Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 209 of 295
Found at i:71778403 original size:27 final size:26
Alignment explanation
Indices: 71778361--71778444 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 26
71778351 TACTAATAAT
71778361 AATATCGTGGCAAAGCCACCAGTATCAG
1 AATAT-GTGGCAAAGCCACCAGTA-CAG
* *
71778389 AATATGTGGCTAAGCCACCAGAACAG
1 AATATGTGGCAAAGCCACCAGTACAG
* *
71778415 CAAATACGTGGCAAAGCCACTAGTACAG
1 --AATATGTGGCAAAGCCACCAGTACAG
71778443 AA
1 AA
71778445 CTTCCTCCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.10
27 16 0.33
28 27 0.56
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (26 bp):
AATATGTGGCAAAGCCACCAGTACAG
Found at i:71783616 original size:22 final size:22
Alignment explanation
Indices: 71783588--71783630 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
71783578 AAATACTTGG
71783588 TGATGTATTTTATTTTGAAAAT
1 TGATGTATTTTATTTTGAAAAT
71783610 TGATGTATTTTATTTTGAAAA
1 TGATGTATTTTATTTTGAAAA
71783631 ATGGCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TGATGTATTTTATTTTGAAAAT
Found at i:71788280 original size:18 final size:18
Alignment explanation
Indices: 71788254--71788290 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
71788244 TTGAATATAT
*
71788254 GTTTGAATAATGAAATTC
1 GTTTAAATAATGAAATTC
71788272 GTTTAAATAATGAAATTC
1 GTTTAAATAATGAAATTC
71788290 G
1 G
71788291 ATGGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (18 bp):
GTTTAAATAATGAAATTC
Found at i:71788681 original size:24 final size:23
Alignment explanation
Indices: 71788607--71788681 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 23
71788597 TATCTGGTGC
**
71788607 TTCCTGATAATAACTCTTCGGAGT
1 TTCCTGATAA-AACTCTTATGAGT
* * *
71788631 TACCT-ATAAAGCT-TTATGAGC
1 TTCCTGATAAAACTCTTATGAGT
*
71788652 TCCCTGATTAAAACTCTTATGAGT
1 TTCCTGA-TAAAACTCTTATGAGT
71788676 TTCCTG
1 TTCCTG
71788682 TTTAGCCCAG
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 9 0.23
22 4 0.10
23 10 0.26
24 16 0.41
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (23 bp):
TTCCTGATAAAACTCTTATGAGT
Found at i:71794627 original size:46 final size:45
Alignment explanation
Indices: 71794575--71794750 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
71794565 TGGTTGAGCA
71794575 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
71794621 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
71794668 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
71794714 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71794751 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:71794731 original size:93 final size:93
Alignment explanation
Indices: 71794572--71794742 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
71794562 GGATGGTTGA
* **
71794572 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71794637 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
71794665 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71794730 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71794743 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:71797099 original size:25 final size:26
Alignment explanation
Indices: 71797030--71797103 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
71797020 TTTCTCATCT
71797030 CAATTTTACCCCCGATAAAATTTTGA
1 CAATTTTACCCCCGATAAAATTTTGA
** * *
71797056 TGATTCTACCCCCGGTAAAATTTTGA
1 CAATTTTACCCCCGATAAAATTTTGA
71797082 CAATTTTA-CCCCGATAAAATTT
1 CAATTTTACCCCCGATAAAATTT
71797104 CCAGAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 13 0.32
26 27 0.68
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (26 bp):
CAATTTTACCCCCGATAAAATTTTGA
Found at i:71797257 original size:6 final size:6
Alignment explanation
Indices: 71797246--71797273 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
71797236 AGAATTGCAA
71797246 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
71797274 TTGGAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:71816039 original size:48 final size:48
Alignment explanation
Indices: 71815967--71816306 Score: 554
Period size: 48 Copynumber: 7.0 Consensus size: 48
71815957 CAAGATAAAT
* *
71815967 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
71816015 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
71816063 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
71816111 ATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
71816159 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* * *
71816209 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTAAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
71816257 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
71816305 AT
1 AT
71816307 GTGTGTATAT
Statistics
Matches: 274, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
48 229 0.84
49 4 0.01
50 41 0.15
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:71816273 original size:146 final size:144
Alignment explanation
Indices: 71815967--71816306 Score: 590
Period size: 146 Copynumber: 2.3 Consensus size: 144
71815957 CAAGATAAAT
* *
71815967 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
71816032 AGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
66 AGCCAAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
*
71816097 GAAATATGTATGAG
131 AAAATATGTATGAG
*
71816111 ATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
71816176 AGCCAAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGT
66 AGCCAAATGGCTAATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
71816241 GTAAAATATGTATGAG
129 GTAAAATATGTATGAG
* *
71816257 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
71816307 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 79 0.43
145 2 0.01
146 104 0.56
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (144 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCAAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGT
AAAATATGTATGAG
Found at i:71816497 original size:37 final size:37
Alignment explanation
Indices: 71816447--71816554 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
71816437 GGAAATATAT
*
71816447 TCCGGATAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
71816484 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
71816521 TCCAGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
71816555 TCATCTGAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:71818547 original size:26 final size:26
Alignment explanation
Indices: 71818513--71818585 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
71818503 CTCTTTTAAT
* *
71818513 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
71818539 AACTGGGGCATGAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
71818565 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
71818586 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:71818666 original size:11 final size:11
Alignment explanation
Indices: 71818635--71818690 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
71818625 TTATGAATAC
71818635 ATCATGTGCAT
1 ATCATGTGCAT
*
71818646 ATCA--TACAT
1 ATCATGTGCAT
71818655 ATCATGTGCAT
1 ATCATGTGCAT
*
71818666 ATC--GTACAT
1 ATCATGTGCAT
71818675 ATCATGTGCAT
1 ATCATGTGCAT
71818686 ATCAT
1 ATCAT
71818691 ATCAATCAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:71818698 original size:20 final size:20
Alignment explanation
Indices: 71818635--71818691 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
71818625 TTATGAATAC
71818635 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
71818655 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
71818675 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
71818692 TCAATCAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:71824443 original size:16 final size:16
Alignment explanation
Indices: 71824422--71824453 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71824412 AATGATCTTG
71824422 AAACGAAATAAAGTTT
1 AAACGAAATAAAGTTT
71824438 AAACGAAATAAAGTTT
1 AAACGAAATAAAGTTT
71824454 TAGGGACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
AAACGAAATAAAGTTT
Found at i:71830168 original size:14 final size:14
Alignment explanation
Indices: 71830127--71830180 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
71830117 AAAAATTCTC
*
71830127 ATTTTTAAAAATAAT
1 ATTTTT-AAATTAAT
*
71830142 ATATTTAACATT-AT
1 ATTTTTAA-ATTAAT
71830156 ATTTTTTAAATTAAT
1 A-TTTTTAAATTAAT
71830171 ATTTTTAAAT
1 ATTTTTAAAT
71830181 ATTAAAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTTAAATTAAT
Found at i:71830647 original size:17 final size:17
Alignment explanation
Indices: 71830625--71830658 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
71830615 TCAATGATTT
*
71830625 ATCAAATAAATCCTAAA
1 ATCAAACAAATCCTAAA
71830642 ATCAAACAAATCCTAAA
1 ATCAAACAAATCCTAAA
71830659 TATATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (17 bp):
ATCAAACAAATCCTAAA
Found at i:71831103 original size:9 final size:9
Alignment explanation
Indices: 71831089--71831118 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
71831079 TAAATTTTAC
71831089 AATTTGAAT
1 AATTTGAAT
71831098 AATTTGAAT
1 AATTTGAAT
*
71831107 AATTCGAAT
1 AATTTGAAT
71831116 AAT
1 AAT
71831119 GGATTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (9 bp):
AATTTGAAT
Found at i:71831217 original size:9 final size:9
Alignment explanation
Indices: 71831203--71831235 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
71831193 GTTAAACGAA
71831203 TCGAGTTAT
1 TCGAGTTAT
*
71831212 TCGAGTTAA
1 TCGAGTTAT
71831221 TCGAGTTAT
1 TCGAGTTAT
71831230 TCGAGT
1 TCGAGT
71831236 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:71831224 original size:18 final size:18
Alignment explanation
Indices: 71831201--71831235 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
71831191 GAGTTAAACG
71831201 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
71831219 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
71831236 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:71831304 original size:9 final size:9
Alignment explanation
Indices: 71831287--71831323 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
71831277 TGAGTTTTCG
71831287 AATTCGAAT
1 AATTCGAAT
*
71831296 AACTCGAAT
1 AATTCGAAT
71831305 AATTCGAAT
1 AATTCGAAT
71831314 AATTCGAAT
1 AATTCGAAT
71831323 A
1 A
71831324 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:71832694 original size:18 final size:18
