Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
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: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 3 of 18
Found at i:308707 original size:98 final size:98
Alignment explanation
Indices: 308398--308712 Score: 373
Period size: 98 Copynumber: 3.2 Consensus size: 98
308388 GCACTCTTTC
* * * *
308398 AAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCC
1 AAAGCCCACACAAGTCAGTGACAACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTCC
** * *
308463 AAAGGTCACACAAGTTGGTGGCAACACTTCTCT
66 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * * * * * * *
308496 AAAGCCTACACAAGT-TGATAACAACCCCTCTCCAAAGCCCCCATAAGTTGGTGGCAACCCCTTT
1 AAAGCCCACACAAGTCAG-TGACAACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAA-CCCTCT
* *
308560 CTAAAGCCCACACAAGTCGGTGGCAA-CCTTCTCC
64 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* * *
308594 AAAGCCCACATAAGTCAGTGACAACCCTTCCCCAAAGCCCACACAAGTCGATGGCAACCCTCTCC
1 AAAGCCCACACAAGTCAGTGACAACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTCC
* **
308659 AAAGCCCATACAAGTCAATGGCAACCCTTCTCT
66 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
308692 AAAGCCCACACAAGTCGGTGA
1 AAAGCCCACACAAGTCAGTGA
308713 TCAGAATTCA
Statistics
Matches: 178, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
97 28 0.16
98 123 0.69
99 27 0.15
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (98 bp):
AAAGCCCACACAAGTCAGTGACAACCCTTCTCCAAAGCCCACACAAGTCGGTGGCAACCCTCTCC
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:312895 original size:155 final size:155
Alignment explanation
Indices: 312269--313724 Score: 1475
Period size: 155 Copynumber: 9.4 Consensus size: 155
312259 AAAGATTATC
* * * * * ** * * * *
312269 AAAATG-CCCTAGAGAACACCTTCGACGTAAAAGCATCCCGACAACCCTAAAGGATTTAAATAGA
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAAA
* ** * ** * * *
312333 CTCATAAAAAGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAATGGACCCAGTGACGAC
66 CT-AGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGAC
*
312398 CTAGGAGTTGGTTCT-AAAAATTATG
130 CTAGGAGTTGGTTCTAAAAAATTACG
* * * * *
312423 AAAATGCCTCTAGGGGATACCTTCGACGTAAAAGTATCCTGATACCTCTGAAA-GACTTAGAAAG
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCT-AAAGGACTTAAAAAA
* * * *
312487 GCTAGAAATGGGATGAACCTATTCTAAAAGCCCACCTTTGGCATAAAAGCGAACCCGGTGATAAC
65 ACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGAC
* *
312552 CTAGGAGTTGGTTTTAAAAAATTACA
130 CTAGGAGTTGGTTCTAAAAAATTACG
* * * * *
312578 AAAATACCCCTAAGGGATACTTTCGACGTGAAAGTATCCTAGTACCCCTAAAGGACTT-AAAAAA
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAAA
* *
312642 CTAGAGATGAGATGAACCTATCCTAAATGCCCACC-TT-GCATAAAAGCGAACCCGGTGATGACC
66 CTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGACC
312705 TAGGAGTTGGTTCTAAAAAATTACG
131 TAGGAGTTGGTTCTAAAAAATTACG
* ** * *
312730 AAAATACCCCTAGGGGATATTTTCGACGTGAAAGTATCTTGGTACCCCTAAAGGACTTAAAAAAA
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAAA
* * ** *
312795 CTAGAGATGGGGTGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCTAGTGATGGCC
66 CTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGACC
*
312860 TAGGAGTTCGTTCTAAAAAATTACG
131 TAGGAGTTGGTTCTAAAAAATTACG
*
312885 AAAATGCCCCTAGGGGATACCTTCGACGTGAAAGTAT-CTCGGTACCCCTAAAGGACTTAAAAAA
1 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCT-GGTACCCCTAAAGGACTTAAAAAA
* *** * *
312949 ACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCAACATAAAAGCGCACCCGATGATGAC
65 ACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGAC
* * * *
313014 CTAAGACTCGGTTCTAAAAAAATACCG
130 CTAGGAGTTGGTTCTAAAAAATTA-CG
* * ** * * *
313041 -AAATACCCCTAGGGGTATACCTTCGACGTAAAAGTATCCTCGTAAACTTAAAAGACTTAAAAAG
1 AAAATGCCCCTAGGGG-ATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAA
* * * * * *
313105 ACTAGAAATGATGATAAACCTATCCTAAATTCCTACCTTT-GCATAAAAGCGGA-CCGGTAATGA
65 ACTAGAAATG-GGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGA
* * *
313168 CCTAGTAGTTCGTTCT-AAAAATTACA
129 CCTAGGAGTTGGTTCTAAAAAATTACG
** * * *
313194 AAAATGCCCCTATGGATATACTTTCGACGTAAAAGTATCCTGGTAACCCTAAAGGACTTAAAAAG
1 AAAATGCCCCTA-GGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAA
* ** * *
313259 ACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTTAACATAAAAGCGGACCCGATGATGAC
65 ACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGAC
* * * *
313324 CTAGGACTTGGTTCGAGAAAATTATG
130 CTAGGAGTTGGTTCTAAAAAATTACG
* * * * **** *
313350 AAAATGCCCCTATAGGTATACTTTCGAAGTAAAAGTATCCCAACAACCCTAAAGGACTTAAAAAA
1 AAAATGCCCCTA-GGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAA
* * * * * *
313415 ACTATAAAAGGAATGAAACTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGATGAC
65 ACTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGAC
* * *
313480 TTTGGAGTTGGTTCTAAGAAATTAC-
130 CTAGGAGTTGGTTCTAAAAAATTACG
* * * * * * * * *
313505 AAAATGCCCCTATCGGTATAGCTTCGACGTAAAAGTACCCCGGCAACCCTAAAGGACCTAAAAAG
1 AAAATGCCCCTA-GGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAA
* * * * * ** *
313570 ACTATAAAAGTGG-TGAACCTATCGTAAATACCCACCTTAGGCATAAAAGC-AGACCCGACGATA
65 ACTAGAAATG-GGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGA-ACCCGGTGATG
* * * *
313633 ACCTAGGACTCGATTTTAGAAAAATTACG
128 ACCTAGGAGTTGGTTCTA-AAAAATTACG
* * * * *
313662 AAAATACCTCTAGAGGATACCTTCGACGTGAAAA-TATCCTGATACCGCTAAAGGACTTAAAAA
1 AAAATGCCCCTAGGGGATACCTTCGACGT-AAAAGTATCCTGGTACCCCTAAAGGACTTAAAAA
313725 TGATAGGTAT
Statistics
Matches: 1096, Mismatches: 184, Indels: 42
0.83 0.14 0.03
Matches are distributed among these distances:
152 102 0.09
153 67 0.06
154 191 0.17
155 451 0.41
156 245 0.22
157 40 0.04
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (155 bp):
AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAAA
CTAGAAATGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGAACCCGGTGATGACC
TAGGAGTTGGTTCTAAAAAATTACG
Found at i:314223 original size:128 final size:126
Alignment explanation
Indices: 313936--314292 Score: 599
Period size: 128 Copynumber: 2.8 Consensus size: 126
313926 CAAAAAATTT
* *
313936 ATTTCGTACCTTAATGGATACCCGAAAAGGTACGAAAAGTTTTTGAAATTTTTAATACCCCTACG
1 ATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAATTTTT-ATACCCCTATG
* * *
314001 GGTACCCATAGGAATATAAAAAATT-AAAATGACTAATATTTATTTAGTTTGGAAAAGAAAC
65 GATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTAGCTTGGAAAAGAAAC
*
314062 ATTTTGTACCTTAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAATATTTTATACCCCTATG
1 ATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAAT-TTTTATACCCCTATG
*
314127 GATACCAATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGCTTGGAAAAGAAAC
65 GATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTA-GCTTGGAAAAGAAAC
*
314190 ATTTCGTACCTTAATGGATACCTGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTATG
1 ATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAAT-TTTTATACCCCTATG
314255 GATACCCATAGGAATATAAAAAATTAAAAATGATTAAT
65 GATACCCATAGGAATATAAAAAATTAAAAATGATTAAT
314293 GTGTGTTTAA
Statistics
Matches: 217, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
126 80 0.37
127 24 0.11
128 113 0.52
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (126 bp):
ATTTCGTACCTTAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAATTTTTATACCCCTATGG
ATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTAGCTTGGAAAAGAAAC
Found at i:315323 original size:11 final size:11
Alignment explanation
Indices: 315307--315353 Score: 60
Period size: 10 Copynumber: 4.2 Consensus size: 11
315297 CTTGGATTTT
315307 TCTTTTTTCTC
1 TCTTTTTTCTC
315318 TCTTTTCTTTCTC
1 TC-TTT-TTTCTC
315331 TCTTTTTTCT-
1 TCTTTTTTCTC
*
315341 TCTTTTTTTTC
1 TCTTTTTTCTC
315352 TC
1 TC
315354 ACTTGCTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.28
11 9 0.28
12 6 0.19
13 8 0.25
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:315330 original size:13 final size:12
Alignment explanation
Indices: 315309--315353 Score: 60
Period size: 11 Copynumber: 3.9 Consensus size: 12
315299 TGGATTTTTC
315309 TTTTTTCTCTCT
1 TTTTTTCTCTCT
315321 TTTCTTTCTCTC-
1 TTT-TTTCTCTCT
315333 TTTTTTCT-TCT
1 TTTTTTCTCTCT
315344 TTTTTT-TCTC
1 TTTTTTCTCTC
315354 ACTTGCTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.10
11 13 0.43
12 6 0.20
13 8 0.27
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTTCTCTCT
Found at i:315344 original size:23 final size:24
Alignment explanation
Indices: 315307--315353 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
315297 CTTGGATTTT
315307 TCTTTTTTCTCTCTTTTCTTTCTC
1 TCTTTTTTCTCTCTTTTCTTTCTC
*
315331 TCTTTTTTCT-TCTTTTTTTTCTC
1 TCTTTTTTCTCTCTTTTCTTTCTC
315354 ACTTGCTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TCTTTTTTCTCTCTTTTCTTTCTC
Found at i:316181 original size:165 final size:165
Alignment explanation
Indices: 316010--316575 Score: 592
Period size: 165 Copynumber: 3.4 Consensus size: 165
316000 TCAAAAACTC
* *
316010 ATGAAAATGAATGAATTTTTGAAAACAGAATTAATATGAATCAAATGATGATGTTTTATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAACAGAATTAATATGAAT-AAATAATGATGTTTGATGAATTT
*
316075 TAAAAATTGAAAACTGAGAAAAATCCCCT-AAAAAAATTACGAAGTAGAAAACATCATATTTAGG
65 TAAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAAATTACGAAGTAGAAAACATCATATTTAGG
* *
316139 AAAACGGGAAGTGTCAAGGAAAAAAATCAAAAATGA
130 AAAAAGGGAAGTGTCAAGGAAAAAAATAAAAAATGA
* ** * * *
316175 ATGAAAATGAATGAATTTTTGAAAA-ATAAATTAATACAAAATAGATAATGTTGTTAGATGAATT
1 ATGAAAATGAATGAATTTTTGAAAACA-GAATTAATA-TGAATAAATAATGATGTTTGATGAATT
* * * * *
316239 TTAAAAATTGAAAACCAAGAAAAATCCCCTCAAAACAATTTACGAAATAGAAAACACCGTATTTC
64 TTAAAAATTGAAAACTAAGAAAAATCCCCTCAAAA-AAATTACGAAGTAGAAAACATCATATTT-
* * *
316304 AGAAAAAAAAGGGAAGTTTTAAGGAAAAAAATAAAAAATGA
127 AG--GAAAAAGGGAAGTGTCAAGGAAAAAAATAAAAAATGA
* *
316345 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATGATATTTGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAACAGAATTAATATG-AATAAATAATGATGTTTGATGAATTT
* * * * * *
316410 TAAAAATTAAAAATTAAGAAAAATCCTCTCAAAAAAATTTACGGAGAAGAAAAC-TCCATATTTT
65 TAAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAAA-TTACGAAGTAGAAAACAT-CATATTTA
* * * *
316474 GGAAACAAGAGAA-TTTCAA--AGAAAAATAAAAAACT-C
128 GGAAA-AAGGGAAGTGTCAAGGAAAAAAATAAAAAA-TGA
* * * * * * *
316510 ATGAACATG-ATGGAATTTCTTG-AAACTGATTTAATGTGAATCAAATGATAATATTTGATGAAT
1 ATGAAAATGAAT-GAATTT-TTGAAAACAGAATTAATATGAAT-AAATAATGATGTTTGATGAAT
316573 TTT
63 TTT
316576 GATGTTTTAA
Statistics
Matches: 337, Mismatches: 48, Indels: 32
0.81 0.12 0.08
Matches are distributed among these distances:
164 6 0.02
165 141 0.42
166 11 0.03
167 32 0.09
168 8 0.02
169 3 0.01
170 136 0.40
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.28
Consensus pattern (165 bp):
ATGAAAATGAATGAATTTTTGAAAACAGAATTAATATGAATAAATAATGATGTTTGATGAATTTT
AAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAAATTACGAAGTAGAAAACATCATATTTAGGA
AAAAGGGAAGTGTCAAGGAAAAAAATAAAAAATGA
Found at i:316364 original size:170 final size:165
Alignment explanation
Indices: 316010--316472 Score: 572
Period size: 170 Copynumber: 2.8 Consensus size: 165
316000 TCAAAAACTC
** * *
316010 ATGAAAATGAATGAATTTTTGAAAACA-GAATTAATATGAATCAAATGATGATGTTTTATGAATT
1 ATGAAAATGAATGAATTTTTGAAAA-ATGAATTAATAAAAAT-AAATAATGATGTTTGATGAATT
* * * *
316074 TTAAAAATTGAAAACTGAGAAAAATCCCCT-AAAAAAATTACGAAGTAGAAAACATCATATTTAG
64 TTAAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAATTTACGAAATAGAAAACACCATATTTAG
* * *
316138 GAAAACGGGAAGTGTCAAGGAAAAAAATCAAAAATGA
129 AAAAAAGGGAAGTGTCAAGGAAAAAAATAAAAAATGA
* * * *
316175 ATGAAAATGAATGAATTTTTGAAAAATAAATTAATACAAAATAGATAATGTTGTTAGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAAATGAATTAATA-AAAATAAATAATGATGTTTGATGAATTT
* *
316240 TAAAAATTGAAAACCAAGAAAAATCCCCTCAAAACAATTTACGAAATAGAAAACACCGTATTTCA
65 TAAAAATTGAAAACTAAGAAAAATCCCCTCAAAA-AATTTACGAAATAGAAAACACCATATTT-A
* *
316305 GAAAAAAAAGGGAAGTTTTAAGGAAAAAAATAAAAAATGA
128 G--AAAAAAGGGAAGTGTCAAGGAAAAAAATAAAAAATGA
* * *
316345 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATGATATTTGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAAATGAATTAATA-AAAATAAATAATGATGTTTGATGAATTT
* * * * *
316410 TAAAAATTAAAAATTAAGAAAAATCCTCTCAAAAAAATTTACGGAGA-AGAAAACTCCATATTT
65 TAAAAATTGAAAACTAAGAAAAATCCCCTC-AAAAAATTTAC-GAAATAGAAAACACCATATTT
316473 TGGAAACAAG
Statistics
Matches: 255, Mismatches: 34, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
164 1 0.00
165 78 0.31
166 7 0.03
167 24 0.09
168 2 0.01
170 136 0.53
171 7 0.03
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (165 bp):
ATGAAAATGAATGAATTTTTGAAAAATGAATTAATAAAAATAAATAATGATGTTTGATGAATTTT
AAAAATTGAAAACTAAGAAAAATCCCCTCAAAAAATTTACGAAATAGAAAACACCATATTTAGAA
AAAAGGGAAGTGTCAAGGAAAAAAATAAAAAATGA
Found at i:317965 original size:151 final size:152
Alignment explanation
Indices: 317685--317975 Score: 376
Period size: 151 Copynumber: 1.9 Consensus size: 152
317675 AATCAACAAC
* ** *
317685 GGATAAAAAGATTTACTTGGGACTAAGCCAACAAGTAAACAAGAGAAGAAAGTTGATTGGGATCG
1 GGATAAAAAGATTTACCTAAGACTAAGCCAACAAGTAAACAAGAGAAGAAAGTTGATTGAGATCG
* * *
317750 AACTGACAAGTCAATAGAGGATAAAAGATATACCCGAGACTAAGACAACAGGTAAACGATGGATA
66 AACTGACAAGTCAACAGAGGATAAAAGATATACCCGAGACTAAGACAACAGGTAAACAAAGGATA
317815 AA-AAGTTGATCGGGATTAAAA
131 AAGAAGTTGATCGGGATTAAAA
317836 GGAT-AAAAGATTTACCTAAGACTAAGCCAACAAGTAAACAA-AGGATA-AAAGGTTGATTGAGA
1 GGATAAAAAGATTTACCTAAGACTAAGCCAACAAGTAAACAAGA-GA-AGAAA-GTTGATTGAGA
* * * * * ** *
317898 TTGAACTGACGAGTCAACAGTGGATAAAATATTTACCTCG-GACTAAGATGATAGGTAAACAAAG
63 TCGAACTGACAAGTCAACAGAGGATAAAAGATATACC-CGAGACTAAGACAACAGGTAAACAAAG
317962 GATAAAGAAGTTGA
127 GATAAAGAAGTTGA
317976 CTAGGATTGG
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
149 1 0.01
150 39 0.32
151 71 0.59
152 9 0.08
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (152 bp):
GGATAAAAAGATTTACCTAAGACTAAGCCAACAAGTAAACAAGAGAAGAAAGTTGATTGAGATCG
AACTGACAAGTCAACAGAGGATAAAAGATATACCCGAGACTAAGACAACAGGTAAACAAAGGATA
AAGAAGTTGATCGGGATTAAAA
Found at i:318538 original size:42 final size:43
Alignment explanation
Indices: 318458--318538 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
318448 TGAGCCGACA
* * *
318458 GGCAAACAATTGATGAAAAATGTCTCTCGGGTCTAAGCCTCTG
1 GGCAAACAATGGATGAAAAATGTCTCCCGAGTCTAAGCCTCTG
* *
318501 GGCAAACAGTGGATGAAGAA-GTCTCCCGAGTCTAAGCC
1 GGCAAACAATGGATGAAAAATGTCTCCCGAGTCTAAGCC
318539 GATGGGCAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 16 0.48
43 17 0.52
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (43 bp):
GGCAAACAATGGATGAAAAATGTCTCCCGAGTCTAAGCCTCTG
Found at i:318562 original size:42 final size:42
Alignment explanation
Indices: 318298--318771 Score: 142
Period size: 42 Copynumber: 11.2 Consensus size: 42
318288 GGCAGATGGT
* * * *
318298 TGATAAAGGAAGTCTCCCAAGACTGAGTTGACGGGCAGACGAA
1 TGATAAA-GAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
** * * * * ** * * **
318341 AAATGAAGAAGTCT-TCTAGGTCAAAGCCAACGAGCAGATGGT
1 TGATAAAGAAGTCTCCCGA-GTCTAAGCTGACGGGCAGACGAA
* * * **
318383 TGATAAAGGAAATCTCCTGGGTCTAAGCTGACGGGCACCCGAA
1 TGATAAA-GAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
* * * * * * *
318426 TGACAAAGGAGTCTCTC-AGGTCTGAGCCGACAGGCAAAC-AA
1 TGATAAAGAAGTCTCCCGA-GTCTAAGCTGACGGGCAGACGAA
* * * *
318467 TTGATGAAA-AATGTCTCTCGGGTCTAAGCCT--CTGGGCAAAC-AG
1 -TGAT-AAAGAA-GTCTCCCGAGTCTAAG-CTGAC-GGGCAGACGAA
* * *
318510 TGGATGAAGAAGTCTCCCGAGTCTAAGCCGATGGGCAGACGAA
1 T-GATAAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
* * *
318553 AGATAAAGAAAGTCTCTCG-GCTTTAAGCTGACGGGCAGACGAA
1 TGATAAAG-AAGTCTCCCGAG-TCTAAGCTGACGGGCAGACGAA
* * ** * *
318596 TGATAAAGGAGCCTCTTGGGTCTGAGCTGACGGGCAGAC-AA
1 TGATAAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
* * * * **
318637 TTGATGAAGAGAGTCTCCCTAGTCTAAGCTGA-AGGTAGACGGT
1 -TGATAAAGA-AGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
* * * * ** * *
318680 TGATGAAGGAGTCTCCTGGGTCTAAGCCAACAGGCAGACGAT
