Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 257 of 313
Found at i:78843430 original size:12 final size:11
Alignment explanation
Indices: 78843374--78843430 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
78843364 GAATTTTGGA
78843374 AGGAAATTGAG
1 AGGAAATTGAG
*
78843385 A-GAATTTTG-G
1 AGGAA-ATTGAG
78843395 AAGGAAATTGAG
1 -AGGAAATTGAG
78843407 AGG-AATTGAG
1 AGGAAATTGAG
78843417 AGGAAATATGAG
1 AGGAAAT-TGAG
78843429 AG
1 AG
78843431 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 14 0.37
11 14 0.37
12 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:78848389 original size:27 final size:27
Alignment explanation
Indices: 78848359--78848414 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
78848349 AGGGAAATAT
* *
78848359 TTTCAAAATTTTCCACGAAGGCTATTC
1 TTTCAAAATTTTCCACAAAAGCTATTC
*
78848386 TTTCAGAATTTTCCACAAAAGCTATTC
1 TTTCAAAATTTTCCACAAAAGCTATTC
78848413 TT
1 TT
78848415 AGTTTTCCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (27 bp):
TTTCAAAATTTTCCACAAAAGCTATTC
Found at i:78851358 original size:27 final size:27
Alignment explanation
Indices: 78851328--78851505 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
78851318 ATATTGAGTC
* * * *
78851328 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
78851355 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78851382 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
78851410 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
78851437 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
78851464 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
78851491 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78851506 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:78851467 original size:82 final size:81
Alignment explanation
Indices: 78851349--78851504 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
78851339 TGCTATATAA
* *
78851349 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
78851414 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
78851431 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
78851495 CACTTAGTGC
65 CACTTAGTGC
78851505 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78865771 original size:21 final size:21
Alignment explanation
Indices: 78865747--78865788 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
78865737 TCTTTGTTAG
*
78865747 TGTCTCGAGACATTAGGAATA
1 TGTCTCGAGACATTAAGAATA
*
78865768 TGTCTCGAGACCTTAAGAATA
1 TGTCTCGAGACATTAAGAATA
78865789 ATTTTCACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (21 bp):
TGTCTCGAGACATTAAGAATA
Found at i:78866579 original size:21 final size:22
Alignment explanation
Indices: 78866555--78866599 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
78866545 ATATTTTTGT
*
78866555 ATTAAAATTTTG-AATTGAATA
1 ATTAAAACTTTGAAATTGAATA
* *
78866576 ATTATACCTTTGAAATTGAATA
1 ATTAAAACTTTGAAATTGAATA
78866598 AT
1 AT
78866600 ACCGAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (22 bp):
ATTAAAACTTTGAAATTGAATA
Found at i:78866905 original size:46 final size:46
Alignment explanation
Indices: 78866807--78866906 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
78866797 CAGAAAGGTT
* *
78866807 ATAACCTTAAAAAAGTCATAACATTAAGTGTCATTTCAAAAAGGTC
1 ATAACCTTAAAAAAGTCAAAACATTAAGTGTCATTTCAAAAAGGCC
* * * * *
78866853 ACAACCTTAGAAAGGTTAAAACATTAAGTGTCATTTTAGAAAA-GCC
1 ATAACCTTAAAAAAGTCAAAACATTAAGTGTCATTTCA-AAAAGGCC
78866899 ATAACCTT
1 ATAACCTT
78866907 TTGGTTGCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
46 41 0.91
47 4 0.09
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (46 bp):
ATAACCTTAAAAAAGTCAAAACATTAAGTGTCATTTCAAAAAGGCC
Found at i:78879647 original size:25 final size:27
Alignment explanation
Indices: 78879613--78879662 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
78879603 CAGGCCTACC
78879613 TTTTTTTTTGAATA-TTCCC-CCCACT
1 TTTTTTTTTGAATATTTCCCTCCCACT
78879638 TTTTTTTTTGAATATTTCCCTCCCA
1 TTTTTTTTTGAATATTTCCCTCCCA
78879663 AAATTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.61
26 5 0.22
27 4 0.17
ACGTcount: A:0.16, C:0.26, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTTTTTTTGAATATTTCCCTCCCACT
Found at i:78888543 original size:12 final size:12
Alignment explanation
Indices: 78888526--78888569 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
78888516 ACCAATATCG
78888526 CAGTAAAGCTGC
1 CAGTAAAGCTGC
78888538 CAGTAATAG-TGTC
1 CAGTAA-AGCTG-C
78888551 GCAGTAAAGCTGC
1 -CAGTAAAGCTGC
78888564 CAGTAA
1 CAGTAA
78888570 CAGCATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 14 0.50
13 6 0.21
14 8 0.29
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (12 bp):
CAGTAAAGCTGC
Found at i:78888768 original size:27 final size:27
Alignment explanation
Indices: 78888738--78888840 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 27
78888728 TAATCTTCTA
78888738 GGGGTATAAT-AATCATTTTACCCTATG
1 GGGGTAT-ATCAATCATTTTACCCTATG
* *
78888765 GGGGTATTTCAATCATTTTAGCCTATG
1 GGGGTATATCAATCATTTTACCCTATG
* * *
78888792 GGGGTATTTCGATCATTTTA-CCTTTCG
1 GGGGTATATCAATCATTTTACCCTAT-G
* * *
78888819 GGGGTATTTTAGTCATTTTACC
1 GGGGTATATCAATCATTTTACC
78888841 TTACAGGGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.08
27 60 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGGTATATCAATCATTTTACCCTATG
Found at i:78888841 original size:27 final size:27
Alignment explanation
Indices: 78888750--78888863 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
78888740 GGTATAATAA
*
78888750 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCAG
*
78888777 TCATTTTAGCCTATGGGGGTATTTC-G
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
78888803 ATCATTTTA-CCTTTCGGGGGTATTTTAG
1 -TCATTTTACCCTAT-GGGGGTATTTCAG
* ** *
78888831 TCATTTTACCTTACAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
78888858 TCATTT
1 TCATTT
78888864 AATTGACCTC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.05
27 66 0.90
28 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:78888850 original size:54 final size:54
Alignment explanation
Indices: 78888749--78888863 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
78888739 GGGTATAATA
**
78888749 ATCATTTTACCCTATGGGGGTATTTCAATCATTTTAGCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCAATCATTTTAGCCTACAGGGGTATTTCG
* * *
78888803 ATCATTTTA-CCTTTCGGGGGTATTTTAGTCATTTTA-CCTTACAGGGGTATTTCG
1 ATCATTTTACCCTAT-GGGGGTATTTCAATCATTTTAGCC-TACAGGGGTATTTCG
*
78888857 GTCATTT
1 ATCATTT
78888864 AATTGACCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.11
54 47 0.89
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (54 bp):
ATCATTTTACCCTATGGGGGTATTTCAATCATTTTAGCCTACAGGGGTATTTCG
Found at i:78891757 original size:29 final size:29
Alignment explanation
Indices: 78891715--78891772 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
78891705 GAAAGGGAAT
78891715 AATTGAAGACAAATAGCGTCATCGTATAC
1 AATTGAAGACAAATAGCGTCATCGTATAC
78891744 AATTGAAGACAAATAGCGTCATCGTATAC
1 AATTGAAGACAAATAGCGTCATCGTATAC
78891773 CCCATTGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (29 bp):
AATTGAAGACAAATAGCGTCATCGTATAC
Found at i:78896345 original size:21 final size:21
Alignment explanation
Indices: 78896319--78896359 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
78896309 ATATTTGAGA
* *
78896319 AATTTACTTATGTTATGGATG
1 AATTTACCTATGTCATGGATG
78896340 AATTTACCTATGTCATGGAT
1 AATTTACCTATGTCATGGAT
78896360 AAACACACTA
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:0.10, G:0.17, T:0.44
Consensus pattern (21 bp):
AATTTACCTATGTCATGGATG
Found at i:78896453 original size:20 final size:20
Alignment explanation
Indices: 78896404--78896460 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
78896394 AAGATTATGC
* *
78896404 TAAGTAAATAGAATGGAAAG
1 TAAGTAAATGGAATGGTAAG
78896424 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
*
78896444 TAAGTAAATGGAGTGGT
1 TAAGTAAATGGAATGGT
78896461 TCATAGTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:78908882 original size:30 final size:30
Alignment explanation
Indices: 78908848--78908908 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
78908838 TGACTGGAAA
78908848 AACAATATTGTTAACAAATAACAATCATAT
1 AACAATATTGTTAACAAATAACAATCATAT
*
78908878 AACAATCTTGTTAACAAATAACAATCATAT
1 AACAATATTGTTAACAAATAACAATCATAT
78908908 A
1 A
78908909 TTTATTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (30 bp):
AACAATATTGTTAACAAATAACAATCATAT
Found at i:78911343 original size:33 final size:33
Alignment explanation
Indices: 78911302--78911368 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
78911292 ATTAGAAATC
*
78911302 AATCGATGGGCTAAATATCTAATTGACAAAGCA
1 AATCGATGGACTAAATATCTAATTGACAAAGCA
78911335 AATCGATGGACTAAATATCTAATTGACAAAGCA
1 AATCGATGGACTAAATATCTAATTGACAAAGCA
78911368 A
1 A
78911369 TCATTCTAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (33 bp):
AATCGATGGACTAAATATCTAATTGACAAAGCA
Found at i:78913957 original size:31 final size:31
Alignment explanation
Indices: 78913903--78913961 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
78913893 TCATCCCAGG
* *
78913903 TTGCTCGACAATGATGACCTACCACCTCAGA
1 TTGCCCGACAACGATGACCTACCACCTCAGA
* *
78913934 TTGCCCGACAACGATGGCTTACCACCTC
1 TTGCCCGACAACGATGACCTACCACCTC
78913962 GTATTACCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (31 bp):
TTGCCCGACAACGATGACCTACCACCTCAGA
Found at i:78913976 original size:31 final size:31
