Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 94 of 205
Found at i:27382675 original size:12 final size:12
Alignment explanation
Indices: 27382636--27382679 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
27382626 CTTAACTCCC
*
27382636 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
27382648 ATTTTAAAAATA
1 TTTTTTAAAATA
27382660 TTTTTTAAAAT-
1 TTTTTTAAAATA
27382671 TTTTTTAAA
1 TTTTTTAAA
27382680 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:27384219 original size:18 final size:18
Alignment explanation
Indices: 27384192--27384231 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27384182 CAGGTGCGTT
* *
27384192 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATACGTA
27384210 TCCTAACCCTTATACGTA
1 TCCTAACCCTTATACGTA
27384228 TCCT
1 TCCT
27384232 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.38
Consensus pattern (18 bp):
TCCTAACCCTTATACGTA
Found at i:27384745 original size:70 final size:71
Alignment explanation
Indices: 27384660--27384791 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
27384650 TATTTTGATA
* * * *
27384660 TTATTTTATGCAATAAAATAGA-AAATTTTTTGAGTTATTTTGATATTCTTTGATGTAATAAAAT
1 TTATTTGATGCAATAAAACAGATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAAT
27384724 AGAAGT
66 AGAAGT
* ***
27384730 TTATTTGATGTAATAAAACAGATTTTTTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
1 TTATTTGATGCAATAAAACAGATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
27384792 CATGAGCTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
70 19 0.36
71 34 0.64
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (71 bp):
TTATTTGATGCAATAAAACAGATAAATTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAAT
AGAAGT
Found at i:27386004 original size:125 final size:125
Alignment explanation
Indices: 27385760--27385986 Score: 384
Period size: 125 Copynumber: 1.8 Consensus size: 125
27385750 TCCAAACATG
* *
27385760 CTACTGTAGCAAAAGCGCGTCCATGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCATCCATGAAGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTGC
* *
27385825 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATATTTCTTCCTCAAC
66 TAGAAGCGATTTTATACTATTTGATCACAAACGTCAAAAAAAAAATATTTCTTCCTCAAC
*
27385885 CTACTGTAGCAAAAGCGCATCC-TCGAGGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCATCCAT-GAAGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTG
*
27385949 CTAGAAGTGATTTTATACTATTTGATCACAAACGTCAA
65 CTAGAAGCGATTTTATACTATTTGATCACAAACGTCAA
27385987 CTCGAAATTA
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 94 0.99
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCATCCATGAAGGCGCGATTTCACAAATTCTTCTAAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGATCACAAACGTCAAAAAAAAAATATTTCTTCCTCAAC
Found at i:27391615 original size:321 final size:322
Alignment explanation
Indices: 27391004--27391648 Score: 1118
Period size: 321 Copynumber: 2.0 Consensus size: 322
27390994 GAGCCCTGTT
27391004 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
1 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
*
27391069 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCGCTAATCAATCTAATCCCAACTAATGCAAAC
66 GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCGCTAATCAATCTAATCCCAACTAATACAAAC
* * * *
27391134 ATTGCTACTAATTATTTTCTTAAGGAGATGGTTATAGAAGAAGATTTGTGGAATCTGGAACTCTT
131 ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
* * *
27391199 TCAGGTTTGGTTGTCAGAAGAAATTATTGGACGTATTATTAGTATTCCACCTCCACAACCCTTGG
196 TCAGGTTTGATTCTCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
*
27391264 CAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTATTTTTCTGTTAAGAGTGTC
261 CAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
* * *
27391326 TAAGGTATGGCCTTTGCTTTGAG-AAATTTTTTTTGGTCAATTGGAAATGGTAATAAC-TTCAGG
1 TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATT-AGG
27391389 TGTTAGAAGGACAGTTGGATTCCAAAGGTTGATACC-CTAATCAATCTAATCCCAACTAATACAA
65 TGTTAGAAGGACAGTTGGATTCCAAAGGTTGAT-CCGCTAATCAATCTAATCCCAACTAATACAA
27391453 ACATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTC
129 ACATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTC
27391518 TTTCAGGTTTGATTACT-AGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCT
194 TTTCAGGTTTGATT-CTCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCT
*
27391582 TGGCAGGATTTGACAAGATTGCTTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
258 TGGCAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
27391647 TA
1 TA
27391649 TCGTATAGTT
Statistics
Matches: 307, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
320 2 0.01
321 281 0.92
322 24 0.08
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (322 bp):
TAAGGTATGACCTTTGCTTCGAGAAAATATTTTTTGGTCAATTGGAAATGGTAATAACATTAGGT
GTTAGAAGGACAGTTGGATTCCAAAGGTTGATCCGCTAATCAATCTAATCCCAACTAATACAAAC
ATTGCTACTAATTATTTTCTTAAGGAAATAGTTATAGAAGAAGATTTATGGAATCTGAAACTCTT
TCAGGTTTGATTCTCAGAAGAAATTATTGGACGTATTACTAGTATTCCACCTCCACAACCCTTGG
CAGGATTTGACAAGATTGCCTAGGTTGGTACTTCTTCAGGTTAGTTTTCTGTTAAGAGTGTC
Found at i:27392873 original size:6 final size:6
Alignment explanation
Indices: 27392864--27392888 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27392854 TAAATAATAA
27392864 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
27392889 GATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:27397796 original size:808 final size:808
Alignment explanation
Indices: 27396240--27397855 Score: 3232
Period size: 808 Copynumber: 2.0 Consensus size: 808
27396230 TTTTCTTCTC
27396240 ATTTATTATTACTACAAAAATCTAAACCTTAAATTTGAAGGCAAAAGAAAAATACAATAAGGGGT
1 ATTTATTATTACTACAAAAATCTAAACCTTAAATTTGAAGGCAAAAGAAAAATACAATAAGGGGT
27396305 GATACTTCTTATTAGGGTGATTTGGAGAAATGAGAATCTTCCTTTTTTTGGTTACATCACAAAAG
66 GATACTTCTTATTAGGGTGATTTGGAGAAATGAGAATCTTCCTTTTTTTGGTTACATCACAAAAG
27396370 GGGACGGCAGCTTCCAGGTTTTAGAAAGTTTTATAGCAAACAATTCAACCATGCAAACCTACCAA
131 GGGACGGCAGCTTCCAGGTTTTAGAAAGTTTTATAGCAAACAATTCAACCATGCAAACCTACCAA
27396435 CGTTGAATAAAAGCACTAACAAGAAAACCCCATTCACAATCCCAACTCATATATTAAGTATCCCA
196 CGTTGAATAAAAGCACTAACAAGAAAACCCCATTCACAATCCCAACTCATATATTAAGTATCCCA
27396500 AAGTTTAAAATTTCCTTCATGTTCATCTACTTTCATCACCACCATGAAGGTGAACCGGCTTTGCT
261 AAGTTTAAAATTTCCTTCATGTTCATCTACTTTCATCACCACCATGAAGGTGAACCGGCTTTGCT
27396565 TCATTTTACCTGCTGATTTTAATGAAATCGCTCCCTTGGGCTACCCCCCAGTGGAAAAACCTGTT
326 TCATTTTACCTGCTGATTTTAATGAAATCGCTCCCTTGGGCTACCCCCCAGTGGAAAAACCTGTT
27396630 AAAAAGGAGGGGAAGAAGCACCCGTACCGTGATTGTGGGGCTCATTTTGTTGGTTTCATCGGGGA
391 AAAAAGGAGGGGAAGAAGCACCCGTACCGTGATTGTGGGGCTCATTTTGTTGGTTTCATCGGGGA
27396695 TTCCCTCCGCCGCTTCTATGGCTCCAGATGCCTGCTTCATTGTGCTAACCCGAGGAGGCAGCAGT
456 TTCCCTCCGCCGCTTCTATGGCTCCAGATGCCTGCTTCATTGTGCTAACCCGAGGAGGCAGCAGT
27396760 CGAGCGTTTTTCATGACCTCGAAGGGGTTCAGATGTCGGAGAAAGTTGGTGGAGACAATCCAAGG
521 CGAGCGTTTTTCATGACCTCGAAGGGGTTCAGATGTCGGAGAAAGTTGGTGGAGACAATCCAAGG
27396825 ATTTTCAGTTACGCCGAGCTTTACATAGGCTCTAAAGGATTCTGTCAAGATGAAATTCTTGGAAG
586 ATTTTCAGTTACGCCGAGCTTTACATAGGCTCTAAAGGATTCTGTCAAGATGAAATTCTTGGAAG
27396890 TGGGGGTTTCGGGAGAGTGTATAAAGCTGTTTTACCAAGTGACGGAACTGTGGTGGCCGTCAAAT
651 TGGGGGTTTCGGGAGAGTGTATAAAGCTGTTTTACCAAGTGACGGAACTGTGGTGGCCGTCAAAT
27396955 GTTTGGCCGAGAAAGGGGAGAGGTTTGAAAAGACCTTTGCAGCTGAGCTGGTGGCGGTGGCTCAT
716 GTTTGGCCGAGAAAGGGGAGAGGTTTGAAAAGACCTTTGCAGCTGAGCTGGTGGCGGTGGCTCAT
27397020 CTCCGCCACAGAAATCTTGTTCGGTTGA
781 CTCCGCCACAGAAATCTTGTTCGGTTGA
27397048 ATTTATTATTACTACAAAAATCTAAACCTTAAATTTGAAGGCAAAAGAAAAATACAATAAGGGGT
1 ATTTATTATTACTACAAAAATCTAAACCTTAAATTTGAAGGCAAAAGAAAAATACAATAAGGGGT
27397113 GATACTTCTTATTAGGGTGATTTGGAGAAATGAGAATCTTCCTTTTTTTGGTTACATCACAAAAG
66 GATACTTCTTATTAGGGTGATTTGGAGAAATGAGAATCTTCCTTTTTTTGGTTACATCACAAAAG
27397178 GGGACGGCAGCTTCCAGGTTTTAGAAAGTTTTATAGCAAACAATTCAACCATGCAAACCTACCAA
131 GGGACGGCAGCTTCCAGGTTTTAGAAAGTTTTATAGCAAACAATTCAACCATGCAAACCTACCAA
27397243 CGTTGAATAAAAGCACTAACAAGAAAACCCCATTCACAATCCCAACTCATATATTAAGTATCCCA
196 CGTTGAATAAAAGCACTAACAAGAAAACCCCATTCACAATCCCAACTCATATATTAAGTATCCCA
27397308 AAGTTTAAAATTTCCTTCATGTTCATCTACTTTCATCACCACCATGAAGGTGAACCGGCTTTGCT
261 AAGTTTAAAATTTCCTTCATGTTCATCTACTTTCATCACCACCATGAAGGTGAACCGGCTTTGCT
27397373 TCATTTTACCTGCTGATTTTAATGAAATCGCTCCCTTGGGCTACCCCCCAGTGGAAAAACCTGTT
326 TCATTTTACCTGCTGATTTTAATGAAATCGCTCCCTTGGGCTACCCCCCAGTGGAAAAACCTGTT
27397438 AAAAAGGAGGGGAAGAAGCACCCGTACCGTGATTGTGGGGCTCATTTTGTTGGTTTCATCGGGGA
391 AAAAAGGAGGGGAAGAAGCACCCGTACCGTGATTGTGGGGCTCATTTTGTTGGTTTCATCGGGGA
27397503 TTCCCTCCGCCGCTTCTATGGCTCCAGATGCCTGCTTCATTGTGCTAACCCGAGGAGGCAGCAGT
456 TTCCCTCCGCCGCTTCTATGGCTCCAGATGCCTGCTTCATTGTGCTAACCCGAGGAGGCAGCAGT
27397568 CGAGCGTTTTTCATGACCTCGAAGGGGTTCAGATGTCGGAGAAAGTTGGTGGAGACAATCCAAGG
521 CGAGCGTTTTTCATGACCTCGAAGGGGTTCAGATGTCGGAGAAAGTTGGTGGAGACAATCCAAGG
27397633 ATTTTCAGTTACGCCGAGCTTTACATAGGCTCTAAAGGATTCTGTCAAGATGAAATTCTTGGAAG
586 ATTTTCAGTTACGCCGAGCTTTACATAGGCTCTAAAGGATTCTGTCAAGATGAAATTCTTGGAAG
27397698 TGGGGGTTTCGGGAGAGTGTATAAAGCTGTTTTACCAAGTGACGGAACTGTGGTGGCCGTCAAAT
651 TGGGGGTTTCGGGAGAGTGTATAAAGCTGTTTTACCAAGTGACGGAACTGTGGTGGCCGTCAAAT
27397763 GTTTGGCCGAGAAAGGGGAGAGGTTTGAAAAGACCTTTGCAGCTGAGCTGGTGGCGGTGGCTCAT
716 GTTTGGCCGAGAAAGGGGAGAGGTTTGAAAAGACCTTTGCAGCTGAGCTGGTGGCGGTGGCTCAT
27397828 CTCCGCCACAGAAATCTTGTTCGGTTGA
781 CTCCGCCACAGAAATCTTGTTCGGTTGA
27397856 GGGGCTGGTG
Statistics
Matches: 808, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
808 808 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (808 bp):
ATTTATTATTACTACAAAAATCTAAACCTTAAATTTGAAGGCAAAAGAAAAATACAATAAGGGGT
GATACTTCTTATTAGGGTGATTTGGAGAAATGAGAATCTTCCTTTTTTTGGTTACATCACAAAAG
GGGACGGCAGCTTCCAGGTTTTAGAAAGTTTTATAGCAAACAATTCAACCATGCAAACCTACCAA
CGTTGAATAAAAGCACTAACAAGAAAACCCCATTCACAATCCCAACTCATATATTAAGTATCCCA
AAGTTTAAAATTTCCTTCATGTTCATCTACTTTCATCACCACCATGAAGGTGAACCGGCTTTGCT
TCATTTTACCTGCTGATTTTAATGAAATCGCTCCCTTGGGCTACCCCCCAGTGGAAAAACCTGTT
AAAAAGGAGGGGAAGAAGCACCCGTACCGTGATTGTGGGGCTCATTTTGTTGGTTTCATCGGGGA
TTCCCTCCGCCGCTTCTATGGCTCCAGATGCCTGCTTCATTGTGCTAACCCGAGGAGGCAGCAGT
CGAGCGTTTTTCATGACCTCGAAGGGGTTCAGATGTCGGAGAAAGTTGGTGGAGACAATCCAAGG
ATTTTCAGTTACGCCGAGCTTTACATAGGCTCTAAAGGATTCTGTCAAGATGAAATTCTTGGAAG
TGGGGGTTTCGGGAGAGTGTATAAAGCTGTTTTACCAAGTGACGGAACTGTGGTGGCCGTCAAAT
GTTTGGCCGAGAAAGGGGAGAGGTTTGAAAAGACCTTTGCAGCTGAGCTGGTGGCGGTGGCTCAT
CTCCGCCACAGAAATCTTGTTCGGTTGA
Found at i:27402189 original size:13 final size:13
Alignment explanation
Indices: 27402171--27402196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27402161 AAAAATAAAA
27402171 CAAAAAGTTGTAG
1 CAAAAAGTTGTAG
27402184 CAAAAAGTTGTAG
1 CAAAAAGTTGTAG
27402197 AATAACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
CAAAAAGTTGTAG
Found at i:27403455 original size:17 final size:16
Alignment explanation
Indices: 27403433--27403467 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
27403423 TTTCAACCAG
27403433 TATAATAATAAATAATA
1 TATAATAATAAAT-ATA
*
27403450 TATAATAATTAATATA
1 TATAATAATAAATATA
27403466 TA
1 TA
27403468 ACTATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAATAATAAATATA
Found at i:27403474 original size:14 final size:14
Alignment explanation
Indices: 27403437--27403480 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
27403427 AACCAGTATA
*
27403437 ATAATAAATAATAT
1 ATAATAATTAATAT
27403451 ATAATAATTAATAT
1 ATAATAATTAATAT
27403465 ATAACT-ATTAATAT
1 ATAA-TAATTAATAT
27403479 AT
1 AT
27403481 TATAGATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 27 0.96