1 TGATAAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
* * * * ** *
318722 TAATGAAAAAAGTCT-CCGAGTCAAAGCCGACAAGCAGATGAA
1 TGAT-AAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
*
318764 TAATAAAG
1 TGATAAAG
318772 GAATCTCTCG
Statistics
Matches: 307, Mismatches: 101, Indels: 48
0.67 0.22 0.11
Matches are distributed among these distances:
41 26 0.08
42 162 0.53
43 118 0.38
44 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (42 bp):
TGATAAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAGACGAA
Found at i:318891 original size:43 final size:44
Alignment explanation
Indices: 318801--319847 Score: 559
Period size: 43 Copynumber: 24.3 Consensus size: 44
318791 CAACGGGCAG
* * * * * * * *
318801 ACTTAAGGGTGAAG-AAGTGTCCAAGGACAAAGCCAAAAAACAG
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * ** *
318844 ACTTAAGGGTGAAGACA-TCTCTAGGGTGAAAGTTGACAGGCAA
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* *
318887 ACTTAAGGATGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGTAA
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * * * * * * *
318931 ACTTAAGGGTG-AGGAAGCCCCCAAGGTCAAAGTCGATAGGTAG
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * *
318974 ACTTAAAGGTGAAGGAAGTCTCCAAGGTCAAAGCCGACAAGCAG
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * * *
319018 ATTTAAGGG-CAAGGAAGTCTCCAAGGTCAAAGCCGACAAGCAG
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * *
319061 ACTTAAGGATG-AGGAAGTCACTAGGGTTAAAGCCGAC-AGCAA
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * * *
319103 GACTTAAAGGG-GAAG-AAGTCTCTAAGGTTAAAGTCGATAGGCAG
1 -ACTT-AAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * * * *
319147 ACTTAAGGAT-AAAAAAGTCT-TCAGGGTTAAAGTCGACAGGTAG
1 ACTTAAGGGTGAAGAAAGTCTCT-AGGGTCAAAGCCGACAAGCAA
* * * * * *
319190 ACTTAAGGATGAAG-AAGTCTCCAAGGTCAGAGTCGACAAACAA
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* *
319233 ACTTAAAGGG-GAAG-AAGTCTCTAGGGTCAAAGCCGACAGGCAG
1 ACTT-AAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * * *
319276 ACTTAAAGGG-GAAG-AAGTCTCCAAGGTCAAAGTCGATAGGCAG
1 ACTT-AAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * *
319319 ACTTAAGTGG-GAAG-AAGTCTCTAAGGTCAAAGTCGATAGGCAA
1 ACTTAAG-GGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
** * * *** * * *
319362 ACTTAAGGGCAAAG-AAGTCT-TCAAGATCAAAATTGATAGGCAG
1 ACTTAAGGGTGAAGAAAGTCTCT-AGGGTCAAAGCCGACAAGCAA
* * * * *
319405 ACTTGA-GGTCGAAG-AAGTATCCAAGGTCAAAGCCGAC-AGACAG
1 ACTTAAGGGT-GAAGAAAGTCTCTAGGGTCAAAGCCGACAAG-CAA
* * * *
319448 ACTTAAAGG-GAA-AGAAGTCTCCAGGGTCAAAGCCGACAGGAAA
1 ACTTAAGGGTGAAGA-AAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * *
319491 ACTTAAGGGCGGAG-AAGTATCCAGGGTCAAAGCCAACAAGCAA
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * *
319534 ACTTAAGGGCGAAG-AAGTCTCTAGGGTCAAAGCCGAGAGGTAG
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * * * *
319577 ACTTAA-GGTCGAAG-AAGTCTCTAAGGTCAAAACTGATAGGTAG
1 ACTTAAGGGT-GAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * ** * *
319620 ACTTAAAGAG-GAAG-AAGTCTCCAATGTCAAAGCCGACAGGCAG
1 ACTT-AAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * *
319663 ACTTGA-GGTCGAAG-AAGTCTCAAGGGTCAAAGCCGACAAGCAG
1 ACTTAAGGGT-GAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* *
319706 ACTTAAAGGG-GAAG-AAGTCTCTAGGGTCAAAACCGA-AGAGCAG
1 ACTT-AAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACA-AGCAA
* * *
319749 ACTTAAGGGAGAAG-AAGTCTCTAGGGTCAAAGCCGACAGGCAG
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
* * * * *
319792 ACTTGA-GGTCAAAAAAGTCTCTAGGGTCAAAGCCGACAGGCCA
1 ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
319835 ACTTAA-GGTGAAG
1 ACTTAAGGGTGAAG
319848 CAATCTCCCA
Statistics
Matches: 816, Mismatches: 151, Indels: 74
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.00
42 36 0.04
43 687 0.84
44 89 0.11
45 3 0.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.16
Consensus pattern (44 bp):
ACTTAAGGGTGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGCAA
Found at i:319123 original size:86 final size:85
Alignment explanation
Indices: 318878--319847 Score: 804
Period size: 86 Copynumber: 11.3 Consensus size: 85
318868 GGTGAAAGTT
* *
318878 GACAGGCAAACTTAAGGATGAAGAAAGTCTCTAGGGTCAAAGCCGACAAGTAA-ACTT-AAGGGT
1 GACAGGCAGACTTAAGG-TGAAG-AAGTCTCTAGGGTCAAAGCCGAC-AGCAAGACTTAAAGGG-
* * * *
318941 GAGGAAGCCCCCAAGGTCAAAGTC
62 GAAGAAGTCTCCAAGGTCAAAGCC
* * * * * *
318965 GATAGGTAGACTTAAAGGTGAAGGAAGTCTCCAAGGTCAAAGCCGACAAGC-AGA-TTTAAGGGC
1 GACAGGCAGACTT-AAGGTGAA-GAAGTCTCTAGGGTCAAAGCCGAC-AGCAAGACTTAAAGGGG
319028 AAGGAAGTCTCCAAGGTCAAAGCC
63 AA-GAAGTCTCCAAGGTCAAAGCC
* * * *
319052 GACAAGCAGACTTAAGGATGAGGAAGTCACTAGGGTTAAAGCCGACAGCAAGACTTAAAGGGGAA
1 GACAGGCAGACTTAAGG-TGAAGAAGTCTCTAGGGTCAAAGCCGACAGCAAGACTTAAAGGGGAA
* * *
319117 GAAGTCTCTAAGGTTAAAGTC
65 GAAGTCTCCAAGGTCAAAGCC
* * * * * ** *
319138 GATAGGCAGACTTAAGGATAAAAAAGTCT-TCAGGGTTAAAGTCGACAGGTAGACTT-AAGGATG
1 GACAGGCAGACTTAAGG-TGAAGAAGTCTCT-AGGGTCAAAGCCGACAGCAAGACTTAAAGG-GG
* *
319201 AAGAAGTCTCCAAGGTCAGAGTC
63 AAGAAGTCTCCAAGGTCAAAGCC
** * *
319224 GACAAACAAACTTAAAGGGGAAGAAGTCTCTAGGGTCAAAGCCGACAGGC-AGACTTAAAGGGGA
1 GACAGGCAGACTT-AAGGTGAAGAAGTCTCTAGGGTCAAAGCCGACA-GCAAGACTTAAAGGGGA
*
319288 AGAAGTCTCCAAGGTCAAAGTC
64 AGAAGTCTCCAAGGTCAAAGCC
* * * * * *
319310 GATAGGCAGACTTAAGTGGGAAGAAGTCTCTAAGGTCAAAGTCGATAGGCAA-ACTT-AAGGGCA
1 GACAGGCAGACTTAAG-GTGAAGAAGTCTCTAGGGTCAAAGCCGACA-GCAAGACTTAAAGGG-G
* * ***
319373 AAGAAGTCTTCAAGATCAAAATT
63 AAGAAGTCTCCAAGGTCAAAGCC
* * * * * *
319396 GATAGGCAGACTTGAGGTCGAAGAAGTATCCAAGGTCAAAGCCGACAG-ACAGACTTAAAGGGAA
1 GACAGGCAGACTTAAGGT-GAAGAAGTCTCTAGGGTCAAAGCCGACAGCA-AGACTTAAAGGGGA
*
319460 AGAAGTCTCCAGGGTCAAAGCC
64 AGAAGTCTCCAAGGTCAAAGCC
* * * * * * *
319482 GACAGGAAAACTTAAGGGCGGAGAAGTATCCAGGGTCAAAGCCAACAAGCAA-ACTT-AAGGGCG
1 GACAGGCAGACTTAA-GGTGAAGAAGTCTCTAGGGTCAAAGCCGAC-AGCAAGACTTAAAGGG-G
* *
319545 AAGAAGTCTCTAGGGTCAAAGCC
63 AAGAAGTCTCCAAGGTCAAAGCC
* * * * * * ** *
319568 GAGAGGTAGACTTAAGGTCGAAGAAGTCTCTAAGGTCAAAACTGATAGGTAGACTTAAAGAGGAA
1 GACAGGCAGACTTAAGGT-GAAGAAGTCTCTAGGGTCAAAGCCGACAGCAAGACTTAAAGGGGAA
*
319633 GAAGTCTCCAATGTCAAAGCC
65 GAAGTCTCCAAGGTCAAAGCC
* *
319654 GACAGGCAGACTTGAGGTCGAAGAAGTCTCAAGGGTCAAAGCCGACAAGC-AGACTTAAAGGGGA
1 GACAGGCAGACTTAAGGT-GAAGAAGTCTCTAGGGTCAAAGCCGAC-AGCAAGACTTAAAGGGGA
* * *
319718 AGAAGTCTCTAGGGTCAAAACC
64 AGAAGTCTCCAAGGTCAAAGCC
* * *
319740 GA-AGAGCAGACTTAAGGGAGAAGAAGTCTCTAGGGTCAAAGCCGACAGGC-AGACTT-GAGGTC
1 GACAG-GCAGACTTAA-GGTGAAGAAGTCTCTAGGGTCAAAGCCGACA-GCAAGACTTAAAGG-G
* * * *
319802 AAAAAAGTCTCTAGGGTCAAAGCC
62 GAAGAAGTCTCCAAGGTCAAAGCC
319826 GACAGGCCA-ACTTAAGGTGAAG
1 GACAGG-CAGACTTAAGGTGAAG
319848 CAATCTCCCA
Statistics
Matches: 724, Mismatches: 124, Indels: 72
0.79 0.13 0.08
Matches are distributed among these distances:
84 1 0.00
85 41 0.06
86 559 0.77
87 117 0.16
88 6 0.01
ACGTcount: A:0.38, C:0.18, G:0.28, T:0.16
Consensus pattern (85 bp):
GACAGGCAGACTTAAGGTGAAGAAGTCTCTAGGGTCAAAGCCGACAGCAAGACTTAAAGGGGAAG
AAGTCTCCAAGGTCAAAGCC
Found at i:319192 original size:129 final size:128
Alignment explanation
Indices: 318796--319847 Score: 820
Period size: 129 Copynumber: 8.1 Consensus size: 128
318786 TGCGCCAACG
* * * * ** *
318796 GGCAGACTTAAGGGTGAAGAAGTGTCCAAGGACAAAGCC-AAAAAACAGACTTAAGGGTGAAGAC
1 GGCAGACTTAA-GGTGAAGAAGTCTCTAAGGTCAAAGCCGACAGCA-AGACTTAAGGGCGAAGA-
* * ** * *
318860 A-TCTCTAGGGTGAAAGTTGACAGGCAAACTTAAGGAT-GAAGAAAGTCTCTAGGGTCAAAGCCG
63 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGG-TCAAAG-AAGTCTCTAGGGTCAAAGCCG
318923 ACA
126 ACA
* * * * * * * * * ** * *
318926 AGTAAACTTAAGGGTGAGGAAGCCCCCAAGGTCAAAGTCGATAGGTAGACTTAAAGGTGAAGGAA
1 GGCAGACTTAA-GGTGAAGAAGTCTCTAAGGTCAAAGCCGACAGCAAGACTTAAGGGCGAA-GAA
* * * * * * *
318991 GTCTCCAAGGTCAAAGCCGACAAGCAGATTTAAGGGCAAGGAAGTCTCCAAGGTCAAAGCCGACA
64 GTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGACA
* * * * *
319056 AGCAGACTTAAGGATGAGGAAGTCACTAGGGTTAAAGCCGACAGCAAGACTTAAAGGG-GAAGAA
1 GGCAGACTTAAGG-TGAAGAAGTCTCTAAGGTCAAAGCCGACAGCAAGACTT-AAGGGCGAAGAA
* * * * * *
319120 GTCTCTAAGGTTAAAGTCGATAGGCAGACTTAAGGAT-AAAAAAGTCT-TCAGGGTTAAAGTCGA
64 GTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGG-TCAAAGAAGTCTCT-AGGGTCAAAGCCGA
319183 CA
127 CA
* * * * *
319185 GGTAGACTTAAGGATGAAGAAGTCTCCAAGGTCAGAGTCGACAAACAA-ACTTAAAGGG-GAAGA
1 GGCAGACTTAAGG-TGAAGAAGTCTCTAAGGTCAAAGCCGAC-AGCAAGACTT-AAGGGCGAAGA
* ** * * *
319248 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAAGG-GGAAGAAGTCTCCAAGGTCAAAGTCGA
63 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTT-AAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGA
*
319312 TA
127 CA
* * * *
319314 GGCAGACTTAAGTGGGAAGAAGTCTCTAAGGTCAAAGTCGATAGGCAA-ACTTAAGGGCAAAGAA
1 GGCAGACTTAAG-GTGAAGAAGTCTCTAAGGTCAAAGCCGACA-GCAAGACTTAAGGGCGAAGAA
* *** * * * * * *
319378 GTCT-TCAAGATCAAAATTGATAGGCAGACTTGAGGTCGAAGAAGTATCCAAGGTCAAAGCCGAC
64 GTCTCT-AAGGTCAAAGCCGACAGGCAGACTTAAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGAC
319442 A
128 A
* * * * * *
319443 GACAGACTTAAAGG-GAAAGAAGTCTCCAGGGTCAAAGCCGACAGGAAAACTTAAGGGCGGAGAA
1 GGCAGACTT-AAGGTG-AAGAAGTCTCTAAGGTCAAAGCCGACAGCAAGACTTAAGGGCGAAGAA
* * * * * * * * *
319507 GTATCCAGGGTCAAAGCCAACAAGCAAACTTAAGGGCGAAGAAGTCTCTAGGGTCAAAGCCGAGA
64 GTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGACA
* * * * ** *
319572 GGTAGACTTAAGGTCGAAGAAGTCTCTAAGGTCAAAACTGATAGGTAGACTTAAAGAG-GAAGAA
1 GGCAGACTTAAGGT-GAAGAAGTCTCTAAGGTCAAAGCCGACAGCAAGACTT-AAGGGCGAAGAA
* * * * *
319636 GTCTCCAATGTCAAAGCCGACAGGCAGACTTGAGGTCGAAGAAGTCTCAAGGGTCAAAGCCGACA
64 GTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGACA
* * * * * *
319701 AGCAGACTTAAAGGGGAAGAAGTCTCTAGGGTCAAAACCGAAGAGC-AGACTTAAGGGAGAAGAA
1 GGCAGACTT-AAGGTGAAGAAGTCTCTAAGGTCAAAGCCG-ACAGCAAGACTTAAGGGCGAAGAA
* * *
319765 GTCTCTAGGGTCAAAGCCGACAGGCAGACTTGAGGTCAAAAAAGTCTCTAGGGTCAAAGCCGACA
64 GTCTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGACA
319830 GGCCA-ACTTAAGGTGAAG
1 GG-CAGACTTAAGGTGAAG
319848 CAATCTCCCA
Statistics
Matches: 742, Mismatches: 152, Indels: 58
0.78 0.16 0.06
Matches are distributed among these distances:
128 30 0.04
129 542 0.73
130 134 0.18
131 36 0.05
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (128 bp):
GGCAGACTTAAGGTGAAGAAGTCTCTAAGGTCAAAGCCGACAGCAAGACTTAAGGGCGAAGAAGT
CTCTAAGGTCAAAGCCGACAGGCAGACTTAAGGTCAAAGAAGTCTCTAGGGTCAAAGCCGACA
Found at i:320158 original size:42 final size:43
Alignment explanation
Indices: 320069--320159 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
320059 TCTCTCGGGT
* * * *
320069 CTAAGCTGACGGGTAGACAAAGGGTAAAGAAAGTCTCCTAGGA
1 CTAAGCCGACGGGTAGACAAAGGATAAAGAAAGTCTCCCAAGA
* * *
320112 CTAAGCCGATGGGTAGACGAAGGATAAAG-AAGTCTCCCAAGC
1 CTAAGCCGACGGGTAGACAAAGGATAAAGAAAGTCTCCCAAGA
320154 CTAAGC
1 CTAAGC
320160 TAATAGACAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 16 0.39
43 25 0.61
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.15
Consensus pattern (43 bp):
CTAAGCCGACGGGTAGACAAAGGATAAAGAAAGTCTCCCAAGA
Found at i:320574 original size:61 final size:61
Alignment explanation
Indices: 320424--320583 Score: 198
Period size: 60 Copynumber: 2.6 Consensus size: 61
320414 AAATAAAAAG
* * **
320424 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGGTGGGCTTT
1 GAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGGTGGGCTTT
* * * *
320485 -AAAAAGAGAAGGCGTCCTGCTCCTTGAGGATTGAAAGGTGCCATCAACTT-GTGTGGCTTT
1 GAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGGTG-GGCTTT
* * *
320545 GAAAAAGAAAAGGTGTCCTACTTTTTGAGGACTGAAAGG
1 GAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
320584 ATAAAAGGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
59 3 0.04
60 48 0.58
61 32 0.39
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (61 bp):
GAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGGTGGGCTTT
Found at i:323506 original size:4 final size:4
Alignment explanation
Indices: 323497--323551 Score: 92
Period size: 4 Copynumber: 13.8 Consensus size: 4
323487 AAACAAAACA
* *
323497 AAAT AAAT AAAT AAAT AAAT GAAT AAAT AAAT GAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
323545 AAAT AAA
1 AAAT AAA
323552 CACCTCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:325811 original size:79 final size:78
Alignment explanation
Indices: 325677--326228 Score: 620
Period size: 79 Copynumber: 7.0 Consensus size: 78
325667 GAAAAAATCG
* * * ** * * * * *
325677 GGGTTGGAGTATCCTCAATTGTGGAAAATCAGTATTTTAGAAATAAAATCTGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
325742 CCTCAGAAATAAC
66 CCTCAGAAATAAC
* *
325755 AGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATC
1 -GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATC
*
325820 CCCTC-GAAAATAATG
65 CCCTCAG-AAATAA-C
* *
325835 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGGAAATAAAACTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
* *
325900 CCACAGAAAAAAC
66 CCTCAGAAATAAC
* ** * **
325913 GGGGTTGGAGTATCCCCAATTGCAAAAAATTGGTGTTTTGAAAATAAAACCCAGGTTGGAGTATC
1 -GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATC
**
325978 CCCTTGGAAATAAC
65 CCCTCAGAAATAAC
* * * **
325992 GAGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTCGGAAATAAAACCAAGGTTGGAGTATC
1 G-GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATC
* * *
326057 GCTTCGGAAATAAC
65 CCCTCAGAAATAAC
* * * * * * *
326071 AGGATTGGAGTATCCCCGATTTGTGAAAAATTGGTATTTTGAAAATAAAACTGGGATTGAAGCAT
1 -GGGTTGGAGTATCCCCGA-TTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
*
326136 CCCTTCAGAAATAAC
64 CCCCTCAGAAATAAC
* * *
326151 GAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATC
1 G-GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATC
*
326216 CCCTCGGAAATAA
65 CCCTCAGAAATAA
326229 AAACATGAAT
Statistics
Matches: 398, Mismatches: 67, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.01
79 330 0.83
80 66 0.17
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCC
CCTCAGAAATAAC
Found at i:326090 original size:237 final size:238
Alignment explanation
Indices: 325667--326228 Score: 743
Period size: 237 Copynumber: 2.4 Consensus size: 238
325657 CGATGTTCTG
* * ** * * *
325667 GAAAAAATCGGGGTTGGAGTATCCTCAATTGTGGAAAATCAGTATTTT-AGAAATAAAATCTGGG
1 GAAAAAA-CGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGA-AAATAAAACCCGGG
* * * *
325731 TTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATTGATGTTTTGG
64 TTAGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATGATGAAAAATTGATGTTTCGG
** ** *
325796 AAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGA-TTGTGAA
129 AAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACAGGATTGGAGTATCCCCGATTTGTGAA
* * * *
325860 AAATTGGTATTTTGGAAATAAAACTGGGGTTGGAGTATCCCCACA
194 AAATTGGTATTTTGAAAATAAAACTGGGATTGAAGCATCCCCACA
** *
325905 GAAAAAACGGGGTTGGAGTATCCCCAATTGCAAAAAATTGGTGTTTTGAAAATAAAACCCAGGTT
1 GAAAAAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAACCCGGGTT
* * * *
325970 GGAGTATCCCCTTGGAAATAAC-GAGGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTCGGA
66 AGAGTATCCCCTCGGAAATAACAG-GGTTAGAGTATCCCCGATGATGAAAAATTGATGTTTCGGA
* * *
326034 AATAAAACCAAGGTTGGAGTATCGCTTCGGAAATAACAGGATTGGAGTATCCCCGATTTGTGAAA
130 AATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACAGGATTGGAGTATCCCCGATTTGTGAAA
**
326099 AATTGGTATTTTGAAAATAAAACTGGGATTGAAGCATCCCTTCA
195 AATTGGTATTTTGAAAATAAAACTGGGATTGAAGCATCCCCACA
* * * * *
326143 GAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTT
1 GAAAAAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAACCCGGGTT
326208 AGAGTATCCCCTCGGAAATAA
66 AGAGTATCCCCTCGGAAATAA
326229 AAACATGAAT
Statistics
Matches: 279, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
236 1 0.00
237 148 0.53
238 130 0.47
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (238 bp):
GAAAAAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAACCCGGGTT
