Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold118
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: 1286304
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 3 of 8
Found at i:347699 original size:127 final size:127
Alignment explanation
Indices: 347473--347850 Score: 371
Period size: 127 Copynumber: 2.9 Consensus size: 127
347463 AACGATGATG
* * **
347473 AAAAGAGTTTGACTAGATACAGCAAAACGATGATGAAAAGAGTTTGACTAGATGTAGCCAAACGA
1 AAAAGAGTTTGACCAAATACAGCAAAACGATGATGAAAAGAGTTTGACTAGATAAAGCCAAACGA
* * *
347538 TGATGAAAAGGGTTTGACGAGATGCAGCCAAACGATGATGAAAAGAAAGCAACATGATGTCA
66 TGATAAAAAGAGTTTGACCAGATGCAGCCAAACGATGATGAAAAGAAAGCAACATGATGTCA
* * *
347600 AAAAGAGTTTGGCCAAATACAGCCAAACGATGATGAAAAGAGTTTGAAC-AGATAAAGCCAAATG
1 AAAAGAGTTTGACCAAATACAGCAAAACGATGATGAAAAGAGTTTG-ACTAGATAAAGCCAAACG
* * * * *
347664 ATGTTAAAAAGAGTTTGACCAGATGCAGCCAAACGATGGTGAAAAGAGTTTGACCAAATATAGCC
65 ATGATAAAAAGAGTTTGACCAGATGCAGCCAAACGATGATGAAAAGA----AAGC-AACAT-G--
* *
347729 AAACGATGA
122 --ATG-TCA
** ** * * **
347738 TGAAAAGAGTTTGACCAAATGTAGGTAAACGATAATAAAAAGAGTTTGACTAGATGCAGCCAAAC
1 --AAAAGAGTTTGACCAAATACAGCAAAACGATGATGAAAAGAGTTTGACTAGATAAAGCCAAAC
* * *
347803 GATGATGAAAAGAGTTTGAACAAATGCAGCCAAACGATGATGAAAAGA
64 GATGATAAAAAGAGTTTGACCAGATGCAGCCAAACGATGATGAAAAGA
347851 GTTTGAACAA
Statistics
Matches: 204, Mismatches: 32, Indels: 17
0.81 0.13 0.07
Matches are distributed among these distances:
127 96 0.47
128 2 0.01
131 2 0.01
132 4 0.02
133 1 0.00
137 2 0.01
138 2 0.01
139 2 0.01
140 93 0.46
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (127 bp):
AAAAGAGTTTGACCAAATACAGCAAAACGATGATGAAAAGAGTTTGACTAGATAAAGCCAAACGA
TGATAAAAAGAGTTTGACCAGATGCAGCCAAACGATGATGAAAAGAAAGCAACATGATGTCA
Found at i:347770 original size:197 final size:197
Alignment explanation
Indices: 347418--347780 Score: 498
Period size: 197 Copynumber: 1.8 Consensus size: 197
347408 GGCGATAACC
* * *
347418 AATACAGTCAAACGAGAATGAAAAAGGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTT
1 AATACAGCCAAACGAGAATGAAAAAGGTTTGAACAGATACAACCAAACGATGATAAAAAGAGTTT
* * * *
347483 GACTAGATACAGCAAAACGATGATGAAAAGAGTTTGACTAGATGTAGCCAAACGATGATGAAAAG
66 GACCAGATACAGCAAAACGATGATGAAAAGAGTTTGACCAAATATAGCCAAACGATGATGAAAAG
* * * * *
347548 GGTTTGACGAGATGCAGCCAAACGATGATGAAAAGAAAGCAACATGATGTCAAAAAGAGTTTGGC
131 AGTTTGACCAAATGCAGCCAAACGATAATAAAAAGAAAGCAACATGATGTCAAAAAGAGTTTGGC
347613 CA
196 CA
* *
347615 AATACAGCCAAACGATG-ATG-AAAAGAGTTTGAACAGATA-AAGCCAAATGATGTTAAAAAGAG
1 AATACAGCCAAACGA-GAATGAAAAAG-GTTTGAACAGATACAA-CCAAACGATGATAAAAAGAG
* * *
347677 TTTGACCAGATGCAGCCAAACGATGGTGAAAAGAGTTTGACCAAATATAGCCAAACGATGATGAA
63 TTTGACCAGATACAGCAAAACGATGATGAAAAGAGTTTGACCAAATATAGCCAAACGATGATGAA
* **
347742 AAGAGTTTGACCAAATGTAGGTAAACGATAATAAAAAGA
128 AAGAGTTTGACCAAATGCAGCCAAACGATAATAAAAAGA
347781 GTTTGACTAG
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
196 7 0.05
197 135 0.94
198 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (197 bp):
AATACAGCCAAACGAGAATGAAAAAGGTTTGAACAGATACAACCAAACGATGATAAAAAGAGTTT
GACCAGATACAGCAAAACGATGATGAAAAGAGTTTGACCAAATATAGCCAAACGATGATGAAAAG
AGTTTGACCAAATGCAGCCAAACGATAATAAAAAGAAAGCAACATGATGTCAAAAAGAGTTTGGC
CA
Found at i:347904 original size:35 final size:35
Alignment explanation
Indices: 347600--347897 Score: 373
Period size: 35 Copynumber: 8.5 Consensus size: 35
347590 CATGATGTCA
** *
347600 AAAAGAGTTTGGCCAAATACAGCCAAACGATGATG
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
* ** * * *
347635 AAAAGAGTTTGAACAGATAAAGCCAAATGATGTTA
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
* * *
347670 AAAAGAGTTTGACCAGATGCAGCCAAACGATGGTG
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
* **
347705 AAAAGAGTTTGACCAAATATAGCCAAACGATGATG
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
* * ** * *
347740 AAAAGAGTTTGACCAAATGTAGGTAAACGATAATA
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
*
347775 AAAAGAGTTTG-ACTAGATGCAGCCAAACGATGATG
1 AAAAGAGTTTGAAC-AAATGCAGCCAAACGATGATG
347810 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
347845 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
1 AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
*
347880 AAAATAGTTTGAACAAAT
1 AAAAGAGTTTGAACAAAT
347898 ATAGCCATAA
Statistics
Matches: 230, Mismatches: 31, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
34 1 0.00
35 227 0.99
36 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (35 bp):
AAAAGAGTTTGAACAAATGCAGCCAAACGATGATG
Found at i:349351 original size:1 final size:1
Alignment explanation
Indices: 349347--349410 Score: 65
Period size: 1 Copynumber: 64.0 Consensus size: 1
349337 TTTGTCCAAA
* * ** * * *
349347 TTTTTATTTTTTTCTTTTTCGTTTTTTTGTTTTTTTTTGTTTTTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
349411 GGATAAACCA
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.02, C:0.03, G:0.06, T:0.89
Consensus pattern (1 bp):
T
Found at i:349379 original size:22 final size:21
Alignment explanation
Indices: 349354--349408 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
349344 AAATTTTTAT
349354 TTTTTTCTTTTTCGTTTTTTTG
1 TTTTTT-TTTTTCGTTTTTTTG
**
349376 TTTTTTTTTGTTTTTTTTTTTG
1 TTTTTTTTT-TTCGTTTTTTTG
349398 TTTTTTTTTTT
1 TTTTTTTTTTT
349409 TTGGATAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (21 bp):
TTTTTTTTTTTCGTTTTTTTG
Found at i:354988 original size:181 final size:179
Alignment explanation
Indices: 354602--355075 Score: 533
Period size: 181 Copynumber: 2.6 Consensus size: 179
354592 GGTGGAGAGA
* * *
354602 AAGGG-ATATGATTGGGAATGAGTGG-TCGAGATATCCTTGCCCGAAGGATATCAAGCTTTGTGA
1 AAGGGAATATGATTGGGAATGAGTGGTTC-AGATATCTTTGCCCCAAGGATATTAAGCTTTGTGA
** * ** * * *
354665 TGCATCAATATTATTTAGTGGTTAGGCAAAGGGAATACGATTGGGAATGTGTGGGCTGCACCCTT
65 TGCATC---ACCATCTAGTGGTTAGGTGAAGGGAATATGATTGGGAATATGTGGGCAGCACCCTT
* * *
354730 GCCTTAAGGAAATTAGGCTTTGTGACGCATCAATACCATCTATTAGTTAGGTG
127 GCCTCAAGGAAATCAGGCTTTGTGACGCATCAATACCATCTAGTAGTTAGGTG
* *
354783 AAGGGAATATGATTAGGAATGAGTGGTTCAGATATCTTTTCCCCAAGGATATTAAGCTTTGTGAT
1 AAGGGAATATGATTGGGAATGAGTGGTTCAGATATCTTTGCCCCAAGGATATTAAGCTTTGTGAT
* * *
354848 GCATCACCATCTAGTGGTTAGGTGAAGGGAATATGATTAGGAATATGTAGGAG-AGATATCCTTG
66 GCATCACCATCTAGTGGTTAGGTGAAGGGAATATGATTGGGAATATGT-GG-GCAG-CACCCTTG
* * * * * *
354912 -CTCCAAGGACATCAGGTTTTGTGATGCATCAATACTATCTAGTGGTTGGGTG
128 CCT-CAAGGAAATCAGGCTTTGTGACGCATCAATACCATCTAGTAGTTAGGTG
** * * *
354964 AAGGGAATATGATTGGGAATGAGTGGTTGGGATATCTTGGCCCTAAGGATATTAGGCTTTGTGAT
1 AAGGGAATATGATTGGGAATGAGTGGTTCAGATATCTTTGCCCCAAGGATATTAAGCTTTGTGAT
* *
355029 GCATTAATACCATCTAGTGGTTGGGTGAAGGGAATATGATTGGGAAT
66 GCA-T--CACCATCTAGTGGTTAGGTGAAGGGAATATGATTGGGAAT
355076 GAGTGGTCAG
Statistics
Matches: 249, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
179 35 0.14
180 5 0.02
181 113 0.45
182 57 0.23
183 2 0.01
184 37 0.15
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (179 bp):
AAGGGAATATGATTGGGAATGAGTGGTTCAGATATCTTTGCCCCAAGGATATTAAGCTTTGTGAT
GCATCACCATCTAGTGGTTAGGTGAAGGGAATATGATTGGGAATATGTGGGCAGCACCCTTGCCT
CAAGGAAATCAGGCTTTGTGACGCATCAATACCATCTAGTAGTTAGGTG
Found at i:355099 original size:92 final size:92
Alignment explanation
Indices: 354602--355102 Score: 542
Period size: 92 Copynumber: 5.5 Consensus size: 92
354592 GGTGGAGAGA
* * *
354602 AAGGG-ATATGATTGGGAATGAGTGGTC-GAGATATCCTTGCCCGAAGGATATCAAGCTTTGTGA
1 AAGGGAATATGATTGGGAATGAGTGGTCAG-GATATCCTTGCCCTAAGGATATTAGGCTTTGTGA
** * **
354665 TGCATCAATATTATTTAGTGGTTAGGCA
65 TGCATCAATACCATCTAGTGGTTAGGTG
* * * * * * * * *
354693 AAGGGAATACGATTGGGAATGTGTGGGC-TG-CACCCTTGCCTTAAGGAAATTAGGCTTTGTGAC
1 AAGGGAATATGATTGGGAATGAGTGGTCAGGATATCCTTGCCCTAAGGATATTAGGCTTTGTGAT
* *
354756 GCATCAATACCATCTATTAGTTAGGTG
66 GCATCAATACCATCTAGTGGTTAGGTG
* * * * *
354783 AAGGGAATATGATTAGGAATGAGTGGTTCA-GATATCTTTTCCCCAAGGATATTAAGCTTTGTGA
1 AAGGGAATATGATTGGGAATGAGTGG-TCAGGATATCCTTGCCCTAAGGATATTAGGCTTTGTGA
354847 TGCATC---ACCATCTAGTGGTTAGGTG
65 TGCATCAATACCATCTAGTGGTTAGGTG
* * * *
354872 AAGGGAATATGATTAGGAAT-ATGTAGG--AGAGATATCCTTGCTCC-AAGGACATCAGGTTTTG
1 AAGGGAATATGATTGGGAATGA-GT-GGTCAG-GATATCCTTGC-CCTAAGGATATTAGGCTTTG
* *
354933 TGATGCATCAATACTATCTAGTGGTTGGGTG
62 TGATGCATCAATACCATCTAGTGGTTAGGTG
**
354964 AAGGGAATATGATTGGGAATGAGTGGTTGGGATAT-CTTGGCCCTAAGGATATTAGGCTTTGTGA
1 AAGGGAATATGATTGGGAATGAGTGGTCAGGATATCCTT-GCCCTAAGGATATTAGGCTTTGTGA
* *
355028 TGCATTAATACCATCTAGTGGTTGGGTG
65 TGCATCAATACCATCTAGTGGTTAGGTG
355056 AAGGGAATATGATTGGGAATGAGTGGTCAGGATATCCTTGCCCTAAG
1 AAGGGAATATGATTGGGAATGAGTGGTCAGGATATCCTTGCCCTAAG
355103 TGTCACAACG
Statistics
Matches: 341, Mismatches: 51, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
87 1 0.00
88 1 0.00
89 70 0.21
90 72 0.21
91 15 0.04
92 177 0.52
93 5 0.01
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (92 bp):
AAGGGAATATGATTGGGAATGAGTGGTCAGGATATCCTTGCCCTAAGGATATTAGGCTTTGTGAT
GCATCAATACCATCTAGTGGTTAGGTG
Found at i:356781 original size:35 final size:33
Alignment explanation
Indices: 356689--356786 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 33
356679 ACCTTACAAT
356689 CCTATCTTTTATAGGCTAAGATAGAACCTTCTC
1 CCTATCTTTTATAGGCTAAGATAGAACCTTCTC
*
356722 CCTATATTTTTATAGGCTAAGATAGAACCTAT-TC
1 CCTAT-CTTTTATAGGCTAAGATAGAACCT-TCTC
*
356756 CCTATCTTTTCCAAAGGCTAAGATAGAACCT
1 CCTATCTTTT--ATAGGCTAAGATAGAACCT
356787 CTCAATCACT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
33 9 0.16
34 30 0.52
35 19 0.33
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (33 bp):
CCTATCTTTTATAGGCTAAGATAGAACCTTCTC
Found at i:357263 original size:21 final size:20
Alignment explanation
Indices: 357212--357267 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
357202 ATTGGGCCAA
*
357212 ATGTATCGATACAA-TTCAT
1 ATGTATCGATACAATTTAAT
*
357231 AGTGTATTGATACAATTTAAT
1 A-TGTATCGATACAATTTAAT
357252 CATGTATCGATACAAT
1 -ATGTATCGATACAAT
357268 GGATCGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 12 0.39
21 17 0.55
22 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTTAAT
Found at i:369066 original size:12 final size:12
Alignment explanation
Indices: 369045--369076 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
369035 ATTAGCATAC
*
369045 GACTACTCCTAT
1 GACTAATCCTAT
369057 GACTAATCCTAT
1 GACTAATCCTAT
369069 GACTAATC
1 GACTAATC
369077 GCCACTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (12 bp):
GACTAATCCTAT
Found at i:376833 original size:19 final size:20
Alignment explanation
Indices: 376787--376834 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
376777 CTACCAGTTT
*
376787 CATGTATCGATACTATTCAA
1 CATGTATCGATACTATTAAA
**
376807 GGTGTATCGATACTA-TAAA
1 CATGTATCGATACTATTAAA
376826 CATGTATCG
1 CATGTATCG
376835 CTACAATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACTATTAAA
Found at i:379421 original size:13 final size:13
Alignment explanation
Indices: 379403--379427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
379393 TTCAACGATT
379403 TGTATCGATACAA
1 TGTATCGATACAA
379416 TGTATCGATACA
1 TGTATCGATACA
379428 TAAGTGTTGT
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:379440 original size:19 final size:19
Alignment explanation
Indices: 379416--379477 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
379406 ATCGATACAA
379416 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
379435 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
379454 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
379473 TGTAT
1 TGTAT
379478 ATACAATGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:379553 original size:13 final size:13
Alignment explanation
Indices: 379535--379559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
379525 ATTACTCAAA
379535 TGTATCGATACAT
1 TGTATCGATACAT
379548 TGTATCGATACA
1 TGTATCGATACA
379560 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:386385 original size:57 final size:57
Alignment explanation
Indices: 386295--386600 Score: 388
Period size: 57 Copynumber: 5.4 Consensus size: 57
386285 TCACCTTTTC
*
386295 AAAGCCCACAAGTCAGTGGCAT-TTTTCCTAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC-AAAGCCCACAAGTCAGTGGCATCCTTCA
*
386352 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTCA
* * * *
386409 AAAGCCCACAAGTCAGTGGCATATTTTCCAAAGCCCAAAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATC-CTTCA
* * * * * * *
386467 AAAGTCCACAAGTTAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATC-CTTCA
* * *
386524 AAAGCCCACAAGTCAGTGGCAATC--TTCAAAAGCGCACAAGTCAGTGGTATCCTTTC-
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTCCAAAGCCCACAAGTCAGTGGCATCC-TTCA
386580 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
386601 ACCTTCAAAA
Statistics
Matches: 226, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
55 1 0.00
56 22 0.10
57 170 0.75
58 33 0.15
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (57 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCCTTCA
Found at i:386399 original size:86 final size:85
Alignment explanation
Indices: 386289--386620 Score: 413
Period size: 86 Copynumber: 3.9 Consensus size: 85
386279 CATTCCTCAC
* *
386289 CTTTT-CAAAGCCCACAAGTCAGTGGCATTTTTCCTAAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAA
386353 AAGCCCACAAGTCAGTGGCAT
65 AAGCCCACAAGTCAGTGGCAT
* * ** *
386374 CTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATATTTTCCA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTCAA
*
386439 AAGCCCAAAAGTCAGTGGCAT
65 AAGCCCACAAGTCAGTGGCAT
* * * * * *
386460 CTTTTCCAAAGTCCACAAGTTAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 CTTTTCCAAAGCCCACAAGTCAGTGGC-ATCTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCA
386524 AAAGCCCACAAGTCAGTGGCAAT
64 AAAGCCCACAAGTCAGTGGC-AT
* * *
386547 C--TTCAAAAGCGCACAAGTCAGTGGTATCCTTTC-AAAGCCCACAAGTCAGTGGCAACCTTCAA
1 CTTTTCCAAAGCCCACAAGTCAGTGGCAT-CTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAA
*
386609 AAGCACACAAGT
65 AAGCCCACAAGT
386621 TGATGCAACC
Statistics
Matches: 215, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
84 16 0.07
85 72 0.33
86 120 0.56
87 7 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (85 bp):
CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAA
AGCCCACAAGTCAGTGGCAT
Found at i:386552 original size:143 final size:141
Alignment explanation
Indices: 386290--386646 Score: 515
Period size: 143 Copynumber: 2.5 Consensus size: 141
386280 ATTCCTCACC
* *
386290 TTTTCAAAGCCCACAAGTCAGTGGCAT-TTTTCCTAAAGCCCACAAGTCAGTGGCAACCTTCAAA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCC-AAAG-CCACAAGTTAGTGGCAACCTTTAAA
386354 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
64 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
