Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 183 of 211
Found at i:56632936 original size:27 final size:26
Alignment explanation
Indices: 56632892--56632958 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
56632882 AAATAACTTT
* *
56632892 TAAAATTTAAAATATTTATAGAAATTC
1 TAAAATTTAAAATATTTA-AAAAATTA
* * *
56632919 TAAAATTTATATTTTTTAAAAAATTA
1 TAAAATTTAAAATATTTAAAAAATTA
56632945 TAAAAATTTTAAAA
1 T-AAAA-TTTAAAA
56632959 AAGTCTACAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 7 0.23
27 19 0.61
28 5 0.16
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (26 bp):
TAAAATTTAAAATATTTAAAAAATTA
Found at i:56632956 original size:19 final size:19
Alignment explanation
Indices: 56632932--56632983 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
56632922 AATTTATATT
*
56632932 TTTTAAAAAATTATAAAAA
1 TTTTAAAAAATTACAAAAA
*
56632951 TTTTAAAAAAGTCTACAAATA
1 TTTTAAAAAA-T-TACAAAAA
*
56632972 TATTAAAAAATT
1 TTTTAAAAAATT
56632984 TAATAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.39
20 2 0.07
21 15 0.54
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
TTTTAAAAAATTACAAAAA
Found at i:56635491 original size:43 final size:44
Alignment explanation
Indices: 56635455--56635587 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 44
56635445 TCTTGCATGT
* * *
56635455 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACGTA
1 AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
* **
56635499 AATCATATAT-GATGCCAATGTCCTAGACCTGGTCTTACACGTA
1 AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
* *
56635542 AATCATATA-CGATGCCAATGTCCCAGACATGATCTTACACGTA
1 AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
56635585 AAT
1 AAT
56635588 TTCAAATCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 70 0.89
44 9 0.11
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (44 bp):
AATCATATATCGATGCCAATGTCCCAGACAGGGTCTTACACGTA
Found at i:56635612 original size:44 final size:43
Alignment explanation
Indices: 56635476--56635613 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
56635466 GATGCCACTA
* * * ** *
56635476 TCCCAGACAGGGTCTTACACGTAAATCATATATGATGCCAATG
1 TCCCAGACATGATCTTACACGTAAATCAAATACAATGCCAACG
* * * * * *
56635519 TCCTAGACCTGGTCTTACACGTAAATCATATACGATGCCAATG
1 TCCCAGACATGATCTTACACGTAAATCAAATACAATGCCAACG
*
56635562 TCCCAGACATGATCTTACACGTAAATTTCAAAT-CAATGCCACCG
1 TCCCAGACATGATCTTACACGTAAA--TCAAATACAATGCCAACG
56635606 TCCCAGAC
1 TCCCAGAC
56635614 GTGGTCTTTC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
43 61 0.74
44 16 0.20
45 5 0.06
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGATCTTACACGTAAATCAAATACAATGCCAACG
Found at i:56645941 original size:2 final size:2
Alignment explanation
Indices: 56645934--56645959 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56645924 ACCGTAATAG
56645934 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
56645960 TTAAAGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:56648758 original size:15 final size:16
Alignment explanation
Indices: 56648733--56648770 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
56648723 TTGGGATGAT
* *
56648733 AATATAAGATATAATA
1 AATATATGATAAAATA
56648749 AA-ATATGATAAAATA
1 AATATATGATAAAATA
56648764 AATATAT
1 AATATAT
56648771 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AATATATGATAAAATA
Found at i:56648776 original size:25 final size:25
Alignment explanation
Indices: 56648728--56648777 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
56648718 TAGAATTGGG
* *
56648728 ATGATAATATAAGATATAATAAAAT
1 ATGATAAAATAAGATATAAAAAAAT
56648753 ATGATAAAATAA-ATATATAAAAAAT
1 ATGATAAAATAAGATATA-AAAAAAT
56648778 TTAACACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (25 bp):
ATGATAAAATAAGATATAAAAAAAT
Found at i:56652135 original size:39 final size:39
Alignment explanation
Indices: 56652088--56652199 Score: 206
Period size: 39 Copynumber: 2.9 Consensus size: 39
56652078 CAAAACAAAG
56652088 AACCCAACACATTCAAAGAACAAATAACAAACAATAAAA
1 AACCCAACACATTCAAAGAACAAATAACAAACAATAAAA
*
56652127 AATCCAACACATTCAAAGAACAAATAACAAACAATAAAA
1 AACCCAACACATTCAAAGAACAAATAACAAACAATAAAA
*
56652166 AACCCAACACATCCAAAGAACAAATAACAAACAA
1 AACCCAACACATTCAAAGAACAAATAACAAACAA
56652200 AGAACCCAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.63, C:0.24, G:0.03, T:0.10
Consensus pattern (39 bp):
AACCCAACACATTCAAAGAACAAATAACAAACAATAAAA
Found at i:56652987 original size:13 final size:13
Alignment explanation
Indices: 56652969--56652993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56652959 GAGGAATGAG
56652969 AGATGAAGAAGAA
1 AGATGAAGAAGAA
56652982 AGATGAAGAAGA
1 AGATGAAGAAGA
56652994 CAGTGTGGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
AGATGAAGAAGAA
Found at i:56654303 original size:33 final size:33
Alignment explanation
Indices: 56654261--56654550 Score: 190
Period size: 33 Copynumber: 8.6 Consensus size: 33
56654251 AAGGGTTTGA
56654261 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
1 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
* * *
56654294 TAAGTGCTGATCCCACCGTATCTTAAATGTGAAGGGGGTTGC
1 TAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGTGGTTGC
* *
56654336 TAAGTGTTGATTCCCC----CA-AGG-GGTTGC
1 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
* *
56654363 TAAGTGTTGATTCCCC----CA-AGG-GGTTGC
1 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
*
56654390 TAAGTGCTGATTCCCCGAATCATTGGTGGTTGC
1 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
* * *
56654423 TAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGC
1 TAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GTGGTTGC
* *
56654465 TAAGTGTTGATTCCCCAATTCATTGGTGGTTGC
1 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
*
56654498 TAAGTGCTGATTCCCCGAATCATTGGTGGTTGC
1 TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
*
56654531 TAAGTGCTGAATCCACCGAT
1 TAAGTGCTGATTCC-CCGAT
56654551 AACGGATAAC
Statistics
Matches: 209, Mismatches: 23, Indels: 49
0.74 0.08 0.17
Matches are distributed among these distances:
27 48 0.23
28 2 0.01
31 2 0.01
32 2 0.01
33 83 0.40
34 10 0.05
35 2 0.01
36 2 0.01
37 5 0.02
38 6 0.03
39 3 0.01
40 1 0.00
41 4 0.02
42 39 0.19
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (33 bp):
TAAGTGCTGATTCCCCGATTCATTGGTGGTTGC
Found at i:56654364 original size:27 final size:27
Alignment explanation
Indices: 56654328--56654405 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
56654318 AAATGTGAAG
56654328 GGGGTTGCTAAGTGTTGATTCCCCCAA
1 GGGGTTGCTAAGTGTTGATTCCCCCAA
56654355 GGGGTTGCTAAGTGTTGATTCCCCCAA
1 GGGGTTGCTAAGTGTTGATTCCCCCAA
*
56654382 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGTTGATTCCCC
56654406 GAATCATTGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (27 bp):
GGGGTTGCTAAGTGTTGATTCCCCCAA
Found at i:56654536 original size:108 final size:102
Alignment explanation
Indices: 56654353--56654548 Score: 313
Period size: 108 Copynumber: 1.9 Consensus size: 102
56654343 TGATTCCCCC
56654353 AAGGGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTG
1 AAGGGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTG
56654418 GTTGCTAAGTGCTG-ATCCCACCGTATCTTAAATGTGA
66 GTTGCTAAGTGCTGAAT-CCACCGTATCTTAAATGTGA
*
56654455 AAGGGGTTGCTAAGTGTTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATTCCCCGAATCA
1 AAGGGGTTGCTAAGTGTTGATTCCCC----CA-AGG-GGTTGCTAAGTGCTGATTCCCCGAATCA
56654520 TTGGTGGTTGCTAAGTGCTGAATCCACCG
60 TTGGTGGTTGCTAAGTGCTGAATCCACCG
56654549 ATAACGGATA
Statistics
Matches: 86, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
102 26 0.30
106 2 0.02
107 2 0.02
108 54 0.63
109 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (102 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTG
GTTGCTAAGTGCTGAATCCACCGTATCTTAAATGTGA
Found at i:56669973 original size:19 final size:19
Alignment explanation
Indices: 56669949--56670040 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
56669939 AATTTTTGAG
56669949 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56669968 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
56669987 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
56670006 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
**
56670025 GATATATAATCTTAGA
1 GATATGCAATCTTAGA
56670041 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:56670721 original size:16 final size:16
Alignment explanation
Indices: 56670697--56670732 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56670687 TATTTTTCTC
* *
56670697 ATATTTATATATATGT
1 ATATGTATATATACGT
56670713 ATATGTATATATACGT
1 ATATGTATATATACGT
56670729 ATAT
1 ATAT
56670733 TTATTTTTTA
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:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (16 bp):
ATATGTATATATACGT
Found at i:56670860 original size:24 final size:25
Alignment explanation
Indices: 56670818--56670866 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
56670808 TACATGTATA
56670818 TATATTTTTTTAAACGAATATTTTCC
1 TATATTTTTTT-AACGAATATTTTCC
*
56670844 TATATTTTTTT-ATGAATATTTTC
1 TATATTTTTTTAACGAATATTTTC
56670867 ATATTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATTTTTTTAACGAATATTTTCC
Found at i:56671601 original size:98 final size:98
Alignment explanation
Indices: 56671492--56671688 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
56671482 TTAAAAATAA
* *
56671492 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
56671557 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
56671590 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
56671655 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
56671688 T
1 T
56671689 TTTATTGTAC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:56676338 original size:16 final size:16
Alignment explanation
Indices: 56676317--56676347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56676307 CTCATATTTA
*
56676317 TATATATATGTATATG
1 TATATATACGTATATG
