTCATTGTGAGAATAATCCAACTACTTTTACATCACGATAATGATCCAAAATTAAAAAAAA
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAA-T--AAAAAA
* *
445998 AATTCTATACATACTAAGCTATTCTTTTTGCACCAACCAAT
128 AATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * * *
446039 TAA-AATTTTGTTTTTCTCATTAAATAAAATCATGAAAACAAATCACTTGACTCTTAAAACAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
* * *
446103 AAACTTCATTTTGAGAATAATCCAACTATTTTTACACCAAGATAATGATCCAAAAT--AAAAGAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
* *
446166 TCTATGCATACTAAGCTATTCTTTTTGCACCATCCAAT
131 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * * ** *
446204 TAAGATTTTTATTTTTCTCATAAAACAAAATCGTAAAAACAAATTGCTTGACTATT-AAATCAAA
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAAT-AAA
*
446268 TAAACTTCATTGTGAGAATAATCCAACTATTTTTACCTCAAGATAATGATCCAAAAT-AAAAAAA
65 TAAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAA
* * *
446332 TTCTATACATACTAAGCTATTCTTTTTGCACCAATCAAT
130 TTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * ** *
446371 TAAGATTTTTGATTTTCTCATAAAACAAAGTTGTGAAAACAAATTACTTGACTCTTAAAATAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
* * * *
446436 AAACTTCTTTATGAGAATAATCCAACTATTTTTACATCACGATAATGATCTAAAATAAAAAAAAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
* *
446501 TCTATGCATACTTAGCCATTCTTCTTGCACCAACCAAT
131 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * *
446539 TAAGATTTTTGTTTTTCTAATAAAACGAAATCATGAAAACAAATCACTTGACTCTTAAAACAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
* * * * * *
446604 AAACTTTATTTTGAGAATAATCCAACAATTTTTACCTTAAGATAATGACCCAAAATAAAAAAAAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
* * * *
446669 TCTATGCGTACTAAGCCTTTTTTTTTTGCACCATCCAAT
131 TCTATGCATACTAAGCC-ATTCTTTTTGCACCAACCAAT
** * *
446708 TAAGATTTTTGTTTTTCTCATAAAACAAAATTGTGAAAACAAATCGCTTGACTATT-AAATCAAA
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAAT-AAA
* * *
446772 TAAACTTCATTGTGAGAATAATCTAACTATTTTTTCCTCAAGATAATGATCCAAAATAAAAAAAA
65 TAAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAA
446837 TTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
130 TTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* *
446876 TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTATTAAAATAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
** *
446941 AAACTTCATTGTGAGAATAATCCAACTATTTTTGTATCAAGATAATAATCCAAAATAAAAAAAAA
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAAT-AAAAAAAA
* *
447006 TTCTATGTATATTAAGCCATTCTTTTTGCACCAACCAAT
130 TTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * *
447045 TAAGATTTTTGTTTTTCTCATAAAACAGAATCGTGAAAACAAATCACTTGACTCTTAAAATAGAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
447110 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAATAAAAA
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAAT-AA-AAAAA
* * * *
447175 AATCTGTGCATACTAAGCTATTCTTTTTACACCAACCAAT
129 ATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
* * *
447215 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAAC----GACTTGACTCTTAAAACAAGT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
* * * * *
447276 ACTATTTCATCGTGTA-AATAATCCAACTATGTTTACATCAAGATAACGATCCAAAATAA
66 A-AACTTCATTGTG-AGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAA
447335 TAAGAATAAA
Statistics
Matches: 1314, Mismatches: 130, Indels: 40
0.89 0.09 0.03
Matches are distributed among these distances:
164 101 0.08
165 52 0.04
166 120 0.09
167 240 0.18
168 308 0.23
169 316 0.24
170 177 0.13
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (168 bp):
TAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAATAAAT
AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAAT
Found at i:446844 original size:337 final size:337
Alignment explanation
Indices: 445704--447334 Score: 2297
Period size: 337 Copynumber: 4.9 Consensus size: 337
445694 CTATGCATAC
* * * *
445704 TAAGATTTTTGTTTTTCTAATAAAACAAAATCATGAAAATAAATCACTTGACTCTTAAAACAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAATCAAAT
* * * * *
445769 AAACTTTATTGTAAGAATAATCCAACTACTTTAACATCAAGATAATGGTCCAAAATAAAAAAAAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
* *
445834 TCTATGCATACTAAGCCATTCTTTTCGCACCAACCAATTAAG---TTT-TTTTTCTAATAAAACA
131 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACA
*
445895 AAATTATGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTGTGAGAATAATCCAACT
196 AAATCATGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTGTGAGAATAATCCAACT
* *
445960 ACTTTTACATCACGATAATGATCCAAAATTAAAAAAAAAATTCTATACATACTAAGCTATTCTTT
261 ATTTTTACATCAAGATAATGATCCAAAA-T-AAAAAAAAATTCTATACATACTAAGCTATTCTTT
446025 TTGCACCAACCAAT
324 TTGCACCAACCAAT
* * * * *
446039 TAA-AATTTTGTTTTTCTCATTAAATAAAATCATGAAAACAAATCACTTGACTCTTAAAACAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAATCAAAT
* * *
446103 AAACTTCATTTTGAGAATAATCCAACTATTTTTACACCAAGATAATGATCCAAAAT--AAAAGAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
* * *
446166 TCTATGCATACTAAGCTATTCTTTTTGCACCATCCAATTAAGATTTTTATTTTTCTCATAAAACA
131 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACA
* * ** *
446231 AAATCGTAAAAACAAATTGCTTGACTATTAAATCAAATAAACTTCATTGTGAGAATAATCCAACT
196 AAATCATGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTGTGAGAATAATCCAACT
*
446296 ATTTTTACCTCAAGATAATGATCCAAAAT--AAAAAAATTCTATACATACTAAGCTATTCTTTTT
261 ATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAATTCTATACATACTAAGCTATTCTTTTT
*
446359 GCACCAATCAAT
326 GCACCAACCAAT
* * * *
446371 TAAGATTTTTGATTTTCTCATAAAACAAAGTTGTGAAAACAAATTACTTGACTCTTAAAAT-AAA
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTCTT-AAATCAAA
* * * *
446435 TAAACTTCTTTATGAGAATAATCCAACTATTTTTACATCACGATAATGATCTAAAATAAAAAAAA
65 TAAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAA
* * *
446500 TTCTATGCATACTTAGCCATTCTTCTTGCACCAACCAATTAAGATTTTTGTTTTTCTAATAAAAC
130 TTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * * *
446565 GAAATCATGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTTATTTTGAGAATAATCCAAC
195 AAAATCATGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * * * * * * *
446630 AATTTTTACCTTAAGATAATGACCCAAAAT-AAAAAAAATTCTATGCGTACTAAGCCTTTTTTTT
260 TATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAATTCTATACATACTAAG-CTATTCTTT
*
446694 TTGCACCATCCAAT
324 TTGCACCAACCAAT
* * *
446708 TAAGATTTTTGTTTTTCTCATAAAACAAAATTGTGAAAACAAATCGCTTGACTATTAAATCAAAT
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAATCAAAT
* * *
446773 AAACTTCATTGTGAGAATAATCTAACTATTTTTTCCTCAAGATAATGATCCAAAATAAAAAAAAT
66 AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
446838 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACA
131 TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACA
* *
446903 AAATCGTGAAAACAAATCACTTGACTATTAAAATAAATAAACTTCATTGTGAGAATAATCCAACT
196 AAATCATGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTGTGAGAATAATCCAACT
** * ** * *
446968 ATTTTTGTATCAAGATAATAATCCAAAATAAAAAAAAATTCTATGTATATTAAGCCATTCTTTTT
261 ATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAATTCTATACATACTAAGCTATTCTTTTT
447033 GCACCAACCAAT
326 GCACCAACCAAT
* *
447045 TAAGATTTTTGTTTTTCTCATAAAACAGAATCGTGAAAACAAATCACTTGACTCTTAAAAT-AGA
1 TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTCTT-AAATCAAA
447109 TAAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAATAAAA
65 TAAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAAT-AA-AAAA
* * * *
447174 AAATCTGTGCATACTAAGCTATTCTTTTTACACCAACCAATTAAGATTTTTGTTTTTCTCATAAA
128 AATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAA
* * * * * *
447239 ACAAAATCATGAAAAC----GACTTGACTCTTAAAACAAGTACTATTTCATCGTGTA-AATAATC
193 ACAAAATCATGAAAACAAATCACTTGACTATTAAAACAAATA-AACTTCATTGTG-AGAATAATC
* *
447299 CAACTATGTTTACATCAAGATAACGATCCAAAATAA
256 CAACTATTTTTACATCAAGATAATGATCCAAAATAA
447335 TAAGAATAAA
Statistics
Matches: 1153, Mismatches: 126, Indels: 33
0.88 0.10 0.03
Matches are distributed among these distances:
332 93 0.08
333 99 0.09
334 108 0.09
335 172 0.15
336 171 0.15
337 403 0.35
338 27 0.02
339 80 0.07
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.34
Consensus pattern (337 bp):
TAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAATCAAAT
AAACTTCATTGTGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAT
TCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACA
AAATCATGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTGTGAGAATAATCCAACT
ATTTTTACATCAAGATAATGATCCAAAATAAAAAAAAATTCTATACATACTAAGCTATTCTTTTT
GCACCAACCAAT
Found at i:452150 original size:2 final size:2
Alignment explanation
Indices: 452143--452169 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
452133 CCACCCAGTC
452143 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
452170 TTACAAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:453785 original size:27 final size:26
Alignment explanation
Indices: 453720--453785 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
453710 GTATTTCTAT
* *
453720 AATTTTATGTTTTAAAATATATTAATA
1 AATTTTA-GATTTAAAATATATTAAAA
* * *
453747 TATTCTATATTTAAAATATATTTAAAA
1 AATTTTAGATTTAAAATATA-TTAAAA
453774 AATTTTAGATTT
1 AATTTTAGATTT
453786 TTAATAACGA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
AATTTTAGATTTAAAATATATTAAAA
Found at i:456172 original size:2 final size:2
Alignment explanation
Indices: 456165--456193 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
456155 ACCAAATGCA
456165 AT AT 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 AT AT A
456194 AGGAAAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:458956 original size:21 final size:22
Alignment explanation
Indices: 458918--458963 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
458908 ATCTGTTGAA
* **
458918 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
458939 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
458961 ACT
1 ACT
458964 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:462552 original size:18 final size:18
Alignment explanation
Indices: 462515--462551 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
462505 TTATAATAAG
*
462515 TTATTTAACTAATTAATT
1 TTATATAACTAATTAATT
462533 TTATATAACTAATT-ATT
1 TTATATAACTAATTAATT
462550 TT
1 TT
462552 TTTATCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATAACTAATTAATT
Found at i:468181 original size:13 final size:13
Alignment explanation
Indices: 468163--468200 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
468153 GTAATTTGAT
468163 ATTTTTATTATTA
1 ATTTTTATTATTA
468176 ATTTTTATT-TTA
1 ATTTTTATTATTA
*
468188 ATTATTTGTTATT
1 ATT-TTTATTATT
468201 GTAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 6 0.27
13 14 0.64
14 2 0.09
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTTTTATTATTA
Found at i:468748 original size:3 final size:3
Alignment explanation
Indices: 468740--468773 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
468730 TAAGGACGAA
468740 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
468774 GTCTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:470428 original size:59 final size:59
Alignment explanation
Indices: 470338--470462 Score: 250
Period size: 59 Copynumber: 2.1 Consensus size: 59
470328 TAATTAATTT
470338 TTTTATTCACAATTGATTGAACAAATAAGTGAAAATAAACTACATGGTCTTTGCATAAA
1 TTTTATTCACAATTGATTGAACAAATAAGTGAAAATAAACTACATGGTCTTTGCATAAA
470397 TTTTATTCACAATTGATTGAACAAATAAGTGAAAATAAACTACATGGTCTTTGCATAAA
1 TTTTATTCACAATTGATTGAACAAATAAGTGAAAATAAACTACATGGTCTTTGCATAAA
470456 TTTTATT
1 TTTTATT
470463 TTATCTTTGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (59 bp):
TTTTATTCACAATTGATTGAACAAATAAGTGAAAATAAACTACATGGTCTTTGCATAAA
Found at i:470862 original size:20 final size:19
Alignment explanation
Indices: 470839--470932 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 19
470829 TTTAATGGAA
470839 TAATAGTTTTTTTAAGAAAG
1 TAATA-TTTTTTTAAGAAAG
*
470859 TAATAATTTTTTAAGATAA-
1 TAATATTTTTTTAAGA-AAG
*
470878 TAATCATCTTTTTAA-AAAG
1 TAAT-ATTTTTTTAAGAAAG
* * *
470897 TGATAATTTTTTTTAAAAAAT
1 TAAT-A-TTTTTTTAAGAAAG
*
470918 TGATATGTTTTTTAA
1 TAATAT-TTTTTTAA
470933 TATATTATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.03
19 20 0.33
20 32 0.52
21 7 0.11
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (19 bp):
TAATATTTTTTTAAGAAAG
Found at i:470870 original size:19 final size:19
Alignment explanation
Indices: 470846--470908 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
