Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 3 of 185
Found at i:648931 original size:125 final size:124
Alignment explanation
Indices: 648568--648934 Score: 502
Period size: 125 Copynumber: 2.9 Consensus size: 124
648558 CGCAAACATG
* *
648568 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGGTTTCACAAATTCTTCTCAAATAGCATCCTGT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
648633 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGAGATTTTATATTATTTTCTCAGAAAAGTCAAAAAAAATTATTTCTTACATGAC
* * * * *
648692 CTACTGTAGCAAAAGCACG-CTGACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTA
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * * *
648756 CTAGAAGAGATTTTATACTATTTTCTCAGAAATGACAAAAAAAAAATATTTCTTTCGTGAC
65 CTAGAAGAGATTTTATATTATTTTCTCAGAAAAGTC-AAAAAAAATTATTTCTTACATGAC
* *
648817 CTACTGTATCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * **
648882 TAGAAGTGATTTTATATTATTTTATCAGAAAAGTCAACTCAAAATTATTTCTT
66 TAGAAGAGATTTTATATTATTTTCTCAGAAAAGTCAA-AAAAAATTATTTCTT
648935 CCAGGACTTA
Statistics
Matches: 209, Mismatches: 30, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
123 1 0.00
124 88 0.42
125 119 0.57
126 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGAGATTTTATATTATTTTCTCAGAAAAGTCAAAAAAAATTATTTCTTACATGAC
Found at i:651366 original size:42 final size:42
Alignment explanation
Indices: 651294--651494 Score: 199
Period size: 42 Copynumber: 4.5 Consensus size: 42
651284 ATAAAAAGTT
651294 TTGA-GGTCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
1 TTGATGGTCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
* * * * *
651335 TTGATTGTCCTTTCTTGAAGGGATTTCTGGTTTTAAGGGAAT
1 TTGATGGTCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
651377 TTGATAAAAAGTTTTGAGATCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
1 TTG------A----TG-G-TCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
*
651431 TTTATGGTCCTTTCTTGAAGAGCTTTT-TGGTTTTAAGGGAAA
1 TTGATGGTCCTTTCTTGAAGAG-TTTTGTGGTTTTAAGGGAAA
* *
651473 TAGATGGTGCTTTCTTGAAGAG
1 TTGATGGTCCTTTCTTGAAGAG
651495 CTCTTCTGTT
Statistics
Matches: 132, Mismatches: 14, Indels: 27
0.76 0.08 0.16
Matches are distributed among these distances:
41 4 0.03
42 84 0.64
43 5 0.04
44 2 0.02
48 2 0.02
52 1 0.01
53 1 0.01
54 33 0.25
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.42
Consensus pattern (42 bp):
TTGATGGTCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAA
Found at i:651401 original size:96 final size:96
Alignment explanation
Indices: 651171--651473 Score: 438
Period size: 96 Copynumber: 3.2 Consensus size: 96
651161 TCAAGAAGGG
* *
651171 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCATTTCTTGAAGAGTGTTT-TAGTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGT-TTTGTGGTTT
* *
651235 TAATGGAAATTGATGGTAC--TC---AAGAGC
65 TAAGGGAAATTGATGGTCCTTTCTTGAAGAGC
* *
651262 TTTTTGGTTTCAAGGAAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
* * *
651327 AAGGGAAATTGATTGTCCTTTCTTGAAGGGA
66 AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
* * *
651358 TTTCTGGTTTTAAGGGAATTTGATAAAAAGTTTTGAGATCCTTTCTTGAAGAGTTTTGTGGTTTT
1 TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
*
651423 AAGGGAAATTTATGGTCCTTTCTTGAAGAGC
66 AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
651454 TTTTTGGTTTTAAGGGAAAT
1 TTTTTGGTTTTAAGGGAAAT
651474 AGATGGTGCT
Statistics
Matches: 186, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
90 3 0.02
91 72 0.39
93 2 0.01
96 109 0.59
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (96 bp):
TTTTTGGTTTTAAGGGAAATTGATAAAAAGTTTTGAGGTCCTTTCTTGAAGAGTTTTGTGGTTTT
AAGGGAAATTGATGGTCCTTTCTTGAAGAGC
Found at i:651506 original size:42 final size:42
Alignment explanation
Indices: 651396--651506 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
651386 AGTTTTGAGA
* * **
651396 TCCTTTCTTGAAGAGTTTTGTGGTTTTAAGGGAAATTTATGG
1 TCCTTTCTTGAAGAGCTTTCTGGTTTTAAGGGAAATAGATGG
*
651438 TCCTTTCTTGAAGAGCTTTTTGGTTTTAAGGGAAATAGATGG
1 TCCTTTCTTGAAGAGCTTTCTGGTTTTAAGGGAAATAGATGG
*
651480 TGCTTTCTTGAAGAGCTCTTCT-GTTTT
1 TCCTTTCTTGAAGAGCT-TTCTGGTTTT
651507 CTCATACTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 59 0.95
43 3 0.05
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.45
Consensus pattern (42 bp):
TCCTTTCTTGAAGAGCTTTCTGGTTTTAAGGGAAATAGATGG
Found at i:653474 original size:24 final size:24
Alignment explanation
Indices: 653446--653540 Score: 138
Period size: 24 Copynumber: 4.0 Consensus size: 24
653436 TCTTTCTAGA
* *
653446 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGCATTTATTAGCATAAT
653470 ATATTTAGCATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGCATAAT
*
653494 ATATTTAACATTTATTAGCATAAT
1 ATATTTAGCATTTATTAGCATAAT
*
653518 ATATTT-GACATTTATTAGTATAA
1 ATATTTAG-CATTTATTAGCATAA
653541 AAATCTTTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (24 bp):
ATATTTAGCATTTATTAGCATAAT
Found at i:655167 original size:25 final size:25
Alignment explanation
Indices: 655126--655182 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
655116 ACAATCCATG
** * *
655126 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
655151 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
655176 TATATCA
1 TAAATCA
655183 ATTTTTTTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:655451 original size:23 final size:23
Alignment explanation
Indices: 655429--655520 Score: 121
Period size: 23 Copynumber: 3.9 Consensus size: 23
655419 AAGCCATGAT
*
655429 CGGTAAGCTCATTTCGAGCTGATAAA
1 CGGTAAGCTC-TATCGAGCTG--AAA
655455 CGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
*
655478 CGGTAAGCTCTATAGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
* *
655501 CGGTAAGCTCTTTCAAGCTG
1 CGGTAAGCTCTATCGAGCTG
655521 TAGTGAGTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
23 42 0.69
25 9 0.15
26 10 0.16
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAGCTGAAA
Found at i:663222 original size:13 final size:13
Alignment explanation
Indices: 663204--663231 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
663194 ATAAAATTAG
663204 AAAGATGAAAAAT
1 AAAGATGAAAAAT
663217 AAAGATGAAAAAT
1 AAAGATGAAAAAT
663230 AA
1 AA
663232 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:663792 original size:21 final size:20
Alignment explanation
Indices: 663768--663807 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
663758 AATTGGATTG
663768 AATTGAATATGAAATTTATTA
1 AATTG-ATATGAAATTTATTA
* *
663789 AATTGATGTTAAATTTATT
1 AATTGATATGAAATTTATT
663808 TATATAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (20 bp):
AATTGATATGAAATTTATTA
Found at i:664383 original size:25 final size:25
Alignment explanation
Indices: 664355--664417 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
664345 AGCTCTTACG
664355 AGCTTCCTGTTATTAAGCCCGA-ATA
1 AGCTTCCTGTTATTAAGCCC-ACATA
* * *
664380 AGCTTCTTGTTA-CAAGCTCACATA
1 AGCTTCCTGTTATTAAGCCCACATA
*
664404 AGCTTTCTGTTATT
1 AGCTTCCTGTTATT
664418 TGGCTTGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.60
25 11 0.37
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (25 bp):
AGCTTCCTGTTATTAAGCCCACATA
Found at i:666350 original size:70 final size:70
Alignment explanation
Indices: 666274--666418 Score: 202
Period size: 70 Copynumber: 2.1 Consensus size: 70
666264 ATTATAGTAA
* **
666274 AATTATCTTT-ACCCGTGGTTTTTTATCCTCTTTGGAGGGGCTTTTCCATGTTAAATTTGTATGT
1 AATTATCTTTGA-CCGTGGTTTTTTATCCTCTTTGGAGAGGCTTTTCCACATTAAATTTGTATGT
666338 TCAATT
65 TCAATT
* * *
666344 AATTATCTTTGACTGTGGTTTTTTATCCTCTTTGGAGAGGTTTTTCCCCATTAAATTTGTATGTT
1 AATTATCTTTGACCGTGGTTTTTTATCCTCTTTGGAGAGGCTTTTCCACATTAAATTTGTATGTT
*
666409 TAATT
66 CAATT
*
666414 TATTA
1 AATTA
666419 AGTTTTTCTG
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
70 65 0.98
71 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (70 bp):
AATTATCTTTGACCGTGGTTTTTTATCCTCTTTGGAGAGGCTTTTCCACATTAAATTTGTATGTT
CAATT
Found at i:670714 original size:19 final size:17
Alignment explanation
Indices: 670692--670727 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
670682 TTCATATTTC
670692 TTCTTTTCTTTTCTTTTTG
1 TTCTTTT-TTTT-TTTTTG
670711 TTCTTTTTTTTTTTTTG
1 TTCTTTTTTTTTTTTTG
670728 CACAACATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (17 bp):
TTCTTTTTTTTTTTTTG
Found at i:674883 original size:16 final size:16
Alignment explanation
Indices: 674861--674899 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
674851 AAAATTATTT
674861 TAATTTTTTATTTTTAG
1 TAATTTTTTATTTTT-G
674878 -AA-TTTTTATTTTTG
1 TAATTTTTTATTTTTG
674892 TAATTTTT
1 TAATTTTT
674900 GTTCAGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.05
15 13 0.65
16 6 0.30
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TAATTTTTTATTTTTG
Found at i:675072 original size:14 final size:14
Alignment explanation
Indices: 675053--675082 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
675043 TAACTCGAAT
675053 AATTTGAATAACTC
1 AATTTGAATAACTC
*
675067 AATTTGATTAACTC
1 AATTTGAATAACTC
675081 AA
1 AA
675083 AATTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
AATTTGAATAACTC
Found at i:681805 original size:34 final size:34
Alignment explanation
Indices: 681762--681830 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
681752 TGCATGTAAG
*
681762 TCCATTCTAAACCCATTTTTAGTAATTTTTATGT
1 TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
* ***
681796 TCCATTCTAAGCTTGTTTTTAGTAATTTTCATGT