386419 AGTCAGTGGCATA
129 AGTCAGTGGCATA
*
386432 TTTTCCAAAGCCCAAAAGTCAGTGGCATCTTTTCCAAAGTCCACAAGTTAGTGGCAACCTTTAAA
1 TTTT-CAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAG-CCACAAGTTAGTGGCAACCTTTAAA
* *
386497 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAATCTTCAAAAGCGCACA
64 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACA
* *
386562 AGTCAGTGGTATC
129 AGTCAGTGGCATA
* * * *
386575 CTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCACACAAGTT-GAT-GCAACCCTTTCA
1 TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGC-CACAAGTTAG-TGGCAA-CCTTT-A
386637 AAAGCCCACA
62 AAAGCCCACA
386647 CAAGTTGGTG
Statistics
Matches: 196, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
140 6 0.03
141 21 0.11
142 37 0.19
143 126 0.64
144 6 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (141 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCACAAGTTAGTGGCAACCTTTAAAAG
CCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAG
TCAGTGGCATA
Found at i:386792 original size:93 final size:92
Alignment explanation
Indices: 386668--387207 Score: 648
Period size: 93 Copynumber: 5.9 Consensus size: 92
386658 CGTCTTCTTC
*
386668 TAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
1 TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
* *
386733 TGGCCTTGAATTAGCATACTGACACTTT
66 TGGCCTTGAATCAGCATATTGACAC-TT
* *
386761 TAAGTCCGATATCGCTGGCCTTGGACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATTGC
1 TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
386826 TGGCCTTGAATCAGCATATTGACACCTT
66 TGGCCTTGAATCAGCATATTGACA-CTT
* *
386854 TAAGTCCGATATCGCTGGCCTTAAACCAGCATATTGGCACCTTTATCTTTAAAACCTAATATCGC
1 TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
386919 TGGCCTTGAATCAGCATATTGACACCTT
66 TGGCCTTGAATCAGCATATTGACA-CTT
* * * ** ** **
386947 TAAGTCTGATATCGTTGTCCTTGAATGAGCATATTGGCACCGGTATCTTT-AAGTCCAATATCGC
1 TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
* * *
387011 TAGCCTTGAATCAGCACATTGGCAC--
66 TGGCCTTGAATCAGCATATTGACACTT
* * *** * * *
387036 -AAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATCTTTAAGA-CCAATGTTGC
1 TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
* *
387099 TGGCCTTGAATCAGCACATTGGCA---
66 TGGCCTTGAATCAGCATATTGACACTT
* * * * * * * **
387123 TAAGCCCAATGTCGCTGGTCTTGAATCAGCACATTGGCACCTTCATCTTT-AAGTCCAATATCGC
1 TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
387187 TGGCCTTGAATCAGCATATTG
66 TGGCCTTGAATCAGCATATTG
387208 GCACCTTTGT
Statistics
Matches: 398, Mismatches: 45, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
87 1 0.00
88 145 0.36
89 1 0.00
91 1 0.00
92 32 0.08
93 217 0.55
94 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
TAAGTCCGATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
TGGCCTTGAATCAGCATATTGACACTT
Found at i:387018 original size:49 final size:47
Alignment explanation
Indices: 386663--387311 Score: 481
Period size: 49 Copynumber: 13.9 Consensus size: 47
386653 GGTGGCGTCT
*
386663 TCTTCTAAGTCCAATATCGCTGGCCTTGAACCAGCATATTGGCACCTTTA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TA
** * * *
386713 TCTTTAAAACCCAATATCGCTGGCCTTGAATTAGCATACTGACA-C--
1 TCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTA
* * *
386758 T-TTTAAGTCCGATATCGCTGGCCTTGGACCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TA
** *
386806 TCTTTAAAACCCAATATTGCTGGCCTTGAATCAGCATATT-G-A-C-A
1 TCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTA
* * * *
386850 CCTTTAAGTCCGATATCGCTGGCCTTAAACCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TA
**
386899 TCTTTAAAACCTAATATCGCTGGCCTTGAATCAGCATATT-G-A-C-A
1 TCTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCACCTA
* ** * * *
386943 CCTTTAAGTCTGATATCGTTGTCCTTGAATGAGCATATTGGCACCGGTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TA
* *
386992 TCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGG---C-A
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTA
* * *
387035 -C---AAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TA
* * * *
387080 TCTTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGG---C-A
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTA
* * * *
387123 ----TAAGCCCAATGTCGCTGGTCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-A
387168 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC----T-A
* * * *
387220 TCTTTTAAGTCCAGTGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCA
1 TC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T-A
* * * *
387270 TCTTTAAGTCTAATATCACTGGTCTGGAATCAGCATATTGGC
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
387312 GCTTTTGTCA
Statistics
Matches: 474, Mismatches: 80, Indels: 91
0.73 0.12 0.14
Matches are distributed among these distances:
39 66 0.14
42 3 0.01
43 84 0.18
44 19 0.04
45 5 0.01
46 5 0.01
47 2 0.00
48 3 0.01
49 149 0.31
50 94 0.20
52 5 0.01
53 39 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (47 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTA
Found at i:387056 original size:39 final size:39
Alignment explanation
Indices: 386997--387162 Score: 125
Period size: 39 Copynumber: 4.0 Consensus size: 39
386987 CGGTATCTTT
386997 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC
* * * *
387036 AAGTCCGATATCGTTGGCCTTGAATCAGCATATTGGCACCGGCATC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATT------GGCA-C
* * * * *
387082 TTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAT
1 ---AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC
* * * *
387124 AAGCCCAATGTCGCTGGTCTTGAATCAGCACATTGGCAC
1 AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC
387163 CTTCATCTTT
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
39 65 0.64
43 4 0.04
45 4 0.04
46 1 0.01
49 28 0.27
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCAC
Found at i:387248 original size:53 final size:49
Alignment explanation
Indices: 387123--387389 Score: 243
Period size: 49 Copynumber: 5.3 Consensus size: 49
387113 CACATTGGCA
* *
387123 TAAGCCCAATGTCGCTGGTCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
387172 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC-TT
* *
387225 TAAGTCCAGTGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * * * * *
387274 TAAGTCTAATATCACTGGTCTGGAATCAGCATATTGGCGCTTTTGTCATGTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC--CT-TCATCTT
** * *
387326 TAAAACCCAATGTCGCTGGCCTTGTCA-CAGCACATTGGCA--TTCTTCTT
1 T-AAGTCCAATGTCGCTGGCCTTG-AATCAGCACATTGGCACCTTCATCTT
* *
387374 CAAGTCTAATGTCGCT
1 TAAGTCCAATGTCGCT
387390 AACCGTGAAT
Statistics
Matches: 174, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
47 12 0.07
48 5 0.03
49 71 0.41
50 5 0.03
51 3 0.02
52 12 0.07
53 65 0.37
54 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (49 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:387308 original size:102 final size:102
Alignment explanation
Indices: 387123--387383 Score: 348
Period size: 102 Copynumber: 2.6 Consensus size: 102
387113 CACATTGGCA
* * *
387123 TAAGCCCAATGTCGCTGGTCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACT
*
387188 GGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
66 GGCCTGGAATCAGCATATTGGCACCTTTGTCATCTTT
* * *
387225 TAAGTCCAGTGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACT
1 TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACT
* * * *
387290 GGTCTGGAATCAGCATATTGGCGCTTTTGTCATGTTT
66 GGCCTGGAATCAGCATATTGGCACCTTTGTCATCTTT
* * * * *
387327 AAAACCCAATGTCGCTGGCCTTGTCA-CAGCACATTGGCA--TTCTTCTTCAAGTCTAAT
1 TAAGCCCAATGTCGCTGGCCTTG-AATCAGCACATTGGCACCTTCATCTTTAAGTCTAAT
387384 GTCGCTAACC
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
100 16 0.12
102 122 0.88
103 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (102 bp):
TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATCACT
GGCCTGGAATCAGCATATTGGCACCTTTGTCATCTTT
Found at i:388079 original size:13 final size:13
Alignment explanation
Indices: 388061--388117 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
388051 TTCAACGATT
388061 TGTATCGATACAA
1 TGTATCGATACAA
388074 TGTATCGATACATAA
1 TGTATCGATAC--AA
388089 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
388106 TGTATCGATACA
1 TGTATCGATACA
388118 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:388098 original size:19 final size:19
Alignment explanation
Indices: 388074--388136 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
388064 ATCGATACAA
388074 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
388093 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTTT
388106 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTTT
388125 TGTATCGATACA
1 TGTATCGATACA
388137 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTTT
Found at i:388100 original size:32 final size:32
Alignment explanation
Indices: 388059--388144 Score: 172
Period size: 32 Copynumber: 2.7 Consensus size: 32
388049 ATTTCAACGA
388059 TTTGTATCGATACAATGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
388091 TTTGTATCGATACAATGTATCGATACATAAGT
1 TTTGTATCGATACAATGTATCGATACATAAGT
388123 TTTGTATCGATACAATGTATCG
1 TTTGTATCGATACAATGTATCG
388145 CTACGAAGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (32 bp):
TTTGTATCGATACAATGTATCGATACATAAGT
Found at i:388207 original size:13 final size:13
Alignment explanation
Indices: 388189--388213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
388179 ATTACTCAAA
388189 TGTATCGATACAT
1 TGTATCGATACAT
388202 TGTATCGATACA
1 TGTATCGATACA
388214 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:391677 original size:31 final size:31
Alignment explanation
Indices: 391642--391751 Score: 73
Period size: 31 Copynumber: 3.5 Consensus size: 31
391632 GTGCCATCTG
391642 CTTGTCTAGGCTTTGACTTAGGTGCCGCCAA
1 CTTGTCTAGGCTTTGACTTAGGTGCCGCCAA
* * * * *
391673 CTTGTGC-GGGCTTAGACTT-GCGTGTCGTCAG
1 CTTGT-CTAGGCTTTGACTTAG-GTGCCGCCAA
* * *
391704 CTTGTGTTGGCTTTGAC-TAGGGTGCCACCAA
1 CTTGTCTAGGCTTTGACTTA-GGTGCCGCCAA
** *
391735 CTCATGTAGGCTTTGAC
1 CTTGTCTAGGCTTTGAC
391752 ATTCTTAGGC
Statistics
Matches: 59, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
30 2 0.03
31 55 0.93
32 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.33
Consensus pattern (31 bp):
CTTGTCTAGGCTTTGACTTAGGTGCCGCCAA
Found at i:391796 original size:180 final size:180
Alignment explanation
Indices: 391563--391901 Score: 462
Period size: 180 Copynumber: 1.9 Consensus size: 180
391553 AGTTTGTGTG
391563 GGCTTTAAAATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAAC
1 GGCTTTAAAATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAAC
* * * *
391628 TTAGGTGCCATCTGCTTGTCTAGGCTTTGACTTAGGTGCCGCCAACTTGTGCGGGCTTAGACTTG
66 TTAGGTGCCAACAGCTTGTATAGGCTTTGACTTAGGTGACGCCAACTTGTGCGGGCTTAGACTTG
* * *
391693 CGTGTCGTCAGCTTGTGTTGGCTTTGACTAGGGTGCCACCAACTCATGTA
131 CGTGCCGTCAGCTTGTGTGGGCTTAGACTAGGGTGCCACCAACTCATGTA
* * * * * * *
391743 GGCTTTGACATTCTTAGGCTTTACCTCTTTAGATAGGTGCCAACTAATTTGGACTTGACTCGAAC
1 GGCTTTAAAATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAAC
* * * *** **
391808 TTAGGTGCCAACAGCTTGTATGGGCTTTGACTTTGGTGATGTTGACTTGTGTTGGCTTAGACTTG
66 TTAGGTGCCAACAGCTTGTATAGGCTTTGACTTAGGTGACGCCAACTTGTGCGGGCTTAGACTTG
* *
391873 GGTGCCGTTAGCTTGTGTGGGCTTAGACT
131 CGTGCCGTCAGCTTGTGTGGGCTTAGACT
391902 CAAAATTTTT
Statistics
Matches: 135, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
180 135 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (180 bp):
GGCTTTAAAATTCTAAGGCTTGACCTCCTTAGACAGGTGCCAACTAATTTGGACTTGACTCAAAC
TTAGGTGCCAACAGCTTGTATAGGCTTTGACTTAGGTGACGCCAACTTGTGCGGGCTTAGACTTG
CGTGCCGTCAGCTTGTGTGGGCTTAGACTAGGGTGCCACCAACTCATGTA
Found at i:391872 original size:16 final size:16
Alignment explanation
Indices: 391851--391901 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
391841 TGGTGATGTT
391851 GACTTGTGTTGGCTTA
1 GACTTGTGTTGGCTTA
* *
391867 GACTTG-GGTGCCGTTA
1 GACTTGTGTTGGC-TTA
*
391883 G-CTTGTGTGGGCTTA
1 GACTTGTGTTGGCTTA
391898 GACT
1 GACT
391902 CAAAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.12, C:0.16, G:0.35, T:0.37
Consensus pattern (16 bp):
GACTTGTGTTGGCTTA
Found at i:392333 original size:90 final size:90
Alignment explanation
Indices: 392180--392386 Score: 256
Period size: 90 Copynumber: 2.3 Consensus size: 90
392170 AGGATATCAA
* * *** *
392180 GCTTTGTGATGCATCAATACCATCTATTGGTTGGGTGAAGGGAATAAGATTAGGAATGTGTAGGC
1 GCTTTATGATGCATCAATATCATCTAGCAGTTAGGTGAAGGGAATAAGATTAGGAATGTGTAGGC
**
392245 TGGACCCTTACCCCT-AGGAAATTAG
66 TACACCCTT-CCCCTAAGGAAATTAG
* * * *
392270 GCTTTCTGATGCATCAATATCATTTAGCAGTTAGGTGAATGGAATATGATT-GGAAATGTGTAGG
1 GCTTTATGATGCATCAATATCATCTAGCAGTTAGGTGAAGGGAATAAGATTAGG-AATGTGTAGG
*
392334 CTACACCCTTGCCCTAAGGAAATTAG
65 CTACACCCTTCCCCTAAGGAAATTAG
*
392360 GCTTTATGATGCATCAAGATCATCTAG
1 GCTTTATGATGCATCAATATCATCTAG
392387 TGGTTGGATG
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
89 6 0.06
90 94 0.94
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (90 bp):
GCTTTATGATGCATCAATATCATCTAGCAGTTAGGTGAAGGGAATAAGATTAGGAATGTGTAGGC
TACACCCTTCCCCTAAGGAAATTAG
Found at i:392407 original size:90 final size:88
Alignment explanation
Indices: 392180--392412 Score: 254
Period size: 90 Copynumber: 2.6 Consensus size: 88
392170 AGGATATCAA
* * * * *
392180 GCTTTGTGATGCATCAATACCATCTATTGGTTGGGTGAAGGGAATAAGATTAGGAATGTGTAGGC
1 GCTTTATGATGCATCAATATCATCTAGTGGTT-GGTGAAAGGAATATGATT-GGAATGTGTAGGC
**
392245 TGGACCCTTACCCCTAGGAAATTAG
64 TACACCCTTACCCCTAGGAAATTAG
* * ** *
392270 GCTTTCTGATGCATCAATATCATTTAGCAGTTAGGTGAATGGAATATGATTGGAAATGTGTAGGC
1 GCTTTATGATGCATCAATATCATCTAGTGGTT-GGTGAAAGGAATATGATTGG-AATGTGTAGGC
*
392335 TACACCCTT-GCCCTAAGGAAATTAG
64 TACACCCTTACCCCT-AGGAAATTAG
* *
392360 GCTTTATGATGCATCAAGATCATCTAGTGGTTGGATGAGAAAG-ATATGATTGG
1 GCTTTATGATGCATCAATATCATCTAGTGGTTGG-TGA-AAGGAATATGATTGG
392413 GAGCGTGTGG
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
89 8 0.07
90 110 0.92
91 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (88 bp):
GCTTTATGATGCATCAATATCATCTAGTGGTTGGTGAAAGGAATATGATTGGAATGTGTAGGCTA
CACCCTTACCCCTAGGAAATTAG
Found at i:395596 original size:61 final size:60
Alignment explanation
Indices: 395523--396841 Score: 1206
Period size: 61 Copynumber: 21.8 Consensus size: 60
395513 AACATGACGC
* * * *
395523 CTTTTCCTTTTAAAGCCCACACAATTTGGTGGCATCTTTTAGTCCTTAAA-ACGCAAGACA
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GCAGGACA
* * *
395583 CATTTTCCTTTTAAAGCCCACACAAGTTGGCGGCACCTTTTAGT-GTACAAAGAGTAGGATGC-
1 C-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCT-CAAAGAGCAGGA--CA
** ** *
395645 CCATTCCTTTTGAAA-CGTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