AGAGTATCCCCTCGGAAATAACAGGGTTAGAGTATCCCCGATGATGAAAAATTGATGTTTCGGAA
ATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACAGGATTGGAGTATCCCCGATTTGTGAAAA
ATTGGTATTTTGAAAATAAAACTGGGATTGAAGCATCCCCACA
Found at i:328054 original size:13 final size:13
Alignment explanation
Indices: 328036--328061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
328026 CATTTTGGGA
328036 TGTATCGATACAT
1 TGTATCGATACAT
328049 TGTATCGATACAT
1 TGTATCGATACAT
328062 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:328058 original size:33 final size:32
Alignment explanation
Indices: 328016--328079 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
328006 TACAAGACAA
*
328016 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
328049 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
328080 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:328179 original size:13 final size:13
Alignment explanation
Indices: 328161--328185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
328151 ACATTTGGTC
328161 ATGTATCGATACA
1 ATGTATCGATACA
328174 ATGTATCGATAC
1 ATGTATCGATAC
328186 TGTGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:328804 original size:16 final size:16
Alignment explanation
Indices: 328780--328811 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
328770 CCTTAATAAG
*
328780 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
328796 GCAAATTAACAATTTC
1 GCAAATTAACAATTTC
328812 TTTTAATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:330214 original size:20 final size:22
Alignment explanation
Indices: 330172--330214 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
330162 GCTGTGAGTG
* *
330172 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCAACC
330194 TGGGGG-TG-CCGGTCGCAACC
1 TGGGGGCTGCCCGGTCGCAACC
330214 T
1 T
330215 AGTGAGTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 2 0.11
22 6 0.32
ACGTcount: A:0.07, C:0.30, G:0.44, T:0.19
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCAACC
Found at i:330615 original size:13 final size:13
Alignment explanation
Indices: 330597--330647 Score: 84
Period size: 13 Copynumber: 3.9 Consensus size: 13
330587 ATAAACCCTT
*
330597 TGTATCGATACAA
1 TGTATCAATACAA
330610 TGTATCAATACAA
1 TGTATCAATACAA
330623 TGTATCAATACAA
1 TGTATCAATACAA
*
330636 TGTATCGATACA
1 TGTATCAATACA
330648 GAGAATGCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:330862 original size:8 final size:8
Alignment explanation
Indices: 330844--330874 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
330834 TTTTCAACAT
330844 CAAACATCA
1 CAAA-ATCA
330853 CAAAATCA
1 CAAAATCA
330861 CAAAATCA
1 CAAAATCA
330869 CAAAAT
1 CAAAAT
330875 TTAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:336842 original size:33 final size:32
Alignment explanation
Indices: 336800--336863 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
336790 TACAAGCCAA
*
336800 TGTATCGATACATTTTGGGATGTATCCATACAT
1 TGTATCGATACATCTTGGG-TGTATCCATACAT
* *
336833 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCCATACA
336864 AACAGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCCATACAT
Found at i:338577 original size:20 final size:20
Alignment explanation
Indices: 338545--338598 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
338535 AAATTCCTGG
* *
338545 ATGTGTCGATACATTGAAAA
1 ATGTATCGATACAATGAAAA
* * *
338565 ATTTATTGATACAATGAACA
1 ATGTATCGATACAATGAAAA
338585 ATGTATCGATACAA
1 ATGTATCGATACAA
338599 ATTGTGAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGAAAA
Found at i:342091 original size:61 final size:61
Alignment explanation
Indices: 342018--342140 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
342008 TCAGTATTTT
342018 GCGATGTGCTAGTGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGA
1 GCGATGTGCTAGTGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGA
342079 GCGATGTGCTAGTGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGA
1 GCGATGTGCTAGTGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGA
342140 G
1 G
342141 AATAATGCCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (61 bp):
GCGATGTGCTAGTGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGA
Found at i:342163 original size:61 final size:61
Alignment explanation
Indices: 342030--342175 Score: 204
Period size: 61 Copynumber: 2.4 Consensus size: 61
342020 GATGTGCTAG
* * * *
342030 TGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGAGCGATGTGCTAG
1 TGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGAGCAATATGCCAA
342091 TGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGAG-AATAATGCCAA
1 TGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGAGCAAT-ATGCCAA
* ** *
342152 TGTGCTGATTCAAGGCCAGCAACA
1 TGTACAAATTCAAGGCCTGCAACA
342176 TTGGGTTTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
60 2 0.03
61 74 0.97
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (61 bp):
TGTACAAATTCAAGGCCTGCAACACTAGATTGAAATATGATAAGGATGAGCAATATGCCAA
Found at i:342219 original size:31 final size:31
Alignment explanation
Indices: 342177--342252 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 31
342167 CCAGCAACAT
* *
342177 TGGG-TTT-AGAAGGGTTGCGACCAACTTGTG
1 TGGGCTTTGAGAAGGGTTGC-ACCAACATGTC
342207 TGGGC-TTGAGAA-GG-T-CACCAACATGTC
1 TGGGCTTTGAGAAGGGTTGCACCAACATGTC
342234 TGGGCTTTG-GAAGGGTTGC
1 TGGGCTTTGAGAAGGGTTGC
342253 CACTGACTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
27 17 0.45
28 6 0.16
29 2 0.05
30 9 0.24
31 4 0.11
ACGTcount: A:0.20, C:0.16, G:0.37, T:0.28
Consensus pattern (31 bp):
TGGGCTTTGAGAAGGGTTGCACCAACATGTC
Found at i:342292 original size:28 final size:28
Alignment explanation
Indices: 342250--342764 Score: 396
Period size: 28 Copynumber: 17.9 Consensus size: 28
342240 TTGGAAGGGT
342250 TGCCACTGACTTGTGGGCTTTAAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGGA
* * * *
342278 TACCACTGATTTGTGGGCTTCGAAAAAG-
1 TGCCACTGACTTGTGGGCTT-TAAAAGGA
* *
342306 TGCCACTAACTTGTGGGCTTTGAAA-GA
1 TGCCACTGACTTGTGGGCTTTAAAAGGA
* *
342333 GTGCCACTGACTTATGGGCTTTGAGAAGG-
1 -TGCCACTGACTTGTGGGCTTT-AAAAGGA
*
342362 TGCCACTGACTTGTGGGCTTTAAGAGAGGT
1 TGCCACTGACTTGTGGGCTTTAA-A-AGGA
** * *
342392 TGCCACCAACTTGTGTGGGCTTT-AAGGGG
1 TGCCACTGAC-T-TGTGGGCTTTAAAAGGA
* *
342421 TGCCACTAACTTGTGGGCTTTGAGAAAGGT
1 TGCCACTGACTTGTGGGCTTT-A-AAAGGA
* *
342451 TGCCACCGACTTGTGTGGGCTTCAAAAGGA
1 TGCCACTGAC-T-TGTGGGCTTTAAAAGGA
* * *
342481 TGCTACTAACTTGTGGGCTTTGAGAAGGA
1 TGCCACTGACTTGTGGGCTTT-AAAAGGA
* * *
342510 TGCCACTAACTTGTGGGTTTTGAAAATG-
1 TGCCACTGACTTGTGGGCTTT-AAAAGGA
* *
342538 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGGA
* * *
342566 TGCCATTGACATGTGGGCTTTGAAAAGGGT
1 TGCCACTGACTTGTGGGCTTT-AAAA-GGA
* * *
342596 TGCCATTAACTTGTGGGCTTTGAAAATG-
1 TGCCACTGACTTGTGGGCTTT-AAAAGGA
* * *
342624 TGCCATTGACTTATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTAAAAGGA
* * * *
342652 TGCCATTGACATGTGGGCTTTGAGAAGGGT
1 TGCCACTGACTTGTGGGCTTT-A-AAAGGA
* * *
342682 TGCTACTAACTTGTGGGCTTTAAAA-AA
1 TGCCACTGACTTGTGGGCTTTAAAAGGA
* *
342709 GTGTCATTGACTTGTGGGCTTTAAAAGGA
1 -TGCCACTGACTTGTGGGCTTTAAAAGGA
* *
342738 TGCCTCTGACTTATGGGCTTTGAAAAG
1 TGCCACTGACTTGTGGGCTTT-AAAAG
342765 AGGTTGTACA
Statistics
Matches: 391, Mismatches: 71, Indels: 49
0.77 0.14 0.10
Matches are distributed among these distances:
26 1 0.00
27 22 0.06
28 201 0.51
29 63 0.16
30 81 0.21
31 4 0.01
32 19 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTAAAAGGA
Found at i:342310 original size:56 final size:56
Alignment explanation
Indices: 342234--342764 Score: 460
Period size: 56 Copynumber: 9.2 Consensus size: 56
342224 CCAACATGTC
* * * * *
342234 TGGGCTTTGGAAGGGTTGCCACTGACTTGTGGGCTTTAAAAGGATACCACTGATTTG
1 TGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
* * * *
342291 TGGGCTTCGAAAAAGTGCCACTAACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTA
1 TGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTAAAAGGA-TGCCACTGACTTG
* * * **
342347 TGGGCTTTGAGAAGGTGCCACTGACTTGTGGGCTTTAAGAGAGGTTGCCACCAACTTGTG
1 TGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTAA-A-AGGATGCCACTGAC-T-TG
** * *
342407 TGGGCTTT-AAGGGGTGCCACTAACTTGTGGGCTTTGAGAAAGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTT-A-AAAGGATGCCACTGAC-T-TG
* * * *
342466 TGGGC-TTCAAAAGGATGCTACTAACTTGTGGGCTTTGAGAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTG
* * * * *
342523 TGGGTTTTGAAAATGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCATTGACATG
1 TGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
* * * *
342579 TGGGCTTTGAAAAGGGTTGCCATTAACTTGTGGGCTTTGAAAATG-TGCCATTGACTTA
1 TGGGCTTTGAAAA-GG-TGCCACTAACTTGTGGGCTTT-AAAAGGATGCCACTGACTTG
* * * * * * *
342637 TGGGCTTTG-AAAGGATGCCATTGACATGTGGGCTTTGAGAAGGGTTGCTACTAACTTG
1 TGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTT-A-AAAGGATGCCACTGACTTG
* * * * * * *
342695 TGGGCTTTAAAAAAGTGTCATTGACTTGTGGGCTTTAAAAGGATGCCTCTGACTTA
1 TGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
342751 TGGGCTTTGAAAAG
1 TGGGCTTTGAAAAG
342765 AGGTTGTACA
Statistics
Matches: 390, Mismatches: 67, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
55 2 0.01
56 141 0.36
57 46 0.12
58 95 0.24
59 72 0.18
60 33 0.08
61 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (56 bp):
TGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTG
Found at i:342627 original size:86 final size:86
Alignment explanation
Indices: 342234--342770 Score: 525
Period size: 86 Copynumber: 6.2 Consensus size: 86
342224 CCAACATGTC
* * * *
342234 TGGGCTTTG-GAAGGGTTGCCACTGACTTGTGGGCTTT-AAAAGGATACCACTGATTTGTGGGCT
1 TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
* *
342297 TCGAAA-AAGTGCCACTAACTTG
65 TTGAAAGGA-TGCCACTAACTTG
* * * *
342319 TGGGCTTTG-AAAGAG-TGCCACTGACTTATGGGCTTTGAGAAGGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* * *
342382 TAAGAGAGGTTGCCACCAACTTGTG
66 T--GAAAGGATGCCACTAAC-T-TG
* *
342407 TGGGCTTT---AAGGGGTGCCACTAACTTGTGGGCTTTGAGAAAGGTTGCCACCGACTTGTGTGG
1 TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGA-AAAGG-TGCCACTGAC-T-TGTGG
** *
342469 GCTTCAAAAGGATGCTACTAACTTG
62 GCTTTGAAAGGATGCCACTAACTTG
* * * * *
342494 TGGGCTTTGAGAA-GGATGCCACTAACTTGTGGGTTTTGAAAATGTGCCACTAACTTGTGGGCTT
1 TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* * *
342558 TGAAAGGATGCCATTGACATG
66 TGAAAGGATGCCACTAACTTG
* * * *
342579 TGGGCTTTGAAAAGGGTTGCCATTAACTTGTGGGCTTTGAAAATGTGCCATTGACTTATGGGCTT
1 TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* * *
342644 TGAAAGGATGCCATTGACATG
66 TGAAAGGATGCCACTAACTTG
* * * * * *
342665 TGGGCTTTGAGAAGGGTTGCTACTAACTTGTGGGCTTTAAAAAAGTGTCATTGACTTGTGGGCTT
1 TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
* * * *
342730 TAAAAGGATGCCTCTGACTTA
66 TGAAAGGATGCCACTAACTTG
342751 TGGGCTTTGAAAAGAGGTTG
1 TGGGCTTTGAAAAG-GGTTG
342771 TACAGATAAA
Statistics
Matches: 383, Mismatches: 53, Indels: 30
0.82 0.11 0.06
Matches are distributed among these distances:
84 38 0.10
85 54 0.14
86 170 0.44
87 45 0.12
88 19 0.05
89 45 0.12
90 3 0.01
91 9 0.02
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (86 bp):
TGGGCTTTGAAAAGGGTTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTT
TGAAAGGATGCCACTAACTTG
Found at i:353801 original size:19 final size:18
Alignment explanation
Indices: 353776--353840 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
353766 ATTTCAACGA
353776 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
353794 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
353810 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
353826 TTTTGTATCGATACA
1 -TTTGTATCGATACA
353841 ATGTACAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:353814 original size:32 final size:32
Alignment explanation
Indices: 353778--353845 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
353768 TTCAACGATT
353778 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
353810 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
353842 TGTA
1 TGTA
353846 CAGTTACGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:353815 original size:13 final size:13
Alignment explanation
Indices: 353797--353821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
353787 ACATAAGTGT
353797 TGTATCGATACAA
1 TGTATCGATACAA
353810 TGTATCGATACA
1 TGTATCGATACA
353822 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:354015 original size:103 final size:104
Alignment explanation
Indices: 353874--354071 Score: 335
Period size: 103 Copynumber: 1.9 Consensus size: 104
353864 CAAGAAAATG
* * *
353874 TATCGATACATTACTCAAATGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACT
1 TATCGATACACTACTAAAATGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACT
353939 ATAAAATGTATCGATACATACAGGCAAATTGCCCAGATA
66 ATAAAATGTATCGATACATACAGGCAAATTGCCCAGATA
*
353978 TATCGATACACTA-TAAAATGTATCGATACATACAGGCAAATTTTCCCAGATGTATCGATACACT
1 TATCGATACACTACTAAAATGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACT
* *
354042 ATGAAATGTATCGATACATGCAGGCAAATT
66 ATAAAATGTATCGATACATACAGGCAAATT
354072 TTCATATTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 76 0.86
104 12 0.14
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (104 bp):
TATCGATACACTACTAAAATGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACT
ATAAAATGTATCGATACATACAGGCAAATTGCCCAGATA
Found at i:354074 original size:52 final size:52
Alignment explanation
Indices: 353871--354072 Score: 325
Period size: 52 Copynumber: 3.9 Consensus size: 52
353861 TGCCAAGAAA
* * *
353871 ATGTATCGATACATTACTCAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTA-TAAAATGTATCGATACATACAGGCAAATTTGCCCAG
353924 ATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAA-TTGCCCAG
1 ATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTGCCCAG
* *
353975 ATATATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTTCCCAG
1 ATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTGCCCAG
* *
354027 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTT
354073 TCATATTTTG
Statistics
Matches: 140, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
51 50 0.36
52 75 0.54
53 15 0.11
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTGCCCAG
Found at i:367959 original size:25 final size:23
Alignment explanation
Indices: 367911--368009 Score: 99
Period size: 25 Copynumber: 4.1 Consensus size: 23
367901 CATCCTCCAC
** *
367911 AAAAAAAAAACCAAATAAACAAA
1 AAAAAAAAAAAAAAAAAAACAAA
* *
367934 AAAAAAAGAAGAAGAAAAAACAAA
1 AAAAAAA-AAAAAAAAAAAACAAA
367958 AAACAAAAAAAAAATAAAAAACAAA
1 AAA-AAAAAAAAAA-AAAAAACAAA
*
367983 AAAACAAACAAAAAAAAACAACAAA
1 AAAA-AAA-AAAAAAAAAAAACAAA
368008 AA
1 AA
368010 CAACAACAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.11
24 19 0.30
25 31 0.49
26 6 0.10
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAAAAAAAAAACAAA
Found at i:367964 original size:31 final size:30
Alignment explanation
Indices: 367911--368024 Score: 112
Period size: 30 Copynumber: 3.8 Consensus size: 30
367901 CATCCTCCAC
*
367911 AAAAAAAAAACCAAATAAACAAAAAAAAAAG
1 AAAAAAAAAA-CAAACAAACAAAAAAAAAAG
*
367942 AAGAAGAAAAAACAAA-AAACAAAAAAAAAAT
1 AA-AA-AAAAAACAAACAAACAAAAAAAAAAG
367973 AAAAAACAAAA-AAACAAACAAAAAAAAACA-
1 AAAAAA-AAAACAAACAAACAAAAAAAAA-AG
* *
368003 ACAAAAACAAC-AAC-AACAAAAA
1 AAAAAAAAAACAAACAAACAAAAA
368025 GGGTCCAGAT
Statistics
Matches: 74, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
28 8 0.11
29 11 0.15
30 24 0.32
31 19 0.26
32 6 0.08
33 6 0.08
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.02
Consensus pattern (30 bp):
AAAAAAAAAACAAACAAACAAAAAAAAAAG
Found at i:368009 original size:1 final size:1
Alignment explanation
Indices: 367911--368000 Score: 63
Period size: 1 Copynumber: 90.0 Consensus size: 1
367901 CATCCTCCAC
** * * * * * * * *
367911 AAAAAAAAAACCAAATAAACAAAAAAAAAAGAAGAAGAAAAAACAAAAAACAAAAAAAAAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