1 TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
681830 T
1 T
681831 TTTGAGATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (34 bp):
TCCATTCTAAACCCATTTTTAGTAATTTTCATGT
Found at i:686625 original size:25 final size:25
Alignment explanation
Indices: 686597--686655 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
686587 ACTCCCAACG
686597 CCGCGTGCTCTGTCAGGCACCTCCT
1 CCGCGTGCTCTGTCAGGCACCTCCT
686622 CCGCGTGCTCTGTCAGGCACCTCCT
1 CCGCGTGCTCTGTCAGGCACCTCCT
*
686647 -CGCATGCTC
1 CCGCGTGCTC
686656 GCCGCCACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 8 0.24
25 25 0.76
ACGTcount: A:0.08, C:0.44, G:0.24, T:0.24
Consensus pattern (25 bp):
CCGCGTGCTCTGTCAGGCACCTCCT
Found at i:687760 original size:17 final size:17
Alignment explanation
Indices: 687738--687794 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
687728 TTTAAAGATG
*
687738 TTTTATACTAAATTTAT
1 TTTTATACTATATTTAT
*
687755 TTTTATTCT-TATTT-T
1 TTTTATACTATATTTAT
687770 TTTTATA-TATATATTAT
1 TTTTATACTATAT-TTAT
687787 TTCTTATA
1 TT-TTATA
687795 AACTTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 1 0.03
15 10 0.30
16 6 0.18
17 11 0.33
18 5 0.15
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATACTATATTTAT
Found at i:687871 original size:16 final size:19
Alignment explanation
Indices: 687852--687887 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
687842 ATTTTTAAAG
687852 TGTTTT-ATT-TT-TTTTT
1 TGTTTTCATTGTTATTTTT
687868 TGTTTTCATTGTTATTTTT
1 TGTTTTCATTGTTATTTTT
687887 T
1 T
687888 ATATATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 2 0.12
19 6 0.35
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.81
Consensus pattern (19 bp):
TGTTTTCATTGTTATTTTT
Found at i:690747 original size:3 final size:3
Alignment explanation
Indices: 690739--690771 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
690729 AAAATAATCC
690739 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
690772 CCTTCCCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:712780 original size:19 final size:18
Alignment explanation
Indices: 712752--712787 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
712742 ACCTTGTCAC
712752 CTTGCTTTCTCACACTTT
1 CTTGCTTTCTCACACTTT
*
712770 CTTGACTTTCTCTCACTT
1 CTTG-CTTTCTCACACTT
712788 CCAACTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.33, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTGCTTTCTCACACTTT
Found at i:729955 original size:2 final size:2
Alignment explanation
Indices: 729948--729980 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
729938 AAAACAAACA
729948 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
729981 GTTAGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:738453 original size:21 final size:21
Alignment explanation
Indices: 738427--738502 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
738417 AATCATATCT
738427 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
738448 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
738469 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
738488 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
738503 CCTTAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:738462 original size:19 final size:19
Alignment explanation
Indices: 738440--738503 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
738430 AAGATTGTAT
738440 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
738459 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
738480 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
738499 ATATC
1 ATATC
738504 CTTAAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:740462 original size:6 final size:6
Alignment explanation
Indices: 740451--740485 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
740441 ATATATTTTA
740451 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTC
740486 AAAGTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTCT
Found at i:745221 original size:287 final size:287
Alignment explanation
Indices: 744703--745278 Score: 922
Period size: 287 Copynumber: 2.0 Consensus size: 287
744693 ATCGTGGTCT
* *
744703 TCATCGACGATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAATAACTAAGAGTAGTG
1 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * *
744768 CTTCAGATACTCCAAGAGAAGCAGCTCTATGCTAAGTTGAGCAAGTGTGAGTTCTGATTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAGCTCTACGCTAAGTTGAGCAAGTGTGAGCTATGATTGCGTGA
* *
744833 GGTAACTTTTCTGGGTCATGTGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
131 CGTAACTTTTCTGGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
** * **
744898 TTGCGTTTGATTGGAAGTAACCTAAGAATATATCTGAGATTCGTAGTTTTCTGGGTCTTGCGGGG
196 TTGCACTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCACAGTTTTCTGGGTCTTGCGGGG
744963 TATTATCGGTGTTTTGTTGAGGGGTTC
261 TATTATCGGTGTTTTGTTGAGGGGTTC
744990 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
1 TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * * *
745055 CTTCAGATACTCCGAGGGAAGCAGCTCTACGTTAAGTTGAGCAAGTGTGAGCTATGGTTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAGCTCTACGCTAAGTTGAGCAAGTGTGAGCTATGATTGCGTGA
* * * **
745120 CGTAACTTTTCTGGGTCATATGTTTTCTGCTGAGGGGATTCGAGTTGATCTGAAGAAGATTG-AG
131 CGTAACTTTTCTGGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
*
745184 ATTGCACTTGATTGGAAGCAGA-CTAAGAATGTATCTGAGATTCACAGTTTTCTGGGTCTTGCGG
196 -TTGCACTTGATTGGAAGCA-ACCTAAGAATATATCTGAGATTCACAGTTTTCTGGGTCTTGCGG
745248 GGTATTATCGGTGTTTTGTTGAGGGGTTC
259 GGTATTATCGGTGTTTTGTTGAGGGGTTC
745277 TC
1 TC
745279 TTTGATTGCA
Statistics
Matches: 265, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
286 2 0.01
287 262 0.99
288 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (287 bp):
TCATCGACAATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
CTTCAGATACTCCAAGAGAAGCAGCTCTACGCTAAGTTGAGCAAGTGTGAGCTATGATTGCGTGA
CGTAACTTTTCTGGGTCATATGGTTTCTACTGAGGGGATTCAAGTTGATCCAAAGAAGATTGAAG
TTGCACTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCACAGTTTTCTGGGTCTTGCGGGG
TATTATCGGTGTTTTGTTGAGGGGTTC
Found at i:748936 original size:26 final size:24
Alignment explanation
Indices: 748901--748949 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
748891 TTTTATGAAC
* *
748901 TTTTTATATTCTTTTTATTTTTTAT
1 TTTTTATATT-TTTATAATTTTTAT
748926 TTTTGTATATTTTTATAATTTTTA
1 TTTT-TATATTTTTATAATTTTTA
748950 AATTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTATATTTTTATAATTTTTAT
Found at i:749584 original size:31 final size:29
Alignment explanation
Indices: 749522--749585 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
749512 AAATCAAATT
*
749522 TTCATGTATAAAATTGCACAAAATTAAAG
1 TTCATGTATAAAATTGCACAAAACTAAAG
* *
749551 TTCATGTATAACATTGCACATTGAACTAAAG
1 TTCATGTATAAAATTGCACA--AAACTAAAG
749582 TTCA
1 TTCA
749586 GTTATAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 19 0.63
31 11 0.37
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTGCACAAAACTAAAG
Found at i:750213 original size:83 final size:82
Alignment explanation
Indices: 750059--750214 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 82
750049 TTGAACTTAC
*
750059 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATCATTTTAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATAT-ATTTAAA
*
750124 GAAAAAAAAGTCAACTTT
65 AAAAAAAAAGTCAACTTT
* * * * *
750142 ATCAATATTACTAATAAACGAATTATTTCTATTAT-TTTTAAGTAGAAATCGAATAT-TTTCCAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATATTT-AAA
*
750205 AAATAAAAAG
65 AAAAAAAAAG
750215 CTTCACGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.05
81 10 0.15
82 20 0.31
83 32 0.49
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (82 bp):
ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATAGAATATATTTAAAA
AAAAAAAAGTCAACTTT
Found at i:750651 original size:18 final size:18
Alignment explanation
Indices: 750620--750658 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
750610 TTTAGAATTT
* * *
750620 TTTTTGAAATTTTTAGAA
1 TTTTTAAAAATTTTAAAA
750638 TTTTTAAAAATTTTAAAA
1 TTTTTAAAAATTTTAAAA
750656 TTT
1 TTT
750659 GAAATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TTTTTAAAAATTTTAAAA
Found at i:750672 original size:27 final size:26
Alignment explanation
Indices: 750638--750692 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
750628 ATTTTTAGAA
750638 TTTTTAAAAATTTTAAAATTTGAAAT
1 TTTTTAAAAATTTTAAAATTTGAAAT
* * *
750664 TTTTATAAATATTTTGAATTTTGAAAT
1 TTTT-TAAAAATTTTAAAATTTGAAAT
750691 TT
1 TT
750693 ATTTTGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (26 bp):
TTTTTAAAAATTTTAAAATTTGAAAT
Found at i:755946 original size:21 final size:21
Alignment explanation
Indices: 755922--755964 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
755912 GGGGGAAAGT
*
755922 GGGAAGAAGT-AAAAGTTTTGA
1 GGGAA-AAGTAAAAAGGTTTGA
755943 GGGAAAAGTAAAAAGGTTTGA
1 GGGAAAAGTAAAAAGGTTTGA
755964 G
1 G
755965 AGTTTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (21 bp):
GGGAAAAGTAAAAAGGTTTGA
Found at i:756014 original size:9 final size:9
Alignment explanation
Indices: 756000--756036 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
755990 TATAGTTTGA
756000 TATTCGAAT
1 TATTCGAAT
756009 TATTCGAAT
1 TATTCGAAT
*
756018 TATTCGAGT
1 TATTCGAAT
756027 TATTCGAAT
1 TATTCGAAT
756036 T
1 T
756037 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:762788 original size:21 final size:21
Alignment explanation
Indices: 762764--762809 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