56676333 TATATATACGTATAT
1 TATATATACGTATAT
56676348 TTATTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
TATATATACGTATATG
Found at i:56677287 original size:98 final size:98
Alignment explanation
Indices: 56677154--56677350 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
56677144 TTAAAAATAA
* *
56677154 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCCAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCCAACGTATTGGGTGTGATTTC
56677219 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * * *
56677252 TAAATGAAATATTTCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCCAACGTATTGGGTGTGATTTC
56677317 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
56677350 T
1 T
56677351 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCCAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:56685009 original size:98 final size:98
Alignment explanation
Indices: 56684835--56685031 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
56684825 GTACAATAAA
*
56684835 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
56684900 CCTCTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
*
56684933 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
56684998 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
56685031 A
1 A
56685032 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:56686550 original size:19 final size:19
Alignment explanation
Indices: 56686526--56686657 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
56686516 AATCATATAT
56686526 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
56686545 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
56686564 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
56686583 TCTAAGATTGCTTATATCATA
1 TCTAAGATTGC--ATATCATA
56686604 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
56686623 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
56686642 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
56686658 CTCAAAAATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:56686606 original size:59 final size:57
Alignment explanation
Indices: 56686519--56686657 Score: 219
Period size: 59 Copynumber: 2.4 Consensus size: 57
56686509 ATTACAAAAT
*
56686519 CATAT-AT-TCTAAGATTGCATATCATATCTAAGATTATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
* *
56686574 CATATCATATCTAAGATTGCTTATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGC--ATATCATATCTAAGATTACATATCATATCTAAGATTG
56686633 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
56686658 CTCAAAAATT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 16 0.21
59 54 0.70
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (57 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTACATATCATATCTAAGATTG
Found at i:56696151 original size:28 final size:29
Alignment explanation
Indices: 56696118--56696251 Score: 204
Period size: 28 Copynumber: 4.8 Consensus size: 29
56696108 AGTACACTAA
*
56696118 GGGCCTTAGCCCAATACAGTAA-CAATGT
1 GGGCCTTAGCCCAATACAGTAATCAGTGT
56696146 GGGCCTTAGCCCAATACAG-AATCAGTGT
1 GGGCCTTAGCCCAATACAGTAATCAGTGT
*
56696174 GGGCCTTAGCACAATACA-TAATCAGTGT
1 GGGCCTTAGCCCAATACAGTAATCAGTGT
* *
56696202 GAGCCTTAGCCCAATACAG-AATTAGTGT
1 GGGCCTTAGCCCAATACAGTAATCAGTGT
56696230 GGGCCTTAGCCCAATACAGTAA
1 GGGCCTTAGCCCAATACAGTAA
56696252 CAATGCAGTG
Statistics
Matches: 96, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.02
28 92 0.96
29 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (29 bp):
GGGCCTTAGCCCAATACAGTAATCAGTGT
Found at i:56696189 original size:56 final size:56
Alignment explanation
Indices: 56696118--56696256 Score: 226
Period size: 56 Copynumber: 2.5 Consensus size: 56
56696108 AGTACACTAA
*
56696118 GGGCCTTAGCCCAATACAGTAACAATGTGGGCCTTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGTAACAATGTGAGCCTTAGCCCAATACAGAATCAGTGT
* * *
56696174 GGGCCTTAGCACAATACA-TAATCAGTGTGAGCCTTAGCCCAATACAGAATTAGTGT
1 GGGCCTTAGCCCAATACAGTAA-CAATGTGAGCCTTAGCCCAATACAGAATCAGTGT
56696230 GGGCCTTAGCCCAATACAGTAACAATG
1 GGGCCTTAGCCCAATACAGTAACAATG
56696257 CAGTGCAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 3 0.04
56 69 0.92
57 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (56 bp):
GGGCCTTAGCCCAATACAGTAACAATGTGAGCCTTAGCCCAATACAGAATCAGTGT
Found at i:56696387 original size:26 final size:26
Alignment explanation
Indices: 56696358--56696412 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
56696348 AACACACCAA
*
56696358 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
56696384 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
56696410 TAT
1 TAT
56696413 ATGTGGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:56696548 original size:15 final size:15
Alignment explanation
Indices: 56696528--56696561 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56696518 TGTCATGCTC
56696528 TATCATAG-TCATACA
1 TATCATAGATC-TACA
56696543 TATCATAGATCTACA
1 TATCATAGATCTACA
56696558 TATC
1 TATC
56696562 CCAGTCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (15 bp):
TATCATAGATCTACA
Found at i:56702524 original size:50 final size:50
Alignment explanation
Indices: 56702400--56702648 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
56702390 GATAATAACA
* * ** * *
56702400 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
56702451 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
56702501 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
56702551 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
56702606 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
56702649 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:56702578 original size:100 final size:104
Alignment explanation
Indices: 56702399--56702648 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
56702389 TGATAATAAC
**
56702399 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
56702464 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
56702501 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
56702564 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
56702606 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56702649 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:56702764 original size:13 final size:13
Alignment explanation
Indices: 56702743--56702774 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56702733 GCTTGGATCA
*
56702743 TCATCAAATAAAT
1 TCATAAAATAAAT
56702756 TCATAAAATAAAT
1 TCATAAAATAAAT
56702769 TCATAA
1 TCATAA
56702775 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56703021 original size:30 final size:30
Alignment explanation
Indices: 56702986--56703043 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56702976 CCTCGACTCT
*
56702986 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
56703016 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
56703044 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:56706071 original size:14 final size:14
Alignment explanation
Indices: 56706052--56706080 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56706042 ACAGATAGAT
56706052 TCGTATAATTCTTA
1 TCGTATAATTCTTA
56706066 TCGTATAATTCTTA
1 TCGTATAATTCTTA
56706080 T
1 T
56706081 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:56710140 original size:15 final size:15
Alignment explanation
Indices: 56710108--56710178 Score: 67
Period size: 15 Copynumber: 4.8 Consensus size: 15
56710098 AATTCAATTC
*
56710108 AATTTGATTTT-TTAT
1 AATTTAATTTTATT-T
*
56710123 AATTTGATTTTATTT
1 AATTTAATTTTATTT
*
56710138 AA-TT-CTTTTAGTTT
1 AATTTAATTTTA-TTT
*
56710152 AATTTAATTTAATTT
1 AATTTAATTTTATTT
56710167 AATTTAATTTTA
1 AATTTAATTTTA
56710179 ATATACCTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
13 5 0.10
14 7 0.15
15 30 0.62
16 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (15 bp):
AATTTAATTTTATTT
Found at i:56710152 original size:5 final size:5
Alignment explanation
Indices: 56710122--56710176 Score: 60
Period size: 5 Copynumber: 11.2 Consensus size: 5
56710112 TGATTTTTTA
* * *
56710122 TAATT TGATT TTATT TAATT CT--TT TAGTT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT -TAATT TAATT TAATT TAATT TAATT TAATT
56710171 TAATT T
1 TAATT T
56710177 TAATATACCT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 1 0.02
4 2 0.05
5 39 0.91
6 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (5 bp):
TAATT
Found at i:56711607 original size:17 final size:17
Alignment explanation
Indices: 56711585--56711618 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56711575 GTTTTGATTT
* *
56711585 ATTTAATTTGTATTTTA
1 ATTTAACTTATATTTTA
56711602 ATTTAACTTATATTTTA
1 ATTTAACTTATATTTTA
56711619 TATAATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTAACTTATATTTTA
Found at i:56720081 original size:41 final size:43
Alignment explanation
Indices: 56719977--56720099 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
56719967 TTGTCCACAT
* *
56719977 AAACGCCGCTAAAGAACATGACCTTTATCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAC
* **
56720020 AAACGCCGCTAAGGAACATGACCTTTAGCGATGCTTTTAGCA-
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAC
56720062 AAA-GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA
56720100 TAGACCTTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 32 0.44
42 3 0.04
43 37 0.51
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTAGCAC
Found at i:56720105 original size:22 final size:22
Alignment explanation
Indices: 56720080--56720122 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
56720070 TAAAGAACAT
56720080 GACCTTTAGCGGCGCTTTTATA
1 GACCTTTAGCGGCGCTTTTATA
*
56720102 GACCTTTATCGGCGCTTTTAT
1 GACCTTTAGCGGCGCTTTTAT
56720123 CACAATCGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (22 bp):
GACCTTTAGCGGCGCTTTTATA
Found at i:56720181 original size:44 final size:44
Alignment explanation
Indices: 56720102--56720223 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
56720092 CGCTTTTATA
* *