Alignment explanation
Indices: 78913922--78913981 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
78913912 AATGATGACC
* * *
78913922 TACCACCTCAGATTGCCCGACAACGATGGCT
1 TACCACCTCAGATTACCCAACAACAATGGCT
78913953 TACCACCTC-GTATTACCCAACAACAATGG
1 TACCACCTCAG-ATTACCCAACAACAATGG
78913982 TATAACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20
Consensus pattern (31 bp):
TACCACCTCAGATTACCCAACAACAATGGCT
Found at i:78918585 original size:16 final size:16
Alignment explanation
Indices: 78918566--78918599 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
78918556 TCAATCATTC
78918566 TATATTACAATATAAA
1 TATATTACAATATAAA
78918582 TATATTACAATATAAA
1 TATATTACAATATAAA
78918598 TA
1 TA
78918600 CAAATATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATTACAATATAAA
Found at i:78938405 original size:25 final size:25
Alignment explanation
Indices: 78938371--78938430 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
78938361 ACCACAACCT
*
78938371 GCATGAGCTTCCCGTTATTTAGCTC
1 GCATGAGCTTCCCGTTATTCAGCTC
*
78938396 GCATGAGCTTTCCGTTATTCAGCTC
1 GCATGAGCTTCCCGTTATTCAGCTC
**
78938421 ATATGAGCTT
1 GCATGAGCTT
78938431 ACTGTTTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (25 bp):
GCATGAGCTTCCCGTTATTCAGCTC
Found at i:78938449 original size:24 final size:25
Alignment explanation
Indices: 78938373--78938450 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
78938363 CACAACCTGC
* ** *
78938373 ATGAGCTTCCCGTTATTTAGCTCGC
1 ATGAGCTTACCGTTATACAGCTCGT
* * *
78938398 ATGAGCTTTCCGTTATTCAGCTCAT
1 ATGAGCTTACCGTTATACAGCTCGT
*
78938423 ATGAGCTTACTGTT-TACAGCTCGT
1 ATGAGCTTACCGTTATACAGCTCGT
78938447 ATGA
1 ATGA
78938451 CCATACATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 12 0.27
25 33 0.73
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (25 bp):
ATGAGCTTACCGTTATACAGCTCGT
Found at i:78939826 original size:48 final size:48
Alignment explanation
Indices: 78939755--78939849 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
78939745 AACTCCGGTA
* **
78939755 ATGCTCCGTAACCTCGTTCCGGCGATGGATACGGGTTAGGGGTGTTAC
1 ATGCTCCGTAACCTCATTCCGGCGATGGATACAAGTTAGGGGTGTTAC
* *
78939803 ATGCTCCGTAACCTTATTTCGGCGATGGATACAAGTTAGGGGTGTTA
1 ATGCTCCGTAACCTCATTCCGGCGATGGATACAAGTTAGGGGTGTTA
78939850 TATTTAGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (48 bp):
ATGCTCCGTAACCTCATTCCGGCGATGGATACAAGTTAGGGGTGTTAC
Found at i:78940877 original size:45 final size:45
Alignment explanation
Indices: 78940769--78940899 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
78940759 CCGTTATGAC
* * * * * *
78940769 GCCATAACGTCTTTCAGCTAT-AGTCTTACTCATTT-TATCCTGAT
1 GCCATAGCATCTTTCAGCTATGA-TCTTACTCGTTTGAATCATAAT
*
78940813 GCCATAGTATCTTTCAGCTATGATCTTACTCGTTTGAATCATAAT
1 GCCATAGCATCTTTCAGCTATGATCTTACTCGTTTGAATCATAAT
* *
78940858 GTCATAGCATCTTTCAGCTATGGTCTTACTCGTTTGAATCAT
1 GCCATAGCATCTTTCAGCTATGATCTTACTCGTTTGAATCAT
78940900 GATTAACCTG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
44 29 0.39
45 46 0.61
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (45 bp):
GCCATAGCATCTTTCAGCTATGATCTTACTCGTTTGAATCATAAT
Found at i:78948440 original size:5 final size:5
Alignment explanation
Indices: 78948430--78948455 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
78948420 TTACCCAAAC
78948430 ACACT ACACT ACACT ACACT ACACT A
1 ACACT ACACT ACACT ACACT ACACT A
78948456 TTATTGCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (5 bp):
ACACT
Found at i:78954124 original size:9 final size:8
Alignment explanation
Indices: 78954106--78954173 Score: 57
Period size: 9 Copynumber: 7.8 Consensus size: 8
78954096 TTTTTCATAA
78954106 AAAAATAT
1 AAAAATAT
78954114 AAAAATCAT
1 AAAAAT-AT
78954123 AAAAATAT
1 AAAAATAT
*
78954131 -TAAATAT
1 AAAAATAT
78954138 GAAAAATAT
1 -AAAAATAT
78954147 GAAAATTGATAT
1 -AAAA---ATAT
78954159 AAAAATAT
1 AAAAATAT
78954167 AATAAAT
1 AA-AAAT
78954174 GTTAATAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
7 6 0.12
8 14 0.27
9 23 0.45
11 4 0.08
12 4 0.08
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (8 bp):
AAAAATAT
Found at i:78954128 original size:17 final size:17
Alignment explanation
Indices: 78954106--78954215 Score: 57
Period size: 20 Copynumber: 6.1 Consensus size: 17
78954096 TTTTTCATAA
78954106 AAAAATATAAAAATCAT
1 AAAAATATAAAAATCAT
*
78954123 AAAAATAT-TAAAT-AT
1 AAAAATATAAAAATCAT
78954138 GAAAAATATGAAAATTGAT-AT
1 -AAAAATAT-AAAA---ATCAT
**
78954159 AAAAATATAATAAATGTT
1 AAAAATATAA-AAATCAT
78954177 AATAAATTATAAAAAAATCAT
1 AA-AAA-TAT--AAAAATCAT
*
78954198 AAAATTAATAAAAA-CAT
1 AAAAAT-ATAAAAATCAT
78954215 A
1 A
78954216 TTTAAAACAT
Statistics
Matches: 74, Mismatches: 6, Indels: 26
0.70 0.06 0.25
Matches are distributed among these distances:
15 2 0.03
16 12 0.16
17 14 0.19
18 10 0.14
19 6 0.08
20 17 0.23
21 11 0.15
22 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (17 bp):
AAAAATATAAAAATCAT
Found at i:78954135 original size:16 final size:17
Alignment explanation
Indices: 78954106--78954152 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
78954096 TTTTTCATAA
78954106 AAAAATATAAAAATCAT-
1 AAAAATATAAAAAT-ATG
*
78954123 AAAAATAT-TAAATATG
1 AAAAATATAAAAATATG
*
78954139 AAAAATATGAAAAT
1 AAAAATATAAAAAT
78954153 TGATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 12 0.46
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (17 bp):
AAAAATATAAAAATATG
Found at i:78954199 original size:28 final size:27
Alignment explanation
Indices: 78954156--78954209 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
78954146 TGAAAATTGA
* *
78954156 TATAAAAATATAATAAATGTTAATAAAT
1 TATAAAAAAATAATAAA-ATTAATAAAT
*
78954184 TATAAAAAAATCATAAAATTAATAAA
1 TATAAAAAAATAATAAAATTAATAAA
78954210 AACATATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
TATAAAAAAATAATAAAATTAATAAAT
Found at i:78954272 original size:32 final size:30
Alignment explanation
Indices: 78954236--78954294 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
78954226 TATAAAAGCT
78954236 TATTAAAATTCTATAAAAACCATAAAAAAAAG
1 TATTAAAATT-TATAAAAA-CATAAAAAAAAG
* *
78954268 TATTAAAATTTATATAAACTTAAAAAA
1 TATTAAAATTTATAAAAACATAAAAAA
78954295 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 7 0.28
32 10 0.40
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (30 bp):
TATTAAAATTTATAAAAACATAAAAAAAAG
Found at i:78954625 original size:13 final size:13
Alignment explanation
Indices: 78954609--78954641 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
78954599 TTATTTTAAA
78954609 ATTTTAAAAAAAT
1 ATTTTAAAAAAAT
78954622 ATTTT--AAAAAT
1 ATTTTAAAAAAAT
78954633 ATTTTAAAA
1 ATTTTAAAA
78954642 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.61
13 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTTAAAAAAAT
Found at i:78954630 original size:11 final size:11
Alignment explanation
Indices: 78954616--78954721 Score: 95
Period size: 11 Copynumber: 10.4 Consensus size: 11
78954606 AAAATTTTAA
78954616 AAAAATATTTT
1 AAAAATATTTT
78954627 AAAAATATTTT
1 AAAAATATTTT
78954638 --AAA-A--TT
1 AAAAATATTTT
* *
78954644 AAAAAAAATTT
1 AAAAATATTTT
78954655 AAAAAGTATTTT
1 AAAAA-TATTTT
78954667 AAAAATATTTT
1 AAAAATATTTT
**
78954678 --AAA-ATTAA
1 AAAAATATTTT
*
78954686 AAAAATA-ATT
1 AAAAATATTTT
78954696 AAAAATATTTT
1 AAAAATATTTT
78954707 AAAAATATTTT
1 AAAAATATTTT
78954718 AAAA
1 AAAA
78954722 TTCAAAAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.03
8 7 0.09
9 7 0.09
10 10 0.13
11 42 0.55
12 9 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:78954667 original size:40 final size:39
Alignment explanation
Indices: 78954616--78954738 Score: 203
Period size: 40 Copynumber: 3.1 Consensus size: 39
78954606 AAAATTTTAA
78954616 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTT
*
78954655 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAATT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAA-ATTT
*
78954696 AAAAATATTTTAAAAATATTTTAAAATT-CAAAAAATTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTT
78954734 AAAAA
1 AAAAA
78954739 ATAAATATAT
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
38 8 0.10
39 10 0.13
40 53 0.67
41 8 0.10
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (39 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTT
Found at i:78954685 original size:29 final size:30
Alignment explanation
Indices: 78954648--78954710 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
78954638 AAAATTAAAA
* *
78954648 AAAATTT-AAAAAGTATTTTAAAAATATTTT
1 AAAATTTAAAAAAATA-ATTAAAAATATTTT
78954678 AAAA-TTAAAAAAATAATTAAAAATATTTT
1 AAAATTTAAAAAAATAATTAAAAATATTTT
78954707 AAAA
1 AAAA
78954711 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAATTTAAAAAAATAATTAAAAATATTTT
Found at i:78955332 original size:18 final size:17
Alignment explanation
Indices: 78955306--78955340 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
78955296 GGTTTCTTAA
78955306 ATAAGTTTTATTAATTTT
1 ATAAGTTTTA-TAATTTT
*
78955324 ATAATTTTTATAATTTT
1 ATAAGTTTTATAATTTT
78955341 TTATGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
ATAAGTTTTATAATTTT
Found at i:78955344 original size:19 final size:19
Alignment explanation
Indices: 78955320--78955374 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
78955310 GTTTTATTAA
* *
78955320 TTTTATAATTTTTATAATT
1 TTTTATAATTTTAATAAGT
*
78955339 TTTTATGATTTTAATAAGT
1 TTTTATAATTTTAATAAGT
*
78955358 TTATATCAATTTTAATA