762754 GTTTAACTTA
* *
762764 TATGAG-TCTCCGTTCAGCTCT
1 TATGAGCT-TCCGTTCAACCCT
762785 TATGAGCTTCCGTTCAACCCT
1 TATGAGCTTCCGTTCAACCCT
762806 TATG
1 TATG
762810 GGTTTCTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.37
Consensus pattern (21 bp):
TATGAGCTTCCGTTCAACCCT
Found at i:784834 original size:21 final size:23
Alignment explanation
Indices: 784808--784850 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
784798 AAAAACACAC
*
784808 AAAACCCTTAA-TTTG-GTTCTG
1 AAAACCATTAACTTTGTGTTCTG
784829 AAAACCATTAACTTTGTGTTCT
1 AAAACCATTAACTTTGTGTTCT
784851 AAATCTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (23 bp):
AAAACCATTAACTTTGTGTTCTG
Found at i:786265 original size:27 final size:26
Alignment explanation
Indices: 786186--786270 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 26
786176 ATCTATTTTC
*
786186 CTTATTT-TCTTTTTTATTGTTTTAAT
1 CTTATTTATCTATTTTATTGTTTT-AT
* *
786212 CTTTGATTTAT-TATTCTATTTTATTTAT
1 C-TT-ATTTATCTATTTTATTGT-TTTAT
786240 CTTATTTATCTATTTTAATTGTTTTAT
1 CTTATTTATCTATTTT-ATTGTTTTAT
786267 CTTA
1 CTTA
786271 CTTGGATTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 7 0.15
27 18 0.38
28 19 0.40
29 4 0.08
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (26 bp):
CTTATTTATCTATTTTATTGTTTTAT
Found at i:786266 original size:22 final size:23
Alignment explanation
Indices: 786218--786266 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
786208 TAATCTTTGA
*
786218 TTTA-TTATTCTATTTTATTTAT
1 TTTATTTATTCTATTTTAATTAT
* *
786240 CTTATTTA-TCTATTTTAATTGT
1 TTTATTTATTCTATTTTAATTAT
786262 TTTAT
1 TTTAT
786267 CTTACTTGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTATTTATTCTATTTTAATTAT
Found at i:786855 original size:17 final size:18
Alignment explanation
Indices: 786825--786858 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
786815 TAGCCTTAGG
*
786825 TTTTTATTATTTCTTTTC
1 TTTTTATTAGTTCTTTTC
786843 TTTTTATT-GTTCTTTT
1 TTTTTATTAGTTCTTTT
786859 ATGCATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTTATTAGTTCTTTTC
Found at i:793926 original size:2 final size:2
Alignment explanation
Indices: 793919--793948 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
793909 TTGCATCTAC
*
793919 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
793949 AAAGCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:794435 original size:17 final size:17
Alignment explanation
Indices: 794395--794436 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
794385 CCCTATATAC
*
794395 AATTATATTGTTATAAT
1 AATTATATTTTTATAAT
*
794412 -A-TATATTTTTATATT
1 AATTATATTTTTATAAT
794427 AATTATATTT
1 AATTATATTT
794437 AAGCTTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTATATTTTTATAAT
Found at i:794600 original size:32 final size:32
Alignment explanation
Indices: 794558--794618 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
794548 TTTTTTGAAA
794558 AATAATTATAACTATTTAAAT-AAT-ATTATTTG
1 AATAATTATAA-TA-TTAAATGAATAATTATTTG
*
794590 AATAGTTATAATATTAAATGAATAATTAT
1 AATAATTATAATATTAAATGAATAATTAT
794619 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (32 bp):
AATAATTATAATATTAAATGAATAATTATTTG
Found at i:794611 original size:20 final size:20
Alignment explanation
Indices: 794577--794618 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
794567 AACTATTTAA
** *
794577 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
794597 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
794617 AT
1 AT
794619 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:796208 original size:15 final size:15
Alignment explanation
Indices: 796188--796220 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
796178 ATGTACCAAA
796188 AGTTAGAAAGAATTT
1 AGTTAGAAAGAATTT
796203 AGTTAGAAAGAATTT
1 AGTTAGAAAGAATTT
796218 AGT
1 AGT
796221 GTCTGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (15 bp):
AGTTAGAAAGAATTT
Found at i:796327 original size:52 final size:52
Alignment explanation
Indices: 796259--796362 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
796249 TTCAAACTTG
* * *
796259 TTTTTGAAGCAGATAAGTTTGTTTTGTCTAAGGGAGGAATTTTTGTAGGGAA
1 TTTTTGAAGCAAATAAGTTTATTTTGTCTAAGGGAGAAATTTTTGTAGGGAA
* *
796311 TTTTTGAGGCAAATAAGTTTATTTTGTCTAAGGGAGAAATTTTTGTGGGGAA
1 TTTTTGAAGCAAATAAGTTTATTTTGTCTAAGGGAGAAATTTTTGTAGGGAA
796363 AGGGTATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.40
Consensus pattern (52 bp):
TTTTTGAAGCAAATAAGTTTATTTTGTCTAAGGGAGAAATTTTTGTAGGGAA
Found at i:796679 original size:42 final size:42
Alignment explanation
Indices: 796620--796703 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
796610 AATTGTTTGA
*
796620 TTTGATACATAGTGATTTTTGTGACATGCATAATACTCCTAC
1 TTTGATACATAGTGATTTATGTGACATGCATAATACTCCTAC
796662 TTTGATACATAGTGATTTATGTGACATGCATAATACTCCTAC
1 TTTGATACATAGTGATTTATGTGACATGCATAATACTCCTAC
796704 ATTAGGTGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (42 bp):
TTTGATACATAGTGATTTATGTGACATGCATAATACTCCTAC
Found at i:796816 original size:15 final size:16
Alignment explanation
Indices: 796791--796824 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
796781 AAGATGAAGC
*
796791 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
796807 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
796822 GTT
1 GTT
796825 GAACTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:800635 original size:26 final size:26
Alignment explanation
Indices: 800570--800640 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
800560 AGTCATATCG
* *
800570 GGAAACTCTTG-AGAGCCATTAATCA
1 GGAAGCTCTTGAAGAGCCATTAAACA
*** *
800595 GGAAGCTCACAAAGAGCCTTTAAACA
1 GGAAGCTCTTGAAGAGCCATTAAACA
800621 GGAAGCTCTTGAAGAGCCAT
1 GGAAGCTCTTGAAGAGCCAT
800641 ATAACGATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
GGAAGCTCTTGAAGAGCCATTAAACA
Found at i:802858 original size:20 final size:20
Alignment explanation
Indices: 802824--802865 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
802814 AACTGTTTAA
** *
802824 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
802844 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
802864 AT
1 AT
802866 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:805789 original size:21 final size:21
Alignment explanation
Indices: 805765--805826 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
805755 ATAAGTGCTA
805765 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * *
805786 AACA-AAAGCTCATAAGAGCTG
1 AACAGAAA-CCCATAAGGGTTG
*
805807 AAC-GAAAACCCAAAAGGGTT
1 AACAG-AAACCCATAAGGGTT
805827 AAATTGAAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 3 0.10
21 25 0.81
22 3 0.10
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:805816 original size:42 final size:41
Alignment explanation
Indices: 805769--805923 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 41
805759 GTGCTAAACA
* **
805769 GAAACCCATAAGGGTTGAACAAAAGCTCATAAGAGCTGAAC-
1 GAAACCCATAAGGGTTAAACTGAAGCTCA-AAGAGCTGAACT
* * * *
805810 GAAAACCCAAAAGGGTTAAATTGAAGCTTAAAATAGCTGAACT
1 G-AAACCCATAAGGGTTAAACTGAAGC-TCAAAGAGCTGAACT
* *
805853 GAAACACATTAGGGTTAAACTGAAGCTCGAAAGAGCTGAACT
1 GAAACCCATAAGGGTTAAACTGAAGCTC-AAAGAGCTGAACT
* *
805895 GAAACCCATTAGGGTTAAACTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
805924 TATGAGTTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
41 3 0.03
42 89 0.94
43 3 0.03
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (41 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAGAGCTGAACT
Found at i:805873 original size:21 final size:21
Alignment explanation
Indices: 805849--805920 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
805839 AAAATAGCTG
805849 AACTGAAACACATTAGGGTTA
1 AACTGAAACACATTAGGGTTA
* * * * * *
805870 AACTGAAGCTCGA-AAGAGCTG
1 AACTGAAACAC-ATTAGGGTTA
*
805891 AACTGAAACCCATTAGGGTTA
1 AACTGAAACACATTAGGGTTA
805912 AACTGAAAC
1 AACTGAAAC
805921 TCATATGAGT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
20 1 0.03
21 35 0.95
22 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (21 bp):
AACTGAAACACATTAGGGTTA
Found at i:805932 original size:21 final size:21
Alignment explanation
Indices: 805891--805960 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
805881 GAAAGAGCTG
* *
805891 AACTGAAACCCAT-TAGGGTTA
1 AACTGAAACTCATAT-GAGTTA
805912 AACTGAAACTCATATGAGTT-
1 AACTGAAACTCATATGAGTTA
* * *
805932 AACTGAAGCTCATAAGAGCTA
1 AACTGAAACTCATATGAGTTA
*
805953 AATTGAAA
1 AACTGAAA
805961 GCAAACACGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 17 0.43
21 22 0.55
22 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTGAAACTCATATGAGTTA
Found at i:816103 original size:27 final size:26
Alignment explanation
Indices: 816068--816118 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
816058 CAGTTATTAT
*
816068 AAAATTATAAAAATACATATTTAAATA
1 AAAATTAT-AAAATACAAATTTAAATA
*
816095 AAAATTATAAATTACAAATTTAAA
1 AAAATTATAAAATACAAATTTAAA
816119 CATTAAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATTATAAAATACAAATTTAAATA
Found at i:821475 original size:3 final size:3
Alignment explanation
Indices: 821467--821501 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
821457 CCATTAACTT
*
821467 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
821502 GAATATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:821502 original size:12 final size:12
Alignment explanation
Indices: 821467--821506 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