15 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATAATTAATAT
Found at i:27404027 original size:23 final size:26
Alignment explanation
Indices: 27404001--27404053 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 26
27403991 TTATTTTGAG
27404001 TTTGGGTAATAA-TGAGTATA-T-TA
1 TTTGGGTAATAACTGAGTATAGTATA
* *
27404024 TTTGGGTTATAACTTAGTATAGTATA
1 TTTGGGTAATAACTGAGTATAGTATA
27404050 TTTG
1 TTTG
27404054 AGTTTTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 1 0.04
26 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (26 bp):
TTTGGGTAATAACTGAGTATAGTATA
Found at i:27404544 original size:14 final size:15
Alignment explanation
Indices: 27404517--27404546 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
27404507 GAGCCCGCTC
27404517 TAGTTTTAAAATATA
1 TAGTTTTAAAATATA
27404532 TAGTTTT-AAATATA
1 TAGTTTTAAAATATA
27404546 T
1 T
27404547 GAACAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TAGTTTTAAAATATA
Found at i:27413494 original size:18 final size:18
Alignment explanation
Indices: 27413471--27413509 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27413461 TGTTTCCTTG
*
27413471 AAAACAATTATTTTCAGA
1 AAAACAATCATTTTCAGA
* *
27413489 AAAACAGTCATTTTCATA
1 AAAACAATCATTTTCAGA
27413507 AAA
1 AAA
27413510 TCGTTTTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAACAATCATTTTCAGA
Found at i:27417727 original size:5 final size:6
Alignment explanation
Indices: 27417695--27417725 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
27417685 TTAAGATACC
27417695 AATAAA AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
27417726 TACTCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:27418196 original size:3 final size:3
Alignment explanation
Indices: 27418188--27418213 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27418178 GACCATGATC
27418188 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
27418214 ATGTAGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27422453 original size:26 final size:26
Alignment explanation
Indices: 27422368--27422453 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
27422358 TGTATCATTA
*
27422368 TATTAAATTATTTAAATATTTCATGTATT
1 TATTAAATTATTTAAATA-TT-ATTTA-T
* * *
27422397 ATATTAAAATATTTAAA-AATACCATTA-
1 -TATTAAATTATTTAAATATTA--TTTAT
27422424 TATTAAATTATTTAAATATTATTTAT
1 TATTAAATTATTTAAATATTATTTAT
27422450 TATT
1 TATT
27422454 TTACTTAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
25 3 0.07
26 19 0.42
27 4 0.09
28 1 0.02
29 3 0.07
30 15 0.33
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (26 bp):
TATTAAATTATTTAAATATTATTTAT
Found at i:27425355 original size:20 final size:20
Alignment explanation
Indices: 27425330--27425367 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27425320 TTACCCCAAA
* *
27425330 CCCCCAAACATTTTTACTTT
1 CCCCCAAAAACTTTTACTTT
27425350 CCCCCAAAAACTTTTACT
1 CCCCCAAAAACTTTTACT
27425368 CCCCTCCCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (20 bp):
CCCCCAAAAACTTTTACTTT
Found at i:27428972 original size:22 final size:21
Alignment explanation
Indices: 27428937--27428994 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
27428927 AAAGGGTATC
* * *
27428937 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCCAAGAT
27428958 TACAAAATCATATCTTCCAAGAT
1 TAC-AAATCATATC-TCCAAGAT
* *
27428981 TGCATATCATATCT
1 TACAAATCATATCT
27428995 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:27429459 original size:88 final size:87
Alignment explanation
Indices: 27429367--27429938 Score: 743
Period size: 88 Copynumber: 6.5 Consensus size: 87
27429357 AACTTGATCT
*
27429367 GCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTT-AGCTGTCGGTGCAGGAAGGCAA
1 GCTGCAAC-CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA-CTGTCGGTGCAGGAAGGCAA
27429431 GATCTGCTATTTTTAACCTGCTCC
64 GATCTGCTATTTTTAACCTGCTCC
*
27429455 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAG
*
27429520 ATCTGCTATTTTTAACCTGCTCT
65 ATCTGCTATTTTTAACCTGCTCC
* * *
27429543 GCTGCAAACCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGC-AACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAG
* *
27429608 ATCTACTAATTTTAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * *
27429631 GCTGCAACCTAGGGTGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATTGGTGCAAGAAGGAAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAG
* *
27429696 ATCTGCTATTTTTTACCTACTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * *
27429719 GCTGCAACCCAGAGAGGCAAGGCTAGTGTCTTC-AGTCTGCTTCACTGTCAGTACAGGAAGGCAA
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGA-TCTGCTTCACTGTCGGTGCAGGAAGGCAA
*
27429783 GATCTGCTATCTTTAACCTGCTCC
64 GATCTGCTATTTTTAACCTGCTCC
* ** ** ** * *
27429807 GCTGCCACCGAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTTAGTACAGGAAGACAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAG
* *
27429872 ATCTGATATCTTTAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * *
27429895 GCTGCCACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCA
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA
27429939 TAATGTCTTA
Statistics
Matches: 431, Mismatches: 45, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
87 7 0.02
88 418 0.97
89 6 0.01
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (87 bp):
GCTGCAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGA
TCTGCTATTTTTAACCTGCTCC
Found at i:27429473 original size:44 final size:44
Alignment explanation
Indices: 27429420--27429639 Score: 147
Period size: 44 Copynumber: 5.0 Consensus size: 44
27429410 GCTGTCGGTG
27429420 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
27429464 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* *
27429508 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * ****
27429552 CAGGGAGGCAAGGT-TGGTGTCTTTGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* *
27429596 CAGGAAGGCAAGATCTACTAATTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
27429640 TAGGGTGGCA
Statistics
Matches: 118, Mismatches: 54, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 35 0.30
44 50 0.42
45 33 0.28
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:27429825 original size:44 final size:44
Alignment explanation
Indices: 27429777--27429915 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
27429767 CAGTACAGGA
*
27429777 AGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGG
1 AGGCAAGATCTGATATCTTTAACCTGCTCCGCTGCCACCGAGGG
* * * * * * ** * *
27429821 AGGCAAG-GCTAATGTCTTTAATCTGCTTCACTGTTAGTAC-AGGA
1 AGGCAAGATCTGATATCTTTAACCTGCTCCGCTGCCA--CCGAGGG
*
27429865 AGACAAGATCTGATATCTTTAACCTGCTCCGCTGCCACCGAGGG
1 AGGCAAGATCTGATATCTTTAACCTGCTCCGCTGCCACCGAGGG
27429909 AGGCAAG
1 AGGCAAG
27429916 GCTGGTATCT
Statistics
Matches: 68, Mismatches: 23, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 21 0.31
44 25 0.37
45 22 0.32
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (44 bp):
AGGCAAGATCTGATATCTTTAACCTGCTCCGCTGCCACCGAGGG
Found at i:27429886 original size:45 final size:45
Alignment explanation
Indices: 27429755--27429892 Score: 138
Period size: 45 Copynumber: 3.1 Consensus size: 45
27429745 TGTCTTCAGT
*
27429755 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * * * * * * *
27429800 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTAATGTCTTTAAT
1 CTGCTTCACTGTCAGTAC-AGGAAGGCAAGATCTGATATCTTTAAC
* *
27429843 CTGCTTCACTGTTAGTACAGGAAGACAAGATCTGATATCTTTAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
27429888 CTGCT
1 CTGCT
27429893 CCGCTGCCAC
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
43 21 0.31
44 19 0.28
45 28 0.41
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (45 bp):
CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
Found at i:27431520 original size:22 final size:21
Alignment explanation
Indices: 27431485--27431542 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
27431475 AAAGGGTATC
* * *
27431485 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCCAAGAT
27431506 TACAAAATCATATCTTCCAAGAT
1 TAC-AAATCATATC-TCCAAGAT
* *
27431529 TGCATATCATATCT
1 TACAAATCATATCT
27431543 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:27432007 original size:88 final size:87
Alignment explanation
Indices: 27431915--27432642 Score: 866
Period size: 88 Copynumber: 8.3 Consensus size: 87
27431905 AACTTGATCT
* *
27431915 GCTGCAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTT-AGCTGTCGGTGCAGGAAGGCAA
1 GCTGCAAC-CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA-CTGTCGGTACAGGAAGGCAA
27431979 GATCTGCTATTTTTAACCTGCTCC
64 GATCTGCTATTTTTAACCTGCTCC
* *
27432003 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
*
27432068 ATCTGCTATTTTTAACCTGCTCT
65 ATCTGCTATTTTTAACCTGCTCC
* * * *
27432091 GCTGCAAACCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
1 GCTGC-AACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
27432156 ATCTACTAATTTTAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * * *
27432179 GCTGCAACCTAGGGTGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATTGGTGCAAGAAGGAAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
27432244 ATCTGCTATTTTTTACCTACTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * *
27432267 GCTGCAACCCAGAGAGGCAAGGCTAGTGTCTTC-AGTCTGCTTCACTGTCAGTACAGGAAGGCAA
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGA-TCTGCTTCACTGTCGGTACAGGAAGGCAA
*
27432331 GATCTGCTATCTTTAACCTGCTCC
64 GATCTGCTATTTTTAACCTGCTCC
* ** ** ** *
27432355 GCTGCCACCGAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTTAGTACAGGAAGACAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
27432420 ATCTGATATCTTTAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * *
27432443 GCTGCCACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCATTATCGGTACAGGAAGGCAAG
1 GCTGCAACC-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* *
27432508 ATCTGCTATCTTCAACCTGCTCC
65 ATCTGCTATTTTTAACCTGCTCC
* * * * * * * **
27432531 ACTACAACCCAGGGAGGCAAGGTTGGTATCTTTGATCTGCTTCGCCGTTAGTACAGGAAGGCAAG
1 GCTGCAA-CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAG
* * *
27432596 ATCTGTTATTTTCAACCTGCTTC
65 ATCTGCTATTTTTAACCTGCTCC
*
27432619 GCTGCAAACCAGGAAGGCAAGGCT
1 GCTGC-AACCAGGGAGGCAAGGCT
27432643 TTGTGATTTC
Statistics
Matches: 559, Mismatches: 71, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
87 7 0.01
88 542 0.97
89 10 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (87 bp):
GCTGCAACCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGA
TCTGCTATTTTTAACCTGCTCC
Found at i:27432021 original size:44 final size:44
Alignment explanation
Indices: 27431968--27432187 Score: 147
Period size: 44 Copynumber: 5.0 Consensus size: 44
27431958 GCTGTCGGTG
27431968 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * ** * * ****
27432012 CAGGGAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* *
27432056 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
* * * * * * * * ****
27432100 CAGGGAGGCAAGGT-TGGTGTCTTTGATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTG-CAACC
* *
27432144 CAGGAAGGCAAGATCTACTAATTTTAACCTGCTCCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
27432188 TAGGGTGGCA
Statistics
Matches: 118, Mismatches: 54, Indels: 8
0.66 0.30 0.04
Matches are distributed among these distances:
43 35 0.30
44 50 0.42
45 33 0.28
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACC
Found at i:27432387 original size:264 final size:263
Alignment explanation
Indices: 27431901--27432642 Score: 956
Period size: 264 Copynumber: 2.8 Consensus size: 263
27431891 AGACTTATAG
* * * * *
27431901 CTTTAACTTGATCTGCTGCAA-CTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTT-AGCTGTC
1 CTTTAACCTGCTCCGCTGCAACCT-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA-CTATC
27431964 GGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGG
64 GGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGG
* * *
27432029 TGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCT
129 TGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCT
* ** * * * * *
27432094 GCAAACCAGGGAGGCAAGGTTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATC
193 GCAAACCAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATC
27432159 T-ACTAAT
258 TGA-T-AT
* *
27432166 -TTTAACCTGCTCCGCTGCAACCTAGGGTGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATTGG
1 CTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATCGG
* * * * * *
27432230 TGCAAGAAGGAAAGATCTGCTATTTTTTACCTACTCCGCTGCAACCCAGAGAGGCAAGGCTAGTG
66 TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
*
27432295 TCTTC-AGTCTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTG
131 TCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTAT-TTTAACCTGCTCCGCTG
* *
27432359 C-CACCGAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTTAGTACAGGAAGACAAGATC
194 CAAACC-AGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATC
27432423 TGATAT
258 TGATAT
* * * * *
27432429 CTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGTTTCATTATCGG
1 CTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATCGG
* * * * * * *
27432494 TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGTTGGTA
66 TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
* * * * *
27432559 TCTTTGATCTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGTTATTTTCAACCTGCTTCGCTGC
131 TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTT-AACCTGCTCCGCTGC
*
27432624 AAACCAGGAAGGCAAGGCT
195 AAACCAGGGAGGCAAGGCT
27432643 TTGTGATTTC
Statistics
Matches: 412, Mismatches: 55, Indels: 21
0.84 0.11 0.04
Matches are distributed among these distances:
263 10 0.02
264 394 0.96
265 8 0.02
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (263 bp):
CTTTAACCTGCTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTATCGG
TGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTG
TCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATTTTAACCTGCTCCGCTGCA
AACCAGGGAGGCAAGGCTAATGTCTTTAATCTGCTTCACTGTCAGTACAGGAAGACAAGATCTGA
TAT
Found at i:27432434 original size:45 final size:45
Alignment explanation
Indices: 27432303--27432639 Score: 165
Period size: 44 Copynumber: 7.6 Consensus size: 45
27432293 TGTCTTCAGT
*
27432303 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * * * * * * *
27432348 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTAATGTCTTTAAT
1 CTGCTTCACTGTCAGTAC-AGGAAGGCAAGATCTGATATCTTTAAC
* *
27432391 CTGCTTCACTGTTAGTACAGGAAGACAAGATCTGATATCTTTAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * * * * * ** *
27432436 CTGCTCCGCTGCCA--CCGAGGGAGGCAAG-GCTGGTATCTTCGAT
1 CTGCTTCACTGTCAGTAC-AGGAAGGCAAGATCTGATATCTTTAAC
* * * * * *
27432479 CTGTTTCATTATCGGTACAGGAAGGCAAGATCTGCTATCTTCAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * *** * * * * *
27432524 CTGCTCCACT-ACAACCCAGGGAGGCAAGGT-TGGTATCTTTGAT
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
* * * *
27432567 CTGCTTCGCCGTTAGTACAGGAAGGCAAGATCTGTTAT-TTTCAAC
1 CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTT-AAC
* *
27432612 CTGCTTCGCTG-CA-AACCAGGAAGGCAAG
1 CTGCTTCACTGTCAGTA-CAGGAAGGCAAG
27432640 GCTTTGTGAT
Statistics
Matches: 204, Mismatches: 76, Indels: 25
0.67 0.25 0.08
Matches are distributed among these distances:
43 56 0.27
44 80 0.39
45 68 0.33
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (45 bp):
CTGCTTCACTGTCAGTACAGGAAGGCAAGATCTGATATCTTTAAC
Found at i:27433094 original size:43 final size:43
Alignment explanation
Indices: 27433041--27433350 Score: 115
Period size: 43 Copynumber: 7.1 Consensus size: 43
27433031 ATCTGTAATT
*
27433041 TTCAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGCTGGTGTC
1 TTCAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTC
* * * ** * * * * * *
27433084 TTCAATCTGCTTCACTGTTAGTACAGGAATGCAAGATCTGCTATC
1 TTCAACCTGCTCCGCTGCAACT-CAGGGAGGCAAG-GCTGGTGTC
* * *
27433129 TTTAACCTGCTCCGCTGCCAC-CGAGGGAGGCAAGGCTAGTGTC
1 TTCAACCTGCTCCGCTGCAACTC-AGGGAGGCAAGGCTGGTGTC
* * * ** * * * * *
27433172 TTCAATCTGCTTCACTGTTAGTACAGGAAGGCAAGATCTGCTATC
1 TTCAACCTGCTCCGCTGCAACT-CAGGGAGGCAAG-GCTGGTGTC
* * * * *
27433217 TTTAACCTACTCCGCTGCCAC-CGAGAGAGGCAAGGCTAGTGTC
1 TTCAACCTGCTCCGCTGCAACTC-AGGGAGGCAAGGCTGGTGTC
* *** * * ** * *
27433260 TTCAATCTGCTTTACTGTC-AGTACAGGAAGGCAAGATTTGCTATC
1 TTCAACCTGCTCCGCTG-CAACT-CAGGGAGGCAAG-GCTGGTGTC
* * *
27433305 TTTAACCTGCTCCGCTGCCAC-CGAGGGAGGCAAGGCTGGTATC
1 TTCAACCTGCTCCGCTGCAACTC-AGGGAGGCAAGGCTGGTGTC
27433348 TTC
1 TTC
27433351 GATCTGTTTC
Statistics
Matches: 178, Mismatches: 76, Indels: 26
0.64 0.27 0.09
Matches are distributed among these distances:
43 63 0.35
44 58 0.33
45 57 0.32
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (43 bp):
TTCAACCTGCTCCGCTGCAACTCAGGGAGGCAAGGCTGGTGTC
Found at i:27433177 original size:88 final size:88
Alignment explanation
Indices: 27433028--27433517 Score: 619
Period size: 88 Copynumber: 5.6 Consensus size: 88
27433018 TTAGGGAGAT
**
27433028 AAGATCTG-TAAT-TTTCAACCTGCTCCGCTGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATC
1 AAGATCTGCT-ATCTTT-AACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCAATC
*
27433091 TGCTTCACTGTTAGTACAGGAATGC
64 TGCTTCACTGTTAGTACAGGAAGGC
* *
27433116 AAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTAGTGTCTTCAATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCAATCTG
27433181 CTTCACTGTTAGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * * *
27433204 AAGATCTGCTATCTTTAACCTACTCCGCTGCCACCGAGAGAGGCAAGGCTAGTGTCTTCAATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCAATCTG
* *
27433269 CTTTACTGTCAGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * * *
27433292 AAGATTTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCAATCTG
* * * **
27433357 TTTCATTATCGGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * * * * * **
27433380 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGTTGGTATCTTTGATCTG
1 AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCAATCTG
* *
27433445 CTTCGCCGTTAGTACAGGAAGGC
66 CTTCACTGTTAGTACAGGAAGGC
* * *
27433468 AAGATCTGTTAT-TTTCAACCTGCTTCGCTGCAAACC-AGGAAGGCAAGGCT
1 AAGATCTGCTATCTTT-AACCTGCTCCGCTGC-AACCGAGGGAGGCAAGGCT
27433518 TTGTGATTTC
Statistics
Matches: 356, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
87 2 0.01
88 346 0.97
89 8 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
AAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCGAGGGAGGCAAGGCTGGTGTCTTCAATCTG
CTTCACTGTTAGTACAGGAAGGC
Found at i:27433248 original size:44 final size:44
Alignment explanation
Indices: 27433114--27433338 Score: 126
Period size: 44 Copynumber: 5.1 Consensus size: 44
27433104 GTACAGGAAT
*
27433114 GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGAGAG
* * * * * * *
27433158 GCAAG-GCTAG-TGTCTTCAATCTGCTTCACTGTTAG-TACAG-GA-AG
1 GCAAGATCT-GCTATCTTTAACCTGC-TC-C-GCT-GCCACCGAGAGAG
*
27433202 GCAAGATCTGCTATCTTTAACCTACTCCGCTGCCACCGAGAGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGAGAG
* * * * *** * *
27433246 GCAAG-GCTAG-TGTCTTCAATCTGCTTTACTGTCA--GTACAGGAAG
1 GCAAGATCT-GCTATCTTTAACCTGCTCCGCTGCCACCG-AGA-G-AG
* *
27433290 GCAAGATTTGCTATCTTTAACCTGCTCCGCTGCCACCGAGGGAG
1 GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGAGAG
27433334 GCAAG
1 GCAAG
27433339 GCTGGTATCT
Statistics
Matches: 126, Mismatches: 37, Indels: 36
0.63 0.19 0.18
Matches are distributed among these distances:
41 2 0.02
42 7 0.06
43 35 0.28
44 41 0.33
45 33 0.26
46 6 0.05
47 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (44 bp):
GCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCACCGAGAGAG
Found at i:27433507 original size:44 final size:44
Alignment explanation
Indices: 27433371--27433514 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 44
27433361 ATTATCGGTA
* * * * *
27433371 CAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTCAACCTGCTTCGCTGCAAAC
* * * * * * * *
27433415 CAGGGAGGCAAGGT-TGGTATCTTT-GATCTGCTTCGCCGTTAGTA-
1 CAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTTCGCTG-CA-AAC
*
27433459 CAGGAAGGCAAGATCTGTTATTTTCAACCTGCTTCGCTGCAAAC
1 CAGGAAGGCAAGATCTGCTATTTTCAACCTGCTTCGCTGCAAAC
27433503 CAGGAAGGCAAG
1 CAGGAAGGCAAG
27433515 GCTTTGTGAT
Statistics
Matches: 73, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
43 14 0.19
44 43 0.59
45 16 0.22
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTCAACCTGCTTCGCTGCAAAC
Found at i:27440550 original size:19 final size:19
Alignment explanation
Indices: 27440526--27440576 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
27440516 CATATCTTCC
27440526 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
27440545 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
27440564 AAGATTGCATATC
1 AAGATTGCATATC
27440577 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:27444910 original size:70 final size:73
Alignment explanation
Indices: 27444835--27444969 Score: 195
Period size: 73 Copynumber: 1.9 Consensus size: 73
27444825 AATTCTGTTA
* * *
27444835 TCTTTGTTTAGTTTA-TTT-TTT-TTATTTGTTTAATCATTATCTTTCCTCTGATTTGCCATCAA
1 TCTTTGTTTAGTTTATTTTGTTTATTATTTGTTTAATCATCATCCTACCTCTGATTTGCCATCAA
27444897 TTCCCTTG
66 TTCCCTTG
* * *
27444905 TCTTTGTTTTGTTTATTTTGTTTATTATTTGTTTAATCGTCATCCTACCTCTGTTTTGCCATCAA
1 TCTTTGTTTAGTTTATTTTGTTTATTATTTGTTTAATCATCATCCTACCTCTGATTTGCCATCAA
27444970 CTCTGTGGTG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
70 14 0.25
71 3 0.05
72 3 0.05
73 36 0.64
ACGTcount: A:0.16, C:0.17, G:0.10, T:0.58
Consensus pattern (73 bp):
TCTTTGTTTAGTTTATTTTGTTTATTATTTGTTTAATCATCATCCTACCTCTGATTTGCCATCAA
TTCCCTTG
Found at i:27448831 original size:19 final size:20
Alignment explanation
Indices: 27448804--27448870 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
27448794 AAATATAAAA
*
27448804 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTTAAAAATTAT
27448824 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
**
27448843 TTTGAATTTTTGGAAATTAT
1 TTTGAATTTTTAAAAATTAT
27448863 TTTGAATT
1 TTTGAATT
27448871 ATTCTGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 8 0.19
19 11 0.26
20 23 0.55
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:27456409 original size:17 final size:17
Alignment explanation
Indices: 27456356--27456410 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
27456346 GCCTGAAGTT
*
27456356 AGAAGGAGAGAGGAAGAG
1 AGAA-GAGAGAGAAAGAG
27456374 -GAAG-GAG-GACAAGATG
1 AGAAGAGAGAGA-AAGA-G
27456390 AGAAGAGAGAGAAAGAG
1 AGAAGAGAGAGAAAGAG
27456407 AGAA
1 AGAA
27456411 AAGGGGAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 2 0.06
17 12 0.39
18 7 0.23
19 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.44, T:0.02
Consensus pattern (17 bp):
AGAAGAGAGAGAAAGAG
Found at i:27457328 original size:30 final size:30
Alignment explanation