1 TTTTAT-AATTTTAATA
78955375 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATAATTTTAATAAGT
Found at i:78960018 original size:20 final size:20
Alignment explanation
Indices: 78959993--78960036 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
78959983 AAAATCCAAT
*
78959993 TTTTTTTTCT-TTCTCCTTCA
1 TTTTTTTTCTCCTCTCC-TCA
78960013 TTTTTTTTCTCCTCTCCTCA
1 TTTTTTTTCTCCTCTCCTCA
78960033 TTTT
1 TTTT
78960037 CTTTATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTTTCTCCTCTCCTCA
Found at i:78963865 original size:18 final size:18
Alignment explanation
Indices: 78963842--78963878 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
78963832 ATAATCACTA
78963842 ATATAT-CCGTATCAACAC
1 ATATATCCCGTA-CAACAC
78963860 ATATATCCCGTACAACAC
1 ATATATCCCGTACAACAC
78963878 A
1 A
78963879 CAATAACCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.41, C:0.30, G:0.05, T:0.24
Consensus pattern (18 bp):
ATATATCCCGTACAACAC
Found at i:78967488 original size:14 final size:14
Alignment explanation
Indices: 78967469--78967508 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
78967459 TTGATTGCCA
78967469 GTAAAATATTTTCC
1 GTAAAATATTTTCC
*
78967483 GTAAAATGA-TTTCG
1 GTAAAAT-ATTTTCC
78967497 GTAAAATATTTT
1 GTAAAATATTTT
78967509 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (14 bp):
GTAAAATATTTTCC
Found at i:78967521 original size:34 final size:35
Alignment explanation
Indices: 78967477--78967543 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
78967467 CAGTAAAATA
78967477 TTTTCCGTAAAATGATTT-C-GGTAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGG-AAAATATTTTAC
*
78967511 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
78967544 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 17 0.57
35 11 0.37
36 2 0.07
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:78968526 original size:11 final size:10
Alignment explanation
Indices: 78968499--78968551 Score: 63
Period size: 11 Copynumber: 5.0 Consensus size: 10
78968489 AAATAAATCC
78968499 TTTCTCT-AA
1 TTTCTCTCAA
78968508 TTTTCTCTCAA
1 -TTTCTCTCAA
78968519 TTTGCTCTCAA
1 TTT-CTCTCAA
78968530 TTTCCTCTCAAA
1 TTT-CTCTC-AA
78968542 TTTCTCTCAA
1 TTTCTCTCAA
78968552 ATCCCTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 12 0.31
11 22 0.56
12 5 0.13
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:78968531 original size:22 final size:22
Alignment explanation
Indices: 78968499--78968551 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
78968489 AAATAAATCC
*
78968499 TTTCTCT-AATTTTCTCTC-AA
1 TTTCTCTCAATTTCCTCTCAAA
78968519 TTTGCTCTCAATTTCCTCTCAAA
1 TTT-CTCTCAATTTCCTCTCAAA
78968542 TTTCTCTCAA
1 TTTCTCTCAA
78968552 ATCCCTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.10
21 4 0.14
22 17 0.59
23 5 0.17
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTCTCTCAATTTCCTCTCAAA
Found at i:78970413 original size:18 final size:18
Alignment explanation
Indices: 78970390--78970432 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
78970380 TGCTAGGTGC
* *
78970390 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
78970408 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
78970426 GTTTCCT
1 GTATCCT
78970433 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:78971134 original size:372 final size:372
Alignment explanation
Indices: 78970449--78971192 Score: 1488
Period size: 372 Copynumber: 2.0 Consensus size: 372
78970439 AGTCCTATGG
78970449 CAAGTTGGAGTCCATGGCCCGATTCATTTCTATTTTTCGTTACGCCGAGTGGACCGCTGATGTAT
1 CAAGTTGGAGTCCATGGCCCGATTCATTTCTATTTTTCGTTACGCCGAGTGGACCGCTGATGTAT
78970514 AGGCCAGCGTCGCACGAGGGATCGCAAGAGGGGTCGTCGGGGAGCTCTTCCTTTTACCAACTGTC
66 AGGCCAGCGTCGCACGAGGGATCGCAAGAGGGGTCGTCGGGGAGCTCTTCCTTTTACCAACTGTC
78970579 GTCACCAGTATAGGTTTCAAACAGCTTCGTCGTTGGTGATGTAAACACCTCCACAGTCACTATTC
131 GTCACCAGTATAGGTTTCAAACAGCTTCGTCGTTGGTGATGTAAACACCTCCACAGTCACTATTC
78970644 TATCAAGGTGGCTCATCGTCCCAACACCGACAACCAGATACCCTACCGGAGGAACCAAAATCCTC
196 TATCAAGGTGGCTCATCGTCCCAACACCGACAACCAGATACCCTACCGGAGGAACCAAAATCCTC
78970709 GCCGGAGCAACCACAACCCCCGCTGAAAGCTGGACAAAGAAGGAATCCAGCGCGTAACCTTCGAC
261 GCCGGAGCAACCACAACCCCCGCTGAAAGCTGGACAAAGAAGGAATCCAGCGCGTAACCTTCGAC
78970774 GGCCGCCATGTGGCACTGAATCCGGTGGGCACGGAGATTGATTTTTA
326 GGCCGCCATGTGGCACTGAATCCGGTGGGCACGGAGATTGATTTTTA
78970821 CAAGTTGGAGTCCATGGCCCGATTCATTTCTATTTTTCGTTACGCCGAGTGGACCGCTGATGTAT
1 CAAGTTGGAGTCCATGGCCCGATTCATTTCTATTTTTCGTTACGCCGAGTGGACCGCTGATGTAT
78970886 AGGCCAGCGTCGCACGAGGGATCGCAAGAGGGGTCGTCGGGGAGCTCTTCCTTTTACCAACTGTC
66 AGGCCAGCGTCGCACGAGGGATCGCAAGAGGGGTCGTCGGGGAGCTCTTCCTTTTACCAACTGTC
78970951 GTCACCAGTATAGGTTTCAAACAGCTTCGTCGTTGGTGATGTAAACACCTCCACAGTCACTATTC
131 GTCACCAGTATAGGTTTCAAACAGCTTCGTCGTTGGTGATGTAAACACCTCCACAGTCACTATTC
78971016 TATCAAGGTGGCTCATCGTCCCAACACCGACAACCAGATACCCTACCGGAGGAACCAAAATCCTC
196 TATCAAGGTGGCTCATCGTCCCAACACCGACAACCAGATACCCTACCGGAGGAACCAAAATCCTC
78971081 GCCGGAGCAACCACAACCCCCGCTGAAAGCTGGACAAAGAAGGAATCCAGCGCGTAACCTTCGAC
261 GCCGGAGCAACCACAACCCCCGCTGAAAGCTGGACAAAGAAGGAATCCAGCGCGTAACCTTCGAC
78971146 GGCCGCCATGTGGCACTGAATCCGGTGGGCACGGAGATTGATTTTTA
326 GGCCGCCATGTGGCACTGAATCCGGTGGGCACGGAGATTGATTTTTA
78971193 TTTTAATATA
Statistics
Matches: 372, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
372 372 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (372 bp):
CAAGTTGGAGTCCATGGCCCGATTCATTTCTATTTTTCGTTACGCCGAGTGGACCGCTGATGTAT
AGGCCAGCGTCGCACGAGGGATCGCAAGAGGGGTCGTCGGGGAGCTCTTCCTTTTACCAACTGTC
GTCACCAGTATAGGTTTCAAACAGCTTCGTCGTTGGTGATGTAAACACCTCCACAGTCACTATTC
TATCAAGGTGGCTCATCGTCCCAACACCGACAACCAGATACCCTACCGGAGGAACCAAAATCCTC
GCCGGAGCAACCACAACCCCCGCTGAAAGCTGGACAAAGAAGGAATCCAGCGCGTAACCTTCGAC
GGCCGCCATGTGGCACTGAATCCGGTGGGCACGGAGATTGATTTTTA
Found at i:78971480 original size:48 final size:49
Alignment explanation
Indices: 78971372--78971481 Score: 188
Period size: 48 Copynumber: 2.3 Consensus size: 49
78971362 TTACTTTAAT
78971372 ATTTTTAATATAATCGAAATTCTTTACAATAACGTTTTAAATAAGGCAA
1 ATTTTTAATATAATCGAAATTCTTTACAATAACGTTTTAAATAAGGCAA
* *
78971421 ATTTTT-TTATAATCGAAATTCTTTACAATAATGTTTTAAATAAGGC-A
1 ATTTTTAATATAATCGAAATTCTTTACAATAACGTTTTAAATAAGGCAA
78971468 ATTTTTAATATAAT
1 ATTTTTAATATAAT
78971482 AGAATTATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
47 7 0.12
48 44 0.77
49 6 0.11
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (49 bp):
ATTTTTAATATAATCGAAATTCTTTACAATAACGTTTTAAATAAGGCAA
Found at i:78971723 original size:95 final size:95
Alignment explanation
Indices: 78971552--78971748 Score: 234
Period size: 95 Copynumber: 2.1 Consensus size: 95
78971542 TATAAATTTA
* * * * ** * *
78971552 TAATTAATTTACTCAAGTAACCCTGAACCCTAATTTATTTTATTTTTTCTTAAAAACCCTTAACT
1 TAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAACAATAAACA
* * ** * *
78971617 CTAAATCCTAATCTGATTTTTAAAATTTTT
66 CGAAATACTAATCCAATATTGAAAATTTTT
*
78971647 TAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAAATAATAAAC
1 TAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTT-AAAAACAATAAAC
*
78971712 ACGAAA-ACTAATCCAATATTGAAATTTTTT
65 ACGAAATACTAATCCAATATTGAAAATTTTT
78971742 TAATTAA
1 TAATTAA
78971749 TTTCATTGAC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
95 72 0.85
96 13 0.15
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.41
Consensus pattern (95 bp):
TAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAACAATAAACA
CGAAATACTAATCCAATATTGAAAATTTTT
Found at i:78971817 original size:68 final size:68
Alignment explanation
Indices: 78971733--78971861 Score: 222
Period size: 68 Copynumber: 1.9 Consensus size: 68
78971723 TCCAATATTG
* *
78971733 AAATTTTTTTAATTAATTTCATTGACAGACCCTAAACCCTAATCCCTTATTTATTATTTTCAATT
1 AAATTTTTTTAATTAATTTAATTGACAAACCCTAAACCCTAATCCCTTATTTATTATTTTCAATT
78971798 TTA
66 TTA
* *
78971801 AAATTTTTTTAATTAATTTAATTGACAAACCCTAAACCCTAATCCCTTGTTTATTTTTTTC
1 AAATTTTTTTAATTAATTTAATTGACAAACCCTAAACCCTAATCCCTTATTTATTATTTTC
78971862 TCTAAAACCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (68 bp):
AAATTTTTTTAATTAATTTAATTGACAAACCCTAAACCCTAATCCCTTATTTATTATTTTCAATT
TTA
Found at i:78974993 original size:43 final size:43
Alignment explanation
Indices: 78974916--78975167 Score: 244
Period size: 43 Copynumber: 5.9 Consensus size: 43
78974906 GCATTTTTTG
* * *
78974916 GACCTATAACGGCACTTTTCCCACAAACGT-CGCTAAAGAACAT
1 GACCTTTAGCGGCGCTTTTCCCACAAAC-TCCGCTAAAGAACAT
* * *
78974959 GACTTTTAGCGGCGTTTTTCCCACAAACTCCGCTATAGAACAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACTCCGCTAAAGAACAT
* *
78975002 GACCTTTAGCGGCGC-TTTCCCACAAA-TGCCGCTATAGAATAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACT-CCGCTAAAGAACAT
** * * *
78975044 GACCTTTAGCGGCATTTTTCTCTACAAACGT-CACTAACGAACAT
1 GACCTTTAGCGGCGCTTTTC-CCACAAAC-TCCGCTAAAGAACAT
* ** *
78975088 AACCTTTAGCAACGCTTTGCCCACAAA-TGCCGCTAAAGAACAT
1 GACCTTTAGCGGCGCTTTTCCCACAAACT-CCGCTAAAGAACAT
* * *
78975131 GAACTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAA
1 GACCTTTAGCGGCGCTTTTCCCACAAACTCCGCTAAA
78975168 TGTCATATTC
Statistics
Matches: 169, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.01
42 38 0.22
43 99 0.59
44 29 0.17
46 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACTCCGCTAAAGAACAT
Found at i:78976006 original size:13 final size:14
Alignment explanation
Indices: 78975980--78976008 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78975970 TACAACGATG
78975980 AATTAAACCATTAT
1 AATTAAACCATTAT
78975994 AATTAAA-CATTAT