821457 CCATTAACTT
*
821467 TAATAATAATAA
1 TAATAATAATAG
821479 TAATAATAATAG
1 TAATAATAATAG
821491 TAATAATAATAG
1 TAATAATAATAG
821503 -AATA
1 TAATA
821507 TAAATATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 4 0.15
12 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:823094 original size:22 final size:22
Alignment explanation
Indices: 823047--823096 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
823037 AATCCAAAAG
* *
823047 CATTTCTAAACATTCATTTAAC
1 CATTTCTAAACATCCATCTAAC
823069 CATTTCTAAACATCCATCCTAA-
1 CATTTCTAAACATCCAT-CTAAC
823091 CATTTC
1 CATTTC
823097 CACAATTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (22 bp):
CATTTCTAAACATCCATCTAAC
Found at i:823935 original size:20 final size:20
Alignment explanation
Indices: 823912--823953 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
823902 GTGGTGTTGT
*
823912 ACAAAGGCACCAAAGTGCAA
1 ACAAAGGAACCAAAGTGCAA
*
823932 ACAAAGGAACCGAAGTGCAA
1 ACAAAGGAACCAAAGTGCAA
823952 AC
1 AC
823954 CTATACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.05
Consensus pattern (20 bp):
ACAAAGGAACCAAAGTGCAA
Found at i:825294 original size:22 final size:23
Alignment explanation
Indices: 825242--825295 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
825232 GCATAATTTA
*
825242 TAATTAAATTAACCTAAATATGAT
1 TAATT-AATTAACCTAAAAATGAT
825266 TAA-TAATTAA-CTAAAAAT-ACT
1 TAATTAATTAACCTAAAAATGA-T
825287 TAATTAATT
1 TAATTAATT
825296 TAATTAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 11 0.41
23 1 0.04
24 3 0.11
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATTAATTAACCTAAAAATGAT
Found at i:826387 original size:43 final size:42
Alignment explanation
Indices: 826290--826390 Score: 103
Period size: 43 Copynumber: 2.4 Consensus size: 42
826280 TACACTTCAT
* * * * *
826290 TTTATCTGATGGTGCACTTATGTGCCAGTATATTTGCTTTGG
1 TTTATCCGATGATGCACTTATGTGCCAGTATATCTGCTTCGA
* * * * *
826332 CTTGTCCAATGATGCACTTTGTGTGCCATTATATCTGCTTCGA
1 TTTATCCGATGATGCAC-TTATGTGCCAGTATATCTGCTTCGA
826375 TTTATCCGATGATGCA
1 TTTATCCGATGATGCA
826391 ATGCGATGCT
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 12 0.27
43 33 0.73
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (42 bp):
TTTATCCGATGATGCACTTATGTGCCAGTATATCTGCTTCGA
Found at i:831954 original size:18 final size:17
Alignment explanation
Indices: 831929--831971 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
831919 AAGTGCTTTA
*
831929 ATTT-TTTTACTTGTTT
1 ATTTCTTTTACTTGTTG
*
831945 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTACTTGTTG
831963 ATTTCTTTT
1 ATTTCTTTT
831972 CATTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.22
18 14 0.61
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTCTTTTACTTGTTG
Found at i:832283 original size:109 final size:109
Alignment explanation
Indices: 832079--832608 Score: 807
Period size: 110 Copynumber: 4.9 Consensus size: 109
832069 ATCAAAAACG
* * *
832079 AAAAATTTTTCAAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
832144 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
832189 AAAAATTTTAAGATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
832254 GGTGTCGATTTTTCTCGTTCAACCAAATGGTTTAATATCCTTTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
832298 AAAATTTTTAAAATAAAGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
832363 GGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
832408 AAAAATTTTAAAATAAGGAAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
832473 GGTGTCGATTTTTTCTCATTCAACCAAATAGC-TATATAGCCTTTC
66 GGTGTCGA-TTTTTCTCGTTCAACCAAATGGCTTA-ATATCCTTTT
* * *
832518 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGTGAAATTCTAG-GAACATGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTG-GAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
832582 GGGTTTCGA--TTTCTCGTTTAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
832609 TGCCAAATAT
Statistics
Matches: 387, Mismatches: 29, Indels: 11
0.91 0.07 0.03
Matches are distributed among these distances:
107 16 0.04
109 168 0.43
110 194 0.50
111 9 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:832570 original size:219 final size:217
Alignment explanation
Indices: 832086--832608 Score: 822
Period size: 219 Copynumber: 2.4 Consensus size: 217
832076 ACGAAAAATT
*
832086 TTTC-AAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
* *
832150 CGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAGATAAGGTAATGTTT
66 CGA-TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTTT
*
832215 TGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAA
130 TGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAA
* * * * *
832280 ATGGTTTAATATCCTTTTAAAAT
195 ATGCTATAATAGCCTTTCAAAAA
* *
832303 TTTTAAAATAAAGCAATGTTTTGCGTTTGGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTG
832368 TCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTT
65 TCGATTT-TCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTT
832433 TTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTTCTCATTCAACC
129 TTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTTCTCATTCAACC
832498 AAATAGCTAT-ATAGCCTTTCAAAAA
193 AAAT-GCTATAATAGCCTTTCAAAAA
*
832523 TTTCAAAATAAGGCAATGTTTTGCGTTTGTGAAATTCT-AG-GAACATGCCCTAAGGTGCTGGGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTG-GAAATT-TGAGAAAACATGCCCTAAGGTGCTGGGT
* *
832586 TTCGA-TTTCTCGTTTAACCAAAT
64 GTCGATTTTCTCGTTCAACCAAAT
832609 TGCCAAATAT
Statistics
Matches: 283, Mismatches: 16, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
217 18 0.06
218 26 0.09
219 170 0.60
220 65 0.23
221 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (217 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGAAATGTTTT
GCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAA
TGCTATAATAGCCTTTCAAAAA
Found at i:835991 original size:7 final size:7
Alignment explanation
Indices: 835981--836052 Score: 67
Period size: 7 Copynumber: 9.9 Consensus size: 7
835971 AGAAAAATAA
835981 AAAAAAC
1 AAAAAAC
835988 AAAAAA-
1 AAAAAAC
*
835994 ATTAAAA-
1 A-AAAAAC
836001 AAAAAAC
1 AAAAAAC
836008 AAAAAAC
1 AAAAAAC
836015 AAAAAAAAC
1 --AAAAAAC
836024 AAAAAATC
1 AAAAAA-C
836032 AAAAAATC
1 AAAAAA-C
*
836040 AAAAAAT
1 AAAAAAC
836047 AAAAAA
1 AAAAAA
836053 AAATCAATGT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
6 5 0.09
7 30 0.53
8 15 0.26
9 7 0.12
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (7 bp):
AAAAAAC
Found at i:836000 original size:16 final size:16
Alignment explanation
Indices: 835981--836053 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 16
835971 AGAAAAATAA
835981 AAAAAACAAAAAAAT-
1 AAAAAACAAAAAAATC
*
835996 --TAAA-AAAAAAA-C
1 AAAAAACAAAAAAATC
*
836008 AAAAAACAAAAAAAAC
1 AAAAAACAAAAAAATC
836024 AAAAAATC-AAAAAATC
1 AAAAAA-CAAAAAAATC
*
836040 AAAAAATAAAAAAA
1 AAAAAACAAAAAAA
836054 AATCAATGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
12 7 0.15
13 3 0.06
14 3 0.06
15 7 0.15
16 26 0.55
17 1 0.02
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAAACAAAAAAATC
Found at i:836068 original size:1 final size:1
Alignment explanation
Indices: 835973--836055 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
835963 AACTCGAAAG
* * ** * * * **
835973 AAAAATAAAAAAAACAAAAAAATTAAAAAAAAAACAAAAAACAAAAAAAACAAAAAATCAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** *
836038 TCAAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
836056 TCAATGTCAA
Statistics
Matches: 62, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:836110 original size:21 final size:20
Alignment explanation
Indices: 836073--836111 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
836063 CAAAAATAGG
*
836073 AGAAAAAGAAAGAAGAAGAA
1 AGAAAAAAAAAGAAGAAGAA
*
836093 AGAAAAGAAAAAGGAGAAG
1 AGAAAA-AAAAAGAAGAAG
836112 TCAAGGCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAGAAGAAGAA
Found at i:838295 original size:46 final size:46
Alignment explanation
Indices: 838211--838668 Score: 334
Period size: 46 Copynumber: 9.4 Consensus size: 46
838201 TTTGAGTACT
* *
838211 TCTGATCAAGTGACAAAGT-GATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGGA-AAGTGATAGCTATAGCTACACTTA
*
838257 TCTGATCAAGTGAC-AAGTGGAAAGTGATAAG-TAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGGAAAGTGAT-AGCT-ATA------GCTACACTTA
* *
838309 TCTGATCAAGTGACAAAGTGGTAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGGAAAGTGATAGCTAT-AGCTACACTTA
*
838355 TCTGATCAAGTGAC-AAGTGGAAAGTGATAAG-TAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGGAAAGTGAT-AGCT-ATA------GCTACACTTA
*
838407 TCTGATCAAGTGACAAAGT-GATAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGGA-AAGTGATAGCTAT-AGCTACACTTA
*
838453 TCTGATCAAGTGAC-AAGTGGAAAGTGATAAG-TAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGGAAAGTGAT-AGCT-ATA------GCTACACTTA
*
838505 TCTGATCAAGTGACAAAGT-GATAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGGA-AAGTGATAGCTAT-AGCTACACTTA
* *
838551 TCTGATCAAGTGAC-AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTA
1 TCTGATCAAGTGACAAAGT-----G-GA-AAGTGATAGCTAT-AGCTACACTTA
* *
838603 TCTGATCAAGAGACAAAGT-GATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGGA-AAGTGATAGCTATAGCTACACTTA
*
838649 TCTGATCAAGAGACAAAGTG
1 TCTGATCAAGTGACAAAGTG
838669 ATAAGTGGCT
Statistics
Matches: 344, Mismatches: 19, Indels: 97
0.75 0.04 0.21
Matches are distributed among these distances:
45 41 0.12
46 137 0.40
47 3 0.01
51 3 0.01
52 118 0.34