Indices: 27457259--27457338 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
27457249 AATTACATAC
27457259 ATTTTAATTTAATATGTAA-TATTATACAACA
1 ATTTTAATTT--TATGTAATTATTATACAACA
* *
27457290 ACTTTAATTTTATGTAATTATATATATAA-A
1 ATTTTAATTTTATGTAATTAT-TATACAACA
*
27457320 ATTTTAATTTTATTTAATT
1 ATTTTAATTTTATGTAATT
27457339 TAACAAATTG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
29 7 0.16
30 21 0.49
31 15 0.35
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTTTAATTTTATGTAATTATTATACAACA
Found at i:27462471 original size:54 final size:54
Alignment explanation
Indices: 27462366--27462514 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 54
27462356 TGTCACATAT
* *
27462366 CCGTGTGACTCAAGTTAGAGAGTTACACGGTCAGACACACGACTTCACACACGC
1 CCGTGTGACTCAAGTTAGAGAGTTACACGCTCAGACACACGACCTCACACACGC
* * * * * *
27462420 CCGTGTGACTTAAGTTAGAGAGTTACATGCTCTGGCACACGGCCT-AGCACACGT
1 CCGTGTGACTCAAGTTAGAGAGTTACACGCTCAGACACACGACCTCA-CACACGC
* ** * *
27462474 CTGTGTGACTCAAGCCAAAGAGTTACACAG-GCAGACACACG
1 CCGTGTGACTCAAGTTAGAGAGTTACAC-GCTCAGACACACG
27462515 CCCATGTGAT
Statistics
Matches: 76, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.19
Consensus pattern (54 bp):
CCGTGTGACTCAAGTTAGAGAGTTACACGCTCAGACACACGACCTCACACACGC
Found at i:27484500 original size:15 final size:17
Alignment explanation
Indices: 27484475--27484506 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27484465 TAGCTAGGAC
27484475 CTGTATACTGTA-TAAT
1 CTGTATACTGTACTAAT
27484491 CTGT-TACTGTACTAAT
1 CTGTATACTGTACTAAT
27484507 TATTGTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (17 bp):
CTGTATACTGTACTAAT
Found at i:27484515 original size:18 final size:18
Alignment explanation
Indices: 27484492--27484537 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
27484482 CTGTATAATC
27484492 TGTTACTGTACTAATTAT
1 TGTTACTGTACTAATTAT
*
27484510 TGTTACTGTACTGATTAT
1 TGTTACTGTACTAATTAT
27484528 TGTTACTGTA
1 TGTTACTGTA
27484538 ATGCGGCCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (18 bp):
TGTTACTGTACTAATTAT
Found at i:27485034 original size:18 final size:18
Alignment explanation
Indices: 27484999--27485036 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
27484989 ACAATAAGTG
*
27484999 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
27485017 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
27485035 AC
1 AC
27485037 TTTATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.32
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:27488079 original size:31 final size:31
Alignment explanation
Indices: 27488044--27488126 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
27488034 GTATATGTTT
* * *
27488044 TATACATTGTCAAATTTTATTTTTATATAGA
1 TATACATTGCCAAATTTGATTTGTATATAGA
27488075 TATACATTGCCAAATTTGATTTGTATATAGA
1 TATACATTGCCAAATTTGATTTGTATATAGA
* *
27488106 TATATATTGCCGAA-TTGATTT
1 TATACATTGCCAAATTTGATTT
27488127 CAGCATTAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 7 0.15
31 40 0.85
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (31 bp):
TATACATTGCCAAATTTGATTTGTATATAGA
Found at i:27491919 original size:45 final size:45
Alignment explanation
Indices: 27491855--27492079 Score: 324
Period size: 45 Copynumber: 5.0 Consensus size: 45
27491845 GCTATACACC
*
27491855 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
* * * *
27491900 TAAAAATAAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
*
27491945 TAAAAGTGAGTAAGACCATAGCTGAAAAAGATGCTATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTG--AAAGATGCTATGACATCATGA
*
27491992 TAAAAATGAGTAAGACCATAGCTGAAAGATGATATGACATCATGA
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
* * * * *
27492037 TAGAGATGAGTAAGACTATAGATAAAAGATGCTATGACATCAT
1 TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAT
27492080 ATGAAAGCGC
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 120 0.74
47 42 0.26
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGA
Found at i:27492010 original size:92 final size:91
Alignment explanation
Indices: 27491855--27492079 Score: 330
Period size: 92 Copynumber: 2.5 Consensus size: 91
27491845 GCTATACACC
* *
27491855 TAAAAATGAGTAAGACCATAGCTG-AAAGATGCTATGGCATCATGATAAAAATAAGTAAGACCAT
1 TAAAAGTGAGTAAGACCATAGCTGAAAAGATGCTATGACATCATGATAAAAATAAGTAAGACCAT
* * *
27491919 AGTTGAAAGATGTTATGGCATCATGA
66 AGCTGAAAGATGATATGACATCATGA
*
27491945 TAAAAGTGAGTAAGACCATAGCTGAAAAAGATGCTATGACATCATGATAAAAATGAGTAAGACCA
1 TAAAAGTGAGTAAGACCATAGCTG-AAAAGATGCTATGACATCATGATAAAAATAAGTAAGACCA
27492010 TAGCTGAAAGATGATATGACATCATGA
65 TAGCTGAAAGATGATATGACATCATGA
* * *
27492037 T-AGAGATGAGTAAGACTATAGAT-AAAAGATGCTATGACATCAT
1 TAAAAG-TGAGTAAGACCATAGCTGAAAAGATGCTATGACATCAT
27492080 ATGAAAGCGC
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
90 43 0.35
91 3 0.02
92 77 0.63
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (91 bp):
TAAAAGTGAGTAAGACCATAGCTGAAAAGATGCTATGACATCATGATAAAAATAAGTAAGACCAT
AGCTGAAAGATGATATGACATCATGA
Found at i:27492043 original size:22 final size:24
Alignment explanation
Indices: 27491924--27492080 Score: 86
Period size: 23 Copynumber: 6.8 Consensus size: 24
27491914 ACCATAGTTG
* *
27491924 AAAGATGTTATGGCATCAT-GATA
1 AAAGATGATATGACATCATAGATA
* *
27491947 AAAG-TGAGTAAGAC--CATAGCTGAA
1 AAAGATGA-TATGACATCATAGAT--A
*
27491971 AAAGATGCTATGACATCAT-GATA
1 AAAGATGATATGACATCATAGATA
* * *
27491994 AAA-ATGAGTAAGAC--CATAGCTG
1 AAAGATGA-TATGACATCATAGATA
27492016 AAAGATGATATGACATCAT-GAT-
1 AAAGATGATATGACATCATAGATA
* *
27492038 AGAGATGAGTAAGAC-T-ATAGATA
1 AAAGATGA-TATGACATCATAGATA
*
27492061 AAAGATGCTATGACATCATA
1 AAAGATGATATGACATCATA
27492081 TGAAAGCGCG
Statistics
Matches: 99, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
21 8 0.08
22 33 0.33
23 35 0.35
24 16 0.16
25 4 0.04
26 3 0.03
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (24 bp):
AAAGATGATATGACATCATAGATA
Found at i:27492992 original size:20 final size:22
Alignment explanation
Indices: 27492967--27493008 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
27492957 AACATAAATT
*
27492967 AAATGA-TAGAAATA-AATTAA
1 AAATGATTAAAAATATAATTAA
27492987 AAATGATTAAAAATATAATTAA
1 AAATGATTAAAAATATAATTAA
27493009 TAACATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATGATTAAAAATATAATTAA
Found at i:27494553 original size:18 final size:18
Alignment explanation
Indices: 27494523--27494567 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
27494513 ATAATAATAA
27494523 TTAATAAAATATTATTAC
1 TTAATAAAATATTATTAC
* *
27494541 TTATTAAACTATTATTAC
1 TTAATAAAATATTATTAC
27494559 TTAATAAAA
1 TTAATAAAA
27494568 AATCATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATAAAATATTATTAC
Found at i:27496136 original size:25 final size:24
Alignment explanation
Indices: 27496077--27496136 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
27496067 AGTGAACTAC
* **
27496077 AAAAGAAAAATCTACTCTAAAAAG
1 AAAAGAAAAACCTAAACTAAAAAG
* *
27496101 AGAAGAGAAAACCTAAACTAAAACTG
1 AAAAGA-AAAACCTAAACTAAAA-AG
27496127 AAAAGAAAAA
1 AAAAGAAAAA
27496137 GAAAAGAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 5 0.18
25 17 0.61
26 6 0.21
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAAGAAAAACCTAAACTAAAAAG
Found at i:27496224 original size:11 final size:11
Alignment explanation
Indices: 27496188--27496249 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
27496178 AATATACTCT
27496188 AAAAAGAAAAG
1 AAAAAGAAAAG
*
27496199 AGAAAACCTAAAAG
1 A-AAAA--GAAAAG
27496213 AAAAAGAAAAG
1 AAAAAGAAAAG
* *
27496224 AAAATGAAAGG
1 AAAAAGAAAAG
27496235 AAAAGAGAAAGAG
1 AAAA-AGAAA-AG
27496248 AA
1 AA
27496250 CCTAACCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 19 0.47
12 8 0.20
13 7 0.17
14 6 0.15
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:27498815 original size:20 final size:20
Alignment explanation
Indices: 27498770--27498816 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27498760 TGTGCCCTAG
27498770 CTGTGTGGAGGTCTACACGC
1 CTGTGTGGAGGTCTACACGC
* * *
27498790 CCGTGTGGTGGTCTACATGC
1 CTGTGTGGAGGTCTACACGC
*
27498810 TTGTGTG
1 CTGTGTG
27498817 CAAGATGCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.21, G:0.36, T:0.32
Consensus pattern (20 bp):
CTGTGTGGAGGTCTACACGC
Found at i:27501974 original size:19 final size:20
Alignment explanation
Indices: 27501950--27501997 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
27501940 GTCACATTGC
*
27501950 AAATATAAATAAA-AATTAT
1 AAATATAAATAAATAATTAA
27501969 AAATAT--ATAAATTAATTAA
1 AAATATAAATAAA-TAATTAA
27501988 AAATATAAAT
1 AAATATAAAT
27501998 TTTCACATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 5 0.21
19 17 0.71
21 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATAAATAAATAATTAA
Found at i:27502431 original size:25 final size:24
Alignment explanation
Indices: 27502378--27502448 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
27502368 TTTAATTGTA
**
27502378 TATATTTTTATAAATATATATTTTG
1 TATATTTTTA-AAATATATAAATTG
27502403 TATATTTTTAAAATAATAATAAATT-
1 TATATTTTTAAAAT-AT-ATAAATTG
27502428 TATATTTTATAAAA-AT-TAAAT
1 TATATTTT-TAAAATATATAAAT
27502449 ATATAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 5 0.12
24 6 0.15
25 20 0.49
26 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TATATTTTTAAAATATATAAATTG
Found at i:27502550 original size:20 final size:18
Alignment explanation
Indices: 27502520--27502573 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
27502510 TGTGAAAAAA
*
27502520 TTTACTTTTTAAATTAAT
1 TTTAATTTTTAAATTAAT
*
27502538 TTATATATTTTTAAAGTTTAT
1 TT-TA-ATTTTTAAA-TTAAT
*
27502559 TTTAATTTTTTAATT
1 TTTAATTTTTAAATT
27502574 TATATTTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.13
19 10 0.33
20 10 0.33
21 6 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTAAATTAAT
Found at i:27502579 original size:20 final size:22
Alignment explanation
Indices: 27502525--27502580 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
27502515 AAAAATTTAC
27502525 TTTTTAAATTA-ATTTATATA-
1 TTTTTAAATTATATTTATATAT
27502545 TTTTTAAAGTT-TATTT-TA-AT
1 TTTTTAAA-TTATATTTATATAT
*
27502565 TTTTTAATTTATATTT
1 TTTTTAAATTATATTT
27502581 GTCATGTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.10
20 22 0.71
21 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTAAATTATATTTATATAT
Found at i:27504563 original size:51 final size:51
Alignment explanation
Indices: 27504487--27504677 Score: 201
Period size: 51 Copynumber: 3.8 Consensus size: 51
27504477 TGCCTATAAA
* *
27504487 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATC-GATA-GATAATGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA-AGGAT-ATGGT
* * * *
27504538 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGT
* * * * *
27504589 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGGA-CAGGAAAG-TTTGAT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GGAAGGATATGGT
* * *
27504639 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTATCG
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
27504678 AATGATAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
50 40 0.33
51 78 0.64
52 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGT
Found at i:27506026 original size:15 final size:15
Alignment explanation
Indices: 27506006--27506036 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27505996 CCAGCTCAAT
*
27506006 TGAGTTTAATTCAGC
1 TGAGTTCAATTCAGC
27506021 TGAGTTCAATTCAGC