470836 GAATAATAGT
470846 TTTTTTAAGAAAGTAATAA
1 TTTTTTAAGAAAGTAATAA
*
470865 TTTTTTAAGATAA-TAATCA
1 TTTTTTAAGA-AAGTAATAA
*
470884 TCTTTTTAA-AAAGTGATAA
1 T-TTTTTAAGAAAGTAATAA
470903 TTTTTT
1 TTTTTT
470909 TTAAAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.18
19 22 0.58
20 9 0.24
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTTTTAAGAAAGTAATAA
Found at i:473410 original size:18 final size:19
Alignment explanation
Indices: 473387--473430 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
473377 TTTCATGAAA
473387 AATTTTA-CTT-TAATTATT
1 AATTTTATCTTCTAATT-TT
*
473405 AATTTTATCTTCTCATTTT
1 AATTTTATCTTCTAATTTT
473424 AATTTTA
1 AATTTTA
473431 AAATTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTATCTTCTAATTTT
Found at i:474906 original size:22 final size:22
Alignment explanation
Indices: 474876--474917 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
474866 TTTTATACAC
*
474876 TAAATGAAATTTTAA-ATTTTCA
1 TAAAAGAAA-TTTAATATTTTCA
474898 TAAAAGAAATTTAATATTTT
1 TAAAAGAAATTTAATATTTT
474918 GAAATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
TAAAAGAAATTTAATATTTTCA
Found at i:475184 original size:2 final size:2
Alignment explanation
Indices: 475177--475204 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
475167 CTTTGCTTTC
475177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
475205 ATTGCTCATC
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:476938 original size:12 final size:10
Alignment explanation
Indices: 476908--476932 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
476898 AAATGTATAA
476908 TTTATAATTT
1 TTTATAATTT
476918 TTTATAATTT
1 TTTATAATTT
476928 TTTAT
1 TTTAT
476933 TGAATTGGTA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATAATTT
Found at i:477778 original size:21 final size:18
Alignment explanation
Indices: 477741--477779 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
477731 ATAAAAAAAT
477741 TTAAAATTTATTTTTATA
1 TTAAAATTTATTTTTATA
477759 TTAATAATTATATATTTTATA
1 TTAA-AATT-TAT-TTTTATA
477780 ATTCAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 3 0.17
21 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAAATTTATTTTTATA
Found at i:479066 original size:16 final size:16
Alignment explanation
Indices: 479045--479075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
479035 TGATTCAAAA
479045 TCAAAATAACCTAAAC
1 TCAAAATAACCTAAAC
*
479061 TCAAAATAATCTAAA
1 TCAAAATAACCTAAA
479076 AATTTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (16 bp):
TCAAAATAACCTAAAC
Found at i:479292 original size:8 final size:8
Alignment explanation
Indices: 479279--479310 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
479269 TAATACAACT
479279 ATATAAAA
1 ATATAAAA
479287 ATATAAAA
1 ATATAAAA
479295 ATATATAAA
1 ATATA-AAA
479304 ATATAAA
1 ATATAAA
479311 TTATTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATATAAAA
Found at i:479322 original size:15 final size:16
Alignment explanation
Indices: 479286--479335 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
479276 ACTATATAAA
479286 AATATA-AAAATATAT
1 AATATATAAAATATAT
* *
479301 AAAATATAAATTAT-T
1 AATATATAAAATATAT
*
479316 AATATATTAAAATTTAT
1 AATATA-TAAAATATAT
479333 AAT
1 AAT
479336 TACATAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.41
16 12 0.44
17 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATATAAAATATAT
Found at i:479343 original size:25 final size:23
Alignment explanation
Indices: 479285--479354 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
479275 AACTATATAA
*
479285 AAATATAAAAATATA-TAAAATAT
1 AAAT-TAATAATATATTAAAATAT
* *
479308 AAATTATTAATATATTAAAATTT
1 AAATTAATAATATATTAAAATAT
479331 ATAATTACATAAT-TATTTAAAATA
1 A-AATTA-ATAATATA-TTAAAATA
479355 CTATTGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
22 8 0.21
23 12 0.32
24 7 0.18
25 11 0.29
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTAATAATATATTAAAATAT
Found at i:479663 original size:3 final size:3
Alignment explanation
Indices: 479655--479708 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
479645 TCAGGGAACC
* *
479655 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
479703 AAT AAT
1 AAT AAT
479709 TTTAATGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:487093 original size:38 final size:37
Alignment explanation
Indices: 487051--487312 Score: 246
Period size: 38 Copynumber: 6.9 Consensus size: 37
487041 TGCCACTGGT
*
487051 TAAGAATAGTAGTTTTTTTATTGAACCGTGCCACCGA
1 TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACCGA
* * * * *
487088 CTAAGAATAGCAGTTTTTGTAATGAACCATACCACCGGT
1 -TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACC-GA
* *
487127 TAAGAATAGTAATTTTTGTATTGAACTGTGCCACCGGA
1 TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACC-GA
* **
487165 TAAGAATAGTAGTTTTTGTAATGAATTGTGCCACCAGA
1 TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACC-GA
487203 TAAGAATAGT-GATTTTTGTATTGAACCGTGCCACCGA
1 TAAGAATAGTAG-TTTTTGTATTGAACCGTGCCACCGA
* * * * *
487240 TTTAGAATAGTTA-TTTTTGTTTTAAACCATGCCACCGGTT
1 -TAAGAATAG-TAGTTTTTGTATTGAACCGTGCCACC-G-A
487280 TAA-AATAGT-GATTTTTGT-TTCGAACCGTGCCAC
1 TAAGAATAGTAG-TTTTTGTATT-GAACCGTGCCAC
487313 TGGTTTAAAA
Statistics
Matches: 186, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
37 6 0.03
38 175 0.94
39 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (37 bp):
TAAGAATAGTAGTTTTTGTATTGAACCGTGCCACCGA
Found at i:487162 original size:76 final size:75
Alignment explanation
Indices: 487036--487312 Score: 326
Period size: 76 Copynumber: 3.7 Consensus size: 75
487026 ACTGGTTTCA
* * * *
487036 AACCATGCCACTGGTTAAGAATAGTAGTTTTTTTATTGAACCGTGCCACCGACTAAGAATAGCAG
1 AACCATGCCACCGGTTAAGAATAGTAATTTTTGTATTGAACCGTGCCACCGA-TAAGAATAGTAG
487101 TTTTTGTAATG
65 TTTTTGTAATG
* *
487112 AACCATACCACCGGTTAAGAATAGTAATTTTTGTATTGAACTGTGCCACCGGATAAGAATAGTAG
1 AACCATGCCACCGGTTAAGAATAGTAATTTTTGTATTGAACCGTGCCACC-GATAAGAATAGTAG
487177 TTTTTGTAATG
65 TTTTTGTAATG
*** * * * *
487188 AATTGTGCCACCAGATAAGAATAGTGATTTTTGTATTGAACCGTGCCACCGATTTAGAATAGTTA
1 AACCATGCCACCGGTTAAGAATAGTAATTTTTGTATTGAACCGTGCCACCGA-TAAGAATAG-TA
** *
487253 -TTTTTGTTTTA
64 GTTTTTGTAATG
*
487264 AACCATGCCACCGGTTTAA-AATAGTGATTTTTGT-TTCGAACCGTGCCAC
1 AACCATGCCACCGG-TTAAGAATAGTAATTTTTGTATT-GAACCGTGCCAC
487313 TGGTTTAAAA
Statistics
Matches: 173, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
75 4 0.02
76 162 0.94
77 7 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
AACCATGCCACCGGTTAAGAATAGTAATTTTTGTATTGAACCGTGCCACCGATAAGAATAGTAGT
TTTTGTAATG
Found at i:487247 original size:114 final size:114
Alignment explanation
Indices: 487035--487312 Score: 305
Period size: 114 Copynumber: 2.4 Consensus size: 114
487025 AACTGGTTTC
* * * *
487035 AAACCATGCCACTGGTTAAGAATAGTAGTTTTTTTATTGAACCGTGCCACCGACTAAGAATAGCA
1 AAACCATGCCACCGGATAAGAATAGTAGTTTTTGTAATGAACCGTGCCACCGACTAAGAATAGCA
*
487100 GTTTTTGTAATGAACCATACCACCGGTTAAGAATAGTAATTTTTGTATT
66 GTTTTTGTAATGAACCATACCACCGATTAAGAATAGTAATTTTTGTATT
* ** **
487149 GAACTGTGCCACCGGATAAGAATAGTAGTTTTTGTAATGAATTGTGCCACCAGA-TAAGAATAG-
1 AAACCATGCCACCGGATAAGAATAGTAGTTTTTGTAATGAACCGTGCCACC-GACTAAGAATAGC
* * * * * * *
487212 TGATTTTTGTATTGAACCGTGCCACCGATTTAGAATAGTTATTTTTGTTTT
65 AG-TTTTTGTAATGAACCATACCACCGATTAAGAATAGTAATTTTTGTATT
* *
487263 AAACCATGCCACCGGTTTAA-AATAGT-GATTTTTGT-TTCGAACCGTGCCAC
1 AAACCATGCCACCGG-ATAAGAATAGTAG-TTTTTGTAAT-GAACCGTGCCAC
487313 TGGTTTAAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
113 3 0.02
114 127 0.94
115 5 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (114 bp):
AAACCATGCCACCGGATAAGAATAGTAGTTTTTGTAATGAACCGTGCCACCGACTAAGAATAGCA
GTTTTTGTAATGAACCATACCACCGATTAAGAATAGTAATTTTTGTATT
Found at i:487318 original size:38 final size:37
Alignment explanation
Indices: 487036--487336 Score: 195
Period size: 38 Copynumber: 7.9 Consensus size: 37
487026 ACTGGTTTCA
* * *
487036 AACCATGCCACTGG-TTAAGAATAGT-AGTTTTTTTATTG
1 AACCGTGCCACCGGTTTAA-AATAGTGA-TTTTTGT-TTG
** * *
487074 AACCGTGCCACC-GACTAAGAATAG-CAGTTTTTGTAATG
1 AACCGTGCCACCGGTTTAA-AATAGTGA-TTTTTGT-TTG
* * *
487112 AACCATACCACCGG-TTAAGAATAGTAATTTTTGTATTG
1 AACCGTGCCACCGGTTTAA-AATAGTGATTTTTGT-TTG
* * *
487150 AACTGTGCCACCGG-ATAAGAATAGT-AGTTTTTGTAATG
1 AACCGTGCCACCGGTTTAA-AATAGTGA-TTTTTGT-TTG
** * *
487188 AATTGTGCCACCAG-ATAAGAATAGTGATTTTTGTATTG
1 AACCGTGCCACCGGTTTAA-AATAGTGATTTTTGT-TTG
* * * *
487226 AACCGTGCCACCGATTTAGAATAGTTATTTTTGTTTTA
1 AACCGTGCCACCGGTTTAAAATAGTGATTTTTG-TTTG
*
487264 AACCATGCCACCGGTTTAAAATAGTGATTTTTGTTTCG
1 AACCGTGCCACCGGTTTAAAATAGTGATTTTTGTTT-G
* *
487302 AACCGTGCCACTGGTTTAAAATAGTAATTTTTGTT
1 AACCGTGCCACCGGTTTAAAATAGTGATTTTTGTT
487337 CATAGCTTGT
Statistics
Matches: 220, Mismatches: 34, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
37 5 0.02
38 209 0.95
39 6 0.03
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (37 bp):
AACCGTGCCACCGGTTTAAAATAGTGATTTTTGTTTG
Found at i:487366 original size:2 final size:2
Alignment explanation
Indices: 487359--487388 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
487349 AGGGAGTTAG
487359 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
487389 TTGATGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:489556 original size:8 final size:8
Alignment explanation
Indices: 489532--489562 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
489522 TAATGAGGTT
489532 TTTTTTTC
1 TTTTTTTC
489540 TTTTCTTTC
1 TTTT-TTTC
489549 TTTTTTTC
1 TTTTTTTC
489557 TTTTTT
1 TTTTTT
489563 CATCCACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:493144 original size:20 final size:21
Alignment explanation
Indices: 493104--493154 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
493094 TTTTGCAATT
493104 TGTATCGATATAAACAGTAAA
1 TGTATCGATATAAACAGTAAA
*
493125 TGTATCGATATATA-AGTAAA
1 TGTATCGATATAAACAGTAAA
493145 TGTATCGATA
1 TGTATCGATA
493155 CATTATTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (21 bp):
TGTATCGATATAAACAGTAAA
Found at i:493170 original size:20 final size:20
Alignment explanation
Indices: 493147--493198 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
493137 TAAGTAAATG
*
493147 TATCGATACATTATTCATTC
1 TATCAATACATTATTCATTC
493167 TATCAATACATTATTCATTC
1 TATCAATACATTATTCATTC
493187 TATCAATACATT
1 TATCAATACATT
493199 TTAGGTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (20 bp):
TATCAATACATTATTCATTC
Found at i:520458 original size:167 final size:167
Alignment explanation
Indices: 520182--521478 Score: 1646
Period size: 167 Copynumber: 7.7 Consensus size: 167
520172 AAACAAAAAA
* * * * * *
520182 TTTTTTATTTTGGACCATTATCTTGATGTTAAAGTAGTTGGATTATTCTTACAATAAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
520247 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
520312 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
* *
520349 TTTTTTATTTTGGATCATTATCTTGAGGAAAAAATAGTTAGATTATTCTCACAATGAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
* * * * *
520414 TGATTTAATAGTAAAGCGATTTGTTTTCACAATTTTGTTTTATGAGAAAAACAAAAAATCTTAAT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAAC-AAAAATCTTAAT
*
520479 TGGATGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
130 TGGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
* * * * *
520517 TTTTTTATTTTGGGTCATTATTTTGAGGTAAAAATTGTTGGATTATTCTCAAAATAAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
* * * * *
520582 TGTCTTAAGAATCAAGTGATTTGTTTTCATGATTTCGTTTTATTAGAAAAACAAAAATCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
* *
520647 GGTTGGTGCAAGAAGAATGGCTAAGTATGCATAGAAT
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
* * * ** * *
520684 TTTTTTATTTTAGATCATTACCGTGATATAAAAATAGTTGGATTATTCTCATAAAGAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
* * *
520749 TGTTTTAAGAGTCAAGTAATTTGTTTTCACAATTTTGTTTTATGAGAAAATCAAAAATCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
*
520814 --TTGGTGCAAAAAGAATAGCTTAGTATGCATAGAAT
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
* * *
520849 TTTTGTATTTTGGATCACTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGATGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
* * * ** * * *
520914 TGATTTAATAGTTAAGCAATTTGTTTTCACGATTTTGTTTCATGAGAAAAATAAAACTCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
* *
520979 GGATGGTGCAAAAAGAATAGCTTAGTATGCATAGAA-
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
* * *
521015 TCTTTTATTTTGGATCATTATCATG-GTGTAAAAATAGTTGGATCATTCTCACAATGAAGTTTAT