53 42 0.12
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGGAAAGTGATAGCTATAGCTACACTTA
Found at i:838334 original size:98 final size:98
Alignment explanation
Indices: 838211--838664 Score: 818
Period size: 98 Copynumber: 4.6 Consensus size: 98
838201 TTTGAGTACT
* **
838211 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
838276 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
838309 TCTGATCAAGTGACAAAGTGGTAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
838374 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
838407 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
838472 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
838505 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
838570 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* ** *
838603 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
838665 AGTGATAAGT
Statistics
Matches: 345, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 345 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:838669 original size:46 final size:44
Alignment explanation
Indices: 838571--838786 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
838561 TGACAAGTGA
*
838571 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
838617 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
838663 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
838700 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
838737 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
838773 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
838787 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:838683 original size:37 final size:37
Alignment explanation
Indices: 838639--838784 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
838629 GATAGCTTTA
*
838639 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
838676 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
838713 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
838750 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
838785 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:840507 original size:44 final size:43
Alignment explanation
Indices: 840409--840514 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
840399 CCCAAAAAGG
*
840409 GCAGCTCAAATTTTGGAACAAAATGGGGCACAAAGTGATCAGA
1 GCAGCTCAAATTTTGGATCAAAATGGGGCACAAAGTGATCAGA
* * ****
840452 GC-GACTTAAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGA
1 GCAG-CTCAAATTTTGGATCAAAATGGGGCA-CAAAGTGATCAGA
840496 GCAGCTCAAATTTT-GATCA
1 GCAGCTCAAATTTTGGATCA
840515 GATCAAGGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 30 0.58
44 20 0.38
45 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (43 bp):
GCAGCTCAAATTTTGGATCAAAATGGGGCACAAAGTGATCAGA
Found at i:841825 original size:100 final size:100
Alignment explanation
Indices: 841648--843088 Score: 1664
Period size: 100 Copynumber: 14.4 Consensus size: 100
841638 AAAACCATAG
* * * * **
841648 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
841712 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * **
841748 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
841812 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * **
841848 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAGTTGAACA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACA
* * * *
841912 GATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
65 GATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * *
841948 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGCGATGCAACGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * *
842013 ATTGAAACTACGACGGCGAATCTCACTTCCCAGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * *
842048 ATTGTAGTTTAAAAGATCAAAGCCACAACGGCGAATCTTATTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
842113 ATTGAAGTTACAACAGCAAACCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* *
842148 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATTTTACTTCCCAGGCGATGCAGTGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * *
842213 ATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * *
842248 ATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGCCAATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * *
842312 ATTAAAGCTACGACGGCGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
*
842347 ATTGCAATTCAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
842412 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
** *
842447 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTTTCAGGCGATGCAGCGGAACAA
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
842512 ATTGAAGCTACGAC-GACGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * *
842547 ATTGCAATTCAACAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGAGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
842612 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * *
842647 ATTGCAATTCAAAAGATCGAAGCCACAATGGCGAATCTTACTTCCCAGGCGATGCAACGGAAAAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* *
842712 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* *
842747 ATTGCAATTCAAAAGATCGAAGCCATAACGGCGAGTCTTACTT-CCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
842811 ATTAAAGCTACGA-TGACAAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * ** * * * **
842846 ATTGCAGTTTAAAATATTGTGGCCACAATGGCGAATCTTACTT-CCAAGCTATATAGCGGAACAG
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
* * * * *
842910 ATTGAAGCCACAACGGTGAATCTTCCTTCCCCGAC
66 ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
* * * * * **
842945 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTTA-TCTCCCTGGCGATGCAATGGAAC
1 ATTGCAATTCAAA-AGATCGAAGCCACAACGGCGAATCTTACT-TCCCAGGCGATGCAGCGGAAC
* * * *
843008 AGATTGAAGCTACGA-TGACGAATTTTCCTTTCCCGAC
64 AGATTGAAGCTACGACAG-CGAATCTTACTTCCCCGAC
* * * * *
843045 ATTGCAACT-AAAAGATTGAAGCCGCAACAGCGAATCTTATTTCC
1 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
843089 TCGGTGAGAC
Statistics
Matches: 1183, Mismatches: 146, Indels: 25
0.87 0.11 0.02
Matches are distributed among these distances:
98 6 0.01
99 268 0.23
100 905 0.77
101 4 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (100 bp):
ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAG
ATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
Found at i:842778 original size:50 final size:50
Alignment explanation
Indices: 841648--843088 Score: 837
Period size: 50 Copynumber: 28.9 Consensus size: 50
841638 AAAACCATAG
* * * * * *
841648 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
841698 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
841748 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
841798 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
841848 ATTACAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * *
841898 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * * * *
841948 ATTGCAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
** * * * * *
841998 GA-TGCAACGGAACAGATTGAAACTACGACGGCGAATCTCACTTCCCAGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * ** * *
842048 ATTGTAGTTTAAAAGATCAAAGCCACAACGGCGAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * ** * * * * *
842098 GA-TGCAGCGGAACAGATTGAAGTTACAACAGCAAACCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
842148 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATTTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * * * *
842198 GA-TGCAGTGGAACAGATTGAAGCTACGACGGTGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* *
842248 ATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTT-CCAGCC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* *** * * * * *
842297 AATGCAGCGGAACAGATTAAAGCTACGACGGCGAATCTTGCTTCCTC-GAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
842347 ATTGCAATTCAAAAGATCGAAGCCACAACAGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * *
842397 GA-TGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * ** *
842447 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTACTTTTCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * *
842497 GA-TGCAGCGGAACAA-ATTGAAGCTACGACGACGAATCTTGCTTCCTC-GAC
1 -ATTGCAATTGAA-AAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * *
842547 ATTGCAATTCAACAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGAG
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC-AGAC
*** * * * * *
842598 A-TGCAGCGGAACAGATTGAAGCTACGACAGCGAATCTTACTTCCCCGAC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * *
842647 ATTGCAATTCAAAAGATCGAAGCCACAATGGCGAATCTTACTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
** * * * *
842697 GA-TGCAACGGAAAAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * *
842747 ATTGCAATTCAAAAGATCGAAGCCATAACGGCGAGTCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
*** * * * * * * * *
842796 GA-TGCAGCGGAACAGATTAAAGCTACGATGACAAATCTTGCTTCCTC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGAC
* * * ** * *
842846 ATTGCAGTTTAAAATATTGTGGCCACAATGGCGAATCTTACTTCCAAG-C
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * *
842895 TATATAGC---GGAACAGATTGAAGCCACAACGGTGAATCTTCCTTCCCCGAC
1 -AT-T-GCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
* * * * * *
842945 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTTA-TCTCCCTGGC
1 ATTGCAATTGAAA-AGATTGAAGCCACAACGGCGAATCTTACT-TCCCAGAC
* * * * * * * *
842995 GA-TGCAATGGAACAGATTGAAGCTACGATGACGAATTTTCCTTTCCC-GAC