1 AATTAAACCATTAT
78976007 AA
1 AA
78976009 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:78979789 original size:23 final size:21
Alignment explanation
Indices: 78979746--78979797 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
78979736 TTATAAAATA
* *
78979746 TACAAATTAAGTCAATTAATTT
1 TACAAATAAAGTCAATCAA-TT
*
78979768 TACAAATAAGAGTCCATCAATT
1 TACAAATAA-AGTCAATCAATT
*
78979790 AACAAATA
1 TACAAATA
78979798 CAAAATAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (21 bp):
TACAAATAAAGTCAATCAATT
Found at i:78980370 original size:25 final size:22
Alignment explanation
Indices: 78980323--78980387 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
78980313 TTGGAGAAAA
*
78980323 GAAATTGGGGAAGAATAACTTGGGG
1 GAAATTGGGGAA-AAGAACTT--GG
*
78980348 GAAATTGGGGGAAAAGAAGTTGG
1 GAAATT-GGGGAAAAGAACTTGG
*
78980371 GAAGTTGGGGAAAAGAA
1 GAAATTGGGGAAAAGAA
78980388 ATCAGGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.31
23 7 0.19
25 12 0.33
26 6 0.17
ACGTcount: A:0.40, C:0.02, G:0.42, T:0.17
Consensus pattern (22 bp):
GAAATTGGGGAAAAGAACTTGG
Found at i:78980395 original size:23 final size:23
Alignment explanation
Indices: 78980346--78980398 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
78980336 AATAACTTGG
* *
78980346 GGGAAATTGGGGGAAAAGAAGTT
1 GGGAAATTGGGGGAAAAGAAATA
*
78980369 GGGAAGTT-GGGGAAAAGAAATCA
1 GGGAAATTGGGGGAAAAGAAAT-A
78980392 GGGAAAT
1 GGGAAAT
78980399 CTAACTTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.42, C:0.02, G:0.42, T:0.15
Consensus pattern (23 bp):
GGGAAATTGGGGGAAAAGAAATA
Found at i:78980691 original size:116 final size:116
Alignment explanation
Indices: 78980487--78980828 Score: 472
Period size: 116 Copynumber: 2.9 Consensus size: 116
78980477 GCGTTTATAA
* * * *
78980487 AAAACACCACTAACGCATAACCTTTTGCGGCGTTTTAGTCAAAAGGCCACAAAAAATGCAACTAA
1 AAAACACCACTAACGCATAACCTTTTGCGGTGTTTTAGTCAAAACGCCACTAAAAATGCAGCTAA
** * *
78980552 AAATTGCACCTTTTTGTAAACTCTTAATACATATTCGCGGCA-TTTTTGGTG
66 AAACAGCACCGTTTTGCAAACTCTTAATACATATTCGCGG-AGTTTTTGGTG
* * * * *
78980603 AAAACACCACTAATGTATAACCTTTTGCAGTGTTTTAGCCAAAACGCCACTAAAAATGTAGCTAA
1 AAAACACCACTAACGCATAACCTTTTGCGGTGTTTTAGTCAAAACGCCACTAAAAATGCAGCTAA
78980668 AAACAGCACCGTTTTGCAAACTCTTAATACATATTCGCGGAGTTTTTGGTG
66 AAACAGCACCGTTTTGCAAACTCTTAATACATATTCGCGGAGTTTTTGGTG
* * *
78980719 AAAA-AGCCACTAACGCAAAACCTTTTGCGGTGTTTTAGTCAAAATGCCACTAAAAACGCAGCTA
1 AAAACA-CCACTAACGCATAACCTTTTGCGGTGTTTTAGTCAAAACGCCACTAAAAATGCAGCTA
* * * *
78980783 AAAACAGCGCCGTTTTGCAAACTTTTAATGCATATTCGCGGTGTTT
65 AAAACAGCACCGTTTTGCAAACTCTTAATACATATTCGCGGAGTTT
78980829 GGACCAAAAA
Statistics
Matches: 199, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
115 2 0.01
116 197 0.99
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (116 bp):
AAAACACCACTAACGCATAACCTTTTGCGGTGTTTTAGTCAAAACGCCACTAAAAATGCAGCTAA
AAACAGCACCGTTTTGCAAACTCTTAATACATATTCGCGGAGTTTTTGGTG
Found at i:78984481 original size:28 final size:30
Alignment explanation
Indices: 78984445--78984515 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
78984435 CAAATTCATA
*
78984445 TTTAAGTCTTTTTTTAAT-ATTTTATAT-T
1 TTTAAGTCTTTTTATAATAATTTTATATAT
*
78984473 TTTATGTCTTTTTATAATAAATTTTATATAT
1 TTTAAGTCTTTTTATAAT-AATTTTATATAT
78984504 TTTCAAGT-TTTT
1 TTT-AAGTCTTTT
78984516 AACATTATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 16 0.44
30 9 0.25
31 8 0.22
32 3 0.08
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (30 bp):
TTTAAGTCTTTTTATAATAATTTTATATAT
Found at i:78984868 original size:29 final size:29
Alignment explanation
Indices: 78984793--78984876 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
78984783 AGCTAACGGA
*
78984793 TGAGTGACCAAAATGTAACATTTTAACAAGT
1 TGAGTGA-TAAAATGTAAC-TTTTAACAAGT
* * *
78984824 TTAGTGATAATTATGTAACTTTTGA-AAGT
1 TGAGTGATAA-AATGTAACTTTTAACAAGT
78984853 TGAGTGATTAAAATGTAA-TTTTAA
1 TGAGTGA-TAAAATGTAACTTTTAA
78984877 TCAAAGTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.11
29 16 0.36
30 10 0.23
31 13 0.30
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (29 bp):
TGAGTGATAAAATGTAACTTTTAACAAGT
Found at i:78988639 original size:6 final size:6
Alignment explanation
Indices: 78988624--78988665 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
78988614 CACAAATTAG
* *
78988624 TCATAC TCATAT TCATAT TCATAT TCATAT TCATAT TTATAT
1 TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT TCATAT
78988666 CATCCTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATAT
Found at i:78995191 original size:23 final size:23
Alignment explanation
Indices: 78995148--78995192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
78995138 TTATTAAATG
* *
78995148 TAATGATAAAGTATACTATATTT
1 TAATGATAAAGTAGACAATATTT
78995171 TAATGA-AAAGTAAGACAATATT
1 TAATGATAAAGT-AGACAATATT
78995193 ATTTAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (23 bp):
TAATGATAAAGTAGACAATATTT
Found at i:78997053 original size:15 final size:15
Alignment explanation
Indices: 78997019--78997063 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
78997009 TAAATTCAGT
* *
78997019 ACTTAGCTTTTCAAT
1 ACTTAACTTTTCAAC
*
78997034 GCTTAACTTTTCAAC
1 ACTTAACTTTTCAAC
*
78997049 ACTTAATTTTTCAAC
1 ACTTAACTTTTCAAC
78997064 TTATCAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (15 bp):
ACTTAACTTTTCAAC
Found at i:78998660 original size:27 final size:27
Alignment explanation
Indices: 78998630--78998705 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
78998620 CGGGTTAGTA
78998630 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
78998657 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
* *
78998684 GCC-ATATTAGAAGGCGCCAATG
1 GCCTAT-TTGGGAGGCGCCAATG
78998706 CTGTGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 2 0.04
27 44 0.96
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.24
Consensus pattern (27 bp):
GCCTATTTGGGAGGCGCCAATGGTGGT
Found at i:78998809 original size:18 final size:20
Alignment explanation
Indices: 78998767--78998813 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
78998757 AAAACGGAAG
78998767 AAAGAAGAAGGAAGGAAGCA
1 AAAGAAGAAGGAAGGAAGCA
* *
78998787 GAAGAA-AA-GAAGGAAGGA
1 AAAGAAGAAGGAAGGAAGCA
78998805 AAAGAAGAA
1 AAAGAAGAA
78998814 AAAAATTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.61
19 4 0.17
20 5 0.22
ACGTcount: A:0.64, C:0.02, G:0.34, T:0.00
Consensus pattern (20 bp):
AAAGAAGAAGGAAGGAAGCA
Found at i:78998816 original size:22 final size:23
Alignment explanation
Indices: 78998763--78998816 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
78998753 TACAAAAACG
*
78998763 GAAGAAAGAAGAAGGAAGGAAGCA
1 GAAGAAA-AAGAAGGAAGGAAGAA
78998787 GAAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAGGAAGGAAGAA
78998808 GAAGAAAAA
1 GAAGAAAAA
78998817 AATTAGGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 17 0.61
23 2 0.07
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (23 bp):
GAAGAAAAAGAAGGAAGGAAGAA
Found at i:79001648 original size:27 final size:25
Alignment explanation
Indices: 79001609--79001731 Score: 123
Period size: 22 Copynumber: 5.0 Consensus size: 25
79001599 NNNNNNNNNA
* *
79001609 AAAAAATATAATATTCATACAAAATT
1 AAAAATTACAATATTCATACAAAA-T
79001635 ACAAAATTACAATATTCATAC--AA-
1 A-AAAATTACAATATTCATACAAAAT
79001658 AAAAATTACAATATTCATACAAAACT
1 AAAAATTACAATATTCATACAAAA-T
*
79001684 ATAATATTACAATATTCATAC--AA-
1 A-AAAATTACAATATTCATACAAAAT
* *
79001707 AAAATTTATAATATTCATACAAAAT
1 AAAAATTACAATATTCATACAAAAT
79001732 TACAATATTC
Statistics
Matches: 82, Mismatches: 6, Indels: 19
0.77 0.06 0.18
Matches are distributed among these distances:
22 35 0.43
23 2 0.02
24 4 0.05
25 4 0.05
26 2 0.02
27 35 0.43
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAATTACAATATTCATACAAAAT
Found at i:79001665 original size:22 final size:22
Alignment explanation
Indices: 79001637--79001874 Score: 189
Period size: 22 Copynumber: 11.0 Consensus size: 22
79001627 ACAAAATTAC
79001637 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
79001659 AAAATTACAATATTCATACAAAA
1 AAAATTACAATATTCATAC-AAA
79001682 CTATAATATTACAATATTCATACAAA
1 --A-AA-ATTACAATATTCATACAAA
* *
79001708 AAATTTATAATATTCATAC---
1 AAAATTACAATATTCATACAAA
79001727 AAAATTACAATATTCATAC-AA
1 AAAATTACAATATTCATACAAA
* *
79001748 AAAATTACTA-ATCCA-A-AACTA
1 AAAATTACAATATTCATACAA--A
* * *
79001769 TAAA-TACAA-ATTTAATTATAAA
1 AAAATTACAATA-TTCA-TACAAA
*
79001791 ATAATTACAATATTCATAC---
1 AAAATTACAATATTCATACAAA
*
79001810 AACATTACAATATTCAT--AAA
1 AAAATTACAATATTCATACAAA
*
79001830 AAAATTATAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
* *
79001852 AAATTTAAAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
79001874 A
1 A
79001875 TTCTAATCTA
Statistics
Matches: 175, Mismatches: 20, Indels: 42
0.74 0.08 0.18
Matches are distributed among these distances:
19 34 0.19
20 24 0.14
21 15 0.09
22 62 0.35
23 14 0.08
24 4 0.02
25 1 0.01
26 5 0.03
27 16 0.09
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTACAATATTCATACAAA
Found at i:79001680 original size:41 final size:42
Alignment explanation
Indices: 79001637--79001874 Score: 195
Period size: 49 Copynumber: 5.5 Consensus size: 42
79001627 ACAAAATTAC
79001637 AAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTCATAC---A
* *
79001682 CTATAATATTACAATATTCATACAAAAAATTTATAATATTCATAC-
1 --A-AA-ATTACAATATTCATACAAAAAAATTACAATATTCATACA
* * *