1 TGAGTTCAATTCAGC
27506036 T
1 T
27506037 CAATTTTAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (15 bp):
TGAGTTCAATTCAGC
Found at i:27506065 original size:20 final size:20
Alignment explanation
Indices: 27506033--27506087 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
27506023 AGTTCAATTC
27506033 AGCTCAATT-TTAGCTCAATG
1 AGCTC-ATTCTTAGCTCAATG
*
27506053 AGCTCGTTCTTAGCTCAATG
1 AGCTCATTCTTAGCTCAATG
*
27506073 AGCTCATTTTTAGCT
1 AGCTCATTCTTAGCT
27506088 TACTTTAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (20 bp):
AGCTCATTCTTAGCTCAATG
Found at i:27507624 original size:13 final size:13
Alignment explanation
Indices: 27507589--27507630 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
27507579 GTGAGTTTGT
*
27507589 AAAAAAATATTCAA
1 AAAAAAAT-TTCGA
27507603 AAAAAAATTTCGA
1 AAAAAAATTTCGA
27507616 AAAAAAATTT-GA
1 AAAAAAATTTCGA
27507628 AAA
1 AAA
27507631 TTCAAAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 5 0.19
13 14 0.52
14 8 0.30
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (13 bp):
AAAAAAATTTCGA
Found at i:27508848 original size:12 final size:12
Alignment explanation
Indices: 27508831--27508898 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
27508821 AGTGAAAAGC
27508831 AAAAAGAGATTG
1 AAAAAGAGATTG
*
27508843 AAAAAGAAATTG
1 AAAAAGAGATTG
*
27508855 --AAAGAGA-AG
1 AAAAAGAGATTG
*
27508864 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
27508879 AAAAAGAAATTG
1 AAAAAGAGATTG
27508891 AAAAAGAG
1 AAAAAGAG
27508899 TCTTCAAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
9 1 0.02
10 6 0.14
11 4 0.09
12 20 0.47
13 5 0.12
15 7 0.16
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:27508872 original size:15 final size:15
Alignment explanation
Indices: 27508854--27508887 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27508844 AAAAGAAATT
27508854 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
27508869 GAAAGAGTGGAAAAA
1 GAAAGAGAAGAAAAA
27508884 GAAA
1 GAAA
27508888 TTGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:27508893 original size:21 final size:20
Alignment explanation
Indices: 27508841--27508893 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 20
27508831 AAAAAGAGAT
27508841 TGAAAAAGAAATTGAAAGA-
1 TGAAAAAGAAATTGAAAGAG
*
27508860 -GAAGAA-AAA--GAAAGAG
1 TGAAAAAGAAATTGAAAGAG
27508876 TGGAAAAAGAAATTGAAA
1 T-GAAAAAGAAATTGAAA
27508894 AAGAGTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
15 6 0.23
17 3 0.12
18 10 0.38
19 3 0.12
21 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (20 bp):
TGAAAAAGAAATTGAAAGAG
Found at i:27513757 original size:43 final size:43
Alignment explanation
Indices: 27513706--27513792 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
27513696 ACCTTTAAAC
*
27513706 AATTATAGTCTTCTTGATGAGTCCCCAACCAAAACCACCATAG
1 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACCATAG
*
27513749 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACTATAG
1 AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACCATAG
27513792 A
1 A
27513793 CTTTACTCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (43 bp):
AATTATAGTCCTCTTGATGAGTCCCCAACCAAAACCACCATAG
Found at i:27516186 original size:21 final size:20
Alignment explanation
Indices: 27516162--27516214 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
27516152 ATGAATATAT
*
27516162 AATAAGATAATACTTAATAAC
1 AATAA-ATAATACTTAATAAA
*
27516183 AATAAAATCAA-ATTTAATAAA
1 AAT-AAAT-AATACTTAATAAA
27516204 AATAAATAATA
1 AATAAATAATA
27516215 AATAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.07
20 5 0.19
21 16 0.59
22 4 0.15
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (20 bp):
AATAAATAATACTTAATAAA
Found at i:27517648 original size:45 final size:44
Alignment explanation
Indices: 27517553--27517669 Score: 146
Period size: 45 Copynumber: 2.6 Consensus size: 44
27517543 TTCTAATCCA
* * *
27517553 CTCCACTACAACTTTAGGGAGATAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTTAGTCTG
* * *
27517597 CCCCACTGCAATTTTAGGGGGATAAGACTTGCTTT-TTTGAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTG-TTTATTT-AGTCTG
*
27517642 CTCCACTGCAACTTCAGGGAGATAAGAC
1 CTCCACTGCAACTTTAGGGAGATAAGAC
27517670 CCGATGTGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 28 0.46
45 33 0.54
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGTTTATTTAGTCTG
Found at i:27517743 original size:45 final size:43
Alignment explanation
Indices: 27517690--27517800 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 43
27517680 CTACTATAAA
27517690 GCAACTTCAGAGAGATAAGA-TTCGC-CACCTTTAGTCTGCCTC-ACT
1 GCAACTTCAG-GAGATAAGACTT-GCTCA-C-TTAGTCTG-CTCAACT
*
27517735 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCAACT
1 GCAACTTCAGGA-GATAAGACTTGCTCACTTAGTCTGCTCAACT
27517779 GCAACTTCAGGGAGATAAGACT
1 GCAACTTCA-GGAGATAAGACT
27517801 AGATGCGATC
Statistics
Matches: 60, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
43 3 0.05
44 31 0.52
45 23 0.38
46 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (43 bp):
GCAACTTCAGGAGATAAGACTTGCTCACTTAGTCTGCTCAACT
Found at i:27517794 original size:130 final size:130
Alignment explanation
Indices: 27517588--27517839 Score: 353
Period size: 130 Copynumber: 1.9 Consensus size: 130
27517578 GATTTGTTTA
* * * ** *
27517588 TTTAGTCTGCCCCACTGCAATTTTAGGGGGATAAGACTTGCTTTTTTGAGTCTGCTCCACTGCAA
1 TTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCAACTGCAA
* *
27517653 CTTCAGGGAGATAAGACCCGATGTGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCAC
66 CTTCAGGGAGATAAGACCAGATGCGATCTACTAT-AAGCAACTTCAGAGAGATAAGATTCGCCAC
27517718 C
130 C
*
27517719 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTT-AGTCTGCTCAACTGCAA
1 TTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCAACTGCAA
* * * ** *
27517783 CTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGGAACTTCAGAGAGATAAGAT
66 CTTCAGGGAGATAAGACCAGATGCGATCTACTATAAGCAACTTCAGAGAGATAAGAT
27517840 CTGTGATTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 20 0.19
130 45 0.42
131 41 0.39
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (130 bp):
TTTAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTGAGTCTGCTCAACTGCAA
CTTCAGGGAGATAAGACCAGATGCGATCTACTATAAGCAACTTCAGAGAGATAAGATTCGCCACC
Found at i:27517878 original size:44 final size:44
Alignment explanation
Indices: 27517821--27517928 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
27517811 TGCTCTCTGG
*
27517821 AACTTCAGAGAGATAAGATCT-GTGATTTTAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGAT-TAGTGATTTTAATCTGCTCCACTAC
* * * *
27517865 AACTTCAGGGAGATAGGATTATTGGTTTTAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTAGTGATTTTAATCTGCTCCACTAC
*
27517909 AGCTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
27517929 CACCATCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTAGTGATTTTAATCTGCTCCACTAC
Found at i:27517915 original size:128 final size:129
Alignment explanation
Indices: 27517588--27517926 Score: 312
Period size: 128 Copynumber: 2.6 Consensus size: 129
27517578 GATTTGTTTA
* * * * * * * * *
27517588 TTTAGTCTGCCCCACTGCAATTTTAGGGGGATAAGACTTGCTTTTTTGAGTCTGCTCCACTGCAA
1 TTTAATCTGCCTCACTACAACTTCAGGAGGATAAGAATTGC-TTATT-AATCTGCTCCACTGCAA
* *
27517653 CTTCAGGGAGATAAGACCCGATGTGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCAC
64 CTTCAGGGAGATAAGACCAGATGCGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCAC
27517718 C
129 C
* * * * *
27517719 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCAACTGCAAC
1 TTTAATCTGCCTCACTACAACTTCAGGAGGATAAGAATTGCTTA-TTAATCTGCTCCACTGCAAC
* * * ** * **
27517784 TTCAGGGAGATAAGACTAGATGCGATCTGCTCT-CTGGAACTTCAGAGAGATAAGA-TCTGTGA-
65 TTCAGGGAGATAAGACCAGATGCGATCTACTATAAAGCAACTTCAGAGAGATAAGATTC-GCCAC
*
27517846 T
129 C
* *
27517847 TTTAATCTG-CTCCACTACAACTTCAGG-GAGATAGGATTATTGGTT-TTAATCTGCTCCACTGC
1 TTTAATCTGCCT-CACTACAACTTCAGGAG-GATAAGA--ATTGCTTATTAATCTGCTCCACTGC
*
27517909 AGCTTCAGGGAGATAAGA
62 AACTTCAGGGAGATAAGA
27517927 TTCACCATCT
Statistics
Matches: 177, Mismatches: 25, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
127 3 0.02
128 62 0.35
129 21 0.12
130 52 0.29
131 39 0.22
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (129 bp):
TTTAATCTGCCTCACTACAACTTCAGGAGGATAAGAATTGCTTATTAATCTGCTCCACTGCAACT
TCAGGGAGATAAGACCAGATGCGATCTACTATAAAGCAACTTCAGAGAGATAAGATTCGCCACC
Found at i:27518414 original size:260 final size:260
Alignment explanation
Indices: 27517953--27518471 Score: 813
Period size: 260 Copynumber: 2.0 Consensus size: 260
27517943 TTTTTAATTG
* * * *
27517953 CAATGTTGGGGAAACAAGATTCACCGTCGTAGATTCAATTTGTTCCACTACACCGCCAAGGAAGT
1 CAATGTTGAGGAAACAAGATTCACCGTCATAGATTCAATCTATTCCACTACACCGCCAAGGAAGT
* *
27518018 AAGATTCGCCGTTTCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
66 AAGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
** *
27518083 CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCTGTT
131 CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCATC
* * *
27518148 GTGGCTTCAATCTGCTCTGCTACAATGCCAGGGAAGTAAGATTCGCCGTTACGGCTTCAATCTTA
196 GTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTACGGCTTCAATCTTA
* *
27518213 CAATGTTGAGGAAACAAGATTCACCGTCATAGCTTCAATCTATTCCACTACACCGCCAGGGAAGT
1 CAATGTTGAGGAAACAAGATTCACCGTCATAGATTCAATCTATTCCACTACACCGCCAAGGAAGT
* * *
27518278 AAGATTCATCGTTGCGGCTTCAATTTTTTTCACTTTAATGCCAAAGAGATAGGATTCGCTGCCCA
66 AAGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
* ** *
27518343 CAGCTTCAATCTGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATAAGATTCGCCATC
131 CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCATC
* * **
27518408 GTGGCTTCAATCTGCTCCGCTATAACGCTAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTT
196 GTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTACGGCTTCAATCTT
27518472 TTCCATTGCT
Statistics
Matches: 234, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
260 234 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (260 bp):
CAATGTTGAGGAAACAAGATTCACCGTCATAGATTCAATCTATTCCACTACACCGCCAAGGAAGT
AAGATTCACCGTTGCGGCTTCAATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCA
CAACTTCAATCCACTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCATC
GTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCGCCGTTACGGCTTCAATCTTA
Found at i:27518568 original size:45 final size:45
Alignment explanation
Indices: 27518519--27518658 Score: 158
Period size: 45 Copynumber: 3.2 Consensus size: 45
27518509 CGATCTGCTT
* *
27518519 CACTGCTAATACAGGAAGGCAAGATCTGTTATTTTCAACCTACTC
1 CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
** * * * * * * *
27518564 CACTGCTGCT-CAGGGAGACAAG-GCTGGTATCTTCGATCTACTT
1 CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
*
27518607 CACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
1 CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
27518652 CACTGCT
1 CACTGCT
27518659 GTTTAGGGAG
Statistics
Matches: 72, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
43 22 0.31
44 21 0.29
45 29 0.40
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (45 bp):
CACTGCTAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
Found at i:27518609 original size:88 final size:88
Alignment explanation
Indices: 27518505--27518674 Score: 286
Period size: 88 Copynumber: 1.9 Consensus size: 88
27518495 AAGACTGATG
* * * *
27518505 TCTTCGATCTGCTTCACTGCTAATACAGGAAGGCAAGATCTGTTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