1 CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* **
395705 -TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA-CA
395765 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGC-
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CA
* * * * * *
395826 CCTTTCCTTTTCATGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACA
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * * *
395886 CCTTTT--TTTTAAAGCCCATACAAGTTGGTGGCACTTTTTAG-CACTTAAAAAGCAAGACG
1 -CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC-CTCAAAGAGCAGGACA
* * * *
395945 TTTTTCCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTT-GTCCTCAAAGAGTAGGGTGC-
1 CTTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-GG-ACA
* * ** * * *
396006 CCTTTACTTTTAAAGCTTACACAAGTTGGTTGCACCTTTTAGTCCTCAAAGAGTAAGACA
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * * * *
396066 C-TTTCCTTTCAAAGCCCA-AAAAGTTCGTAGCACCTTTTGGTCCTCAAAGAGTAGGGCA
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * *
396124 CCTTTCCTTTTCAAAGCCCACACAAGCTAGTGGCACCGTTTAGTCCTCAAAGAACAGGATC-
1 CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA-CA
* * * * *
396185 CCTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGC
1 CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-A
* * * * *
396247 CCTTTCCTTTTAAAGGCCACATAAGTTGGTGGCACCTTTTAGTTCTCAAAGAGTAGGACA
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * * * * *
396307 -TTTCCCTTTCAACGGCCACACAAGTTGGTGGCACCTTTTAGTCCTCGAACAGTAGGACG
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * ** *
396366 CCTTTCGTTTTCAAAGCTCTCACAAGCGGGT-GCTACCTTTTAGTCCTCAAAGAGCAAGAC-
1 CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGC-ACCTTTTAGTCCTCAAAGAGCAGGACA
* * * *
396426 GTCTTACCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGC-
1 CT-TTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CA
* * * *
396489 CCTTTCTTTTTAAAGCCTACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAGGACA
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* *
396549 C-TTTCCTTTTAAAGCCCA-A-AATGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACA
1 CTTTTCCTTTTAAAGCCCACACAA-GTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * * **
396607 CTTTTCCTTTTCAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTTAAAAAGCAAGATG
1 CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * *
396668 CTTTTCCTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAATCCTCAAAGTGTAGGA-T
1 CTTTTCC-TTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * * * *
396729 GTCTTCCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCACATAGTAGAACG
1 CT-TTTC-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
* * * * * * * *
396791 CCTTTCCTTTTCAAAGCTCACACATGATGTTGGCTCCTTATAGTCCCCAAA
1 CTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAA
396842 AGGCAAGACG
Statistics
Matches: 1038, Mismatches: 173, Indels: 95
0.79 0.13 0.07
Matches are distributed among these distances:
57 2 0.00
58 78 0.08
59 186 0.18
60 74 0.07
61 615 0.59
62 80 0.08
63 3 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (60 bp):
CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACA
Found at i:395835 original size:181 final size:179
Alignment explanation
Indices: 395524--396778 Score: 1279
Period size: 181 Copynumber: 6.9 Consensus size: 179
395514 ACATGACGCC
* * * * * *
395524 TTTTCCTTTTAAAGCCCACACAATTTGGTGGCATCTTTTAGTCCTTAAAACGCAAGACACATTTT
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGA-GC-TTTT
* * *
395589 CCTTTTAAAGCCCACACAAGTTGGCGGCACCTTTTAGT-GTACAAAGAGTAGGATGCCCATTCCT
64 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCT-CAAAGAGTAGGATGCCCTTTCCT
* * * *
395653 TTTGAAACGTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
128 TTTCAAACCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
* *
395705 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCTTTT
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGA-G-CTTTT
*
395770 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCCTTTCCTT
64 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCCTT
** *
395835 TTCATGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACA
129 TTCAAACCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
* * * * *
395886 CCTTT-TTTTTAAAGCCCATACAAGTTGGTGGCACTTTTTAG-CACTTAAAAAGCAAGACGTTTT
1 -TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC-CTCAAAAAGCAAGA-GCTTT
* * *
395949 TCCCTTTTAAAACCCACACAAGTTGGTGGCACCTTTT-GTCCTCAAAGAGTAGGGTGCCCTTTAC
63 T-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCC
* * *
396013 TTTT-AAAGCTTACACAAGTTGGTTGCACCTTTTAGTCCTCAAAGAGTAAGACA
127 TTTTCAAA-CCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
* * * * * * * * * * *
396066 CTTTCCTTTCAAAGCCCA-AAAAGTTCGTAGCACCTTTTGGTCCTCAAAGAG-TAGGGCACCTTT
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAG--CTTTT
* * * ** *
396129 CCTTTTCAAAGCCCACACAAGCTAGTGGCACCGTTTAGTCCTCAAAGAACAGGAT-CCCTTTCTT
64 CCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCCT
* * *
396193 TTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCC
128 TTTCAAA-CCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGA--CA
* * * * * * * * *
396248 CTTTCCTTTTAAAGGCCACATAAGTTGGTGGCACCTTTTAGTTCTCAAAGAGTAGGA-CATTTCC
1 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAGC-TTTTC
* * * * * * *
396312 CTTTCAACGGCCACACAAGTTGGTGGCACCTTTTAGTCCTCGAACAGTAGGACG-CCTTTCGTTT
65 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCCTTT
** * * *
396376 TCAAAGCTCT-CACAAGCGGGT-GCTACCTTTTAGTCCTCAAAGAGCAAGACG
130 TCAAA-C-CTACACAAGTTGGTGGC-ACCTTTTAGTCCTCAAAGAGTAGGACA
* *
396427 TCTTACCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGCCCT
1 T-TT-TCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGA-G-CTT
* * * * *
396492 TTCTTTTTAAAGCCTACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAGGA--CACTTTCC
62 TTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCC
* *
396555 TTTT-AAAGCC--CAAAATGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACA
127 TTTTCAAA-CCTACACAA-GTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
* * * *
396607 CTTTTCCTTTTCAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTTAAAAAGCAAGATGCTTT
1 -TTTT-CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGA-GCTTT
* * *
396672 TCCTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAATCCTCAAAGTGTAGGATG-TC-TTC
63 TCC-TTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTC
* *
396735 CTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCA
126 CT-TTTCAAA-CCTACACAAGTTGGTGGCACCTTTTAGTCCTCA
396779 CATAGTAGAA
Statistics
Matches: 898, Mismatches: 137, Indels: 75
0.81 0.12 0.07
Matches are distributed among these distances:
177 1 0.00
178 8 0.01
179 77 0.09
180 232 0.26
181 428 0.48
182 43 0.05
183 80 0.09
184 25 0.03
185 4 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (179 bp):
TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAGCTTTTCC
TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCCTTTT
CAAACCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACA
Found at i:395959 original size:242 final size:239
Alignment explanation
Indices: 395525--396841 Score: 1401
Period size: 242 Copynumber: 5.4 Consensus size: 239
395515 CATGACGCCT
* * * *
395525 TTTCCTTTTAAAGCCCACACAATTTGGTGGCATCTTTTAGTCCTTAAA-ACGCAAGACACATTTT
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GCAGGACAC--TTT
* * * *
395589 CCTTTTAAAGCCCACACAAGTTGGCGGCACCTTTTAGT-GTACAAAGAGTAGGATGC-CCATTCC
63 CCTTTTCAAG-CCACACAAGTTGGTGGCACCTTTTAGTCCT-CAAAGAGTAGGA--CACC-TT-T
* ** * * * * *
395652 TTTTGAAA-CGTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-ATTTT-CTTTT
122 TTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGCTTTTCCTTTT
* * *
395714 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCT
187 TAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCC
*
395767 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCCTTTC
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--CACTTTC
* * *
395832 CTTTTCATGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACACCTTTTTTTTA
64 CTTTTCAAGCC-ACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTTTTCA
* * * * * * *
395897 AAGCCCATACAAGTTGGTGGCACTTTTTAG-CACTTAAAAAGCAAGACGTTTTTCCCTTTTAAAA
128 AAGCCCACACAAGCTGGTGGCACCTTTTAGTC-CTCAAAAAGCAAGACGCTTTTCCTTTTTAAAG
*
395961 CCCACACAAGTTGGTGGCACCTTTT-GTCCTCAAAGAGTAGGGTGCCC
192 CCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCC
* ** * * *
396008 TTTACTTTTAAAGCTTACACAAGTTGGTTGCACCTTTTAGTCCTCAAAGAGTAAGACACTTTCC-
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTTCCT
* * * * *
396072 TTTCAAAGCC-CAAAAAGTTCGTAGCACCTTTTGGTCCTCAAAGAGTAGGGCACCTTTCCTTTTC
66 TTTC-AAGCCAC-ACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTT--TTTTC
* * * *
396136 AAAGCCCACACAAGCTAGTGGCACCGTTTAGTCCTCAAAGAA-CAGGATC-CCTTT-CTTTTTCA
127 AAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAA-AAGCAAGA-CGCTTTTCCTTTTT-A
* *
396198 AAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCC
189 AAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCC
* * * * *
396249 TTTCCTTTTAAAGGCCACATAAGTTGGTGGCACCTTTTAGTTCTCAAAGAGTAGGACA-TTTCCC
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTTCCT
* * *
396313 TTTCAACGGCCACACAAGTTGGTGGCACCTTTTAGTCCTCGAACAGTAGGACGCCTTTCGTTTTC
66 TTTCAA--GCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTT--TTTTC
* * * * *
396378 AAAGCTCTCACAAGCGGGT-GCTACCTTTTAGTCCTCAAAGAGCAAGACG-TCTTACCTTTTTAA
127 AAAGCCCACACAAGCTGGTGGC-ACCTTTTAGTCCTCAAAAAGCAAGACGCT-TTTCCTTTTTAA
* * *
396441 AGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGCCC
190 AGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCC
* * *
396491 TTTCTTTTTAAAGCCTACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAGGACACTTTCCT
1 TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTTCCT
* * * *
396556 TTTAAAGCC-CAAAATGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGACACTTTTCCTTTTCA
66 TTTCAAGCCACACAA-GTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTT--TTTTCA
* * *
396620 AAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTTAAAAAGCAAGATGCTTTTCCTTTTTCAAAG
128 AAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGCTTTTCCTTTTT-AAAG
* * *
396685 CCCACACAAGTTGGTGGCACCTTTTAATCCTCAAAGTGTAGGATG-TC
192 CCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCC
* * * * * *
396732 TTCCTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCACATAGTAGAACGCCTTTC
1 TTTC-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-ACTTTC
* * * * * *
396797 CTTTTCAAAGCTCACACATGATGTTGGCTCCTTATAGTCCCCAAA
64 CTTTTC-AAGC-CACACAAGTTGGTGGCACCTTTTAGTCCTCAAA
396842 AGGCAAGACG
Statistics
Matches: 902, Mismatches: 135, Indels: 73
0.81 0.12 0.07
Matches are distributed among these distances:
237 1 0.00
238 43 0.05
239 24 0.03
240 117 0.13
241 255 0.28
242 403 0.45
243 29 0.03
244 6 0.01
245 21 0.02
246 3 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (239 bp):
TTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTTCCT
TTTCAAGCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTTTTCAAAG
CCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGACGCTTTTCCTTTTTAAAGCCCA
CACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCC
Found at i:397388 original size:30 final size:30
Alignment explanation
Indices: 397354--397452 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
397344 CATTGTATAA
*
397354 ATACATTCTAGGTTTTACCGAGATGTATCG
1 ATACATTCTGGGTTTTACCGAGATGTATCG
* *
397384 ATACATTTTGGGTTTTACAGAGATGTATCG
1 ATACATTCTGGGTTTTACCGAGATGTATCG
* *
397414 ATACATTTTGGGTTTTACCCAGATGTATCG
1 ATACATTCTGGGTTTTACCGAGATGTATCG
397444 ATACATTCT
1 ATACATTCT
397453 TCATTGTATC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (30 bp):
ATACATTCTGGGTTTTACCGAGATGTATCG
Found at i:397482 original size:50 final size:50
Alignment explanation
Indices: 397407--397520 Score: 176
Period size: 50 Copynumber: 2.3 Consensus size: 50
397397 TTTACAGAGA
* *
397407 TGTATCGATACATTTTGGGTTTTACCCAGATGTATCGATACA-TTCTTCAT
1 TGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTC-TCAC
* *
397457 TGTATCGATACATTCTGGGTTTTACCTAGTTGTATCGATACATTTCTCAC
1 TGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCTCAC
397507 TGTATCGATACATT
1 TGTATCGATACATT
397521 TAGGCATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 56 0.95
51 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (50 bp):
TGTATCGATACATTCTGGGTTTTACCCAGATGTATCGATACATTTCTCAC
Found at i:400050 original size:80 final size:81
Alignment explanation
Indices: 399887--400343 Score: 406
Period size: 80 Copynumber: 5.7 Consensus size: 81
399877 TCATTAATGT
* * *
399887 TTTTATTTCTAAAATACCGATTTTCCACCAT-TGGGAATACTCTAACTCC--GTTA-TTTCTGAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCAGGG-ATACTCTAAC-CCTATTTATTTTC-GAA
* *
399948 GGGATACTCCAA-TCCTGA
63 GGGATACTCCAACCCCAGA
** *
399966 TTTTATTTCTAAAACACCGATTTTCCACCATTTGGGATACTCTAACCCTATTTATTTTCGAAGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCTAACCCTATTTATTTTCGAAGGG
400031 ATACTCCAACCCCAG-
66 ATACTCCAACCCCAGA
* * * * * **
400046 TTTTATTTTTAAAACACTGATTTTCCACCACCAGGGATACTCCAACCCTGTTTATTTTTC-AAAA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCTAACCCTATTTA-TTTTCGAAGG
* **
400110 GATACTTCAA-CCTTGA
65 GATACTCCAACCCCAGA
* * * *
400126 TTTTATTTTTAAAACATCGATTTTCCTCCATCAAGGATACTCTAA-CCTCATTTA-TTTCTGAAG
1 TTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCTAACCCT-ATTTATTTTC-GAAG
*
400189 GGATACTCCAACCCTAG-
64 GGATACTCCAACCCCAGA
* * * * *
400206 TTTTATTTCTAAAACATCGATTTTTCATCATC-GAGGATACTCTAATCCC-A-TTATTTTTGAGG
1 TTTTATTTCTAAAACACCGATTTTCCACCATCAG-GGATACTCTAA-CCCTATTTATTTTCGAAG
*
400268 GGATACTCTAACCCC-GA
64 GGATACTCCAACCCCAGA
* * * *
400285 TTTTATTTCTAATATACTGATTTTCCACCATCGGGGATACT-TCAACCCTAGTTTTATTT
1 TTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCT-AACCCTA--TTTATTT
400344 CTAAAACACT
Statistics
Matches: 312, Mismatches: 44, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
78 11 0.04
79 101 0.32
80 176 0.56
81 16 0.05
82 8 0.03
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (81 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCAGGGATACTCTAACCCTATTTATTTTCGAAGGG
ATACTCCAACCCCAGA
Found at i:400332 original size:51 final size:52
Alignment explanation
Indices: 400266--400382 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 52
400256 TTATTTTTGA
* *
400266 GGGGATAC-TCTAACCCCGA-TTTTATTTCTAATATACTGATTTTCCACCATC
1 GGGGATACTTC-AACCCCGAGTTTTATTTCTAAAACACTGATTTTCCACCATC
*
400317 GGGGATACTTCAA-CCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATC
1 GGGGATACTTCAACCCCGAGTTTTATTTCTAAAACACTGATTTTCCACCATC