79001727 AAAATTACAATATTCATAC-AAAAAATTACTA-ATCCAAAACTA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTC-ATAC-A
* * * *
79001769 TAAA-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-
1 AAAATTACAATA-TTCA-TACAAAAAAATTACAATATTCATACA
* *
79001810 AACATTACAATATTCAT--AAAAAAATTATAATATTCATACAA
1 AAAATTACAATATTCATACAAAAAAATTACAATATTCATAC-A
*
79001851 AAAATTTAAAATATTCATACAAAA
1 AAAA-TTACAATATTCATACAAAA
79001875 TTCTAATCTA
Statistics
Matches: 154, Mismatches: 21, Indels: 35
0.73 0.10 0.17
Matches are distributed among these distances:
39 23 0.15
40 13 0.08
41 30 0.19
42 27 0.18
43 15 0.10
44 7 0.05
47 1 0.01
48 2 0.01
49 36 0.23
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (42 bp):
AAAATTACAATATTCATACAAAAAAATTACAATATTCATACA
Found at i:79001739 original size:49 final size:49
Alignment explanation
Indices: 79001608--79001740 Score: 214
Period size: 49 Copynumber: 2.7 Consensus size: 49
79001598 NNNNNNNNNN
*
79001608 AAAAAAA-TATAATATTCATACAAAATTACAAAATTACAATATTCATAC
1 AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
79001656 AAAAAAATTACAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATAC
*
79001705 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTATAATATTCATACAAAATTACAATATT
79001741 CATACAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
48 7 0.09
49 69 0.91
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (49 bp):
AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:79002215 original size:27 final size:25
Alignment explanation
Indices: 79002179--79002403 Score: 233
Period size: 27 Copynumber: 9.1 Consensus size: 25
79002169 ATATCCCCAC
79002179 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAA-TA-AAT
79002206 ATTACAATATTCATAC-AAA-AAA-
1 ATTACAATATTCATACAAAATAAAT
*
79002228 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TA-AAT
79002255 ATTACAATATTCATACAAAA-AAAT
1 ATTACAATATTCATACAAAATAAAT
*
79002279 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAA-TA-AAT
79002303 ATTACAATATTCATAC-AAA-AAA-
1 ATTACAATATTCATACAAAATAAAT
*
79002325 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAA-TA-AAT
79002352 ATTACAATATTCATAC-AAA-AAAT
1 ATTACAATATTCATACAAAATAAAT
*
79002375 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAA-TA-AAT
79002401 ATT
1 ATT
79002404 CATACAAAAA
Statistics
Matches: 171, Mismatches: 6, Indels: 42
0.78 0.03 0.19
Matches are distributed among these distances:
21 15 0.09
22 44 0.26
23 18 0.11
24 10 0.06
25 5 0.03
26 16 0.09
27 63 0.37
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (25 bp):
ATTACAATATTCATACAAAATAAAT
Found at i:79002256 original size:49 final size:49
Alignment explanation
Indices: 79002126--79002403 Score: 361
Period size: 49 Copynumber: 5.7 Consensus size: 49
79002116 AATTAATTAT
* *
79002126 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTGCAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** * *
79002174 -CCCACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
79002222 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
79002271 AAAAAAATAT--AATATTCATACAAAATTACAAAATTACAATATTCATAC
1 AAAAAAAT-TGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
79002319 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* **
79002368 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTGCAATATTCATACAAAATTACAATATT
79002404 CATACAAAAA
Statistics
Matches: 202, Mismatches: 21, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
45 20 0.10
46 1 0.00
47 19 0.09
48 45 0.22
49 116 0.57
50 1 0.00
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:79002301 original size:97 final size:98
Alignment explanation
Indices: 79002184--79002403 Score: 406
Period size: 97 Copynumber: 2.3 Consensus size: 98
79002174 CCCACATTAC
*
79002184 AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAT
1 AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAC
79002249 TATAATATTACAATATTCATACAAAAAA-ATAT
66 TATAATATTACAATATTCATACAAAAAATATAT
*
79002281 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAC
1 AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAC
*
79002346 TATAATATTACAATATTCATACAAAAAATTTAT
66 TATAATATTACAATATTCATACAAAAAATATAT
79002379 AATATTCATACAAAATTACAATATT
1 AATATTCATACAAAATTACAATATT
79002404 CATACAAAAA
Statistics
Matches: 118, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 91 0.77
98 27 0.23
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (98 bp):
AATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAC
TATAATATTACAATATTCATACAAAAAATATAT
Found at i:79002526 original size:22 final size:21
Alignment explanation
Indices: 79002300--79002537 Score: 100
Period size: 22 Copynumber: 11.1 Consensus size: 21
79002290 ACAAAATTAC
*
79002300 AAAATTACAATATTCATACAAA
1 AAAATTAAAATATTCATAC-AA
**
79002322 AAAATTGCAATATTCATAC--
1 AAAATTAAAATATTCATACAA
* *
79002341 AAAACTATAATATTACAATATTCATACA
1 AAAATTAAAATATT-C-ATA--C--A-A
*
79002369 AAAAATTTATAATATTCATAC--
1 AAA-A-TTAAAATATTCATACAA
*
79002390 AAAATTACAATATTCATACAA
1 AAAATTAAAATATTCATACAA
** * * *
79002411 AAAATTACTA-ATCCAAAACTA
1 AAAATTAAAATATTC-ATACAA
* * *
79002432 TAAA-TACAAAT-TTAATTATAA
1 AAAATTA-AAATATTCA-TACAA
*
79002453 AATAATTACAATATTCATAC--
1 AA-AATTAAAATATTCATACAA
* *
79002473 AACATTACAATATTCATA-AA
1 AAAATTAAAATATTCATACAA
*
79002493 AAAATTATAATATTCATACAA
1 AAAATTAAAATATTCATACAA
79002514 AAAATTTAAAATATTCATACAA
1 AAAA-TTAAAATATTCATACAA
79002536 AA
1 AA
79002538 TTCTAATCTA
Statistics
Matches: 166, Mismatches: 26, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
19 40 0.24
20 26 0.16
21 33 0.20
22 43 0.26
23 6 0.04
26 1 0.01
28 6 0.04
29 2 0.01
30 9 0.05
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATTAAAATATTCATACAA
Found at i:79002995 original size:16 final size:17
Alignment explanation
Indices: 79002976--79003010 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
79002966 TAAAAAAATA
79002976 TAAAATTATATT-TTAT
1 TAAAATTATATTATTAT
*
79002992 TAAAATTTTATTATTAT
1 TAAAATTATATTATTAT
79003009 TA
1 TA
79003011 TTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAAATTATATTATTAT
Found at i:79003010 original size:17 final size:17
Alignment explanation
Indices: 79002976--79003025 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
79002966 TAAAAAAATA
*
79002976 TAAAATTATATT-TTAT
1 TAAAATTTTATTATTAT
79002992 TAAAATTTTATTATTAT
1 TAAAATTTTATTATTAT
**
79003009 TATTATTTTATTCATTA
1 TAAAATTTTATT-ATTA
79003026 GCGCCTACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 11 0.38
17 14 0.48
18 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TAAAATTTTATTATTAT
Found at i:79012721 original size:36 final size:35
Alignment explanation
Indices: 79012633--79012727 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 35
79012623 TGCAAACCCA
79012633 CGAGCTCACTTGAAGTTGTGAGCTAAAACAAATCTG
1 CGAGCTCACTT-AAGTTGTGAGCTAAAACAAATCTG
** * **
79012669 CGAGCTCATCAAAAGTTGTGAGCTCACCCAAATAC-G
1 CGAGCTCA-CTTAAGTTGTGAGCTAAAACAAAT-CTG
*
79012705 CGAGCTCCACTTAAGTTGCGAGC
1 CGAGCT-CACTTAAGTTGTGAGC
79012728 ACGTCAAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
36 44 0.92
37 4 0.08
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (35 bp):
CGAGCTCACTTAAGTTGTGAGCTAAAACAAATCTG
Found at i:79015288 original size:17 final size:18
Alignment explanation
Indices: 79015263--79015300 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
79015253 TATAACCCCC
* *
79015263 ATATGTATATAAAAAATA
1 ATATGTATACAAAAAAAA
79015281 ATAT-TATACAAAAAAAA
1 ATATGTATACAAAAAAAA
79015298 ATA
1 ATA
79015301 CTATCATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
ATATGTATACAAAAAAAA
Found at i:79015553 original size:3 final size:3
Alignment explanation
Indices: 79015529--79015579 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
79015519 GCACTTACGC
* * *
79015529 TAA TAA TGA TAGA TAA TTA TAA TAA TAA T-A TAAA TAA CAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
79015575 TAA TA
1 TAA TA
79015580 GTAGTAGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:79015571 original size:21 final size:21
Alignment explanation
Indices: 79015529--79015579 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
79015519 GCACTTACGC
* **
79015529 TAATAATGATAGATAATTATAA
1 TAATAAT-ATAAATAACAATAA
79015551 TAATAATATAAATAACAATAA
1 TAATAATATAAATAACAATAA
79015572 TAATAATA
1 TAATAATA
79015580 GTAGTAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
TAATAATATAAATAACAATAA
Found at i:79017028 original size:43 final size:45
Alignment explanation
Indices: 79016957--79017136 Score: 165
Period size: 44 Copynumber: 4.1 Consensus size: 45
79016947 AGTCTGATAC
* * * *
79016957 GATCTGCTCTACTGCAACCTCAGAGAGATGAGA-T-CTATCATTT
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGCTATCATTT
* * * * *
79017000 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTC-TTCT
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGCTATCATT-T
** * * * *
79017045 G-TCTGCTCCTTTGCAACTTCAGGGAGATAAGATTGGTTTCTTTT
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGCTATCATTT
*
79017089 G-TCTGTTCCACTGCAACTTCAGGGAGATAAGACTGCTATCA-TT
1 GATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGCTATCATTT
79017132 GATCT
1 GATCT
79017137 ACTTCGCTGC
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
43 30 0.27
44 75 0.67
45 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (45 bp):
GATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGCTATCATTT
Found at i:79017060 original size:44 final size:44
Alignment explanation
Indices: 79017005--79017120 Score: 178
Period size: 44 Copynumber: 2.6 Consensus size: 44
79016995 CATTTGATCC
*
79017005 GCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
** * *
79017049 GCTCCTTTGCAACTTCAGGGAGATAAGATTGGTTTCTTTTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
*
79017093 GTTCCACTGCAACTTCAGGGAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
79017121 CTGCTATCAT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGATTTCTTCTGTCT
Found at i:79017194 original size:45 final size:45
Alignment explanation
Indices: 79017117--79017311 Score: 293
Period size: 45 Copynumber: 4.4 Consensus size: 45
79017107 TCAGGGAGAT
* *
79017117 AAGA-CTGCTATCATTGATCTACTTCGCTGCCAATACAAGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAAGAAGAC
*
79017161 AAGATCTATTATCTTTGATCTACTTCGCTGCCAATACAAGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAAGAAGAC
* * *
79017206 AAGATATGTTATCTTTGATCTACTTTGCTGCCAATACAGGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAAGAAGAC
* * * *
79017251 AAGATCTGTTATCTTCGATCTACTTCGCTACCAATATAGGAAGAC
1 AAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAAGAAGAC
79017296 AAGATCTGTTATCTTT
1 AAGATCTGTTATCTTT
79017312 AACCGGGCCC
Statistics
Matches: 137, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
44 4 0.03
45 133 0.97
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (45 bp):
AAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAAGAAGAC
Found at i:79018659 original size:19 final size:19
Alignment explanation
Indices: 79018637--79018737 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 19
79018627 AAGAGTACTG
*
79018637 AAGTACAACAAGGGCACAT
1 AAGTACAACAGGGGCACAT
* * * **
79018656 AAGTGCGATCAGGGGTACCG
1 AAGTAC-AACAGGGGCACAT
79018676 AAGTACAACAGGGGCACAT
1 AAGTACAACAGGGGCACAT
* * * **
79018695 AAGTGCGATCAGGGGTACCG
1 AAGTAC-AACAGGGGCACAT
* *
79018715 AAGTACAATAGGGGCACGT
1 AAGTACAACAGGGGCACAT
79018734 AAGT
1 AAGT
79018738 GCGTTCAGGG
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
19 31 0.53
20 27 0.47
ACGTcount: A:0.36, C:0.19, G:0.32, T:0.14
Consensus pattern (19 bp):
AAGTACAACAGGGGCACAT
Found at i:79018679 original size:39 final size:39
Alignment explanation
Indices: 79018617--79018877 Score: 308
Period size: 39 Copynumber: 6.7 Consensus size: 39
79018607 CATGGCATGA
* * * * *
79018617 AAGTGCTATCAAGAGTACTGAAGTACAACAAGGGCACAT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
79018656 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
* *
79018695 AAGTGCGATCAGGGGTACCGAAGTACAATAGGGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
* * * ** *
79018734 AAGTGCGTTCAGGGCTACCTAAGTACAACAAAGGCACGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
* * *
79018773 AAGTGCGTTCAGGGGTATCGAAGTACAACCGGGGCACAT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
* * **
79018812 AAGTGCGATCAGGGGTACCGAAGTACAATAGAGGCATGT
1 AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
** *
79018851 -AGTGCTTTTAGGGGTACCGAAGTACAA
1 AAGTGCGATCAGGGGTACCGAAGTACAA
79018878 AATTTTTCTA
Statistics
Matches: 192, Mismatches: 30, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
38 24 0.12
39 168 0.88
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.18
Consensus pattern (39 bp):
AAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACAT
Found at i:79018748 original size:19 final size:19
Alignment explanation
Indices: 79018726--79018786 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
79018716 AGTACAATAG
79018726 GGGCACGTAAGTGCGTTCA
1 GGGCACGTAAGTGCGTTCA
* * **
79018745 GGGCTACCTAAGTAC-AACAA
1 GGGC-ACGTAAGTGCGTTC-A
*
79018765 AGGCACGTAAGTGCGTTCA
1 GGGCACGTAAGTGCGTTCA
79018784 GGG
1 GGG
79018787 GTATCGAAGT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.18
Consensus pattern (19 bp):
GGGCACGTAAGTGCGTTCA
Found at i:79018799 original size:117 final size:116
Alignment explanation
Indices: 79018636--79018877 Score: 376
Period size: 117 Copynumber: 2.1 Consensus size: 116
79018626 CAAGAGTACT
*
79018636 GAAGTACAACAAGGGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACATAAGTGC
1 GAAGTACAACAAAGGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACATAAGTGC
*
79018701 GATCAGGGGTACCGAAGTACAATAGGGGCACGTAAGTGCGTTCAGGGCTACC
66 GATCAGGGGTACCGAAGTACAATAGAGGCACGT-AGTGCGTTCAGGGCTACC
* * * * *
79018753 TAAGTACAACAAAGGCACGTAAGTGCGTTCAGGGGTATCGAAGTACAACCGGGGCACATAAGTGC
1 GAAGTACAACAAAGGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACATAAGTGC
* * * *
79018818 GATCAGGGGTACCGAAGTACAATAGAGGCATGTAGTGCTTTTAGGGGTACC
66 GATCAGGGGTACCGAAGTACAATAGAGGCACGTAGTGCGTTCAGGGCTACC
79018869 GAAGTACAA
1 GAAGTACAA
79018878 AATTTTTCTA
Statistics
Matches: 113, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
116 23 0.20
117 90 0.80
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (116 bp):
GAAGTACAACAAAGGCACATAAGTGCGATCAGGGGTACCGAAGTACAACAGGGGCACATAAGTGC
GATCAGGGGTACCGAAGTACAATAGAGGCACGTAGTGCGTTCAGGGCTACC
Found at i:79018935 original size:13 final size:13
Alignment explanation
Indices: 79018917--79018948 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79018907 TACATAAAGA
79018917 AATTTAATTAAGC
1 AATTTAATTAAGC
79018930 AATTTAATTAAGC
1 AATTTAATTAAGC
79018943 AATTTA
1 AATTTA
79018949 CTACTATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (13 bp):
AATTTAATTAAGC
Found at i:79029966 original size:15 final size:15
Alignment explanation
Indices: 79029946--79029978 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
79029936 ATAAAAAGAA
*
79029946 AAGGGAATTAACGCC
1 AAGGGAATTAACACC
79029961 AAGGGAATTAACACC
1 AAGGGAATTAACACC
79029976 AAG
1 AAG
79029979 AAACTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (15 bp):
AAGGGAATTAACACC
Found at i:79033296 original size:30 final size:30
Alignment explanation
Indices: 79033255--79033344 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
79033245 TATCAGTACA
* *
79033255 GTGTAGGCCTTAGCCCATTACAGTAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
*
79033285 GTGTGGGCCTTAGCCCAATACAGCAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAACAGT
* *
79033315 -AG-GGGCCTTAGTCCAATACAGTAATCAGT
1 GTGTGGGCCTTAGCCCAATACAGTAA-CAGT
79033344 G
1 G
79033345 CAATGTAGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.38
29 5 0.10
30 27 0.52
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAACAGT
Found at i:79033706 original size:27 final size:26
Alignment explanation
Indices: 79033676--79033949 Score: 147
Period size: 27 Copynumber: 10.2 Consensus size: 26
79033666 TATAATAGTC
*
79033676 ATTTTACCTTATGAAGGTATTTTGGTT
1 ATTTTACCTT-TGAAGGTATTTCGGTT
* *
79033703 ATTTTACCTTTCAAGGGTATTTCGGTC
1 ATTTTACCTTTGAA-GGTATTTCGGTT
* * *
79033730 ATTTTACCCTTCGAGGGCATTTCGGTT
1 ATTTTA-CCTTTGAAGGTATTTCGGTT
* ** *
79033757 ATTTTACCCTTT-AGGGGTATTTTAGTC
1 ATTTTA-CCTTTGA-AGGTATTTCGGTT
* * * *
79033784 ATTTTACCCTTCAAGGGTATTTCGATC
1 ATTTTACCTTTGAA-GGTATTTCGGTT
* *
79033811 ATTTTACCCTTT-AGGGGTATTTCGGTC
1 ATTTTA-CCTTTGA-AGGTATTTCGGTT
* * *
79033838 ATTTTACCTTTTAAGGGTATTTCAGTC
1 ATTTTACCTTTGAA-GGTATTTCGGTT
* * * * *
79033865 ATTTTACCATTCAAGGGCATTTCGATC
1 ATTTTACCTTTGAA-GGTATTTCGGTT
* * *
79033892 ATTTTACCCTTCGAGGGTATTTTGGTT
1 ATTTTA-CCTTTGAAGGTATTTCGGTT
** * *
79033919 ATTTTACCCATCAAGGGTATTTCGGTC
1 ATTTTACCTTTGAA-GGTATTTCGGTT
79033946 ATTT
1 ATTT
79033950 GCCCATGAAT
Statistics
Matches: 193, Mismatches: 43, Indels: 22
0.75 0.17 0.09
Matches are distributed among these distances:
26 16 0.08
27 164 0.85
28 13 0.07
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (26 bp):
ATTTTACCTTTGAAGGTATTTCGGTT
Found at i:79033757 original size:54 final size:54
Alignment explanation
Indices: 79033673--79033949 Score: 308
Period size: 54 Copynumber: 5.1 Consensus size: 54
79033663 GGGTATAATA
* * *
79033673 GTCATTTTACCTTATGAA-GGTATTTTGGTTATTTTACCTTTCAAGGGTATTTCG
1 GTCATTTTACCCT-TCAAGGGTATTTCGGTTATTTTACCTTTCAAGGGTATTTCG
* * * **
79033727 GTCATTTTACCCTTCGAGGGCATTTCGGTTATTTTACCCTTT-AGGGGTATTTTA
1 GTCATTTTACCCTTCAAGGGTATTTCGGTTATTTTA-CCTTTCAAGGGTATTTCG
* * *
79033781 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTT-AGGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCGGTTATTTTA-CCTTTCAAGGGTATTTCG
* * * * * *
79033835 GTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCATTCAAGGGCATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCGGTTATTTTACCTTTCAAGGGTATTTCG
* * * **
79033889 ATCATTTTACCCTTCGAGGGTATTTTGGTTATTTTACCCATCAAGGGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCGGTTATTTTACCTTTCAAGGGTATTTCG
79033943 GTCATTT
1 GTCATTT
79033950 GCCCATGAAT
Statistics
Matches: 188, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
53 6 0.03
54 177 0.94
55 5 0.03
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (54 bp):
GTCATTTTACCCTTCAAGGGTATTTCGGTTATTTTACCTTTCAAGGGTATTTCG
Found at i:79033790 original size:81 final size:81
Alignment explanation
Indices: 79033691--79033949 Score: 349
Period size: 81 Copynumber: 3.2 Consensus size: 81
79033681 ACCTTATGAA
* * * * *
79033691 GGTATTTTGGTTATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCCTTCGAGGGCATTTCGGT
1 GGTATTTTAGTCATTTTACCATTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGT
*
79033756 TATTTTACCCTTTAGG
66 TATTTTACCCTTTAAG
* *
79033772 GGTATTTTAGTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTT-TAGGGGTATTTCGG