27518570 TGCTCAGGGAGACAAGGCTGGTA
66 TGCTCAGGGAGACAAGGCTGGTA
27518593 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
* *
27518658 TGTTTAGGGAGACAAGG
66 TGCTCAGGGAGACAAGG
27518675 TTGGAGTTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGGCTGGTA
Found at i:27518671 original size:44 final size:44
Alignment explanation
Indices: 27518538--27518673 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 44
27518528 TACAGGAAGG
* *
27518538 CAAGATCTGTTATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
* * * * * * ** * *
27518582 CAAG-GCTGGTATCTTCGATCTACTTCACTGCCAATACAGGAAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTG-CTGTTCAGGGAGA
*
27518626 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTTAGGGAGA
1 CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
27518670 CAAG
1 CAAG
27518674 GTTGGAGTTT
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
43 20 0.29
44 28 0.41
45 20 0.29
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
CAAGATCTGCTATTTTCAACCTACTCCACTGCTGTTCAGGGAGA
Found at i:27519932 original size:18 final size:17
Alignment explanation
Indices: 27519911--27519975 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 17
27519901 TGGGCCTCTC
*
27519911 CTTTTCCTCTTCTTATTT
1 CTTTTCCTTTTCTT-TTT
*
27519929 CTTTCTCTTTTTCTTTTT
1 CTTT-TCCTTTTCTTTTT
*
27519947 CTTTTTTCTTTTCTTTTT
1 C-TTTTCCTTTTCTTTTT
27519965 CTTTTCCTTTT
1 CTTTTCCTTTT
27519976 TTCCATCATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 9 0.22
18 20 0.50
19 11 0.28
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
CTTTTCCTTTTCTTTTT
Found at i:27519941 original size:25 final size:25
Alignment explanation
Indices: 27519907--27519965 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
27519897 TGCCTGGGCC
*
27519907 TCTCCTTTTCCTCTTCTTATTTCTT
1 TCTCTTTTTCCTCTTCTTATTTCTT
* * *
27519932 TCTCTTTTTCTTTTTCTTTTTTCTT
1 TCTCTTTTTCCTCTTCTTATTTCTT
27519957 T-TCTTTTTC
1 TCTCTTTTTC
27519966 TTTTCCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (25 bp):
TCTCTTTTTCCTCTTCTTATTTCTT
Found at i:27519943 original size:12 final size:11
Alignment explanation
Indices: 27519920--27519976 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 11
27519910 CCTTTTCCTC
27519920 TTCTTATTTCTT
1 TTCTT-TTTCTT
27519932 TCTCTTTTTCTTT
1 T-TCTTTTTC-TT
27519945 TTCTTTTTTCTT
1 TTC-TTTTTCTT
27519957 TTCTTTTTCTT
1 TTCTTTTTCTT
27519968 TTCCTTTTT
1 TT-CTTTTT
27519977 TCCATCATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.24
12 18 0.44
13 13 0.32
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:27519961 original size:24 final size:25
Alignment explanation
Indices: 27519920--27519978 Score: 93
Period size: 24 Copynumber: 2.4 Consensus size: 25
27519910 CCTTTTCCTC
*
27519920 TTCTTATTTCTTTCTCTTTTTCTTT
1 TTCTTTTTTCTTTCTCTTTTTCTTT
27519945 TTCTTTTTTCTTT-TCTTTTTCTTT
1 TTCTTTTTTCTTTCTCTTTTTCTTT
*
27519969 TCCTTTTTTC
1 TTCTTTTTTC
27519979 CATCATCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTCTTTTTTCTTTCTCTTTTTCTTT
Found at i:27520004 original size:14 final size:14
Alignment explanation
Indices: 27519971--27520004 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27519961 TTTTCTTTTC
27519971 CTTTTTTCCATCAT
1 CTTTTTTCCATCAT
*
27519985 CATTTTTCCATCAT
1 CTTTTTTCCATCAT
27519999 -TTTTTT
1 CTTTTTT
27520005 ATTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (14 bp):
CTTTTTTCCATCAT
Found at i:27520852 original size:25 final size:25
Alignment explanation
Indices: 27520799--27520864 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
27520789 AAGAAGATCC
* *
27520799 AAAAGAATGAAAGAATAATTGTTCG
1 AAAAGAATGAAAGAATAATTGCTCA
27520824 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-GCTCA
27520849 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
27520865 TGTATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.55, C:0.06, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTGCTCA
Found at i:27523983 original size:241 final size:241
Alignment explanation
Indices: 27523560--27524043 Score: 968
Period size: 241 Copynumber: 2.0 Consensus size: 241
27523550 ATTGATTGAT
27523560 TGTTTTCCTGACTTATCTTGGGTATATTGTCGTTGATTCTCCTAACCCACCATTCATTATACTCA
1 TGTTTTCCTGACTTATCTTGGGTATATTGTCGTTGATTCTCCTAACCCACCATTCATTATACTCA
27523625 GGAGTTGTCATCAGACCCACAGCTAACCTCTTCATTCGGCGAGTCTGCTTCCATGCATTAGACAT
66 GGAGTTGTCATCAGACCCACAGCTAACCTCTTCATTCGGCGAGTCTGCTTCCATGCATTAGACAT
27523690 CTCTTGAATCTTCTTTCTATAACCATCATCTCTGTACGAAAATTCACAATCAGCTATCCCTTGGG
131 CTCTTGAATCTTCTTTCTATAACCATCATCTCTGTACGAAAATTCACAATCAGCTATCCCTTGGG
27523755 TCGCAGGTATAAATTGCCTTGACCTATACTACCTTAGCACTAACAA
196 TCGCAGGTATAAATTGCCTTGACCTATACTACCTTAGCACTAACAA
27523801 TGTTTTCCTGACTTATCTTGGGTATATTGTCGTTGATTCTCCTAACCCACCATTCATTATACTCA
1 TGTTTTCCTGACTTATCTTGGGTATATTGTCGTTGATTCTCCTAACCCACCATTCATTATACTCA
27523866 GGAGTTGTCATCAGACCCACAGCTAACCTCTTCATTCGGCGAGTCTGCTTCCATGCATTAGACAT
66 GGAGTTGTCATCAGACCCACAGCTAACCTCTTCATTCGGCGAGTCTGCTTCCATGCATTAGACAT
27523931 CTCTTGAATCTTCTTTCTATAACCATCATCTCTGTACGAAAATTCACAATCAGCTATCCCTTGGG
131 CTCTTGAATCTTCTTTCTATAACCATCATCTCTGTACGAAAATTCACAATCAGCTATCCCTTGGG
27523996 TCGCAGGTATAAATTGCCTTGACCTATACTACCTTAGCACTAACAA
196 TCGCAGGTATAAATTGCCTTGACCTATACTACCTTAGCACTAACAA
27524042 TG
1 TG
27524044 GGGCATATCC
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
241 243 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (241 bp):
TGTTTTCCTGACTTATCTTGGGTATATTGTCGTTGATTCTCCTAACCCACCATTCATTATACTCA
GGAGTTGTCATCAGACCCACAGCTAACCTCTTCATTCGGCGAGTCTGCTTCCATGCATTAGACAT
CTCTTGAATCTTCTTTCTATAACCATCATCTCTGTACGAAAATTCACAATCAGCTATCCCTTGGG
TCGCAGGTATAAATTGCCTTGACCTATACTACCTTAGCACTAACAA
Found at i:27526848 original size:239 final size:239
Alignment explanation
Indices: 27526429--27526910 Score: 964
Period size: 239 Copynumber: 2.0 Consensus size: 239
27526419 TAAATTTGAG
27526429 TAAAAGATGATGTAATGTTATATTGTATGTATAAATGTCGCAATAACAAATACAAGAATAATAAA
1 TAAAAGATGATGTAATGTTATATTGTATGTATAAATGTCGCAATAACAAATACAAGAATAATAAA
27526494 TACAACAATGGCATAGGAATAATATAAACAAATAAATAAACGAAACTAATATACATAAGAAAAAA
66 TACAACAATGGCATAGGAATAATATAAACAAATAAATAAACGAAACTAATATACATAAGAAAAAA
27526559 AATAATCAATGACATGCAAAGTATCAAATAAATGACCAAGATAAAAAATAATAATATAAATGAAA
131 AATAATCAATGACATGCAAAGTATCAAATAAATGACCAAGATAAAAAATAATAATATAAATGAAA
27526624 ACACAAATTAATAAAAAAATGAAAGAAATAAACAAAAAATATTT
196 ACACAAATTAATAAAAAAATGAAAGAAATAAACAAAAAATATTT
27526668 TAAAAGATGATGTAATGTTATATTGTATGTATAAATGTCGCAATAACAAATACAAGAATAATAAA
1 TAAAAGATGATGTAATGTTATATTGTATGTATAAATGTCGCAATAACAAATACAAGAATAATAAA
27526733 TACAACAATGGCATAGGAATAATATAAACAAATAAATAAACGAAACTAATATACATAAGAAAAAA
66 TACAACAATGGCATAGGAATAATATAAACAAATAAATAAACGAAACTAATATACATAAGAAAAAA
27526798 AATAATCAATGACATGCAAAGTATCAAATAAATGACCAAGATAAAAAATAATAATATAAATGAAA
131 AATAATCAATGACATGCAAAGTATCAAATAAATGACCAAGATAAAAAATAATAATATAAATGAAA
27526863 ACACAAATTAATAAAAAAATGAAAGAAATAAACAAAAAATATTT
196 ACACAAATTAATAAAAAAATGAAAGAAATAAACAAAAAATATTT
27526907 TAAA
1 TAAA
27526911 GAAAAAAATA
Statistics
Matches: 243, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
239 243 1.00
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (239 bp):
TAAAAGATGATGTAATGTTATATTGTATGTATAAATGTCGCAATAACAAATACAAGAATAATAAA
TACAACAATGGCATAGGAATAATATAAACAAATAAATAAACGAAACTAATATACATAAGAAAAAA
AATAATCAATGACATGCAAAGTATCAAATAAATGACCAAGATAAAAAATAATAATATAAATGAAA
ACACAAATTAATAAAAAAATGAAAGAAATAAACAAAAAATATTT
Found at i:27527209 original size:21 final size:21
Alignment explanation
Indices: 27527179--27527232 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
27527169 ATGAATATAT
27527179 AATAACAATAATACTTAATAAA
1 AATAA-AATAATACTTAATAAA
* *
27527201 AATAAAATAAAATTTAATAAA
1 AATAAAATAATACTTAATAAA
27527222 AAT-AAATAATA
1 AATAAAATAATA
27527233 AAATAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 7 0.24
21 17 0.59
22 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
AATAAAATAATACTTAATAAA
Found at i:27527239 original size:21 final size:20
Alignment explanation
Indices: 27527179--27527242 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 20
27527169 ATGAATATAT
*
27527179 AATAACAATAATACTTAATAAA
1 AATAA-AATAA-AATTAATAAA
27527201 AATAAAATAAAATTTAATAAA
1 AATAAAATAAAA-TTAATAAA
27527222 AATAAATAATAAAA-TAATAAA
1 AAT-AA-AATAAAATTAATAAA
27527243 TAAAAAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 23 0.61
22 7 0.18
23 7 0.18
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
AATAAAATAAAATTAATAAA
Found at i:27527240 original size:15 final size:15
Alignment explanation
Indices: 27527194--27527249 Score: 59
Period size: 14 Copynumber: 4.0 Consensus size: 15
27527184 CAATAATACT
27527194 TAATAAA-AATAAAA
1 TAATAAATAATAAAA
*
27527208 TAA-AATTTAAT-AAA
1 TAATAA-ATAATAAAA
27527222 -AATAAATAATAAAA
1 TAATAAATAATAAAA
27527236 TAATAAATAA-AAAA
1 TAATAAATAATAAAA
27527250 AGACTAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 8 0.23
14 15 0.43
15 12 0.34
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:27527250 original size:28 final size:27
Alignment explanation
Indices: 27527195--27527250 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
27527185 AATAATACTT
* *
27527195 AATAAAAATAAAATAAAATTTAATAAA
1 AATAAAAATAAAATAAAATATAAAAAA
27527222 AATAAATAATAAAATAATAA-ATAAAAAA
1 AATAAA-AATAAAATAA-AATATAAAAAA
27527250 A
1 A
27527251 GACTAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.24
28 17 0.68
29 2 0.08
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (27 bp):
AATAAAAATAAAATAAAATATAAAAAA
Found at i:27529270 original size:23 final size:22
Alignment explanation
Indices: 27529227--27529270 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
27529217 CCATTATTCA
* * *
27529227 TTTTCTCCTCTTTTTTTCTATT
1 TTTTCTCATCTTTTGTCCTATT
27529249 TTTTACTCATCTTTTGTCCTAT
1 TTTT-CTCATCTTTTGTCCTAT
27529271 CTCTTTGGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTCTCATCTTTTGTCCTATT
Found at i:27529865 original size:30 final size:30
Alignment explanation
Indices: 27529831--27529904 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
27529821 GGTCCTAACT
27529831 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
1 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
27529861 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
1 ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
*
27529891 ATTGTTTGATTGTT
1 ATTGTTTGTTTGTT
27529905 TGCTAGGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.14, C:0.03, G:0.26, T:0.58
Consensus pattern (30 bp):
ATTGTTTGTTTGTTGTGGTGTTTACTGTAA
Found at i:27530382 original size:22 final size:22
Alignment explanation
Indices: 27530352--27530422 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
27530342 TCGATTTATT
27530352 TGCAATTTACTGGCAGCTTGTC
1 TGCAATTTACTGGCAGCTTGTC
* * * *
27530374 TACAATTTAATGG-TGACTTATC
1 TGCAATTTACTGGCAG-CTTGTC
27530396 -GCAATTTACTGGCAGCTTGTC
1 TGCAATTTACTGGCAGCTTGTC
27530417 TGCAAT
1 TGCAAT
27530423 CCATTGGTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 16 0.42
22 22 0.58
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (22 bp):
TGCAATTTACTGGCAGCTTGTC
Found at i:27532464 original size:13 final size:14
Alignment explanation
Indices: 27532436--27532469 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
27532426 TGAGTTGTGC
27532436 GTTTGAGGTCTTGG
1 GTTTGAGGTCTTGG
*
27532450 GTTTG-GGTTTTGG