Alignment explanation
Indices: 71832661--71832725 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
71832651 AAATTCATAT
71832661 TTTTAAAAAA-CATAATAA
1 TTTTAAAAAATC-TAATAA
71832679 TTTTAAAAAATCTAATGAA
1 TTTTAAAAAATCTAAT-AA
* *
71832698 TATATAAACAAATTTAA-AA
1 T-TTTAAA-AAATCTAATAA
*
71832717 GTTTAAAAA
1 TTTTAAAAA
71832726 TATTCTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.05
18 19 0.49
19 6 0.15
20 5 0.13
21 7 0.18
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
TTTTAAAAAATCTAATAA
Found at i:71833281 original size:19 final size:19
Alignment explanation
Indices: 71833220--71833289 Score: 97
Period size: 20 Copynumber: 3.6 Consensus size: 19
71833210 TTACAAAAAT
71833220 AAAATTCAAAATAATTTTCA
1 AAAATTCAAAATAATTTT-A
*
71833240 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTA
71833259 AAAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TA
71833278 AAAATTCCAAAA
1 AAAATT-CAAAA
71833290 CATATATGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.09
19 19 0.41
20 23 0.50
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTA
Found at i:71833356 original size:8 final size:9
Alignment explanation
Indices: 71833303--71833355 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
71833293 ATATGTTTTA
71833303 AAAAATTAT
1 AAAAATTAT
71833312 AAAAATTAT
1 AAAAATTAT
71833321 AAAAATATAT
1 AAAAAT-TAT
*
71833331 AAAGAA-AATT
1 AAA-AATTA-T
71833341 AAAAATT-T
1 AAAAATTAT
71833349 AAAAATT
1 AAAAATT
71833356 TTTTAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 8 0.21
9 18 0.47
10 10 0.26
11 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:71839855 original size:14 final size:14
Alignment explanation
Indices: 71839836--71839870 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
71839826 AAGAGCCCAT
71839836 TTAATTCCTTTGGC
1 TTAATTCCTTTGGC
*
71839850 TTAATTCTTTTGGC
1 TTAATTCCTTTGGC
*
71839864 TGAATTC
1 TTAATTC
71839871 TCATTAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (14 bp):
TTAATTCCTTTGGC
Found at i:71843584 original size:267 final size:264
Alignment explanation
Indices: 71843096--71843627 Score: 974
Period size: 267 Copynumber: 2.0 Consensus size: 264
71843086 AACAATAACC
*
71843096 TAAATTGAATTTTTCTTCTCGAGGTCAATAGCAAACCAACTACGAAATTCATGGTCACTCATTCT
1 TAAATTGAATTTTTCTTCTCGAGGTCAATAGCAAACCAACTACAAAATTCATGGTCACTCATTCT
**
71843161 CATTTCCACTCAAGTATCGAAATGGGTTGCAACAATCTTAAGGGAACTTGATGCTCAAACTTTTA
66 CATTTCCACTCAAGTATCGAAATAAGTTGCAACAATCTTAAGGGAACTTGATGCTCAAACTTTTA
* *
71843226 CTTGTTGGCATACCAAACACTTGGCTATATATTCGGTGATGTCCTATTTTATTCTCGGCCACTAG
131 CTTGTTGGCATACCAAACACTTGGCTACATACTCGGTGATGTCCTATTTTATTCTCGGCCACTAG
71843291 TAAAATGGTTTCAAATCATTATACCTCTTGTTACTTCCCTAGTCGATAGCATAAGAACTATGGTG
196 TAAAATGGTTTCAAATCATTATACCTCTTGTTACTTCCCTAGTCGATAGCATAAGAACTATGGTG
71843356 AGCT
261 AGCT
* *
71843360 TAAATTGAATTTTTTTTTCTCGAGGTTAATAGCAAACCAACTACAAAATTCATGGGGTCACTCAT
1 TAAATTGAA-TTTTTCTTCTCGAGGTCAATAGCAAACCAACTACAAAATTCAT--GGTCACTCAT
71843425 TCTCATTTCCACTCAAGTATCGAAATAAGTTGCAACAATCTTAAGGGAACTTGATGCTCAAACTT
63 TCTCATTTCCACTCAAGTATCGAAATAAGTTGCAACAATCTTAAGGGAACTTGATGCTCAAACTT
71843490 TTACTTGTTGGCATACCAAACACTTGGCTACATACTCGGTGATGTCCTATTTTATTCTCGGCCAC
128 TTACTTGTTGGCATACCAAACACTTGGCTACATACTCGGTGATGTCCTATTTTATTCTCGGCCAC
71843555 TAGTAAAATGGTTTCAAATCATTATACCTCTTGTTACTTCCCTAGTCGATAGCATAAGAACTATG
193 TAGTAAAATGGTTTCAAATCATTATACCTCTTGTTACTTCCCTAGTCGATAGCATAAGAACTATG
71843620 GTGAGCT
258 GTGAGCT
71843627 T
1 T
71843628 CTCAAAGACT
Statistics
Matches: 258, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
264 9 0.03
265 40 0.16
267 209 0.81
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (264 bp):
TAAATTGAATTTTTCTTCTCGAGGTCAATAGCAAACCAACTACAAAATTCATGGTCACTCATTCT
CATTTCCACTCAAGTATCGAAATAAGTTGCAACAATCTTAAGGGAACTTGATGCTCAAACTTTTA
CTTGTTGGCATACCAAACACTTGGCTACATACTCGGTGATGTCCTATTTTATTCTCGGCCACTAG
TAAAATGGTTTCAAATCATTATACCTCTTGTTACTTCCCTAGTCGATAGCATAAGAACTATGGTG
AGCT
Found at i:71850166 original size:11 final size:9
Alignment explanation
Indices: 71850126--71850157 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
71850116 TTAATTTTAA
71850126 TTTTAA-AT
1 TTTTAATAT
71850134 TTTTAATAT
1 TTTTAATAT
71850143 TTTTAATAT
1 TTTTAATAT
71850152 TTTTAA
1 TTTTAA
71850158 ATTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTAATAT
Found at i:71853805 original size:23 final size:23
Alignment explanation
Indices: 71853777--71853856 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 23
71853767 AATATACTTT
*
71853777 TATTTTATTAAATAAATCCATTA
1 TATTTTATTAAATGAATCCATTA
* *
71853800 TATTTTTACGCTAAACGAATCCATGTATA
1 TA-TTTTA--TTAAATGAATCCA--T-TA
*
71853829 TATTTTTTTAAATGAATCCATTA
1 TATTTTATTAAATGAATCCATTA
71853852 TATTT
1 TATTT
71853857 AATGGACTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 9 0.20
24 6 0.13
26 21 0.47
28 5 0.11
29 4 0.09
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.47
Consensus pattern (23 bp):
TATTTTATTAAATGAATCCATTA
Found at i:71854229 original size:22 final size:22
Alignment explanation
Indices: 71854182--71854231 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
71854172 AAAAATTTTG
71854182 TTATTTTTTGTTGTTTTAATGC
1 TTATTTTTTGTTGTTTTAATGC
*
71854204 -TATTTTCTTGTTGTTTT-CTGC
1 TTATTTT-TTGTTGTTTTAATGC
71854225 TTATTTT
1 TTATTTT
71854232 GCTACCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.10, C:0.08, G:0.12, T:0.70
Consensus pattern (22 bp):
TTATTTTTTGTTGTTTTAATGC
Found at i:71855576 original size:42 final size:41
Alignment explanation
Indices: 71855443--71855598 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 41
71855433 ATATCGGACG
* * *
71855443 AACCAAAGCAATTATACTGGCACGCTTAA-TGCATCATC-GAAT
1 AACCGAAGTAATTATACTGGCA--CATAAGTGCATCATCAG-AT
* * *
71855485 AAACCGAAGTAATCATGCTAGCACATAAGTGCATCATCAGAT
1 -AACCGAAGTAATTATACTGGCACATAAGTGCATCATCAGAT
*
71855527 GTACCGAAGTAATTATACTGGCACATAAGTGCATCATCAGAT
1 -AACCGAAGTAATTATACTGGCACATAAGTGCATCATCAGAT
** *
71855569 AAGCCGAAACAATTATACTGACACATAAGT
1 AA-CCGAAGTAATTATACTGGCACATAAGT
71855599 TGTAACACCC
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.05
42 72 0.76
43 18 0.19
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (41 bp):
AACCGAAGTAATTATACTGGCACATAAGTGCATCATCAGAT
Found at i:71857041 original size:104 final size:104
Alignment explanation
Indices: 71856919--71857142 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
71856909 AATGGATATC
71856919 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
71856984 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
71857023 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
71857088 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
71857127 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
71857143 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:71857503 original size:29 final size:29
Alignment explanation
Indices: 71857470--71857533 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
71857460 TAATCCACCA
71857470 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
71857499 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
71857529 CCCAA
1 CCCAA
71857534 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:71857507 original size:30 final size:30
Alignment explanation
Indices: 71857477--71857533 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
71857467 CCACCCAACT
71857477 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
71857506 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
71857534 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:71862084 original size:50 final size:52
Alignment explanation
Indices: 71862030--71862138 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 52
71862020 AATAAAGTAA
*
71862030 TGCATTATGTAACTCTCATGTTAG-TTAAGTATGCATCA-TAAA-TAATGACT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAA-GACT
* * *
71862080 TGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTATTAAATTAAGTCT
1 TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
71862132 TGCATTA
1 TGCATTA
71862139 AATAACTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
50 23 0.44
51 12 0.23
52 14 0.27
53 3 0.06
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (52 bp):
TGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCATTAAATTAAGACT
Found at i:71862302 original size:9 final size:9
Alignment explanation
Indices: 71862285--71862358 Score: 54
Period size: 9 Copynumber: 8.7 Consensus size: 9
71862275 ATTTATTTAA
71862285 TTTAA-GTG
1 TTTAATGTG
71862293 TTTAATGTG
1 TTTAATGTG
*
71862302 TTT--TGTA
1 TTTAATGTG
71862309 TTTAATAAGTG
1 TTTAAT--GTG
71862320 TTTAAATGTG
1 TTT-AATGTG
*
71862330 TTTAATATG
1 TTTAATGTG
71862339 -TT--TGT-
1 TTTAATGTG
71862344 TTTAATGTG
1 TTTAATGTG
71862353 TTTAAT
1 TTTAAT
71862359 TGGAGGTGTC
Statistics
Matches: 52, Mismatches: 4, Indels: 19
0.69 0.05 0.25
Matches are distributed among these distances:
6 4 0.08
7 6 0.12
8 10 0.19
9 18 0.35
10 6 0.12
11 5 0.10
12 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.57
Consensus pattern (9 bp):
TTTAATGTG
Found at i:71862317 original size:27 final size:29
Alignment explanation
Indices: 71862278--71862332 Score: 87
Period size: 27 Copynumber: 1.9 Consensus size: 29
71862268 TGAGTTCATT
71862278 TATTTAATTTAAGTGTTT-AATGTGTTTTG
1 TATTTAA-TTAAGTGTTTAAATGTGTTTTG
71862307 TATTTAA-TAAGTGTTTAAATGTGTTT
1 TATTTAATTAAGTGTTTAAATGTGTTT
71862333 AATATGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 9 0.36
28 9 0.36
29 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (29 bp):
TATTTAATTAAGTGTTTAAATGTGTTTTG
Found at i:71863921 original size:43 final size:43
Alignment explanation
Indices: 71863874--71863983 Score: 100
Period size: 43 Copynumber: 2.6 Consensus size: 43
71863864 TGAAGGAAAG
*
71863874 ATACTGGAACACATAGTTCATCATC-GA-GCAAGCCTAAACAATT
1 ATACTGGAACACATAGTTCATCATCGGACG-AA-CCGAAACAATT
* * *
71863917 ATACTGGCATACAAAGTGT-ATCATCGGACGAACCGAAACAATT
1 ATACTGGAACACATAGT-TCATCATCGGACGAACCGAAACAATT
* ** *
71863960 ATATTGGAAGGCATAGTGCATCAT
1 ATACTGGAACACATAGTTCATCAT
71863984 TGAATAAATC
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
43 47 0.89
44 5 0.09
45 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (43 bp):
ATACTGGAACACATAGTTCATCATCGGACGAACCGAAACAATT