** *
400368 AAGGATACTCCAACC
1 GGGGATACTTCAACC
400383 TTGTTATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 4 0.07
51 50 0.88
52 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTTCAACCCCGAGTTTTATTTCTAAAACACTGATTTTCCACCATC
Found at i:400340 original size:130 final size:130
Alignment explanation
Indices: 400188--400462 Score: 340
Period size: 130 Copynumber: 2.1 Consensus size: 130
400178 TATTTCTGAA
* * * *
400188 GGGATACTCCAACCCTAGTTTTATTTCTAAAACA-TCGATTTTTCATCATCGAGGATACTCTAAT
1 GGGATACTCCAACCCTAGTTTTATTTCTAAAACACT-GATTTTCCACCATCAAGGATACTCCAA-
** * * * **
400252 CC-CATTATTTTTGAGGGGATACTCTAACCCCGA-TTTTATTTCTAATATACTGATTTTCCACCA
64 CCTCATTATTTTTGAAAGGATACTCCAA-CCCGAGTTTTATTTCTAAAACACCAATTTTCCACCA
*
400315 TCG
128 TCC
*
400318 GGGATACTTCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAAGGATACTCCAACC
1 GGGATACTCCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAAGGATACTCCAACC
** * *
400383 TTGTTATTTTTGAAAGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCC
66 TCATTATTTTTGAAAGGATACTCCAACCCGAGTTTTATTTCTAAAACACCAATTTTCCACCATCC
*
400448 GGGATACTCTAACCC
1 GGGATACTCCAACCC
400463 CATTATTTCT
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
129 6 0.05
130 116 0.94
131 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (130 bp):
GGGATACTCCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAAGGATACTCCAACC
TCATTATTTTTGAAAGGATACTCCAACCCGAGTTTTATTTCTAAAACACCAATTTTCCACCATCC
Found at i:400415 original size:79 final size:79
Alignment explanation
Indices: 400319--400546 Score: 280
Period size: 79 Copynumber: 2.9 Consensus size: 79
400309 CCACCATCGG
* * *
400319 GGATACTTCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAAGGATACTCCAACCT
1 GGATACTCCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAGGGATACTCCAACCC
** *
400384 TGTTATTTTTGAAA
66 CATTATTTCTGAAA
** * * *
400398 GGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCCGGGATACTCTAACCC
1 GGATACTCCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAGGGATACTCCAACCC
*
400463 CATTATTTCTGAAG
66 CATTATTTCTGAAA
* * *
400477 GGATACTCCAACCC-CGATTTTATTTCTAAAACA-TCGATTTTCCAACATCGGGGATACTCCAAC
1 GGATACTCCAACCCTAG-TTTTATTTCTAAAACACT-GATTTTCCACCATCAGGGATACTCCAAC
*
400540 CCTATTA
64 CCCATTA
400547 GTCCAAGGGG
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.01
79 126 0.99
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCTAGTTTTATTTCTAAAACACTGATTTTCCACCATCAGGGATACTCCAACCC
CATTATTTCTGAAA
Found at i:400482 original size:209 final size:210
Alignment explanation
Indices: 400110--400543 Score: 630
Period size: 209 Copynumber: 2.1 Consensus size: 210
400100 TTTTTCAAAA
* * * *
400110 GATACTTCAA-CCTTGATTTTATTTTTAAAACATCGATTTTCCTCCATCAAGGATACTCTAACCT
1 GATACTTCAACCCTAGATTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCCAACCT
* * * *
400174 CATTTATTTCTGAAGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTTCATCATCG
66 -ATTTATTTCTGAAAGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCG
* * * *
400239 AGGATACTCTAATCCCATTATTTTTGAGGGGATACTCTAACCCCGATTTTATTTCTAATATAC-T
130 AGGATACTCTAACCCCATTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTCTAA-A-ACAT
*
400303 -GATTTTCCACCATCGGG
193 CGATTTTCCAACATCGGG
400320 GATACTTCAACCCTAG-TTTTATTTCTAAAACA-CTGATTTTCCACCATCAAGGATACTCCAACC
1 GATACTTCAACCCTAGATTTTATTTCTAAAACATC-GATTTTCCACCATCAAGGATACTCCAACC
*
400383 T-TGTTATTTTTGAAAGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATC
65 TAT-TTATTTCTGAAAGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCAT-
400447 CG-GGATACTCTAACCCCATTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACAT
128 CGAGGATACTCTAACCCCATTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACAT
400511 CGATTTTCCAACATCGGG
193 CGATTTTCCAACATCGGG
*
400529 GATACTCCAACCCTA
1 GATACTTCAACCCTA
400544 TTAGTCCAAG
Statistics
Matches: 203, Mismatches: 15, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
207 2 0.01
208 3 0.01
209 139 0.68
210 55 0.27
211 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (210 bp):
GATACTTCAACCCTAGATTTTATTTCTAAAACATCGATTTTCCACCATCAAGGATACTCCAACCT
ATTTATTTCTGAAAGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTTTTCACCATCGA
GGATACTCTAACCCCATTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCGA
TTTTCCAACATCGGG
Found at i:406272 original size:240 final size:241
Alignment explanation
Indices: 405846--406330 Score: 850
Period size: 240 Copynumber: 2.0 Consensus size: 241
405836 TCCATACCAG
**
405846 ACTGAAAGCTTATCAAGTAACAAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGT
1 ACTGAAAGCTTATCAACCAACAAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGT
405911 TTTGAAACAACACAATTCGAAATGAAAAGAGATTAGGGAAGAAAAACTTGACACAAGATATTTAT
66 TTTGAAACAACACAATTCG-AA-GAAAAGAGATTAGGGAAGAAAAACTTGACACAAGATATTTAT
405976 AGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTCCTTGTCGAGTGATTAC
129 AGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTCCTTGTCGAGTGATTAC
406041 CCAATTCACTAACCGAATTGATTACCTTTAAGGCAAAGGTATAACCTT
194 CCAATTCACTAACCGAATTGATTACCTTTAAGGCAAAGGTATAACCTT
* *
406089 ACTGAAAGCTTATTAACCAACGAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTC-GGT
1 ACTGAAAGCTTATCAACCAACAAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGT
406153 TTTGAAACAACACAATTCG-A-AAAAGAGATTTAGGGAAGGAAAAACTTGACACAAGATATTTAT
66 TTTGAAACAACACAATTCGAAGAAAAGAGA-TTAGGGAA-GAAAAACTTGACACAAGATATTTAT
* *
406216 AGAGGTTTGGTCCAAACACGGTACCTACGTCCTCTCTCCTCGACACTTCCTTGTCGAGTGATTAC
129 AGAGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTCCTTGTCGAGTGATTAC
*
406281 CCAATTCACTAATCGAATTGATTACCTTTAAGGCAAAGGTATAACCTT
194 CCAATTCACTAACCGAATTGATTACCTTTAAGGCAAAGGTATAACCTT
406329 AC
1 AC
406331 AACTCGTATC
Statistics
Matches: 233, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
238 8 0.03
239 8 0.03
240 138 0.59
242 22 0.09
243 57 0.24
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (241 bp):
ACTGAAAGCTTATCAACCAACAAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGGT
TTTGAAACAACACAATTCGAAGAAAAGAGATTAGGGAAGAAAAACTTGACACAAGATATTTATAG
AGGTTCGGTCCAAACACGGCACCTACGTCCTCTCTCCTCGACACTTCCTTGTCGAGTGATTACCC
AATTCACTAACCGAATTGATTACCTTTAAGGCAAAGGTATAACCTT
Found at i:406860 original size:13 final size:13
Alignment explanation
Indices: 406842--406867 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
406832 CAATTTTTTG
406842 TGTATCGATACAT
1 TGTATCGATACAT
406855 TGTATCGATACAT
1 TGTATCGATACAT
406868 ACTTGCCGTA
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:407473 original size:32 final size:30
Alignment explanation
Indices: 407437--407495 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
407427 GAAATCAAAT
407437 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
407469 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
407496 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:407794 original size:13 final size:13
Alignment explanation
Indices: 407776--407801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
407766 AATTTTTTTG
407776 TGTATCGATACAT
1 TGTATCGATACAT
407789 TGTATCGATACAT
1 TGTATCGATACAT
407802 ACTTTGTGTA
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:410379 original size:13 final size:13
Alignment explanation
Indices: 410361--410396 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
410351 ATCACCCTGC
410361 ATCGATACAATGT
1 ATCGATACAATGT
410374 ATCGATACAATGT
1 ATCGATACAATGT
410387 ATCGATACAA
1 ATCGATACAA
410397 AGAAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
ATCGATACAATGT
Found at i:412495 original size:15 final size:15
Alignment explanation
Indices: 412475--412505 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
412465 ATTTCGTTTG
*
412475 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
412490 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
412505 G
1 G
412506 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:414337 original size:21 final size:21
Alignment explanation
Indices: 414308--414352 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
414298 AAGTTTTTAT
*
414308 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
414328 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
414350 TTT
1 TTT
414353 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:416593 original size:13 final size:13
Alignment explanation
Indices: 416575--416600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
416565 AATTTTTTTG
416575 TGTATCGATACAT
1 TGTATCGATACAT
416588 TGTATCGATACAT
1 TGTATCGATACAT
416601 ACTTTGTGTA
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:417079 original size:20 final size:20
Alignment explanation
Indices: 417054--417151 Score: 133
Period size: 20 Copynumber: 4.7 Consensus size: 20
417044 TTTTAACTAG
*
417054 ATGTATCGATACATTGAACA
1 ATGTATCGATACATTGAAGA
*
417074 ATGTATCGATACATCTGGGTAGA
1 ATGTATCGATACAT-T--GAAGA
417097 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
*
417117 ATGTATCGATACAATCGAAGA
1 ATGTATCGATAC-ATTGAAGA
417138 ATGTATCGATACAT
1 ATGTATCGATACAT
417152 CTGGGTAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
20 32 0.46
21 20 0.29
22 1 0.01
23 17 0.24
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:417102 original size:43 final size:41
Alignment explanation
Indices: 417054--417151 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 41
417044 TTTTAACTAG
*
417054 ATGTATCGATACATTGAACAATGTATCGATAC-ATCTGGGTAGA
1 ATGTATCGATACATTGAACAATGTATCGATACAATC---GAAGA
*
417097 ATGTATCGATACATTGAAGAATGTATCGATACAATCGAAGA
1 ATGTATCGATACATTGAACAATGTATCGATACAATCGAAGA
417138 ATGTATCGATACAT
1 ATGTATCGATACAT
417152 CTGGGTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
41 18 0.35
43 31 0.60
44 3 0.06
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
ATGTATCGATACATTGAACAATGTATCGATACAATCGAAGA
Found at i:417202 original size:51 final size:52
Alignment explanation
Indices: 417114--417213 Score: 166
Period size: 51 Copynumber: 1.9 Consensus size: 52
417104 GATACATTGA
*
417114 AGAATGTATCGATACAATCGAAGAATGTATCGATACATCTGGGTAAAAAGAC
1 AGAATGTATCGATACAATCGAAAAATGTATCGATACATCTGGGTAAAAAGAC
* *
417166 AGAATGTATTGATAC-ATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 AGAATGTATCGATACAATCGAAAAATGTATCGATACATCTGGGTAAAAA
417214 TATGATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 31 0.69
52 14 0.31
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (52 bp):
AGAATGTATCGATACAATCGAAAAATGTATCGATACATCTGGGTAAAAAGAC
Found at i:417851 original size:21 final size:21
Alignment explanation
Indices: 417812--417851 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
417802 ATACTGCTCT
* * *
417812 TTTCTTCCTTTAGTTAAGCAA
1 TTTCTTACTTGAGTCAAGCAA
417833 TTTCTTACTTGAGTCAAGC
1 TTTCTTACTTGAGTCAAGC
417852 TTTTTCTTGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (21 bp):
TTTCTTACTTGAGTCAAGCAA
Found at i:425898 original size:33 final size:33
Alignment explanation
Indices: 425859--425926 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
425849 CGTTACAAGT
*
425859 AATGTATCGATACAATT-CATCATGTATCGATAC
1 AATGTATCGATAC-ATTGCACCATGTATCGATAC
* *
425892 AATGTATTGATACATTGTACCATGTATCGATAC
1 AATGTATCGATACATTGCACCATGTATCGATAC
425925 AA
1 AA
425927 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (33 bp):
AATGTATCGATACATTGCACCATGTATCGATAC
Found at i:428471 original size:13 final size:13
Alignment explanation
Indices: 428453--428479 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
428443 ATAGTAGCTT
428453 ATGTATCGATACA
1 ATGTATCGATACA
428466 ATGTATCGATACA
1 ATGTATCGATACA
428479 A
1 A
428480 GGAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:438012 original size:309 final size:312
Alignment explanation
Indices: 437444--438101 Score: 692
Period size: 309 Copynumber: 2.1 Consensus size: 312
437434 TATCCACGGG
** * * *
437444 GACATTTTCATAATTTTTCTAAAATAGAGTCATAGGTTGTCACTAGGTCTGCTCTTATGTTGAAG
1 GACATTTTTGTAATTTTTC-AAAATCGAGTCATAGGTTATCACTAGGTCTGCTCTTATGCTGAAG
* *
437509 GTGGATATTTAGGTTAGGTTTATCTTATCTATAATCTTTTTAAGACTTTTAGGGGTACTAAGATA
65 GTGGATATTTAGGATAGGTTCATCTTATCTATAATCTTTTTAAGACTTTTAGGGGTACTAAGATA
* ** * *
437574 CTTTCACATTAAAGATATCTCCTAAGGGTATTTTTATAATTTTTTAGAACCAAGTCCTAGGTCAT
130 CTTTCACATAAAAGATATAGCCGAAGGGTATTTTTATAATTTTTTAGAACCAAGTCCTACGTCAT
* * * * *** *
437639 CACCGAGTCTGCTTTTATGTAGAAGCTGGATATTTAGGATAGGTTCATCATTTTTTAAAATCTTT
195 CACCGAGTCCGCTTGTATGTAGAAGATGGATATTTAAGATAGGTTCATCACCGTCTAAAATCTTT
* * * **
437704 TTAA-GTCCTTTAA-GGTTA-C-TGGTA-TTTCTATGTCAAAGGTATCCCTTAGG
260 TTAATGTCCTTTAATGG-TACCAAGATACTTT-TACGTCAAAGGTATCCCTTAAA
* * * *
437754 GGCATTTTTGTAATTTTTCAAAATCGAGTCCTAGGTTATCAAC-GGGTCTGCTTTTATGCTGAAG
1 GACATTTTTGTAATTTTTCAAAATCGAGTCATAGGTTATC-ACTAGGTCTGCTCTTATGCTGAAG
* ** * * * *
437818 GTGGGTATTTAGGATAGGTTCATCTT-T-TATGTTCATTTTTAGGTCTTTTAGGGTTA-TCGAGA
65 GTGGATATTTAGGATAGGTTCATCTTATCTATAATC-TTTTTAAGACTTTTAGGGGTACT-AAGA
* * *
437880 TACTTTCACATCAAAAG-TATAGCCGCAGGGATATTTTTGTAATTTTTTGAGAACCGAGTCCTAC
128 TACTTTCACAT-AAAAGATATAGCCGAAGGG-TATTTTTATAATTTTTT-AGAACCAAGTCCTAC
** * * * * *
437944 GTTGTCTCTCG-GTCCGCTTGTATGTCGAAGATGGATATTTAAGTTAGGTTTATC-CCGTCTATA
190 GTCATCAC-CGAGTCCGCTTGTATGTAGAAGATGGATATTTAAGATAGGTTCATCACCGTCTAAA
*
438007 ATCTTTTTAATGTCCTTTAATGGTACCAAGATACTTTTACGTCGAAGGTATCCCTTAAA
254 ATCTTTTTAATGTCCTTTAATGGTACCAAGATACTTTTACGTCAAAGGTATCCCTTAAA
* * *
438066 GACATTTTTGTAATTTTTTAGAATCGAGTCTTAGGT
1 GACATTTTTGTAATTTTTCAAAATCGAGTCATAGGT
438102 CGGATATTTT
Statistics
Matches: 285, Mismatches: 51, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
307 6 0.02
308 42 0.15
309 93 0.33
310 83 0.29
311 5 0.02
312 53 0.19
313 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (312 bp):
GACATTTTTGTAATTTTTCAAAATCGAGTCATAGGTTATCACTAGGTCTGCTCTTATGCTGAAGG
TGGATATTTAGGATAGGTTCATCTTATCTATAATCTTTTTAAGACTTTTAGGGGTACTAAGATAC
TTTCACATAAAAGATATAGCCGAAGGGTATTTTTATAATTTTTTAGAACCAAGTCCTACGTCATC
ACCGAGTCCGCTTGTATGTAGAAGATGGATATTTAAGATAGGTTCATCACCGTCTAAAATCTTTT
TAATGTCCTTTAATGGTACCAAGATACTTTTACGTCAAAGGTATCCCTTAAA
Found at i:443779 original size:20 final size:20
Alignment explanation
Indices: 443754--443791 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
443744 TCAAAAACCC
*
443754 ATAATGTATCGATACAATGA
1 ATAATGTATCAATACAATGA
*
443774 ATAATGTTTCAATACAAT
1 ATAATGTATCAATACAAT
443792 TGTGAGCATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (20 bp):
ATAATGTATCAATACAATGA
Found at i:450828 original size:13 final size:13
Alignment explanation
Indices: 450810--450835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
450800 CAGGGTAGCT
450810 TTGTATCGATACA
1 TTGTATCGATACA
450823 TTGTATCGATACA
1 TTGTATCGATACA
450836 ACACTTATGT