1 GGTATTTTAGTCATTTTACCATTCAAGGGTATTTCGATCATTTTACCCTTCGA-GGGTATTTCGG
* *
79033836 TCATTTTACCTTTTAAG
65 TTATTTTACCCTTTAAG
* * *
79033853 GGTATTTCAGTCATTTTACCATTCAAGGGCATTTCGATCATTTTACCCTTCGAGGGTATTTTGGT
1 GGTATTTTAGTCATTTTACCATTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGT
* *
79033918 TATTTTACCCATCAAG
66 TATTTTACCCTTTAAG
**
79033934 GGTATTTCGGTCATTT
1 GGTATTTTAGTCATTT
79033950 GCCCATGAAT
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 155 0.99
82 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (81 bp):
GGTATTTTAGTCATTTTACCATTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGT
TATTTTACCCTTTAAG
Found at i:79036913 original size:50 final size:50
Alignment explanation
Indices: 79036833--79037074 Score: 351
Period size: 50 Copynumber: 4.8 Consensus size: 50
79036823 ATTTGGGTAA
* *
79036833 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
79036883 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
79036933 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
79036983 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
79037033 AG-GATTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAG-GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
79037075 GTACCAGAAA
Statistics
Matches: 176, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
49 1 0.01
50 175 0.99
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:79049416 original size:27 final size:26
Alignment explanation
Indices: 79049383--79049659 Score: 220
Period size: 27 Copynumber: 10.3 Consensus size: 26
79049373 GGGTATAACA
* *
79049383 ATCATTTTACCCTATGAGGGTATTTCT
1 ATCATTTTACCCT-TAAGGGTATTTCG
* * *
79049410 ATTATTTTATCCTTTAGTGGTATTTCG
1 ATCATTTTACCCTTAAG-GGTATTTCG
* * *
79049437 GTCATTTTACCCTTCGAGGGCATTTC-
1 ATCATTTTACCCTT-AAGGGTATTTCG
* *
79049463 AGTTATTTTACCCTTCAGGGGTATTTCG
1 A-TCATTTTACCCTT-AAGGGTATTTCG
*
79049491 GTCATTTTACCCTTTAAGGGTATTTC-
1 ATCATTTTACCC-TTAAGGGTATTTCG
*
79049517 AGTCATTTTACCCTTCAGGGGTATTTC-
1 A-TCATTTTACCCTT-AAGGGTATTTCG
*
79049544 AGTCATTTTACCCTTCAAGGGCATTTCG
1 A-TCATTTTACCCTT-AAGGGTATTTCG
79049572 ATCATTTTACCCTTCAAGGGTATTTCG
1 ATCATTTTACCCTT-AAGGGTATTTCG
* * * * *
79049599 GTGATTTTATCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTT-AAGGGTATTTCG
* *
79049626 ATAATTTTACCCGTCAAGGGTATTTC-
1 ATCATTTTACCC-TTAAGGGTATTTCG
79049652 AGTCATTT
1 A-TCATTT
79049660 GCCCATGAAT
Statistics
Matches: 206, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 194 0.94
28 6 0.03
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (26 bp):
ATCATTTTACCCTTAAGGGTATTTCG
Found at i:79049456 original size:54 final size:54
Alignment explanation
Indices: 79049384--79049659 Score: 317
Period size: 54 Copynumber: 5.1 Consensus size: 54
79049374 GGTATAACAA
* * * *
79049384 TCATTTTACCCTAT-GAGGGTATTTCTA-TTATTTTATCCTTTAGTGGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTC-AGTCATTTTACCCTTCAGGGGTATTTCGG
* *
79049438 TCATTTTACCCTTCGAGGGCATTTCAGTTATTTTACCCTTCAGGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGG
** *
79049492 TCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGG
* * *
79049546 TCATTTTACCCTTCAAGGGCATTTC-GATCATTTTACCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTCAGGGGTATTTCGG
* * * * * * *
79049600 TGATTTTATCCTTCGAGGGTATTT-TGATAATTTTACCCGTCAAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTTCAGGGGTATTTCGG
79049654 TCATTT
1 TCATTT
79049660 GCCCATGAAT
Statistics
Matches: 197, Mismatches: 21, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.02
54 194 0.98
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (54 bp):
TCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGG
Found at i:79049498 original size:81 final size:80
Alignment explanation
Indices: 79049386--79049659 Score: 313
Period size: 81 Copynumber: 3.4 Consensus size: 80
79049376 TATAACAATC
* * * *
79049386 ATTTTACCCTAT-GAGGGTATTTCTATTATTTTATCCTTTAGTGGTATTTCGGTCATTTTACCCT
1 ATTTTACCCT-TCAAGGGTATTTCGATCATTTTACCCTTTAG-GGTATTTCGGTCATTTTACCCT
* *
79049450 TCGAGGGCATTTCAGTT
64 TCGAGGGTATTTCAGTA
* * *
79049467 ATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTTAAGGGTATTTCAGTCATTTTACCCTT
1 ATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTT-AGGGTATTTCGGTCATTTTACCCTT
*
79049532 C-AGGGGTATTTCAGTC
65 CGA-GGGTATTTCAGTA
* * * *
79049548 ATTTTACCCTTCAAGGGCATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTGATTTTATCCTT
1 ATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTT-TAGGGTATTTCGGTCATTTTACCCTT
*
79049613 CGAGGGTATTT-TGATA
65 CGAGGGTATTTCAG-TA
*
79049629 ATTTTACCCGTCAAGGGTATTTC-AGTCATTT
1 ATTTTACCCTTCAAGGGTATTTCGA-TCATTT
79049660 GCCCATGAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
80 4 0.02
81 159 0.96
82 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.43
Consensus pattern (80 bp):
ATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTTAGGGTATTTCGGTCATTTTACCCTTC
GAGGGTATTTCAGTA
Found at i:79057224 original size:20 final size:21
Alignment explanation
Indices: 79057199--79057239 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
79057189 GAGTTTTAGA
79057199 CATAATCCAG-GGCGCTCTTC
1 CATAATCCAGCGGCGCTCTTC
79057219 CATAATCCAGCGGCGCTCTTC
1 CATAATCCAGCGGCGCTCTTC
79057240 TCCTTCACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.24
Consensus pattern (21 bp):
CATAATCCAGCGGCGCTCTTC
Found at i:79059869 original size:21 final size:22
Alignment explanation
Indices: 79059829--79059870 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
79059819 TCAAGACTTG
*
79059829 GCCTGTAAGTCTCGATACTTAA
1 GCCTGTAAGTCTCGAAACTTAA
*
79059851 GCCT-TAAGTCTCTAAACTTA
1 GCCTGTAAGTCTCGAAACTTA
79059871 GGTGCAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (22 bp):
GCCTGTAAGTCTCGAAACTTAA
Found at i:79062799 original size:13 final size:12
Alignment explanation
Indices: 79062767--79062800 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
79062757 AAAAGAGGAA
79062767 AGAAAAGAAAAG
1 AGAAAAGAAAAG
*
79062779 AGATAAGAAACAG
1 AGAAAAGAAA-AG
79062792 AGAAAAGAA
1 AGAAAAGAA
79062801 GGAAAATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.03
Consensus pattern (12 bp):
AGAAAAGAAAAG
Found at i:79078656 original size:17 final size:18
Alignment explanation
Indices: 79078630--79078674 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
79078620 GGCCAGATTT
*
79078630 GGCGTATGGGCC-ACAAG
1 GGCGTGTGGGCCTACAAG
*
79078647 GGCGTGTGGGCCTACATG
1 GGCGTGTGGGCCTACAAG
79078665 GGCGTGTGGG
1 GGCGTGTGGG
79078675 TTTTGAGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.13, C:0.20, G:0.49, T:0.18
Consensus pattern (18 bp):
GGCGTGTGGGCCTACAAG
Found at i:79079380 original size:18 final size:19
Alignment explanation
Indices: 79079348--79079383 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
79079338 CTATACTTAG
*
79079348 AAATTAATGGTTTTATTTT
1 AAATTAATGGATTTATTTT
79079367 AAATT-ATGGATTTATTT
1 AAATTAATGGATTTATTT
79079384 GAGAGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
AAATTAATGGATTTATTTT
Found at i:79084729 original size:30 final size:31
Alignment explanation
Indices: 79084695--79084762 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
79084685 AATAAACATC
* *
79084695 AAAAATTTATTTTAAAAATA-AAAAAATTAA
1 AAAAATGTAGTTTAAAAATATAAAAAATTAA
* **
79084725 AAAAAAGTAGTTTAAAAATATTTTAAAATTAA
1 AAAAATGTAGTTTAAAAATA-TAAAAAATTAA
79084757 AAAAAT
1 AAAAAT
79084763 AAAAATATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 17 0.57
32 13 0.43
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAAATGTAGTTTAAAAATATAAAAAATTAA
Found at i:79109810 original size:2 final size:2
Alignment explanation
Indices: 79109803--79109832 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
79109793 GGTGGTTCCA
79109803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79109833 CCAAGTGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79110344 original size:20 final size:18
Alignment explanation
Indices: 79110312--79110350 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
79110302 TAAATATAAA
79110312 AATAAAAATATTTAAAAT
1 AATAAAAATATTTAAAAT
79110330 AATAGAAAATCATTTAAAAT
1 AATA-AAAAT-ATTTAAAAT
79110350 A
1 A
79110351 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AATAAAAATATTTAAAAT
Found at i:79110384 original size:9 final size:9
Alignment explanation
Indices: 79110372--79110420 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
79110362 TAGAATTTTT
79110372 AAAATTATA
1 AAAATTATA
*
79110381 AAAATTATT
1 AAAATTATA
79110390 AAAATT-T-
1 AAAATTATA
*
79110397 AAAATTTTCA
1 AAAATTAT-A
79110407 AAAATTATA
1 AAAATTATA
79110416 AAAAT
1 AAAAT
79110421 GCTAAAAGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 6 0.17
8 2 0.06
9 20 0.57
10 7 0.20
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATA
Found at i:79117760 original size:16 final size:16
Alignment explanation
Indices: 79117720--79117761 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
79117710 TTCTCGACAT
79117720 AGTTGTTCTCAAAGTAG
1 AGTTGTT-TCAAAGTAG
79117737 AGGTTGTTTCAAA-TAAG
1 A-GTTGTTTCAAAGT-AG
79117754 AGTTGTTT
1 AGTTGTTT
79117762 TGCGGTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (16 bp):
AGTTGTTTCAAAGTAG
Found at i:79118012 original size:16 final size:16
Alignment explanation
Indices: 79117993--79118023 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
79117983 GTTATTCTCA
79117993 AACAACAATTATTCTG
1 AACAACAATTATTCTG
79118009 AACAACAATTATTCT