Found at i:71869101 original size:49 final size:49
Alignment explanation
Indices: 71868976--71869194 Score: 333
Period size: 47 Copynumber: 4.6 Consensus size: 49
71868966 CCCTTCGGGA
* * * * *
71868976 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
71869023 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71869070 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71869119 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
71869166 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
71869195 TATTCAAATA
Statistics
Matches: 157, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
46 1 0.01
47 90 0.57
49 66 0.42
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71869138 original size:96 final size:96
Alignment explanation
Indices: 71868976--71869194 Score: 361
Period size: 96 Copynumber: 2.3 Consensus size: 96
71868966 CCCTTCGGGA
* * * * *
71868976 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
71869039 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
71869070 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
71869135 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
71869166 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
71869195 TATTCAAATA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
94 10 0.09
95 1 0.01
96 105 0.91
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:71890807 original size:48 final size:48
Alignment explanation
Indices: 71890596--71890823 Score: 180
Period size: 48 Copynumber: 4.9 Consensus size: 48
71890586 GGTTATGCAC
* ** *
71890596 GATCCCATGTAAGACCATGTCTGGGACATTACTTTGGCATCGATATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* ** * * * * *
71890644 AATATCGTGTAAGACCATAG-CTTGG-C-T---ATCGGCATCGATGTGT
1 GATCCCATATAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGT
* * ** **
71890687 GATCCCATATAAGACCATGTCTAGGACATGGCATTGGTATCGACCTAC
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
71890735 GATCCCATATAAGACCATGCCTGGGACATGACATTGACATCGATATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * *
71890783 GATCCCATGTAAGACAATATCTGGGATATGGCATTGGCATC
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATC
71890824 CTACAATGTT
Statistics
Matches: 137, Mismatches: 36, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
42 1 0.01
43 30 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (48 bp):
GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:71903202 original size:39 final size:39
Alignment explanation
Indices: 71902998--71903220 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
71902988 TTGAATGCTG
* * * * * *
71902998 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
71903038 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
71903078 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
71903118 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
71903158 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
71903197 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
71903221 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:71903240 original size:79 final size:80
Alignment explanation
Indices: 71903073--71903255 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
71903063 GTGCGAGATA
* * *
71903073 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
71903138 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
71903153 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
71903217 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
71903232 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
71903256 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:71931233 original size:6 final size:6
Alignment explanation
Indices: 71931203--71931470 Score: 117
Period size: 6 Copynumber: 43.3 Consensus size: 6
71931193 AAGAAACATT
* * * *
71931203 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAGA ATCAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * * *
71931252 ATTAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATAAGA ATTAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
* * *
71931303 A-CAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA ATCAGA ATCA-A
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
71931350 TATCAGGTA AT-AGA ATCAGA ATCAGA ATCA-A TATCAGGTA A-CAGA
1 -ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A ATCAGA
* * *
71931395 ATCAGA ATCAGA ATCAGA ATTAGA ATCAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
71931444 ATCAGGTA A-CAAA ATCAGA ATTAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
71931471 GTGAATGCAA
Statistics
Matches: 198, Mismatches: 34, Indels: 60
0.68 0.12 0.21
Matches are distributed among these distances:
5 16 0.08
6 152 0.77
7 19 0.10
8 9 0.05
9 2 0.01
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:71931259 original size:31 final size:31
Alignment explanation
Indices: 71931224--71931470 Score: 193
Period size: 31 Copynumber: 8.4 Consensus size: 31
71931214 AATCAAAATA
* * *
71931224 AGAATCAGAATCAGAATCAGGTGACAAAATT
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
71931255 AGAATTAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
71931280 AGAATAAGAATTAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
71931311 AGAATCAAAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
71931342 AGAATC--AAT----ATCAGGTAATAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
71931367 AGAATCAGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGAATCAGA-ATCAGGTAACAGAATC
* *
71931398 AGAATCAGAATCAGAATTA-G-AATCAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
* *
71931429 AGAATCAGAATCAGTATCAGGTAACAAAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
71931460 AGAATTAGAAT
1 AGAATCAGAAT
71931471 GTGAATGCAA
Statistics
Matches: 172, Mismatches: 25, Indels: 38
0.73 0.11 0.16
Matches are distributed among these distances:
25 37 0.22
26 1 0.01
27 3 0.02
29 7 0.04
30 5 0.03
31 112 0.65
32 4 0.02
33 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:71931299 original size:56 final size:56
Alignment explanation
Indices: 71931224--71931411 Score: 245
Period size: 56 Copynumber: 3.4 Consensus size: 56
71931214 AATCAAAATA
* * * *
71931224 AGAATCAGAATCAGAATCAGGTGACAAAATTAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * * *
71931280 AGAATAAGAATTAGTATCAGGTAACAGAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
71931336 AGAATCAGAATCA-ATATCAGGTAATAGAATCAGAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAGAATCAGA-ATCAGGTAACAGAATCAGAATCAGAATCAGA-ATTAGGTGAC
71931392 AGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
71931412 AATTAGAATC
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 112 0.98
57 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (56 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:71931431 original size:25 final size:25
Alignment explanation
Indices: 71931403--71931470 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
71931393 GAATCAGAAT
*
71931403 CAGAATCAGAATTAGAATCAGGTGA
1 CAGAATCAGAATTAGAATCAGGTAA
* *
71931428 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATTAGAATCAGGTAA
*
71931453 CAAAATCAGAATTAGAAT
1 CAGAATCAGAATTAGAAT
71931471 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATTAGAATCAGGTAA
Found at i:71931628 original size:27 final size:26
Alignment explanation
Indices: 71931588--71931695 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
71931578 AGCATGGCTG
* *
71931588 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
71931614 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
71931641 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
71931668 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
71931695 C
1 C
71931696 TTAACAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 11 0.15
27 52 0.73
28 8 0.11
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:71931686 original size:54 final size:53
Alignment explanation
Indices: 71931588--71931695 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
71931578 AGCATGGCTG
* * * * *
71931588 CCAGAACAGATATTGTGATAGAGTCACCAGATACAAATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCA
* * *
71931641 CCAGAACAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCA
71931695 C
1 C
71931696 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 12 0.26
54 34 0.74
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATAATGTGGCAAAGCCA
Found at i:71931882 original size:22 final size:22
Alignment explanation
Indices: 71931854--71931917 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
71931844 GCAAATACGT
*
71931854 TTGGCACATAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
71931876 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
71931898 TTGGCTGAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
71931918 AAATAATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:71933041 original size:27 final size:27
Alignment explanation
Indices: 71932306--71933034 Score: 999
Period size: 27 Copynumber: 27.0 Consensus size: 27
71932296 GGGGCAAAAT
* * * * *
71932306 GGTAATTTTACCCCACAAGGATATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71932333 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932360 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71932387 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932414 AGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
71932441 GATATTTCTACCCTACAATGGTATATA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932468 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932495 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932522 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932549 GGTAATTCTACTCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932576 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932603 GGTAATTCTACTCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932630 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71932657 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932684 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71932711 GGTAATTTTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932738 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932765 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932792 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