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):
TTGTATCGATACA
Found at i:451674 original size:49 final size:49
Alignment explanation
Indices: 451561--451858 Score: 345
Period size: 49 Copynumber: 6.0 Consensus size: 49
451551 TAAAGAATGT
* * * *
451561 CAATGTGCTGATTCACGG-T--CAGACATTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCTAGC-GACATTGGACTTAAAGAT--GAAG-GTGC
451611 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
451660 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
451709 TAATATGCTGATTCAAGGCCAGCGATATTAGG-CTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCTAGCGACATT-GGACTTAAAGATGAAGGTGC
* *
451758 CAATGTGCTGATTCAAGGCCTA-CAACATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGG-CTAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
451807 TAATATGCTGATTCAAGGCCTAGCGATATTAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGG-CTAGCGACATTGGACTTAAAGATGAAGGTGC
451857 CA
1 CA
451859 CCAACTTGTG
Statistics
Matches: 216, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
48 2 0.01
49 147 0.68
50 49 0.23
51 1 0.00
52 16 0.07
53 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:451733 original size:98 final size:98
Alignment explanation
Indices: 451616--451858 Score: 418
Period size: 98 Copynumber: 2.5 Consensus size: 98
451606 AATGCCAATG
* *
451616 TGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC-
1 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCT
451680 AGCAACATTGGACTTAAAGGTGAAGGTGCTAATA
66 A-CAACATTGGACTTAAAGGTGAAGGTGCTAATA
451714 TGCTGATTCAAGGCCAGCGATATTAGG-CTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCC
451778 TACAACATTGGACTTAAAGGTGAAGGTGCTAATA
65 TACAACATTGGACTTAAAGGTGAAGGTGCTAATA
*
451812 TGCTGATTCAAGGCCTAGCGATATTAGACTTAAAGATGAAGGTGCCA
1 TGCTGATTCAAGGCC-AGCGATATTGGACTTAAAGATGAAGGTGCCA
451859 CCAACTTGTG
Statistics
Matches: 138, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
98 107 0.78
99 31 0.22
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (98 bp):
TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCT
ACAACATTGGACTTAAAGGTGAAGGTGCTAATA
Found at i:451926 original size:28 final size:29
Alignment explanation
Indices: 451867--452103 Score: 220
Period size: 28 Copynumber: 8.3 Consensus size: 29
451857 CACCAACTTG
**
451867 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
* *
451896 TGTGTGCTTTTG-AAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* * **
451924 TGTGGGC-TTTGAAAGGGGTGCCGCCAACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
*
451953 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* * * *
451981 TGTGGGCTTTTGAAAAGATGCCATTGATT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
452010 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
452038 TGTGGGCTTTT-AAAGGTTCCCACTAACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* * *
452066 TTTGGGC-TTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
452094 TGTGAGCTTT
1 TGTGGGCTTT
452104 GGATGGTGAG
Statistics
Matches: 170, Mismatches: 29, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
27 12 0.07
28 96 0.56
29 59 0.35
30 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:451951 original size:57 final size:58
Alignment explanation
Indices: 451867--452103 Score: 229
Period size: 57 Copynumber: 4.2 Consensus size: 58
451857 CACCAACTTG
* * *
451867 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAAGGGATGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
451924 TGTGGGC-TTTGAAAGGGGTGCCGCCAACTTGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTGAAAGGGATGCCACCAACTTGTGGGCTTTTG--AAGGTTGCCACTGACT
* *** *
451981 TGTGGGCTTTTGAAA-AGATGCCATTGATTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGATGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * * * * *
452038 TGTGGGCTTTT-AAA-GGTTCCCACTAACTTTTGGGC-TTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGGATGCCACCAACTTGTGGGCTTTTG-AAGGTTGCCACTGACT
*
452094 TGTGAGCTTT
1 TGTGGGCTTT
452104 GGATGGTGAG
Statistics
Matches: 150, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
55 4 0.03
56 60 0.40
57 71 0.47
58 15 0.10
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGGATGCCACCAACTTGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:452041 original size:85 final size:88
Alignment explanation
Indices: 451852--452103 Score: 277
Period size: 85 Copynumber: 2.9 Consensus size: 88
451842 TAAAGATGAA
* * * * *
451852 GGTGCCACCAACTTGTGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTG
1 GGTGCCACCAAC-T-TGTGGGC-TTTGAAAAGGTTGCCACTAACTTGTGGGCTTTTGAAAAGATG
*
451915 CCACTGCCTTGTGGGC-TTTGAAAGG
63 CCACTGACTTGTGGGCTTTTGAAAGG
*
451940 GGTGCCGCCAACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTTGAAAAGATGCCA
1 GGTGCCACCAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCA
* *
452004 TTGATTTGTGGGCTTTTG-AA-G
66 CTGACTTGTGGGCTTTTGAAAGG
* ** * * *
452025 GTTGCCACTGACTTGTGGGCTTT-TAAAGGTTCCCACTAACTTTTGGGC-TTTGAAAAGATGCCA
1 GGTGCCACCAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCA
*
452088 CTGACTTGTGAGCTTT
66 CTGACTTGTGGGCTTT
452104 GGATGGTGAG
Statistics
Matches: 141, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
84 35 0.25
85 63 0.45
86 27 0.19
87 5 0.04
88 11 0.08
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (88 bp):
GGTGCCACCAACTTGTGGGCTTTGAAAAGGTTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCA
CTGACTTGTGGGCTTTTGAAAGG
Found at i:452511 original size:37 final size:37
Alignment explanation
Indices: 452469--452553 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
452459 AAAGATGAAG
*
452469 CACAAATGCATCATGCAAAATGAAATCTTATGAATGT
1 CACAAATGCATCATGCAAAATAAAATCTTATGAATGT
*
452506 CACAAATGCATCATGCAAAATAAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATAAAATCTTATGAATGT
*
452543 CATAAATGCAT
1 CACAAATGCAT
452554 GATTGTGGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATAAAATCTTATGAATGT
Found at i:453589 original size:11 final size:11
Alignment explanation
Indices: 453573--453625 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
453563 ATCCGGACCC
453573 TTTTTTTGTTA
1 TTTTTTTGTTA
*
453584 TTTTTTTCTT-
1 TTTTTTTGTTA
*
453594 TTTGTTTT-TTG
1 TTT-TTTTGTTA
453605 TTTTTTTGTTA
1 TTTTTTTGTTA
453616 TTTTTTTGTT
1 TTTTTTTGTT
453626 TTTGGTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTTA
Found at i:453595 original size:17 final size:16
Alignment explanation
Indices: 453573--453629 Score: 80
Period size: 16 Copynumber: 3.5 Consensus size: 16
453563 ATCCGGACCC
453573 TTTTTTTGTTATTTTT
1 TTTTTTTGTTATTTTT
*
453589 TTCTTTTTGTT-TTTTG
1 TT-TTTTTGTTATTTTT
453605 TTTTTTTGTTATTTTT
1 TTTTTTTGTTATTTTT
453621 TTGTTTTTG
1 TT-TTTTTG
453630 GTTTTTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 8 0.22
16 14 0.39
17 14 0.39
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.84
Consensus pattern (16 bp):
TTTTTTTGTTATTTTT
Found at i:453613 original size:32 final size:33
Alignment explanation
Indices: 453573--453636 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
453563 ATCCGGACCC
453573 TTTTTTTGTTATTTTTTTCTTTTT-GTTTTTTG
1 TTTTTTTGTTATTTTTTTCTTTTTGGTTTTTTG
*
453605 TTTTTTTGTTATTTTTTTGTTTTTGGTTTTTT
1 TTTTTTTGTTATTTTTTTCTTTTTGGTTTTTT
453637 TAGTCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.03, C:0.02, G:0.11, T:0.84
Consensus pattern (33 bp):
TTTTTTTGTTATTTTTTTCTTTTTGGTTTTTTG
Found at i:453633 original size:26 final size:27
Alignment explanation
Indices: 453592--453650 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 27
453582 TATTTTTTTC
*
453592 TTTTTGTTTTTTGTTTTTTT-GT-TATT
1 TTTTTGTTTTTGGTTTTTTTAGTCT-TT
453618 TTTTTGTTTTTGGTTTTTTTAGTCTTT
1 TTTTTGTTTTTGGTTTTTTTAGTCTTT
453645 TTTTTG
1 TTTTTG
453651 CGGAAGATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 19 0.63
27 10 0.33
28 1 0.03
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.81
Consensus pattern (27 bp):
TTTTTGTTTTTGGTTTTTTTAGTCTTT
Found at i:459717 original size:93 final size:94
Alignment explanation
Indices: 459539--459803 Score: 278
Period size: 93 Copynumber: 2.9 Consensus size: 94
459529 CATATACTAT
* * * ** * * *
459539 TAGATGATATTGGTGCATCACAAAGCCT-ATTTTCCTTAGGGAAAG--GGT-GCAACCCATACAT
1 TAGATGGTATTGATGCATCACAAAGCCTAATTTTCATTAGGGAAAGAATATCCCGA-CCACACAT
*
459600 TCCC-AATCATATCTCCTTTATCCAACCAA
65 TCCCTAATCATATCTCCTTCATCCAACCAA
* ** * **
459629 TAGATGGTATTGATGTATCACAAAGGTTAATTTTC-TTGGGGCAAA-AATATGTCGACCACACAT
1 TAGATGGTATTGATGCATCACAAAGCCTAATTTTCATTAGGG-AAAGAATATCCCGACCACACAT
*
459692 TCCCTAATCATATCTCCTTCATCCAACCAC
65 TCCCTAATCATATCTCCTTCATCCAACCAA
* * *
459722 TAGATGGTATTGATGCATCACAAAGCCTGATTTTCATTAGGGAAAGGATATCCCGACCACTCATT
1 TAGATGGTATTGATGCATCACAAAGCCTAATTTTCATTAGGGAAAGAATATCCCGACCACACATT
459787 -CCTAATCATAT-TCCTTC
66 CCCTAATCATATCTCCTTC
459804 TTTTAGCCAC
Statistics
Matches: 145, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
90 28 0.19
91 9 0.06
92 18 0.12
93 70 0.48
94 20 0.14
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (94 bp):
TAGATGGTATTGATGCATCACAAAGCCTAATTTTCATTAGGGAAAGAATATCCCGACCACACATT
CCCTAATCATATCTCCTTCATCCAACCAA
Found at i:460086 original size:47 final size:46
Alignment explanation
Indices: 460008--460283 Score: 256
Period size: 47 Copynumber: 5.9 Consensus size: 46
459998 ATTTACATTC
***
460008 GTTTGACTATATTGGCATTAAAACCTAGTCAAACT-TTTTCTACCTT
1 GTTTGACTATATTGGCATTAGGGCCTAGTCAAACTCTTTTC-ACCTT
* * *
460054 CATTTGACTATATTGGCATTAGGGCCTGGTCAAACTCTTATCACCCTT
1 -GTTTGACTATATTGGCATTAGGGCCTAGTCAAACTCTTTTCA-CCTT
** *
460102 GTTTGACTATATTGGTGTTAGGTCCTAGTCAAACTCTTTTCACTCTT
1 GTTTGACTATATTGGCATTAGGGCCTAGTCAAACTCTTTTCAC-CTT
460149 GTTTGAC-AGTATTGGCATTAGGAG-CTAGTCAAACT-TTTTCCACCTT
1 GTTTGACTA-TATTGGCATTAGG-GCCTAGTCAAACTCTTTT-CACCTT
** * * *
460195 CGTTTGACTGCATTAGCATTAAGGCCTAGTCAAACTCTTCTCACCATT
1 -GTTTGACTATATTGGCATTAGGGCCTAGTCAAACTCTTTTCACC-TT
* * * * * *
460243 GTTTGATTGTATTAGCATTA-GTCCTGGTCGAACTCTTTTCA
1 GTTTGACTATATTGGCATTAGGGCCTAGTCAAACTCTTTTCA
460284 TCCTCATTCG
Statistics
Matches: 192, Mismatches: 26, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
46 27 0.14
47 152 0.79
48 13 0.07
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.39
Consensus pattern (46 bp):
GTTTGACTATATTGGCATTAGGGCCTAGTCAAACTCTTTTCACCTT
Found at i:460494 original size:84 final size:82
Alignment explanation
Indices: 460352--460906 Score: 386
Period size: 85 Copynumber: 6.6 Consensus size: 82
460342 AGTATCGCTT
* ** * * * *
460352 TTCATCCCTTGTTTACCTATTGGCTTAGTCCTCAGAAAACCCCTTATCCCCTCA--GTGACCTAT
1 TTCATCCATTGTTTACCTATCAGCTCAGTCC-CCGTAAACCCCTTA-CACCT-ATGGTGACCTAT
* * * *
460415 CAGTTTATTCTCGGTCAACC
63 CAGCTTAGTCCCAGTCAACC
* * * * * *
460435 TTTCATCCTTTGTTTACTTATCAACTTAGTCCCCGATAAACCCCTTACACCTATGGTGACCTGTT
1 -TTCATCCATTGTTTACCTATCAGCTCAGTCCCCG-TAAACCCCTTACACCTATGGTGACCTATC
*
460500 AGCTTAGTCACCAGTAAACC
64 AGCTTAGTC-CCAGTCAACC
* * * * * * *
460520 TGCATCCCATTGTTCACCTGTCGGCTCAGTCCCTAGTAAACCCCTTATC-CTCTCT-GTGACTTA
1 TTCAT-CCATTGTTTACCTATCAGCTCAGTCCC-CGTAAACCCCTTA-CAC-CTATGGTGACCTA
*
460583 TCGGCTTAGTCCCTAGTCAACCC
62 TCAGCTTAGTCCC-AGTCAA-CC
* * * * * * * *
460606 TTCATCCCTTGTTTACCTATCGGCTTAATCCCAGTAAACCACTTACACATATGGTGACCTGTCAG
1 TTCATCCATTGTTTACCTATCAGCTCAGTCCCCGTAAACCCCTTACACCTATGGTGACCTATCAG
*
460671 CTTAGTCTCTAGTCAACC
66 CTTAGTC-CCAGTCAACC
** * * * *
460689 TTCATTCC-TTGTTTACCTATTGGCTCAATCCCTGGTAAACCCCTTACACCTATGTTGACCTACC
1 TTCA-TCCATTGTTTACCTATCAGCTCAGTCCC-CGTAAACCCCTTACACCTATGGTGACCTATC
***
460753 AGCTTAGTCTTTGATCAACC
64 AGCTTAGTCCCAG-TCAACC
* * * *
460773 TTTATCTCATTGTTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTTTCCCCT-TGGTGACCTAT
1 TTCATC-CATTGTTTACCTATCAGCTCAGTCCCC-GTAAACCCC-TTACACCTATGGTGACCTAT
* *
460837 C-GATTTAGTCCCCGATCAACCC
63 CAG-CTTAGTCCCAG-TCAA-CC
* * *
460859 TTCATCCCTTGTTTACTTATCAGATCAGTCCCCGTAAACCCCTTACAC
1 TTCATCCATTGTTTACCTATCAGCTCAGTCCCCGTAAACCCCTTACAC
460907 GTAAGCTCAG
Statistics
Matches: 375, Mismatches: 74, Indels: 45
0.76 0.15 0.09
Matches are distributed among these distances:
82 1 0.00
83 45 0.12
84 149 0.40
85 156 0.42
86 24 0.06
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.34
Consensus pattern (82 bp):
TTCATCCATTGTTTACCTATCAGCTCAGTCCCCGTAAACCCCTTACACCTATGGTGACCTATCAG
CTTAGTCCCAGTCAACC
Found at i:460594 original size:43 final size:42
Alignment explanation
Indices: 460523--460761 Score: 150
Period size: 43 Copynumber: 5.6 Consensus size: 42
460513 GTAAACCTGC
* * *
460523 ATCCCATTGTTCACCTGTCGGCTCAGTCCCTAGTAAACCCCTT
1 ATCCC-TTGTTGACCTATCGGCTTAGTCCCTAGTAAACCCCTT
* *
460566 ATCCTCTCTG-TGACTTATCGGCTTAGTCCCTAGTCAA-CCCTT
1 ATCC-CT-TGTTGACCTATCGGCTTAGTCCCTAGTAAACCCCTT
* * *
460608 CATCCCTTGTTTACCTATCGGCTTAATCCC-AGTAAACCACTT
1 -ATCCCTTGTTGACCTATCGGCTTAGTCCCTAGTAAACCCCTT
* * * * * *
460650 A-CACATATGGTGACCTGTCAGCTTAGTCTCTAGTCAA--CCTT
1 ATC-CCT-TGTTGACCTATCGGCTTAGTCCCTAGTAAACCCCTT
* * * * * *
460691 CATTCCTTGTTTACCTATTGGCTCAATCCCTGGTAAACCCCTT
1 -ATCCCTTGTTGACCTATCGGCTTAGTCCCTAGTAAACCCCTT
* *
460734 A-CACCTATGTTGACCTACCAGCTTAGTC
1 ATC-CCT-TGTTGACCTATCGGCTTAGTC
460762 TTTGATCAAC
Statistics
Matches: 144, Mismatches: 38, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
40 1 0.01
41 33 0.23
42 52 0.36
43 55 0.38
44 3 0.02
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (42 bp):
ATCCCTTGTTGACCTATCGGCTTAGTCCCTAGTAAACCCCTT
Found at i:460802 original size:253 final size:252
Alignment explanation
Indices: 460352--461144 Score: 618
Period size: 253 Copynumber: 3.2 Consensus size: 252
460342 AGTATCGCTT
* * * *
460352 TTCATCCCTTGTTTACCTATTGGCTTAGTCCTCAGAAAACCCCTTATCCCCTCAGTGACCTATCA
1 TTCATCCCTTGTTTACCTATCGGCTTAGTCC-CAGTAAACCCCTTA-CACATCAGTGACCTATCA
* * * * * *
460417 GTTTATTCTCGGTCAACCTTTCATCCTTTGTTTACTTATCAACTTAGTCCCCGATAAACCCCTTA
64 GCTTAGTCTCAGTCAACCTTTCATCCTTTGTTTACCTATCAACTCAATCCCCGATAAACCCCTTA
*** *
460482 CACCTATGGTGACCTGTTAGCTTAGTCACCAGTAAACCTGCATCCCATTGTTCACCTGTCGGCTC
129 CACCTATGGTGACCTACCAGCTTAGTCACCAGTAAACCTGCATCCCATTGTTCACCTGTCAGCTC
* * * *
460547 AGTCCCTAGTAAACCCCTTATCCTCTCT-GTGACTTATCGGCTTAGTCCCTAG-TCAACCC
194 AGTCCCCAGTAAACCCCTTATCCCCT-TGGTGACCTATCGACTTAGTCCC-AGATCAACCC
* * *
460606 TTCATCCCTTGTTTACCTATCGGCTTAATCCCAGTAAACCACTTACACAT-ATGGTGACCTGTCA
1 TTCATCCCTTGTTTACCTATCGGCTTAGTCCCAGTAAACCCCTTACACATCA--GTGACCTATCA
*** * *
460670 GCTTAGTCTCTAGTCAACC-TTCATTCC-TTGTTTACCTATTGGCTCAATCCCTGGTAAACCCCT
64 GCTTAGTCTC-AGTCAACCTTTCA-TCCTTTGTTTACCTATCAACTCAATCCCCGATAAACCCCT
* *** * ** * *
460733 TACACCTATGTTGACCTACCAGCTTAGTC-TTTGATCAACCTTTATCTCATTGTTTACCTGTCAG
127 TACACCTATGGTGACCTACCAGCTTAGTCACCAG-TAAACCTGCATCCCATTGTTCACCTGTCAG
* * * *
460797 CTCAGTCCCCGGTAAACCCCTTTTCCCCTTGGTGACCTATCGATTTAGTCCCCGATCAACCC