1 GTTTGAGGTCTTGG
27532463 GTTTGAG
1 GTTTGAG
27532470 TCCTTGCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.06, C:0.03, G:0.44, T:0.47
Consensus pattern (14 bp):
GTTTGAGGTCTTGG
Found at i:27533535 original size:17 final size:17
Alignment explanation
Indices: 27533508--27533552 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
27533498 CTGGGCTATT
27533508 TGGGCCGTGTGGGCCACA
1 TGGG-CGTGTGGGCCACA
27533526 TGGGCGTGTGGGCCACA
1 TGGGCGTGTGGGCCACA
* *
27533543 CGAGCGTGTG
1 TGGGCGTGTG
27533553 TGAGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
TGGGCGTGTGGGCCACA
Found at i:27534081 original size:16 final size:15
Alignment explanation
Indices: 27534060--27534100 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
27534050 TGAATCTGAA
27534060 CTGTACTGTAAAGATT
1 CTGTACTGTAAA-ATT
*
27534076 CTGTACTGTTAAATT
1 CTGTACTGTAAAATT
27534091 -TGT-CTGTAAA
1 CTGTACTGTAAA
27534101 TAATTGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 3 0.13
15 3 0.13
16 11 0.48
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (15 bp):
CTGTACTGTAAAATT
Found at i:27534883 original size:12 final size:11
Alignment explanation
Indices: 27534861--27534888 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27534851 AAAGAACAGG
27534861 AAAAGAAAAAA
1 AAAAGAAAAAA
27534872 AAAAGAAAAAA
1 AAAAGAAAAAA
27534883 AAAAGA
1 AAAAGA
27534889 TGAAGGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:27539012 original size:53 final size:53
Alignment explanation
Indices: 27538932--27539080 Score: 228
Period size: 53 Copynumber: 2.8 Consensus size: 53
27538922 GTATTTTTCA
* * *
27538932 ATTTGTAAG-ACGCAATGTTATTGGTCTTGAACAAAATCGTTTAATTATGTTTT
1 ATTTGTAAGAAAG-AATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
27538985 ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
1 ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
* * *
27539038 ATTTGTAAGACACAATTTTGTTGGTCTTGAACAAAATCGTTTA
1 ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTA
27539081 CTTTTTTTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 87 0.98
54 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (53 bp):
ATTTGTAAGAAAGAATGTTGTTGGTCTTGAACAAAATCGTTTAATTATGTATT
Found at i:27539467 original size:16 final size:16
Alignment explanation
Indices: 27539446--27539481 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27539436 GGGGCATTTT
*
27539446 TAAAAGAAATAAAAAA
1 TAAAAGAAACAAAAAA
*
27539462 TAAAAGAACCAAAAAA
1 TAAAAGAAACAAAAAA
27539478 TAAA
1 TAAA
27539482 TATGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (16 bp):
TAAAAGAAACAAAAAA
Found at i:27556908 original size:43 final size:43
Alignment explanation
Indices: 27556858--27557038 Score: 147
Period size: 43 Copynumber: 4.2 Consensus size: 43
27556848 TAATAAAAAT
*
27556858 GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTCCCACAAAC
1 GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTACCACAAAC
* * * * *
27556901 GCCGCTAAAGGCCAGGACCTTTAGCGGCGCTTTTACCACAAAT
1 GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTACCACAAAC
* * * *
27556944 GCTGCT-AAAGATCATGACCTTTTA-CGGCGCTTCTACCACAAAC
1 GCCGCTAAAAG-TCAAGACC-TTTAGCGGCACTTTTACCACAAAC
* * * ** *
27556987 GCCACTATGAAG--AATGACCTTTAGCGACA-TTTTTTCACAAAT
1 GCCGCTA-AAAGTCAA-GACCTTTAGCGGCACTTTTACCACAAAC
27557029 GCCGCTAAAA
1 GCCGCTAAAA
27557039 ACATGACTTT
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
41 2 0.02
42 23 0.21
43 76 0.70
44 4 0.04
45 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAGTCAAGACCTTTAGCGGCACTTTTACCACAAAC
Found at i:27556983 original size:86 final size:85
Alignment explanation
Indices: 27556812--27556989 Score: 198
Period size: 86 Copynumber: 2.1 Consensus size: 85
27556802 TTTTAGAAAT
* * * * *
27556812 AAACACCGCTAAAGGTCATGACTTTTAGCAGCGCTTTAATAAAAATGCCGCTAAAAGTCAAGACC
1 AAACGCCGCTAAAGGCCAGGACCTTTAGCAGCGCTTTAACAAAAATGCCGCTAAAAGTCAAGACC
* *
27556877 TTTAGCGGCACTTTTCCCAC
66 TTTAGCGGCACTTCTACCAC
* * * * *
27556897 AAACGCCGCTAAAGGCCAGGACCTTTAGCGGCGCTTTTACCACAAATGCTGCT-AAAGATCATGA
1 AAACGCCGCTAAAGGCCAGGACCTTTAGCAGCGC-TTTAACAAAAATGCCGCTAAAAG-TCAAGA
*
27556961 CCTTTTA-CGGCGCTTCTACCAC
64 CC-TTTAGCGGCACTTCTACCAC
27556983 AAACGCC
1 AAACGCC
27556990 ACTATGAAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
85 33 0.43
86 40 0.52
87 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTAAAGGCCAGGACCTTTAGCAGCGCTTTAACAAAAATGCCGCTAAAAGTCAAGACC
TTTAGCGGCACTTCTACCAC
Found at i:27560113 original size:6 final size:6
Alignment explanation
Indices: 27560102--27560139 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
27560092 ACCCCCCTAA
*
27560102 AAAAAT AAAAAT AAAACT AAAAAT -AAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
27560140 TCAATCCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:27560122 original size:12 final size:11
Alignment explanation
Indices: 27560103--27560140 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 11
27560093 CCCCCCTAAA
27560103 AAAATAAAAAT
1 AAAATAAAAAT
27560114 AAAACTAAAAAT
1 AAAA-TAAAAAT
27560126 AAAAT-AAAAT
1 AAAATAAAAAT
27560136 AAAAT
1 AAAAT
27560141 CAATCCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:27560429 original size:22 final size:22
Alignment explanation
Indices: 27560401--27560449 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
27560391 AAAACAAAAA
27560401 GAAAACAAAAAAGAAAAATGAG
1 GAAAACAAAAAAGAAAAATGAG
27560423 GAAAACAAAAAAGAAAAATGAG
1 GAAAACAAAAAAGAAAAATGAG
27560445 GAAAA
1 GAAAA
27560450 TAACATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.04
Consensus pattern (22 bp):
GAAAACAAAAAAGAAAAATGAG
Found at i:27561377 original size:7 final size:7
Alignment explanation
Indices: 27561367--27561440 Score: 51
Period size: 7 Copynumber: 10.4 Consensus size: 7
27561357 ACCCCTATAT
27561367 CCTAAAC
1 CCTAAAC
*
27561374 CCTAAAT
1 CCTAAAC
* *
27561381 CATAAAA
1 CCTAAAC
*
27561388 CATAAAC
1 CCTAAAC
27561395 CCTAAACC
1 CCTAAA-C
27561403 CCT-AAC
1 CCTAAAC
*
27561409 CCTTAAC
1 CCTAAAC
*
27561416 CCTTAAC
1 CCTAAAC
*
27561423 CTCTAACC
1 C-CTAAAC
*
27561431 CCTAACC
1 CCTAAAC
27561438 CCT
1 CCT
27561441 CTTTTACAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
6 4 0.07
7 44 0.77
8 9 0.16
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (7 bp):
CCTAAAC
Found at i:27561409 original size:14 final size:13
Alignment explanation
Indices: 27561392--27561438 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
27561382 ATAAAACATA
27561392 AACCCTAAACCCCT
1 AACCCT-AACCCCT
*
27561406 AACCCTTAACCCTT
1 AACCC-TAACCCCT
27561420 AACCTCTAACCCCT
1 AACC-CTAACCCCT
27561434 AACCC
1 AACCC
27561439 CTCTTTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 1 0.03
14 26 0.90
15 2 0.07
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (13 bp):
AACCCTAACCCCT
Found at i:27561416 original size:21 final size:21
Alignment explanation
Indices: 27561392--27561438 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27561382 ATAAAACATA
*
27561392 AACCCTAAACCCCTAACCCTT
1 AACCCTAAACCCCTAACCCCT
* *
27561413 AACCCTTAACCTCTAACCCCT
1 AACCCTAAACCCCTAACCCCT
27561434 AACCC
1 AACCC
27561439 CTCTTTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (21 bp):
AACCCTAAACCCCTAACCCCT
Found at i:27561742 original size:14 final size:15
Alignment explanation
Indices: 27561723--27561755 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
27561713 CTTAAACCAG
27561723 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
27561737 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
27561752 AATC
1 AATC
27561756 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:27562253 original size:41 final size:40
Alignment explanation
Indices: 27562160--27562272 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 40
27562150 AAATGTTTTT
*
27562160 GCGGCGCTTTTTCAAAAACGCCGCTAAATCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTA
* *
27562200 GCGGCGCTTTTTCAAAAAATGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGC-CCGAGCATTA
*
27562242 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
27562273 ACGAAAGGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 14 0.21
41 31 0.47
42 21 0.32
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTA
Found at i:27562402 original size:39 final size:38
Alignment explanation
Indices: 27562314--27562404 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 38
27562304 TAGGTTTTTT
*
27562314 GCGGCGCTTTTTAAGAAAGCCGCTAATGCTCATTTTTA
1 GCGGCGCTTTTTAAGAAAGCCGCTAATGCTCATCTTTA
* * *
27562352 ACGGCGTTTTTTGA-AAAGCGCTGCTAATGCTCGATCTTTA
1 GCGGCGCTTTTTAAGAAAGC-C-GCTAATGCTC-ATCTTTA
*
27562392 GCGGCGTTTTTTA
1 GCGGCGCTTTTTA
27562405 TCCAAACGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
37 5 0.11
38 12 0.27
39 10 0.23
40 17 0.39
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (38 bp):
GCGGCGCTTTTTAAGAAAGCCGCTAATGCTCATCTTTA
Found at i:27562892 original size:21 final size:20
Alignment explanation
Indices: 27562819--27562892 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 20
27562809 AAAAAATTAA
* *
27562819 AATTTTTATAAATT-TTTGG
1 AATTTTTAAAAATTATTTTG
*
27562838 AATTTTCAAAAA-TATTTTG
1 AATTTTTAAAAATTATTTTG
*
27562857 AATTTTAAAAAAATTATTTTG
1 AATTTT-TAAAAATTATTTTG
27562878 AATTTTTAAATAATT
1 AATTTTTAAA-AATT
27562893 TTTGTCGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 20 0.43
20 8 0.17
21 17 0.37
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTG
Found at i:27567131 original size:18 final size:18
Alignment explanation
Indices: 27567085--27567135 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
27567075 AGCTCTCAGG
27567085 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
27567103 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
27567121 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
27567136 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:27569940 original size:33 final size:32
Alignment explanation
Indices: 27569873--27569959 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
27569863 AACTTTTCCG
* *
27569873 GAAAATATTTTCAAGAAATCTATCAAAAAGCA
1 GAAAATATTTTCAAGAAATCAATCAAAAACCA
* *
27569905 GAAAATATTTTACACAG-ATTCAATCAAACACCA
1 GAAAATATTTT-CA-AGAAATCAATCAAAAACCA
*
27569938 GAAAATATTTTCCAGTAAATCA
1 GAAAATATTTTCAAG-AAATCA
27569960 TTTTATAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 2 0.04
32 12 0.27
33 29 0.64
34 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAAGAAATCAATCAAAAACCA
Found at i:27569989 original size:20 final size:20
Alignment explanation
Indices: 27569951--27569990 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27569941 AATATTTTCC
* *
27569951 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
27569971 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
27569991 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:27570005 original size:34 final size:35
Alignment explanation
Indices: 27569939--27570005 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
27569929 CAAACACCAG
* *
27569939 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
27569974 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27570006 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27570012 original size:14 final size:14
Alignment explanation
Indices: 27569974--27570013 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27569964 ATAGAAAAGT
*
27569974 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