71932819 AATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932846 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71932873 AGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932900 AGTAATTCTACCCTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71932927 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
71932954 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
71932981 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
71933008 GGTAATTCTACTCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
71933035 AATAATTTTG
Statistics
Matches: 622, Mismatches: 80, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 622 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:71933057 original size:27 final size:27
Alignment explanation
Indices: 71933027--71933285 Score: 125
Period size: 27 Copynumber: 9.6 Consensus size: 27
71933017 ACTCTATAAG
*
71933027 GGTATTTCAATAATTTTGCAAATCGAA
1 GGTATTTCGATAATTTTGCAAATCGAA
* * **
71933054 GGTATTTCGGTAAGTTTGCAAATCGGG
1 GGTATTTCGATAATTTTGCAAATCGAA
* *
71933081 GGTATTTCGATAATTTTACAAATC-AGG
1 GGTATTTCGATAATTTTGCAAATCGA-A
* * * *
71933108 GGTATTT-GGTAAATTTTACAAA-CTAGG
1 GGTATTTCGAT-AATTTTGCAAATCGA-A
* * * *
71933135 GGTATTTTGATAATTTTACAAA-CTAGG
1 GGTATTTCGATAATTTTGCAAATCGA-A
* * * * *
71933162 GGTATTTTGGTAATTTTACTAATCGAG
1 GGTATTTCGATAATTTTGCAAATCGAA
* * * *
71933189 GGTATTTTGGTAATTTTACTAATC-AA
1 GGTATTTCGATAATTTTGCAAATCGAA
* * * *
71933215 GGATATTTTGGTAATTTTGCTAATCGAG
1 GG-TATTTCGATAATTTTGCAAATCGAA
* * *
71933243 GGTATTTTGGTAATTTTGCTAATCG-A
1 GGTATTTCGATAATTTTGCAAATCGAA
* *
71933269 GAGTATTTTGGTAATTT
1 G-GTATTTCGATAATTT
71933286 GGTAAACTAA
Statistics
Matches: 206, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
26 7 0.03
27 192 0.93
28 7 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGTATTTCGATAATTTTGCAAATCGAA
Found at i:71933084 original size:54 final size:53
Alignment explanation
Indices: 71933025--71933285 Score: 249
Period size: 54 Copynumber: 4.8 Consensus size: 53
71933015 CTACTCTATA
** * * *
71933025 AGGGTATTTCAATAATTTTGCAAATCGAAGGTATTTCGGTAAGTTTGCAAATCG
1 AGGGTATTTTGATAATTTTACAAATC-AAGGTATTTTGGTAATTTTGCAAATCG
* * * * *
71933079 GGGGTATTTCGATAATTTTACAAATCAGGGGTA-TTTGGTAAATTTTACAAA-CT
1 AGGGTATTTTGATAATTTTACAAATCA-AGGTATTTTGGT-AATTTTGCAAATCG
* * *
71933132 AGGGGTATTTTGATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACTAATCG
1 A-GGGTATTTTGATAATTTTACAAATC-A-AGGTATTTTGGTAATTTTGCAAATCG
* * *
71933187 AGGGTATTTTGGTAATTTTACTAATCAAGGATATTTTGGTAATTTTGCTAATCG
1 AGGGTATTTTGATAATTTTACAAATCAAGG-TATTTTGGTAATTTTGCAAATCG
* * * *
71933241 AGGGTATTTTGGTAATTTTGCTAATCGAGAGTATTTTGGTAATTT
1 AGGGTATTTTGATAATTTTACAAATCAAG-GTATTTTGGTAATTT
71933286 GGTAAACTAA
Statistics
Matches: 180, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
53 10 0.06
54 160 0.89
55 10 0.06
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
AGGGTATTTTGATAATTTTACAAATCAAGGTATTTTGGTAATTTTGCAAATCG
Found at i:71933123 original size:81 final size:80
Alignment explanation
Indices: 71933037--71933285 Score: 263
Period size: 81 Copynumber: 3.1 Consensus size: 80
71933027 GGTATTTCAA
* * * * *
71933037 TAATTTTGCAAATCGAAGGTATTTCGGTAAGTTTGCAAATCGGGGGTATTTCGATAATTTTACAA
1 TAATTTTACAAATC-AAGGTATTTTGGTAATTTTGCAAATCGGGGGTATTTTGGTAATTTTACAA
71933102 ATC-AGGGGTA-TTTGG
65 ATCGA-GGGTATTTTGG
* * * *
71933117 TAAATTTTACAAA-CTAGGGGTATTTTGATAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTA
1 T-AATTTTACAAATC-A-AGGTATTTTGGTAATTTTGCAAATC-GGGGGTATTTTGGTAATTTTA
*
71933180 CTAATCGAGGGTATTTTGG
62 CAAATCGAGGGTATTTTGG
* * * * *
71933199 TAATTTTACTAATCAAGGATATTTTGGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGCTA
1 TAATTTTACAAATCAAGG-TATTTTGGTAATTTTGCAAATCGGGGGTATTTTGGTAATTTTACAA
*
71933264 ATCGAGAGTATTTTGG
65 ATCGAGGGTATTTTGG
71933280 TAATTT
1 TAATTT
71933286 GGTAAACTAA
Statistics
Matches: 141, Mismatches: 20, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
80 6 0.04
81 126 0.89
82 9 0.06
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
TAATTTTACAAATCAAGGTATTTTGGTAATTTTGCAAATCGGGGGTATTTTGGTAATTTTACAAA
TCGAGGGTATTTTGG
Found at i:71933299 original size:26 final size:27
Alignment explanation
Indices: 71933163--71933301 Score: 129
Period size: 27 Copynumber: 5.2 Consensus size: 27
71933153 CAAACTAGGG
* * **
71933163 GTATTTTGGTAATTTTACTAATCGAGG
1 GTATTTTGGTAATTTTGCTAAACGAAA
* * *
71933190 GTATTTTGGTAATTTTACTAATC-AAG
1 GTATTTTGGTAATTTTGCTAAACGAAA
* **
71933216 GATATTTTGGTAATTTTGCTAATCGAGG
1 G-TATTTTGGTAATTTTGCTAAACGAAA
* *
71933244 GTATTTTGGTAATTTTGCTAATCGAGA
1 GTATTTTGGTAATTTTGCTAAACGAAA
* *
71933271 GTATTTTGGTAA-TTTGGTAAACTAAA
1 GTATTTTGGTAATTTTGCTAAACGAAA
71933297 GTATT
1 GTATT
71933302 CTAAACAGGG
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
26 18 0.18
27 81 0.79
28 3 0.03
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (27 bp):
GTATTTTGGTAATTTTGCTAAACGAAA
Found at i:71939358 original size:27 final size:26
Alignment explanation
Indices: 71939341--71939410 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
71939331 ATATTAAGTC
71939341 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
71939368 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
71939396 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
71939411 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:71939404 original size:28 final size:28
Alignment explanation
Indices: 71939341--71939435 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
71939331 ATATTAAGTC
*
71939341 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
71939368 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
71939396 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
71939425 CGCACACTTAG
1 CGCACACTTAG
71939436 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:71941191 original size:27 final size:26
Alignment explanation
Indices: 71941161--71941212 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
71941151 GGGAAAATCG
71941161 ATAAAGTGGTAGTATGTG-AAAGTTATT
1 ATAAAGTGG-A-TATGTGCAAAGTTATT
* *
71941188 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
71941213 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 8 0.36
27 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:71943172 original size:24 final size:24
Alignment explanation
Indices: 71943120--71943201 Score: 105
Period size: 23 Copynumber: 3.4 Consensus size: 24
71943110 CAGCTCGTAT
*
71943120 GAGCTTACTGATATATCAGCTCGAA-A
1 GAGCTTACTG-T-TTTCAGCTC-AATA
71943146 GAGCTTACTGTTTTCAGCTCAATA
1 GAGCTTACTGTTTTCAGCTCAATA
*
71943170 GAGCTTACCG-TTTCAGCTCAATA
1 GAGCTTACTGTTTTCAGCTCAATA
71943193 GAGCTTACT
1 GAGCTTACT
71943202 ATTTAGCAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 23 0.44
24 18 0.35
25 1 0.02
26 10 0.19
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCAATA
Found at i:71945257 original size:24 final size:24
Alignment explanation
Indices: 71945230--71945278 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
71945220 ACTGTTTTCT
**
71945230 ATTTATTTGAATGATGGATAAATA
1 ATTTATTTGAATGATAAATAAATA
71945254 ATTTATTTGAATGATAAATAAATA
1 ATTTATTTGAATGATAAATAAATA
71945278 A
1 A
71945279 CTAAAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (24 bp):
ATTTATTTGAATGATAAATAAATA
Found at i:71947065 original size:62 final size:63
Alignment explanation
Indices: 71946996--71947149 Score: 249
Period size: 62 Copynumber: 2.5 Consensus size: 63
71946986 AATGATTATC
*
71946996 TTAATATTAAATTTAATTTAATTTTTATC-TTGTATATAAATATTATGTTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATTTTTATCATTGTATATAAATATTATATTATTTTAATAAGAT
* * *
71947058 TTAATATTAAATTTAATTTTATGTTTA-CATTGTATATAAATATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATTTAATTTTTATCATTGTATATAAATATTATATTATTTTAATAAGAT
*
71947120 TTAATATTAAATTTAATATAATTTTTATCA
1 TTAATATTAAATTTAATTTAATTTTTATCA
71947150 AGATAAATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
61 1 0.01
62 80 0.96
63 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.54
Consensus pattern (63 bp):
TTAATATTAAATTTAATTTAATTTTTATCATTGTATATAAATATTATATTATTTTAATAAGAT
Found at i:71947144 original size:33 final size:34
Alignment explanation
Indices: 71947043--71947178 Score: 99
Period size: 33 Copynumber: 4.1 Consensus size: 34
71947033 AAATATTATG
*
71947043 TTATTTTAATAAGATT-TAATATTAAATTTAATT
1 TTATTTTAATAAGATTATAATATTAAATTTAATA
* * * *
71947076 TTATGTT--T-ACATTGT-ATA-TAAATATT-CTA
1 TTATTTTAATAAGATTATAATATTAAAT-TTAATA
71947105 TTATTTTAATAAGATT-TAATATTAAATTTAATA
1 TTATTTTAATAAGATTATAATATTAAATTTAATA
* * *
71947138 TAATTTTTATCAAGATAAATATTATATTAAATTTAATA
1 TTATTTTAAT-AAGAT---TATAATATTAAATTTAATA
71947176 TTA
1 TTA
71947179 AAGTGATTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
29 12 0.15
30 9 0.11
31 4 0.05
32 9 0.11
33 21 0.27
34 5 0.06
37 1 0.01
38 18 0.23
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (34 bp):
TTATTTTAATAAGATTATAATATTAAATTTAATA
Found at i:71955517 original size:49 final size:49
Alignment explanation
Indices: 71955445--71955557 Score: 199
Period size: 49 Copynumber: 2.3 Consensus size: 49
71955435 TTATATAGTA
*
71955445 GTCTGGGACATGGCATCGGCCTCGATGGAGATAGCCAGCATAAGACCGT
1 GTCTGGGACATGGCATCGGCCTCGATGGAGATAGCCAGCATAAGACCAT
*
71955494 GTCTGGGACATGGCATCGGCCTCGATGGAGATAGCCAGCGTAAGACCAT
1 GTCTGGGACATGGCATCGGCCTCGATGGAGATAGCCAGCATAAGACCAT
*
71955543 GTCTGGGATATGGCA
1 GTCTGGGACATGGCA
71955558 GCGGAAACTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.24, C:0.23, G:0.34, T:0.19
Consensus pattern (49 bp):
GTCTGGGACATGGCATCGGCCTCGATGGAGATAGCCAGCATAAGACCAT
Found at i:71970264 original size:94 final size:95
Alignment explanation
Indices: 71970103--71970420 Score: 363
Period size: 94 Copynumber: 3.3 Consensus size: 95
71970093 GTTATGTGAG
* * * *
71970103 AGCCAGTATAAGACCATGTCTGGGAAATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTATAAGACCATGTCTGGGATATGGCATCGGCGTAGAGACGAGAGCTAGTGTAAGACATG
* * * *
71970168 TCTAGGACATGTATTAGCCAC-ATTAAGAT
66 TCTGGGACATGCATTAGCCTCGATGAAGAT
* * * *
71970197 AGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACATG
1 AGCCAGTATAAGACCATGTCTGGGATATGGCATCGGCGTAGAGACGAGAGCTAGTGTAAGACATG
* *
71970262 TCTGGGACATACATTAGCCTCGATGATGAT
66 TCTGGGACATGCATTAGCCTCGATGAAGAT
* * * * * * *