1 TTTTTTATTTTGGATCATTATCTTGAG-GTAAAAATAGTTGGATTATTCTCACAATGAAGTTTAT
* *
521079 TTGTTTTAAGAGTCAAGTGATTTTAAGTGATTTGTTTTCACGATTTTATTTAATGAGAAAAAC-A
65 TTGTTTTAAGAGTC----------AAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAA
* *
521143 AAATCTTAATTGGTTGGTGCAAAAAGAATAGCTTAGTATGTATAGAATTTTT
120 AAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAA----T
* * * * *
521195 TTTTTTATTTTGGATCATTATCGTAACGTAAAAATAGTTAGATTATTCTCAAAATGAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
* * *
521260 TGTTTTAATAGTCAAGTGATTTGTTTTCACAATTTTGTTTTAT---TAAAA-AAAAA-CTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
* * *
521320 GGTTGGGGCGAAAATAATGGCTTA--ATGCATAGAAT
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
* * * * ** * *
521355 TTTTTTATTTTGGACCATTATCTTGATGTTAAAGTAGTTGGATTATTCTTGCAATAAAAGTTTAG
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAAT-GAAGTTTAT
* * *
521420 TTGTTTTAAGAGTCAAGTGATTTGTTTTCATGATTTTGTTTTGTGAGAAAAATAAAAAT
65 TTGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAAT
521479 TTTAGTATAC
Statistics
Matches: 976, Mismatches: 127, Indels: 55
0.84 0.11 0.05
Matches are distributed among these distances:
160 46 0.05
161 47 0.05
164 13 0.01
165 149 0.15
166 94 0.10
167 303 0.31
168 149 0.15
170 27 0.03
175 45 0.05
176 34 0.03
180 69 0.07
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (167 bp):
TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGAAGTTTATT
TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAAT
Found at i:520792 original size:335 final size:334
Alignment explanation
Indices: 520182--521478 Score: 1637
Period size: 335 Copynumber: 3.9 Consensus size: 334
520172 AAACAAAAAA
* * * * * *
520182 TTTTTTATTTTGGACCATTATCTTGATGTTAAAGTAGTTGGATTATTCTTACAATAAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCAAAATAAAGTTTATT
520247 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
*
520312 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCTTGAGG
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCTTGA-T
* * * * * **
520377 A-AAAAATAGTTAGATTATTCTCACAATGAAGTTTATTTGATTTAATAGTAAAGCGATTTGTTTT
195 ATAAAAATAGTTGGATTATTCTCACAAAGAAGTTTATTTGTTTTAAGAGTCAAGTAATTTGTTTT
* *
520441 CACAATTTTGTTTTATGAGAAAAACAAAAAATCTTAATTGGATGGTGCAAAAAGAATGGCTTAGT
260 CACAATTTTGTTTTATGAGAAAAAC-AAAAATCTTAATTGGTTGGTGCAAAAAGAATAGCTTAGT
520506 ATGCATAGAAT
324 ATGCATAGAAT
* * *
520517 TTTTTTATTTTGGGTCATTATTTTGAGGTAAAAATTGTTGGATTATTCTCAAAATAAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCAAAATAAAGTTTATT
* * * * *
520582 TGTCTTAAGAATCAAGTGATTTGTTTTCATGATTTCGTTTTATTAGAAAAACAAAAATCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
* * * * *
520647 GGTTGGTGCAAGAAGAATGGCTAAGTATGCATAGAATTTTTTTATTTTAGATCATTACCGTGATA
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATA
*
520712 TAAAAATAGTTGGATTATTCTCATAAAGAAGTTTATTTGTTTTAAGAGTCAAGTAATTTGTTTTC
196 TAAAAATAGTTGGATTATTCTCACAAAGAAGTTTATTTGTTTTAAGAGTCAAGTAATTTGTTTTC
*
520777 ACAATTTTGTTTTATGAGAAAATCAAAAATCTTAATT--TTGGTGCAAAAAGAATAGCTTAGTAT
261 ACAATTTTGTTTTATGAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATAGCTTAGTAT
520840 GCATAGAAT
326 GCATAGAAT
* * * * *
520849 TTTTGTATTTTGGATCACTATCTTGAGGTAAAAATAGTTGGATTATTCTCACAATGATGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCAAAATAAAGTTTATT
* * * ** * * *
520914 TGATTTAATAGTTAAGCAATTTGTTTTCACGATTTTGTTTCATGAGAAAAATAAAACTCTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
* * * * * *
520979 GGATGGTGCAAAAAGAATAGCTTAGTATGCATAGAA-TCTTTTATTTTGGATCATTATCATGGTG
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATA
* *
521043 TAAAAATAGTTGGATCATTCTCACAATGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTTAAGTG
196 TAAAAATAGTTGGATTATTCTCACAAAGAAGTTTATTTGTTTTAAGAGTCAA--G----T-A---
* * *
521108 ATTTGTTTTCACGATTTTATTTAATGAGAAAAAC-AAAATCTTAATTGGTTGGTGCAAAAAGAAT
251 ATTTGTTTTCACAATTTTGTTTTATGAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAAT
*
521172 AGCTTAGTATGTATAGAATTTTT
316 AGCTTAGTATGCATAGAA----T
* * * * *
521195 TTTTTTATTTTGGATCATTATCGTAACGTAAAAATAGTTAGATTATTCTCAAAATGAAGTTTATT
1 TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCAAAATAAAGTTTATT
* * *
521260 TGTTTTAATAGTCAAGTGATTTGTTTTCACAATTTTGTTTTAT---TAAAA-AAAAA-CTTAATT
66 TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
* * * * *
521320 GGTTGGGGCGAAAATAATGGCTTA--ATGCATAGAATTTTTTTATTTTGGACCATTATCTTGATG
131 GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATA
* * ** * * *
521383 TTAAAGTAGTTGGATTATTCTTGCAATAAAAGTTTAGTTGTTTTAAGAGTCAAGTGATTTGTTTT
196 TAAAAATAGTTGGATTATTCTCACAA-AGAAGTTTATTTGTTTTAAGAGTCAAGTAATTTGTTTT
** * *
521448 CATGATTTTGTTTTGTGAGAAAAATAAAAAT
260 CACAATTTTGTTTTATGAGAAAAACAAAAAT
521479 TTTAGTATAC
Statistics
Matches: 833, Mismatches: 109, Indels: 43
0.85 0.11 0.04
Matches are distributed among these distances:
331 100 0.12
332 179 0.21
333 1 0.00
334 14 0.02
335 254 0.30
337 1 0.00
338 1 0.00
339 11 0.01
340 57 0.07
341 79 0.09
342 37 0.04
343 4 0.00
346 95 0.11
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (334 bp):
TTTTTTATTTTGGATCATTATCTTGAGGTAAAAATAGTTGGATTATTCTCAAAATAAAGTTTATT
TGTTTTAAGAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAAACAAAAATCTTAATT
GGTTGGTGCAAAAAGAATGGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATA
TAAAAATAGTTGGATTATTCTCACAAAGAAGTTTATTTGTTTTAAGAGTCAAGTAATTTGTTTTC
ACAATTTTGTTTTATGAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATAGCTTAGTAT
GCATAGAAT
Found at i:521253 original size:180 final size:176
Alignment explanation
Indices: 520932--521281 Score: 522
Period size: 180 Copynumber: 2.0 Consensus size: 176
520922 TAGTTAAGCA
* * *
520932 ATTTGTTTTCACGATTTTGTTTCATGAGAAAAATAAAACTCTTAATTGGATGGTGCAAAAAGAAT
1 ATTTGTTTTCACGATTTTATTTAATGAGAAAAACAAAACTCTTAATTGGATGGTGCAAAAAGAAT
*** *
520997 AGCTTAGTATGCATAGAATCTTTTATTTTGGATCATTATCATGGTGTAAAAATAGTTGGATCATT
66 AGCTTAGTATGCATAGAATCTTTTATTTTGGATCATTATCATAACGTAAAAATAGTTAGATCATT
*
521062 CTCACAATGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTTAAGTG
131 CTCAAAATGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTTAAGTG
*
521108 ATTTGTTTTCACGATTTTATTTAATGAGAAAAACAAAA-TCTTAATTGGTTGGTGCAAAAAGAAT
1 ATTTGTTTTCACGATTTTATTTAATGAGAAAAACAAAACTCTTAATTGGATGGTGCAAAAAGAAT
* * *
521172 AGCTTAGTATGTATAGAATTTTTTTTTTTATTTTGGATCATTATCGTAACGTAAAAATAGTTAGA
66 AGCTTAGTATGCATAGAA-----TCTTTTATTTTGGATCATTATCATAACGTAAAAATAGTTAGA
* *
521237 TTATTCTCAAAATGAAGTTTATTTGTTTTAATAGTCAAGTGATTT
126 TCATTCTCAAAATGAAGTTTATTTGTTTTAAGAGTCAAGTGATTT
521282 GTTTTCACAA
Statistics
Matches: 155, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
175 42 0.27
176 35 0.23
180 78 0.50
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (176 bp):
ATTTGTTTTCACGATTTTATTTAATGAGAAAAACAAAACTCTTAATTGGATGGTGCAAAAAGAAT
AGCTTAGTATGCATAGAATCTTTTATTTTGGATCATTATCATAACGTAAAAATAGTTAGATCATT
CTCAAAATGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTTAAGTG
Found at i:522187 original size:168 final size:165
Alignment explanation
Indices: 521545--523085 Score: 1902
Period size: 167 Copynumber: 9.2 Consensus size: 165
521535 TGGATTATTC
*
521545 TCACGATTTTGTTTTATGAGAGAAACAAAAATCTTAATTGGCTGGTGCAAAAAGAATGGCTTAGT
1 TCACGATTTTGTTTTATGAGA-AAA-AAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGT
* * *
521610 ATGCATAGAATTTTTTTTATTTTGGATCATTATCTTGAGGAAAAAATAGTTAGATTATTCTCACA
64 ATGCATAGAA-TTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACA
* * * *
521675 ATGAAGTTTATTTGATTTAATAGTCAAGCGATTTGTTT
128 AAGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
* * * *
521713 TCACAATTTTGTTTTATGAGAAAAACAAAAATCTTAATTGGATGATGCAAAAATAATGGCTTAGT
1 TCACGATTTTGTTTTATGAG-AAAA-AAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGT
* * * * * *
521778 ATGCATAAAATTTTTTTATTTTGGGTTATTATCTTGAGGAAAAAATTGTTGGATTATTCTCA-AA
64 ATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAA
* * * *
521842 ATAAAGTTTATTCGTTTTAAGAATCAAGTGATTGGTTT
129 A-GAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
* * * * *
521880 TCATGATTTCGTTTTATTAGACAAATAAAAATCTTAATTGGTTGGTGCAAGAAGAATGGCTAAGT
1 TCACGATTTTGTTTTATGAGA-AAA-AAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGT
** ** *
521945 ATGCATAGAATTTTTTTATTTTATATCATTATCGCGATGTAAAAATAGTTGGATTATTCTCATAA
64 ATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAA
*
522010 AGAAGTTTATTTGTTTTAAGAGTCAAGTAATTTGTTT
129 AGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
*
522047 TCACGATTTTGTTTTATGAGAAAATCAAAAATCTTAATTGGTTGGTGCAAAAAGAATAGCTTAGT
1 TCACGATTTTGTTTTATGAGAAAA--AAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGT
*
522112 ATGTATA-AATTTTTTTTTATTTTGGATCATTATCTTGA-GATAAAAATAGTTGGATTATTCTCA
64 ATGCATAGAA--TTTTTTTATTTTGGATCATTATCTTGATG-TAAAAATAGTTGGATTATTCTCA
* * * *
522175 CAAAGAAGTTTATTTGATTTAATAGTCAAGTAATTTCTTT
126 CAAAGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
* *
522215 TCACGATTTTGTTTTATGAGAAAAATAAAAATCTTAATTGGATGGTGCAAAAAGAATAGCTTAGT
1 TCACGATTTTGTTTTATGAG-AAAA-AAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGT
* * * *
522280 ATGCATAGAA-TCTTTTATTTTGGATCATTATCATGGTGTAAAAATAGTTGGATCATTCTCACAA
64 ATGCATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAA
*
522344 TGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTTAAGTGATTTGTTT
129 AGAAGTTTATTTGTTTTAAGAGTC----------AAGTGATTTGTTT
* *
522391 TCATC-ATTTTGTTTAATGAGAAAAACAAAATCTTAATTGGTTGGTGCAAAAAGAATAGCTTAGT
1 TCA-CGATTTTGTTTTATGAGAAAAA-AAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGT
* *
522455 ATGTATAGAATTTTTTTTTTATTTTGGATCATTATCGTGATGTAAAAATAGTTGGATTATTCTCA
64 ATGCATAGAA---TTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCA
* * * *
522520 GAATGAAGTTTATTTATTTTAATAGTCAAGTGATTTGTTT
126 CAAAGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
* * *
522560 TCACAATTTTGTTTTATTAGAAAAAAAAA-CTTAATTGGTTGGTGCGAAAAGAATGGCTTAGTAT
1 TCACGATTTTGTTTTATGAGAAAAAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTAT
* * * *
522624 GCATAGAATTTTTTTATTTTGGACCATTATCTTGATGTTAAAGTAGTTGGATTATTCTTACAATA
66 GCATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAA-A
522689 -AAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
130 GAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
* * ** * **
522724 TCACGATTTTGTTTTATTAGAAAAAGAAA-CTTACGTGGTTGGTGCGAAAAGAATGGCTTAAAAT
1 TCACGATTTTGTTTTATGAGAAAAAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTAT
* * * * *
522788 GCATAGAATTTTTTTTATTTTTGATCATTTTCGTGATGTAAAAATAGTTGGATTATTCTTACAAT
66 GCATAGAA-TTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAAA
* *
522853 GAAGTTTATTTGTTTTAATAGTAAAGTGATTTGTTT
130 GAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
* * * ** * *
522889 TTACAATTTTGTTTTGTTTGAAAAAAAAAACTTAATTGGTTGGTGCGAAAAGAATGGCTTAGTAT
1 TCACGATTTTGTTTTATGAGAAAAAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTAT
* * * *
522954 GCATAGAATTTTTTTA-TTTAGACCATTATCTTG-T-T-AAAGTAGTTGGATTATTCTTACAATA
66 GCATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAA-A
523015 -AAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
130 GAAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
523050 TCACGATTTTGTTTTATGAGAAAAACAAAAATCTTA
1 TCACGATTTTGTTTTATGAG-AAAA-AAAAATCTTA
523086 GTATTCATAG
Statistics
Matches: 1206, Mismatches: 132, Indels: 75
0.85 0.09 0.05
Matches are distributed among these distances:
161 71 0.06
162 5 0.00
163 10 0.01
164 161 0.13
165 114 0.09
166 116 0.10
167 315 0.26
168 222 0.18
169 41 0.03
174 1 0.00
175 50 0.04
176 28 0.02
177 1 0.00
179 71 0.06
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (165 bp):
TCACGATTTTGTTTTATGAGAAAAAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTAT
GCATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTGGATTATTCTCACAAAG
AAGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTT
Found at i:523585 original size:167 final size:167
Alignment explanation
Indices: 523155--524016 Score: 1100
Period size: 167 Copynumber: 5.2 Consensus size: 167
523145 TATTCTTACG
*
523155 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGACTTAGTATGCA
1 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTATGCA
* * * * *
523220 TAGAATTTTTTTATGTTGGATCATTATCTTGATGTAAAAATAATTTGATTATTCTCACAA-AGAT
66 TAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCA-AATTGAA
* * *
523284 GTTTTTTTGTTTTAATAGTCAAGTGATTTGTTTTCACG
130 GTTTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
* *
523322 ATTTTGTTTTATTAG---AA-AAAAA-CTTAATTGGTTGGTGCAAAAAGAATAGCTTAGTATGCA