27569988 AAATCATTTTACGG
1 AAAACATTTTACAG
27570002 AAAACATTTTAC
1 AAAACATTTTAC
27570014 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:27571380 original size:15 final size:15
Alignment explanation
Indices: 27571360--27571390 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27571350 CCGAGTTTGT
27571360 AACACCTGAAAACCA
1 AACACCTGAAAACCA
*
27571375 AACACCTGAAATCCA
1 AACACCTGAAAACCA
27571390 A
1 A
27571391 CCTAAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.32, G:0.06, T:0.10
Consensus pattern (15 bp):
AACACCTGAAAACCA
Found at i:27577966 original size:51 final size:51
Alignment explanation
Indices: 27577911--27578354 Score: 427
Period size: 51 Copynumber: 8.7 Consensus size: 51
27577901 GTGAAAGTGT
* * *
27577911 TGGTCACGTGTGTAGTACTATGTGAAGGCTATTACATGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * * ** * * * *
27577962 TGGTCACATATGCAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* *
27578013 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * ** * * * *
27578064 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* **
27578115 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * *
27578166 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA--TAA
* * *
27578217 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-A
* *
27578267 TGATCACGTGTGTAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
*
27578316 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
27578355 TATCGAATGA
Statistics
Matches: 315, Mismatches: 68, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
50 87 0.28
51 225 0.71
52 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
Found at i:27578069 original size:102 final size:102
Alignment explanation
Indices: 27577910--27578360 Score: 622
Period size: 102 Copynumber: 4.4 Consensus size: 102
27577900 AGTGAAAGTG
* * * *
27577910 TTGGTCACGTGTGTAGTACTATGTGAAGGCTATTACATGAATCGATAAATAATGGTCACATATGC
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
27577975 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
*
27578012 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
27578077 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* *
27578114 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
* * *
27578179 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
* * * * * *
27578216 TTAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTG
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTG
* ** ** * **
27578279 TAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
65 TAGTACTAAGTGAAGGCTACAATATGTACCG-AGAAGCT
* *
27578316 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
27578361 ATGATAATAG
Statistics
Matches: 318, Mismatches: 28, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
100 40 0.13
101 43 0.14
102 235 0.74
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
Found at i:27581303 original size:26 final size:27
Alignment explanation
Indices: 27581274--27581328 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
27581264 ACAAATTTCA
27581274 ACTCTT-AGGGGTATAACAGTTATTTT
1 ACTCTTCAGGGGTATAACAGTTATTTT
* ** *
27581300 ACTCTTCGGGGGTATTTCGGTTATTTT
1 ACTCTTCAGGGGTATAACAGTTATTTT
27581327 AC
1 AC
27581329 CCATCTGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
ACTCTTCAGGGGTATAACAGTTATTTT
Found at i:27581338 original size:27 final size:26
Alignment explanation
Indices: 27581295--27581595 Score: 271
Period size: 27 Copynumber: 11.2 Consensus size: 26
27581285 TATAACAGTT
* *
27581295 ATTTTACTCTTCGGGGGTATTTCGGTT
1 ATTTTACCCTTC-GGGGTATTTCGGTC
* *
27581322 ATTTTACCCATCTGGGGTATTTCGATC
1 ATTTTACCCTTC-GGGGTATTTCGGTC
* *
27581349 ATTTTACCCATTAGAGGTATTTCGGTC
1 ATTTTACCC-TTCGGGGTATTTCGGTC
* *
27581376 ATTTTACCCATTTGGGGTATTTCGATC
1 ATTTTACCC-TTCGGGGTATTTCGGTC
* * *
27581403 ATTTTACCTTTCGGAGGTATTTTGATC
1 ATTTTACCCTTCGG-GGTATTTCGGTC
27581430 ATTTTACCCTTCGAGGGTATTTTC-GTC
1 ATTTTACCCTTCG-GGGTA-TTTCGGTC
* * * *
27581457 ATTTTACCATTTGAAGGTATTTCAGTC
1 ATTTTACCCTTCG-GGGTATTTCGGTC
**
27581484 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCG-GGGTATTTCGGTC
* * * *
27581511 ATTCTACTCTTCGAGGGTATTTCGATT
1 ATTTTACCCTTCG-GGGTATTTCGGTC
* *
27581538 ATTTTACCCTTCGAAGGTATTTCGGTT
1 ATTTTACCCTTCG-GGGTATTTCGGTC
*
27581565 ATTTTACCCTTCGGGGGTATTTCGATC
1 ATTTTACCCTTC-GGGGTATTTCGGTC
27581592 ATTT
1 ATTT
27581596 CCCCATGAAT
Statistics
Matches: 232, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 8 0.03
27 218 0.94
28 6 0.03
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTTCGGGGTATTTCGGTC
Found at i:27581422 original size:81 final size:82
Alignment explanation
Indices: 27581310--27581595 Score: 327
Period size: 81 Copynumber: 3.5 Consensus size: 82
27581300 ACTCTTCGGG
* * * *
27581310 GGTATTTCGGTTATTTTACCCATCTGG-GGTATTTCGATCATTTTACCCATTAGA-GGTATTTCG
1 GGTATTTCGATCATTTTACCCTTC-GGAGGTATTTCGATCATTTTACCC-TTCGAGGGTATTTCG
*
27581373 GTCATTTTACCCATTTG-G
64 GTCATTTTACCCATTTGAA
* *
27581391 GGTATTTCGATCATTTTACCTTTCGGAGGTATTTTGATCATTTTACCCTTCGAGGGTATTTTC-G
1 GGTATTTCGATCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTA-TTTCGG
27581455 TCATTTTA-CCATTTGAA
65 TCATTTTACCCATTTGAA
* * *
27581472 GGTATTTC-AGTCATTTTACCCTTC-GAGGGTATTTCAATCATTCTACTCTTCGAGGGTATTTCG
1 GGTATTTCGA-TCATTTTACCCTTCGGA-GGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
27581535 ATTATTTTACCC-TTCGAA
64 GTCATTTTACCCATTTGAA
* * *
27581553 GGTATTTCGGTTATTTTACCCTTCGGGGGTATTTCGATCATTT
1 GGTATTTCGATCATTTTACCCTTCGGAGGTATTTCGATCATTT
27581596 CCCCATGAAT
Statistics
Matches: 175, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
80 20 0.11
81 148 0.85
82 7 0.04
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (82 bp):
GGTATTTCGATCATTTTACCCTTCGGAGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGT
CATTTTACCCATTTGAA
Found at i:27593564 original size:147 final size:147
Alignment explanation
Indices: 27593297--27593589 Score: 568
Period size: 147 Copynumber: 2.0 Consensus size: 147
27593287 ATGCTTCATA
*
27593297 GAACCACAACTCAAACAAGCTCTTGTCCTCCTCTAGCACTCGCCCACATCGCCTTTCCCACAAAT
1 GAACCACAACTCAAACAAGCTCTTGTCCTCCTCTAGCACTCGCCCACATCGCCTTGCCCACAAAT
27593362 AACACAAGGTGGTAACCCAGTAGTAGCAACAGGAGGCCCAGCTCTGACTGGCCCATCCACTCTGG
66 AACACAAGGTGGTAACCCAGTAGTAGCAACAGGAGGCCCAGCTCTGACTGGCCCATCCACTCTGG
27593427 CCCTCCTCTTAGGTCTC
131 CCCTCCTCTTAGGTCTC
27593444 GAACCACAACTCAAACAAGCTCTTGTCCTCCTCTAGCACTCGCCCACATCGCCTTGCCCACAAAT
1 GAACCACAACTCAAACAAGCTCTTGTCCTCCTCTAGCACTCGCCCACATCGCCTTGCCCACAAAT
*
27593509 AGCACAAGGTGGTAACCCAGTAGTAGCAACAGGAGGCCCAGCTCTGACTGGCCCATCCACTCTGG
66 AACACAAGGTGGTAACCCAGTAGTAGCAACAGGAGGCCCAGCTCTGACTGGCCCATCCACTCTGG
27593574 CCCTCCTCTTAGGTCT
131 CCCTCCTCTTAGGTCT
27593590 TTGATCAAAA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (147 bp):
GAACCACAACTCAAACAAGCTCTTGTCCTCCTCTAGCACTCGCCCACATCGCCTTGCCCACAAAT
AACACAAGGTGGTAACCCAGTAGTAGCAACAGGAGGCCCAGCTCTGACTGGCCCATCCACTCTGG
CCCTCCTCTTAGGTCTC
Found at i:27596075 original size:436 final size:436
Alignment explanation
Indices: 27595263--27596131 Score: 1339
Period size: 436 Copynumber: 2.0 Consensus size: 436
27595253 CCTTTTGGTG
* * *
27595263 GCCTCCAAACAGTATTCAACCACATTAGGGGCTACTCCAGAAACACCCTTGAAAATTTCCGCTCC
1 GCCTCCAAACAGTATTCAACCACATTAGGGGCTACACCAGAAAAACCCCTGAAAATTTCCGCTCC
* * * *
27595328 ATTCGACTGGAGTCGTTCAAAAATTGTCTCACGGCCCAAAACACCAGTGTTGGTTCTTGCAACCC
66 ATTCGACCGGAGTCGTTCAAAAATTGACCCACGGCCCAAAACACCAGTGTTGGTTCCTGCAACCC
* * **
27595393 TTTCCAAAATACGGAGCATAGCTTGGGATAGTGCGTTATCCCCAACGGCTCAATCGTATGATCCC
131 TTTCCAAAATACGGAGCATAGCTTGGGATAGTGCGTCATACCCAACCACTCAATCGTATGATCCC
* *
27595458 AACTCAGTCAACGGTGAAGCTGGTGCCTCCCTAGCCTCAACATTTGGTATGTGGCCTGACGCTAA
196 AACTCAGTCAACGGTAAAGCTGGTGCCTCCCTAGCCTCAACATTTGGCATGTGGCCTGACGCTAA
* * * *
27595523 AGACCCAGCCCTAGCACTTCTTCGGCCCTTACCACGGCCTCGTGTACCCCTTCCGCGAGTACCTC
261 AGACCCAGCCCTAGCACTTCCTCGGCCCTTACCACGGCATCATGTACCCCTTCCGCAAGTACCTC
27595588 TAGCACTCATATCGAATAACATATAATCTATTTACGAAGTTTCCAACTATCTGAACAACCGCTTA
326 TAGCACTCATATCGAATAACATATAATCTATTTACGAAGTTTCCAACTATCTGAACAACCGCTTA
*
27595653 GCTCAATCTACACCACTACAATCCCGCTGCGCACTCTAGTTCCCAA
391 GCTCAATATACACCACTACAATCCCGCTGCGCACTCTAGTTCCCAA
* * * *
27595699 GCCTCCAACCAGTATTCAGCCACATTAGTGGCTACACCAGAAAAACCCCTGAAAATTTTTC-CTC
1 GCCTCCAAACAGTATTCAACCACATTAGGGGCTACACCAGAAAAACCCCTGAAAA-TTTCCGCTC
* * *
27595763 CATTCGACCGTAGTCGTTCAGAAATTGACCCACGGCCCAGAACACCAGTGTTGGTTCCTGCAACC
65 CATTCGACCGGAGTCGTTCAAAAATTGACCCACGGCCCAAAACACCAGTGTTGGTTCCTGCAACC
* * *
27595828 CTTTCCAGAATACGGAGCATAGCTTGGGATAGTGCGTCATACCCAGCCACTCGATCGTATGATCC
130 CTTTCCAAAATACGGAGCATAGCTTGGGATAGTGCGTCATACCCAACCACTCAATCGTATGATCC
* *
27595893 CGACTCAGTCACCGGTAAAGCTGGTGCCTCCCTAGCCTCAACATTTGGCATGTGGCCTGACG-TC
195 CAACTCAGTCAACGGTAAAGCTGGTGCCTCCCTAGCCTCAACATTTGGCATGTGGCCTGACGCT-
* * *
27595957 AAAGACCCAGCCCTAGCACTTCCTCGG-TCTCTACCACGGTATCATGTACCCCTTTCGCAAGTAC
259 AAAGACCCAGCCCTAGCACTTCCTCGGCCCT-TACCACGGCATCATGTACCCCTTCCGCAAGTAC
* * *
27596021 CTCTAGCTCTCATATCGAATAACGTATAATCTATTTACGAAGTTTCCAACTATCTGAACACCCGC
323 CTCTAGCACTCATATCGAATAACATATAATCTATTTACGAAGTTTCCAACTATCTGAACAACCGC
** *
27596086 TTAGCTCAATATACACCACTACGCTCCCGCTGGGCACTCTAGTTCC
388 TTAGCTCAATATACACCACTACAATCCCGCTGCGCACTCTAGTTCC
27596132 AAATTAAATG
Statistics
Matches: 391, Mismatches: 39, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
435 3 0.01
436 384 0.98
437 4 0.01
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (436 bp):
GCCTCCAAACAGTATTCAACCACATTAGGGGCTACACCAGAAAAACCCCTGAAAATTTCCGCTCC
ATTCGACCGGAGTCGTTCAAAAATTGACCCACGGCCCAAAACACCAGTGTTGGTTCCTGCAACCC
TTTCCAAAATACGGAGCATAGCTTGGGATAGTGCGTCATACCCAACCACTCAATCGTATGATCCC
AACTCAGTCAACGGTAAAGCTGGTGCCTCCCTAGCCTCAACATTTGGCATGTGGCCTGACGCTAA
AGACCCAGCCCTAGCACTTCCTCGGCCCTTACCACGGCATCATGTACCCCTTCCGCAAGTACCTC
TAGCACTCATATCGAATAACATATAATCTATTTACGAAGTTTCCAACTATCTGAACAACCGCTTA
GCTCAATATACACCACTACAATCCCGCTGCGCACTCTAGTTCCCAA
Found at i:27606712 original size:24 final size:24
Alignment explanation
Indices: 27606680--27606726 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
27606670 GTATCTAATT
*
27606680 ATGAAAATACATTTGAATTTGTAC
1 ATGAAAATACATTTGAATCTGTAC
* **
27606704 ATGATAATATGTTTGAATCTGTA
1 ATGAAAATACATTTGAATCTGTA
27606727 TCTATAAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.40
Consensus pattern (24 bp):
ATGAAAATACATTTGAATCTGTAC
Found at i:27627186 original size:32 final size:30
Alignment explanation
Indices: 27627144--27627246 Score: 134
Period size: 32 Copynumber: 3.3 Consensus size: 30
27627134 TTATGGGCCT
*
27627144 TTGTGCCAATCATATTACTGTTACTGATGGC
1 TTGTGCCAATCATATTACTG-TACTAATGGC
*
27627175 TGTGTGCCAATCATATCACTGCTACTAATGGC
1 T-TGTGCCAATCATATTACTG-TACTAATGGC
*
27627207 TTTGTGCCAATCATATTACTGTACTTATGGC
1 -TTGTGCCAATCATATTACTGTACTAATGGC
27627238 TTGTAGCCA
1 TTGT-GCCA
27627247 TTCAGTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
30 4 0.06
31 14 0.22
32 45 0.70
33 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (30 bp):
TTGTGCCAATCATATTACTGTACTAATGGC
Found at i:27634220 original size:22 final size:21
Alignment explanation
Indices: 27634195--27634238 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27634185 TGATAAACTT
27634195 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
27634217 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
27634238 T
1 T
27634239 TAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Done.