71970292 AGCCAATGTAAGA-CTTGTCTGGGACAT-GCATCAGAACGTATACACGAGAGCTAGTGTAAGACC
1 AGCCAGTATAAGACCATGTCTGGGATATGGCATC-G-GCGTAGAGACGAGAGCTAGTGTAAGA-C
* *
71970355 ATGTTTGGGACATGGCATCAGCCTCGATGAAGAT
63 ATGTCTGGGACAT-GCATTAGCCTCGATGAAGAT
*
71970389 AGCCAGCATAAGACCATGTCTGGGATATGGCA
1 AGCCAGTATAAGACCATGTCTGGGATATGGCA
71970421 GCAGAAACTT
Statistics
Matches: 186, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
93 5 0.03
94 88 0.47
95 38 0.20
96 13 0.07
97 27 0.15
98 12 0.06
99 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (95 bp):
AGCCAGTATAAGACCATGTCTGGGATATGGCATCGGCGTAGAGACGAGAGCTAGTGTAAGACATG
TCTGGGACATGCATTAGCCTCGATGAAGAT
Found at i:71970290 original size:47 final size:47
Alignment explanation
Indices: 71970155--71970413 Score: 193
Period size: 47 Copynumber: 5.4 Consensus size: 47
71970145 GACGAGGGCT
* * * * *
71970155 AGTGTAAGACATGTCTAGGACATGTATTAGCCAC-ATTAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGATGATGATAGCC
* ** * *
71970201 AGTGTAAGACCATGTCTGGGATATGGCATCGGCGTAGA-GATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCGATGATGA-TAGCC
*
71970249 AGTGTAAGACATGTCTGGGACATACATTAGCCTCGATGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGATGATGATAGCC
* * * ** * * * *
71970296 AATGTAAGACTTGTCTGGGACATGCATCAG-AACGTATACACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCTCG-AT-GATGATAGCC
* * *
71970344 AGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCGATGAAGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCGATGATGATAGCC
**
71970393 AGCATAAGACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
71970414 TATGGCAGCA
Statistics
Matches: 164, Mismatches: 38, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
46 20 0.12
47 61 0.37
48 34 0.21
49 38 0.23
50 9 0.05
51 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGCCTCGATGATGATAGCC
Found at i:71974028 original size:27 final size:27
Alignment explanation
Indices: 71973998--71974049 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
71973988 CCCATACTGA
*
71973998 TAAAATGACTGTTATACCCCTATGAGG
1 TAAAATGACTGATATACCCCTATGAGG
*
71974025 TAAAATGATTGATATACCCCTATGA
1 TAAAATGACTGATATACCCCTATGA
71974050 TATGTATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (27 bp):
TAAAATGACTGATATACCCCTATGAGG
Found at i:71975997 original size:27 final size:27
Alignment explanation
Indices: 71975966--71976143 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71975956 TAAATTGTAC
71975966 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71975993 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71976019 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71976047 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71976075 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71976102 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71976129 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71976144 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71976080 original size:82 final size:81
Alignment explanation
Indices: 71975967--71976122 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71975957 AAATTGTACA
* *
71975967 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71976031 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71976048 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71976113 TGCGAGTTGA
65 TGCGAATTGA
71976123 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71976134 original size:82 final size:81
Alignment explanation
Indices: 71975963--71976143 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71975953 GATTAAATTG
* *
71975963 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71976028 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71976044 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71976108 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71976126 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71976144 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71984049 original size:27 final size:27
Alignment explanation
Indices: 71984018--71984195 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
71984008 TAAATTGTAC
71984018 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
71984045 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71984071 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
71984099 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
71984127 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
71984154 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
71984181 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
71984196 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:71984132 original size:82 final size:81
Alignment explanation
Indices: 71984019--71984174 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
71984009 AAATTGTACA
* *
71984019 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
71984083 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
71984100 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
71984165 TGCGAGTTGA
65 TGCGAATTGA
71984175 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:71984186 original size:82 final size:81
Alignment explanation
Indices: 71984015--71984195 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
71984005 GATTAAATTG
* *
71984015 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
71984080 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
71984096 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
71984160 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
71984178 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
71984196 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:71988288 original size:22 final size:23
Alignment explanation
Indices: 71988263--71988307 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
71988253 TAGAAAAGTG
71988263 TAGAGAAAAACT-AA-ATAAAACT
1 TAGAG-AAAACTAAACATAAAACT
71988285 TAGAGAAAACTAAACATAAAACT
1 TAGAGAAAACTAAACATAAAACT
71988308 AAGCTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 7 0.33
23 8 0.38
ACGTcount: A:0.62, C:0.11, G:0.09, T:0.18
Consensus pattern (23 bp):
TAGAGAAAACTAAACATAAAACT
Found at i:71989862 original size:13 final size:13
Alignment explanation
Indices: 71989846--71989879 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
71989836 AATTTTTATG
71989846 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
71989859 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
*
71989872 CTTGGGTT
1 ATTGGGTT
71989880 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.03, G:0.44, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:71992699 original size:48 final size:48
Alignment explanation
Indices: 71992564--71992743 Score: 176
Period size: 48 Copynumber: 3.9 Consensus size: 48
71992554 GGTTATGTAC
* * *
71992564 GATCCCATGTAAGACCACGTTTGGGACATGGCTTTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGATATGT
* ** * * *
71992612 AATTTCGTGTAACACCA--TA---G-C-TAGGCTATCGGCATCGATATGT
1 GATCCCATGTAAGACCATGTATGGGACAT-GGC-ATTGGCATCGATATGT
*
71992655 GATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGATATGC
1 GATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGATATGT
* * *
71992703 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATC
71992744 CTACCATGTG
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 27 0.26
45 2 0.02
46 1 0.01
48 65 0.62
49 4 0.04
50 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCGATATGT
Found at i:71993454 original size:31 final size:31
Alignment explanation
Indices: 71993418--71993480 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
71993408 TCATTCGGCA
* *
71993418 TGGATGAATTGTGGATATGATTATGGATGTT
1 TGGATGAATTGTGGATATAATCATGGATGTT
71993449 TGGATGAATTGTGGATATAATCATGGATGTT
1 TGGATGAATTGTGGATATAATCATGGATGTT
71993480 T
1 T
71993481 TATGATGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.02, G:0.30, T:0.41
Consensus pattern (31 bp):
TGGATGAATTGTGGATATAATCATGGATGTT
Found at i:71998813 original size:11 final size:10
Alignment explanation
Indices: 71998781--71998855 Score: 75
Period size: 11 Copynumber: 7.5 Consensus size: 10
71998771 CATGAGATTT
71998781 TGATAT-ACA
1 TGATATGACA
*
71998790 TGATTTGACA
1 TGATATGACA
71998800 TGATATGCACA
1 TGATATG-ACA
*
71998811 TGATATG-TA
1 TGATATGACA
71998820 TGATATGTACA
1 TGATATG-ACA
*
71998831 TGATATG-TA
1 TGATATGACA
71998840 TGATATGCACA
1 TGATATG-ACA
71998851 TGATA
1 TGATA
71998856 AACTCATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
9 21 0.39
10 9 0.17
11 24 0.44
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:71998824 original size:9 final size:9
Alignment explanation
Indices: 71998810--71998846 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
71998800 TGATATGCAC
71998810 ATGATATGT
1 ATGATATGT
71998819 ATGATATGT
1 ATGATATGT
71998828 ACATGATATGT
1 --ATGATATGT
71998839 ATGATATG
1 ATGATATG
71998847 CACATGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGATATGT
Found at i:71998824 original size:20 final size:20
Alignment explanation
Indices: 71998799--71998855 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
71998789 ATGATTTGAC
71998799 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
71998819 ATGATATGTACATGATATGT
1 ATGATATGCACATGATATGT
71998839 ATGATATGCACATGATA
1 ATGATATGCACATGATA
71998856 AACTCATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:71999000 original size:25 final size:25
Alignment explanation
Indices: 71998903--71998987 Score: 143
Period size: 25 Copynumber: 3.4 Consensus size: 25
71998893 GAGGAAGTGC
* *
71998903 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
71998928 AAAATGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
71998953 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
71998978 AAAAGGGCTT
1 AAAAGGGCTT
71998988 GTCCTCCAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:71999228 original size:31 final size:31
Alignment explanation
Indices: 71999193--71999271 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
71999183 CGTTTACAGT
71999193 AAAGGCTTCGGCCCAGTGATATGATTTA-TGA
1 AAAGGCTTCGGCCCAGTGATATGA-TTAGTGA
* * *
71999224 AAAGGCTTCAGCCCAGTGGTTTGATTAGTGA
1 AAAGGCTTCGGCCCAGTGATATGATTAGTGA
* *
71999255 AAATGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
71999272 AACCGTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 3 0.07