1 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTATGCA
* * *
523382 TAGAATTTTTTTATTTTGGATCTTTATCTTGATGTAAAAATAGTTGGATTATTCTCATATTGAAG
66 TAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCAAATTGAAG
* *
523447 TTTATTTGTTTTAAGAGTCAAGTGATTTATTTTCTCA
131 TTTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
* * * * *
523484 ATTTTGTTTTATGAGAAAAACAAAAAACTTAATTGGTTGGAGCAAAAAGTATGGCTTAGCATGCA
1 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTATGCA
* * * *
523549 TAAAATTTATTTATTTTGGATCATTATCTTGATGTAAAAATTGTTAGATTATTCTCACAATTAAA
66 TAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCA-AATTGAA
523614 G-TTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
130 GTTTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
* * * *
523651 ATTTTGTTTAATGAGAAAAACAAAAATCTTAATCGGTTGGTGCAAAAAAGAATAGCTTAGTATGC
1 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGC-AAAAAGAATGGCTTAGTATGC
* *
523716 ATAGAATTTTTTTATTTTGGATCATTATCATGATGTAAAAATAGTTTGATTATTCTCACAA-TGA
65 ATAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCA-AATTGA
* * *
523780 ACTTTATTTG-TTTAATAGTCAAATGATTTGTTTTCACA
129 AGTTTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
* * * * *
523818 ATTTTGCTCTAAAAG-AAAA-AAAAATCTTAATTGGTTGGTGTAAAAAGAATGACTTAGTATGCA
1 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTATGCA
* * * *
523881 TAGGATTTTTTTATTTTAGATCATTATTTTGATGTAAAAATAGTTAGATTATTCTCACAATT-AT
66 TAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCA-AATTGAA
* *** * **
523945 GTTTATTTGTTTTAAAAGTTGTGTGATTTGTTTTTATG
130 GTTTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
* * * * *
523983 ATTTTATTTTTTGAGAATATCAAAAATCTTAATT
1 ATTTTGTTTTATAAGAAAAACAAAAATCTTAATT
524017 TGTAGGAAAA
Statistics
Matches: 605, Mismatches: 77, Indels: 26
0.85 0.11 0.04
Matches are distributed among these distances:
161 1 0.00
162 138 0.23
163 5 0.01
164 86 0.14
165 52 0.09
166 11 0.02
167 225 0.37
168 87 0.14
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (167 bp):
ATTTTGTTTTATAAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGGCTTAGTATGCA
TAGAATTTTTTTATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCAAATTGAAG
TTTATTTGTTTTAAGAGTCAAGTGATTTGTTTTCACA
Found at i:523957 original size:332 final size:333
Alignment explanation
Indices: 523167--524015 Score: 1183
Period size: 332 Copynumber: 2.6 Consensus size: 333
523157 TTTGTTTTAT
523167 AAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGACTTAGTATGCATAGAATTTTTTT
1 AAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGACTTAGTATGCATAGAATTTTTTT
* * * ** *
523232 ATGTTGGATCATTATCTTGATGTAAAAATAATTTGATTATTCTCACAAAGATGTTTTTTTGTTTT
66 ATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCACAATTATGTTTATTTGTTTT
* * *
523297 AATAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATTAG--AA-AAAAA-CTTAATTGGTTGGT
131 AAAAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAACAAAAATCTTAATCGGTTGGT
* *
523358 GCAAAAAGAATAGCTTAGTATGCATAGAATTTTTTTATTTTGGATCTTTATCTTGATGTAAAAAT
196 GCAAAAAGAATAGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCATGATGTAAAAAT
* * * * *
523423 AGTTGGATTATTCTCATATTGAAGTTTATTTGTTTTAAGAGTCAAGTGATTTATTTTCTCAATTT
261 AGTTGGATTATTCTCACAATGAACTTTATTTGTTTTAAGAGTCAAATGATTTATTTTCACAATTT
* * *
523488 TGTTTTAT
326 TGCTCTAA
* * * * * * * *
523496 GAGAAAAACAAAAAACTTAATTGGTTGGAGCAAAAAGTATGGCTTAGCATGCATAAAATTTATTT
1 AAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGACTTAGTATGCATAGAATTTTTTT
* *
523561 ATTTTGGATCATTATCTTGATGTAAAAATTGTTAGATTATTCTCACAATTAAAG-TTATTTGTTT
66 ATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCACAATT-ATGTTTATTTGTTT
* * *
523625 TAAGAGTCAAGTGATTTGTTTTCACAATTTTGTTTAATGAGAAAAACAAAAATCTTAATCGGTTG
130 TAAAAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAG-AAAACAAAAATCTTAATCGGTTG
523690 GTGCAAAAAAGAATAGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCATGATGTAAA
194 GTGC-AAAAAGAATAGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCATGATGTAAA
* * *
523755 AATAGTTTGATTATTCTCACAATGAACTTTATTTG-TTTAATAGTCAAATGATTTGTTTTCACAA
258 AATAGTTGGATTATTCTCACAATGAACTTTATTTGTTTTAAGAGTCAAATGATTTATTTTCACAA
523819 TTTTGCTCTAA
323 TTTTGCTCTAA
* *
523830 AAG-AAAA-AAAAATCTTAATTGGTTGGTGTAAAAAGAATGACTTAGTATGCATAGGATTTTTTT
1 AAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGACTTAGTATGCATAGAATTTTTTT
* *
523893 ATTTTAGATCATTATTTTGATGTAAAAATAGTTAGATTATTCTCACAATTATGTTTATTTGTTTT
66 ATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCACAATTATGTTTATTTGTTTT
*** * * * * *
523958 AAAAGTTGTGTGATTTGTTTTTATGATTTTATTTTTTGAGAATATCAAAAATCTTAAT
131 AAAAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAA-AACAAAAATCTTAAT
524016 TTGTAGGAAA
Statistics
Matches: 452, Mismatches: 59, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
329 147 0.33
330 2 0.00
331 4 0.01
332 151 0.33
333 9 0.02
334 50 0.11
335 89 0.20
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (333 bp):
AAGAAAAACAAAAATCTTAATTGGTTGGTGCAAAAAGAATGACTTAGTATGCATAGAATTTTTTT
ATTTTGGATCATTATCTTGATGTAAAAATAGTTAGATTATTCTCACAATTATGTTTATTTGTTTT
AAAAGTCAAGTGATTTGTTTTCACGATTTTGTTTTATGAGAAAACAAAAATCTTAATCGGTTGGT
GCAAAAAGAATAGCTTAGTATGCATAGAATTTTTTTATTTTGGATCATTATCATGATGTAAAAAT
AGTTGGATTATTCTCACAATGAACTTTATTTGTTTTAAGAGTCAAATGATTTATTTTCACAATTT
TGCTCTAA
Found at i:530559 original size:166 final size:167
Alignment explanation
Indices: 530173--531605 Score: 1961
Period size: 166 Copynumber: 8.6 Consensus size: 167
530163 GGATTTTTTT
* * *
530173 AAAATTGTGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTTTGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * * *
530238 TATTTTTAGATCACGATAATGATCCAAAATAAAAAAAAAATTCTATACATTCTAAGCTATTCTTT
66 TATTTTTACATCAAGATAATGATCCAAAAT---AAAAAAATTCTATGCATACTAAGCTATTCTTT
* *
530303 TTGCACCAACCAATTAAGA-TTTTGTTTTTCTCATTAAAT
128 TTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
530342 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * *
530407 TATTTTTACACCAAGATAATGATCCAAAAT-AAAAGATTCTATGCATACTAAGCTTTTCTTTTTG
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATGCATACTAAGCTATTCTTTTTG
* *
530471 CACCATCCAATTAAGATTTTTATTTTTCTCATAAAAC
131 CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* ** * *
530508 AAAATTGTGAAAACAAATTGCTTGACTATTAAATCAAATAAACTTCATTGTGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* *
530573 TATTTTTACCTCAAGATAATGATCCAAAAT-AAAAAATTCTATACATACTAAGCTATTCTTTTTG
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATGCATACTAAGCTATTCTTTTTG
*
530637 CACCAACCAATTAAGATTTTTGATTTTCTCATAAAAC
131 CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * ** * *
530674 AAAATTGTGAAAACAAATTACTTGACTCTTAAAACAAATAAACTTTTTTATGAGAATAATCTAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * * * * *
530739 TATTTTTACATCACGGTAATGATCTAAAATAAAAAAAATTCTATGCATACTTAGCCATTCTTCTT
66 TATTTTTACATCAAGATAATGATCCAAAAT-AAAAAAATTCTATGCATACTAAGCTATTCTTTTT
*
530804 GCACCAACCAATTAAGATTTTTGTTTTTCTAAT-AAA-
130 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * ** * * * *
530840 GAAATCATGAAAATGAATCACTTGATTCTTAAGACAAATAAACTTTATTTTGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * * **
530905 AATTTTTACCTCAAGATAATGACCCAAAATAAAAAAATTCTATGCATACTAAG-TCATTAGTTTT
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATGCATACTAAGCT-ATTCTTTTT
*
530969 GCACCATCCAATTAAGATTTTTGTTTTTCTCATAAAAC
130 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * * * * * *
531007 AAAATTGTAAAAATAAATCGCTTGACTATTAAATCAAATAAACTTCATTGTGAGAATAATCTAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * * *
531072 TATTTTTTCCTCAAGCTAATGATCCAAAATAAAAAAATTCTATGCATACTAAGCCATTCTTTTTG
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATGCATACTAAGCTATTCTTTTTG
531137 CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
131 CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * * * *
531174 AAAATCGTGAAAACAAATCCCTTGACTATTAAAACAAATAAATTTAATTGTGAAAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
* * *
531239 TATTTTTGCATCAAGATAATAATCCAAAATAAAAAGAATTCTATGCATACTAAGCCATTCTTTTT
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAA-AATTCTATGCATACTAAGCTATTCTTTTT
531304 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
130 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * *
531342 AGAATCGTGAAAACAAATCACTTGACTCTTAAAATAAATAAACTTCATTATGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
*
531407 TATTTTTACATCAAGATAATGATCCAAAATAAATAAAAAAATCTATGCATACTAAGCTATTCTTT
66 TATTTTTACATCAAGATAATGATCCAAAAT--A-AAAAAATTCTATGCATACTAAGCTATTCTTT
*
531472 TTGCACCAACCAGTTAAGATTTTTGTTTTTCTCATAAAAC
128 TTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
* * * * *
531512 AAAATCATG---A-AAATGACTTGACTCTTAAAACAAGTAGTATTTCATTGTGTA-AATAATCCA
1 AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATA-AACTTCATTGTG-AGAATAATCCA
* * *
531572 ACTATGTTTACATCGAGATAACGATCCAAAATAA
64 ACTATTTTTACATCAAGATAATGATCCAAAATAA
531606 TAAGAAAAAA
Statistics
Matches: 1125, Mismatches: 126, Indels: 31
0.88 0.10 0.02
Matches are distributed among these distances:
164 1 0.00
165 105 0.09
166 358 0.32
167 283 0.25
168 213 0.19
169 89 0.08
170 72 0.06
171 4 0.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (167 bp):
AAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAAC
TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATGCATACTAAGCTATTCTTTTTG
CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAAC
Found at i:531368 original size:335 final size:335
Alignment explanation
Indices: 530173--531605 Score: 1965
Period size: 335 Copynumber: 4.3 Consensus size: 335
530163 GGATTTTTTT
* * *
530173 AAAATTGTGAAAACAAATCACTTGACTATTAAAACAAATAAACTTCATTTTGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTATTAAAACAAATAAATTTCATTGTGAGAATAATCCAAC
* * * *
530238 TATTTTTAGATCACGATAATGATCCAAAATAAAAAAAAAATTCTATACATTCTAAGCTATTCTTT
66 TATTTTTACATCAAGATAATGATCCAAAAT---AAAAAAATTCTATACATACTAAGCCATTCTTT
* *
530303 TTGCACCAACCAATTAAGA-TTTTGTTTTTCTCATTAAATAAAATCGTGAAAACAAATCACTTGA
128 TTGCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGA
* *
530367 CTCTTAAAACAAATAAACTTCATTGTGAGAATAATCCAACTATTTTTACACCAAGATAATGATCC
193 CTCTTAAAACAAATAAACTTCATTATGAGAATAATCCAACTATTTTTACATCAAGATAATGATCC
* ** * *
530432 AAAAT--AAAAGATTCTATGCATACTAAGCTTTTCTTTTTGCACCATCCAATTAAGATTTTTATT
258 AAAATAAAAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTT
530495 TTTCTCATAAAAC
323 TTTCTCATAAAAC
* ** * *
530508 AAAATTGTGAAAACAAATTGCTTGACTATTAAATCAAATAAACTTCATTGTGAGAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTATTAAAACAAATAAATTTCATTGTGAGAATAATCCAAC
* *
530573 TATTTTTACCTCAAGATAATGATCCAAAAT-AAAAAATTCTATACATACTAAGCTATTCTTTTTG
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATACATACTAAGCCATTCTTTTTG
* * *
530637 CACCAACCAATTAAGATTTTTGATTTTCTCATAAAACAAAATTGTGAAAACAAATTACTTGACTC
131 CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTC
** * * * *
530702 TTAAAACAAATAAACTTTTTTATGAGAATAATCTAACTATTTTTACATCACGGTAATGATCTAAA
196 TTAAAACAAATAAACTTCATTATGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAA
* *
530767 ATAAAAAAAATTCTATGCATACTTAGCCATTCTTCTTGCACCAACCAATTAAGATTTTTGTTTTT
261 ATAAAAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTT
*
530832 CTAAT-AAA-
326 CTCATAAAAC
* * ** * * * *
530840 GAAATCATGAAAATGAATCACTTGATTCTTAAGACAAATAAACTTT-ATTTTGAGAATAATCCAA
1 AAAATCGTGAAAACAAATCACTTGACTATTAAAACAAATAAA-TTTCATTGTGAGAATAATCCAA
* * * * * **
530904 CAATTTTTACCTCAAGATAATGACCCAAAATAAAAAAATTCTATGCATACTAAGTCATTAGTTTT
65 CTATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATACATACTAAGCCATTCTTTTT
* * * * *
530969 GCACCATCCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATTGTAAAAATAAATCGCTTGACT
130 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACT
* * * * * * *
531034 ATTAAATCAAATAAACTTCATTGTGAGAATAATCTAACTATTTTTTCCTCAAGCTAATGATCCAA
195 CTTAAAACAAATAAACTTCATTATGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAA
531099 AAT-AAAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTT
260 AATAAAAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTT
531163 TCTCATAAAAC
325 TCTCATAAAAC
* * *
531174 AAAATCGTGAAAACAAATCCCTTGACTATTAAAACAAATAAATTTAATTGTGAAAATAATCCAAC
1 AAAATCGTGAAAACAAATCACTTGACTATTAAAACAAATAAATTTCATTGTGAGAATAATCCAAC
* * *
531239 TATTTTTGCATCAAGATAATAATCCAAAATAAAAAGAATTCTATGCATACTAAGCCATTCTTTTT
66 TATTTTTACATCAAGATAATGATCCAAAATAAAAA-AATTCTATACATACTAAGCCATTCTTTTT
*
531304 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACAGAATCGTGAAAACAAATCACTTGACT