1 -ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGAC
* * * *
843045 ATTGCAACT-AAAAGATTGAAGCCGCAACAGCGAATCTTATTTCC
1 ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
843089 TCGGTGAGAC
Statistics
Matches: 1002, Mismatches: 344, Indels: 92
0.70 0.24 0.06
Matches are distributed among these distances:
47 2 0.00
48 5 0.00
49 140 0.14
50 826 0.82
51 26 0.03
52 3 0.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (50 bp):
ATTGCAATTGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGAC
Found at i:844827 original size:29 final size:27
Alignment explanation
Indices: 844773--844842 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
844763 TTATTTGGTG
*
844773 TTAATTTGTTTA-TTTATTTACATGCT
1 TTAATTTTTTTATTTTATTTACATGCT
844799 CATT-ATTATTTTTATTTTATTTA-AGTGCT
1 --TTAATT-TTTTTATTTTATTTACA-TGCT
844828 TTAATTTTTTTATTT
1 TTAATTTTTTTATTT
844843 GTTTATTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 14 0.38
28 11 0.30
29 12 0.32
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (27 bp):
TTAATTTTTTTATTTTATTTACATGCT
Found at i:844856 original size:18 final size:17
Alignment explanation
Indices: 844831--844873 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
844821 AAGTGCTTTA
*
844831 ATTT-TTTTATTTGTTT
1 ATTTCTTTTATTTGTTG
844847 ATTTACTTTTATTTGTTG
1 ATTT-CTTTTATTTGTTG
844865 ATTTCTTTT
1 ATTTCTTTT
844874 CATTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTCTTTTATTTGTTG
Found at i:845306 original size:110 final size:109
Alignment explanation
Indices: 844981--845510 Score: 798
Period size: 110 Copynumber: 4.9 Consensus size: 109
844971 ATCAAAAACG
* * * *
844981 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAGCATGCCTTAAGGTGCT
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
845046 GGGTATCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
845091 AAAAATTTTAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACAT-CCCTTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCC-TAAGGTGCT
*
845155 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
*
845200 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTACT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
845265 GGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* *
845310 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAATATGCCCTAAGGTGCTG
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * * *
845375 GGTGTCGATTTTTTCTCATTCAACCAAATAGCTAAATAGCCTTTC
66 GGTGTCGA-TTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
* * *
845420 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGG-AAATTCGAGAAAACATGCCCTAAGGTGCT
* *
845484 GGGTTTCGA--TTTCTCGTTTAACCAAAT
65 GGGTGTCGATTTTTCTCGTTCAACCAAAT
845511 TGCCAAATAT
Statistics
Matches: 387, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
107 16 0.04
108 2 0.01
109 163 0.42
110 194 0.50
111 12 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (109 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
Found at i:845371 original size:219 final size:219
Alignment explanation
Indices: 844981--845510 Score: 802
Period size: 219 Copynumber: 2.4 Consensus size: 219
844971 ATCAAAAACG
* * * *
844981 AAAAATTTTTCAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAGCATGCCTTAAGGTGC
1 AAAAA-TTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
845045 TGGGTATCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGT
65 TGGGTATCGA-TTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
* *
845110 AATGTTTTGCGTTTGGAAATTCGAGAAAACATCCCTTAAGGTGCTGGGTGTCGA-TTTTTCTCGT
129 AATGTTTTGCGTTTAGAAATTCGAGAAAACATCCCTTAAGGTGCTGGGTGTCGATTTTTTCTCAT
* * *
845174 TCAACCAAATGGCTTAATATCC-TTC
194 TCAACCAAATAGCTAAATAGCCTTTC
*
845199 TAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTAC
1 -AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
845264 TGGGTGTCGATTTCTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
65 TGGGTATCGATTT-TCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGC
*
845329 AATGTTTTGCGTTTAGAAATTCGAGAAAATATGCCC-TAAGGTGCTGGGTGTCGATTTTTTCTCA
129 AATGTTTTGCGTTTAGAAATTCGAGAAAACAT-CCCTTAAGGTGCTGGGTGTCGATTTTTTCTCA
845393 TTCAACCAAATAGCTAAATAGCCTTTC
193 TTCAACCAAATAGCTAAATAGCCTTTC
* * * *
845420 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAG-GAACGTGCCCTAAGGTGCT
1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* *
845484 GGGTTTCGA-TTTCTCGTTTAACCAAAT
66 GGGTATCGATTTTCTCGTTCAACCAAAT
845511 TGCCAAATAT
Statistics
Matches: 286, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
217 15 0.05
218 32 0.11
219 162 0.57
220 74 0.26
221 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (219 bp):
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTATCGATTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATAAGGCAA
TGTTTTGCGTTTAGAAATTCGAGAAAACATCCCTTAAGGTGCTGGGTGTCGATTTTTTCTCATTC
AACCAAATAGCTAAATAGCCTTTC
Found at i:847004 original size:137 final size:138
Alignment explanation
Indices: 846813--847088 Score: 437
Period size: 137 Copynumber: 2.0 Consensus size: 138
846803 TAGATAAAAC
*
846813 TAATATATAAATTTGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
* * *
846878 ACAATTATATTAATTAATTTCGGTCAAAATATAAAATATATGGAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
846943 AATATAAT
131 AATATAAT
* * *
846951 TAATATATGAATATGATTCATACAAAA-ATTAATTGTATATATTTTACCGAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
* * * * *
847015 ACAGTTCTATTCATTAATTTTGGTTAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
847080 AATATAAT
131 AATATAAT
847088 T
1 T
847089 CCTTTTTTTT
Statistics
Matches: 126, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 101 0.80
138 25 0.20
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (138 bp):
TAATATATAAATATGATTCATACAAAATATTAATTATATATATTTTACCAAATTTATTAATATAA
ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
AATATAAT
Found at i:847203 original size:75 final size:77
Alignment explanation
Indices: 847064--847216 Score: 229
Period size: 75 Copynumber: 2.0 Consensus size: 77
847054 ATGGAAATTA
* *
847064 ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTTCTAAATTTTCATTTGTCTTCTCTATTAATA
1 ATATTCTTTTGAAAAGAATATAATTCC-TTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATA
*
847129 CGAGAATAATCTT
65 AGAGAATAATCTT
* *
847142 ATATTCTTTTGGAAAGAATATAATT-C-TTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
1 ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
*
847205 GGGAATAATCTT
66 GAGAATAATCTT
847217 GGTTTTCCTT
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 44 0.64
77 1 0.01
78 24 0.35
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (77 bp):
ATATTCTTTTGAAAAGAATATAATTCCTTTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
GAGAATAATCTT
Found at i:857854 original size:26 final size:25
Alignment explanation
Indices: 857809--857948 Score: 85
Period size: 26 Copynumber: 5.5 Consensus size: 25
857799 TGGAATACAC
*
857809 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
857835 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* * * *
857861 ATATTATATATTATAATTTTAGTAAATTC
1 ATATTAT-T-TTA-AATTATATTTAA-TA
*
857890 ATA-TATTTT--ATTA-AATT-AT-
1 ATATTATTTTAAATTATATTTAATA
*
857909 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
857935 ATAATTATATTAAA
1 AT-ATTATTTTAAA
857949 ATATGATTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
19 3 0.03
20 4 0.05
21 3 0.03
22 2 0.02
23 7 0.08
24 3 0.03
25 7 0.08
26 30 0.34
27 13 0.15
28 11 0.13
29 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:857866 original size:15 final size:15
Alignment explanation
Indices: 857822--857877 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
857812 TTTTTGTTAA
*
857822 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
857837 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
857848 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
857863 ATTATATATTATAAT
1 ATTATATTTTATAAT
857878 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:857899 original size:18 final size:17
Alignment explanation
Indices: 857870--857928 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
857860 AATATTATAT
*
857870 ATTATA-ATTTTAGTAA
1 ATTATATATTTTATTAA
857886 ATTCATATATTTTATTAA
1 ATT-ATATATTTTATTAA
857904 ATTATATATTTTTATTAA
1 ATTATATA-TTTTATTAA
857922 ATTATAT
1 ATTATAT
857929 TTAATAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATATATTTTATTAA
Found at i:858149 original size:44 final size:45
Alignment explanation
Indices: 858086--858182 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
858076 CTATTACACC
* *
858086 TCCATTCCATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATTTACTATTACACCTCTAT
* *
858130 TCCATTACATTCAACCAAACAATTGATTTGCTATTACACCTCTAT
1 TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
*
858175 TCTATTAC
1 TCCATTAC
858183 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.48
45 23 0.50
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATTTACTATTACACCTCTAT
Found at i:858181 original size:16 final size:16
Alignment explanation
Indices: 858162--858226 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
858152 TTGATTTGCT
* *
858162 ATTACACCTCTATTCT
1 ATTACGCCTCTATTCC
858178 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
858194 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
858210 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
858226 A
1 A