56720102 GACCTTTATCGGCGC-TTTTATCACAATCGCCACTAAAGAACAT
1 GACCTTTAGCGGCGCTTTTTATCACAAACGCCACTAAAGAACAT
* * *
56720145 GACCTTTAGCGGCACTTTTTATCACAAACGCTACTAAATAACAT
1 GACCTTTAGCGGCGCTTTTTATCACAAACGCCACTAAAGAACAT
* *
56720189 GACCTTTAGCGACGCTTTAT-TCACAAACGCCACTA
1 GACCTTTAGCGGCGCTTTTTATCACAAACGCCACTA
56720224 GAAGTACCGT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 27 0.39
44 42 0.61
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (44 bp):
GACCTTTAGCGGCGCTTTTTATCACAAACGCCACTAAAGAACAT
Found at i:56726434 original size:31 final size:31
Alignment explanation
Indices: 56726396--56726457 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
56726386 AGGCAAATTA
*
56726396 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTAAATCCTAATAAAACTCTTT
56726427 CAAGAGTAATTAAATCCTAATAAAACTCTTT
1 CAAGAGTAATTAAATCCTAATAAAACTCTTT
56726458 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTAAATCCTAATAAAACTCTTT
Found at i:56732473 original size:31 final size:31
Alignment explanation
Indices: 56732430--56732491 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
56732420 AGGCAAATTA
*
56732430 CAAGAGTGATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
56732461 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
56732492 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:56732591 original size:3 final size:3
Alignment explanation
Indices: 56732583--56732607 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56732573 GAATTAAGTA
56732583 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
56732608 TACATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56739447 original size:164 final size:164
Alignment explanation
Indices: 56739176--56739648 Score: 901
Period size: 164 Copynumber: 2.9 Consensus size: 164
56739166 TATCCCACAT
* * *
56739176 TCAATTTGATCCTGGTTTTATCTGTTTTCTGTTATTATCTCAAGTACTGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTCTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
56739241 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
56739306 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
131 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
*
56739340 TCAATTTGATCCTGGTTTTATCTGTCTGCTGTTATTATCTCAATTACGGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTCTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
*
56739405 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCCGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
56739470 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
131 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
56739504 TCAATTTGATCCTGGTTTTATCTGTCTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTCTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
56739569 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
56739634 TACGGTCTTTTTCTT
131 TACGGTCTTTTTCTT
56739649 CATAAAGCTC
Statistics
Matches: 302, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 302 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (164 bp):
TCAATTTGATCCTGGTTTTATCTGTCTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
Found at i:56744038 original size:5 final size:5
Alignment explanation
Indices: 56744028--56744091 Score: 65
Period size: 5 Copynumber: 12.2 Consensus size: 5
56744018 CAAATTTTAA
* **
56744028 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTTT AATTTT ATTACT ATAAT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT -ATTTT ATT-TT ATTTT
*
56744076 ATTTT ATATT ATTTT A
1 ATTTT ATTTT ATTTT A
56744092 ATAAATTTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 37 0.76
6 11 0.22
7 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:56756472 original size:6 final size:6
Alignment explanation
Indices: 56756461--56756498 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
56756451 AAACAGGAGT
* *
56756461 GTTGAA GTTGAA GTTGAA GTTGAA GTGGAA GTGGAA GT
1 GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA GT
56756499 CCCAAGTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (6 bp):
GTTGAA
Found at i:56757661 original size:24 final size:21
Alignment explanation
Indices: 56757633--56757686 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
56757623 AGATTTAAAT
56757633 TTAAAAATATCTCAAACAAAAAAA
1 TTAAAAAT-T-TCAAA-AAAAAAA
*
56757657 TTAAAAATTTCAAAATAAAAA
1 TTAAAAATTTCAAAAAAAAAA
*
56757678 TAAAAAATT
1 TTAAAAATT
56757687 AAATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 14 0.50
22 5 0.18
23 1 0.04
24 8 0.29
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (21 bp):
TTAAAAATTTCAAAAAAAAAA
Found at i:56757943 original size:20 final size:20
Alignment explanation
Indices: 56757914--56757952 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56757904 TACCGGACCA
56757914 CTGATATGGCAAGTTAACTG
1 CTGATATGGCAAGTTAACTG
* *
56757934 CTGATGTGGCCAGTTAACT
1 CTGATATGGCAAGTTAACT
56757953 TGTCACGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
CTGATATGGCAAGTTAACTG
Found at i:56758635 original size:3 final size:3
Alignment explanation
Indices: 56758627--56758690 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
56758617 CCATTTTTTC
* *
56758627 TCT TCT TC- TCTT TCT TCT TCT TCT TC- TCC TCT TCT TAT TCT T-T
1 TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
56758670 TTT TCT TCT TTT TC- TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT T
56758691 AAACCTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 8 0.16
3 40 0.80
4 2 0.04
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:56758676 original size:17 final size:17
Alignment explanation
Indices: 56758629--56758684 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
56758619 ATTTTTTCTC
*
56758629 TTCTTCTCTTTCTTCTTC
1 TTCTTCT-TTTCTTCTTA
**
56758647 TTCTTCTCCTCTTCTTA
1 TTCTTCTTTTCTTCTTA
* *
56758664 TTCTTTTTTTCTTCTTT
1 TTCTTCTTTTCTTCTTA
56758681 TTCT
1 TTCT
56758685 CTTCTTAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (17 bp):
TTCTTCTTTTCTTCTTA
Found at i:56765548 original size:41 final size:41
Alignment explanation
Indices: 56765503--56765616 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
56765493 TTATTGTCAG
* * *
56765503 TGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCGC
1 TGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCGC
* *
56765544 TGAAATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCGG
1 TGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCGC
* * * * * *
56765585 TGATACATTTCGGACAATAAGTCTATCAGGCT
1 TGAAATAATTCAGACTATAAGTCTAGCAGGCT
56765617 AAAAGCCGGT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
TGAAATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCGC
Found at i:56770426 original size:17 final size:16
Alignment explanation
Indices: 56770379--56770426 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
56770369 GGCCTAGAAT
*
56770379 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
56770396 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
56770414 ATTTGATAGATTA
1 ATTTGATAGATTA
56770427 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:56776541 original size:29 final size:28
Alignment explanation
Indices: 56776500--56776554 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
56776490 TATACATGCA
56776500 TACATACATTTTT-TATAATATATATACG
1 TACATACATTTTTCT-TAATATATATACG
* *
56776528 TACATAACCTTTTTCTTAATTTATATA
1 TACAT-ACATTTTTCTTAATATATATA
56776555 GATATACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 17 0.74
30 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (28 bp):
TACATACATTTTTCTTAATATATATACG
Found at i:56777122 original size:71 final size:71
Alignment explanation
Indices: 56777042--56777176 Score: 198
Period size: 71 Copynumber: 1.9 Consensus size: 71
56777032 TCTTTTCAAA
* * * * **
56777042 CTCAAGTTTTAAACGATCTCGGGATTTAAGAAGAGATTTTGTACTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCATGTACTAACTTACTGGGCATGATCCT
56777107 TTTTTT
66 TTTTTT
* *
56777113 CTCAAGTTTTAAATAATCTCGAGAATTAAGAAAAGATCATGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCATGTACTAACTTACTGGGCATGATCC
56777177 CCCTTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (71 bp):
CTCAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCATGTACTAACTTACTGGGCATGATCCT
TTTTTT
Found at i:56784048 original size:70 final size:72
Alignment explanation
Indices: 56783934--56784075 Score: 225
Period size: 70 Copynumber: 2.0 Consensus size: 72
56783924 ATTTTCAAAC
* * *
56783934 TCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTATTGGGCATGAT-CCT
1 TCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
56783998 TTTTTTG
66 TTTTTTG
*
56784005 TCAAG-TTTAAATAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCC
1 TCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGAT-CCC
56784069 TTTTTTT
65 TTTTTTT
56784076 TAAAATCCGA
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 51 0.78
71 5 0.08
72 9 0.14
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (72 bp):
TCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCT
TTTTTTG
Found at i:56786169 original size:21 final size:21
Alignment explanation
Indices: 56786108--56786171 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
56786098 AATTAAAATT
56786108 TTTTAATAAAAATCATAAAAGAA
1 TTTT-ATAAAAATCATAAAA-AA
* *
56786131 CTATA-AAAAATTC-T--AAAA
1 TTTTATAAAAA-TCATAAAAAA
56786149 TTTTATAAAAATCATAAAAAA
1 TTTTATAAAAATCATAAAAAA
56786170 TT
1 TT
56786172 ATAAAATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
18 7 0.22
19 8 0.25
21 12 0.38
22 3 0.09
23 2 0.06
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (21 bp):
TTTTATAAAAATCATAAAAAA
Found at i:56786177 original size:9 final size:9
Alignment explanation
Indices: 56786014--56786073 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
56786004 CATGTGGCAA
56786014 AAAAATTAT
1 AAAAATTAT
56786023 AAAAA--AT
1 AAAAATTAT
* *
56786030 GAAAATCAAT
1 AAAAAT-TAT
56786040 AAAAATTAT
1 AAAAATTAT