130 GCACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACT
*
531369 CTTAAAATAAATAAACTTCATTATGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAA
195 CTTAAAACAAATAAACTTCATTATGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAA
* * *
531434 AATAAATAAAAAAATCTATGCATACTAAGCTATTCTTTTTGCACCAACCAGTTAAGATTTTTGTT
260 AAT-AA-AAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTT
531499 TTTCTCATAAAAC
323 TTTCTCATAAAAC
* * * * *
531512 AAAATCATG---A-AAATGACTTGACTCTTAAAACAAGTAGTATTTCATTGTGTA-AATAATCCA
1 AAAATCGTGAAAACAAATCACTTGACTATTAAAACAAATA-AATTTCATTGTG-AGAATAATCCA
* * *
531572 ACTATGTTTACATCGAGATAACGATCCAAAATAA
64 ACTATTTTTACATCAAGATAATGATCCAAAATAA
531606 TAAGAAAAAA
Statistics
Matches: 969, Mismatches: 115, Indels: 28
0.87 0.10 0.03
Matches are distributed among these distances:
331 49 0.05
332 243 0.25
333 156 0.16
334 161 0.17
335 282 0.29
336 1 0.00
337 1 0.00
338 76 0.08
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (335 bp):
AAAATCGTGAAAACAAATCACTTGACTATTAAAACAAATAAATTTCATTGTGAGAATAATCCAAC
TATTTTTACATCAAGATAATGATCCAAAATAAAAAAATTCTATACATACTAAGCCATTCTTTTTG
CACCAACCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCGTGAAAACAAATCACTTGACTC
TTAAAACAAATAAACTTCATTATGAGAATAATCCAACTATTTTTACATCAAGATAATGATCCAAA
ATAAAAAAAATTCTATGCATACTAAGCCATTCTTTTTGCACCAACCAATTAAGATTTTTGTTTTT
CTCATAAAAC
Found at i:532839 original size:2 final size:2
Alignment explanation
Indices: 532832--532858 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
532822 TGATGAGTGT
532832 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
532859 TATGACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:536749 original size:2 final size:2
Alignment explanation
Indices: 536742--536774 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
536732 CCACCCAATC
*
536742 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
536775 TTACAAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:538370 original size:27 final size:27
Alignment explanation
Indices: 538304--538370 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
538294 GTATTTCTAT
* *
538304 AATTTTATGCTTTAAAATACATTTAATA
1 AATTTTA-GATTTAAAATACATTTAAAA
* * * *
538332 TATTCTATATTTAAAATATATTTAAAA
1 AATTTTAGATTTAAAATACATTTAAAA
538359 AATTTTAGATTT
1 AATTTTAGATTT
538371 TTAATAGCAA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (27 bp):
AATTTTAGATTTAAAATACATTTAAAA
Found at i:542241 original size:18 final size:18
Alignment explanation
Indices: 542204--542240 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
542194 TTATAATAAG
*
542204 TTATTTAACTAATTAATT
1 TTATATAACTAATTAATT
542222 TTATATAACTAATT-ATT
1 TTATATAACTAATTAATT
542239 TT
1 TT
542241 TTTATCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATAACTAATTAATT
Found at i:544834 original size:28 final size:28
Alignment explanation
Indices: 544772--544826 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
544762 CAAATGCCAC
544772 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
544800 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
544827 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:544867 original size:24 final size:24
Alignment explanation
Indices: 544831--544876 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
544821 GTGGTTATTT
544831 TTGTTTGTAAAAATTGGTGGCTTG
1 TTGTTTGTAAAAATTGGTGGCTTG
*
544855 TTGTTTGTCAAAATTGGTGGCT
1 TTGTTTGTAAAAATTGGTGGCT
544877 AATTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.46
Consensus pattern (24 bp):
TTGTTTGTAAAAATTGGTGGCTTG
Found at i:545366 original size:24 final size:24
Alignment explanation
Indices: 545323--545368 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
545313 AATAAAAATT
545323 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
*
545347 AGCCACCAATTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
545369 AAATAACCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.28, G:0.07, T:0.20
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:545396 original size:28 final size:28
Alignment explanation
Indices: 545365--545426 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
545355 ATTTTTACAA
545365 ACAAA-AATAACCACCATATTTGACAAAT
1 ACAAAGAA-AACCACCATATTTGACAAAT
*
545393 ACAAAGGAAACCACCATATTTGACAAAT
1 ACAAAGAAAACCACCATATTTGACAAAT
545421 ACAAAG
1 ACAAAG
545427 GGTGGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.21, G:0.08, T:0.18
Consensus pattern (28 bp):
ACAAAGAAAACCACCATATTTGACAAAT
Found at i:545427 original size:28 final size:28
Alignment explanation
Indices: 545373--545427 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
545363 AAACAAAAAT
545373 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
545401 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
545428 GTGGCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:547368 original size:21 final size:22
Alignment explanation
Indices: 547330--547375 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
547320 ATCTGTTGAA
* **
547330 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
547351 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
547373 ACT
1 ACT
547376 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:549960 original size:24 final size:24
Alignment explanation
Indices: 549932--549977 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
549922 AATAAAAATT
549932 AGCCACCAATTTTGACAAACAACA
1 AGCCACCAATTTTGACAAACAACA
* *
549956 AGCCACTAATTTTTACAAACAA
1 AGCCACCAATTTTGACAAACAA
549978 AAATAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.22
Consensus pattern (24 bp):
AGCCACCAATTTTGACAAACAACA
Found at i:550005 original size:28 final size:28
Alignment explanation
Indices: 549974--550035 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
549964 ATTTTTACAA
549974 ACAAA-AATAACCACCATATTTGACAAAT
1 ACAAAGAA-AACCACCATATTTGACAAAT
*
550002 ACAAAGGAAACCACCATATTTGACAAAT
1 ACAAAGAAAACCACCATATTTGACAAAT
550030 ACAAAG
1 ACAAAG
550036 GGTAGCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.53, C:0.21, G:0.08, T:0.18
Consensus pattern (28 bp):
ACAAAGAAAACCACCATATTTGACAAAT
Found at i:550036 original size:28 final size:28
Alignment explanation
Indices: 549982--550036 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
549972 AAACAAAAAT
549982 AACCACCATATTTGACAAATACAAAGGA
1 AACCACCATATTTGACAAATACAAAGGA
550010 AACCACCATATTTGACAAATACAAAGG
1 AACCACCATATTTGACAAATACAAAGG
550037 GTAGCATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (28 bp):
AACCACCATATTTGACAAATACAAAGGA
Found at i:551498 original size:11 final size:12
Alignment explanation
Indices: 551475--551503 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
551465 TGGTGTAATC
551475 TCTTTTGTTTTT
1 TCTTTTGTTTTT
551487 TCTTTT-TTTTT
1 TCTTTTGTTTTT
551498 TCTTTT
1 TCTTTT
551504 AAATGTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.86
Consensus pattern (12 bp):
TCTTTTGTTTTT
Found at i:553330 original size:16 final size:16
Alignment explanation
Indices: 553320--553350 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
553310 TTTTTTATTA
553320 ATTT-TTATTTTAATT
1 ATTTGTTATTTTAATT
553335 ATTTGTTATTTTAATT
1 ATTTGTTATTTTAATT
553351 TAAATTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTGTTATTTTAATT
Found at i:553639 original size:21 final size:21
Alignment explanation
Indices: 553601--553642 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
553591 TATTTTGTTT
* *
553601 ATAAAAATCTTTTATTTAATA
1 ATAAAAATATATTATTTAATA
*
553622 ATAAAAATATATTCTTTAATA
1 ATAAAAATATATTATTTAATA
553643 TTTTAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAAAATATATTATTTAATA
Found at i:553891 original size:2 final size:2
Alignment explanation
Indices: 553884--553938 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
553874 AATAAGGAGG
553884 AT AT AT AT AT 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 AT AT
553926 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
553939 ATCTTTTCAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:554321 original size:29 final size:27
Alignment explanation
Indices: 554288--554346 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
554278 CAATGGTTTC
554288 AAATACAAGATA-ATATTTCATTTATATAT
1 AAATACAA-ATATAT-TTTCATTTATA-AT
* *
554317 AAATATAAATATATTTTCATTTTTAAT
1 AAATACAAATATATTTTCATTTATAAT
554344 AAA
1 AAA
554347 ATTTGATTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 13 0.48
29 9 0.33
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATACAAATATATTTTCATTTATAAT
Found at i:554381 original size:15 final size:16
Alignment explanation
Indices: 554363--554394 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
554353 TTCGTTCAAA
554363 TAATTTG-TTTAAATT
1 TAATTTGATTTAAATT
554378 TAATTTGATTTAAATT
1 TAATTTGATTTAAATT
554394 T
1 T
554395 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TAATTTGATTTAAATT
Found at i:558053 original size:23 final size:23
Alignment explanation
Indices: 558013--558056 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
558003 TCATATTCAT
*
558013 ATTATTTTTTATACTGTGTTTTA
1 ATTATTTTCTATACTGTGTTTTA
**
558036 ATTATTTTCTATGTTGTGTTT
1 ATTATTTTCTATACTGTGTTT
558057 ATGTTGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (23 bp):
ATTATTTTCTATACTGTGTTTTA
Found at i:558237 original size:14 final size:14
Alignment explanation
Indices: 558218--558269 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
558208 TTAATTCGTG
558218 ATATTTTTATATAA
1 ATATTTTTATATAA
* *
558232 ATATTTATATATTA
1 ATATTTTTATATAA
558246 ATAATTCAATTTATATAA
1 AT-ATT---TTTATATAA
558264 ATATTT
1 ATATTT
558270 ACATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 15 0.50
15 3 0.10
17 3 0.10
18 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATTTTTATATAA
Found at i:558277 original size:20 final size:20
Alignment explanation
Indices: 558232--558279 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
558222 TTTTATATAA
558232 ATATTTATATATTAATAATTC
1 ATATTTATATA-TAATAATTC
*
558253 A-ATTTATATA-AATATTTAC
1 ATATTTATATATAATAATT-C
558272 ATATTTAT
1 ATATTTAT
558280 GTATTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 15 0.62
21 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTATATATAATAATTC
Found at i:558449 original size:14 final size:14
Alignment explanation
Indices: 558386--558470 Score: 77
Period size: 14 Copynumber: 6.0 Consensus size: 14
558376 TATATAAATT
558386 TTTTATATAATTAAA
1 TTTTAT-TAATTAAA
* *
558401 TTTTA--ACTTTAA
1 TTTTATTAATTAAA
*
558413 TTTTATTTATTAAA
1 TTTTATTAATTAAA
*
558427 TATTT-TTAAATAAA
1 T-TTTATTAATTAAA
558441 TTTTATTAATTATAA
1 TTTTATTAATTA-AA
558456 TTTTATTTAATTAAA
1 TTTTA-TTAATTAAA
558471 AATTTTATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
12 10 0.18
13 3 0.05
14 19 0.34
15 17 0.30
16 7 0.12
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATTAATTAAA
Found at i:558526 original size:3 final size:3
Alignment explanation
Indices: 558518--558558 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
558508 GAATAACTAG
558518 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
558559 TCTAAATCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:559098 original size:34 final size:33
Alignment explanation
Indices: 559052--559149 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 33
559042 AACCAAACTC
*
559052 TTGTTGATTAAATAGGTAATTTAGTGGTTTGCCA
1 TTGTTGATTAAAT-GGTAATTTGGTGGTTTGCCA
* * *
559086 TTGTTGACTAAATGGGAGATTTGGTAGTTTGCCA
1 TTGTTGATTAAATGGTA-ATTTGGTGGTTTGCCA
*
559120 TTGTTGATTAAATGGGTGATTTGGTGGTTT
1 TTGTTGATTAAAT-GGTAATTTGGTGGTTT
559150 TTACCAAACC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 3 0.06
34 49 0.91
35 2 0.04
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (33 bp):
TTGTTGATTAAATGGTAATTTGGTGGTTTGCCA
Found at i:559368 original size:31 final size:31
Alignment explanation
Indices: 559333--559396 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
559323 CGTAATTCTA
559333 TTGTGTCTTTTATTTTGTGCTTGTTCTTCAT
1 TTGTGTCTTTTATTTTGTGCTTGTTCTTCAT
559364 TTGTGTCTTTTATTTTGTGCTTGTTCTTCAT
1 TTGTGTCTTTTATTTTGTGCTTGTTCTTCAT
559395 TT
1 TT
559397 TTCTTCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.16, T:0.66
Consensus pattern (31 bp):
TTGTGTCTTTTATTTTGTGCTTGTTCTTCAT
Found at i:559398 original size:19 final size:18
Alignment explanation
Indices: 559344--559397 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 18
559334 TGTGTCTTTT