367976 AAACAAAAAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
368001 CAACAAAAAC
Statistics
Matches: 65, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:368017 original size:25 final size:25
Alignment explanation
Indices: 367948--368024 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
367938 AAAGAAGAAG
367948 AAAAAAC-A-AAAAACAA-AA-AAA
1 AAAAAACAACAAAAACAACAACAAA
*
367969 AAATAAAAAACAAAAA-AACAAACAAA
1 AAA-AAACAACAAAAACAAC-AACAAA
*
367995 AAAAAACAACAAAAACAACAACAAC
1 AAAAAACAACAAAAACAACAACAAA
368020 AAAAA
1 AAAAA
368025 GGGTCCAGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
23 3 0.07
24 5 0.11
25 23 0.50
26 9 0.20
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.01
Consensus pattern (25 bp):
AAAAAACAACAAAAACAACAACAAA
Found at i:368020 original size:9 final size:9
Alignment explanation
Indices: 367956--368021 Score: 56
Period size: 8 Copynumber: 7.9 Consensus size: 9
367946 AGAAAAAACA
367956 AAAAACAA-
1 AAAAACAAC
367964 AAAAA-AA-
1 AAAAACAAC
367971 ATAAAA-AAC
1 A-AAAACAAC
367980 AAAAA-AAC
1 AAAAACAAC
367988 AAACAA-AA-
1 AAA-AACAAC
367996 AAAAACAAC
1 AAAAACAAC
368005 AAAAACAAC
1 AAAAACAAC
*
368014 AACAACAA
1 AAAAACAA
368022 AAAGGGTCCA
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
7 5 0.10
8 26 0.50
9 21 0.40
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAACAAC
Found at i:369535 original size:28 final size:28
Alignment explanation
Indices: 369466--369705 Score: 266
Period size: 28 Copynumber: 8.4 Consensus size: 28
369456 CACCTTTTCC
* * *
369466 AAAGCCCACAAGTCCGTGGCATCCTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC-TTCA
* *
369495 AAAGCCCACAAGTTAGTAGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
369523 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
369553 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
369581 AAAGCCCACAAGTCAGCGACACCCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCAACC---TTCA
* *
369611 AAAGCCCATAAGTCAGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * **
369639 AAAGCCCACAAGTTAGTGGTATATTTTCA
1 AAAGCCCACAAGTCAGTGGCA-ACCTTCA
369668 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
369696 AAAGCCCACA
1 AAAGCCCACA
369706 CAAGTTGGTG
Statistics
Matches: 177, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.02
28 82 0.46
29 44 0.25
30 45 0.25
31 3 0.02
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.19
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:369577 original size:58 final size:58
Alignment explanation
Indices: 369466--369705 Score: 340
Period size: 58 Copynumber: 4.2 Consensus size: 58
369456 CACCTTTTCC
* * * *
369466 AAAGCCCACAAGTCCGTGGCATCC-TTTCCAAAGCCCACAAGTTAGTAGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
369523 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
369581 AAAGCCCACAAGTCAGCGACACCCTTTTTCAAAGCCCATAAGTCAGTGGTAACCTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * ** *
369639 AAAGCCCACAAGTTAGTGGTA-TATTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
369696 AAAGCCCACA
1 AAAGCCCACA
369706 CAAGTTGGTG
Statistics
Matches: 163, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
57 62 0.38
58 101 0.62
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.19
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:369791 original size:49 final size:49
Alignment explanation
Indices: 369722--369907 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 49
369712 GGTGGCATCT
* * *
369722 TCTTCTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGGCACCGTCA
1 TCTT-TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* * *
369772 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* ** * *
369821 TCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGCATATTGGCACCGTCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
* * *
369870 TCTTTAAGATCAA-CTCGCT-GCCATGAATCAGCACATTG
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTG
369908 TCATTCTTCG
Statistics
Matches: 114, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
47 16 0.14
48 5 0.04
49 89 0.78
50 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (49 bp):
TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCGTCA
Found at i:369843 original size:98 final size:94
Alignment explanation
Indices: 369714--369916 Score: 280
Period size: 98 Copynumber: 2.1 Consensus size: 94
369704 CACAAGTTGG
369714 TGGCATCTTCTTCTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGGCACCGTCATCTTTAA
1 TGGCATCTTCTTCTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGGCACCGTCATCTTTAA
* *
369779 GACCAATGTCGCTGGCCTTGAATCAGCACAT
66 GACCAA-CTCGCT-GCCATGAATCAGCACAT
* ** * *
369810 TGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCTTTGAATCAGCATATTGGCACCGTCATCTTT
1 TGGCATCTTC-T-TCTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGGCACCGTCATCTTT
*
369875 AAGATCAACTCGCTGCCATGAATCAGCACAT
64 AAGACCAACTCGCTGCCATGAATCAGCACAT
*
369906 TGTCATTCTTC
1 TGGCA-TCTTC
369917 GTATCTTCGA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
96 30 0.32
97 11 0.12
98 54 0.57
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (94 bp):
TGGCATCTTCTTCTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGGCACCGTCATCTTTAA
GACCAACTCGCTGCCATGAATCAGCACAT
Found at i:370653 original size:19 final size:18
Alignment explanation
Indices: 370628--370692 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
370618 ATTTCAACGA
370628 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
370646 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
370662 --TGTATCAATACATAAG
1 TTTGTATCGATACATAAG
370678 TTTTGTATCGATACA
1 -TTTGTATCGATACA
370693 ATGTACAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:370666 original size:32 final size:32
Alignment explanation
Indices: 370630--370697 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
370620 TTCAACGATT
*
370630 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAGTGTTGTATCGATACAA
*
370662 TGTATCAATACATAAGTTTTGTATCGATACAA
1 TGTATCAATACATAAGTGTTGTATCGATACAA
370694 TGTA
1 TGTA
370698 CAGTTACGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATAAGTGTTGTATCGATACAA
Found at i:370763 original size:13 final size:13
Alignment explanation
Indices: 370745--370769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
370735 ATTACTCAAA
370745 TGTATCGATACAT
1 TGTATCGATACAT
370758 TGTATCGATACA
1 TGTATCGATACA
370770 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:370822 original size:52 final size:52
Alignment explanation
Indices: 370778--370906 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
370768 CACTGATCTT
370778 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
370830 TGTATCGATACATACAGGCAAATTTGCCCTGATATATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
370882 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
370907 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:377807 original size:13 final size:13
Alignment explanation
Indices: 377789--377814 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
377779 CAATTTTTTG
377789 TGTATCGATACAT
1 TGTATCGATACAT
377802 TGTATCGATACAT
1 TGTATCGATACAT
377815 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:377879 original size:21 final size:21
Alignment explanation
Indices: 377853--377928 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
377843 CTGCCAAGAA
* *
377853 ATGTATCAATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
377874 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
377894 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
377915 ATGTATCGATACAT
1 ATGTATCGATACAT
377929 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:377899 original size:20 final size:20
Alignment explanation
Indices: 377874--377946 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
377864 CATCTTTTTT
377874 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
377894 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
377915 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
377935 ATGTATCGATAC
1 ATGTATCGATAC
377947 TTGATTGTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:377910 original size:41 final size:41
Alignment explanation
Indices: 377853--377946 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
377843 CTGCCAAGAA
* *
377853 ATGTATCAATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
377894 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
377935 ATGTATCGATAC
1 ATGTATCGATAC
377947 TTGATTGTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:380389 original size:13 final size:13
Alignment explanation
Indices: 380371--380408 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
380361 ATAAACACCC
380371 TGTATCGATACAG
1 TGTATCGATACAG
*
380384 TGTATCGATACAT
1 TGTATCGATACAG
380397 TGTATCGATACA
1 TGTATCGATACA
380409 AATAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:382451 original size:15 final size:15
Alignment explanation
Indices: 382431--382461 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
382421 ATTTCGTTTG
*
382431 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
382446 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
382461 G
1 G
382462 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:384293 original size:21 final size:21
Alignment explanation
Indices: 384264--384308 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
384254 AAGTTTTCAT
*
384264 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
384284 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
384306 TTT
1 TTT
384309 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:386541 original size:13 final size:13
Alignment explanation
Indices: 386523--386548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
386513 CAATTTTTTG
386523 TGTATCGATACAT
1 TGTATCGATACAT
386536 TGTATCGATACAT
1 TGTATCGATACAT
386549 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:386613 original size:21 final size:21
Alignment explanation
Indices: 386587--386662 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
386577 CTGCCAAGAA
*
386587 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
386608 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
386628 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
386649 ATGTATCGATACAT
1 ATGTATCGATACAT
386663 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:386633 original size:20 final size:20
Alignment explanation
Indices: 386608--386680 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
386598 CATCTTTTTT
386608 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
386628 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
386649 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
386669 ATGTATCGATAC
1 ATGTATCGATAC
386681 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:386644 original size:41 final size:41
Alignment explanation
Indices: 386587--386680 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
386577 CTGCCAAGAA
*
386587 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
386628 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
386669 ATGTATCGATAC
1 ATGTATCGATAC
386681 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:387918 original size:51 final size:50
Alignment explanation
Indices: 387856--387970 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 50
387846 AATTAACTAG
* * * *
387856 ATGTATCGATACATTGAAAAATGTATTAATACATTTGGGTAAAAAAACAAA
1 ATGTATCGATACATTCAAAAATGTATCAATACATCTAGGT-AAAAAACAAA
* * * *
387907 ATGTATTGATACATTCATACATGTATCAATACATCTAGGTAAAAAACAGA
1 ATGTATCGATACATTCAAAAATGTATCAATACATCTAGGTAAAAAACAAA
387957 ATGTATCGATACAT
1 ATGTATCGATACAT
387971 GTACTGTTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
50 22 0.40
51 33 0.60
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACATTCAAAAATGTATCAATACATCTAGGTAAAAAACAAA
Found at i:391417 original size:20 final size:20
Alignment explanation
Indices: 391370--391444 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
391360 AAAAAGACAT
*
391370 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
391389 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
391410 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
391430 AATGTATCGATACAT
1 AATGTATCGATACAT
391445 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:391438 original size:40 final size:39
Alignment explanation
Indices: 391367--391444 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
391357 GGTAAAAAGA
* *
391367 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
391406 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
391445 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:392048 original size:32 final size:32
Alignment explanation
Indices: 392005--392460 Score: 707
Period size: 32 Copynumber: 14.3 Consensus size: 32
391995 TTTTTAAAAA
** * *
392005 AAAAGGG-TGCCACTAACTTATGTGGGCCTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
** *
392036 AAAAGAATTGCCACCGACTTGTGTGGGCTTTA
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392068 AAAAGGGTTTCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392100 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
392132 GAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
392164 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
392196 AAAATGGTTGCCATCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
392228 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
392260 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392292 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
* *
392324 AAAAGGGTTGCCACCGACTTGTATGAGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392356 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392388 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392420 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
*
392452 AAATGGGTT
1 AAAAGGGTT
392461 TTGAAATGGG
Statistics
Matches: 391, Mismatches: 33, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
31 5 0.01
32 386 0.99
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.30
Consensus pattern (32 bp):
AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
Found at i:392593 original size:27 final size:27
Alignment explanation
Indices: 392468--393422 Score: 1439
Period size: 27 Copynumber: 35.0 Consensus size: 27
392458 GTTTTGAAAT
* *
392468 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
* * *
392496 GAGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
392524 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
392551 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
* *
392579 AGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392606 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392633 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392660 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
392688 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
392715 GAGATGCCACAGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
392743 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
392770 GGGTGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
392797 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
392824 GGGATGCCATGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
392852 GGGTGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
392879 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
392906 GGGATGCCACGGAGTTATGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
392934 GGGTGCCGCGGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392961 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392988 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
393015 GAATGCCACGAAG-T-T-GACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393039 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