56786049 AAAAATTAT
1 AAAAATTAT
* *
56786058 TAAATTTAAT
1 AAAAATT-AT
56786068 AAAAAT
1 AAAAAT
56786074 AAAAGAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
7 6 0.15
9 21 0.52
10 13 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:56786187 original size:19 final size:19
Alignment explanation
Indices: 56786113--56786177 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
56786103 AAATTTTTTA
*
56786113 ATAAAAATCATAAAAGAACT
1 ATAAAAATCATAAAA-AATT
**
56786133 ATAAAAAATTC-TAAAATTTT
1 AT-AAAAA-TCATAAAAAATT
56786153 ATAAAAATCATAAAAAATT
1 ATAAAAATCATAAAAAATT
56786172 ATAAAA
1 ATAAAA
56786178 TACATTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.05
19 18 0.49
20 5 0.14
21 10 0.27
22 2 0.05
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (19 bp):
ATAAAAATCATAAAAAATT
Found at i:56786417 original size:20 final size:20
Alignment explanation
Indices: 56786360--56786418 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
56786350 TTAGTATAAT
*
56786360 AATTATTATAACTTTTTTACG
1 AATT-TTATAATTTTTTTACG
*
56786381 AATTTTAT-ATTTCTTTAC-
1 AATTTTATAATTTTTTTACG
*
56786399 ATTTTTTATAATTTTTTTAC
1 A-ATTTTATAATTTTTTTAC
56786419 TTTATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.44
20 13 0.41
21 4 0.12
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (20 bp):
AATTTTATAATTTTTTTACG
Found at i:56786492 original size:19 final size:19
Alignment explanation
Indices: 56786457--56786499 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
56786447 CTTCTATATT
*
56786457 TTTTTATAAAAAATTACAG
1 TTTTTATAAAAAATTACAA
**
56786476 TTTTTATAAAATTTTACAA
1 TTTTTATAAAAAATTACAA
56786495 TTTTT
1 TTTTT
56786500 TTTTTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTTATAAAAAATTACAA
Found at i:56786533 original size:30 final size:29
Alignment explanation
Indices: 56786497--56786589 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
56786487 TTTTACAATT
56786497 TTTTTTTTATAAATTTTATGATTTTTATAA
1 TTTTTTTTATAAATTTTAT-ATTTTTATAA
*
56786527 TTTTTTTTCT-AATTTTAAATATTTTTAT-A
1 TTTTTTTTATAAATTTT--ATATTTTTATAA
* * *
56786556 TTTTTATTA-AAACTTAATAATTTTTATAA
1 TTTTTTTTATAAATTTTAT-ATTTTTATAA
*
56786585 CTTTT
1 TTTTT
56786590 ATTGATTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.04
28 8 0.15
29 23 0.44
30 17 0.33
31 2 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTTTTTTATAAATTTTATATTTTTATAA
Found at i:56786540 original size:29 final size:29
Alignment explanation
Indices: 56786497--56786583 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
56786487 TTTTACAATT
56786497 TTTTTTTTATAAATTTT-ATGATTTTTATAA
1 TTTTTTTTATAAATTTTAAT-ATTTTTAT-A
*
56786527 TTTTTTTTCT-AATTTTAAATATTTTTATA
1 TTTTTTTTATAAATTTT-AATATTTTTATA
* *
56786556 TTTTTATTA-AAA-CTTAATAATTTTTATA
1 TTTTTTTTATAAATTTTAAT-ATTTTTATA
56786584 ACTTTTATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
27 3 0.06
28 11 0.22
29 16 0.33
30 17 0.35
31 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTTTTTATAAATTTTAATATTTTTATA
Found at i:56787203 original size:13 final size:13
Alignment explanation
Indices: 56787185--56787214 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
56787175 TATATTAAAA
56787185 AAATTAATTCAAT
1 AAATTAATTCAAT
*
56787198 AAATTAATTCATT
1 AAATTAATTCAAT
56787211 AAAT
1 AAAT
56787215 ATTAAGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTAATTCAAT
Found at i:56802832 original size:22 final size:21
Alignment explanation
Indices: 56802797--56802911 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 21
56802787 AAAGGGTATC
* * *
56802797 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
56802818 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
56802841 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
56802860 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
56802879 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
56802898 TATATATCATATCT
1 TACAAATCATATCT
56802912 AAGATTGCAT
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
19 56 0.66
21 4 0.05
22 15 0.18
23 10 0.12
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:56802842 original size:23 final size:22
Alignment explanation
Indices: 56802797--56802854 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
56802787 AAAGGGTATC
* * *
56802797 TACAAATTAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
56802818 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
56802841 TACATATCATATCT
1 TACAAATCATATCT
56802855 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:56802924 original size:19 final size:19
Alignment explanation
Indices: 56802833--56802917 Score: 161
Period size: 19 Copynumber: 4.5 Consensus size: 19
56802823 AATCATATCT
*
56802833 TCTAAGATTACATATCATA
1 TCTAAGATTATATATCATA
56802852 TCTAAGATTATATATCATA
1 TCTAAGATTATATATCATA
56802871 TCTAAGATTATATATCATA
1 TCTAAGATTATATATCATA
56802890 TCTAAGATTATATATCATA
1 TCTAAGATTATATATCATA
56802909 TCTAAGATT
1 TCTAAGATT
56802918 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (19 bp):
TCTAAGATTATATATCATA
Found at i:56803480 original size:132 final size:132
Alignment explanation
Indices: 56803252--56804146 Score: 1497
Period size: 132 Copynumber: 6.8 Consensus size: 132
56803242 TAGGACTTAC
* * *
56803252 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
*
56803315 GTAACCACAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
56803380 CTGA
129 CTGA
* *
56803384 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACCGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * * **
56803449 AATCATAGAGAGGTTAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
56803514 GA
131 GA
* *
56803516 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCACTGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
56803581 AACCACAGGGAGGTAAAATCCGTCATCGTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
56803646 GA
131 GA
*
56803648 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTTAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
56803713 AACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
56803778 GA
131 GA
* *
56803780 AATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
56803845 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
56803910 AA
131 GA
* *
56803912 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
56803977 AACCACGGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
56804042 GA
131 GA
56804044 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
56804109 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
56804147 TCGCTGTCAA
Statistics
Matches: 711, Mismatches: 50, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 708 1.00
133 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:56804075 original size:44 final size:45
Alignment explanation
Indices: 56803367--56804075 Score: 113
Period size: 44 Copynumber: 16.1 Consensus size: 45
56803357 ACTACTGCTT
*
56803367 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
*** * * ** *
56803411 AGGGA-AGT-AGAAT-T-ACCGGCTTCAATGTACTCCACTATAATCAT
1 AGGGAGA-TAAG-ATCTGA-AATCTTCAATCTACTCCACTGTTGTCAC
* * * * * ** **
56803455 AGAGAGGTTAA-ATCT-ACCATCTTCGATCTGCTCCACTACTG-CTT
1 AGGGA-GATAAGATCTGA-AATCTTCAATCTACTCCACTGTTGTCAC
*
56803499 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * * ***
56803543 AGGGA-AGT-AGAATTACTG---GCTTCACTGTACTCCACTATAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * ** * * * ** **
56803587 AGGGAGGTAAAATCCGTCATCGTCGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* *
56803631 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * ***
56803675 AGGGA-AGT-AGAATTACTG---GCTTTAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * ** * * ** **
56803719 AGGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* *
56803763 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGT-TC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * ***
56803807 AGGGA-AGT-AGAAT-T-ACTAGCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-ATCTGA-AATCTTCAATCTACTCCACTGTTGTCAC
* * * ** * * ** **
56803851 AGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * *
56803895 AGGGAGATAGGATCTAAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
* * * ***
56803939 AGGGA-AGT-AGAAT-T--ATTGGCTTCAATGTACTCCACTATAACCAC
1 AGGGAGA-TAAG-ATCTGAAAT--CTTCAATCTACTCCACTGTTGTCAC
* * * ** ** * ** **
56803983 GGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTG-CTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
*
56804027 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTC-C
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
56804071 AGGGA
1 AGGGA
56804076 AGTAGAATTA
Statistics
Matches: 447, Mismatches: 165, Indels: 106
0.62 0.23 0.15
Matches are distributed among these distances:
41 2 0.00
42 7 0.02
43 109 0.24
44 235 0.53
45 86 0.19
46 7 0.02
47 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTCAC
Found at i:56806437 original size:36 final size:36
Alignment explanation
Indices: 56806390--56806463 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
56806380 ATGAGAGAAT
56806390 AATGTGGAAGAAAATCCAAAAGAATGAAAGAATAAA
1 AATGTGGAAGAAAATCCAAAAGAATGAAAGAATAAA
56806426 AATGTGGAAGAAAATCCAAAAGAATGAAAGAATAAA
1 AATGTGGAAGAAAATCCAAAAGAATGAAAGAATAAA
56806462 AA
1 AA
56806464 GAATAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.62, C:0.05, G:0.19, T:0.14
Consensus pattern (36 bp):
AATGTGGAAGAAAATCCAAAAGAATGAAAGAATAAA
Found at i:56806446 original size:20 final size:20
Alignment explanation
Indices: 56806390--56806446 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 20
56806380 ATGAGAGAAT
56806390 AATGTGGAAGAAAATCCAAA
1 AATGTGGAAGAAAATCCAAA
* *
56806410 AGA-AT-GAA-AGAAT--AAA
1 A-ATGTGGAAGAAAATCCAAA
56806426 AATGTGGAAGAAAATCCAAA
1 AATGTGGAAGAAAATCCAAA
56806446 A
1 A
56806447 GAATGAAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
15 1 0.04
16 5 0.19
17 3 0.11
18 8 0.30
19 3 0.11
20 6 0.22
21 1 0.04