559344 ATTTTGTGCTTGTTCTTC
1 ATTTTGTGCTTGTTCTTC
*
559362 A-TTTGTG--TCTT-TT-
1 ATTTTGTGCTTGTTCTTC
559375 ATTTTGTGCTTGTTCTTC
1 ATTTTGTGCTTGTTCTTC
559393 ATTTT
1 ATTTT
559398 TCTTCTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 1 0.03
14 8 0.28
15 3 0.10
16 3 0.10
17 8 0.28
18 6 0.21
ACGTcount: A:0.07, C:0.13, G:0.15, T:0.65
Consensus pattern (18 bp):
ATTTTGTGCTTGTTCTTC
Found at i:559533 original size:19 final size:19
Alignment explanation
Indices: 559480--559534 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
559470 TTGTCGACGT
* ** *
559480 ACTATTCACGTGTATAGGT
1 ACTATTCACGTATACGGGC
559499 ACTATTCACGTATACGGGC
1 ACTATTCACGTATACGGGC
559518 ACTATTCACGTATACGG
1 ACTATTCACGTATACGG
559535 TTCCTGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (19 bp):
ACTATTCACGTATACGGGC
Found at i:563645 original size:22 final size:22
Alignment explanation
Indices: 563620--563668 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
563610 GATTAAATGG
*
563620 TGATTTGGTAGTTTGCCATTGT
1 TGATTTGGTAGTTTGCCATTAT
563642 TGATTTGGTAGTTTGCCATTAT
1 TGATTTGGTAGTTTGCCATTAT
563664 TGATT
1 TGATT
563669 AAATGGGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.51
Consensus pattern (22 bp):
TGATTTGGTAGTTTGCCATTAT
Found at i:563690 original size:34 final size:34
Alignment explanation
Indices: 563642--563757 Score: 169
Period size: 34 Copynumber: 3.4 Consensus size: 34
563632 TTGCCATTGT
*
563642 TGATTTGGTAGTTTGCCATTATTGATTAAATGGG
1 TGATTTGGTAGTTTGCCATTGTTGATTAAATGGG
* *
563676 TGATTTGGTGGTTTGCCATTGTTGACTAAATGGG
1 TGATTTGGTAGTTTGCCATTGTTGATTAAATGGG
* * *
563710 AGATTTGATAGTTTGCTATTGTTGATTAAATGGG
1 TGATTTGGTAGTTTGCCATTGTTGATTAAATGGG
*
563744 TGATTTGGTGGTTT
1 TGATTTGGTAGTTT
563758 TTACCAAACC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 71 1.00
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (34 bp):
TGATTTGGTAGTTTGCCATTGTTGATTAAATGGG
Found at i:563979 original size:31 final size:31
Alignment explanation
Indices: 563944--564004 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
563934 AATTCTTTTA
563944 TGTCTTTTATTTTGTGCTTGTTCTTCATTTG
1 TGTCTTTTATTTTGTGCTTGTTCTTCATTTG
563975 TGTCTTTTATTTTGTGCTTGTTCTTCATTT
1 TGTCTTTTATTTTGTGCTTGTTCTTCATTT
564005 TTCTTCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.07, C:0.13, G:0.15, T:0.66
Consensus pattern (31 bp):
TGTCTTTTATTTTGTGCTTGTTCTTCATTTG
Found at i:564006 original size:19 final size:18
Alignment explanation
Indices: 563952--564005 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 18
563942 TATGTCTTTT
563952 ATTTTGTGCTTGTTCTTC
1 ATTTTGTGCTTGTTCTTC
*
563970 A-TTTGTG--TCTT-TT-
1 ATTTTGTGCTTGTTCTTC
563983 ATTTTGTGCTTGTTCTTC
1 ATTTTGTGCTTGTTCTTC
564001 ATTTT
1 ATTTT
564006 TCTTCTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 1 0.03
14 8 0.28
15 3 0.10
16 3 0.10
17 8 0.28
18 6 0.21
ACGTcount: A:0.07, C:0.13, G:0.15, T:0.65
Consensus pattern (18 bp):
ATTTTGTGCTTGTTCTTC
Found at i:568050 original size:11 final size:11
Alignment explanation
Indices: 568036--568060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
568026 TGATATTAAT
568036 ATTTATATTTA
1 ATTTATATTTA
568047 ATTTATATTTA
1 ATTTATATTTA
568058 ATT
1 ATT
568061 AATTTTTAAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:568064 original size:15 final size:17
Alignment explanation
Indices: 568034--568065 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
568024 TATGATATTA
568034 ATATTTATATTTAATTT
1 ATATTTATATTTAATTT
568051 ATATTTA-A-TTAATTT
1 ATATTTATATTTAATTT
568066 TTAAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTATATTTAATTT
Found at i:568867 original size:2 final size:2
Alignment explanation
Indices: 568860--568885 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
568850 AAGAAAGAGA
568860 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
568886 TTTACTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:573865 original size:20 final size:20
Alignment explanation
Indices: 573833--573870 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
573823 CTTATCTTTA
*
573833 ATTAATAATTTTATTATTAT
1 ATTAATAATTTTAATATTAT
573853 ATTAA-AATATTTAATATT
1 ATTAATAAT-TTTAATATT
573871 TTCCTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTAATAATTTTAATATTAT
Found at i:581757 original size:21 final size:24
Alignment explanation
Indices: 581733--581778 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
581723 TAAAATAAAA
581733 TATAA-AAAAAT-ACAAAAC-TAT
1 TATAATAAAAATAACAAAACATAT
*
581754 TATAATAAAGATAACAAAACATAT
1 TATAATAAAAATAACAAAACATAT
581778 T
1 T
581779 TTGTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 5 0.24
23 7 0.33
24 4 0.19
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (24 bp):
TATAATAAAAATAACAAAACATAT
Found at i:587923 original size:32 final size:33
Alignment explanation
Indices: 587882--587964 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 33
587872 CTTAGTTAAA
*
587882 AATAAAATTAATTAGAATTATTAA-TTACTAAG-
1 AATAAAATTAATTAGAATT-TTAATTTAATAAGT
587914 AATAAAATTAATTA-ATATTTTAATTTAATAAGT
1 AATAAAATTAATTAGA-ATTTTAATTTAATAAGT
587947 AA-AAAATTAATTAAGAAT
1 AATAAAATTAATT-AGAAT
587965 AAAAATAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
31 5 0.11
32 34 0.76
33 5 0.11
34 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (33 bp):
AATAAAATTAATTAGAATTTTAATTTAATAAGT
Found at i:595871 original size:22 final size:24
Alignment explanation
Indices: 595827--595876 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
595817 TAAAAATATA
595827 TTTAAAAATACTTCATTCAAAATT
1 TTTAAAAATACTTCATTCAAAATT
* *
595851 TTTAAATATACTT-TTTC-AAATT
1 TTTAAAAATACTTCATTCAAAATT
595873 TTTA
1 TTTA
595877 TCAATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 3 0.12
24 12 0.50
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTAAAAATACTTCATTCAAAATT
Found at i:597432 original size:168 final size:168
Alignment explanation
Indices: 597049--597669 Score: 763
Period size: 167 Copynumber: 3.7 Consensus size: 168
597039 ACAAATTAAG
* * *
597049 ATTTTTTTAAAAAAATAAAATCGTGAAAACAAATCACTTGACTCTTAAAATAAATAAATTTCATT
1 ATTTTTTTCAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
* * *
597114 GTAAGAATAATCTAACTATTTTAACATCAAGATAACGATCTAAAATAAAAAAAAAT-TATGCATA
66 GTAAGAATAATCCAACTATTTTTACATCAAGATAACGATCCAAAATAAAAAAAAATCTATGCATA
*
597178 CTTAGCCATTCATTTTGCACCGATCAATTAAGATTTTT
131 CTTAGCCATTCATTTTGCACCAATCAATTAAGATTTTT
* * * *
597216 GTTTTTCTCATAAAACAAAATCATGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
1 ATTTTTTTCAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
*
597281 GTGAGAATAATCCAACTATTTTTACATCAAGATAACGATCCAAAATAAAAAAAAAATCTATGCAT
66 GTAAGAATAATCCAACTATTTTTACATCAAGATAACGATCCAAAAT-AAAAAAAAATCTATGCAT
* *
597346 A-TTAGCCATTCTTTTTGCACTAATCAATTAAGATTTTT
130 ACTTAGCCATTCATTTTGCACCAATCAATTAAGATTTTT
* * * *
597384 ATTTTTTTCAAAAAACAAAATTGTGAAAACAAATTATTTTACTCTTAAAACAAATAAATTTCATT
1 ATTTTTTTCAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
* * * * * * *
597449 GTGAGAATAATCCAATTATTTTTACATCAAGATAATGATCCAAAGT-AAAAAAATTTTATTCATA
66 GTAAGAATAATCCAACTATTTTTACATCAAGATAACGATCCAAAATAAAAAAAAATCTATGCATA
* *
597513 CTTAGCCATTCCTTTTGCACCAATTAATTAAGATTTTT
131 CTTAGCCATTCATTTTGCACCAATCAATTAAGATTTTT
* * * * * * *
597551 GTTTTTCTT-ATAAAATAAAATTGTGAAAAC--A--ACTTAACTCTTAATACAAGTAATATTTCA
1 ATTTTT-TTCAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAA-ATTTCA
* * * * * * * *
597611 TTGCAAGAATAATCTAACTATGTTCACCTTATGATAACAATCCAAAATAATACAAAAAA
64 TTGTAAGAATAATCCAACTATTTTTACATCAAGATAACGATCCAAAATAA-A-AAAAAA
597670 AAATCTATGC
Statistics
Matches: 395, Mismatches: 51, Indels: 16
0.85 0.11 0.03
Matches are distributed among these distances:
163 18 0.05
164 42 0.11
165 2 0.01
166 16 0.04
167 163 0.41
168 146 0.37
169 8 0.02
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (168 bp):
ATTTTTTTCAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
GTAAGAATAATCCAACTATTTTTACATCAAGATAACGATCCAAAATAAAAAAAAATCTATGCATA
CTTAGCCATTCATTTTGCACCAATCAATTAAGATTTTT
Found at i:597483 original size:335 final size:335
Alignment explanation
Indices: 597049--597681 Score: 869
Period size: 335 Copynumber: 1.9 Consensus size: 335
597039 ACAAATTAAG
* *
597049 ATTTTTTTAAAAAAATAAAATCGTGAAAACAAATCACTTGACTCTTAAAATAAATAAATTTCATT
1 ATTTTTTTAAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
* *
597114 GTAAGAATAATCTAACTATTTTAACATCAAGATAACGATCTAAAATAAAAAAAAATTATGCATAC
66 GTAAGAATAATCCAACTATTTTAACATCAAGATAACGATCCAAAATAAAAAAAAATTATGCATAC
*
597179 TTAGCCATTCATTTTGCACCGATCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAA
131 TTAGCCATTCATTTTGCACCAATCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAA
* ** * *
597244 ACAAATCACTTGACTCTTAAAACAAATAA-ATTTCATTGTGAGAATAATCCAACTATTTTTACAT
196 AC--A--ACTTAACTCTTAAAACAAATAATATTTCATTGCAAGAATAATCCAACTATGTTCACAT
*
597308 CAAGATAACGATCC-AA-AATA-AAAAAAAAATCTATGCATATTAGCCATTCTTTTTGCACTAAT
257 CAAGATAACAATCCAAATAATACAAAAAAAAATCTATGCATATTAGCCATTCTTTTTGCACTAAT
597370 CAATTAAGATTTTT
322 CAATTAAGATTTTT
* * * * *
597384 ATTTTTTTCAAAAAACAAAATTGTGAAAACAAATTATTTTACTCTTAAAACAAATAAATTTCATT
1 ATTTTTTTAAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
* * * * * ** *
597449 GTGAGAATAATCCAATTATTTTTACATCAAGATAATGATCCAAAGTAAAAAAATTTTATTCATAC
66 GTAAGAATAATCCAACTATTTTAACATCAAGATAACGATCCAAAATAAAAAAAAATTATGCATAC
* * * * **
597514 TTAGCCATTCCTTTTGCACCAATTAATTAAGATTTTTGTTTTTCTTATAAAATAAAATTGTGAAA
131 TTAGCCATTCATTTTGCACCAATCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAA
* * * * * *
597579 ACAACTTAACTCTTAATACAAGTAATATTTCATTGCAAGAATAATCTAACTATGTTCACCTTATG
196 ACAACTTAACTCTTAAAACAAATAATATTTCATTGCAAGAATAATCCAACTATGTTCACATCAAG
597644 ATAACAATCCAAAATAATACAAAAAAAAATCTATGCAT
261 ATAACAATCC-AAATAATACAAAAAAAAATCTATGCAT
597682 GTTTCATGCC
Statistics
Matches: 257, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
331 19 0.07
332 40 0.16
333 1 0.00
334 2 0.01
335 177 0.69
336 18 0.07
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (335 bp):
ATTTTTTTAAAAAAACAAAATCGTGAAAACAAATCACTTGACTCTTAAAACAAATAAATTTCATT
GTAAGAATAATCCAACTATTTTAACATCAAGATAACGATCCAAAATAAAAAAAAATTATGCATAC
TTAGCCATTCATTTTGCACCAATCAATTAAGATTTTTGTTTTTCTCATAAAACAAAATCATGAAA
ACAACTTAACTCTTAAAACAAATAATATTTCATTGCAAGAATAATCCAACTATGTTCACATCAAG
ATAACAATCCAAATAATACAAAAAAAAATCTATGCATATTAGCCATTCTTTTTGCACTAATCAAT
TAAGATTTTT
Found at i:598378 original size:33 final size:33
Alignment explanation
Indices: 598341--598403 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
598331 TTGTTGGTTT
* * *
598341 CTTTATTGTGGAAGGTGCCAGCGTAGTTTGCAC
1 CTTTATTCTGGAAGGCGCCAGCCTAGTTTGCAC
*
598374 CTTTATTCTTGAAGGCGCCAGCCTAGTTTG
1 CTTTATTCTGGAAGGCGCCAGCCTAGTTTG
598404 GCCTTCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (33 bp):
CTTTATTCTGGAAGGCGCCAGCCTAGTTTGCAC
Found at i:598709 original size:19 final size:19
Alignment explanation
Indices: 598685--598726 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
598675 CACGTAAAAT
598685 TATATGAACATAATATA-AA
1 TATATGAACATAA-ATACAA
*
598704 TATATGAATATAAATACAA
1 TATATGAACATAAATACAA
598723 TATA
1 TATA
598727 ATACAAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
TATATGAACATAAATACAA
Found at i:602507 original size:13 final size:13
Alignment explanation
Indices: 602488--602522 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
602478 GAAAGAATTG
602488 AAGAGGGATACAA
1 AAGAGGGATACAA
*
602501 GAGAGGGATACAA
1 AAGAGGGATACAA
602514 AAGAGGGAT
1 AAGAGGGAT
602523 GCTTGAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.37, T:0.09
Consensus pattern (13 bp):
AAGAGGGATACAA
Found at i:602652 original size:27 final size:27
Alignment explanation
Indices: 602588--602692 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
602578 AATAAAAATT
* * *
602588 AACCACCAATTTTGACAAACAACAA-G
1 AACCACTATTTTTGACAAACAAAAAGG
*
602614 --CCACAATTTTTGACAAACAAAAAGG
1 AACCACTATTTTTGACAAACAAAAAGG
* * *
602639 AACCACTATTTTTGACAAATACAAAGT
1 AACCACTATTTTTGACAAACAAAAAGG
*
602666 AACCACTATTTTTGACAAACACAAAGG
1 AACCACTATTTTTGACAAACAAAAAGG
602693 GTGGCTTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.30
25 1 0.01
27 46 0.69
ACGTcount: A:0.47, C:0.22, G:0.10, T:0.22
Consensus pattern (27 bp):
AACCACTATTTTTGACAAACAAAAAGG
Found at i:604608 original size:21 final size:22
Alignment explanation
Indices: 604570--604615 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
604560 ATCTGTTGAA
* **
604570 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