191 CTCAGTCCCCAGTAAACCCCTTATCCCCTTGGTGACCTATCGACTTAGTCCCAGATCAACCC
* * * * *
460859 TTCATCCCTTGTTTACTTATCAGATCAGTCCCCGTAAACCCCTT--ACA-C---G---TA--AGC
1 TTCATCCCTTGTTTACCTATCGGCTTAGTCCCAGTAAACCCCTTACACATCAGTGACCTATCAGC
* * * * * * * * *
460913 TCAGTCTCCAATCAACCTTT-ATCTCATTATTTACCTATCAACTTAGTCTCCAATAAACCCTTTA
66 TTAGTCT-CAGTCAACCTTTCATC-CTTTGTTTACCTATCAACTCAATCCCCGATAAACCCCTTA
* * * * * ** * * * * * * *
460977 CACCTATGGTGACTTGCCAGTTTAGCCTCTGGTCAACCTTCATCTCATTTTTTA-CTATTAGCTC
129 CACCTATGGTGACCTACCAGCTTAGTCACCAGTAAACCTGCATCCCATTGTTCACCTGTCAGCTC
* * * * * * * * ***
461041 AGTCCTCGGTAAACCCCTTAT-CCCTCGGTGTCTTGTCAACTTAATCTTTGATCAACCC
194 AGTCCCCAGTAAACCCCTTATCCCCTTGGTGACCTATCGACTTAGTCCCAGATCAACCC
* *
461099 TTCATCCCTTATTTACCTATCGGCTCAGTCCCTAGTAAACCCCTTA
1 TTCATCCCTTGTTTACCTATCGGCTTAGTCCC-AGTAAACCCCTTA
461145 TCCTTTTGGT
Statistics
Matches: 436, Mismatches: 88, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
240 57 0.13
241 56 0.13
242 72 0.17
243 3 0.01
246 1 0.00
251 4 0.01
252 6 0.01
253 198 0.45
254 39 0.09
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (252 bp):
TTCATCCCTTGTTTACCTATCGGCTTAGTCCCAGTAAACCCCTTACACATCAGTGACCTATCAGC
TTAGTCTCAGTCAACCTTTCATCCTTTGTTTACCTATCAACTCAATCCCCGATAAACCCCTTACA
CCTATGGTGACCTACCAGCTTAGTCACCAGTAAACCTGCATCCCATTGTTCACCTGTCAGCTCAG
TCCCCAGTAAACCCCTTATCCCCTTGGTGACCTATCGACTTAGTCCCAGATCAACCC
Found at i:460832 original size:169 final size:166
Alignment explanation
Indices: 460352--461171 Score: 498
Period size: 169 Copynumber: 4.9 Consensus size: 166
460342 AGTATCGCTT
* *
460352 TTCATCCCTTGTTTACCTATTGGCTTAGT-CCTCAGAAAACCCCTTATCCCCTCA-GTGACCTAT
1 TTCATCCCTTGTTTACCTATTGGCTCAGTCCCT-AGTAAACCCCTTAT-CCCT-ATGTGACCTAT
* * * * * * * *
460415 CAGTTTATTCTCGGTCAACCTTTCATCCTTTGTTTACTTATCAACTTAGTCCCCGATAAACCCCT
63 CAGCTTAGTCTTGATCAACCTTT-ATCCATTGTTTACCTATCAGCTTAGTCCCCGGTAAACCCCT
*
460480 TACACCTATGGTGACCTGTTAGCTTAGTCACCAGTAAACC
127 TACACCTATGGTGACCTGTCAGCTTAGTCACCAGTAAACC
* * * * * *
460520 TGCATCCCATTGTTCACCTGTCGGCTCAGTCCCTAGTAAACCCCTTATCCTCTCTGTGACTTATC
1 TTCATCCC-TTGTTTACCTATTGGCTCAGTCCCTAGTAAACCCCTTATCC-CTATGTGACCTATC
* * * * * * * *
460585 GGCTTAGTCCCT-AGTCAACCCTTCATCCCTTGTTTACCTATCGGCTTAAT-CCCAGTAAACCAC
64 AGCTTAGT-CTTGA-TCAA-CCTTTATCCATTGTTTACCTATCAGCTTAGTCCCCGGTAAACCCC
* * * *
460648 TTACACATATGGTGACCTGTCAGCTTAGTCTCTAGTCAACC
126 TTACACCTATGGTGACCTGTCAGCTTAGTCACCAGTAAACC
* * * *
460689 TTCATTCCTTGTTTACCTATTGGCTCAATCCCTGGTAAACCCCTTA-CACCTATGTTGACCTACC
1 TTCATCCCTTGTTTACCTATTGGCTCAGTCCCTAGTAAACCCCTTATC-CCTATG-TGACCTATC
* *
460753 AGCTTAGTCTTTGATCAACCTTTATCTCATTGTTTACCTGTCAGCTCAGTCCCCGGTAAACCCCT
64 AGCTTAGTC-TTGATCAACCTTTATC-CATTGTTTACCTATCAGCTTAGTCCCCGGTAAACCCC-
* * * * * *
460818 TTTCCCCT-TGGTGACCTATC-GATTTAGTC-CCCGATCAACCC
126 TTACACCTATGGTGACCTGTCAG-CTTAGTCACCAG-T-AAACC
* ** * * *
460859 TTCATCCCTTGTTTACTTATCAGATCAGTCCC-CGTAAACCCCTTA---C------ACGTA--AG
1 TTCATCCCTTGTTTACCTATTGGCTCAGTCCCTAGTAAACCCCTTATCCCTATGTGACCTATCAG
* ** * * * ** *
460912 CTCAGTCTCCAATCAACCTTTATCTCATTATTTACCTATCAACTTAGTCTCCAATAAACCCTTTA
66 CTTAGTCT-TGATCAACCTTTATC-CATTGTTTACCTATCAGCTTAGTCCCCGGTAAACCCCTTA
* * * * * ** *
460977 CACCTATGGTGACTTGCCAGTTTAGCCTCTGGTCAACC
129 CACCTATGGTGACCTGTCAGCTTAGTCACCAGTAAACC
* * * * ** * * *
461015 TTCATCTCATTTTTTA-CTATTAGCTCAGT-CCTCGGTAAACCCCTTATCCCTCGGTGTCTTGTC
1 TTCATC-CCTTGTTTACCTATTGGCTCAGTCCCT-AGTAAACCCCTTATCCCTATGTGACCTATC
* * * * * * * **
461078 AACTTAATCTTTGATCAACCCTTCATCCCTTATTTACCTATCGGCTCAGTCCCTAGTAAACCCCT
64 AGCTTAGTC-TTGATCAA-CCTTTATCCATTGTTTACCTATCAGCTTAGTCCCCGGTAAACCCCT
* * *
461143 TATC-CTTTTGGTGACCTGTCAACTTAGTC
127 TA-CACCTATGGTGACCTGTCAGCTTAGTC
461172 TTTGGTCAAC
Statistics
Matches: 498, Mismatches: 116, Indels: 76
0.72 0.17 0.11
Matches are distributed among these distances:
155 2 0.00
156 26 0.05
157 86 0.17
158 3 0.01
159 4 0.01
160 1 0.00
166 3 0.01
167 13 0.03
168 144 0.29
169 149 0.30
170 63 0.13
171 4 0.01
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (166 bp):
TTCATCCCTTGTTTACCTATTGGCTCAGTCCCTAGTAAACCCCTTATCCCTATGTGACCTATCAG
CTTAGTCTTGATCAACCTTTATCCATTGTTTACCTATCAGCTTAGTCCCCGGTAAACCCCTTACA
CCTATGGTGACCTGTCAGCTTAGTCACCAGTAAACC
Found at i:460902 original size:42 final size:42
Alignment explanation
Indices: 460782--460903 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
460772 CTTTATCTCA
* * *
460782 TTGTTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTTTCCCC
1 TTGTTTACCTATCAGATCAGTCCCC-GTAAACCCCTTATCCCC
* * * *
460825 TTGGTGACCTATC-GATTTAGTCCCCGATCAA-CCCTTCAT-CCC
1 TTGTTTACCTATCAGA-TCAGTCCCCG-TAAACCCCTT-ATCCCC
*
460867 TTGTTTACTTATCAGATCAGTCCCCGTAAACCCCTTA
1 TTGTTTACCTATCAGATCAGTCCCCGTAAACCCCTTA
460904 CACGTAAGCT
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
41 4 0.06
42 34 0.55
43 24 0.39
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.33
Consensus pattern (42 bp):
TTGTTTACCTATCAGATCAGTCCCCGTAAACCCCTTATCCCC
Found at i:461053 original size:157 final size:157
Alignment explanation
Indices: 460766--461060 Score: 341
Period size: 157 Copynumber: 1.9 Consensus size: 157
460756 TTAGTCTTTG
* * * ** * *
460766 ATCAACCTTTATCTCATTGTTTACCTGTCAGCTCAGTCCCCGGTAAACCCCTTTTCCCCTTGGTG
1 ATCAACCTTTATCTCATTATTTACCTATCAACTCAGTCCCCAATAAACCCCTTTACACCTTGGTG
* *
460831 ACCTATCGATTTAGTCCCCGATCAACCCTTCATCCCTTGTTTACTTATCAGATCAGTCCCCGTAA
66 ACCTATCCATTTAGTCCCCGATCAACCCTTCATCCATTGTTTACTTATCAGATCAGTCCCCGTAA
460896 ACCCCTTACACGTAAGCTCAGTCTCCA
131 ACCCCTTACACGTAAGCTCAGTCTCCA
* *
460923 ATCAACCTTTATCTCATTATTTACCTATCAACTTAGTCTCCAATAAA-CCCTTTACACCTATGGT
1 ATCAACCTTTATCTCATTATTTACCTATCAACTCAGTCCCCAATAAACCCCTTTACACCT-TGGT
* * * * *
460987 GA-CT-TGCCAGTTTAG-CCTCTGGTCAA-CCTTCATCTCATTTTTTAC-TATTAGCTCAGTCCT
65 GACCTAT-CCA-TTTAGTCC-CCGATCAACCCTTCATC-CATTGTTTACTTATCAGATCAGTCC-
*
461047 CGGTAAACCCCTTA
125 CCGTAAACCCCTTA
461061 TCCCTCGGTG
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
155 1 0.01
156 36 0.31
157 78 0.68
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (157 bp):
ATCAACCTTTATCTCATTATTTACCTATCAACTCAGTCCCCAATAAACCCCTTTACACCTTGGTG
ACCTATCCATTTAGTCCCCGATCAACCCTTCATCCATTGTTTACTTATCAGATCAGTCCCCGTAA
ACCCCTTACACGTAAGCTCAGTCTCCA
Found at i:461195 original size:84 final size:83
Alignment explanation
Indices: 461006--461221 Score: 217
Period size: 84 Copynumber: 2.6 Consensus size: 83
460996 GTTTAGCCTC
* * * *
461006 TGGTCAACCTTCATCTCATTTTTTA-CTATTAGCTCAGTCCTCGGTAAACCCCTTATCCCTCGGT
1 TGGTCAACC-CCATCTCATTATTTACCTATCAGCTCAGTCCTCAGTAAACCCCTTATCCCTCGGT
* *
461070 GTCTTGTCAACTTAATCTT
65 GACCTGTCAACTTAATCTT
* * * * *
461089 TGATCAACCCTTCATC-CCTTATTTACCTATCGGCTCAGTCC-CTAGTAAACCCCTTATCCTTTT
1 TGGTCAACCC--CATCTCATTATTTACCTATCAGCTCAGTCCTC-AGTAAACCCCTTATCC-CTC
*
461152 GGTGACCTGTCAACTTAGTCTT
62 GGTGACCTGTCAACTTAATCTT
*
461174 TGGTCAACCCCATCTCATTATTTA-CTCATCAGC-CTAGTCCTTAGTAAA
1 TGGTCAACCCCATCTCATTATTTACCT-ATCAGCTC-AGTCCTCAGTAAA
461222 TCTTTTATCC
Statistics
Matches: 108, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
83 23 0.21
84 56 0.52
85 29 0.27
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (83 bp):
TGGTCAACCCCATCTCATTATTTACCTATCAGCTCAGTCCTCAGTAAACCCCTTATCCCTCGGTG
ACCTGTCAACTTAATCTT
Found at i:463071 original size:309 final size:312
Alignment explanation
Indices: 462436--463148 Score: 694
Period size: 311 Copynumber: 2.3 Consensus size: 312
462426 TTAGGATAGC
* * * * * * * * *
462436 TTCATCCCATCTTTAATCTTTTTGAGTCCTTT-AGGGTTA-CTAGATACTTTTACGTCGATGGTA
1 TTCATCTCATCTATAAACATTTTAAGTCCTTTAAGGG-TACCAAGATACTTTCACGTCGAAGGCA
* * * * * * * * ** * **
462499 TACCCAT-AGGGTATTTTTGTAATTTTTTAGAATCGAGTCTTAGGTTTTCACCGGGTTTGCTTTT
65 T-CCCATAAGGGTATTTCTATAATTTTTAAAAATCGAGTCCTCGATTATCACTAGATCCGCTTTT
** * * * * * *
462563 ATATCGAAGATGGGTATTTAGGATAGGTTCATCTTTTTATGATCATTTTTAAGTCCTTTTTGGGT
129 ATGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGATCATTTTTAAGTCCTTTTAGGGT
* * * * *
462628 TACTGGGATACTTTCACGTCGAAGGTATACCCATAAGGACATTTTCATAATTTTTCTAGAAATGA
194 TACCGAGATACTTTCACATCAAAGCTATACCCATAAGGACATTTTCATAATTTTTCTAGAAATGA
* * * * * *
462693 GTCTGGGTTGTCATTGAGTCCATTTTTATGCCGAAGGTGGATATTTAGGTTAGG
259 GTCTAGGTTCTCATAGAGTCCACTTTTATGCCGAAAGTGGATATTTAGGTTAAG
* * *
462747 TTCATCTCATCTATAAACATTTTAAGTCTTTTAAGGGTACTAGGATACTTTCACGTCGAAGGCAT
1 TTCATCTCATCTATAAACATTTTAAGTCCTTTAAGGGTACCAAGATACTTTCACGTCGAAGGCAT
462812 -CCAT-AGGGATATTTCTATAATTTTTAAAAATCGAGTCCTCGATTATCACTAGATCCGCTTTTA
66 CCCATAAGGG-TATTTCTATAATTTTTAAAAATCGAGTCCTCGATTATCACTAGATCCGCTTTTA
462875 TGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGAT-ATTTTTAAGT-CTTTTAGGGTT
130 TGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGATCATTTTTAAGTCCTTTTAGGGTT
* ** ** ** *
462938 ACCGAGATATTTTTGCATCAAAGCTATACCCATAATTACATTTTTGTAATTTTTCTAGAACCCT-
195 ACCGAGATACTTTCACATCAAAGCTATACCCATAAGGACATTTTCATAATTTTTCTAGAA--ATG
** *
463002 A-TCCTAGGTTCTCACTAG-GTCTGCTTTTATGTCGAAAGTGGATATTTAGGTTAAG
258 AGT-CTAGGTTCTCA-TAGAGTCCACTTTTATGCCGAAAGTGGATATTTAGGTTAAG
* * * * * *
463057 TT-ATC-CTGTCTATAATCCTTTTTAGTCCTTTAAGGGTACCAAGATACTTTCACGTTGAAGGTA
1 TTCATCTC-ATCTATAAACATTTTAAGTCCTTTAAGGGTACCAAGATACTTTCACGTCGAAGGCA
* * *
463120 TCCCCTAAGGGTATTTTTGTAATTTTTAA
65 TCCCATAAGGGTATTTCTATAATTTTTAA
463149 GACCTAGTCC
Statistics
Matches: 325, Mismatches: 67, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
308 1 0.00
309 110 0.34
310 80 0.25
311 111 0.34
312 23 0.07
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (312 bp):
TTCATCTCATCTATAAACATTTTAAGTCCTTTAAGGGTACCAAGATACTTTCACGTCGAAGGCAT
CCCATAAGGGTATTTCTATAATTTTTAAAAATCGAGTCCTCGATTATCACTAGATCCGCTTTTAT
GCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGATCATTTTTAAGTCCTTTTAGGGTTA
CCGAGATACTTTCACATCAAAGCTATACCCATAAGGACATTTTCATAATTTTTCTAGAAATGAGT
CTAGGTTCTCATAGAGTCCACTTTTATGCCGAAAGTGGATATTTAGGTTAAG
Found at i:463183 original size:309 final size:310
Alignment explanation
Indices: 462350--463207 Score: 794
Period size: 309 Copynumber: 2.8 Consensus size: 310
462340 AGGTATGCCT
* * * * * *
462350 TAAGGGCATTTTCATAA-TTTTCAAGAACTAACTCCTAGG-TCGTCACTAGGTCTGCTTCTATGC
1 TAAGGACATTTTCATAATTTTTCTAGAAATGAGTCCTAGGTTC-TCACTAGGTCTGCTTTTATGC
** * * *
462413 TGAAGGTGGGCATTTAGGAT-AGCTTCATCCCATCTTTAAT-CTTTTTGAGTCCTTT-AGGGTTA
65 -GAAGGTGGATATTTAGGTTAAG-TTCATCCTATCTATAATCCTTTTT-AGTCCTTTAAGGG-TA
* * * *
462475 -CTAGATACTTTTACGTCGATGGTATACCC-ATAGGGTATTTTTGTAATTTTTTAGAATCGAGTC
126 CCAAGATACTTTCACGTCGAAGGTAT-CCCTA-AGGGTATTTTTGTAATTTTTAAG-ATCGAGTC
* * ** ** * * * * *
462538 TTAGGTTTTCACCGGGTTTGCTTTTATATCGAAGATGGGTATTTAGGATAGGTTCATCTTTTTAT
188 CTAGGTTATCACTAGGTTTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAG
* * * * * *
462603 GATCATTTTTAAGTCCTTTTTGGGTTACTGGGATACTTTCACGTCGAAGGTATACCCA
253 GATCATTTTTAAGTCCTTTTAGGGTTACCGAGATACTTTCACATCAAAGCTATACCCA
* * * ***
462661 TAAGGACATTTTCATAATTTTTCTAGAAATGAGT-CTGGGTTGTCA-TTGAGTCCATTTTTATGC
1 TAAGGACATTTTCATAATTTTTCTAGAAATGAGTCCTAGGTTCTCACTAG-GTCTGCTTTTATG-
* * * * * *
462724 CGAAGGTGGATATTTAGGTTAGGTTCAT-CTCATCTATAAACATTTTAAGTCTTTTAAGGGTACT
64 CGAAGGTGGATATTTAGGTTAAGTTCATCCT-ATCTATAATCCTTTTTAGTCCTTTAAGGGTACC
* * * * * * *
462788 AGGATACTTTCACGTCGAAGGCATCCAT-AGGGATATTTCTATAATTTTTAAAAATCGAGTCCTC
128 AAGATACTTTCACGTCGAAGGTATCCCTAAGGG-TATTTTTGTAATTTTT-AAGATCGAGTCCTA
* * **
462852 GATTATCACTAGATCCGCTTTTATGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGAT
191 GGTTATCACTAGGTTTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGAT
* **
462917 -ATTTTTAAGT-CTTTTAGGGTTACCGAGATATTTTTGCATCAAAGCTATACCCA
256 CATTTTTAAGTCCTTTTAGGGTTACCGAGATACTTTCACATCAAAGCTATACCCA
** ** *
462970 TAATTACATTTTTGTAATTTTTCTAGAACCCT-A-TCCTAGGTTCTCACTAGGTCTGCTTTTATG
1 TAAGGACATTTTCATAATTTTTCTAGAA--ATGAGTCCTAGGTTCTCACTAGGTCTGCTTTTATG
* *
463033 TCGAAAGTGGATATTTAGGTTAAGTT-ATCCTGTCTATAATCCTTTTTAGTCCTTTAAGGGTACC
64 -CGAAGGTGGATATTTAGGTTAAGTTCATCCTATCTATAATCCTTTTTAGTCCTTTAAGGGTACC
* * *
463097 AAGATACTTTCACGTTGAAGGTATCCCCTAAGGGTATTTTTGTAATTTTTAAGACCTAGTCCTAG
128 AAGATACTTTCACGTCGAAGGTAT-CCCTAAGGGTATTTTTGTAATTTTTAAGATCGAGTCCTAG
* * * * *
463162 GTTGTCATTAGGTTTGCTTTTATGCCAAAAGTGGATATTTAAGATA
192 GTTATCACTAGGTTTGCTTTTATGCCAAAGGTGGGTATTTAGGATA
463208 AGTTCATCCC
Statistics
Matches: 431, Mismatches: 97, Indels: 40
0.76 0.17 0.07
Matches are distributed among these distances:
309 157 0.36
310 79 0.18
311 152 0.35
312 43 0.10
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (310 bp):
TAAGGACATTTTCATAATTTTTCTAGAAATGAGTCCTAGGTTCTCACTAGGTCTGCTTTTATGCG
AAGGTGGATATTTAGGTTAAGTTCATCCTATCTATAATCCTTTTTAGTCCTTTAAGGGTACCAAG
ATACTTTCACGTCGAAGGTATCCCTAAGGGTATTTTTGTAATTTTTAAGATCGAGTCCTAGGTTA
TCACTAGGTTTGCTTTTATGCCAAAGGTGGGTATTTAGGATAGATTCATATTTTTAGGATCATTT
TTAAGTCCTTTTAGGGTTACCGAGATACTTTCACATCAAAGCTATACCCA
Found at i:464720 original size:13 final size:13
Alignment explanation
Indices: 464702--464728 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
464692 TACAAGGATC
464702 ATGTATCGATACA
1 ATGTATCGATACA
464715 ATGTATCGATACA
1 ATGTATCGATACA
464728 A
1 A
464729 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:464743 original size:33 final size:32
Alignment explanation
Indices: 464683--464747 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
464673 ACAATTGTAC
* * *
464683 ATGTGTCGATACAAGGATCATGTATCGATACA
1 ATGTATCGATACAAGCATAATGTATCGATACA
464715 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATAC-AAGCATAATGTATCGATACA
464748 TCTCGATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAAGCATAATGTATCGATACA
Found at i:473501 original size:20 final size:19
Alignment explanation
Indices: 473459--473508 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
473449 GTTTAGGATA
473459 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTC-TC
473479 ATGTATCGATACAATGTGC-C
1 ATGTATCGATACAAT-T-CTC
473499 ATGTATCGAT
1 ATGTATCGAT
473509 GCAAACAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 26 0.93
21 1 0.04
22 1 0.04
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGTATCGATACAATTCTC
Found at i:477444 original size:21 final size:21
Alignment explanation
Indices: 477419--477469 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
477409 CCTAGAGTCA
477419 TTGGAAAATGTTAGAGCATGG
1 TTGGAAAATGTTAGAGCATGG
*
477440 TTGGAAAATGTTAGAGCATTG
1 TTGGAAAATGTTAGAGCATGG
*
477461 TTAGAAAAT
1 TTGGAAAAT
477470 CACCAACACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (21 bp):
TTGGAAAATGTTAGAGCATGG
Found at i:492309 original size:13 final size:13
Alignment explanation
Indices: 492291--492316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
492281 CAATTTTTGG
492291 TGTATCGATACAT
1 TGTATCGATACAT
492304 TGTATCGATACAT
1 TGTATCGATACAT
492317 ACTTTGGTGT