ACGTcount: A:0.60, C:0.07, G:0.19, T:0.14
Consensus pattern (20 bp):
AATGTGGAAGAAAATCCAAA
Found at i:56806456 original size:20 final size:20
Alignment explanation
Indices: 56806397--56806457 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
56806387 AATAATGTGG
56806397 AAGAAAATCCAAAAGAATGA
1 AAGAAAATCCAAAAGAATGA
* *
56806417 AAG--AAT--AAAA-ATGTGG
1 AAGAAAATCCAAAAGA-ATGA
56806433 AAGAAAATCCAAAAGAATGA
1 AAGAAAATCCAAAAGAATGA
56806453 AAGAA
1 AAGAA
56806458 TAAAAAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
15 1 0.03
16 9 0.29
18 6 0.19
20 14 0.45
21 1 0.03
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (20 bp):
AAGAAAATCCAAAAGAATGA
Found at i:56806465 original size:17 final size:17
Alignment explanation
Indices: 56806407--56806467 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
56806397 AAGAAAATCC
56806407 AAAAGAATGAAAGAATA
1 AAAAGAATGAAAGAATA
* *
56806424 AAAATG--TGGAAGAAAATCC
1 AAAA-GAAT-GAA-AGAAT-A
56806443 AAAAGAATGAAAGAATA
1 AAAAGAATGAAAGAATA
56806460 AAAAGAAT
1 AAAAGAAT
56806468 AAAAAAGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 1 0.03
17 15 0.44
18 10 0.29
19 7 0.21
20 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.18, T:0.13
Consensus pattern (17 bp):
AAAAGAATGAAAGAATA
Found at i:56811109 original size:23 final size:22
Alignment explanation
Indices: 56811066--56811123 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
56811056 AAAGGGTATC
* *
56811066 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
56811087 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
56811110 TGCATATCATATCT
1 TACAAATCATATCT
56811124 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:56813965 original size:6 final size:6
Alignment explanation
Indices: 56813954--56813980 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56813944 CTCTCAATGA
56813954 AAGCTG AAGCTG AAGCTG AAGCTG AAG
1 AAGCTG AAGCTG AAGCTG AAGCTG AAG
56813981 GGATTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (6 bp):
AAGCTG
Found at i:56825959 original size:44 final size:44
Alignment explanation
Indices: 56825849--56826090 Score: 129
Period size: 47 Copynumber: 5.3 Consensus size: 44
56825839 ATGATTTTAG
* * **
56825849 TAAATTCATATAAGGATATTTATTATTAAGAATTCTATGAAATTATA
1 TAAATTCATATAAGAATATTTAATATTAATTATT-T-T-AAATTATA
*
56825896 TATCATT-AT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTCATATAAGA--ATATTTAATATTAATTATTTTAAATTATA
* * **
56825940 TAAATTCATATAAGAATATTTATTTATCAAGAATTTTATGAAATTATA
1 TAAATTCATATAAGAATATTTA-ATATTAATTA-TTT-T-AAATTATA
* ** *
56825988 TATTATT-AT-TAA-ATTATATTTAATAACAATTATATTAAATTATA
1 TA-AATTCATATAAGA--ATATTTAATATTAATTATTTTAAATTATA
* * * *
56826032 CAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTTTA
1 TAAATTCATATAAGAATATTTA--A-TATTAATTATTTTAAATTATA
56826079 TTAAA-TCATATA
1 -TAAATTCATATA
56826091 TTTTAATTAA
Statistics
Matches: 152, Mismatches: 23, Indels: 40
0.71 0.11 0.19
Matches are distributed among these distances:
43 6 0.04
44 36 0.24
45 14 0.09
46 13 0.09
47 55 0.36
48 25 0.16
49 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (44 bp):
TAAATTCATATAAGAATATTTAATATTAATTATTTTAAATTATA
Found at i:56825996 original size:92 final size:92
Alignment explanation
Indices: 56825849--56826055 Score: 326
Period size: 92 Copynumber: 2.3 Consensus size: 92
56825839 ATGATTTTAG
* *
56825849 TAAATTCATATAAGGATATTTA-TTATTAAGAATTCTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAATATTTATTTATCAAGAATTCTATGAAATTATATATCATTATTAAATTAT
** *
56825913 ATTTAATATTAATTATTTTAAATTATA
66 ATTTAATAACAATTATATTAAATTATA
* *
56825940 TAAATTCATATAAGAATATTTATTTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAATATTTATTTATCAAGAATTCTATGAAATTATATATCATTATTAAATTAT
56826005 ATTTAATAACAATTATATTAAATTATA
66 ATTTAATAACAATTATATTAAATTATA
* *
56826032 CAAATTCATATAAGAAAATTTATT
1 TAAATTCATATAAGAATATTTATT
56826056 AGTAATAATT
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 21 0.20
92 85 0.80
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAATATTTATTTATCAAGAATTCTATGAAATTATATATCATTATTAAATTAT
ATTTAATAACAATTATATTAAATTATA
Found at i:56826210 original size:120 final size:119
Alignment explanation
Indices: 56826072--56826487 Score: 735
Period size: 120 Copynumber: 3.5 Consensus size: 119
56826062 AATTATTTTA
56826072 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTGAAATTATA-TTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTT
*
56826136 ATAGTATCATATATTATGATTTTAAGTAAATTCAGATAAGAATATTGATTATTAAG
65 ATAGTATCATATATTATGATTTT-AGTAAATTCATATAAGAATATTGATTATTAAG
56826192 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTT
56826257 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
56826312 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTT
*
56826377 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
65 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
56826432 AATTTTATTAAATTATATAATTTAATTAAAGTATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
56826488 ATATGATTAA
Statistics
Matches: 288, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
120 260 0.90
121 28 0.10
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTA
TAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:56826449 original size:59 final size:59
Alignment explanation
Indices: 56826145--56826449 Score: 188
Period size: 63 Copynumber: 5.1 Consensus size: 59
56826135 TATAGTATCA
*
56826145 TATATTATGATTTTAAGTAAATTCAGATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGA-TTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
56826205 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA-AA
56826263 T
59 T
*
56826264 CATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * * * *
56826325 CATA-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATGT-TAAATTATATTTTA-TAGTA
1 TATATTATGATTTAAGT-AAAT-TCATATAAGAAT-ATTGAT-TATTAA-GA-ATTTTATTA-AA
56826383 T
59 T
*
56826384 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
56826445 TATAT
1 TATAT
56826450 AATTTAATTA
Statistics
Matches: 181, Mismatches: 32, Indels: 65
0.65 0.12 0.23
Matches are distributed among these distances:
56 12 0.07
57 33 0.18
58 18 0.10
59 27 0.15
60 3 0.02
61 22 0.12
62 21 0.12
63 34 0.19
64 11 0.06
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:56826459 original size:18 final size:18
Alignment explanation
Indices: 56826432--56826467 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56826422 GATTATTAAG
* *
56826432 AATTTTATTAAATTATAT
1 AATTTAATTAAAGTATAT
56826450 AATTTAATTAAAGTATAT
1 AATTTAATTAAAGTATAT
56826468 TTAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTTAATTAAAGTATAT
Found at i:56826747 original size:16 final size:16
Alignment explanation
Indices: 56826700--56826753 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
56826690 TTGATTTGCT
*
56826700 ATTACACCTCTATTCA
1 ATTACACCTCTATTCC
56826716 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
56826732 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
56826748 AATACA
1 ATTACA
56826754 ACGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.33, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:56831891 original size:16 final size:16
Alignment explanation
Indices: 56831845--56831896 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
56831835 TTTGGTTCGC
* *
56831845 TGTATTGGATTTGACG
1 TGTATTGGATTAGAGG
*
56831861 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56831877 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56831893 TGTA
1 TGTA
56831897 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.23, C:0.04, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:56832153 original size:18 final size:17
Alignment explanation
Indices: 56832132--56832166 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56832122 TTATTATTAA
*
56832132 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56832150 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56832167 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56832220 original size:157 final size:156
Alignment explanation
Indices: 56832026--56832334 Score: 564
Period size: 157 Copynumber: 2.0 Consensus size: 156
56832016 CCCTTAACAT
* *
56832026 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
* *
56832091 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
56832156 TTTAATAAAATTCTTAATAATTAGCAG
131 -TTAATAAAATTCTTAATAATTAGCAG
*
56832183 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
56832248 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
56832313 TTAATAAAATTCTTAATAATTA
131 TTAATAAAATTCTTAATAATTA
56832335 ATATTCTTAT
Statistics
Matches: 147, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 22 0.15
157 125 0.85
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTACTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
TTAATAAAATTCTTAATAATTAGCAG
Found at i:56832306 original size:16 final size:16
Alignment explanation
Indices: 56832269--56832310 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
56832259 TTAATCATAT
*
56832269 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
56832285 TT-AAATATATTATAA
1 TTAAAATATATTATAA
56832300 TTAAAATATAT
1 TTAAAATATAT
56832311 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:56832313 original size:13 final size:15
Alignment explanation
Indices: 56832278--56832316 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
56832268 TTTAAACATA
*
56832278 ATTATTATTAAATAT
1 ATTATAATTAAATAT
56832293 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
56832307 A-TATAATTAA
1 ATTATAATTAA
56832317 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:56832436 original size:14 final size:15
Alignment explanation
Indices: 56832387--56832438 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
56832377 ATAAAATATA
56832387 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
56832402 TATTAAATATATTAT
1 AATTAAATATATTAT