393067 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393094 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393121 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
393149 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
393176 GATATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
393204 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393231 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
393258 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
393286 GGATGCCACGAAGTTGCGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393313 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
393341 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
393368 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
393395 GGGTGCCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393422 G
1 G
393423 AGGTCACACT
Statistics
Matches: 854, Mismatches: 60, Indels: 27
0.91 0.06 0.03
Matches are distributed among these distances:
24 10 0.01
25 10 0.01
26 2 0.00
27 552 0.65
28 280 0.33
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:392647 original size:137 final size:135
Alignment explanation
Indices: 392468--393422 Score: 1439
Period size: 137 Copynumber: 7.0 Consensus size: 135
392458 GTTTTGAAAT
* * * * *
392468 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
* * * *
392533 AGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAAGGTGCCACGGAGTTGTGG
64 GGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
*
392598 TCTTAAAA
128 ACTTAAAA
392606 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * * *
392671 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACAGAGTTATGGA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGA
392736 CTTAAAA
129 CTTAAAA
* * *
392743 GGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
392808 AGTTGTGGTCTTAAAAGGGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCGCGGAGTTGTGGAC
66 AGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
392873 TTAAAA
130 TTAAAA
* * *
392879 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTATGGACTTAAAAGGGTGCCGCG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
392944 GAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
393009 TTAAAA
130 TTAAAA
** *
393015 GAATGCCACGAAG-T-T-GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
393077 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
393142 TTTAAAA
130 -TTAAAA
* **
393149 GGGTGCCACAGAGTTGTGGACTTAAAAGATATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
**
393214 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGAC
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
393279 TTTAAAA
130 -TTAAAA
* * *
393286 GGATGCCACGAAGTTGCGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
393351 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGC
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
393416 TTTAAA
130 TTAAAA
393422 G
1 G
393423 AGGTCACACT
Statistics
Matches: 747, Mismatches: 60, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
133 108 0.14
134 16 0.02
135 2 0.00
136 174 0.23
137 428 0.57
138 19 0.03
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (135 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAA
Found at i:392740 original size:164 final size:162
Alignment explanation
Indices: 392468--393422 Score: 1430
Period size: 164 Copynumber: 5.8 Consensus size: 162
392458 GTTTTGAAAT
* * * * *
392468 GGGTGCCACAGAGTTGTGGATTTTAAAAGAGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCAC
* * *
392533 AGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAAGGTGCCACGGAGTTGTGG
64 GGAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGG
*
392598 TCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
128 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
392633 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
* * *
392698 GAGTTGTGGACTTAAAAGAGATGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGTGGA
65 GAGTTGTGGACTTAAAAG-GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
*
392763 CTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAA
129 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
392797 GGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCATGGAGTTGTGGACTTAAAAGGGTGCCGCG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* * *
392862 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTATGGA
65 GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGA
* *
392927 CTTAAAAGGGTGCCGCGGAGTTGTGAACTTAAAA
129 CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** *
392961 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
393026 AG-T-T-GACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
66 AGTTGTGGACTTAAAA-GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
393088 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
130 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* **
393121 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGATATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
393186 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
64 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
**
393251 CTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAA
129 CTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
393286 GGATGCCACGAAGTTGCGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* * *
393351 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGC
65 GAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
393416 TTTAAAG
130 TTAAAAG
393423 AGGTCACACT
Statistics
Matches: 728, Mismatches: 51, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
160 78 0.11
161 62 0.09
162 11 0.02
163 58 0.08
164 426 0.59
165 93 0.13
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (162 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
TAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:394454 original size:9 final size:9
Alignment explanation
Indices: 394440--394465 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
394430 TGAAAAGGTT
394440 TTTTTTTTG
1 TTTTTTTTG
394449 TTTTTTTTG
1 TTTTTTTTG
394458 TTTTTTTT
1 TTTTTTTT
394466 AGGATTGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:394768 original size:23 final size:24
Alignment explanation
Indices: 394742--394793 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
394732 TTTTATTTTG
*
394742 TTTTTGCACTTTTTCTTTTCA-TT
1 TTTTTGCACTTTTGCTTTTCAGTT
** *
394765 TTTTTGTGCTTTTGCTTTTGAGTT
1 TTTTTGCACTTTTGCTTTTCAGTT
394789 TTTTT
1 TTTTT
394794 TTTGTCATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (24 bp):
TTTTTGCACTTTTGCTTTTCAGTT
Found at i:396926 original size:33 final size:33
Alignment explanation
Indices: 396889--396955 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
396879 TTCAACGATT
396889 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
396922 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
396955 T
1 T
396956 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:396927 original size:13 final size:13
Alignment explanation
Indices: 396909--396933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
396899 CATAAAATGT
396909 TGTATCGATACAA
1 TGTATCGATACAA
396922 TGTATCGATACA
1 TGTATCGATACA
396934 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:397110 original size:52 final size:52
Alignment explanation
Indices: 396996--397140 Score: 208
Period size: 52 Copynumber: 2.8 Consensus size: 52
396986 CATTACTCAA
*
396996 ATGTATCGATACACTGATCT--TTGTATCGATACATGCAGGC-AATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
397047 ATGTATCGATACA-TTTTAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATT-AAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
397099 ATGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
397141 CTTTTCATAT
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 1 0.01
51 32 0.38
52 47 0.55
53 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:405530 original size:20 final size:20
Alignment explanation
Indices: 405483--405557 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
405473 AAAAAGACAT
*
405483 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
405502 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
405523 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
405543 AATGTATCGATACAT
1 AATGTATCGATACAT
405558 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:405551 original size:40 final size:39
Alignment explanation
Indices: 405480--405557 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
405470 GGTAAAAAGA
* *
405480 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
405519 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
405558 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:407873 original size:154 final size:153
Alignment explanation
Indices: 407653--408930 Score: 1098
Period size: 155 Copynumber: 8.3 Consensus size: 153
407643 CTTAGGGAAC
* * * * **
407653 ACCTCCGACGTAAAAGCATCCCAGCA-ACCCTAAAGGACTTAAAAAGACTCATAAAAAGGATGAA
1 ACCTTCGACGTAAAAGTATCCC-G-ATACCCTAAAAGACTTAAAAAGACT-AGAAATGGGATGAA
* * * * **
407717 CCTATCCTAAATGCCAACCTTTGGCATAAAAGCGAACCCGGTGACGACCTAAAAGTTGGTTCTAA
63 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTAA
407782 AAATTACAAAAATGCCCCTAAGGGAT
128 AAATTACAAAAATGCCCCTAAGGGAT
* * * * * **
407808 ACCTTCAACGTGAAAGCATCCCGATACGTCTAAAAGACTTAAAAAGGCTAGAAATGCAATGAACC
1 ACCTTCGACGTAAAAGTATCCCGATAC-CCTAAAAGACTTAAAAAGACTAGAAATGGGATGAACC
* * * * * *
407873 TATCCAAAAAGCCCACCTTCGGCATAAAAGC-GAACCTGATGATGACCTAGGAGTTAGTTCTAGA
65 TATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAG-TGACGACCTAGGAGTTGGTTCTA-A
* *
407937 AAATTACAAAAATG-CCTTTAGAGGAT
128 AAATTACAAAAATGCCCCTAAG-GGAT
* * * * *
407963 ACCTTCGATGTGAAAGTAT-CC----CCCTAAAGGACTTAAAAA-ATCTAGATATGGGATGAA-A
1 ACCTTCGACGTAAAAGTATCCCGATACCCTAAAAGACTTAAAAAGA-CTAGAAATGGGATGAACC
* * * * * * *
408021 TATCTTAAATGCCCACCTTCAGCATAAAAGCGGACCCAGTGACAAGCTAGGACTCGGTTCAAAAA
65 TATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTC-TAAA
** * *
408086 AAAAACCAAAATGCCCCTAAGGG-C
129 AATTACAAAAATGCCCCTAAGGGAT
* *** * * *
408110 ACCTTCAACGTAAAAGTATCTTAATAAACCTAAAGGACAT-AAAAGAACTAGAAATGGTGATGAA
1 ACCTTCGACGTAAAAGTATCCCGAT-ACCCTAAAAGACTTAAAAAG-ACTAGAAATGG-GATGAA
* * * * * *
408174 CCTATCCTAAATGCCCACTTTC-GCATAAAAGTGGACCCGGTGATGACCTAAGAGTTGGTTCTAG
63 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTAA
* * *
408238 AAATTACGAAAATGCCCTTATAGGTAT
128 AAATTACAAAAATGCCCCTA-AGGGAT
* *
408265 ACCTTCGACGTAAAAGTATCCCGATAACCCTAAAAGACTTAAAAAGACTAGAGATAGGATGAACC
1 ACCTTCGACGTAAAAGTATCCCGAT-ACCCTAAAAGACTTAAAAAGACTAGAAATGGGATGAACC
* * *
408330 -ATCCTAAATGCCCACTTTCGGCATAAAAGTGGACCCAGTGATGACCTAGGAGTTGGTTCTAGAA
65 TATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTA-AA
* **
408394 AATTATAAAAATGCCCCTATAGATAT
129 AATTACAAAAATGCCCCTA-AGGGAT
* * * * *
408420 ACCTTCGACGTAAAAGTATCTCGACAACCCTAAAGGACTTAAAAAGACTATAAAAGGGATGAACC
1 ACCTTCGACGTAAAAGTATCCCGA-TACCCTAAAAGACTTAAAAAGACTAGAAATGGGATGAACC
* * * * ** * *
408485 TATCCTAAATGCCCACCTTCGGCATAAAAGCGAAACCAGTGACGACTTTGGAGTTCATTTTAAGA
65 TATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTAAAA
*
408550 ATTACAAAAATGCCCCTAGGGGAT
130 ATTACAAAAATGCCCCTAAGGGAT
* * * * * *
408574 ACCTTCGGCGTGAAAGTATCCAG-TACCCCTAAAAGACTTAAAAAGGACTATAAAAGGGGTGAAC
1 ACCTTCGACGTAAAAGTATCCCGATA-CCCTAAAAGACTTAAAAA-GACTAGAAATGGGATGAAC
*
408638 CTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTAAG
64 CTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTAA-
* ** *
408703 AAATTATAAAAATGCCTTTATGGGTAT
128 AAATTACAAAAATGCCCCTAAGGG-AT
* * * * * * *
408730 ACCTTCGACGT-AAAGTACCCCGACAACCTTAAAAGACCTAAAGAGACTATAAAAAGGG-TGAAC
1 ACCTTCGACGTAAAAGTATCCCGA-TACCCTAAAAGACTTAAAAAGACTA-GAAATGGGATGAAC
* * * * * * * * * ** * ** *
408793 CTATCCTAAATACCTACTTTCAGTATAAAAGTGGACTCGGCGATAACCTAGGACTCAGTTTTAGG
64 CTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTA--
* * * *
408858 AAAATTTCGAAAATG-ACCTTAGAGGAT
127 AAAATTACAAAAATGCCCCTAAG-GGAT
* * *
408885 ACCTTCAACGTGAAAGTATCCCGATACCCCTAAAGGACTTAAAAAG
1 ACCTTCGACGTAAAAGTATCCCGATA-CCCTAAAAGACTTAAAAAG
408931 GATAGGTATG
Statistics
Matches: 910, Mismatches: 175, Indels: 75
0.78 0.15 0.06
Matches are distributed among these distances:
147 16 0.02
148 56 0.06
149 39 0.04
150 1 0.00
152 5 0.01
153 78 0.09
154 251 0.28
155 333 0.37
156 129 0.14
157 2 0.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (153 bp):
ACCTTCGACGTAAAAGTATCCCGATACCCTAAAAGACTTAAAAAGACTAGAAATGGGATGAACCT
ATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCAGTGACGACCTAGGAGTTGGTTCTAAAAA
TTACAAAAATGCCCCTAAGGGAT
Found at i:409321 original size:128 final size:128
Alignment explanation
Indices: 409171--409915 Score: 1176
Period size: 128 Copynumber: 5.8 Consensus size: 128
409161 TCAAAAAATT
* * * *
409171 CATTTCGTACCTCAATGAATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
* *
409236 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTGATGTTTGCAAAAGAAA
66 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* * * * *
409299 CATTTTGTACCTTAGTGGATACCCGAAAAGATACGAAAAGTTTTTGAAGTCTTTTATACCCCTAC
1 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
*
409364 GGATACCCATAGGAATATAAAAAAATTAAAAATAATTAATATTTATTTATGTTTGGAAAAGAAA
66 GGATACCCATAGGAATAT-AAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* * * *
409428 CATTTCGTACCCTAATAGATACCC-----GATACAAAAAGTTTTTGAAGTCTTTTATACCCCTAT
1 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
* *
409488 AGATACCTATAGGAATATAAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
66 GGATACCCATAGGAATAT-AAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* *
409552 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGATTTTGAAATTTTTTATACCCCTAT
1 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
* *
409617 GGATACCCATAGGAATATAAAAAATAAAAAATGATTAATATTTTTTTATGTTTGGAAAAGAAA
66 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* * *
409680 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAGAGTTTTTGAAATCTTTTATACTCTTAT
1 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
409745 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
66 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* *
409808 CATTTCGTACCTTAATGGATTCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCTCTAT
1 CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
* *
409873 GGATACCCATAGGAATATAAAAAATTTAAAATGATTCATATTT
66 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTT
409916 GTTTTAATTA
Statistics
Matches: 570, Mismatches: 41, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
124 117 0.21
128 343 0.60
129 110 0.19
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (128 bp):
CATTTCGTACCTTAATGGATACCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAT
GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
Found at i:411022 original size:11 final size:11
Alignment explanation
Indices: 411006--411052 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
410996 CTTGGATTTT
411006 TCTTTTTTCTC
1 TCTTTTTTCTC
411017 TCTTTTCTTTCTC
1 TC-TTT-TTTCTC
411030 TCTTTTTTCT-
1 TCTTTTTTCTC
* *
411040 TTTTTTTTTTC
1 TCTTTTTTCTC
411051 TC
1 TC
411053 ACTTGCTGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.27
11 8 0.27
12 6 0.20
13 8 0.27
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:411029 original size:13 final size:13
Alignment explanation
Indices: 411011--411035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
411001 ATTTTTCTTT
411011 TTTCTCTCTTTTC
1 TTTCTCTCTTTTC
411024 TTTCTCTCTTTT
1 TTTCTCTCTTTT
411036 TTCTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTCTCTTTTC
Found at i:411037 original size:15 final size:15
Alignment explanation
Indices: 411002--411041 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
410992 TTTGCTTGGA
*
411002 TTTTTCTTTTTTCTCT
1 TTTTTC-TTTCTCTCT
*
411018 CTTTTCTTTCTCTCT
1 TTTTTCTTTCTCTCT
411033 TTTTTCTTT
1 TTTTTCTTT