858227 ATACTGCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.22, C:0.34, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:859473 original size:10 final size:9
Alignment explanation
Indices: 859455--859567 Score: 68
Period size: 10 Copynumber: 11.7 Consensus size: 9
859445 GAAATTTATT
*
859455 TAAATATTA
1 TAAAAATTA
859464 TAGAAAATTA
1 TA-AAAATTA
*
859474 CAAAAAAATTA
1 -TA-AAAATTA
*
859485 TACAGAATTA
1 TA-AAAATTA
859495 TGAAAAA-TA
1 T-AAAAATTA
859504 TAACAAATTA
1 TAA-AAATTA
859514 TAAAAATTA
1 TAAAAATTA
*
859523 TTTAAAAACTA
1 --TAAAAATTA
*
859534 TAAATA-TA
1 TAAAAATTA
859542 TTAAAAATTA
1 -TAAAAATTA
*
859552 CAAAATATTA
1 TAAAA-ATTA
859562 TAAAAA
1 TAAAAA
859568 CAAATTAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
8 4 0.05
9 29 0.35
10 32 0.39
11 17 0.21
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:859559 original size:17 final size:18
Alignment explanation
Indices: 859524--859566 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
859514 TAAAAATTAT
*
859524 TTAAAAACTATAAATATA
1 TTAAAAACTACAAATATA
*
859542 TTAAAAATTACAAA-ATA
1 TTAAAAACTACAAATATA
859559 TTATAAAA
1 TTA-AAAA
859567 ACAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAAAACTACAAATATA
Found at i:859565 original size:19 final size:19
Alignment explanation
Indices: 859456--859567 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 19
859446 AAATTTATTT
859456 AAATATTATAGAAAATTACAA
1 AAATATTATA-AAAATTAC-A
* * *
859477 AAAAATTATACAGAATTATGA
1 AAATATTATA-AAAATTA-CA
*
859498 AAA-A-TATAACAAATTATA
1 AAATATTATAA-AAATTACA
* *
859516 AAA-ATTATTTAAAAACTA-T
1 AAATATTA--TAAAAATTACA
859535 AAATA-TATTAAAAATTACA
1 AAATATTA-TAAAAATTACA
859554 AAATATTATAAAAA
1 AAATATTATAAAAA
859568 CAAATTAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
18 15 0.21
19 27 0.37
20 9 0.12
21 22 0.30
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATATTATAAAAATTACA
Found at i:869870 original size:16 final size:16
Alignment explanation
Indices: 869845--869887 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
869835 TTGAATTTTT
869845 GTTA-TAAGAATATTG
1 GTTATTAAGAATATTG
869860 GTTATTAAGAATATTG
1 GTTATTAAGAATATTG
*
869876 ATTATTAAGAAT
1 GTTATTAAGAAT
869888 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTG
Found at i:870699 original size:12 final size:12
Alignment explanation
Indices: 870684--870725 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
870674 GTTCAATTAT
*
870684 ATGTTCATGAAC
1 ATGTTCGTGAAC
**
870696 ATGTTCGTTTA-
1 ATGTTCGTGAAC
870707 ATGTTCGTGAAC
1 ATGTTCGTGAAC
870719 ATGTTCG
1 ATGTTCG
870726 ATTAAGTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (12 bp):
ATGTTCGTGAAC
Found at i:870740 original size:23 final size:23
Alignment explanation
Indices: 870667--870746 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
870657 ACATTGTTTG
*
870667 TGAACATGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
* *
870691 TGAACATGTTCGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
870714 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
870737 TGAACATGTT
1 TGAACATGTT
870747 AGTGAACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.65
24 14 0.29
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:877878 original size:18 final size:18
Alignment explanation
Indices: 877857--877894 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
877847 AATTTGGATT
*
877857 TTTTATAAA-TATTTTTAA
1 TTTTA-AAACTATTTTGAA
877875 TTTTAAAACTATTTTGAA
1 TTTTAAAACTATTTTGAA
877893 TT
1 TT
877895 ATTTTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAACTATTTTGAA
Found at i:882682 original size:21 final size:21
Alignment explanation
Indices: 882656--882696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
882646 AGACGAGCAA
* *
882656 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
882677 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
882697 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:887464 original size:21 final size:21
Alignment explanation
Indices: 887438--887478 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
887428 AGACGAGCAA
* *
887438 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
887459 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
887479 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:894957 original size:24 final size:25
Alignment explanation
Indices: 894906--894962 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
894896 TAAAATTACA
894906 ATATATTATTAGCATCATAAATTTTT
1 ATATATTATTAGCAT-ATAAATTTTT
*
894932 ATATATTATTAGC-T-TAGATTTATT
1 ATATATTATTAGCATATAAATTT-TT
894956 ATATATT
1 ATATATT
894963 TATTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 9 0.31
25 1 0.03
26 13 0.45
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (25 bp):
ATATATTATTAGCATATAAATTTTT
Found at i:896203 original size:18 final size:16
Alignment explanation
Indices: 896171--896201 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
896161 AAATCAAATC
896171 AAAATTATATATATAA
1 AAAATTATATATATAA
*
896187 AAAATTATATTTATA
1 AAAATTATATATATA
896202 TATAATATAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTATATATATAA
Found at i:896216 original size:20 final size:20
Alignment explanation
Indices: 896178--896217 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
896168 ATCAAAATTA
*
896178 TATATATAAAAAATTATATT
1 TATATATAAAAAATAATATT
* *
896198 TATATATAATATATAATATT
1 TATATATAAAAAATAATATT
896218 AAATTAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATATAAAAAATAATATT
Found at i:897309 original size:6 final size:6
Alignment explanation
Indices: 897298--897344 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
897288 TCATCACTCA
*
897298 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC CAAAC
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AAAAC
897345 TTAAACTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:902349 original size:7 final size:7
Alignment explanation
Indices: 902337--902368 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
902327 ACTGTTCAGT
902337 TTTTTTC
1 TTTTTTC
902344 TTTTTTC
1 TTTTTTC
902351 -TTTTT-
1 TTTTTTC
902356 TTTTTTC
1 TTTTTTC
902363 TTTTTT
1 TTTTTT
902369 AACTGTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.43
7 13 0.57
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Found at i:902359 original size:12 final size:12
Alignment explanation
Indices: 902338--902368 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
902328 CTGTTCAGTT
902338 TTTTTCTTTTTTC
1 TTTTT-TTTTTTC
902351 TTTTTTTTTTTC
1 TTTTTTTTTTTC
902363 TTTTTT
1 TTTTTT
902369 AACTGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:916577 original size:10 final size:10
Alignment explanation
Indices: 916562--916586 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
916552 TTCATTAAAA
916562 TATTATTTAT
1 TATTATTTAT
916572 TATTATTTAT
1 TATTATTTAT
916582 TATTA
1 TATTA
916587 AAATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTATTTAT
Found at i:916715 original size:14 final size:15
Alignment explanation
Indices: 916690--916719 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
916680 ACCTATCTCA
916690 TTTTTGTAATTATTT
1 TTTTTGTAATTATTT
916705 TTTTTGT-ATTATTT
1 TTTTTGTAATTATTT
916719 T
1 T
916720 GATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTGTAATTATTT
Found at i:918537 original size:24 final size:25
Alignment explanation
Indices: 918510--918557 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
918500 AGAAGAAAGT
918510 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
918534 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
918558 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:921255 original size:21 final size:20
Alignment explanation
Indices: 921223--921266 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
921213 TATGTTAAAT
921223 TTATTTTTATTATTAT-ATTA
1 TTATTTTTATTA-TATGATTA
921243 TTATTTTTAATTATATGATTA
1 TTATTTTT-ATTATATGATTA
921264 TTA
1 TTA
921267 AGTGAGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTTATTATATGATTA
Found at i:921257 original size:18 final size:19
Alignment explanation
Indices: 921223--921265 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
921213 TATGTTAAAT
*
921223 TTATTTTTATTATTATATTA
1 TTATTTTTA-TATTATATGA
921243 TTATTTTTA-ATTATATGA
1 TTATTTTTATATTATATGA
921261 TTATT
1 TTATT
921266 AAGTGAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTTTTATATTATATGA
Found at i:922482 original size:19 final size:19
Alignment explanation
Indices: 922444--922490 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
922434 GATAACAAGG
* *
922444 AAATCTTAGAAATATGGGT
1 AAATCTTAGAAATTTTGGT
*
922463 AAATTTTAGAAATTTTGGT
1 AAATCTTAGAAATTTTGGT
922482 ATAATCTTA
1 A-AATCTTA
922491 AATTTTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (19 bp):
AAATCTTAGAAATTTTGGT
Found at i:922565 original size:20 final size:20
Alignment explanation
Indices: 922537--922574 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
922527 CTTAATTTTT
* *
922537 TTTTTGTAAATCGTTAAATG
1 TTTTGGTAAATCATTAAATG
922557 TTTTGGTAAATCATTAAA
1 TTTTGGTAAATCATTAAA
922575 AAGATTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (20 bp):
TTTTGGTAAATCATTAAATG
Found at i:925886 original size:26 final size:27
Alignment explanation
Indices: 925856--925919 Score: 94
Period size: 26 Copynumber: 2.4 Consensus size: 27
925846 TAGATTTTAA
*
925856 TATATTTATTTTTAT-TTATTTATTTT