56832417 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
56832430 AATTTAATA
1 AATTAAATA
56832439 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:56832484 original size:120 final size:120
Alignment explanation
Indices: 56832272--56832785 Score: 919
Period size: 120 Copynumber: 4.3 Consensus size: 120
56832262 ATCATATTTA
56832272 AACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56832336 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
56832391 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
56832456 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
56832511 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
56832576 TATTCTTATATGAATTTACTCTAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
56832631 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
56832696 TATTTTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-ATAAA-TT
* *
56832751 GAA-ATAATTAATATTAAATATATTTTAATTAAAAT
1 -AACATAATTATTATTAAATATATTATAATTAAAAT
56832786 TTATTGTTTA
Statistics
Matches: 384, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
119 48 0.12
120 334 0.87
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:56832556 original size:14 final size:15
Alignment explanation
Indices: 56832507--56832678 Score: 60
Period size: 15 Copynumber: 11.6 Consensus size: 15
56832497 GTAAAATATA
56832507 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
56832522 TATTAAATATATTAT
1 AATTAAATATATTAT
*
56832537 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
56832555 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
56832570 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* * * *
56832585 -A-TGAATTTACTCT
1 AATTAAATATATTAT
* *
56832598 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
56832614 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
56832627 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
56832642 TATTAAATATATTAT
1 AATTAAATATATTAT
56832657 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
56832670 AATTTAATA
1 AATTAAATA
56832679 AAATTCTTAA
Statistics
Matches: 115, Mismatches: 24, Indels: 37
0.65 0.14 0.21
Matches are distributed among these distances:
12 3 0.03
13 17 0.15
14 23 0.20
15 38 0.33
16 24 0.21
17 5 0.04
18 5 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:56860177 original size:25 final size:25
Alignment explanation
Indices: 56860091--56860183 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 25
56860081 AAAGCTCTTC
* *
56860091 CGAGCCATATAACGGGAAACTCATG
1 CGAGCCAAATAACGGGAATCTCATG
* * * *
56860116 TGAGCTAAGTAACGGGAATCTCATA
1 CGAGCCAAATAACGGGAATCTCATG
*** * *
56860141 CGAGCTGTATATCGGGAATCTCTTG
1 CGAGCCAAATAACGGGAATCTCATG
*
56860166 CGAGCCAAATATCGGGAA
1 CGAGCCAAATAACGGGAA
56860184 GCTTGTAATA
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (25 bp):
CGAGCCAAATAACGGGAATCTCATG
Found at i:56861533 original size:25 final size:25
Alignment explanation
Indices: 56861505--56861616 Score: 99
Period size: 25 Copynumber: 4.5 Consensus size: 25
56861495 ATGAACTCCC
56861505 CGATATATGGCTCTTCAGAGCTTCT
1 CGATATATGGCTCTTCAGAGCTTCT
* * *
56861530 CGATAAATGGCTCTT-ATGATCTTCC
1 CGATATATGGCTCTTCA-GAGCTTCT
*
56861555 CGAT-TAATGGCTCTCCAGAGCTTCT
1 CGATAT-ATGGCTCTTCAGAGCTTCT
* *
56861580 CGATAT-TGGCTCGCTTGA-ACCTTCT
1 CGATATATGGCT--CTTCAGAGCTTCT
56861605 CGATAT-TGGCTC
1 CGATATATGGCTC
56861617 GTATGAGTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
23 1 0.01
24 6 0.08
25 59 0.83
26 5 0.07
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (25 bp):
CGATATATGGCTCTTCAGAGCTTCT
Found at i:56861565 original size:50 final size:50
Alignment explanation
Indices: 56861489--56861584 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
56861479 ACACATCGTA
*
56861489 GCTCTTATGAACTCCCCGATATATGGCTCTTCAGAGCTTCTCGATAAATG
1 GCTCTTATGAACTCCCCGATATATGGCTCTCCAGAGCTTCTCGATAAATG
* *
56861539 GCTCTTATGATCTTCCCGAT-TAATGGCTCTCCAGAGCTTCTCGATA
1 GCTCTTATGAACTCCCCGATAT-ATGGCTCTCCAGAGCTTCTCGATA
56861585 TTGGCTCGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 1 0.02
50 41 0.98
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (50 bp):
GCTCTTATGAACTCCCCGATATATGGCTCTCCAGAGCTTCTCGATAAATG
Found at i:56861699 original size:25 final size:25
Alignment explanation
Indices: 56861639--56861691 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
56861629 GATTACATGT
*
56861639 CTCACATGAGCTTCCCGTTATATGG
1 CTCAAATGAGCTTCCCGTTATATGG
*
56861664 CTCAAAAGAGCTTCCCGTT-TATGTG
1 CTCAAATGAGCTTCCCGTTATATG-G
56861689 CTC
1 CTC
56861692 GTATGAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (25 bp):
CTCAAATGAGCTTCCCGTTATATGG
Found at i:56876164 original size:14 final size:15
Alignment explanation
Indices: 56876123--56876164 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
56876113 TTAGGATCTT
56876123 GGATTTTAAGGTTTA
1 GGATTTTAAGGTTTA
* *
56876138 GGATCTTGA-GTTTA
1 GGATTTTAAGGTTTA
56876152 GG-TTTTAAGGTTT
1 GGATTTTAAGGTTT
56876165 TAACATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 4 0.18
14 11 0.50
15 7 0.32
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (15 bp):
GGATTTTAAGGTTTA
Found at i:56884074 original size:50 final size:50
Alignment explanation
Indices: 56883960--56884208 Score: 336
Period size: 50 Copynumber: 4.8 Consensus size: 50
56883950 GATAATAACA
* **
56883960 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
56884011 TGCCCATGCCATGTCCCATACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
56884061 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
56884111 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
56884166 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56884209 TTACCCAAAT
Statistics
Matches: 176, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 98 0.56
51 32 0.18
53 5 0.03
55 1 0.01
56 40 0.23
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:56889412 original size:37 final size:39
Alignment explanation
Indices: 56889359--56889431 Score: 123
Period size: 37 Copynumber: 1.9 Consensus size: 39
56889349 ACAAAAAAAA
*
56889359 TATTTTAAAAATAAAAAAATAAAAAA-ATATTTTTAAAG
1 TATTTTAAAAATAAAAAAATAAAAAATATATATTTAAAG
56889397 TATTTT-AAAATAAAAAAATAAAAAATATATATTTA
1 TATTTTAAAAATAAAAAAATAAAAAATATATATTTA
56889432 TTATATTCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 19 0.58
38 14 0.42
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (39 bp):
TATTTTAAAAATAAAAAAATAAAAAATATATATTTAAAG
Found at i:56906716 original size:9 final size:9
Alignment explanation
Indices: 56906702--56906730 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
56906692 ATGTACTCTC
56906702 ATATATGTA
1 ATATATGTA
56906711 ATATATGTA
1 ATATATGTA
56906720 ATATATGTA
1 ATATATGTA
56906729 AT
1 AT
56906731 TTAAATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (9 bp):
ATATATGTA
Found at i:56907170 original size:114 final size:114
Alignment explanation
Indices: 56906979--56907186 Score: 353
Period size: 114 Copynumber: 1.8 Consensus size: 114
56906969 GATTTGACCG
* ** * * *
56906979 TAGTTGCTTCGGCAATGAATGTGCCACCTTTTAACTTGGACCCAGCGATCAGGTTGGGTAACGAG
1 TAGTTACTTCGGCAACAAATGTGCCACCTTGTAACTCGGACCCAGCGATCAGGTTGGGTAACAAG
56907044 GTGTTACAATATTAATATTTATTGAATGGGTAACGAGGTTATTTGTCTA
66 GTGTTACAATATTAATATTTATTGAATGGGTAACGAGGTTATTTGTCTA
*
56907093 TAGTTACTTCGGCAACAAATGTGCTACCTTGTAACTCGGACCCAGCGATCAGGTTGGGTAACAAG
1 TAGTTACTTCGGCAACAAATGTGCCACCTTGTAACTCGGACCCAGCGATCAGGTTGGGTAACAAG
56907158 GTGTTACAATATTAATATTTATTGAATGG
66 GTGTTACAATATTAATATTTATTGAATGG
56907187 TTCAAATTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 87 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (114 bp):
TAGTTACTTCGGCAACAAATGTGCCACCTTGTAACTCGGACCCAGCGATCAGGTTGGGTAACAAG
GTGTTACAATATTAATATTTATTGAATGGGTAACGAGGTTATTTGTCTA
Found at i:56908170 original size:7 final size:7
Alignment explanation
Indices: 56908155--56908186 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
56908145 AAAGACAGAG
*
56908155 AGAATAA
1 AGAACAA
56908162 AGAACAA
1 AGAACAA
56908169 AGAACAA
1 AGAACAA
56908176 AGAACAA
1 AGAACAA
56908183 AGAA
1 AGAA
56908187 AATATGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.72, C:0.09, G:0.16, T:0.03
Consensus pattern (7 bp):
AGAACAA
Found at i:56912732 original size:14 final size:14
Alignment explanation
Indices: 56912712--56912751 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56912702 GATAGTTTCC
56912712 AAATATAATAAACA
1 AAATATAATAAACA
* *
56912726 TAATATAATAAATA
1 AAATATAATAAACA
*
56912740 AAATATAGTAAA
1 AAATATAATAAA
56912752 ATACACCTGA
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:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATATAATAAACA
Found at i:56915139 original size:6 final size:6
Alignment explanation
Indices: 56915128--56915160 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
56915118 TTCCAAGCAC
56915128 AGGGAT AGGGAT AGGGAT AGGGAT AGGGAT AGG
1 AGGGAT AGGGAT AGGGAT AGGGAT AGGGAT AGG
56915161 TGATCCCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGGAT
Found at i:56917838 original size:16 final size:16
Alignment explanation
Indices: 56917819--56917853 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56917809 GTTGTATGTC
56917819 TCTATCTTT-GTAGATA
1 TCTAT-TTTAGTAGATA
56917835 TCTATTTTAGTAGATA
1 TCTATTTTAGTAGATA
56917851 TCT
1 TCT
56917854 TTGTAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (16 bp):
TCTATTTTAGTAGATA
Found at i:56917861 original size:12 final size:12
Alignment explanation
Indices: 56917821--56917865 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
56917811 TGTATGTCTC
56917821 TATCTTTGTAGA
1 TATCTTTGTAGA
56917833 TATCTATTTTAGTAGA
1 TATC---TTT-GTAGA
56917849 TATCTTTGTAGA
1 TATCTTTGTAGA
56917861 TATCT
1 TATCT
56917866 GACAAACTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 14 0.48
13 3 0.10
15 3 0.10
16 9 0.31
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (12 bp):
TATCTTTGTAGA