31 38 0.93
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTAGTGA
Found at i:72006842 original size:11 final size:10
Alignment explanation
Indices: 72006810--72006884 Score: 75
Period size: 11 Copynumber: 7.5 Consensus size: 10
72006800 CATGAGATTT
72006810 TGATAT-ACA
1 TGATATGACA
*
72006819 TGATTTGACA
1 TGATATGACA
72006829 TGATATGCACA
1 TGATATG-ACA
*
72006840 TGATATG-TA
1 TGATATGACA
72006849 TGATATGTACA
1 TGATATG-ACA
*
72006860 TGATATG-TA
1 TGATATGACA
72006869 TGATATGCACA
1 TGATATG-ACA
72006880 TGATA
1 TGATA
72006885 AACTCATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
9 21 0.39
10 9 0.17
11 24 0.44
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (10 bp):
TGATATGACA
Found at i:72006853 original size:9 final size:9
Alignment explanation
Indices: 72006839--72006875 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
72006829 TGATATGCAC
72006839 ATGATATGT
1 ATGATATGT
72006848 ATGATATGT
1 ATGATATGT
72006857 ACATGATATGT
1 --ATGATATGT
72006868 ATGATATG
1 ATGATATG
72006876 CACATGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.65
11 9 0.35
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (9 bp):
ATGATATGT
Found at i:72006853 original size:20 final size:20
Alignment explanation
Indices: 72006828--72006884 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
72006818 ATGATTTGAC
72006828 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
*
72006848 ATGATATGTACATGATATGT
1 ATGATATGCACATGATATGT
72006868 ATGATATGCACATGATA
1 ATGATATGCACATGATA
72006885 AACTCATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:72007029 original size:25 final size:25
Alignment explanation
Indices: 72006932--72007016 Score: 134
Period size: 25 Copynumber: 3.4 Consensus size: 25
72006922 GAGGAAGTGC
* *
72006932 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
* *
72006957 AAAATGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
72006982 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
72007007 AAAAGGGCTT
1 AAAAGGGCTT
72007017 GTCCTCCAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:72007257 original size:31 final size:31
Alignment explanation
Indices: 72007222--72007300 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
72007212 CGTTTACAGT
72007222 AAAGGCTTCGGCCCAGTGATATGATTTA-TGA
1 AAAGGCTTCGGCCCAGTGATATGA-TTAGTGA
* * *
72007253 AAAGGCTTCAGCCCAGTGGTTTGATTAGTGA
1 AAAGGCTTCGGCCCAGTGATATGATTAGTGA
* *
72007284 AAATGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
72007301 AACCGTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 3 0.07
31 38 0.93
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTAGTGA
Found at i:72009617 original size:27 final size:27
Alignment explanation
Indices: 72009586--72009687 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
72009576 CCCCAAAATA
* *
72009586 GGTAAAATAACCATAATGCCCCTATAG
1 GGTAAAATGACCATAATGCCCCTGTAG
*
72009613 GGTAAAATGACCATAATGCCCTTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAG
* *
72009640 GGTAAAATGACCATAATGCCTCTGTAT
1 GGTAAAATGACCATAATGCCCCTGTAG
* *
72009667 GGTAAAATGACGATTATGCCC
1 GGTAAAATGACCATAATGCCC
72009688 TTATGTTTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCATAATGCCCCTGTAG
Found at i:72009870 original size:27 final size:26
Alignment explanation
Indices: 72009813--72009904 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
72009803 ATGGAGGAAG
* *
72009813 TACTGTACTGGTGACTATGTCAC-AT
1 TACTGTTCTGGTGACTATGCCACAAT
72009838 TCACTGTTGCTGGTGACTATGCCACAAT
1 T-ACTGTT-CTGGTGACTATGCCACAAT
* * * *
72009866 TACTGATACTGGTGGCTTTGCCACACT
1 TACTG-TTCTGGTGACTATGCCACAAT
72009893 TACTGTTCTGGT
1 TACTGTTCTGGT
72009905 AGCTATGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 11 0.20
27 40 0.71
28 4 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
TACTGTTCTGGTGACTATGCCACAAT
Found at i:72010104 original size:33 final size:33
Alignment explanation
Indices: 72010066--72010160 Score: 136
Period size: 33 Copynumber: 2.9 Consensus size: 33
72010056 GCCACACTAT
72010066 TACTGTATAGGGCTAAAGCCCAAACTGTGCTGA
1 TACTGTATAGGGCTAAAGCCCAAACTGTGCTGA
* * *
72010099 TACTGTATAGGGCTAAGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAAGCCCAAACTGTGCTGA
** *
72010132 TACTAAATAGGGCTCAAGCCCAAACTGTG
1 TACTGTATAGGGCTAAAGCCCAAACTGTG
72010161 TTATTCACTG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (33 bp):
TACTGTATAGGGCTAAAGCCCAAACTGTGCTGA
Found at i:72015113 original size:48 final size:47
Alignment explanation
Indices: 72015042--72015173 Score: 192
Period size: 48 Copynumber: 2.7 Consensus size: 47
72015032 ACGATGGCTC
*
72015042 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGT-CCAGACATGGTCTTACACTGGCTCACATAACA
* *
72015090 ATGCCGATGTCATGTCTCAGACATGGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTC-CAGACATGGTCTTACACTGGCTCACATAACA
**
72015138 ATATCGATGCCATGTCCTAGACATGGTCTTACACTG
1 ATGCCGATGCCATGTCC-AGACATGGTCTTACACTG
72015174 TTACACATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
47 2 0.03
48 74 0.97
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
ATGCCGATGCCATGTCCAGACATGGTCTTACACTGGCTCACATAACA
Found at i:72017561 original size:16 final size:17
Alignment explanation
Indices: 72017542--72017579 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
72017532 CTATTTAACC
* *
72017542 ATTTGTTTATTTTA-TT
1 ATTTATTTATATTAGTT
72017558 ATTTATTTATATTAGTT
1 ATTTATTTATATTAGTT
72017575 ATTTA
1 ATTTA
72017580 CTTTCTAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTATTTATATTAGTT
Found at i:72019318 original size:42 final size:42
Alignment explanation
Indices: 72019267--72019388 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
72019257 GATATGAGAT
* *
72019267 TTACGTGTAAGACCATGTCTGGGACATCGACATTGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACATCGGCATTGTATTTGA
* * * * *
72019309 TTTCATGTAAGACCCTGTCTGGGAAAGT-GGCATCGACATTTGA
1 TTACATGTAAGACCATGTCTGGGACA-TCGGCATTG-TATTTGA
* * *
72019352 TTACATGTAAGACCACGTCTAGGACGTCGGCATTGTA
1 TTACATGTAAGACCATGTCTGGGACATCGGCATTGTA
72019389 CGAGCTTTTC
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGGCATTGTATTTGA
Found at i:72020978 original size:50 final size:50
Alignment explanation
Indices: 72020814--72021153 Score: 326
Period size: 50 Copynumber: 6.8 Consensus size: 50
72020804 ATGATCTATT
* *
72020814 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCAC
* * * ** * * * *
72020864 ATGTATAGTACTATGTGCAGGCTACTATGCATACCCG-TTAACTTCA-ATCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--T-AGGTCAC
* * *
72020915 ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCAC
* * * * * * * *
72020965 GTGTGTAGTACTAAGTGCATGCTACTATGCGTGCCTG-TTAACTTCGATCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGTCAC
* * * * * * *
72021016 GTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATGGTTAAGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCAC
*
72021066 GTGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATTGATAGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCAC
* *
72021116 ATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
72021154 GAGCTTCGGT
Statistics
Matches: 226, Mismatches: 56, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
49 7 0.03
50 145 0.64
51 69 0.31
52 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCAC
Found at i:72020990 original size:101 final size:101
Alignment explanation
Indices: 72020815--72021153 Score: 414
Period size: 101 Copynumber: 3.4 Consensus size: 101
72020805 TGATCTATTG
* * * *
72020815 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCACATGTATAGTACTATGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACGTGTGTAGTACTAAGT
* *
72020880 GCAGGCTACTATGCATACCCGTTAACTTCAATCATA
66 GCAGGCTACTATGCGTACCAGTTAACTTCAATCATA
*
72020916 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACGTGTGTAGTACTAAGT
* * * * *
72020981 GCATGCTACTATGCGTGCCTGTTAACTTCGATCATG
66 GCAGGCTACTATGCGTACCAGTTAACTTCAATCATA
* * * * * *
72021017 TGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACGTGTGTAGTACTAAGT
* * * * *
72021082 GCAGGCCACTATGTGTACCAGATTGA--T-AGGTCACA
66 GCAGGCTACTATGCGTACCAG-TTAACTTCA-ATCATA
* *
72021117 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
72021154 GAGCTTCGGT
Statistics
Matches: 204, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
100 37 0.18
101 164 0.80
102 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTATGCGTACCAGTTAACTTCAATCATA
Found at i:72024640 original size:15 final size:15
Alignment explanation
Indices: 72024603--72024641 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
72024593 TATGATATTG
72024603 TATCTTGGATTTCCT
1 TATCTTGGATTTCCT
*
72024618 TATGTTGGATTT-CT
1 TATCTTGGATTTCCT
72024632 CTATCTTGGA
1 -TATCTTGGA
72024642 GATCCTGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (15 bp):
TATCTTGGATTTCCT
Found at i:72026791 original size:19 final size:18
Alignment explanation
Indices: 72026755--72026793 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
72026745 TTGTAAGTAT
72026755 ATATTTGTGAATAATTTG
1 ATATTTGTGAATAATTTG
* *
72026773 ATATTATGTGATTATTTTG
1 ATATT-TGTGAATAATTTG
72026792 AT
1 AT
72026794 GATATAACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (18 bp):
ATATTTGTGAATAATTTG
Found at i:72027338 original size:102 final size:100
Alignment explanation
Indices: 72027149--72027338 Score: 222
Period size: 102 Copynumber: 1.9 Consensus size: 100
72027139 CCATTGTGAG
* * *
72027149 TCACGTGTGTAGTACTACGTGCAGCAACTACGTGTACTAGATTGATAGGTCGCATGTGTAGTACG
1 TCACGTGTGTAATACTAAGTGCAGCAACTACGTGTACTAGATGGATAGGTCGCATGTGTAGTACG
*
72027214 AAGTGCAAGCTACTATGCGTACCCGTTAACTTCGA
66 AAGTGCAAGCTACTACGCGTACCCGTTAACTTCGA
* * * *
72027249 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTATGTCACGTAT-TGTAG
1 TCACGTGTGTAATACTAAGTGCA-GCAACTACGTGTACT-AGATGGATAGGT--CGCATGTGTAG
* * * *
72027312 TACTAAGTGCAGGTTACTACGTGTACC
62 TACGAAGTGCAAGCTACTACGCGTACC
72027339 AGATTGATAG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
100 22 0.30
101 21 0.28
102 27 0.36
103 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAATACTAAGTGCAGCAACTACGTGTACTAGATGGATAGGTCGCATGTGTAGTACG
AAGTGCAAGCTACTACGCGTACCCGTTAACTTCGA
Found at i:72027370 original size:101 final size:101
Alignment explanation
Indices: 72027249--72027542 Score: 299