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:492313 original size:33 final size:33
Alignment explanation
Indices: 492271--492335 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
492261 TACAAGCCAA
* *
492271 TGTATCGATACA-ATTTTTGGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCAATACAT
492304 TGTATCGATACATACTTTGGTGTATCAATACA
1 TGTATCGATACATACTTTGGTGTATCAATACA
492336 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCAATACAT
Found at i:496993 original size:15 final size:15
Alignment explanation
Indices: 496973--497003 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
496963 ATTTCGTTTG
*
496973 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
496988 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
497003 G
1 G
497004 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:506131 original size:30 final size:29
Alignment explanation
Indices: 506022--506917 Score: 543
Period size: 29 Copynumber: 30.2 Consensus size: 29
506012 AGTAAAGTAA
* *
506022 CCTTTTTAAAAGTCCATAACTCTATGGCACC
1 CCTTTTT-AAAGTCCACAACTCCATGGCA-C
* ** *
506053 CCTTTTT-AAGTCCACATCTCTGTGGCAA
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* ** *
506081 CCTTTTTAAAGTCCATAACTCTGTGGCAT
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
*
506110 CCTTTTTAGAAGTCTACAACTCCATGGCAC
1 CCTTTTTA-AAGTCCACAACTCCATGGCAC
*
506140 CCCTTTTAAAGTCCACAACTCCATGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* *
506169 CC-TTTTAAAATCCACAACTCTATGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* * * *
506197 CATTTTTAAAACTGCACAACTCCATGACAC
1 CCTTTTT-AAAGTCCACAACTCCATGGCAC
* * *
506227 CTCTTTCCTAAAGTCCATAACTCCATGGC-G
1 C-CTTT-TTAAAGTCCACAACTCCATGGCAC
*
506257 CCTTTGTTAAAAGTCCACAACTCTATGGCATCC
1 CCTTT-TT-AAAGTCCACAACTCCATGGCA--C
*
506290 CCTTTTT-AAGTCTACAACTCCATGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* * *
506318 CCCTTTTAAAGTCTACAACTCCGTGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
*
506347 CCTTTTTAAAAGTCAACAACTCCATGGC-C
1 CCTTTTT-AAAGTCCACAACTCCATGGCAC
* ** *
506376 CCTTTTT-CAGTCCACAACTCTGTCGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* * *
506404 CTTTTTTTTAAAGTCCACAACTTCATGGTAAC
1 C--CTTTTTAAAGTCCACAACTCCATGG-CAC
* ***
506436 CTTTTTTTTTTTAAAGTCCACAACTTTGTGG-AC
1 C-----CTTTTTAAAGTCCACAACTCCATGGCAC
* * **
506469 CC-TCTTAAAGTCCATAACTCTGTGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
*
506497 CCTTTTTTTTTAAAGTCCACAACTCCGTGGCAC
1 CC----TTTTTAAAGTCCACAACTCCATGGCAC
* * * *
506530 CC-TCTTAAAGTCAACAACTCCGTGG-AA
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
** *
506557 CCTTTCTTAAAAG-CTCACAACTCTGTGGGAC
1 CCTTT-TT-AAAGTC-CACAACTCCATGGCAC
* * * *
506588 CCTTTTTTAAGTCAAGAACTCCGTGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* *** *
506617 CCCTTTTAAAGTCCACAACTTTGTGG-AA
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
*
506645 CCTTTTTCAAAAGTCCACAACTCTATGGC-C
1 CCTTTTT--AAAGTCCACAACTCCATGGCAC
*
506675 CCTTTTT-AAGTCCACAACTACATGG-A-
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* * *
506701 CCTTTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* * * *
506730 CC-TCTTAATGTCCATAACTCCGTGGCAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
** *
506758 CCTTTTTTTTAAAGTCCACAAC-CTTGTGGTAC
1 CC---TTTTTAAAGTCCACAACTC-CATGGCAC
* ***
506790 CCTTTTTTTAAAAAAAATCCACAACTTTGTGGCAC
1 CC--TTTTT----AAAGTCCACAACTCCATGGCAC
* * * * *
506825 TCTTTTCAAAATCCACAACTTCATGGCTCC
1 CCTTTTTAAAGTCCACAACTCCATGGC-AC
506855 CCTTTTTAAAGTCCACAACTCCATGGCA-
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
* * * * *
506883 ACTTCTTAAAGTCCTCAATTCCATGACAC
1 CCTTTTTAAAGTCCACAACTCCATGGCAC
506912 CCTTTT
1 CCTTTT
506918 CTTTTCATGG
Statistics
Matches: 696, Mismatches: 118, Indels: 104
0.76 0.13 0.11
Matches are distributed among these distances:
26 7 0.01
27 69 0.10
28 121 0.17
29 170 0.24
30 168 0.24
31 53 0.08
32 27 0.04
33 37 0.05
35 44 0.06
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (29 bp):
CCTTTTTAAAGTCCACAACTCCATGGCAC
Found at i:506138 original size:59 final size:57
Alignment explanation
Indices: 506022--506917 Score: 551
Period size: 59 Copynumber: 15.1 Consensus size: 57
506012 AGTAAAGTAA
* * * ** *
506022 CCTTTTTAAAAGTCCATAACTCTATGGCACCCCTTTTT-AAGTCCACATCTCTGTGGCAA
1 CCTTTTT-AAAGTCCACAACTCTGTGGCA--CCTTTTTAAAGTCCACAACTCCATGGCAC
* *
506081 CCTTTTTAAAGTCCATAACTCTGTGGCATCCTTTTTAGAAGTCTACAACTCCATGGCAC
1 CCTTTTTAAAGTCCACAACTCTGTGGCA-CCTTTTTA-AAGTCCACAACTCCATGGCAC
* ** * * *
506140 CCCTTTTAAAGTCCACAACTCCATGGCACCCTTTTAAAATCCACAACTCTATGGCAC
1 CCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTAAAGTCCACAACTCCATGGCAC
* * * ** * * *
506197 CATTTTTAAAACTGCACAACTCCATGACACCTCTTTCCTAAAGTCCATAACTCCATGGC-G
1 CCTTTTT-AAAGTCCACAACTCTGTGGCACCT-TTT--TAAAGTCCACAACTCCATGGCAC
* *
506257 CCTTTGTTAAAAGTCCACAACTCTATGGCATCCCCTTTTT-AAGTCTACAACTCCATGGCAC
1 CCTTT-TT-AAAGTCCACAACTCTGTGGCA---CCTTTTTAAAGTCCACAACTCCATGGCAC
* * * *
506318 CCCTTTTAAAGTCTACAACTCCGTGGCACCCTTTTTAAAAGTCAACAACTCCATGGC-C
1 CCTTTTTAAAGTCCACAACTCTGTGGCA-CCTTTTT-AAAGTCCACAACTCCATGGCAC
* * * *
506376 CCTTTTT-CAGTCCACAACTCTGTCGCACCTTTTTTTTAAAGTCCACAACTTCATGGTAAC
1 CCTTTTTAAAGTCCACAACTCTGTGGCACC---TTTTTAAAGTCCACAACTCCATGG-CAC
* * * * * **
506436 CTTTTTTTTTTTAAAGTCCACAACTTTGTGG-ACCCTCTTAAAGTCCATAACTCTGTGGCAC
1 C-----CTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTAAAGTCCACAACTCCATGGCAC
* * * * * *
506497 CCTTTTTTTTTAAAGTCCACAACTCCGTGGCACCCTCTTAAAGTCAACAACTCCGTGG-AA
1 CC----TTTTTAAAGTCCACAACTCTGTGGCACCTTTTTAAAGTCCACAACTCCATGGCAC
* * * * *
506557 CCTTTCTTAAAAG-CTCACAACTCTGTGGGACCCTTTTTTAAGTCAAGAACTCCGTGGCAC
1 CCTTT-TT-AAAGTC-CACAACTCTGTGGCA-CCTTTTTAAAGTCCACAACTCCATGGCAC
* * * *
506617 CCCTTTTAAAGTCCACAACTTTGTGGAACCTTTTTCAAAAGTCCACAACTCTATGGC-C
1 CCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTT--AAAGTCCACAACTCCATGGCAC
* * * *
506675 CCTTTTT-AAGTCCACAACTAC-ATGG-ACCTTTTTTAAGTCCACAACTCCGTGGCAT
1 CCTTTTTAAAGTCCACAACT-CTGTGGCACCTTTTTAAAGTCCACAACTCCATGGCAC
* * * * ** *
506730 CC-TCTTAATGTCCATAACTCCGTGGCACCCTTTTTTTTAAAGTCCACAAC-CTTGTGGTAC
1 CCTTTTTAAAGTCCACAACTCTGTGGCA-CC---TTTTTAAAGTCCACAACTC-CATGGCAC
* * * * * *
506790 CCTTTTTTTAAAAAAAATCCACAACTTTGTGGCACTCTTTTCAAAATCCACAACTTCATGGCTCC
1 CC--TTTTT----AAAGTCCACAACTCTGTGGCAC-CTTTTTAAAGTCCACAACTCCATGGC-AC
** * * * * *
506855 CCTTTTTAAAGTCCACAACTCCATGGCAACTTCTTAAAGTCCTCAATTCCATGACAC
1 CCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTAAAGTCCACAACTCCATGGCAC
506912 CCTTTT
1 CCTTTT
506918 CTTTTCATGG
Statistics
Matches: 660, Mismatches: 120, Indels: 116
0.74 0.13 0.13
Matches are distributed among these distances:
54 21 0.03
55 15 0.02
56 14 0.02
57 88 0.13
58 131 0.20
59 149 0.23
60 78 0.12
61 70 0.11
62 18 0.03
63 11 0.02
64 21 0.03
65 11 0.02
66 16 0.02
67 17 0.03
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (57 bp):
CCTTTTTAAAGTCCACAACTCTGTGGCACCTTTTTAAAGTCCACAACTCCATGGCAC
Found at i:506267 original size:61 final size:58
Alignment explanation
Indices: 506125--506382 Score: 209
Period size: 61 Copynumber: 4.4 Consensus size: 58
506115 TTAGAAGTCT
** * *
506125 ACAACTCCATGGCACCCCTTTT-AAAGTCCACAACTCCATGGCACCCTTTTAAAATCC
1 ACAACTCCATGGCACCATTTTTAAAACTCCACAACTCCATGACACCCTTTTAAAATCC
* * *
506182 ACAACTCTATGGCACCATTTTTAAAACTGCACAACTCCATGACACCTCTTTCCTAAAGTCC
1 ACAACTCCATGGCACCATTTTTAAAACTCCACAACTCCATGACACC-CTTT--TAAAATCC
* * * * * * * *
506243 ATAACTCCATGGCGCC-TTTGTTAAAAGTCCACAACTCTATGGCATCCCCTTTTTAAGTCT
1 ACAACTCCATGGCACCATTT-TTAAAACTCCACAACTCCATGACA--CCCTTTTAAAATCC
** * * * * *
506303 ACAACTCCATGGCACCCCTTTT-AAAGTCTACAACTCCGTGGCACCCTTTTTAAAAGTCA
1 ACAACTCCATGGCACCATTTTTAAAACTCCACAACTCCATGACACCC-TTTTAAAA-TCC
*
506362 ACAACTCCATGGC-CCCTTTTT
1 ACAACTCCATGGCACCATTTTT
506383 CAGTCCACAA
Statistics
Matches: 165, Mismatches: 26, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
57 22 0.13
58 33 0.20
59 37 0.22
60 25 0.15
61 42 0.25
62 4 0.02
63 2 0.01
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (58 bp):
ACAACTCCATGGCACCATTTTTAAAACTCCACAACTCCATGACACCCTTTTAAAATCC
Found at i:506478 original size:62 final size:61
Alignment explanation
Indices: 506411--506561 Score: 180
Period size: 61 Copynumber: 2.4 Consensus size: 61
506401 CACCTTTTTT
**
506411 TTAAAGTCCACAACTTCATGGTAACCTTTTTTTTTTTAAAGTCCACAACTTTGTGG-ACCCTC
1 TTAAAGTCCACAACTTC-TGG-AACCTTTTTTTTTTTAAAGTCCACAACTCCGTGGCACCCTC
* * * *
506473 TTAAAGTCCATAACTCTGTGGCACC-CTTTTTTTTTAAAGTCCACAACTCCGTGGCACCCTC
1 TTAAAGTCCACAACT-TCTGGAACCTTTTTTTTTTTAAAGTCCACAACTCCGTGGCACCCTC
* *
506534 TTAAAGTCAACAACTCCGTGGAACCTTT
1 TTAAAGTCCACAACTTC-TGGAACCTTT
506562 CTTAAAAGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
60 26 0.36
61 28 0.38
62 18 0.25
63 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (61 bp):
TTAAAGTCCACAACTTCTGGAACCTTTTTTTTTTTAAAGTCCACAACTCCGTGGCACCCTC
Found at i:506487 original size:27 final size:28
Alignment explanation
Indices: 506446--506760 Score: 199
Period size: 28 Copynumber: 11.0 Consensus size: 28
506436 CTTTTTTTTT
*
506446 TTAAAGTCCACAACTTTGTGG-ACCCTC
1 TTAAAGTCCACAACTCTGTGGCACCCTC
* *
506473 TTAAAGTCCATAACTCTGTGGCACCCTTTTTTT
1 TTAAAGTCCACAACTCTGTGGCACCC-----TC
*
506506 TTAAAGTCCACAACTCCGTGGCACCCTC
1 TTAAAGTCCACAACTCTGTGGCACCCTC
* * * *
506534 TTAAAGTCAACAACTCCGTGGAACCTTTC
1 TTAAAGTCCACAACTCTGTGGCACC-CTC
* *
506563 TTAAAAG-CTCACAACTCTGTGGGACCCTTT
1 TT-AAAGTC-CACAACTCTGTGGCACCC-TC
* * * * *
506593 TTTAAGTCAAGAACTCCGTGGCACCCCTT
1 TTAAAGTCCACAACTCTGTGGCA-CCCTC
* * * *
506622 TTAAAGTCCACAACTTTGTGGAACCTTT
1 TTAAAGTCCACAACTCTGTGGCACCCTC
* *
506650 TTCAAAAGTCCACAACTCTATGGC-CCCTT
1 TT--AAAGTCCACAACTCTGTGGCACCCTC
* * * *
506679 TTTAAGTCCACAACTAC-ATGG-ACCTTT
1 TTAAAGTCCACAACT-CTGTGGCACCCTC
* * *
506706 TTTAAGTCCACAACTCCGTGGCATCCTC
1 TTAAAGTCCACAACTCTGTGGCACCCTC
* * *
506734 TTAATGTCCATAACTCCGTGGCACCCT
1 TTAAAGTCCACAACTCTGTGGCACCCT
506761 TTTTTTTAAA
Statistics
Matches: 230, Mismatches: 40, Indels: 35
0.75 0.13 0.11
Matches are distributed among these distances:
26 1 0.00
27 57 0.25
28 61 0.27
29 44 0.19
30 42 0.18
33 25 0.11
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (28 bp):
TTAAAGTCCACAACTCTGTGGCACCCTC
Found at i:506515 original size:33 final size:33
Alignment explanation
Indices: 506321--506830 Score: 146
Period size: 27 Copynumber: 17.0 Consensus size: 33
506311 ATGGCACCCC
* *
506321 TTTTAAAGTCTACAACTCCGTGGCACCC---TT
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* * **
506351 TTTAAAAGTCAACAACTCCATGGC-CCC----T
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* *
506379 TTTT-CAGTCCACAACTCTGTCGCA-CC-TTTT
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
** *
506409 TTTTAAAGTCCACAACTTCATG-GTAACCTTTTTTT
1 TTTTAAAGTCCACAAC-TC-TGTGGCACC-CTTTTT
*
506444 TTTTAAAGTCCACAACTTTGTGG-ACCC-----
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* *
506471 TCTTAAAGTCCATAACTCTGTGGCACCCTTTTT
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
*
506504 TTTTAAAGTCCACAACTCCGTGGCACCC-----
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* * * *
506532 TCTTAAAGTCAACAACTCCGTGG-AACC--TTT
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* * *
506562 CTTAAAAG-CTCACAACTCTGTGGGACCC---TT
1 TTTTAAAGTC-CACAACTCTGTGGCACCCTTTTT
* * * *
506592 TTTT-AAGTCAAGAACTCCGTGGCACCC----C
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* *
506620 TTTTAAAGTCCACAACTTTGTGG-AACC--TTT
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
** *
506650 TTCAAAAGTCCACAACTCTATGGC-CCC----T
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
*
506678 TTTT-AAGTCCACAACTAC-ATGG-A-CC---TT
1 TTTTAAAGTCCACAACT-CTGTGGCACCCTTTTT
* *
506705 TTTT-AAGTCCACAACTCCGTGGCATCC-----
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
* * * *
506732 TCTTAATGTCCATAACTCCGTGGCACCC-TTTT
1 TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
*
506764 TTTTAAAGTCCACAAC-CTTGTGGTACCCTTTTT
1 TTTTAAAGTCCACAACTC-TGTGGCACCCTTTTT
** * * *
506797 TTAAAAAAAATCCACAACTTTGTGGCACTCTTTT
1 TT--TTAAAGTCCACAACTCTGTGGCACCCTTTT
506831 CAAAATCCAC
Statistics
Matches: 369, Mismatches: 68, Indels: 81
0.71 0.13 0.16
Matches are distributed among these distances:
26 3 0.01
27 78 0.21
28 61 0.17
29 37 0.10
30 68 0.18
31 14 0.04
32 24 0.07
33 39 0.11
34 2 0.01
35 43 0.12
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (33 bp):
TTTTAAAGTCCACAACTCTGTGGCACCCTTTTT
Found at i:506851 original size:29 final size:29
Alignment explanation
Indices: 506803--506882 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
506793 TTTTTTAAAA
** *
506803 AAAATCCACAACTTTGTGGCACTCTTTTC
1 AAAATCCACAACTTCATGGCACCCTTTTC
* *
506832 AAAATCCACAACTTCATGGCTCCCCTTTTT
1 AAAATCCACAACTTCATGGC-ACCCTTTTC
* *
506862 AAAGTCCACAACTCCATGGCA
1 AAAATCCACAACTTCATGGCA
506883 ACTTCTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.29
Consensus pattern (29 bp):
AAAATCCACAACTTCATGGCACCCTTTTC
Found at i:506962 original size:26 final size:27
Alignment explanation
Indices: 506924--506978 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
506914 TTTTCTTTTC
506924 ATGGCA-CCTTTTTTTTAAAGTCCACA
1 ATGGCACCCTTTTTTTTAAAGTCCACA
506950 ATGGCACCCTTTTTTTTTAAAGTCCACA
1 ATGGCACCC-TTTTTTTTAAAGTCCACA
506978 A
1 A
506979 CTCCATGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 6 0.22
27 2 0.07
28 19 0.70
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (27 bp):
ATGGCACCCTTTTTTTTAAAGTCCACA
Found at i:506996 original size:31 final size:31
Alignment explanation
Indices: 506923--507033 Score: 108
Period size: 31 Copynumber: 3.7 Consensus size: 31
506913 CTTTTCTTTT
*
506923 CATGGCACCTTTTTTTTAAAGTCCAC-A---
1 CATGGCACCCTTTTTTTAAAGTCCACAACTC
506950 -ATGGCACCCTTTTTTTTTAAAGTCCACAACTC
1 CATGGCACCC--TTTTTTTAAAGTCCACAACTC
** *
506982 CATGGCACCCTTTTTCCAGAGTCCACAACTC
1 CATGGCACCCTTTTTTTAAAGTCCACAACTC
*
507013 CAAGGCA-CCTTTTTTCTAAAG
1 CATGGCACCCTTTTTT-TAAAG
507034 CCTACACAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
26 8 0.12
28 16 0.24
29 1 0.01
30 7 0.10
31 27 0.40
33 9 0.13
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (31 bp):
CATGGCACCCTTTTTTTAAAGTCCACAACTC
Found at i:507064 original size:33 final size:33
Alignment explanation
Indices: 507024--507626 Score: 382
Period size: 33 Copynumber: 18.6 Consensus size: 33
507014 AAGGCACCTT
*
507024 TTTTCTAAAGCCTACACAAGTTAGTGGCAACCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
** * * *
507057 TGCTCTAAAGTCTACACAAG-TCGATGGCAACCC
1 TTTTCTAAAGCCCACACAAGTTAG-TGGCAACCC
*
507090 TTTTTCTAAAGCCCACACAAGTCT-GTGGCAACTCT
1 -TTTTCTAAAGCCCACACAAGT-TAGTGGCAAC-CC
* * * *
507125 TTTTCTAAAGCCCGCACATGTCAGTGACAACCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * * *
507158 --TTCAAAAGCCTACACAAGTCAGTGGCAATCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* *
507189 TTTTCAAAAGCCCACACAAGTTAGTGGCAACCT
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * * * * * *
507222 TTTTCTAGAGTCTACATAAGTCAATGGCAATCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * * *
507255 TTCTCTGAAGTCTACACAAGTTAGTGGCAACCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * **
507288 TTTT-TAAAACCCACACAAG-TCGATGATAACCC
1 TTTTCTAAAGCCCACACAAGTTAG-TGGCAACCC
* * *
507320 TTTTTCTAAAGCCCACACCAGTTGGTGGCAACTCT
1 -TTTTCTAAAGCCCACACAAGTTAGTGGCAAC-CC
**
507355 TTTTCTAAAGCCCACACAAGTCGGTGGCAACCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * **
507388 --TTCAAAAG-CC-CATAAGTCGGTGGCAACCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * * ** *
507417 TTTT-TAAAGCCCCATAAAAGTCAACGGCAAACC
1 TTTTCTAAAG-CCCACACAAGTTAGTGGCAACCC
* *
507450 -TTT-TAAAGCCCACACAAGTTAGTGGCAATCT
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * *
507481 TTTTC-AAAGCCCACACAAGTTGGTAGTAACCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
** * * *
507513 TTTTC-AAAGCGTACACAAGTTGGTGGGAATCC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * * * *
507545 -TCTCAAAAGCCTACACAAGTCAATGGCAA-CC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* * * *
507576 -TCTCAAAAGCCCACACAAGTCAATGGCAA-CC
1 TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
* *
507607 -TCTCAAAAGCCCACACAAGT
1 TTTTCTAAAGCCCACACAAGT
507627 CAATGGCATC
Statistics
Matches: 459, Mismatches: 90, Indels: 44
0.77 0.15 0.07
Matches are distributed among these distances:
29 18 0.04
30 6 0.01
31 107 0.23
32 101 0.22
33 125 0.27
34 96 0.21
35 5 0.01
36 1 0.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (33 bp):
TTTTCTAAAGCCCACACAAGTTAGTGGCAACCC
Found at i:507251 original size:66 final size:66
Alignment explanation
Indices: 507023--507634 Score: 398
Period size: 64 Copynumber: 9.5 Consensus size: 66
507013 CAAGGCACCT
* * * * ** * * * *
507023 TTTTTCTAAAGCCTACACAAGTTAGTGGCAACCCTGCTCTAAAGTCTACACAAG-TCGATGGCAA
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAG-TGGCAA
507087 CCC
65 -CC
** * * * * * *
507090 TTTTTCTAAAGCCCACACAAGTCTGTGGCAACTCTTTTTCTAAAGCCCGCACATGTCAGTGACAA
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAA-TCCTTTTCAAAAGCCCACACAAGTTAGTGGCAA
507155 CC
65 CC
* * * *
507157 --CTTCAAAAGCCTACACAAGTCAGTGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
507220 C
66 C
* * * * * ** * *
507221 TTTTTCTAGAGTCTACATAAGTCAATGGCAATCCTTCTCTGAAGTCTACACAAGTTAGTGGCAAC
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
507286 C
66 C
* * * ** * * * *
507287 CTTTT-TAAAACCCACACAAGTCGATGATAACCCTTTTTCTAAAGCCCACACCAGTTGGTGGCAA
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCC-TTTTCAAAAGCCCACACAAGTTAGTGGCAA
507351 CTC
65 C-C
** * * **
507354 TTTTTCTAAAGCCCACACAAGTCGGTGGCAA-CC-CTTCAAAAG-CC-CATAAGTCGGTGGCAAC
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
507415 C
66 C
* * * * *
507416 CTTTT-TAAAGCCCCATAAAAGTCAACGGCAAACCTTTT--AAAGCCCACACAAGTTAGTGGCAA
1 TTTTTCTAAAG-CCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAA
*
507478 TC
65 CC
*** * * * ** * *
507480 TTTTTC-AAAGCCCACACAAGTTGGTAGTAACCCTTTTC-AAAGCGTACACAAGTTGGTGGGAAT
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAA-
507543 CC
65 CC
* * * * * *
507545 --TCTCAAAAGCCTACACAAGTCAATGGCAA-CC-TCTCAAAAGCCCACACAAGTCAATGGCAAC
1 TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
507606 C
66 C
* *
507607 --TCTCAAAAGCCCACACAAGTCAATGGCA
1 TTTTTCTAAAGCCCACACAAGTCAATGGCA
507635 TCTCCTTCTA
Statistics
Matches: 426, Mismatches: 102, Indels: 39
0.75 0.18 0.07
Matches are distributed among these distances:
61 5 0.01
62 56 0.13
63 59 0.14
64 93 0.22
65 52 0.12
66 82 0.19
67 37 0.09
68 41 0.10
69 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (66 bp):
TTTTTCTAAAGCCCACACAAGTCAATGGCAATCCTTTTCAAAAGCCCACACAAGTTAGTGGCAAC
C
Found at i:507565 original size:127 final size:126
Alignment explanation
Indices: 507324--507627 Score: 296
Period size: 127 Copynumber: 2.4 Consensus size: 126
507314 TAACCCTTTT
* * * *
507324 TCTAAAGCCCACACCAGTTGGTGGCAACTCTTTTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
1 TCTAAAGCCCACACAAGTTAGTGGCAA-TCTTTTTCAAAAGCCCACACAAGTCGGTAGCAACCCT
* * * ** *
507389 TCAAAAGCCCATAAGTCGGTGGCAACCCTTTTTAAAGCCCCATAAAAGTCAACGGCAAACCT-
65 TCAAAAGCACACAAGTCGGTGGCAACCCTCTCAAAAGCCCCACAAAAGTCAACGGC-AACCTC
* * *
507451 TTTAAAGCCCACACAAGTTAGTGGCAATCTTTTTC-AAAGCCCACACAAGTTGGTAGTAACCCTT
1 TCTAAAGCCCACACAAGTTAGTGGCAATCTTTTTCAAAAGCCCACACAAGTCGGTAGCAACCC--
* * * * * *
507515 TTC-AAAGCGTACACAAGTTGGTGGGAATCCTCTCAAAAG-CCTACACAAGTCAATGGCAACCTC
64 TTCAAAAGC--ACACAAGTCGGTGGCAACCCTCTCAAAAGCCCCACAAAAGTCAACGGCAACCTC
* * * * *
507578 TCAAAAGCCCACACAAGTCAATGGCAA-C-CTCTCAAAAGCCCACACAAGTC
1 TCTAAAGCCCACACAAGTTAGTGGCAATCTTTTTCAAAAGCCCACACAAGTC
507628 AATGGCATCT
Statistics
Matches: 146, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
125 27 0.18
126 34 0.23
127 64 0.44
128 21 0.14
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (126 bp):
TCTAAAGCCCACACAAGTTAGTGGCAATCTTTTTCAAAAGCCCACACAAGTCGGTAGCAACCCTT
CAAAAGCACACAAGTCGGTGGCAACCCTCTCAAAAGCCCCACAAAAGTCAACGGCAACCTC
Found at i:508840 original size:13 final size:13
Alignment explanation
Indices: 508822--508848 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
508812 ACATAATGCT
508822 TTGTATCGATACA
1 TTGTATCGATACA
508835 TTGTATCGATACA
1 TTGTATCGATACA
508848 T
1 T
508849 GATCATTGTA
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:508845 original size:33 final size:32
Alignment explanation
Indices: 508803--508867 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
508793 CATATTTAGA
*
508803 TGTATCGATACATAATGCTTTGTATCGATACAT
1 TGTATCGATACATAAT-CATTGTATCGATACAT
*
508836 TGTATCGATACATGATCATTGTATCGATACAT
1 TGTATCGATACATAATCATTGTATCGATACAT
508868 GCACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAATCATTGTATCGATACAT
Found at i:508878 original size:20 final size:19
Alignment explanation
Indices: 508833--508889 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 19
508823 TGTATCGATA
508833 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
508852 CATTGTATCGATACATGCA-
1 CATTGTATCGATACATG-AT
508871 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
508890 AACTTGCAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:508962 original size:33 final size:32
Alignment explanation
Indices: 508920--508982 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
508910 CTACTACTTG
508920 TATCGATACATG-GCACATTGTATCGATACAATC
1 TATCGATACATGAG-A-ATTGTATCGATACAATC
508953 TATCGATACATGAAGAATTGTATCGATACA
1 TATCGATACATG-AGAATTGTATCGATACA
508983 CGGTCTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (32 bp):
TATCGATACATGAGAATTGTATCGATACAATC
Found at i:509742 original size:19 final size:19
Alignment explanation
Indices: 509714--509750 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
509704 ATCCATTCCT
*
509714 AGAGCTTACAATTGGTATC
1 AGAGCCTACAATTGGTATC
509733 AGAGCCTACAATTGGTAT
1 AGAGCCTACAATTGGTAT
509751 TAAAGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (19 bp):
AGAGCCTACAATTGGTATC
Found at i:509757 original size:19 final size:19
Alignment explanation
Indices: 509720--509759 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
509710 TCCTAGAGCT
*
509720 TACAATTGGTATCAGAGCC
1 TACAATTGGTATCAAAGCC
*
509739 TACAATTGGTATTAAAGCC
1 TACAATTGGTATCAAAGCC
509758 TA
1 TA
509760 ACCTCATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (19 bp):
TACAATTGGTATCAAAGCC
Found at i:517705 original size:13 final size:13
Alignment explanation
Indices: 517687--517713 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
517677 ACATAATGCT
517687 TTGTATCGATACA
1 TTGTATCGATACA
517700 TTGTATCGATACA
1 TTGTATCGATACA
517713 T
1 T
517714 GATCATTGTA
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:517710 original size:33 final size:32
Alignment explanation
Indices: 517668--517732 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
517658 CATATCCAGA
*
517668 TGTATCGATACATAATGCTTTGTATCGATACAT
1 TGTATCGATACATAAT-CATTGTATCGATACAT
*
517701 TGTATCGATACATGATCATTGTATCGATACAT
1 TGTATCGATACATAATCATTGTATCGATACAT
517733 GATCATTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAATCATTGTATCGATACAT
Found at i:517722 original size:19 final size:19
Alignment explanation
Indices: 517698--517773 Score: 116
Period size: 19 Copynumber: 3.9 Consensus size: 19
517688 TGTATCGATA
517698 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
517717 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
* *
517736 CATTGTATCTAGACATGCAT
1 CATTGTATCGATACATG-AT
*
517756 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
517774 AACTGGCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 35 0.69
20 16 0.31
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:517770 original size:39 final size:38
Alignment explanation
Indices: 517698--517773 Score: 116
Period size: 39 Copynumber: 2.0 Consensus size: 38
517688 TGTATCGATA
* *
517698 CATTGTATCGATACATGATCATTGTATCGATACATGAT
1 CATTGTATCGAGACATGATAATTGTATCGATACATGAT
*
517736 CATTGTATCTAGACATGCATAATTGTATCGATACATGA
1 CATTGTATCGAGACATG-ATAATTGTATCGATACATGA
517774 AACTGGCAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.44
39 19 0.56
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (38 bp):
CATTGTATCGAGACATGATAATTGTATCGATACATGAT
Found at i:518601 original size:20 final size:20
Alignment explanation
Indices: 518564--518617 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
518554 ATTCCTAGAG
*
518564 CATACTGATACAATAAGTGAA
1 CATATTGATAC-ATAAGTGAA
**
518585 TGTATTGATACATAAGTGAA
1 CATATTGATACATAAGTGAA
518605 CATATTGATACAT
1 CATATTGATACAT
518618 GTCTAAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
CATATTGATACATAAGTGAA
Found at i:522424 original size:18 final size:20
Alignment explanation
Indices: 522403--522441 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
522393 TCAAAATTCT
522403 ACAA-TATT-TATCAATACA
1 ACAAGTATTGTATCAATACA
522421 ACAAGTTATTGTATCAATACA
1 ACAAG-TATTGTATCAATACA
522442 TAAGTGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (20 bp):
ACAAGTATTGTATCAATACA
Found at i:522453 original size:20 final size:20
Alignment explanation
Indices: 522411--522474 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
522401 CTACAATATT
* * *
522411 TATCAATACAACAAGTTATTG
1 TATCAATAC-ATAAGTGAATG
522432 TATCAATACATAAGTGAATG
1 TATCAATACATAAGTGAATG
** *
522452 TATTGATACATGAGTGAATG
1 TATCAATACATAAGTGAATG
522472 TAT
1 TAT
522475 TGATATTGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 28 0.76
21 9 0.24
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
TATCAATACATAAGTGAATG
Found at i:522475 original size:20 final size:20
Alignment explanation
Indices: 522437--522479 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
522427 TATTGTATCA
522437 ATACATAAGTGAATGTATTG
1 ATACATAAGTGAATGTATTG
*
522457 ATACATGAGTGAATGTATTG
1 ATACATAAGTGAATGTATTG
522477 ATA
1 ATA
522480 TTGGACCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (20 bp):
ATACATAAGTGAATGTATTG
Found at i:526481 original size:20 final size:20
Alignment explanation
Indices: 526458--526530 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
526448 ACAATTCAAA
526458 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
526478 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
526499 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
526519 GTATCGATACAT
1 GTATCGATACAT
526531 AAAAAAGATG
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:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:526502 original size:21 final size:21
Alignment explanation
Indices: 526476--526551 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
526466 ACATGTTGCA
526476 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
526497 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
526517 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
526538 ATGTATCGATACAT
1 ATGTATCGATACAT
526552 TTCTTGGCAG
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:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:526509 original size:41 final size:41
Alignment explanation
Indices: 526458--526551 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
526448 ACAATTCAAA
*
526458 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
526499 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
526540 GTATCGATACAT
1 GTATCGATACAT
526552 TTCTTGGCAG
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:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:526608 original size:13 final size:13
Alignment explanation
Indices: 526590--526615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
526580 TACAGCAAGT
526590 ATGTATCGATACA
1 ATGTATCGATACA
526603 ATGTATCGATACA
1 ATGTATCGATACA
526616 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:530699 original size:15 final size:15
Alignment explanation
Indices: 530679--530717 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
530669 TAAAAATGTC
*
530679 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
530694 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
530709 CCAAATGAA
1 CAAAATGAA
530718 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:532802 original size:20 final size:21
Alignment explanation
Indices: 532723--532801 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
532713 AATGTCCAAA
*
532723 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
532743 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
532768 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
532788 TTGTATCGATACAT
1 ATGTATCGATACAT
532802 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:532806 original size:13 final size:13
Alignment explanation
Indices: 532788--532826 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
532778 ACATTTTTCT
532788 TTGTATCGATACA
1 TTGTATCGATACA
532801 TTGTATCGATACA
1 TTGTATCGATACA
*
532814 CTGTATCGATACA
1 TTGTATCGATACA
532827 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:535302 original size:20 final size:20
Alignment explanation
Indices: 535279--535351 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
535269 ACAATTCAAA
535279 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
535299 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
535320 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
535340 GTATCGATACAT
1 GTATCGATACAT
535352 AAAAAAGATG
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:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Done.