411042 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTCTTTCTCTCT
Found at i:412060 original size:166 final size:165
Alignment explanation
Indices: 411687--412132 Score: 540
Period size: 166 Copynumber: 2.7 Consensus size: 165
411677 AAACTCATGA
* * * * *
411687 AAATGAATGAATTTTTGAAAAATAAATTACTATGAATCAAATGATGATATTTTATGAATTTTAAA
1 AAATGAATGAATTTTTGAAAACTAAATTAATATAAAT-AAATAATGATATTTGATGAATTTTAAA
* ** * *
411752 AA-TAGAAAACCGAGAAAAATTTCCTCAAAAAAATTTACGGAGTAGAAAATATCGTATTTAGGAA
65 AATTA-AAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAATACCGTATTTAGAAA
** *
411816 AAATGGCAGTTTCAAGGAAAAAAATAAAAAATGAATG
129 AAAAAGAAGTTTCAAGGAAAAAAATAAAAAATGAATG
* * *
411853 AAAGTAAATGCATTTTTGAAAACTAAATTAATATGAAATAAATAATGATGTTTGATGAATTTTAA
1 AAA-TGAATGAATTTTTGAAAACTAAATTAATAT-AAATAAATAATGATATTTGATGAATTTTAA
* *
411918 AAATTTAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAA-ACCGTATTTCA-AA
64 AAATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAATACCGTATTT-AGAA
*
411981 AAAAAAGAAGTTTTAAGGAAAAAAATAAAAAATGAATGG
128 AAAAAAGAAGTTTCAAGGAAAAAAATAAAAAATGAAT-G
* * *
412020 AAATGATTGAATTTTTGAAAACTTAATCAATATAAAATAAATAATGATATTTGATGAATTTTAAA
1 AAATGAATGAATTTTTGAAAACTAAATTAATAT-AAATAAATAATGATATTTGATGAATTTTAAA
** * ** * *
412085 AATTAAAAATTAAGAAAAATTCTTTCAAAAAAA-TTACAGAGAAGAAAA
65 AATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAA
412133 CTCCACATTT
Statistics
Matches: 240, Mismatches: 35, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
165 13 0.05
166 126 0.52
167 97 0.40
168 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (165 bp):
AAATGAATGAATTTTTGAAAACTAAATTAATATAAATAAATAATGATATTTGATGAATTTTAAAA
ATTAAAAACCAAGAAAAATCCCCTCAAAAAAATTTACGGAGTAGAAAATACCGTATTTAGAAAAA
AAAGAAGTTTCAAGGAAAAAAATAAAAAATGAATG
Found at i:413476 original size:82 final size:80
Alignment explanation
Indices: 413255--413477 Score: 193
Period size: 83 Copynumber: 2.7 Consensus size: 80
413245 ACCTGGGTTA
* * *
413255 AACCGACAGGCCAACAGAGGATAAAAATATTTACCCGGGACTAAGCTGACAGGTAAACAAAGGAT
1 AACCGACAAG-CAACAGAGGATAAAAAGATTTA-CCGGGACTAAGC-GACAGGTAAACAAAGGAA
* *
413320 GAAAGATTGACTGGATTG
63 GAAAGATTGACAGGATCG
* * * ** * *
413338 AAACAATGAAGCAACA-ATGGATAAAAAGATTTACTTAGGACTAAGCCAACAAGTAAAC-AAGAG
1 AACCGA-CAAGCAACAGA-GGATAAAAAGATTTAC-CGGGACTAAG-CGACAGGTAAACAAAG-G
413401 AAGAAA-ATTGATCAGGATCG
61 AAGAAAGATTGA-CAGGATCG
*
413421 AACCGACAAGTCAACAGAGGAT-AAAAGATTTAGCCGGGACTAAGACGATAGGTAAAC
1 AACCGACAAG-CAACAGAGGATAAAAAGATTTA-CCGGGACTAAG-CGACAGGTAAAC
413478 GATGGATAAA
Statistics
Matches: 110, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
82 40 0.36
83 66 0.60
84 4 0.04
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.16
Consensus pattern (80 bp):
AACCGACAAGCAACAGAGGATAAAAAGATTTACCGGGACTAAGCGACAGGTAAACAAAGGAAGAA
AGATTGACAGGATCG
Found at i:414104 original size:43 final size:43
Alignment explanation
Indices: 413972--414121 Score: 135
Period size: 42 Copynumber: 3.5 Consensus size: 43
413962 GCAGATGGTT
* * *
413972 GATAAAGGAAGTCTCCCAAGACTGAGCCGATGGGCAAACGAAA
1 GATAAAGGAAGTCTCCCAAGTCTAAGCTGATGGGCAAACGAAA
* * * * ***
414015 AATGAAA--AAGTCTCCCAAGTCTAAGCTGACGGGTATACGGTT
1 GAT-AAAGGAAGTCTCCCAAGTCTAAGCTGATGGGCAAACGAAA
* * *
414057 GATAAAGGAAGTCTCCCAGGTCTAAGCTGATGGGCAAATGAAC
1 GATAAAGGAAGTCTCCCAAGTCTAAGCTGATGGGCAAACGAAA
* *
414100 GATAAAGG-TGTCTCCCAGGTCT
1 GATAAAGGAAGTCTCCCAAGTCT
414122 GAGCCGACAG
Statistics
Matches: 84, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.04
42 41 0.49
43 37 0.44
44 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (43 bp):
GATAAAGGAAGTCTCCCAAGTCTAAGCTGATGGGCAAACGAAA
Found at i:414155 original size:85 final size:85
Alignment explanation
Indices: 414061--414472 Score: 257
Period size: 85 Copynumber: 4.9 Consensus size: 85
414051 ACGGTTGATA
* * *
414061 AAGGAAGTCTCCCAGGTCTAAGCTGATGGGCAAATGAACGATAAAGGTGTCTCCCAGGTCTGAGC
1 AAGGAAGTCTCCCAGGTCTAAGCTGACGGGCAAATGAATGATAAAGGAGTCTCCCAGGTCTGAGC
*
414126 CGACAGGCAGACAATTAATG
66 CGACGGGCAGACAATTAATG
* ** * * * * * * * *
414146 AAGGGAGTCTCTTAGGTCTTAG-TCGACGGGCAAATG-GTGCATGAAGAAGTTTCTCGGGTCTAA
1 AAGGAAGTCTCCCAGGTCTAAGCT-GACGGGCAAATGAATG-ATAAAGGAGTCTCCCAGGTCTGA
** * *
414209 GTTGACGAGCAGACAA-AAGATG
64 GCCGACGGGCAGACAATTA-ATG
* * * * * *
414231 AAGGAAGTCTCCC-GAGTCTAAGC-CAGCGGGTAGATGAATGATAAAAGAGTCTCCTAGGTTTGA
1 AAGGAAGTCTCCCAG-GTCTAAGCTGA-CGGGCAAATGAATGATAAAGGAGTCTCCCAGGTCTGA
* * *
414294 GCCGATGGGTAGACAATTGATG
64 GCCGACGGGCAGACAATTAATG
* * * * * * * *
414316 AAGGGAGTCTCCCGGGTCTAAGCTAACGGGCAAACGATTAATGAAGGGGTCTCCCAGGTCTGAGC
1 AAGGAAGTCTCCCAGGTCTAAGCTGACGGGCAAATGAATGATAAAGGAGTCTCCCAGGTCTGAGC
* *
414381 C-ACGGGTAGACAATTGATG
66 CGACGGGCAGACAATTAATG
* * * * * * * * *
414400 AA-AAAGTCTCTC-GAATCAAAGCCGACGAGCAGACGAATGATAAAGGAGCCTCCC-GAGTCTGA
1 AAGGAAGTCTCCCAG-GTCTAAGCTGACGGGCAAATGAATGATAAAGGAGTCTCCCAG-GTCTGA
* *
414462 GCTGATGGGCA
64 GCCGACGGGCA
414473 AACTTAAGGG
Statistics
Matches: 241, Mismatches: 73, Indels: 27
0.71 0.21 0.08
Matches are distributed among these distances:
82 2 0.01
83 44 0.18
84 29 0.12
85 162 0.67
86 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (85 bp):
AAGGAAGTCTCCCAGGTCTAAGCTGACGGGCAAATGAATGATAAAGGAGTCTCCCAGGTCTGAGC
CGACGGGCAGACAATTAATG
Found at i:414326 original size:43 final size:42
Alignment explanation
Indices: 414227--414401 Score: 142
Period size: 42 Copynumber: 4.1 Consensus size: 42
414217 GCAGACAAAA
* * *
414227 GATGAAGGAAGTCTCCC-GAGTCTAAGCCAGCGGGTAGATGAA-T
1 GATGAAGGGAGTCTCCCAG-GTCTGAGCCA-CGGGTAGA-CAATT
** * * *
414270 GAT-AAAAGAGTCTCCTAGGTTTGAGCCGATGGGTAGACAATT
1 GATGAAGGGAGTCTCCCAGGTCTGAGCC-ACGGGTAGACAATT
* * * * * *
414312 GATGAAGGGAGTCTCCCGGGTCTAAGCTAACGGGCAAACGATT
1 GATGAAGGGAGTCTCCCAGGTCTGAGC-CACGGGTAGACAATT
*
414355 AATGAAGGG-GTCTCCCAGGTCTGAGCCACGGGTAGACAATT
1 GATGAAGGGAGTCTCCCAGGTCTGAGCCACGGGTAGACAATT
414396 GATGAA
1 GATGAA
414402 AAAGTCTCTC
Statistics
Matches: 100, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
41 18 0.18
42 42 0.42
43 40 0.40
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.21
Consensus pattern (42 bp):
GATGAAGGGAGTCTCCCAGGTCTGAGCCACGGGTAGACAATT
Found at i:414535 original size:43 final size:43
Alignment explanation
Indices: 414469--415611 Score: 961
Period size: 43 Copynumber: 26.6 Consensus size: 43
414459 TGAGCTGATG
* * ** *
414469 GGCAAACTTAAGGGTGAGGAAGTCTTTAGGGTCAAAGTCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * *
414512 AGCAGACTTAAGGGTGAAGAAGTCTCTAGGGTCAAAGTCGATA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
414555 GGCAGACTTAAGGATGAAGAAAGTCTCTAAGGTCAAAGCCGACA
1 GGCAGACTTAAGGGTGAAG-AAGTCTCCAGGGTCAAAGCCGACA
* * * *
414599 GGCAGACTTAAGGGTGAGGAAGCCTCCAAGGTCAAAGTCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
414642 GGTAGACTTAAGGGTGAGGAAGTCTCCTA-GGTCAAAGTCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCC-AGGGTCAAAGCCGACA
* * * * * * *
414685 GGCAGACTTAAAGGCGAGGAAGTCTCCAAGGTTAAAGCGGATA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
** * * *
414728 GGCAGACTTAAAAAG-GAATAGGTCTCTAGGGTCAAAGCCGACA
1 GGCAGACTT-AAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * * *
414771 GGCAAACTTAAGGGCGAGGAAGTCTCTAGGGTCAAAGCCGATA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
414814 GGCAGACTTAAGGGCGAAGAAGTCTCCAAGGTCAAACCCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
** * * * * * * * *
414857 AACAAATTTAAGGGTGAGGGAGTCTCTAGGCTTAAAACCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * *
414900 GGCTGACTTAAAGGG-AAAGAAGTCTCTAGGGTCAAAGCTGACA
1 GGCAGACTT-AAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
414943 GGCAGACTTAAGGGGGAAGAAGTCTCCAAGGTCAAAGTCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
414986 GGCAGACTTAAGGGCGAAGAAGTCTCCAAGGTCAAAGCCGATA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
415029 AGTAGACTTAAGGG-CAAGGAAGTCTCCAGGGTCAAAGCCGACA
1 GGCAGACTTAAGGGTGAA-GAAGTCTCCAGGGTCAAAGCCGACA
* *
415072 GGCAGACTTAAAGGG-GAAGAAGTCTCCAAGGTCAAAGTCGACA
1 GGCAGACTT-AAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
415115 AGTAGACTTAAGGAG-GAAGAAGTCTCCAGGGTCAAAGCTGACA
1 GGCAGACTTAAGG-GTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * *
415158 -GCTAGACTTAAGGGCGAAAAAGTCTCCAAGGTCAAAGCCAACA
1 GGC-AGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * * * *
415201 GGTAAACTT--GTGATGGAAGAAGTCTCTAGGGTCAAAGTCGATA
1 GGCAGACTTAAG-GGT-GAAGAAGTCTCCAGGGTCAAAGCCGACA
* * **
415244 GGCAAACTTAAAGGG-GAAGAAGTCTCTAAAGTCAAAGCCGACA
1 GGCAGACTT-AAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * * * *
415287 GGCAGACTTAAAGGTGAAGAAGTCTCTAAGGTCTAAGCCAATA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* *
415330 GGCAGACATCAA-GTTGAAGAAGTCTCCAGGGTCAAAGCCGACA
1 GGCAGAC-TTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * *
415373 AGTAGACTTAAAGGG-AAAGAAGTCTCCCA-GGTCAAAGCCGACA
1 GGCAGACTT-AAGGGTGAAGAAGTCT-CCAGGGTCAAAGCCGACA
** * * *
415416 TACAGACTTGA-GGTCAAAGAAGTCTCTA-GGTCAAAGCCGACA
1 GGCAGACTTAAGGGT-GAAGAAGTCTCCAGGGTCAAAGCCGACA
**** * *
415458 GGCAGACTTAAAAAAGATGAAGTCTCTAGGGTCAAAGCCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * *
415501 AGAAGACTTAAGGGCGAAGAAGTCTCCAGGGTCAAAGTCGACA
1 GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
* * * * * * * **
415544 GGTAGAATTTA-GGTCAAAAAAGTCTTCAAGGTCAAAGTTGACA
1 GGCAGACTTAAGGGT-GAAGAAGTCTCCAGGGTCAAAGCCGACA
* *
415587 GGCAGACTTGA-GGTGAAGCAGTCTC
1 GGCAGACTTAAGGGTGAAGAAGTCTC
415612 TTTGGTTTAA
Statistics
Matches: 900, Mismatches: 172, Indels: 57
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.00
42 68 0.08
43 764 0.85
44 63 0.07
45 1 0.00
46 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (43 bp):
GGCAGACTTAAGGGTGAAGAAGTCTCCAGGGTCAAAGCCGACA
Found at i:415670 original size:42 final size:42
Alignment explanation
Indices: 415624--415725 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
415614 TGGTTTAAGT
*
415624 CGACGGGTAGACGAAGGGCAAATG-AGTCTCCCAAGTCAAAGC
1 CGACGGGTAGACGAAGGACAAA-GAAGTCTCCCAAGTCAAAGC
* * * *
415666 CGACGGGCAGACGAAGGATAAAGAAGTCTCTCAAGTCCAAGC
1 CGACGGGTAGACGAAGGACAAAGAAGTCTCCCAAGTCAAAGC
* *
415708 TGACAGGTAGACGAAGGA
1 CGACGGGTAGACGAAGGA
415726 TTGAGAGGTC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.35, C:0.22, G:0.31, T:0.12
Consensus pattern (42 bp):
CGACGGGTAGACGAAGGACAAAGAAGTCTCCCAAGTCAAAGC
Found at i:415779 original size:42 final size:42
Alignment explanation
Indices: 415728--415811 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
415718 ACGAAGGATT
* * * *
415728 GAGAGGTCTCCCGGGTTAAAACTGACGGGTAGATAAAAGATA
1 GAGAAGTCTCCCGGGTTAAAACCGACGGGCAGACAAAAGATA
** * *
415770 GAGAAGTCTCTTGGGTTTAAGCCGACGGGCAGACAAAAGATA
1 GAGAAGTCTCCCGGGTTAAAACCGACGGGCAGACAAAAGATA
415812 AAAAGGTCTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (42 bp):
GAGAAGTCTCCCGGGTTAAAACCGACGGGCAGACAAAAGATA
Found at i:416230 original size:87 final size:86
Alignment explanation
Indices: 416062--416231 Score: 200
Period size: 87 Copynumber: 2.0 Consensus size: 86
416052 GACCAGGGTA
* * * * *
416062 GTAACCATATGTCAAATTGAAATGAAAAGAATCTGACCAGGGTAGTAACCATATGTCAGACAGGA
1 GTAACCATATATCAAATCGAAATAAAAAAAATCTGACCAGGGTAGTAACCACA-GTCAGACAGGA
* * *
416127 ATGAAGTAGATTTGACTAAGTG
65 AAGAAGGAGATCTGACTAAGTG
* *
416149 GTAACCATATATCAAATCGAAAATAAAAAAAATTTGACCAGGGTGGTAACCAGCA-TCAGACAGG
1 GTAACCATATATCAAATCG-AAATAAAAAAAATCTGACCAGGGTAGTAACCA-CAGTCAGACAGG
416213 AAAG-AGGAGAGTCTGACTA
64 AAAGAAGGAGA-TCTGACTA
416232 GGCCCTAACA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 5 0.07
87 36 0.51
88 28 0.40
89 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (86 bp):
GTAACCATATATCAAATCGAAATAAAAAAAATCTGACCAGGGTAGTAACCACAGTCAGACAGGAA
AGAAGGAGATCTGACTAAGTG
Found at i:417309 original size:88 final size:88
Alignment explanation
Indices: 417148--417309 Score: 202
Period size: 88 Copynumber: 1.8 Consensus size: 88
417138 TAAATGCACA
* * * * * *
417148 TGAAATGATGCAAATGGAAGCATCACTAAAGTGGCAAATGCATATGAGATGATGCAAATACCAAT
1 TGAAATAATGCAAATGCAAACATCAATAAAGTGGCAAATGCAAATGAGAAGATGCAAATACCAAT
*
417213 GTAATCTAAAATGCAGATGTATG
66 GCAATCTAAAATGCAGATGTATG
* *
417236 TGAAATAATGCAAATGCAAACATCAATAGAAG-GGCAAATGCAAATG-GAAAGATGCAAATGCTA
1 TGAAATAATGCAAATGCAAACATCAATA-AAGTGGCAAATGCAAATGAG-AAGATGCAAATACCA
*
417299 ATGCAGTCTAA
64 ATGCAATCTAA
417310 TCTCAATATA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.02
88 58 0.94
89 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (88 bp):
TGAAATAATGCAAATGCAAACATCAATAAAGTGGCAAATGCAAATGAGAAGATGCAAATACCAAT
GCAATCTAAAATGCAGATGTATG
Found at i:417856 original size:111 final size:112
Alignment explanation
Indices: 417653--417856 Score: 241
Period size: 111 Copynumber: 1.8 Consensus size: 112
417643 AAAGATTTCA
* * ***
417653 AAACTAATAAGATACATGCTCTATTTCCTAGGCACGAATGGATCAAAACGTATAAAGTGCGAATT
1 AAACTAATAAGATACATGCTCCATTTCCTAAGCACGAATGGATCAAAACGTATAAAACACGAATT
* *
417718 TCTTCGAAAATCAAGCAAATCTGATGTTGTAGGGCTCAAAAAGATCG
66 TCTTCGAAAATCAAACAAATCTAATGTTGTAGGGCTCAAAAAGATCG
* * * * * *
417765 AAACTGATAAGATACGTGC-CCATTTTCTAAGCACGAATGGATCAAGATGTATAAAACATGAATT
1 AAACTAATAAGATACATGCTCCATTTCCTAAGCACGAATGGATCAAAACGTATAAAACACGAATT
* * *
417829 TGTTTGAAAATTAAACAAAT-TCAATGTT
66 TCTTCGAAAATCAAACAAATCT-AATGTT
417857 CTTCCAAGTT
Statistics
Matches: 75, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
110 1 0.01
111 57 0.76
112 17 0.23
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (112 bp):
AAACTAATAAGATACATGCTCCATTTCCTAAGCACGAATGGATCAAAACGTATAAAACACGAATT
TCTTCGAAAATCAAACAAATCTAATGTTGTAGGGCTCAAAAAGATCG
Found at i:418150 original size:17 final size:17
Alignment explanation
Indices: 418128--418161 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
418118 CCTTTTTCCA
418128 TTTTTC-TTTTTTCTTCT
1 TTTTTCGTTTTTT-TTCT
418145 TTTTTCGTTTTTTTTCT
1 TTTTTCGTTTTTTTTCT
418162 CTTTCACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCGTTTTTTTTCT
Found at i:420612 original size:13 final size:13
Alignment explanation
Indices: 420594--420620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
420584 ACATGCTACT
420594 TTGTATCGATACA
1 TTGTATCGATACA
420607 TTGTATCGATACA
1 TTGTATCGATACA
420620 T
1 T
420621 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:420617 original size:33 final size:32
Alignment explanation
Indices: 420575--420639 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
420565 CACACCCAAA
*
420575 TGTATCGATACATGCTACTTTGTATCGATACAT
1 TGTATCGATACATG-TACATTGTATCGATACAT
*
420608 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTACATTGTATCGATACAT
420640 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTACATTGTATCGATACAT
Found at i:420650 original size:20 final size:19
Alignment explanation
Indices: 420604--420660 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
420594 TTGTATCGAT
*
420604 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
420623 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
420642 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
420661 AAATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:420725 original size:63 final size:63
Alignment explanation
Indices: 420626--420785 Score: 286
Period size: 63 Copynumber: 2.5 Consensus size: 63
420616 TACATGTTCA
*
420626 TTGTATCGATACATGG-ACAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTATCACTAT
1 TTGTATCGATACATGGTACAA-TGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
420689 TTGTATCGATACATGGTACAATGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
1 TTGTATCGATACATGGTACAATGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
*
420752 TTGTATCGATACATGTTACAATGTATCGATACAT
1 TTGTATCGATACATGGTACAATGTATCGATACAT
420786 TGCTTGTAAC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 90 0.96
64 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (63 bp):
TTGTATCGATACATGGTACAATGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
Found at i:422866 original size:21 final size:21