1 TATATTTATTTTTATATTATTTATGTT
*
925882 TATATTTATTTTTATATTTTTTATGTT
1 TATATTTATTTTTATATTATTTATGTT
925909 TATATATTATT
1 TATAT-TTATT
925920 GGTATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 15 0.44
27 14 0.41
28 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (27 bp):
TATATTTATTTTTATATTATTTATGTT
Found at i:925889 original size:12 final size:12
Alignment explanation
Indices: 925856--925900 Score: 72
Period size: 12 Copynumber: 3.6 Consensus size: 12
925846 TAGATTTTAA
925856 TATATTTATTTT
1 TATATTTATTTT
925868 TATTTATTTATTTT
1 TA--TATTTATTTT
925882 TATATTTATTTT
1 TATATTTATTTT
925894 TATATTT
1 TATATTT
925901 TTTATGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 19 0.61
14 12 0.39
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATATTTATTTT
Found at i:925916 original size:17 final size:15
Alignment explanation
Indices: 925860--925913 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 15
925850 TTTTAATATA
*
925860 TTTATTTTTAT-TTA
1 TTTATTTTTATATTT
925874 TTTATTTTTATA---
1 TTTATTTTTATATTT
925886 TTTATTTTTATATTT
1 TTTATTTTTATATTT
*
925901 TTTATGTTTATAT
1 TTTATTTTTATAT
925914 ATTATTGGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
12 12 0.34
14 11 0.31
15 12 0.34
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATATTT
Found at i:925919 original size:20 final size:20
Alignment explanation
Indices: 925860--925919 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
925850 TTTTAATATA
*
925860 TTTATTTTTATTTATT-TATT
1 TTTATATTTATTTATTAT-TT
*
925880 TTTATATTTATTTTTATATTT
1 TTTATATTTATTTAT-TATTT
* *
925901 TTTATGTTTATATATTATT
1 TTTATATTTATTTATTATT
925920 GGTATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 17 0.52
21 15 0.45
22 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTATATTTATTTATTATTT
Found at i:925928 original size:27 final size:26
Alignment explanation
Indices: 925856--925929 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
925846 TAGATTTTAA
** * *
925856 TATATTTATTTTTATTTATTTATTTT
1 TATATTTATTGGTATTTTTTTATGTT
**
925882 TATATTTATTTTTATATTTTTTATGTT
1 TATATTTATTGGTAT-TTTTTTATGTT
925909 TATATATTATTGGTATTTTTT
1 TATAT-TTATTGGTATTTTTT
925930 AAAAATTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.36
27 19 0.45
28 8 0.19
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (26 bp):
TATATTTATTGGTATTTTTTTATGTT
Found at i:926506 original size:30 final size:31
Alignment explanation
Indices: 926449--926513 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
926439 AAATTGTTAT
*
926449 AATAAAGCTTTAAATAATCTTTAATTTTAAA
1 AATAAAGCTTAAAATAATCTTTAATTTTAAA
* * * *
926480 AATAAAGCTTAAAATATTTTTTATTTTTTAA
1 AATAAAGCTTAAAATAATCTTTAATTTTAAA
926511 AAT
1 AAT
926514 TTAATTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (31 bp):
AATAAAGCTTAAAATAATCTTTAATTTTAAA
Found at i:926583 original size:22 final size:25
Alignment explanation
Indices: 926526--926589 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
926516 AATTTAAATA
*
926526 TTATGATAAATATTATTTAACTTTG
1 TTATGATAAATATTATTTAACTCTG
* *
926551 TTTTAATTAAATATTATTT-AC-CT-
1 TTATGA-TAAATATTATTTAACTCTG
926574 TTATGATAAATATTAT
1 TTATGATAAATATTAT
926590 ATTATGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
22 10 0.30
23 4 0.12
24 1 0.03
25 6 0.18
26 12 0.36
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (25 bp):
TTATGATAAATATTATTTAACTCTG
Found at i:932253 original size:25 final size:26
Alignment explanation
Indices: 932208--932267 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
932198 AGATTTTAAC
932208 ATATTTATTTATATTTATTTAT-TGTT
1 ATATTTATTTATATTTATTTATGT-TT
932234 ATATTT-TTTAATATTT-TTTATGTTT
1 ATATTTATTT-ATATTTATTTATGTTT
932259 ATATATTAT
1 ATAT-TTAT
932268 AGGTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 14 0.47
26 15 0.50
27 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
ATATTTATTTATATTTATTTATGTTT
Found at i:934677 original size:25 final size:25
Alignment explanation
Indices: 934643--934692 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
934633 GAGAACTATT
934643 AAATAAGATGC-ATCCAATGCTAAAG
1 AAATAAGATGCGA-CCAATGCTAAAG
934668 AAATAAGATGCGACCAATGCTAAAG
1 AAATAAGATGCGACCAATGCTAAAG
934693 TTGACTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AAATAAGATGCGACCAATGCTAAAG
Found at i:942257 original size:29 final size:30
Alignment explanation
Indices: 942209--942267 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
942199 TACGTTTTAA
**
942209 TGTGTAATTCTATATGT-AAACTTTGATTT
1 TGTGTAATTCTATACATAAAACTTTGATTT
* *
942238 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTCTATACATAAAACTTTGATTT
942268 AATCCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
TGTGTAATTCTATACATAAAACTTTGATTT
Found at i:952824 original size:40 final size:39
Alignment explanation
Indices: 952732--952827 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
952722 ATAACGCAAG
**
952732 AAAACGCTTCCTCAAGGAAGCGCTTTGTCCACGTGGACA
1 AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
* * *
952771 GAAAACACATCCTTGAGGACGCGCTTTGTGTCCACGTGGAC-
1 -AAAACGCTTCCTTGAGGAAGCGC-TT-TGTCCACGTGGACA
*
952812 AAAGCGCTTCCTTGAG
1 AAAACGCTTCCTTGAG
952828 TTTGCGTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
40 31 0.67
41 2 0.04
42 13 0.28
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (39 bp):
AAAACGCTTCCTTGAGGAAGCGCTTTGTCCACGTGGACA
Found at i:957946 original size:126 final size:126
Alignment explanation
Indices: 957714--958001 Score: 400
Period size: 126 Copynumber: 2.3 Consensus size: 126
957704 GCCAAATAGG
* * * * * *
957714 AACTACTGTAACAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATATTTTTTCTGACATTGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
* *
957779 TGCTTGAAGCATTTTTTACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATATTTTCAAA
* * *
957840 AACTTCTGTAGCAAAATAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
* * * **
957905 TGCTT-AAGGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCAGG
66 TGCTTGAA-GCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATATTTTCAAA
957966 AACTACTGTAGCAAAAGAGCGTCCACGT-AGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGA-GAGCTT
958002 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
125 3 0.02
126 139 0.98
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAATACTTTTGCTAACAATGCATCC
TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATATTTTCAAA
Found at i:958325 original size:97 final size:97
Alignment explanation
Indices: 958040--958467 Score: 609
Period size: 98 Copynumber: 4.4 Consensus size: 97
958030 CTTAAACCCC
* *
958040 AAACCCTAATTTATTTAATTTTTTTATTAAAAGTCCTAAACACTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
*
958105 AAAAAATTATAATTAATTTACTCAAGTAACCCT
66 AAAAATTTATAATTAATTTACTCAAGTAA-CCT
* *
958138 AAACCCTAATTTATTTAATTTTTTTCTTAAAAACCCTAAACCCTAAACCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
* *
958203 TAAAATTTATAATTAATTTACTCAAGCAACTCT
66 AAAAATTTATAATTAATTTACTCAAGTAAC-CT
*
958236 AAACCCTAATTTATTTGATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAA-TTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
958300 AAAAATTTATAATTAATTTACTCAAGTAACCT
66 AAAAATTTATAATTAATTTACTCAAGTAACCT
* *
958332 AAACCCTAATTTATTTGA--TTTTCCTTAAAAA-CCATAAACACTAAACCCTAATCTAA-TTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCC-TAAACACTAAACCCTAATCTAATTTTTT
* * *
958393 T-AAAATTTATAATTAATTTAATTAAGAAAACCT
65 TAAAAATTTATAATTAATTTACTCAAG-TAACCT
* *
958426 AAACCCTAAACCCTTATTTAATTTTTTCCTT-AAAATCCTAAA
1 AAACCCT-AA--TTTATTTAATTTTTTTCTTAAAAATCCTAAA
958468 ATCTAAAAAC
Statistics
Matches: 303, Mismatches: 18, Indels: 18
0.89 0.05 0.05
Matches are distributed among these distances:
93 25 0.08
94 52 0.17
95 2 0.01
96 20 0.07
97 42 0.14
98 152 0.50
99 10 0.03
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (97 bp):
AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
AAAAATTTATAATTAATTTACTCAAGTAACCT
Found at i:989346 original size:18 final size:17
Alignment explanation
Indices: 989318--989352 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
989308 ATTATTAAGA
*
989318 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
989335 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
989353 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:989433 original size:120 final size:120
Alignment explanation
Indices: 989291--989612 Score: 635
Period size: 120 Copynumber: 2.7 Consensus size: 120
989281 CTTTGAATTT
989291 TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
1 TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
989356 ATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAA
66 ATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAA
989411 TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
1 TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
989476 ATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAA
66 ATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAA
*
989531 TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTA
1 TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
989596 ATAATAATTATGTTAAA
66 ATAATAATTATGTTAAA
989613 ATATGATTAA
Statistics
Matches: 201, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 201 1.00
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (120 bp):
TTGATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
ATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAA
Done.