Found at i:56920885 original size:100 final size:100
Alignment explanation
Indices: 56920762--56920962 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
56920752 TATATATATG
56920762 TATGACCCCATTAACTCGTAAACATAATCACACCCAGAAATATCACATATGAGAAAACTATGAAA
1 TATGACCCCATTAACTCGTAAACATAATCACACCCAGAAATATCACATATGAGAAAACTATGAAA
56920827 TCAACTTTTTCATAAATAATTTTTTTTAAAAAGAA
66 TCAACTTTTTCATAAATAATTTTTTTTAAAAAGAA
56920862 TATGACCCCATTAACTCGTAAACATAATCACACCCAGAAATATCACATATGAGAAAACTATGAAA
1 TATGACCCCATTAACTCGTAAACATAATCACACCCAGAAATATCACATATGAGAAAACTATGAAA
*
56920927 TCAACTTTTTCATATATAATTTTTTTTAAAAAGAA
66 TCAACTTTTTCATAAATAATTTTTTTTAAAAAGAA
56920962 T
1 T
56920963 GAAAATTTGC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (100 bp):
TATGACCCCATTAACTCGTAAACATAATCACACCCAGAAATATCACATATGAGAAAACTATGAAA
TCAACTTTTTCATAAATAATTTTTTTTAAAAAGAA
Found at i:56921170 original size:6 final size:6
Alignment explanation
Indices: 56921161--56921199 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
56921151 ATTTAAAATT
* *
56921161 AAAAAG AAAAACT AAAAAG AGAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AA
56921200 GAGATTATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:56922224 original size:41 final size:41
Alignment explanation
Indices: 56922137--56922231 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
56922127 TACGAAACGT
* * * *
56922137 TTCTAGTTGGAAGCGTTTTCAATTGATTTGCAGAAAAGCGC
1 TTCTAGCTGAAAGCGTTTTCAAATGATTTGCAGAAAAGCAC
*
56922178 GTCTAGCTGAAAGCGTTTTCAACAT-ATTTGCAGGAAAA-CAC
1 TTCTAGCTGAAAGCGTTTTCAA-ATGATTTGCA-GAAAAGCAC
56922219 TTCTAGCTAGAAA
1 TTCTAGCT-GAAA
56922232 CACTTTCTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 35 0.78
42 10 0.22
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (41 bp):
TTCTAGCTGAAAGCGTTTTCAAATGATTTGCAGAAAAGCAC
Found at i:56924744 original size:235 final size:236
Alignment explanation
Indices: 56924275--56924745 Score: 881
Period size: 235 Copynumber: 2.0 Consensus size: 236
56924265 ACTGCAGTGA
56924275 AGCGATACAACATCTAGAATAGAGTAAACTTCCACGTTGTTATACCTCGATCTGAAAAGTTTGAG
1 AGCGATACAACATCTAGAATAGAGTAAACTTCCACGTTGTTATACCTCGATCTGAAAAGTTTGAG
*
56924340 GCAAAGTGCATAATGCGAAACAACAAATATTCATGAAAAAGCATGGCTTTTGTTAAGAAAAATTC
66 GCAAAGTGCATAATGCGAAACAACAAATATGCATGAAAAAGCATGGCTTTTGTTAAGAAAAATTC
* * *
56924405 GGGGTTGGGAACCATAAAGAAATATACTGCACCACATACTTGTGTTGTCACGGATACTGCATTAA
131 GAGGTTGGGAACCATAAAGAAATATACCGCACCACATACTTGTGTTGTCACGGATACTACATTAA
56924470 TATTGTCTTGTATTTGTAAAGTTGAATTGCTAATTTTAACG
196 TATTGTCTTGTATTTGTAAAGTTGAATTGCTAATTTTAACG
*
56924511 AGCGATACAACATCTGGAATAGAGTAAACTTCCACGTTGTTATACCTCGATCTGAAAAGTTTGAG
1 AGCGATACAACATCTAGAATAGAGTAAACTTCCACGTTGTTATACCTCGATCTGAAAAGTTTGAG
56924576 GCAAAGTGCATAATGCGAAACAACAAATATGCATGAAAAAGCATGGC-TTTGTTAAGAAAAATTC
66 GCAAAGTGCATAATGCGAAACAACAAATATGCATGAAAAAGCATGGCTTTTGTTAAGAAAAATTC
*
56924640 GAGGTTGGGAACCATAAAGAAATATACCGCACCGCATACTTGTGTTGTCACGGATACTACATTAA
131 GAGGTTGGGAACCATAAAGAAATATACCGCACCACATACTTGTGTTGTCACGGATACTACATTAA
56924705 TATTGTCTTGTATTTGTAAAGTTGAATTGCTAATTTTAACG
196 TATTGTCTTGTATTTGTAAAGTTGAATTGCTAATTTTAACG
56924746 TACTCGTGTT
Statistics
Matches: 229, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
235 119 0.52
236 110 0.48
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (236 bp):
AGCGATACAACATCTAGAATAGAGTAAACTTCCACGTTGTTATACCTCGATCTGAAAAGTTTGAG
GCAAAGTGCATAATGCGAAACAACAAATATGCATGAAAAAGCATGGCTTTTGTTAAGAAAAATTC
GAGGTTGGGAACCATAAAGAAATATACCGCACCACATACTTGTGTTGTCACGGATACTACATTAA
TATTGTCTTGTATTTGTAAAGTTGAATTGCTAATTTTAACG
Found at i:56925789 original size:20 final size:20
Alignment explanation
Indices: 56925759--56925796 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
56925749 AAACTGTCCA
56925759 AAAAAACATAACAAATAAACC
1 AAAAAACATAA-AAATAAACC
56925780 AAAAAA-ATAAAAATAAA
1 AAAAAACATAAAAATAAA
56925797 TGAATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (20 bp):
AAAAAACATAAAAATAAACC
Found at i:56926181 original size:57 final size:57
Alignment explanation
Indices: 56926080--56926221 Score: 194
Period size: 57 Copynumber: 2.5 Consensus size: 57
56926070 TATTGTTACT
* * * *
56926080 ATTTTCATACTGTCATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTAAGC
1 ATTTCCATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTAAGC
* * *
56926137 ATTTCCATGTTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGC
1 ATTTCCATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTAAGC
* * *
56926194 ATTTTCATGCTGTCTTAAATTAAATTAA
1 ATTTCCATGCTGTCATAAATTGAATTAA
56926222 GATGCTCTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (57 bp):
ATTTCCATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTAAGC
Found at i:56929034 original size:25 final size:27
Alignment explanation
Indices: 56929006--56929060 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
56928996 CATTTCAATT
56929006 ATGTGTTAAT-TTC-AAGACTTATGTA
1 ATGTGTTAATATTCAAAGACTTATGTA
*
56929031 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT-ATTCAAAGACTTATGTA
56929057 ATGT
1 ATGT
56929061 TTTTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
23 6 0.25
25 4 0.17
26 13 0.54
28 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATGTGTTAATATTCAAAGACTTATGTA
Found at i:56929270 original size:28 final size:28
Alignment explanation
Indices: 56929239--56929323 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
56929229 TTAATGGTTA
56929239 AAAATTTTGAAAGGTCGGTAATTCATTT
1 AAAATTTTGAAAGGTCGGTAATTCATTT
* * ** *
56929267 AAAAAATTTCG---GTTCGGTTAA-TGGTTA
1 --AAAATTTTGAAAGGTCGG-TAATTCATTT
56929294 AAAATTTTGAAAGGTCGGTAATTCATTT
1 AAAATTTTGAAAGGTCGGTAATTCATTT
56929322 AA
1 AA
56929324 TGTTATTTCG
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 8 0.20
27 11 0.28
28 13 0.32
30 8 0.20
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (28 bp):
AAAATTTTGAAAGGTCGGTAATTCATTT
Found at i:56929274 original size:55 final size:55
Alignment explanation
Indices: 56929212--56929323 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
56929202 AATTTTTTTG
56929212 AAAAAATTTCGGTTCGGTTAATGGTTAAAAATTTTGAAAGGTCGGTAATTCATTT
1 AAAAAATTTCGGTTCGGTTAATGGTTAAAAATTTTGAAAGGTCGGTAATTCATTT
56929267 AAAAAATTTCGGTTCGGTTAATGGTTAAAAATTTTGAAAGGTCGGTAATTCATTT
1 AAAAAATTTCGGTTCGGTTAATGGTTAAAAATTTTGAAAGGTCGGTAATTCATTT
56929322 AA
1 AA
56929324 TGTTATTTCG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (55 bp):
AAAAAATTTCGGTTCGGTTAATGGTTAAAAATTTTGAAAGGTCGGTAATTCATTT
Found at i:56929315 original size:27 final size:28
Alignment explanation
Indices: 56929225--56929312 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
56929215 AAATTTCGGT
56929225 TCGGTTAATGGTTAAAAATTTTGAAAGG
1 TCGGTTAATGGTTAAAAATTTTGAAAGG
** * *
56929253 TCGG-TAATTCATTTAAAAAATTTCG---GT
1 TCGGTTAA-T-GGTT-AAAAATTTTGAAAGG
56929280 TCGGTTAATGGTTAAAAATTTTGAAAGG
1 TCGGTTAATGGTTAAAAATTTTGAAAGG
56929308 TCGGT
1 TCGGT
56929313 AATTCATTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 9 0.20
26 2 0.04
27 9 0.20
28 14 0.31
29 2 0.04
30 9 0.20
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (28 bp):
TCGGTTAATGGTTAAAAATTTTGAAAGG
Found at i:56930590 original size:43 final size:42
Alignment explanation
Indices: 56930504--56930625 Score: 162
Period size: 43 Copynumber: 3.0 Consensus size: 42
56930494 GGGTATATCT
* * *
56930504 AACAACCGAAGTTTATCTTCTCATTTTTTAAATTCTTTTTTC
1 AACAACCCAAGATTATCTTCTCATATTTTAAATTCTTTTTTC
* *
56930546 AACAACCCAATATTATCTTCTCCTCATTTTAAATTCTTTTTTC
1 AACAACCCAAGATTATCTTCTCAT-ATTTTAAATTCTTTTTTC
56930589 AACAACCCAAGATTATC-T-TC-T-TTTTAAATTCTTTTTT
1 AACAACCCAAGATTATCTTCTCATATTTTAAATTCTTTTTT
56930626 TTTAGGATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
38 16 0.22
40 1 0.01
41 2 0.03
42 21 0.29
43 33 0.45
ACGTcount: A:0.28, C:0.21, G:0.02, T:0.48
Consensus pattern (42 bp):
AACAACCCAAGATTATCTTCTCATATTTTAAATTCTTTTTTC
Found at i:56934747 original size:84 final size:86
Alignment explanation
Indices: 56934605--56934983 Score: 370
Period size: 84 Copynumber: 4.5 Consensus size: 86
56934595 TGTGGTTTTA
* ** * * *
56934605 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTTTTTCTGTCTGCTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGG-TTTCTTCCGTCTGCTCCACTACTGCTT
56934669 AGGGAGATAAGACTTG-ATGT-G
64 AGGGAGATAAGACTTGTATGTCG
56934690 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAG
* * * *
56934755 GGGGATAAGATCTGGTTTCTTCCG
66 GGAGATAAGA-CTTGTAT-GT-CG
* * * * * * *
56934779 -TCTGCTCTACTACTGCTTAAGGAGATAAGA-CTTG-AT-GT--GATCTACTCCACTACTGTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCG-TCTGCTCCACTACTGCTTA
* * *
56934838 GGGAGATAAGATTTAGTTTCTTTCG
65 GGGAGATAAGACTT-G--TATGTCG
** *
56934863 -TCTGCTCCACTGTTGCTTAGGGAGATAAGA-CTGGTTTCTTTCGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAG
56934926 GGAGATAAGACTTG-ATGT-G
66 GGAGATAAGACTTGTATGTCG
*
56934945 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
56934984 TAATCCTTTT
Statistics
Matches: 242, Mismatches: 36, Indels: 33
0.78 0.12 0.11
Matches are distributed among these distances:
82 1 0.00
83 31 0.13
84 114 0.47
85 26 0.11
86 6 0.02
87 34 0.14
88 29 0.12
89 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (86 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAG
GGAGATAAGACTTGTATGTCG
Found at i:56934754 original size:44 final size:43
Alignment explanation
Indices: 56934606--56934983 Score: 352
Period size: 44 Copynumber: 8.9 Consensus size: 43
56934596 GTGGTTTTAA
* ** * *
56934606 TCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTTTTTCTG
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGG-TTTCTTC-G
* * *
56934651 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTG-AT-GT-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCG
56934690 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT-CG
*
56934735 TCTGCTCCACTACTGCTTAGGGGGATAAGATCTGGTTTCTTCCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT-CG
* * * * *