Period size: 101 Copynumber: 2.9 Consensus size: 101
72027239 TTAACTTCGA
* * * * * *
72027249 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGTTATGTCACGTATTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTACGTCACGTATTGTAGTA
* * * *
72027314 CTAAGTGCAGGTTACTACGTGTACCAGATTGATAGG
66 CTAAGTGCAGGCTACTAAGTGTACCAGATGGATAAG
* * ** * * * *
72027350 TCGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCGTTAACTT-CGATCACGT-GTGTAG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-AGTTACG-TCACGTATTGTAG
* *
72027413 TACTAAGTGCAGGCTACTAAGTGTATCAGATGGTTAAG
64 TACTAAGTGCAGGCTACTAAGTGTACCAGATGGATAAG
* * * * *
72027451 TCACATGTGTAGTACTAAGTGCAGACTATTATGTGTACCAGATTGATAGGTCAC--ATGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTACGTCACGTAT-TGTAGT
*
72027514 ACTAAGTGCAGGCTACTATGTGTACCAGA
65 ACTAAGTGCAGGCTACTAAGTGTACCAGA
72027543 GAGCTTCGGT
Statistics
Matches: 153, Mismatches: 35, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
100 38 0.25
101 107 0.70
102 8 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTACGTCACGTATTGTAGTA
CTAAGTGCAGGCTACTAAGTGTACCAGATGGATAAG
Found at i:72027380 original size:50 final size:50
Alignment explanation
Indices: 72027148--72027542 Score: 341
Period size: 50 Copynumber: 7.9 Consensus size: 50
72027138 TCCATTGTGA
* * * * *
72027148 GTCACGTGTGTAGTACTACGTGC-AGCAACTACGTGTACTAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGATAG
* * * * * *
72027197 GTCGCATGTGTAGTACGAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGA--TAG
* * * * * * * * *
72027248 ATCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAT
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGATAG
* * *
72027298 GTCACGTAT-TGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTGATAG
1 GTCAC--ATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGATAG
* ** * * *
72027349 GTCGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGA--TAG
* * * * * * * *
72027400 ATCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGATAG
*
72027450 GTCACATGTGTAGTACTAAGTGC-AGACTATTATGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAAG-CTACTATGTGTACCAGATTGATAG
*
72027500 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGA
72027543 GAGCTTCGGT
Statistics
Matches: 266, Mismatches: 68, Indels: 23
0.75 0.19 0.06
Matches are distributed among these distances:
49 28 0.11
50 125 0.47
51 110 0.41
52 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATTGATAG
Found at i:72027454 original size:152 final size:152
Alignment explanation
Indices: 72027147--72027532 Score: 600
Period size: 152 Copynumber: 2.6 Consensus size: 152
72027137 ATCCATTGTG
* * * *
72027147 AGTCACGT-GTGTAGTACTACGTGCA-GCAACTACGTGTACTAGATTGATAGGTCGCATGTGTAG
1 AGTCACGTATTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAG
* *
72027210 TACGAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAATACTAAGTGCAGGC
66 TACTAAGTGCAAGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAATACTAAGTGCAGGC
*
72027275 TACTACGTGTATCAGATGGTTA
131 TACTAAGTGTATCAGATGGTTA
* *
72027297 TGTCACGTATTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTGATAGGTCGCATGTGTAG
1 AGTCACGTATTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAG
*
72027362 TACTAAGTGCAAGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGCAGGC
66 TACTAAGTGCAAGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAATACTAAGTGCAGGC
72027427 TACTAAGTGTATCAGATGGTTA
131 TACTAAGTGTATCAGATGGTTA
* * * *
72027449 AGTCAC--ATGTGTAGTACTAAGTGCAGACTATTATGTGTACCAGATTGATAGGTCACATGTGTA
1 AGTCACGTAT-TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTA
*
72027512 GTACTAAGTGCAGGCTACTAT
65 GTACTAAGTGCAAGCTACTAT
72027533 GTGTACCAGA
Statistics
Matches: 216, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
150 9 0.04
151 84 0.39
152 123 0.57
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (152 bp):
AGTCACGTATTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAG
TACTAAGTGCAAGCTACTATACGTACCCGTTAACTTCGATCACGTGTGTAATACTAAGTGCAGGC
TACTAAGTGTATCAGATGGTTA
Found at i:72032306 original size:30 final size:31
Alignment explanation
Indices: 72032272--72032329 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
72032262 ATTAGTCTAG
72032272 TAATTAATTATAA-TT-AACTCAATTAATCTT
1 TAATTAATTA-AACTTAAACTCAATTAATCTT
*
72032302 TAATTAATTAAACTTAAACTTAATTAAT
1 TAATTAATTAAACTTAAACTCAATTAAT
72032330 ATATTTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 2 0.08
30 12 0.48
31 11 0.44
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (31 bp):
TAATTAATTAAACTTAAACTCAATTAATCTT
Found at i:72032310 original size:15 final size:16
Alignment explanation
Indices: 72032287--72032329 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
72032277 AATTATAATT
* *
72032287 AACTCAATTAATCTTT
1 AACTTAATTAATCTTA
*
72032303 AA-TTAATTAAACTTA
1 AACTTAATTAATCTTA
72032318 AACTTAATTAAT
1 AACTTAATTAAT
72032330 ATATTTGGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (16 bp):
AACTTAATTAATCTTA
Found at i:72052566 original size:29 final size:29
Alignment explanation
Indices: 72052533--72052626 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 29
72052523 TGCGAGATAC
72052533 TAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TAAATCCGGGTTAAGTCCGAAGGCATTCG
72052562 TAAATCCGGGTTAAGT-CGAAGGCATTCGGCGAG
1 TAAATCCGGGTTAAGTCCGAAGGCATT---C--G
72052595 TTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 -TAAATCCGGGTTAAGT-CCGAAGGCATTCG
72052626 T
1 T
72052627 GCGAGTTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
28 10 0.18
29 16 0.28
30 1 0.02
31 2 0.04
33 2 0.04
34 16 0.28
36 10 0.18
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (29 bp):
TAAATCCGGGTTAAGTCCGAAGGCATTCG
Found at i:72052646 original size:40 final size:40
Alignment explanation
Indices: 72052562--72052742 Score: 241
Period size: 40 Copynumber: 4.7 Consensus size: 40
72052552 AAGGCATTCG
72052562 TAAATCCGGGTTAAGT--CGAAGGCATTCG-GCGAG---T
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
72052596 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
* *
72052636 TAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
* * *
72052676 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTAC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
* * *
72052715 TAAAACCGGGCTATGTCCCGAAGGCATT
1 TAAATCCGGGTTAAGTCCCGAAGGCATT
72052743 TGAACGAGGA
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
34 16 0.12
36 12 0.09
37 5 0.04
39 34 0.26
40 65 0.49
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
Found at i:72052694 original size:80 final size:75
Alignment explanation
Indices: 72052562--72052740 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 75
72052552 AAGGCATTCG
*
72052562 TAAATCCGGGTTAAGT--CGAAGGCATTCGGCGAGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TAAATCCGGGTTAAGTCCCGAAGGCAGTCGGCGAGTTAAATCCGGGTTAAGTCCCGAAGGCATT-
*
72052625 GTGCGAGTTAT
65 GTGCGAGTTAC
*
72052636 TAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCAGTCG-GCGA---GTTAAATCCGGGTTAAGTCCCGAAGGC
*
72052701 ATTGTGTGAGTTAC
62 ATTGTGCGAGTTAC
* * *
72052715 TAAAACCGGGCTATGTCCCGAAGGCA
1 TAAATCCGGGTTAAGTCCCGAAGGCA
72052741 TTTGAACGAG
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
74 16 0.17
76 11 0.12
77 4 0.04
79 32 0.35
80 29 0.32
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (75 bp):
TAAATCCGGGTTAAGTCCCGAAGGCAGTCGGCGAGTTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTAC
Found at i:72052762 original size:79 final size:80
Alignment explanation
Indices: 72052596--72052777 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 80
72052586 TTCGGCGAGT
* * *
72052596 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
72052661 AGTCGTGCGAGTTGT
66 AGTCGAACGAGGAGC
* * *
72052676 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
* *
72052740 ATTTGAACGAGGAGC
66 AGTCGAACGAGGAGC
* *
72052755 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
72052778 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
AGTCGAACGAGGAGC
Found at i:72060571 original size:48 final size:51
Alignment explanation
Indices: 72060492--72060590 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 51
72060482 TTCGTGCGGT
72060492 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTATTAAATCC
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTATTAAATCC
*
72060542 TATT-AATTCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTTATTAAATCC
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTATTAAATCC
72060591 GGGTTAAGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
48 19 0.40
49 24 0.51
50 4 0.09
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (51 bp):
TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTATTAAATCC
Found at i:72060584 original size:49 final size:50
Alignment explanation
Indices: 72060492--72060630 Score: 174
Period size: 48 Copynumber: 3.0 Consensus size: 50
72060482 TTCGTGCGGT
72060492 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCC
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCC
*
72060542 TATT-AATTCGGGTTAAGT-CCGAAGGCATTCGTGCGAG----T---T--
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCC
* *
72060581 TATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAATCC
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCC
72060631 GGGTTATGTC
Statistics
Matches: 75, Mismatches: 3, Indels: 22
0.75 0.03 0.22
Matches are distributed among these distances:
39 4 0.05
40 13 0.17
41 19 0.25
44 1 0.01
45 1 0.01
48 20 0.27
49 13 0.17
50 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCC
Found at i:72060596 original size:40 final size:40
Alignment explanation
Indices: 72060542--72060688 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
72060532 TATTAAATCC
*
72060542 TATT-AATTCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTT
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-T
*
72060581 TATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGT
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
* * *
72060621 TGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGT
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
* * * *
72060660 TACTAAA-ACGGGCTATGT-CCGAAGGCATT
1 TATTAAATCCGGGTTAAGTCCCGAAGGCATT
72060689 TGAACGAGGA
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
37 11 0.11
38 9 0.09
39 16 0.17