604591 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
604613 ACT
1 ACT
604616 TGTCTGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:607086 original size:13 final size:13
Alignment explanation
Indices: 607067--607101 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
607057 GAAAGAATTG
607067 AAGAGGGATACAA
1 AAGAGGGATACAA
*
607080 GAGAGGGATACAA
1 AAGAGGGATACAA
607093 AAGAGGGAT
1 AAGAGGGAT
607102 GCTTGAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.37, T:0.09
Consensus pattern (13 bp):
AAGAGGGATACAA
Found at i:607201 original size:23 final size:25
Alignment explanation
Indices: 607167--607236 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
607157 AATAAAAATT
607167 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
*
607191 AGCCA-CAATTTTTGACAAACAAAA
1 AGCCACCAATTTTTGACAAACAACA
607215 AGGAACCACC-ATTTTTGACAAA
1 A-G--CCACCAATTTTTGACAAA
607237 TACAAAGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 3 0.08
24 20 0.50
25 1 0.03
27 15 0.38
28 1 0.03
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:607231 original size:27 final size:27
Alignment explanation
Indices: 607169--607271 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
607159 TAAAAATTAG
* *
607169 CCACCAATTTTGACAAACAACAA-G--
1 CCACCATTTTTGACAAACAAAAAGGAA
*
607193 CCACAATTTTTGACAAACAAAAAGGAA
1 CCACCATTTTTGACAAACAAAAAGGAA
* * *
607220 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAGGAA
*
607247 CCACCATTTTTGACAAACACAAAGG
1 CCACCATTTTTGACAAACAAAAAGG
607272 GTGGCTTTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
24 20 0.30
25 1 0.01
27 46 0.69
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (27 bp):
CCACCATTTTTGACAAACAAAAAGGAA
Found at i:610770 original size:20 final size:19
Alignment explanation
Indices: 610720--610797 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
610710 GGTAAAAAGA
610720 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* *
610739 GCAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
*
610759 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* * *
610779 GAAAAATGTATCAATACAT
1 -CATAATGTATCGATACAT
610798 CTAAGTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:610796 original size:40 final size:39
Alignment explanation
Indices: 610720--610797 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
610710 GGTAAAAAGA
* * *
610720 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* *
610759 CATACATGTATCGATATATTGAAAAATGTATCAATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACAT
610798 CTAAGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:611493 original size:28 final size:28
Alignment explanation
Indices: 611352--612847 Score: 1580
Period size: 28 Copynumber: 52.1 Consensus size: 28
611342 TTTTTTTAAA
* *
611352 AAAATGTGCCACTAACTTGTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTG--GGCTTTG
* * *
611382 AAAAAAGTTGCCACCGACACGTGTGGGCTTTG
1 --AAAAGGTGCCACTG--ACTTGTGGGCTTTG
* * * * *
611414 AAAAGAGTTACTACTGGCTTGTCGACTTTG
1 AAAAG-G-TGCCACTGACTTGTGGGCTTTG
*
611444 AAAAGAGTGTCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
611473 AAAAGGTGCTACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
611501 -AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * *
611529 AAAAAGTGCCAATGACTTATGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
611556 AAAAAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
611584 AAAATGTGCCACTGACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
611611 AAAA-GTGCCACTGACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
**
611637 AAAAGGTGCCACTGACTCATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * * ** *
611665 AAAGGGTGCAACGGACTCATGTGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
611693 AAAGGAGTGTCACTGACTTGCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
*
611724 AAAAGAGTGCAACTGACTTGCGTGGGCTTT-
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
611754 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
611785 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
611813 -AAAGAGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
611842 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
611873 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
611901 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
611929 AAAAGGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
611958 AAAAGGGTGCCACTAACTTGCATGGGCTTTG
1 AAAA-GGTGCCACTGACTTG--TGGGCTTTG
611989 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
612017 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
612045 AAAAAGGTGCCACTGACTCGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
612074 AAAAGGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
612103 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
612134 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
*
612162 -AAAGAGTGCCACTGACTCGTGGGC-TTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
612189 AAAGGGTGCCACTGACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
612216 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
612244 AAAGGAGTTGCCATCGACTGACTTGTGGGCTTTG
1 AAA--AGGTG-C--C-ACTGACTTGTGGGCTTTG
*
612278 AAAGGAGTTGCCA-TCGACTTGTGTGGGCTTTG
1 AAA--AGGTGCCACT-GAC-T-TGTGGGCTTTG
*
612310 AAAGGAGTGCCACTGACTTGTGTGGGCTTTG
1 AAAAG-GTGCCACTGAC-T-TGTGGGCTTTG
612341 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
612369 -AAAGAGTGCCACTGAATTGTGGGC-TTC
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
612396 AAAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
612425 AAAGGGTGCCACTGACTTGTGGGCTCT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
612452 AAAAGGGTGCCACTGACTTGTGGGC-TTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
*
612480 AAAATGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
612508 -AAAGAGTGCCACTGAATTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
612536 AAAGGGTGCCACTGACTTGTGGGCTTCG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
612564 AAAGGGTGCCACTGACTTGTGGGCTCT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
612591 AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
*
612620 AAAAAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
612648 -AAAGCGTGCCACTGACTTATGGGC-TTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * *
612675 AAAAGGTGCCACTAAATTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
612703 -AAAGAGAGCCACTGACTTGTGGGCTTT-
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
612730 TAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
612759 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
612787 AAAAGGGTGCCACTGACTCGTGGGATTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
* *
612816 AAAAGAGTGCCACTGACTCGTCGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
612845 AAA
1 AAA
612848 GGGATGAACA
Statistics
Matches: 1296, Mismatches: 94, Indels: 151
0.84 0.06 0.10
Matches are distributed among these distances:
26 26 0.02
27 160 0.12
28 590 0.46
29 150 0.12
30 235 0.18
31 62 0.05
32 37 0.03
33 2 0.00
34 34 0.03
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:612518 original size:139 final size:140
Alignment explanation
Indices: 611403--612850 Score: 1642
Period size: 139 Copynumber: 10.1 Consensus size: 140
611393 CACCGACACG
* * * * * * *
611403 TGTGGGCTTTGAAAAGAGTTACTACTGGCTTGTCGACTTTGAAAAGAGTGTCACTGACTTGTGGG
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGG
* *
611468 CTTTGAAAAGGTGCTACTGACTTGTGGGCTTTGAAAG-GATGCCACTAACTTGTGGGCTTTGAAA
63 CTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTT-AAA
* *
611532 A-AGTGCCAATGACT
126 AGGGTGCCACTGACT
* ** *
611546 TATGGGC-TTGAAAAAGTGCCACTGACTTGTGGGCTTTGAAAA-TGTGCCACTGACTTGTGGGC-
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGAGTGCCACTGACTTGTGGGCT
** *
611608 TTGAAAA-GTGCCACTGACTTGTGGGC-TTGAAA-AGGTGCCACTGACTCATGGGCTTTGAAAGG
65 TTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTTGTGGGCTTTAAAAGG
* *
611670 GTGCAACGGACT
129 GTGCCACTGACT
** * * *
611682 CATGTGCTTTGAAAGGAGTGTCACTGACTTGCGTGGGCTTTGAAAAGAGTGCAACTGACTTGCGT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACTT--GTGGGCTTT-AAAAGAGTGCCACTGACTT--GT
611747 GGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAG-GATGCCACTGACTTGTGGGCT
60 GGGCTTTGAAAA-GGTGCCACTGACTT--GTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCT
* *
611810 TTGAAAGAGTGCCACTGACT
121 TTAAAAGGGTGCCACTGACT
* *
611830 TGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTGGGCTTTGAAAG-GATGCCACTGACTTGTG
1 T--GTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTAAAAGAG-TGCCACTGACTTGTG
*
611894 GGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTTGCGTGGGCTT
61 GGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTT--GTGGGCTT
*
611957 TAAAAGGGTGCCACTAACT
122 TAAAAGGGTGCCACTGACT
* * *
611976 TGCATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGC
1 TG--TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGC
*
612041 TTTGAAAAAGGTGCCACTGACTCGTGGGCTTTGAAA-AGGTGCCACTGACTTGCGTGGGCTTTAA
64 TTTG-AAAAGGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTT--GTGGGCTTTAA
612105 AAGGGTGCCACTGACT
125 AAGGGTGCCACTGACT
* * *
612121 TGCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGC
1 T--GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGC
* * *
612186 -TTGAAAGGGTGCCACTGACTTGTGGGC-TTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
64 TTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGG
612249 AGTTGCCATCGACTGACT
129 -G-TG-C--C-ACTGACT
*
612267 TGTGGGCTTTGAAAGGAGTTGCCA-TCGACTTGTGTGGGCTTTGAAAGGAGTGCCACTGACTTGT
1 TGTGGGCTTTGAAAGG-G-TGCCACT-GAC-T-TGTGGGCTTT-AAAAGAGTGCCACTGAC-T-T
*
612331 GTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTT
58 GTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTT
*
612395 CAAAAGGGTGCCACTGACT
122 TAAAAGGGTGCCACTGACT
* * *
612414 TGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGGTGCCACTGACTTGTGGGC-T
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTT
* * **
612478 TGAAAATGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAATTGTGGGCTTCGAAAGGGT
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGGT
612543 GCCACTGACT
131 GCCACTGACT
* * *
612553 TGTGGGCTTCGAAAGGGTGCCACTGACTTGTGGGCTCTAAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTT
* * * *
612618 TGAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGCGTGCCACTGACTTATGGGCTTGAAAA-GGT
66 TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGGT
* *
612682 GCCACTAAAT
131 GCCACTGACT
* * * *
612692 TATGGGCTTTGAAAGAGAGCCACTGACTTGTGGGCTTTTAAAGAGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTT
* * * *
612757 TG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGGTGCCACTGACTCGTGGGATTTGAAAAG
66 TGAAAAG-GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTT-AAAAG
*
612821 AGTGCCACTGACT
128 GGTGCCACTGACT
* *
612834 CGTCGGCTTTGAAAGGG
1 TGTGGGCTTTGAAAGGG
612851 ATGAACATTC
Statistics
Matches: 1151, Mismatches: 95, Indels: 119
0.84 0.07 0.09
Matches are distributed among these distances:
135 3 0.00
136 38 0.03
137 25 0.02
138 22 0.02
139 243 0.21
140 138 0.12
141 21 0.02
142 62 0.05
143 48 0.04
144 82 0.07
145 157 0.14
146 96 0.08
147 32 0.03
148 66 0.06
149 38 0.03
150 14 0.01
151 12 0.01
152 22 0.02
153 32 0.03
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (140 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGAGTGCCACTGACTTGTGGGCTT
TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTAAAAGGGT
GCCACTGACT
Found at i:628145 original size:20 final size:19
Alignment explanation
Indices: 628095--628172 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
628085 GGTAAAAAGA
628095 CATAATGTATCGATACATT
1 CATAATGTATCGATACATT
* *
628114 GCAGAATATATCGATACATT
1 -CATAATGTATCGATACATT
*
628134 CATACATGTATCGATATATT
1 CATA-ATGTATCGATACATT
* * *
628154 GAAAAATGTATCAATACAT
1 -CATAATGTATCGATACAT
628173 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.89
21 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (19 bp):
CATAATGTATCGATACATT
Found at i:628171 original size:40 final size:39
Alignment explanation
Indices: 628095--628172 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
628085 GGTAAAAAGA
* * *
628095 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* *
628134 CATACATGTATCGATATATTGAAAAATGTATCAATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACAT
628173 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:632124 original size:15 final size:16
Alignment explanation
Indices: 632104--632133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
632094 TCAATATAGG
632104 TTAATT-TGAACTTAT
1 TTAATTATGAACTTAT
632119 TTAATTATGAACTTA
1 TTAATTATGAACTTA
632134 CTTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (16 bp):
TTAATTATGAACTTAT
Found at i:633555 original size:28 final size:29
Alignment explanation
Indices: 633486--633555 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
633476 TGCATTCCTC
*
633486 TAATTTTATGTTTTAAAATCATATTTAAAA
1 TAATTTTA-GATTTAAAATCATATTTAAAA
* *
633516 T-ATTATATATTTAAAAT-ATA-TTAAAA
1 TAATTTTAGATTTAAAATCATATTTAAAA
633542 TAAATTTTAGATTT
1 T-AATTTTAGATTT
633556 TTTAATAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.21
27 3 0.09
28 17 0.52
29 5 0.15
30 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (29 bp):
TAATTTTAGATTTAAAATCATATTTAAAA
Found at i:633600 original size:15 final size:15
Alignment explanation
Indices: 633580--633609 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
633570 ACCTTTATCG
633580 AATAAAAAATATAAA
1 AATAAAAAATATAAA
*
633595 AATAAAAAATTTAAA
1 AATAAAAAATATAAA
633610 TATTTATCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAAAAATATAAA
Found at i:636244 original size:238 final size:236
Alignment explanation
Indices: 635828--636303 Score: 934
Period size: 238 Copynumber: 2.0 Consensus size: 236
635818 CATTTTCATA
635828 TATTATCACATTTGTTACACCAAATAAAATATATATATATATATATATATGGAAAATACAAAATG
1 TATTATCACATTTGTTACACCAAATAAAATATATATATATATATATATATGGAAAATACAAAATG
635893 TCTGGCCAAGGTTAAAAAATAAAAAAAATTTAATCATAATTTAACCTATAAAAAACTTAACTTCA
66 TCTGGCCAAGGTTAAAAAATAAAAAAAATTTAATCATAATTTAACCTATAAAAAACTTAACTTCA
635958 ATTAGAATCAATGCATTAATTTGTTTGGTGTCAAATATGATTTTTTTTAAGCGGTTTCTAATATT
131 ATTAGAATCAATGCATTAATTTGTTTGGTGTCAAATATGATTTTTTTTAAGCGGTTTCTAATATT
636023 TTAATATTAAATTTTATTATTTTACGAAAAAATCAAAATTT
196 TTAATATTAAATTTTATTATTTTACGAAAAAATCAAAATTT
636064 TATTATCACATTTGTTACACCAAATAAAATATATATATATATATATATATATGGAAAATACAAAA
1 TATTATCACATTTGTTACACCAAAT-AAA-ATATATATATATATATATATATGGAAAATACAAAA
636129 TGTCTGGCCAAGGTTAAAAAATAAAAAAAATTTAATCATAATTTAACCTATAAAAAACTTAACTT
64 TGTCTGGCCAAGGTTAAAAAATAAAAAAAATTTAATCATAATTTAACCTATAAAAAACTTAACTT
636194 CAATTAGAATCAATGCATTAATTTGTTTGGTGTCAAATATGATTTTTTTTAAGCGGTTTCTAATA
129 CAATTAGAATCAATGCATTAATTTGTTTGGTGTCAAATATGATTTTTTTTAAGCGGTTTCTAATA
636259 TTTTAATATTAAATTTTATTATTTTACGAAAAAATCAAAATTT
194 TTTTAATATTAAATTTTATTATTTTACGAAAAAATCAAAATTT
636302 TA
1 TA
636304 AAAAATAAAA
Statistics
Matches: 238, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
236 25 0.11
237 3 0.01
238 210 0.88
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (236 bp):
TATTATCACATTTGTTACACCAAATAAAATATATATATATATATATATATGGAAAATACAAAATG
TCTGGCCAAGGTTAAAAAATAAAAAAAATTTAATCATAATTTAACCTATAAAAAACTTAACTTCA
ATTAGAATCAATGCATTAATTTGTTTGGTGTCAAATATGATTTTTTTTAAGCGGTTTCTAATATT
TTAATATTAAATTTTATTATTTTACGAAAAAATCAAAATTT
Found at i:637702 original size:22 final size:21
Alignment explanation
Indices: 637677--637721 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
637667 TACTAATATA
*
637677 ATTTTGTAAGTATATTATTTTT
1 ATTTTATAA-TATATTATTTTT
* *
637699 ATTTTATAATTTATTTTTTTT
1 ATTTTATAATATATTATTTTT
637720 AT
1 AT
637722 CAATTTCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (21 bp):
ATTTTATAATATATTATTTTT
Found at i:637719 original size:16 final size:18
Alignment explanation
Indices: 637695--637727 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
637685 AGTATATTAT
637695 TTTTATTTTAT-AATTTA
1 TTTTATTTTATCAATTTA
637712 TTTT-TTTTATCAATTT
1 TTTTATTTTATCAATTT
637728 CCAATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTATTTTATCAATTTA
Found at i:639122 original size:20 final size:18
Alignment explanation
Indices: 639099--639145 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
639089 AGAATTGTGG
*
639099 AAAATAAAAATGGAAAAAA
1 AAAATAAAAA-GCAAAAAA
639118 TAAAATAAAAAGCAAAAAA
1 -AAAATAAAAAGCAAAAAA
639137 AAAA-AAAAA
1 AAAATAAAAA
639146 ACTCAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 7 0.27
20 10 0.38
ACGTcount: A:0.83, C:0.02, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAGCAAAAAA
Found at i:639731 original size:20 final size:19
Alignment explanation
Indices: 639659--639729 Score: 97
Period size: 20 Copynumber: 3.6 Consensus size: 19
639649 GTCACATTTT
*
639659 TATCGATACATTTTTAATG
1 TATCGATACATTTTCAATG
* *
639678 TATCGATACATGTATGAATG
1 TATCGATACAT-TTTCAATG
639698 TATCGATACATTCTTCAATG
1 TATCGATACATT-TTCAATG
639718 TATCGATACATT
1 TATCGATACATT
639730 CTGTCTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 12 0.26
20 34 0.74
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (19 bp):
TATCGATACATTTTCAATG
Found at i:648131 original size:28 final size:28
Alignment explanation
Indices: 648091--648440 Score: 466
Period size: 27 Copynumber: 12.8 Consensus size: 28
648081 GTGACCCTTC
648091 AAAGTCCACAACTCCGTGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
648119 AAAGTCCACAACTCCGTGGCA-TCCTTTT
1 AAAGTCCACAACTCCGTGGCACT-CTTTT
***
648147 AAAGTCCACAACTTTATGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
*
648175 AAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
* * *
648203 -AAGTACACAACTCCGTGGCAC-CCTTC
1 AAAGTCCACAACTCCGTGGCACTCTTTT
648229 AAAGTCCACAACTCCGTGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
*
648257 AAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
*
648285 -AAGTCCACAACTCCGTGGCGCTC-TTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
*
648311 AAAGTCCACGACTCCGTGGCACTCTTTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
* * *
648339 AAAGTCCACAACTCTGTGGCACCCTCTT
1 AAAGTCCACAACTCCGTGGCACTCTTTT
648367 AAA-TCCACAACTCCGTGGCA-TCCTTTT
1 AAAGTCCACAACTCCGTGGCACT-CTTTT
*
648394 -AAGTCCACAACTCCGTGGCAC-CTTTC
1 AAAGTCCACAACTCCGTGGCACTCTTTT
* * *
648420 AAAGCCCACAAGTCAGTGGCA
1 AAAGTCCACAACTCCGTGGCA
648441 TCCTTCTCAA
Statistics
Matches: 283, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.04
27 137 0.48
28 133 0.47
29 1 0.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (28 bp):
AAAGTCCACAACTCCGTGGCACTCTTTT
Found at i:648260 original size:82 final size:82
Alignment explanation
Indices: 648091--648445 Score: 505
Period size: 82 Copynumber: 4.3 Consensus size: 82
648081 GTGACCCTTC
* *
648091 AAAGTCCACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCAC
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CCCTTTAAAGTCCAC
***
648156 AACTTTATGGCACTCTTTT
64 AACTCCGTGGCACTCTTTT
* *
648175 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTACACAACTCCGTGGCACCCTTCAAAGTCCACAA
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAA
648240 CTCCGTGGCACTCTTTT
66 CTCCGTGGCACTCTTTT
* * *
648257 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCGCTCTTTAAAGTCCACGA
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAA
648322 CTCCGTGGCACTCTTTT
66 CTCCGTGGCACTCTTTT
* * * * *
648339 AAAGTCCACAACTCTGTGGCACCCTCTTAAATCCACAACTCCGTGGCATCCTTTTAAGTCCACAA
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAA
*
648404 CTCCGTGGCAC-CTTTC
66 CTCCGTGGCACTCTTTT
* * * *
648420 AAAGCCCACAAGTCAGTGGCATCCTT
1 AAAGTCCACAACTCCGTGGCACCCTT
648446 CTCAAAGCCC
Statistics
Matches: 245, Mismatches: 26, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
81 25 0.10
82 174 0.71
83 19 0.08
84 27 0.11
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (82 bp):
AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCACAA
CTCCGTGGCACTCTTTT
Found at i:648488 original size:32 final size:32
Alignment explanation
Indices: 648416--649416 Score: 1246
Period size: 32 Copynumber: 31.2 Consensus size: 32
648406 CCGTGGCACC
* *
648416 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648444 TTCTCAAAGCCCACACAAGTCGATGGCAACCCA
1 TT-TCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
648477 TTTCAAAGCCCACATAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
648509 CTTCAAAGCCCAAACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648541 TTTCAAAGCCCACACAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
648573 TTTCAAAGCCCACACAAGTTGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
648605 TTTGAAAGCCCACATAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648637 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648669 TTTCAAAGCCCATACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648701 TTTCAAAGCCCACACAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
648733 TTTTAAAGCCCACACAAGTTGGTAGCAACCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
648765 TTTGAAAACCCACACAAGTCGGTGGTAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
648797 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
648829 TTTCAAAGCCCACATAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
648861 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648893 TTTCAAAGCCCACACAAGTCTGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
648925 TTTCAAAGCCCACACAAGTTGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
648957 TTTGAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
648989 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
649021 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
649053 TTTCAAAGCTCACACAGCCCACACAAGTCGGTGGCAACCCA
1 -TT------TCA-A-AGCCCACACAAGTCGGTGGCAACCCA
* *
649094 TTTCAAAACCCACACAAGTCGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
649126 TTTCAAAACCTACACAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
649158 TTTCAAAG-CC-CACAAGTCAGTGAC-A-TCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
649186 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** *
649218 TTTGAAAGCCCACATGAGTTGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
649250 TTTCAAAGCCCACACAAGTTGGTGGCAACTCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
649282 TTTCAAAGCCCACACGAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
649314 TTTCAAAGCCCACACAAGTTGATGGGAACCCC
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * ** * *
649346 TTTCAAAAGTCCATAC-TTTCAGTGGCAACCCT
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCCA
* * ** *
649378 TTTAAAAGCCCACGCAAGTTAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
649410 TTTCAAA
1 TTTCAAA
649417 TCACCATTTT
Statistics
Matches: 846, Mismatches: 107, Indels: 36
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.01
29 9 0.01
30 25 0.03
31 22 0.03
32 730 0.86
33 14 0.02
34 3 0.00
39 3 0.00
40 3 0.00
41 25 0.03
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:649086 original size:41 final size:41
Alignment explanation
Indices: 649027--649109 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
649017 CCCATTTCAA
* * *
649027 AGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCTCACAC
1 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACAC
649068 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACAC
1 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACAC
649109 A
1 A
649110 AGTCGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.36, G:0.16, T:0.14
Consensus pattern (41 bp):
AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACAC
Found at i:649249 original size:92 final size:95
Alignment explanation
Indices: 649068--649352 Score: 362
Period size: 92 Copynumber: 3.0 Consensus size: 95
649058 AAGCTCACAC
* * * *
649068 AGCCCACACAAGTCGGTGGCAACCCATTTCAAAACCCACACAAGTCGGTGGCAACCTATTTCAAA
1 AGCCCACACAAGTCAGTGACAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACC-ATTTCAAA
* *
649133 ACCTACACAAGTTGGTGGCAACCCATTTCAA
65 GCCCACACAAGTTGGTGGCAACCCATTTCAA
*
649164 AG-CC-CACAAGTCAGTGAC-A-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAA
1 AGCCCACACAAGTCAGTGACAACTCATTTCAAAGCCCACACAAGTCGGTGGCAAC-CATTTCAAA
**
649225 GCCCACATGAGTTGGTGGCAACCCATTTCAA
65 GCCCACACAAGTTGGTGGCAACCCATTTCAA
** * * *
649256 AGCCCACACAAGTTGGTGGCAACTCATTTCAAAGCCCACACGAGTCGGTGGCAACCCTTTTCAAA
1 AGCCCACACAAGTCAGTGACAACTCATTTCAAAGCCCACACAAGTCGGTGGCAA-CCATTTCAAA
* * *
649321 GCCCACACAAGTTGATGGGAACCCCTTTCAA
65 GCCCACACAAGTTGGTGGCAACCCATTTCAA
649352 A
1 A
649353 AGTCCATACT
Statistics
Matches: 163, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
92 66 0.40
93 4 0.02
94 23 0.14
95 3 0.02
96 66 0.40
97 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.20
Consensus pattern (95 bp):
AGCCCACACAAGTCAGTGACAACTCATTTCAAAGCCCACACAAGTCGGTGGCAACCATTTCAAAG
CCCACACAAGTTGGTGGCAACCCATTTCAA
Done.