56934779 TCTGCTCTACTACTGCTTAAGGAGATAAGA-CTTG-AT-GT-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCG
* * * *
56934818 ATCTACTCCACTACTGTTTAGGGAGATAAGATTTAGTTTCTTTCG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTC-TTCG
**
56934863 TCTGCTCCACTGTTGCTTAGGGAGATAAGA-CTGGTTTCTTTCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTC-TTCG
* * *
56934906 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTG-AT-GT-G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCG
*
56934945 ATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
56934984 TAATCCTTTT
Statistics
Matches: 278, Mismatches: 39, Indels: 35
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.01
40 86 0.31
41 10 0.04
42 6 0.02
43 46 0.17
44 110 0.40
45 17 0.06
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (43 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCG
Found at i:56934803 original size:128 final size:128
Alignment explanation
Indices: 56934606--56934983 Score: 571
Period size: 128 Copynumber: 3.0 Consensus size: 128
56934596 GTGGTTTTAA
** * * *
56934606 TCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTTTTTCTGTCTGCTCCACTACTGCTTA
1 TCTGCTCCACTGCTGCTT-AGGGAGATAAGATCTGG-TTTCTTCCGTCTGCTCCACTACTGCTTA
56934670 GGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCG
64 GGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCG
* * * *
56934735 TCTGCTCCACTACTGCTTAGGGGGATAAGATCTGGTTTCTTCCGTCTGCTCTACTACTGCTTAAG
1 TCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAGG
* * * * *
56934800 GAGATAAGACTTGATGTGATCTACTCCACTACTGTTTAGGGAGATAAGATTTAGTTTCTTTCG
66 GAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCG
* *
56934863 TCTGCTCCACTGTTGCTTAGGGAGATAAGA-CTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
1 TCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAGG
*
56934927 GAGATAAGACTTGATGTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
66 GAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTT
56934984 TAATCCTTTT
Statistics
Matches: 223, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
127 83 0.37
128 122 0.55
129 18 0.08
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (128 bp):
TCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGGTTTCTTCCGTCTGCTCCACTACTGCTTAGG
GAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTCCG
Found at i:56935308 original size:44 final size:43
Alignment explanation
Indices: 56935232--56935316 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
56935222 TTACTTTGCC
*
56935232 ACCAATATGAGAAGACAAGATCTGCATCTTCGATCCACTTCCT
1 ACCAATATGAGAAGACAAGACCTGCATCTTCGATCCACTTCCT
* *
56935275 ACCAATAT-AGGAAGACAAGACCTGCTATTTTCGATCTACTTC
1 ACCAATATGA-GAAGACAAGACCTGC-ATCTTCGATCCACTTC
56935317 ACGCTAATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 1 0.03
43 22 0.59
44 14 0.38
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ACCAATATGAGAAGACAAGACCTGCATCTTCGATCCACTTCCT
Found at i:56935333 original size:44 final size:43
Alignment explanation
Indices: 56935242--56935387 Score: 154
Period size: 44 Copynumber: 3.3 Consensus size: 43
56935232 ACCAATATGA
* * * *
56935242 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTAC-CAATATAG
1 GAAGACAAGATCTGCTATTTTCGATCTACTT-C-ACGCAATACAT
*
56935285 GAAGACAAGACCTGCTATTTTCGATCTACTTCACGCTAATACAT
1 GAAGACAAGATCTGCTATTTTCGATCTACTTCACGC-AATACAT
* *
56935329 GAAGACAAAATCTGCT-TTCTTCGATCTACTTCACGCCGATACAT
1 GAAGACAAGATCTGCTATT-TTCGATCTACTTCACG-CAATACAT
*
56935373 GAAGACAATATCTGC
1 GAAGACAAGATCTGC
56935388 ATCTTTTATG
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
42 2 0.02
43 18 0.20
44 68 0.76
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
GAAGACAAGATCTGCTATTTTCGATCTACTTCACGCAATACAT
Found at i:56946982 original size:24 final size:24
Alignment explanation
Indices: 56946937--56946984 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
56946927 ACGAAGTAAT
* * *
56946937 GTATAGAACAATTTGGAGTAAATA
1 GTATAAAACAATTTGAACTAAATA
*
56946961 GTATAAAACAATTTTAACTAAATA
1 GTATAAAACAATTTGAACTAAATA
56946985 ATACATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (24 bp):
GTATAAAACAATTTGAACTAAATA
Found at i:56958449 original size:26 final size:26
Alignment explanation
Indices: 56958420--56958475 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
56958410 GTCCTCTCTG
56958420 TCCCTTGAAACTCTTCCTGCAACTTA
1 TCCCTTGAAACTCTTCCTGCAACTTA
56958446 TCCCTTGAAACTCTTCCTGCAACTTA
1 TCCCTTGAAACTCTTCCTGCAACTTA
56958472 TCCC
1 TCCC
56958476 AGGCCTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.34
Consensus pattern (26 bp):
TCCCTTGAAACTCTTCCTGCAACTTA
Found at i:56960898 original size:15 final size:15
Alignment explanation
Indices: 56960876--56960914 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
56960866 TAAAAATATT
56960876 AAAAAAAAACA-AAA
1 AAAAAAAAACAGAAA
56960890 AACAAAAAAACAGAAA
1 AA-AAAAAAACAGAAA
*
56960906 GAAAAAAAA
1 AAAAAAAAA
56960915 GCCTGCGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 16 0.73
16 4 0.18
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAGAAA
Found at i:56963514 original size:22 final size:24
Alignment explanation
Indices: 56963489--56963543 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
56963479 CGAAAATATA
56963489 TTAAATATAT-ATA-TTTTTATTT
1 TTAAATATATAATAGTTTTTATTT
56963511 TTAAA-ATATAATAGTTTTTTATTT
1 TTAAATATATAATAG-TTTTTATTT
56963535 TT-AATATAT
1 TTAAATATAT
56963544 TTGTAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.14
22 8 0.28
23 2 0.07
24 15 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTAAATATATAATAGTTTTTATTT
Found at i:56966717 original size:326 final size:324
Alignment explanation
Indices: 56965890--56966991 Score: 1591
Period size: 322 Copynumber: 3.4 Consensus size: 324
56965880 CAAGTTGAAA
* * *
56965890 AAAAAAGTTACTAA--AACACTCTTTACTTCGGCCATTTCTTCGTATTTTTTTCTCGGCATTTTA
1 AAAAAAGTTAGTAAGGATCACTC-TTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTA
*
56965953 TTACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCTTTATGTTA
65 TTACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTA
*** * *
56966018 TTTCTTTATTAATTTAGTGT-TTTTTTTAAGTAATTTAGTGTAAAAAAAACCCAACCCTTATTCC
130 TAAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAA-CCAACCCTTATTCC
* * *
56966082 TGCCCTTTGCTCGTATTATTTTTCTGAATTTTATTACTTCCAAAAAAA-ATATTATTTTCGTATT
194 TGCCATTTGCTTGTATTATTTTCCTGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATT
*
56966146 TTATTATTTTATATTATTTCAGTTCATTTTGCTAGAAATATTTGTATTAATTATTTCTGAATTTT
259 TTATTATTTTATATTATTTCAGTACATTTTGCTAGAAATATTTGTATTAATTATTTCTGAATTTT
56966211 T
324 T
* *
56966212 AAAAAAGTTAGTAAGCGTTCGCTC-TACTTCGGCCATTT-TTCGTATTTTTTTCTCGGCATTTTA
1 AAAAAAGTTAGTAAG-GATCACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTA
* *
56966275 TTACTTTAAAAAAATATCATAATTTTTAATTTTATAATTTTACATTATTTCAGTGCATTTTGTTA
65 TTACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTA
***
56966340 TTTCTTTATTAATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAAAACCTAACCCTTATT
130 TAAATTTATTAATTTAGTGTG-TTTTTTAAATTAATTTAGTGT-AAAAAAAACC-AACCCTTATT
* *
56966405 CCTGCCATTTGCTTGTATTATTTTCCTGAATTTGATTACTTCCAAAAAAATATATTATTTTTGTA
192 CCTGCCATTTGCTTGTATTATTTTCCTGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTA
*
56966470 TTATATTATTTTATATTATTTCAGTACATTTTGCTAGAAATATTTGTATTAATTATTTCTGAATT
257 TTTTATTATTTTATATTATTTCAGTACATTTTGCTAGAAATATTTGTATTAATTATTTCTGAATT
56966535 TTT
322 TTT
* * *
56966538 AAAAAAGTTAGTAAGTGATCACTCTTTACTTTGGCCATTTGTTCATATTTTTTTCTCGTCATTTT
1 AAAAAAGTTAGTAAG-GATCACTC-TTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTT
* * * *
56966603 ATTACTTTTAGAAAATATCATAATTTCTAATTTTCTAATTTTATATTATTTCAGTGCATTATGTT
64 ATTACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTT
* *
56966668 -TGAAATTTATTAATTTAGTGTGCTTTTTAAATTAATTTAGTGT---AAAAA--AACCCTTATTT
129 AT-AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCAACCCTTATTC
*
56966727 CTGCCA-----TTGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTA
193 CTGCCATTTGCTTGTATTATTTTCCTGAATTTTATTACTTCCAA-AAAAATATATTATTTTCGTA
*
56966787 TTTTATTATTTTATATTATTTCAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATT
257 TTTTATTATTTTATATTATTTCAGTACATTTTGCTAGAAATATTTGTATTAATTATTTCTGAATT
56966852 TTT
322 TTT
* * * **
56966855 AAAAAATTTAGTAA--AACACTCTTACTTCGGCCATTTGTTCGT-TTTTTTCCTCCACATTTTAT
1 AAAAAAGTTAGTAAGGATCACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTAT
*
56966917 TACTTT-AAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTT-T
66 TACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTAT
56966980 GAAATTTATTAA
131 -AAATTTATTAA
56966992 ATATACCATT
Statistics
Matches: 718, Mismatches: 49, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
311 65 0.09
312 23 0.03
313 19 0.03
314 6 0.01
316 31 0.04
317 98 0.14
321 16 0.02
322 120 0.17
323 14 0.02
324 26 0.04
325 68 0.09
326 100 0.14
328 34 0.05
329 98 0.14
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (324 bp):
AAAAAAGTTAGTAAGGATCACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTAT
TACTTTAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTAT
AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCAACCCTTATTCCTG
CCATTTGCTTGTATTATTTTCCTGAATTTTATTACTTCCAAAAAAATATATTATTTTCGTATTTT
ATTATTTTATATTATTTCAGTACATTTTGCTAGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:56967325 original size:41 final size:40
Alignment explanation
Indices: 56967273--56967365 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
56967263 AAACAGGCTT
* *
56967273 TTAGCGACGCTTGGACAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTGGA-AAAAAACGACACTAAAAATCAAGCA
** * * ** *
56967314 TTAGCGGCGCTTTTATAAAAACGACGCTAAAGGTCGAGCA
1 TTAGCGGCGCTTGGAAAAAAACGACACTAAAAATCAAGCA
56967354 TTAGCGGCGCTT
1 TTAGCGGCGCTT
56967366 TTGAAAAAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 31 0.72
41 12 0.28
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTGGAAAAAAACGACACTAAAAATCAAGCA
Done.