Alignment explanation
Indices: 422842--422900 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
422832 TAATATTCTT
* *
422842 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
422863 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
422884 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
422901 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:424231 original size:13 final size:13
Alignment explanation
Indices: 424213--424237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
424203 TAAAGAAAAT
424213 TATATCGATACAC
1 TATATCGATACAC
424226 TATATCGATACA
1 TATATCGATACA
424238 ATTTTAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TATATCGATACAC
Found at i:426114 original size:13 final size:13
Alignment explanation
Indices: 426096--426122 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
426086 ACATGATGCT
426096 TTGTATCGATACA
1 TTGTATCGATACA
426109 TTGTATCGATACA
1 TTGTATCGATACA
426122 T
1 T
426123 GGACAATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:426214 original size:33 final size:32
Alignment explanation
Indices: 426172--426240 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
426162 CTATCACTAT
* *
426172 TTGTATCGATGCATG-GTACAATGTATGGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
426205 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
426238 TTG
1 TTG
426241 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:426718 original size:32 final size:33
Alignment explanation
Indices: 426677--426768 Score: 109
Period size: 32 Copynumber: 2.8 Consensus size: 33
426667 CAAGTGATTA
426677 AGAGGTTCTATCTTAGCCTTGAAAGATA-GTGT
1 AGAGGTTCTATCTTAGCCTTGAAAGATAGGTGT
426709 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGGGTGT
1 AGAGGTTCTATCTTAGCC-TTG--AAAGATA-GGTGT
* *
426746 A-AGGTTATACCTTAGCCTT-AAAG
1 AGAGGTTCTATCTTAGCCTTGAAAG
426769 GTAAACAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
32 22 0.42
33 3 0.06
35 9 0.17
36 14 0.26
37 5 0.09
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTTGAAAGATAGGTGT
Found at i:429083 original size:155 final size:154
Alignment explanation
Indices: 428829--430365 Score: 1499
Period size: 155 Copynumber: 9.9 Consensus size: 154
428819 CATAAAAAGT
** * * *
428829 ATGAACCTATCCTAAATGCCCACCAACGGCATAAAAGCGAACCCGGTAACGACCTAGGAGCTGGT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
*
428894 TCT-AAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACG-AGAAAATATCTTGATACCTCTA
66 TCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTA-AAAATATCCTGATACC-CTA
* *
428957 AAAGACTTAAAAAGGCTAGAAATGGG
129 AAGGACTTAAAAAGACTAGAAATGGG
* * ** * *
428983 CTGAACCTATCCTAAATGCCCACCTTCGGCGTAAAAATGGACCCGGTGATGACCTAGGAGTTCGT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
* * * *
429048 TCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGATGTGAAAATATCCCGGTACCCCTAA
66 TCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAATATCCTGATA-CCCTAA
*
429113 AGGACTTAAAAA-ACTAGAGATGGG
130 AGGACTTAAAAAGACTAGAAATGGG
*
429137 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAG-GAAACTCGGTGATGACCTAGGAGTTGG
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCG-AACCCGGTGATGACCTAGGAGTTGG
* * * * *
429201 TTCTAAAAAATTACAAAAATGCCCCTTGGGGATACCTTCGACGTGAAAGTATCCCGATACCCCTA
65 TTCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAATATCCTGATA-CCCTA
*
429266 AAGGACTTAAACAA-ACTAGAGATGGG
129 AAGGACTTAAA-AAGACTAGAAATGGG
* * * * ** * *
429292 ATGAACCTATCCAAAATGCCCATCTTCAGCATAAAAGTGAACCCGGTGACAACTTAGG-GCTCGG
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAG-TTGG
* * * ** * *
429356 TACTAAAAAAATATCG-AAATACATCTAGGGGTATACCTTCAACGTAAAAGTATCCT-AGTAACC
65 TTCTAAAAAATTA-CGAAAATGCCCCTAGGGG-ATACCTTCGACGTAAAAATATCCTGA-T-ACC
* *
429419 CTAAAGGACTTAAAAAGACTATAAAAGGG
126 CTAAAGGACTTAAAAAGACTAGAAATGGG
* * * * * *
429448 AAGAACCTATCCTAAATGCCCACCTTCGACATAAAAGTGGACCCGATGATGACTTAGGAGTTGGT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
* * * * * * * * * *
429513 TCTAGAAAATTACGAAAATACCCTTAGAGGATACCTTTGACATAAAAGTATTCTGGTAACCTTAA
66 TCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAATATCCTGAT-ACCCTAA
*
429578 AGGACTTAAAAAGACTAGAGATGGG
130 AGGACTTAAAAAGACTAGAAATGGG
*
429603 ATGAATCTATCCTAAATGCCCACCTTC-GCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
* * * * *
429667 T-TTAAAAATTACAAAAATGCCCCTATGGGTATACCTTTGACGTAAAAGA-ATCTCAGCA-ACCC
66 TCTAAAAAATTACGAAAATGCCCCTA-GGGGATACCTTCGACGTAAAA-ATATC-CTG-ATACCC
*
429729 TAAAGGACTTAAAAAGACTAGAGATGGG
127 TAAAGGACTTAAAAAGACTAGAAATGGG
* ** * * * * *
429757 GTGAACCTATCCTAAATG-CCATTTTTGACATAAAAGCGGATCTC-GTGATGACCTAGGACTTGG
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGC-GAACCCGGTGATGACCTAGGAGTTGG
* * * * *
429820 TTTTAAAAAATTACGAAAAT-ACCCTGATAGGTATACCTTCGACGTAAAAATATCCTGACAACCC
65 TTCTAAAAAATTACGAAAATGCCCCT-A-GGGGATACCTTCGACGTAAAAATATCCTGA-TACCC
* * *
429884 TAAAAGACTTAAAAAGACTATAAAAGGG
127 TAAAGGACTTAAAAAGACTAGAAATGGG
* * * *
429912 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGACGACTTTGGAGTTGCT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
* * * * * *
429977 TCT-AAAAATTATGAAAATGCTCCTAGGGGATACCTTCGACGTGAAAGTATCCTGGTACCCTTGA
66 TCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAATATCCTGATACCC-TAA
* * *
430041 AGGACTTAGAAAGGACTATAAAAGGG
130 AGGACTTA-AAAAGACTAGAAATGGG
* * *
430067 GTGAACCTATCCTAAATACCCATCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
* * ** ** * **
430132 TCTAAGAAATTACAAAAATGCTACTATGGTTATACCTTCGACGTAAAAGTA-CCTCGGCA-AGAC
66 TCTAAAAAATTACGAAAATGCCCCTA-GGGGATACCTTCGACGTAAAAATATCCT--G-ATACCC
* * *
430195 TAAAGGACCTAAAAAGACTATAAAAGGG
127 TAAAGGACTTAAAAAGACTAGAAATGGG
* * * * * * * ** * * * *
430223 GTGAACGTATCCTAAGTACCCACCTTCAGCATAAAAGTGGACCTAGCGATAACCTAGGACTCGGT
1 ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
* * * * * * ** *
430288 TATAGGAAAATTATGAAAATGCACCTAGAGGATACCTTCGATGTAAAAGCATCCCGATACCCTAA
66 TCTA-AAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAATATCCTGATACCCTAA
*
430353 AAGACTTAAAAAG
130 AGGACTTAAAAAG
430366 GATAGGTATT
Statistics
Matches: 1154, Mismatches: 190, Indels: 77
0.81 0.13 0.05
Matches are distributed among these distances:
153 30 0.03
154 366 0.32
155 434 0.38
156 271 0.23
157 50 0.04
158 3 0.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (154 bp):
ATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGT
TCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAATATCCTGATACCCTAAA
GGACTTAAAAAGACTAGAAATGGG
Found at i:429636 original size:465 final size:461
Alignment explanation
Indices: 428770--430365 Score: 1743
Period size: 465 Copynumber: 3.4 Consensus size: 461
428760 CTTAGGAAAC
* ** * * * * ** *
428770 ACCTTCGACGTAAAAGCATCCTCA-CAACCCTAAAAAACCTAAAAAGATTCATAAAAAGTATGAA
1 ACCTTCGACGTAAAAGTAT-CTCAGCAACCCTAAAGGACTTAAAAAGACT-AGAGATGGGATGAA
* ** * *
428834 CCTATCCTAAATGCCCACCAACGGCATAAAAGCGAACCCGGTAACGACCTAGGAGCTGGTTCT-A
64 CCTATCCTAAATGCCCATCTTCAGCATAAAAGCGAACCCGGTGACGACCTAGG-GCTGGTTCTAA
* *
428898 AAAATTACGAAAATGCCCCTAGGGG-ATACCTTCGACG-AGAAAATATCTTGATACCTCTAAAAG
128 AAAATTACGAAAAT-ACCCTAGGGGTATACCTTCGACGTA-AAAATATCCTGA-ACC-CTAAAAG
* * * * * *
428961 ACTTAAAAAGGCTAGAAATGGGCTGAACCTATCCTAAATGCCCACCTTCGGCGTAAAAATGGACC
189 ACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGACC
* * *
429026 CGGTGATGACCTAGGAGTTCGTTCTAAAAAATTACGAAAATGCCCCTAGGGGATACCTTCGATGT
254 CGGTGATGACTTAGGAGTTGGTTCT-AAAAATTACGAAAATG-CCCTAGGGGATACCTTCGACGT
* *
429091 GAAAA-TATCCCGGTACCCCTAAAGGACTTAAAAA-ACTAGAGATGGGATGAACCTATCCTAAAT
317 -AAAAGTATCCTGGTACCCTTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAT
*
429154 GCCCACCTTCGGCATAAAAG-GAAACTCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACAAA
381 GCCCACCTTCGGCATAAAAGCG-AACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACAAA
*
429218 AATGCCCCT-TGGGGAT
445 AATGCCCCTATGGGTAT
* *
429234 ACCTTCGACGTGAAAGTATC-CCG-ATACCCCTAAAGGACTTAAACAA-ACTAGAGATGGGATGA
1 ACCTTCGACGTAAAAGTATCTCAGCA-A-CCCTAAAGGACTTAAA-AAGACTAGAGATGGGATGA
* * * * *
429296 ACCTATCCAAAATGCCCATCTTCAGCATAAAAGTGAACCCGGTGACAACTTAGGGCTCGGTACTA
63 ACCTATCCTAAATGCCCATCTTCAGCATAAAAGCGAACCCGGTGACGACCTAGGGCT-GGTTCTA
* * * * *
429361 AAAAAATATCG-AAATACATCTAGGGGTATACCTTCAACGTAAAAGTATCCTAGTAACCCTAAAG
127 AAAAATTA-CGAAAATAC-CCTAGGGGTATACCTTCGACGTAAAAATATCCT-G-AACCCTAAAA
* *
429425 GACTTAAAAAGACTATAAAAGGGAAGAACCTATCCTAAATGCCCACCTTCGACATAAAAGTGGAC
188 GACTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGAC
* * * * *
429490 CCGATGATGACTTAGGAGTTGGTTCTAGAAAATTACGAAAATACCCTTAGAGGATACCTTTGACA
253 CCGGTGATGACTTAGGAGTTGGTTCTA-AAAATTACGAAAATGCCC-TAGGGGATACCTTCGACG
* * *
429555 TAAAAGTATTCTGGTAACCTTAAAGGACTTAAAAAGACTAGAGATGGGATGAATCTATCCTAAAT
316 TAAAAGTATCCTGGTACCCTTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAT
*
429620 GCCCACCTTC-GCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTT-TTAAAAATTACAAAA
381 GCCCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACAAAA
429683 ATGCCCCTATGGGTAT
446 ATGCCCCTATGGGTAT
* * *
429699 ACCTTTGACGTAAAAGAATCTCAGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGGTGAACC
1 ACCTTCGACGTAAAAGTATCTCAGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACC
** * * * * *
429764 TATCCTAAATG-CCAT-TTTTGACATAAAAGCGGATCTC-GTGATGACCTAGGACTTGGTTTTAA
66 TATCCTAAATGCCCATCTTCAG-CATAAAAGC-GAACCCGGTGACGACCTAGGGC-TGGTTCTAA
**
429826 AAAATTACGAAAATACCCTGATAGGTATACCTTCGACGTAAAAATATCCTGACAACCCTAAAAGA
128 AAAATTACGAAAATACCCT-AGGGGTATACCTTCGACGTAAAAATATCCTG--AACCCTAAAAGA
* *
429891 CTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGAACCC
190 CTTAAAAAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGACCC
* * * * *
429956 GGTGACGACTTTGGAGTTGCTTCTAAAAATTATGAAAATGCTCCTAGGGGATACCTTCGACGTGA
255 GGTGATGACTTAGGAGTTGGTTCTAAAAATTACGAAAATGC-CCTAGGGGATACCTTCGACGTAA
* * * * * * *
430021 AAGTATCCTGGTACCCTTGAAGGACTTAGAAAGGACTATAAAAGGGGTGAACCTATCCTAAATAC
319 AAGTATCCTGGTACCCTTAAAGGACTTA-AAAAGACTAGAGATGGGATGAACCTATCCTAAATGC
* *
430086 CCATCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTTCTAAGAAATTACAAAAAT
383 CCACCTTCGGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACAAAAAT
** *
430151 GCTACTATGGTTAT
448 GCCCCTATGGGTAT
* * ** * * * * * *
430165 ACCTTCGACGTAAAAGTACCTCGGCAAGACTAAAGGACCTAAAAAGACTATAAAAGGGGTGAACG
1 ACCTTCGACGTAAAAGTATCTCAGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACC
* * * * * ** * ** * * *
430230 TATCCTAAGTACCCACCTTCAGCATAAAAGTGGACCTAGCGATAACCTAGGACTCGGTTATAGGA
66 TATCCTAAATGCCCATCTTCAGCATAAAAGCGAACCCGGTGACGACCTAGGGCT-GGTTCTA-AA
* * * * ** *
430295 AAATTATGAAAATGCACCTAGAGG-ATACCTTCGATGTAAAAGCATCCCGATACCCTAAAAGACT
129 AAATTACGAAAATAC-CCTAGGGGTATACCTTCGACGTAAAAATATCCTGA-ACCCTAAAAGACT
430359 TAAAAAG
192 TAAAAAG
430366 GATAGGTATT
Statistics
Matches: 954, Mismatches: 140, Indels: 74
0.82 0.12 0.06
Matches are distributed among these distances:
462 5 0.01
463 125 0.13
464 280 0.29
465 308 0.32
466 159 0.17
467 53 0.06
468 21 0.02
469 3 0.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (461 bp):
ACCTTCGACGTAAAAGTATCTCAGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACC
TATCCTAAATGCCCATCTTCAGCATAAAAGCGAACCCGGTGACGACCTAGGGCTGGTTCTAAAAA
ATTACGAAAATACCCTAGGGGTATACCTTCGACGTAAAAATATCCTGAACCCTAAAAGACTTAAA
AAGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGTGGACCCGGTGAT
GACTTAGGAGTTGGTTCTAAAAATTACGAAAATGCCCTAGGGGATACCTTCGACGTAAAAGTATC
CTGGTACCCTTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTC
GGCATAAAAGCGAACCCGGTGATGACCTAGGAGTTGGTTCTAAAAAATTACAAAAATGCCCCTAT
GGGTAT
Found at i:430737 original size:128 final size:128
Alignment explanation
Indices: 430605--431100 Score: 823
Period size: 128 Copynumber: 3.9 Consensus size: 128
430595 TCAAAAAATT
* **
430605 CATTTCGTACCTCAATGGATACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTTAATGGATACCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTAC
*
430670 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGCAAAAGAAA
66 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
*
430733 CATTTCGTACCTTAATGGATACCCGAAAAAATACAAAAAGTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTTAATGGATACCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTAC
* *
430798 AGATACCCATAAGAATATAAAAAA-TAAAAAGGATTAATATTTATTTATGTTTGGAAAAGAAA
66 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* * *
430860 CATTTGGTACCTTAATGGATACCCGAAATGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTTAATGGATACCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTAC
* *
430925 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATCTTTGGAAAAGAAA
66 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
* * *
430988 CATTTCATACCTTAATGGATACCCGAAAAGATATAAAAAGTTTTTGAAATCTTTTATACCCCTAT
1 CATTTCGTACCTTAATGGATACCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTAC
* * *
431053 GGATACCCATAGAAATATAAAAAATTAAAAATGATTAATATTTGTTTA
66 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTA
431101 AATTAACAGG
Statistics
Matches: 344, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
127 119 0.35
128 225 0.65
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (128 bp):
CATTTCGTACCTTAATGGATACCCGAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTAC
AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGGAAAAGAAA
Found at i:431072 original size:255 final size:256
Alignment explanation
Indices: 430605--431100 Score: 843
Period size: 255 Copynumber: 1.9 Consensus size: 256
430595 TCAAAAAATT
*
430605 CATTTCGTACCTCAATGGATACCCGAAAAGATATGAAAAGTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTCAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
*
430670 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATGTTTGCAAAAGAAACA
66 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATCTTTGCAAAAGAAACA
*
430735 TTTCGTACCTTAATGGATACCCGAAAAAATACAAAAAGTTTTTGAAATCTTTTATACCCCTACAG
131 TTTCATACCTTAATGGATACCCGAAAAAATACAAAAAGTTTTTGAAATCTTTTATACCCCTACAG
430800 ATACCCATAAGAATATAAAAAA-TAAAAAGGATTAATATTTATTTATGTTTGGAAAAGAAA
196 ATACCCATAAGAATATAAAAAATTAAAAAGGATTAATATTTATTTATGTTTGGAAAAGAAA
* * *
430860 CATTTGGTACCTTAATGGATACCCGAAATGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
1 CATTTCGTACCTCAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
* *
430925 GGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATCTTTGGAAAAGAAACA
66 AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATCTTTGCAAAAGAAACA
* * **
430990 TTTCATACCTTAATGGATACCCGAAAAGATATAAAAAGTTTTTGAAATCTTTTATACCCCTATGG
131 TTTCATACCTTAATGGATACCCGAAAAAATACAAAAAGTTTTTGAAATCTTTTATACCCCTACAG
* *
431055 ATACCCAT-AGAAATATAAAAAATTAAAAATGATTAATATTTGTTTA
196 ATACCCATAAG-AATATAAAAAATTAAAAAGGATTAATATTTATTTA
431101 AATTAACAGG
Statistics
Matches: 225, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
254 2 0.01
255 202 0.90
256 21 0.09
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (256 bp):
CATTTCGTACCTCAATGGATACCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC
AGATACCCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATCTTTGCAAAAGAAACA
TTTCATACCTTAATGGATACCCGAAAAAATACAAAAAGTTTTTGAAATCTTTTATACCCCTACAG
ATACCCATAAGAATATAAAAAATTAAAAAGGATTAATATTTATTTATGTTTGGAAAAGAAA
Found at i:432204 original size:11 final size:11
Alignment explanation
Indices: 432181--432228 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 11
432171 TTGCTTGGAT
432181 TTTTTTTTCTC
1 TTTTTTTTCTC
432192 TCTTTTCTTTCTCCC
1 T-TTTT-TTTCT--C
432207 TTTTTTCTTCTC
1 TTTTTT-TTCTC
432219 TTTTTTTTCT
1 TTTTTTTTCT
432229 TACTTGCTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.16
12 11 0.34
13 6 0.19
14 8 0.25
15 2 0.06
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:432217 original size:14 final size:14
Alignment explanation
Indices: 432180--432229 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
432170 TTTGCTTGGA
*
432180 TTTTTTTTTCTCTC
1 TTTTTTCTTCTCTC
* *
432194 TTTTCT-TTCTCCC
1 TTTTTTCTTCTCTC