40 42 0.44
41 18 0.19
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (40 bp):
TATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
Found at i:72060615 original size:89 final size:87
Alignment explanation
Indices: 72060465--72060630 Score: 296
Period size: 89 Copynumber: 1.9 Consensus size: 87
72060455 GATATAAATC
*
72060465 GGTTAAGTCCGAAGGCATTCGTGCGGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 GGTTAAGTCCGAAGGCATTCGTGCGGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGA
72060530 GTTATTAAATCCTATTAATTCG
66 GTTATTAAATCCTATTAATTCG
72060552 GGTTAAGTCCGAAGGCATTCGTGCGAGTTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGC
1 GGTTAAGTCCGAAGGCATTCGTGCG-G-TTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGC
*
72060617 GAGTTGTTAAATCC
64 GAGTTATTAAATCC
72060631 GGGTTATGTC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
87 25 0.33
88 1 0.01
89 49 0.65
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (87 bp):
GGTTAAGTCCGAAGGCATTCGTGCGGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGA
GTTATTAAATCCTATTAATTCG
Found at i:72063689 original size:38 final size:38
Alignment explanation
Indices: 72063622--72063834 Score: 252
Period size: 38 Copynumber: 5.5 Consensus size: 38
72063612 GCACAAAACT
* **
72063622 TGCGGGATTTAAGCTCAAATATAATACCAGCACTAAGCC
1 TGCGGGATTTAA-CCCGGATATAATACCAGCACTAAGCC
*
72063661 TGCGGGATTTAACCCGGATATAATACCAGCACGAAGCC
1 TGCGGGATTTAACCCGGATATAATACCAGCACTAAGCC
** *
72063699 TGCGGGATTTAACCCGGATATAATTTCAGCACGAAGCC
1 TGCGGGATTTAACCCGGATATAATACCAGCACTAAGCC
* * *
72063737 TGCGGGCTTTAACTCGGATATAATACCAGCA-TGAAGCT
1 TGCGGGATTTAACCCGGATATAATACCAGCACT-AAGCC
*
72063775 TGCGGGATTTAACCCGGATATAATTCCAGCA-TATAGCC
1 TGCGGGATTTAACCCGGATATAATACCAGCACTA-AGCC
72063813 TGC-GGATCTTTAAGCCCGGATA
1 TGCGGGA--TTTAA-CCCGGATA
72063835 CATCAAATAA
Statistics
Matches: 153, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
37 4 0.03
38 124 0.81
39 17 0.11
40 8 0.05
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (38 bp):
TGCGGGATTTAACCCGGATATAATACCAGCACTAAGCC
Found at i:72063813 original size:76 final size:76
Alignment explanation
Indices: 72063620--72063834 Score: 281
Period size: 76 Copynumber: 2.8 Consensus size: 76
72063610 CTGCACAAAA
* ** *
72063620 CTTGCGGGATTTAAGCTCAAATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 CTTGCGGGATTTAA-CCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
72063685 ACCAGCACGAAG
65 ACCAGCACGAAG
* * * * *
72063697 CCTGCGGGATTTAACCCGGATATAATTTCAGCACGAAGCCTGCGGGCTTTAACTCGGATATAATA
1 CTTGCGGGATTTAACCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATA
*
72063762 CCAGCATGAAG
66 CCAGCACGAAG
72063773 CTTGCGGGATTTAACCCGGATATAATTCCAGCA-TATAGCCTGC-GGATCTTTAAGCCCGGATA
1 CTTGCGGGATTTAACCCGGATATAATTCCAGCACTA-AGCCTGCGGGA--TTTAA-CCCGGATA
72063835 CATCAAATAA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
75 3 0.03
76 91 0.76
77 18 0.15
78 7 0.06
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (76 bp):
CTTGCGGGATTTAACCCGGATATAATTCCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATA
CCAGCACGAAG
Found at i:72065700 original size:20 final size:20
Alignment explanation
Indices: 72065671--72065709 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
72065661 ATAATAAATT
72065671 AAAGAAGAATTAAAA-AAGGA
1 AAAGAAGAA-TAAAATAAGGA
*
72065691 AAAGATGAATAAAATAAGG
1 AAAGAAGAATAAAATAAGG
72065710 GAGGAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.13
Consensus pattern (20 bp):
AAAGAAGAATAAAATAAGGA
Found at i:72071512 original size:41 final size:40
Alignment explanation
Indices: 72071379--72071521 Score: 173
Period size: 40 Copynumber: 3.5 Consensus size: 40
72071369 TCGCACAAGG
* * * *
72071379 CTTCGGGTCTTAACCCGGATATGGTCACTAGCA-AAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA-GC
*
72071419 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAAGC
* * *
72071459 CTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGTACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAAGC
72071500 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
72071522 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 53 0.60
41 29 0.33
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAAGC
Found at i:72073589 original size:27 final size:27
Alignment explanation
Indices: 72073559--72073900 Score: 185
Period size: 27 Copynumber: 12.7 Consensus size: 27
72073549 TGTAGTGTAG
* *
72073559 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTACAA
** * *
72073586 AATTA-CTGAATACCCTTGGTTTAAAA
1 AATTACCAAAATACCCTTGATTTACAA
* *
72073612 AATTACCAAAATACCCTCGA-TTAGAAA
1 AATTACCAAAATACCCTTGATTTA-CAA
* **
72073639 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTACAA
* ***
72073666 AATTACCAAAATACTCTTGATTTGTGA
1 AATTACCAAAATACCCTTGATTTACAA
* * ** ***
72073693 AATTACCGAAATACCCTCGACCTGTGA
1 AATTACCAAAATACCCTTGATTTACAA
* * *
72073720 AATTGCCGAAATACCCTCGATTT-CTAA
1 AATTACCAAAATACCCTTGATTTAC-AA
**
72073747 AATTACCAAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTACAA
* * * *
72073774 AATTATCGAAATACCCTTAATTTAGAA
1 AATTACCAAAATACCCTTGATTTACAA
*
72073801 AATTA-CAGAAATACTCC-TAATTTACAA
1 AATTACCA-AAATAC-CCTTGATTTACAA
* * * *
72073828 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGATTTACAA
* * * ** *
72073855 AATTATCGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTACAA
* *
72073882 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
72073901 TAGGGTGAAA
Statistics
Matches: 255, Mismatches: 49, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 28 0.11
27 222 0.87
28 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTACAA
Found at i:72073710 original size:81 final size:81
Alignment explanation
Indices: 72073559--72073871 Score: 232
Period size: 81 Copynumber: 3.9 Consensus size: 81
72073549 TGTAGTGTAG
* * * ** * ** *
72073559 AATTACTAAAATACCCTTGGTTTAC-AAAATTA-CTGAATACCCTTGGTTTAAAAAATTACCAAA
1 AATTACCAAAATACCCTAGATTT-CTAAAATTACCAAAATACCCTTGATTTGGAAAATTACCGAA
*
72073622 ATACCCTCGA-TTAGAAA
65 ATACCCTCGACCT-GAAA
* *
72073639 AATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACTCTTGATTTGTG-AAATTACCGA
1 AATTACCAAAATA-CCCTAGATTTCTAAAATTACCAAAATACCCTTGATTTG-GAAAATTACCGA
**
72073702 AATACCCTCGACCTGTGA
64 AATACCCTCGACCTGAAA
* * * *
72073720 AATTGCCGAAATACCCTCGATTTCTAAAATTACCAAAATACCCTTGATTTGGAAAATTATCGAAA
1 AATTACCAAAATACCCTAGATTTCTAAAATTACCAAAATACCCTTGATTTGGAAAATTACCGAAA
* ** *
72073785 TACCCT-TAATTTAGAA
66 TACCCTCGACCTGA-AA
* * * * *
72073801 AATTA-CAGAAATACTCCTA-ATTTAC-AAAATTA-TAGAAATACCATTGGTTTGCAAAATTATC
1 AATTACCA-AAATAC-CCTAGATTT-CTAAAATTACCA-AAATACCCTTGATTTGGAAAATTACC
72073862 GAAATACCCT
62 GAAATACCCT
72073872 TGGTTTGTAG
Statistics
Matches: 189, Mismatches: 32, Indels: 23
0.77 0.13 0.09
Matches are distributed among these distances:
80 32 0.17
81 152 0.80
82 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCTAGATTTCTAAAATTACCAAAATACCCTTGATTTGGAAAATTACCGAAA
TACCCTCGACCTGAAA
Found at i:72074618 original size:22 final size:22
Alignment explanation
Indices: 72074593--72074637 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
72074583 GTTGCTGCGA
72074593 TGTTTACAGCTATGTGCTGTCC
1 TGTTTACAGCTATGTGCTGTCC
* * *
72074615 TGTTTACGGTTATGTGTTGTCC
1 TGTTTACAGCTATGTGCTGTCC
72074637 T
1 T
72074638 ATCTACGGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (22 bp):
TGTTTACAGCTATGTGCTGTCC
Found at i:72074644 original size:22 final size:22
Alignment explanation
Indices: 72074603--72074645 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
72074593 TGTTTACAGC
* *
72074603 TATGTGCTGTCCTGTTTACGGT
1 TATGTGCTGTCCTATCTACGGT
*
72074625 TATGTGTTGTCCTATCTACGG
1 TATGTGCTGTCCTATCTACGG
72074646 CGTTGAGCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
TATGTGCTGTCCTATCTACGGT
Found at i:72083962 original size:44 final size:45
Alignment explanation
Indices: 72083908--72083995 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
72083898 ACGTATAAAA
* *
72083908 CATGGACTTACTCACACA-CATATATCGGAATCACATATCGATGC
1 CATGGACTTACTCACACATCACATATCAGAATCACATATCGATGC
*
72083952 CATGGTCTTACTCACACATCACATATCAGAATCACATATCGATG
1 CATGGACTTACTCACACATCACATATCAGAATCACATATCGATG
72083996 ACAACGTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 17 0.43
45 23 0.57
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.26
Consensus pattern (45 bp):
CATGGACTTACTCACACATCACATATCAGAATCACATATCGATGC
Found at i:72083988 original size:101 final size:101
Alignment explanation
Indices: 72083859--72084099 Score: 328
Period size: 101 Copynumber: 2.4 Consensus size: 101
72083849 AGACAGGGTT
* *
72083859 TTACTCGCACA-CATATATCAGAATCACATTTCGATGCCAACGTA-TAAAACATGGACTTAC-TC
1 TTACTCGCACATCACATATCAGAATCACATATCGATGCCAACGTATTAAAA-ATGGACTTACTTC
*
72083921 A-CACACATATATCGGAATCACATATCGATGCCATGGTC
65 AGCACACATATAT--GAATCACACATCGATGCCATGGTC
* * * *
72083959 TTACTCACACATCACATATCAGAATCACATATCGATGACAACGTATTAAAAATGGTCTTACTTGA
1 TTACTCGCACATCACATATCAGAATCACATATCGATGCCAACGTATTAAAAATGGACTTACTTCA
*
72084024 GCACATATATATGAATCACACATCGATGCCATGGTC
66 GCACACATATATGAATCACACATCGATGCCATGGTC
* *
72084060 TTACTCGCACATCACATATCAGAATTCACATGTCAATGCC
1 TTACTCGCACATCACATATCAGAA-TCACATATCGATGCC
72084100 TCATATACAT
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
100 10 0.08
101 85 0.69
102 19 0.15
103 10 0.08
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (101 bp):
TTACTCGCACATCACATATCAGAATCACATATCGATGCCAACGTATTAAAAATGGACTTACTTCA
GCACACATATATGAATCACACATCGATGCCATGGTC
Found at i:72085944 original size:27 final size:27
Alignment explanation
Indices: 72085906--72086095 Score: 245
Period size: 27 Copynumber: 7.0 Consensus size: 27
72085896 TTACAAAATG
*
72085906 ATTGAAATACCCCTGTACGGTAGAATT
1 ATTGAAATACCCCTGTAGGGTAGAATT
72085933 ATTGAAATACCCCTGTAGGGTAGAATT
1 ATTGAAATACCCCTGTAGGGTAGAATT
* * *
72085960 ACTGAAATACCCCTGTAGGGTATATTT
1 ATTGAAATACCCCTGTAGGGTAGAATT
* *
72085987 ATTGAAATACCCCTATAAGGTAGAATT
1 ATTGAAATACCCCTGTAGGGTAGAATT
* *
72086014 ACTGAAATACCCCCGTAGGGTAGAATT
1 ATTGAAATACCCCTGTAGGGTAGAATT
***
72086041 ACCAAAATACCCCTGTAGGGTAGAATT
1 ATTGAAATACCCCTGTAGGGTAGAATT
* * * *
72086068 ATTGAGATACCCTTGTGGGGTAAAATT
1 ATTGAAATACCCCTGTAGGGTAGAATT
72086095 A
1 A
72086096 CCATTTTGCC
Statistics
Matches: 140, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
ATTGAAATACCCCTGTAGGGTAGAATT
Done.