*
432207 TTTTTTCTTCTCTT
1 TTTTTTCTTCTCTC
432221 TTTTTTCTT
1 TTTTTTCTT
432230 ACTTGCTGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTCTTCTCTC
Found at i:432960 original size:166 final size:167
Alignment explanation
Indices: 432788--433328 Score: 475
Period size: 166 Copynumber: 3.3 Consensus size: 167
432778 TTAGATACAT
* * * *
432788 TTTAAAAATTTTAGACCAAAG-AAAATCCACCCGAAAATATTTATAGAA-T-GAAAA-ACTCAGT
1 TTTAAAAATTTGAAAACAAAGAAAAATCCACCCGAAAAAATTTA-AGAAGTAGAAAATA-TC-GT
* * *
432849 -TTTCGAGAAAATAGGG-A-TTTCAAAGAAAAAATTCAAAAACTC-TCGAAAATGAATGAATGTT
63 ATTTAG-GAAAAT-GGGAAGTTTC-AAGAAAAAAATCAAAAACTCAT-AAAAATGAATGAATGTT
* * *
432910 TGAAAACTAAATTAATATG-AATCAAATGATGATGTTTTATGAAA
124 TGAAAACTAAATTAATATGAAAT-AAATAATGATGCTTGATGAAA
** ** * *
432954 TTTAAAAA-TTGAAAACTGAGAAAAATCTTCTCGAAAAAATTTACGAAGTAGAAAATATCGTATT
1 TTTAAAAATTTGAAAACAAAGAAAAATCCACCCGAAAAAATTTAAGAAGTAGAAAATATCGTATT
*
433018 TAGGAAAATGGGAAGTTTCAAGAAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAAC
66 TAGGAAAATGGGAAGTTTCAAGAAAAAAATCAAAAACTCATAAAAATGAATGAATGTTTGAAAAC
* *
433083 TGAATTAATATGAAATAAATAATGATGCTTGATGGAA
131 TAAATTAATATGAAATAAATAATGATGCTTGATGAAA
* * * * * * *
433120 TTTGAAAA-TTGAAAACCAAGAAAAATCC-CCTCGAAAAAATTTACGGAGTAGAAAAAACCATAG
1 TTTAAAAATTTGAAAACAAAGAAAAATCCACC-CGAAAAAATTTAAGAAGTAGAAAATATCGTA-
*** * * * *
433183 TTTA-GAAAAAAAGAAGTTTCAAGGAAAAAAATCAAAAA-TGAATGAAAATGAATGCATTTTTG-
64 TTTAGGAAAATGGGAAGTTTCAA-GAAAAAAATCAAAAACT-CATAAAAATGAATGAATGTTTGA
* ** * *
433245 AAACTGAATTAATATGAAATAAATAATGATATTTGGTGAAT
127 AAACTAAATTAATATGAAATAAATAATGATGCTTGATGAAA
** * * *
433286 TTTAAAAATTT-AAAATTAAGAAAAATTCTCTCGAAAAAATTTA
1 TTTAAAAATTTGAAAACAAAGAAAAATCCACCCGAAAAAATTTA
433329 CGGAAAAGAA
Statistics
Matches: 316, Mismatches: 44, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
165 14 0.04
166 241 0.76
167 60 0.19
168 1 0.00
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.28
Consensus pattern (167 bp):
TTTAAAAATTTGAAAACAAAGAAAAATCCACCCGAAAAAATTTAAGAAGTAGAAAATATCGTATT
TAGGAAAATGGGAAGTTTCAAGAAAAAAATCAAAAACTCATAAAAATGAATGAATGTTTGAAAAC
TAAATTAATATGAAATAAATAATGATGCTTGATGAAA
Found at i:433329 original size:166 final size:165
Alignment explanation
Indices: 432866--433405 Score: 583
Period size: 166 Copynumber: 3.3 Consensus size: 165
432856 AAAATAGGGA
* * * *
432866 TTTCAAAGAAAAAATTCAAAAACT-CTCGAAAATGAATGAATGTTTGAAAACTAAATTAATATG-
1 TTTC-AAGAAAAAAATCAAAAACTAAT-GAAAATGAATGAATTTTTGAAAACTGAATTAATATGA
* * *
432929 AATCAAATGATGATGTTTTATGAAATTTAAAAATTGAAAACTGAGAAAAA-TCTTCTCGAAAAAA
64 AAT-AAATAATGATGTTTGATG-AATTTAAAAATTGAAAACTAAGAAAAATTC-TCTCGAAAAAA
* * * * ***
432993 TTTACGAAGTAGAAAATATCGTATTTAGGAAAATGGGAAG
126 TTTACGGAGTAGAAAAAACCATATTTAGGAAAAAAAGAAG
* *
433033 TTTCAAGAAAAAAATCAAAAACTCATAAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
1 TTTCAAGAAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
* * * * *
433098 TAAATAATGATGCTTGATGGAATTTGAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTA
66 TAAATAATGATGTTTGAT-GAATTTAAAAATTGAAAACTAAGAAAAATTCTCTCGAAAAAATTTA
433163 CGGAGTAGAAAAAACCATAGTTTA-GAAAAAAAGAAG
130 CGGAGTAGAAAAAACCATA-TTTAGGAAAAAAAGAAG
*
433199 TTTCAAGGAAAAAAATCAAAAA-TGAATGAAAATGAATGCATTTTTG-AAACTGAATTAATATGA
1 TTTCAA-GAAAAAAATCAAAAACT-AATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGA
* * * *
433262 AATAAATAATGATATTTGGTGAATTTTAAAAATTTAAAATTAAGAAAAATTCTCTCGAAAAAATT
64 AATAAATAATGATGTTTGATGAA-TTTAAAAATTGAAAACTAAGAAAAATTCTCTCGAAAAAATT
** ** * *
433327 TACGGAAAAGAAAACTCCATATTTTGGAAACAAGAGAA-
128 TACGGAGTAGAAAAAACCATATTTAGGAAA-AAAAGAAG
* * * ** *
433365 TTTTAA-AGAAAAATAAAAAACTCGTGAAAATGAAGGAATTT
1 TTTCAAGAAAAAAATCAAAAACTAATGAAAATGAATGAATTT
433406 ATAGAAATTG
Statistics
Matches: 317, Mismatches: 45, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
164 27 0.09
165 7 0.02
166 229 0.72
167 54 0.17
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (165 bp):
TTTCAAGAAAAAAATCAAAAACTAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAA
TAAATAATGATGTTTGATGAATTTAAAAATTGAAAACTAAGAAAAATTCTCTCGAAAAAATTTAC
GGAGTAGAAAAAACCATATTTAGGAAAAAAAGAAG
Found at i:436150 original size:80 final size:80
Alignment explanation
Indices: 436066--436376 Score: 358
Period size: 80 Copynumber: 3.9 Consensus size: 80
436056 CCGAGGTTTG
* * * * *
436066 ATATCCCCTCAGAGATGGCGAGGTTGGAGTATCCCCAAAGATGAATAATTTAATGTTTTGGAAGT
1 ATATCCCCTCAGAAATGGTGGGGTTGGAGTATCCTCAAAGATGAAAAATTTAATGTTTTGGAAGT
* *
436131 AAAAACGGGGTTGAA
66 AAAAATGGGGTTGGA
* * * * *
436146 ATATCTCCTCAGAGATGGTGGGGTTGGAGTATCCTC-AAGAGGAAAAAATTAATATTTTGGAAGT
1 ATATCCCCTCAGAAATGGTGGGGTTGGAGTATCCTCAAAGATGAAAAATTTAATGTTTTGGAAGT
*
436210 AAAAATAGGGTTGGA
66 AAAAATGGGGTTGGA
* * *
436225 GTA-CCCGCTC-GAAAATGGTGGGGTTGGAGTATCCTTAGAGATGAAAAATTTAATGTTTTGGAA
1 ATATCCC-CTCAG-AAATGGTGGGGTTGGAGTATCCTCAAAGATGAAAAATTTAATGTTTTGGAA
436288 GTAAAAATGGGGTTGGA
64 GTAAAAATGGGGTTGGA
* ** * * * *
436305 GTATCTTCTCAGAAATGGTGGGGTTGGAGTATCCGCAAAGATGATAATATTTAGTGTTTTAGAAG
1 ATATCCCCTCAGAAATGGTGGGGTTGGAGTATCCTCAAAGATGA-AAAATTTAATGTTTTGGAAG
*
436370 TGAAAAT
65 TAAAAAT
436377 TAGGTTGGTG
Statistics
Matches: 196, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
78 3 0.02
79 63 0.32
80 105 0.54
81 25 0.13
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (80 bp):
ATATCCCCTCAGAAATGGTGGGGTTGGAGTATCCTCAAAGATGAAAAATTTAATGTTTTGGAAGT
AAAAATGGGGTTGGA
Found at i:438636 original size:20 final size:21
Alignment explanation
Indices: 438594--438650 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
438584 TCTAGAAAGG
438594 AAATGTATCGATACATAAGT-
1 AAATGTATCGATACATAAGTA
* ***
438614 AAATTTATCGATACATGCTTA
1 AAATGTATCGATACATAAGTA
438635 AAATGTATCGATACAT
1 AAATGTATCGATACAT
438651 TTATCATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
AAATGTATCGATACATAAGTA
Found at i:440416 original size:23 final size:23
Alignment explanation
Indices: 440385--440430 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
440375 TTGAAAATTA
440385 TTTTAAAATATTA-AATGATTTTT
1 TTTTAAAATATTATAAT-ATTTTT
* *
440408 TTTTGAAATTTTATAATATTTTT
1 TTTTAAAATATTATAATATTTTT
440431 CCATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTAAAATATTATAATATTTTT
Found at i:441184 original size:79 final size:78
Alignment explanation
Indices: 441100--441496 Score: 386
Period size: 79 Copynumber: 5.0 Consensus size: 78
441090 TATTGATTCT
** * * ** *
441100 TTTTTATTTCCAAAATATCGATTTTTCACCATCGGAGATACTCCAATCCTGTTATTTTCGAGGGG
1 TTTTTATTTCCAAAATATAAATTTTTCACC-TCGGGGATACTCCAACCCCATTATTTTTGAGGGG
441165 ATACTCCAACCCCA
65 ATACTCCAACCCCA
* * *
441179 TTTTTATTTTCAAAATATCAATTTTTCACCATCGGGGTTACTCCAACCCCATTATTTTTGAGGGG
1 TTTTTATTTCCAAAATATAAATTTTTCACC-TCGGGGATACTCCAACCCCATTATTTTTGAGGGG
** **
441244 ATACTCCAAGTCTG
65 ATACTCCAACCCCA
* * * * *
441258 TTTTTATCTCGAAAATATTAAATTTCTCATCTCGGGGATACTCCAACCCCATTATTTTTGAGTGG
1 TTTTTATTTCCAAAATA-TAAATTTTTCACCTCGGGGATACTCCAACCCCATTATTTTTGAGGGG
* ***
441323 ATACTCTAACCTTG
65 ATACTCCAACCCCA
* * * *
441337 TTTTTATTTCCAAAATATTAAAATTTTCATCTCGGGGATACTCCAACCCCGTTATTTTTAAGGGG
1 TTTTTATTTCCAAAATA-TAAATTTTTCACCTCGGGGATACTCCAACCCCATTATTTTTGAGGGG
*
441402 ATAGTCCAACCCCA
65 ATACTCCAACCCCA
* * * * *
441416 TATTTATTTCCAAAATATTAAATTTTTCA-TTGGGGGATGTACTCCAACCCC-GTA-TTTCGAGG
1 TTTTTATTTCCAAAATA-TAAATTTTTCACCTCGGGGA--TACTCCAACCCCATTATTTTTGAGG
* * *
441478 GGACACTCTAACCCTA
63 GGATACTCCAACCCCA
441494 TTT
1 TTT
441497 CTTTTCGATT
Statistics
Matches: 267, Mismatches: 48, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
78 26 0.10
79 219 0.82
80 22 0.08
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (78 bp):
TTTTTATTTCCAAAATATAAATTTTTCACCTCGGGGATACTCCAACCCCATTATTTTTGAGGGGA
TACTCCAACCCCA
Found at i:444769 original size:79 final size:79
Alignment explanation
Indices: 444681--445303 Score: 623
Period size: 79 Copynumber: 7.9 Consensus size: 79
444671 AGATAAAGAT
* ** * * *
444681 GGGGTTGGAGTATCCTTTCAAAAATAACGAGGTTAAAGTATCCCCGATTGTGAAAAATCGGTGTT
1 GGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTT
* *
444746 CTGGAAATAAAATC
66 TTGGAAATAAAACC
* * * * *
444760 GGGGTTGGAGTATCCCCTT-GAAAATAA-TAGGGTTGGAGTATCCTCGATTATGGAAAATTGATA
1 GGGGTTGGAGTAT-CCCTTCAAAAATAACGA-GGTTGGAGTATCCTCGATTATGAAAAATTGGTG
* *
444823 TTTTAGAAATAAAATC
64 TTTTGGAAATAAAACC
* ** * ** * *
444839 GGGGTTAGAGTATCTCCTT-GGAAATAACGGGGTTGGAGTATCCTCGATGGTGAATAATTGATGT
1 GGGGTTGGAGTATC-CCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTGT
*
444903 TTTGGAAATAAAATC
65 TTTGGAAATAAAACC
* * * * * * *
444918 GGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATATT
1 GGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTT
*
444983 TTGAAAATAAAACC
66 TTGGAAATAAAACC
* *
444997 GGGGTTGGAGTATCTCC-TCAGAAAT-AC-AGGGTTGGAGTATCCTCAATTATGAAAAATTGGTG
1 GGGGTTGGAGTATC-CCTTCAAAAATAACGA-GGTTGGAGTATCCTCGATTATGAAAAATTGGTG
445059 TTTTGGAAATAAAACC
64 TTTTGGAAATAAAACC
** ** * * * *
445075 GAAGTTAAAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTAGTGTT
1 GGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTT
445140 TTGGAAATAAAACC
66 TTGGAAATAAAACC
* * * ** * * * *
445154 AGGGTTGGAGCAT-CTTATCGGAAATGACG-GGATTGAAGTATCCCCGATTGTGAAAAATTGGTG
1 GGGGTTGGAGTATCCCT-TCAAAAATAACGAGG-TTGGAGTATCCTCGATTATGAAAAATTGGTG
445217 TTTTGGAAATAAAACC
64 TTTTGGAAATAAAACC
** * * *
445233 AAGGTTGGAGCATCCCTTCGAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTT
1 GGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTT
445298 TTGGAA
66 TTGGAA
445304 GGTTAGAGTG
Statistics
Matches: 460, Mismatches: 70, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
77 2 0.00
78 70 0.15
79 377 0.82
80 11 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCTTCAAAAATAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTT
TTGGAAATAAAACC
Found at i:444951 original size:158 final size:158
Alignment explanation
Indices: 444636--445292 Score: 711
Period size: 158 Copynumber: 4.2 Consensus size: 158
444626 TACGCAGTTA
* * * * *
444636 GAGTATACTCG-TTGATGAAAAATTTAATATTTTGGAGATAAAGA-TGGGGTTGGAGTATC-CTT
1 GAGTATCCTCGATT-ATGAAAAA-TTGATATTTT-GAAATAAA-ACCGGGGTTGGAGTATCTC-C
** * * * * * *
444698 TCAAAAATAACGAGGTTAAAGTATCCCCGATTGTGAAAAATCGGTGTTCTGGAAATAAAATCGGG
61 TCGGAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGAG
* **
444763 GTTGGAGTATCCCCT-TGAAAATAATAGGGTTG
126 GTTGGAGTATCCCCTCAGAAAATAACGGGGTTG
* * * *
444795 GAGTATCCTCGATTATGGAAAATTGATATTTTAGAAATAAAATCGGGGTTAGAGTATCTCCTTGG
1 GAGTATCCTCGATTATGAAAAATTGATATTTT-GAAATAAAACCGGGGTTGGAGTATCTCCTCGG
* * * * * * *
444860 AAATAACGGGGTTGGAGTATCCTCGATGGTGAATAATTGATGTTTTGGAAATAAAATCGGGGTTG
65 AAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTTG
*
444925 GAGTATCCCCTCAG-AAATAATGGGGTTG
130 GAGTATCCCCTCAGAAAATAACGGGGTTG
* *
444953 GAGTATCCTCGATTGTGAAAAATTGATATTTTGAAAATAAAACCGGGGTTGGAGTATCTCCTCAG
1 GAGTATCCTCGATTATGAAAAATTGATATTTTG-AAATAAAACCGGGGTTGGAGTATCTCCTCGG
* * * * * * *
445018 AAAT-ACAGGGTTGGAGTATCCTCAATTATGAAAAATTGGTGTTTTGGAAATAAAACCGAAGTTA
65 AAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTTG
* * *
445082 AAGTATCCCCTCA-AAAATAACGAGGTTA
130 GAGTATCCCCTCAGAAAATAACGGGGTTG
* * * * **
445110 GAGTATCCCCGATTATGAAAAATT-AGTGTTTTGGAAATAAAACCAGGGTTGGAGCATCTTATCG
1 GAGTATCCTCGATTATGAAAAATTGA-TATTTT-GAAATAAAACCGGGGTTGGAGTATCTCCTCG
* * *
445174 GAAATGACGGGATTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCAAGGTT
64 GAAATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTT
* *
445239 GGAGCATCCCTTC-GAAAATAACGGGGTTG
129 GGAGTATCCCCTCAGAAAATAACGGGGTTG
445268 GAGTATCCTCGATTATGAAAAATTG
1 GAGTATCCTCGATTATGAAAAATTG
445293 GTGTTTTGGA
Statistics
Matches: 422, Mismatches: 65, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
156 1 0.00
157 132 0.31
158 268 0.64
159 19 0.05
160 2 0.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (158 bp):
GAGTATCCTCGATTATGAAAAATTGATATTTTGAAATAAAACCGGGGTTGGAGTATCTCCTCGGA
AATAACGGGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAACCGAGGTTGG
AGTATCCCCTCAGAAAATAACGGGGTTG
Found at i:445289 original size:315 final size:315
Alignment explanation
Indices: 444717--445292 Score: 753
Period size: 315 Copynumber: 1.8 Consensus size: 315
444707 ACGAGGTTAA
* * * ** ** **
444717 AGTATCCCCGATTGTGAAAAATCGGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGAA
1 AGTATCCCCAATTATGAAAAATCGGTGTTCTGGAAATAAAACCGAAGTTAAAGTATCCCCTCAAA
* * * * * *
444782 AATAATAGGGTTGGAGTATCCTCGATTATGGAAAATTGATATTTTAGAAATAAAATCGGGGTTAG
66 AATAAGAGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCAGGGTTAG
* * * * * * *
444847 AGTATCTCCTTGGAAATAACGGGGTTGGAGTATCCTCGATGGTGAATAATTGATGTTTTGGAAAT
131 AGCATCTCATCGGAAATAACGGGATTGAAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAAT
* ** * * *
444912 AAAATCGGGGTTGGAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATT
196 AAAACCAAGGTTGGAGCATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATT
444977 GATATTTTGAAAATAAAACCGGGGTTGGAGTATCTCCTCAGAAATACAGGGTTGG
261 GATATTTTGAAAATAAAACCGGGGTTGGAGTATCTCCTCAGAAATACAGGGTTGG
* * *
445032 AGTATCCTCAATTATGAAAAATTGGTGTTTTGGAAATAAAACCGAAGTTAAAGTATCCCCTCAAA
1 AGTATCCCCAATTATGAAAAATCGGTGTTCTGGAAATAAAACCGAAGTTAAAGTATCCCCTCAAA
* *
445097 AATAACGA-GGTTAGAGTATCCCCGATTATGAAAAATT-AGTGTTTTGGAAATAAAACCAGGGTT
66 AATAA-GAGGGTTAGAGTATCCCCGATTATGAAAAATTGA-TATTTTAGAAATAAAACCAGGGTT
* * * * *
445160 GGAGCATCTTATCGGAAATGACGGGATTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAA
129 AGAGCATCTCATCGGAAATAACGGGATTGAAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAA
*
445225 ATAAAACCAAGGTTGGAGCATCCCTTC-GAAAATAACGGGGTTGGAGTATCCTCGATTATGAAAA
194 ATAAAACCAAGGTTGGAGCATCCCCTCAG-AAATAACGGGGTTGGAGTATCCTCGATTATGAAAA
445289 ATTG
258 ATTG
445293 GTGTTTTGGA
Statistics
Matches: 219, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
314 2 0.01
315 216 0.99
316 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (315 bp):
AGTATCCCCAATTATGAAAAATCGGTGTTCTGGAAATAAAACCGAAGTTAAAGTATCCCCTCAAA
AATAAGAGGGTTAGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACCAGGGTTAG
AGCATCTCATCGGAAATAACGGGATTGAAGTATCCCCGATGGTGAAAAATTGATGTTTTGGAAAT
AAAACCAAGGTTGGAGCATCCCCTCAGAAATAACGGGGTTGGAGTATCCTCGATTATGAAAAATT
GATATTTTGAAAATAAAACCGGGGTTGGAGTATCTCCTCAGAAATACAGGGTTGG
Found at i:448442 original size:35 final size:35
Alignment explanation
Indices: 448321--448455 Score: 112
Period size: 35 Copynumber: 3.7 Consensus size: 35
448311 AAAGATGTCT
* * * *
448321 TGCTCTTTGAGGACAAATG-AAAAGGAGCACATCC
1 TGCTCTTCGAGGACAAAGGAAAAAAGAGTACATCC
* *** *
448355 TGCTCTTCGAGGACAAAGGAAACGAGAATGAAATGGGTCT
1 TGCTCTTCGAGGACAAAGGAAA--A-AA-G-AGTACATCC
*
448395 TGCTCCTT-GAGGACAAAAGAAAAAAGAGTACATCC
1 TGCT-CTTCGAGGACAAAGGAAAAAAGAGTACATCC
448430 TGCTCTTCGAGGACAAAGGAAAAAAG
1 TGCTCTTCGAGGACAAAGGAAAAAAG
448456 GAAACAAAAT
Statistics
Matches: 77, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
34 20 0.26
35 27 0.35
36 1 0.01
37 3 0.04
38 2 0.03
39 1 0.01
40 20 0.26
41 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (35 bp):
TGCTCTTCGAGGACAAAGGAAAAAAGAGTACATCC
Found at i:448448 original size:75 final size:77
Alignment explanation
Indices: 448317--448496 Score: 240
Period size: 75 Copynumber: 2.4 Consensus size: 77
448307 AAAGAAAGAT
* * **
448317 GTCTTGCTCTTTGAGGACAAATG-AAAAGGAGCACATCCTGCTCTTCGAGGACAAAGGAAACGA-
1 GTCTTGCTCTTTGAGGACAAAAGAAAAAAGAGCACATCCTGCTCTTCGAGGACAAAGGAAAAAAG
** *
448380 G-AATGAAATGG
66 GAAACAAAATGC
* *
448391 GTCTTGCTCCTTGAGGACAAAAGAAAAAAGAGTACATCCTGCTCTTCGAGGACAAAGGAAAAAAG
1 GTCTTGCTCTTTGAGGACAAAAGAAAAAAGAGCACATCCTGCTCTTCGAGGACAAAGGAAAAAAG
448456 GAAACAAAATGC
66 GAAACAAAATGC
**
448468 GTCCGGCTCTTTGAGGACAAAAGAAAAAA
1 GTCTTGCTCTTTGAGGACAAAAGAAAAAA
448497 AGGAAATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
74 21 0.23
75 36 0.40
76 1 0.01
77 33 0.36
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (77 bp):
GTCTTGCTCTTTGAGGACAAAAGAAAAAAGAGCACATCCTGCTCTTCGAGGACAAAGGAAAAAAG
GAAACAAAATGC
Done.