1 AACAACAATTATTCT
79118024 AAATAAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (16 bp):
AACAACAATTATTCTG
Found at i:79118071 original size:12 final size:12
Alignment explanation
Indices: 79118054--79118078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79118044 GGTGTTCAAT
79118054 CGGTTAACCGAC
1 CGGTTAACCGAC
79118066 CGGTTAACCGAC
1 CGGTTAACCGAC
79118078 C
1 C
79118079 TGAATTACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:79118661 original size:17 final size:17
Alignment explanation
Indices: 79118639--79118672 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
79118629 AGAAAAGTGT
79118639 AATAAAATAAATATATA
1 AATAAAATAAATATATA
*
79118656 AATAAAATAATTATATA
1 AATAAAATAAATATATA
79118673 CTCGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAAAATAAATATATA
Found at i:79127759 original size:51 final size:51
Alignment explanation
Indices: 79127687--79127982 Score: 296
Period size: 51 Copynumber: 5.8 Consensus size: 51
79127677 TAAATGAAAC
* * * * *
79127687 CCGGTTCACATAGTAGACTGCACATAGTACTACACATGTGACCATTTTCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATCTCAT
** * *
79127738 CCAATACACGTAGTAGCCTGCACATAGTACTACACATGTGATCGAAGCT-AT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCAATCTCAT
* * ** *
79127789 CCGGTACACATAGTAGCCTACACATAGTACTACACATGCAACC--TGTCATT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATCTCA-T
* * * *
79127839 TCGGTACACGTAGTAGCCTACACATAGTACTACACA-GTGACCATTTTCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATCTCAT
* * * *
79127889 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-AT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCAATCTCAT
*** *
79127940 CCGGTACGTATAGTAGCCTGCACATAGTACTACACATGCGACC
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC
79127983 TATCACGTAG
Statistics
Matches: 201, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.00
49 5 0.02
50 71 0.35
51 118 0.59
52 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAATCTCAT
Found at i:79127823 original size:12 final size:13
Alignment explanation
Indices: 79127793--79127825 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
79127783 AGCTATCCGG
79127793 TACACATAGTAGCC
1 TACACATAGTA-CC
79127807 TACACATAGTA-C
1 TACACATAGTACC
79127819 TACACAT
1 TACACAT
79127826 GCAACCTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:79127972 original size:151 final size:152
Alignment explanation
Indices: 79127688--79127983 Score: 495
Period size: 151 Copynumber: 2.0 Consensus size: 152
79127678 AAATGAAACC
* *
79127688 CGGTTCACATAGTAGACTGCACATAGTACTACACATGTGACCATTTTCATCCAATACACGTAGTA
1 CGGTACACATAGTAGACTACACATAGTACTACACATGTGACCATTTTCATCCAATACACGTAGTA
*
79127753 GCCTGCACATAGTACTACACATGTGATCGAAGCTATCCGGTACACATAGTAGCCTACACATAGTA
66 GCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACACATAGTAGCCTACACATAGTA
79127818 CTACACATGCAACCTGTCATTT
131 CTACACATGCAACCTGTCATTT
* * *
79127840 CGGTACACGTAGTAGCCTACACATAGTACTACACA-GTGACCATTTTCATCCGATACACGTAGTA
1 CGGTACACATAGTAGACTACACATAGTACTACACATGTGACCATTTTCATCCAATACACGTAGTA
** *
79127904 GCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGTATAGTAGCCTGCACATAGTA
66 GCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACACATAGTAGCCTACACATAGTA
*
79127969 CTACACATGCGACCT
131 CTACACATGCAACCT
79127984 ATCACGTAGT
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
151 103 0.77
152 31 0.23
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (152 bp):
CGGTACACATAGTAGACTACACATAGTACTACACATGTGACCATTTTCATCCAATACACGTAGTA
GCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACACATAGTAGCCTACACATAGTA
CTACACATGCAACCTGTCATTT
Found at i:79128014 original size:12 final size:13
Alignment explanation
Indices: 79127949--79128015 Score: 50
Period size: 14 Copynumber: 5.1 Consensus size: 13
79127939 TCCGGTACGT
*
79127949 ATAGTAGCCTGCAC
1 ATAGTA-CCTACAC
79127963 ATAGTA-CTACAC
1 ATAGTACCTACAC
*
79127975 AT-GCGACCTATCAC
1 ATAG-TACCTA-CAC
*
79127989 GTAGTAGCCTACAC
1 ATAGTA-CCTACAC
79128003 ATAGTA-CTACAC
1 ATAGTACCTACAC
79128015 A
1 A
79128016 CGTGACCTAG
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
11 1 0.02
12 15 0.35
13 3 0.07
14 19 0.44
15 5 0.12
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.22
Consensus pattern (13 bp):
ATAGTACCTACAC
Found at i:79131253 original size:15 final size:16
Alignment explanation
Indices: 79131233--79131262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79131223 TATTCTTAAT
79131233 ATTTTC-ATTTTTATA
1 ATTTTCTATTTTTATA
79131248 ATTTTCTATTTTTAT
1 ATTTTCTATTTTTAT
79131263 TTTTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTCTATTTTTATA
Found at i:79139185 original size:15 final size:16
Alignment explanation
Indices: 79139160--79139204 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
79139150 TTAAATTAAA
79139160 AAATT-AAATAT-TTT
1 AAATTAAAATATATTT
79139174 AAATTAAAATATATTT
1 AAATTAAAATATATTT
*
79139190 AATTTTAAAATATAT
1 AA-ATTAAAATATAT
79139205 ATTTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 5 0.19
17 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTAAAATATATTT
Found at i:79139187 original size:17 final size:18
Alignment explanation
Indices: 79139167--79139211 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
79139157 AAAAAATTAA
79139167 ATATTTTAA-ATTAAAAT
1 ATATTTTAATATTAAAAT
*
79139184 ATA-TTTAATTTTAAAAT
1 ATATTTTAATATTAAAAT
79139201 ATATATTTAAT
1 ATAT-TTTAAT
79139212 TTTTTTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 13 0.54
19 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTTTAATATTAAAAT
Found at i:79140066 original size:19 final size:19
Alignment explanation
Indices: 79140023--79140081 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
79140013 AATATATAAA
79140023 TAAT-AAATTATAAAA-TT
1 TAATAAAATTATAAAATTT
79140040 TAGA-AAAATTATAAAATTT
1 TA-ATAAAATTATAAAATTT
*
79140059 TAATAAAAATATAAAAATTT
1 TAATAAAATTAT-AAAATTT
79140079 TAA
1 TAA
79140082 AATTTATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 2 0.06
18 13 0.36
19 11 0.31
20 10 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAATAAAATTATAAAATTT
Found at i:79140068 original size:20 final size:20
Alignment explanation
Indices: 79140021--79140081 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
79140011 AAAATATATA
79140021 AATAATAAATTATAAAA-TTT
1 AATAA-AAATTATAAAATTTT
*
79140041 -AGAAAAATTATAAAATTTT
1 AATAAAAATTATAAAATTTT
79140060 AATAAAAA-TATAAAAATTTT
1 AATAAAAATTAT-AAAATTTT
79140080 AA
1 AA
79140082 AATTTATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 11 0.31
19 9 0.25
20 16 0.44
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AATAAAAATTATAAAATTTT
Found at i:79140074 original size:28 final size:28
Alignment explanation
Indices: 79140043--79140103 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
79140033 TAAAATTTAG
79140043 AAAAATTATAAAATTTTAATAAAAAT-AT
1 AAAAATTATAAAA-TTTAATAAAAATCAT
* *
79140071 AAAAATTTTAAAATTTATTAAAAATCAT
1 AAAAATTATAAAATTTAATAAAAATCAT
79140099 AAAAA
1 AAAAA
79140104 AATAAAGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAATTATAAAATTTAATAAAAATCAT
Found at i:79140329 original size:59 final size:60
Alignment explanation
Indices: 79140261--79140409 Score: 173
Period size: 59 Copynumber: 2.5 Consensus size: 60
79140251 ATTTACGAAA
* *
79140261 TTTATATTTCTTTACATTTTGTATAATTTTCTTATGA-TTTTATAAAATTTTATAA-CTTT
1 TTTATATTTCTTTACATTTT-TATAATTTTCTTATAATTTTTATAAAATTTTACAATCTTT
* * * *
79140320 TTTATATTTC--AAAATATTTTATAATTTTTTTATAATTTTTATAAAATTTTACAATTTTT
1 TTTATATTTCTTTACAT-TTTTATAATTTTCTTATAATTTTTATAAAATTTTACAATCTTT
*
79140379 TTTATATTTTTTTACAATTTTTAT-ATTTTCT
1 TTTATATTTCTTTAC-ATTTTTATAATTTTCT
79140410 AATTTTTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
57 17 0.23
58 20 0.27
59 22 0.30
60 6 0.08
61 7 0.09
62 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (60 bp):
TTTATATTTCTTTACATTTTTATAATTTTCTTATAATTTTTATAAAATTTTACAATCTTT
Found at i:79140339 original size:28 final size:27
Alignment explanation
Indices: 79140282--79140379 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 27
79140272 TTACATTTTG
*
79140282 TATAATTTTCTTATGATTTTATAAAATTT
1 TATAATTTT-TTAT-ATTTCATAAAATTT
79140311 TATAACTTTTTTATATTTCA-AAATATTT
1 TATAA-TTTTTTATATTTCATAAA-ATTT
*
79140339 TATAATTTTTTTATAATTTTTATAAAATTT
1 TATAA-TTTTTTAT-A-TTTCATAAAATTT
*
79140369 TACAATTTTTT
1 TATAATTTTTT
79140380 TTATATTTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.05
28 22 0.37
29 16 0.27
30 16 0.27
31 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (27 bp):
TATAATTTTTTATATTTCATAAAATTT
Found at i:79140352 original size:11 final size:11
Alignment explanation
Indices: 79140336--79140400 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 11
79140326 TTTCAAAATA
79140336 TTTTATAATTT
1 TTTTATAATTT
79140347 TTTTATAA--T
1 TTTTATAATTT
**
79140356 TTTTATAA-AA
1 TTTTATAATTT
*
79140366 TTTTACAATTT
1 TTTTATAATTT
79140377 TTTT-TATATTT
1 TTTTATA-ATTT
*
79140388 TTTTACAATTT
1 TTTTATAATTT
79140399 TT
1 TT
79140401 ATATTTTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 9 0.20
10 8 0.18
11 26 0.59
12 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:79140376 original size:30 final size:29
Alignment explanation
Indices: 79140282--79140407 Score: 123
Period size: 30 Copynumber: 4.3 Consensus size: 29
79140272 TTACATTTTG
* *
79140282 TATAATTTTCTTATGATTTTATAAAATTT
1 TATAATTTTTTTATAATTTTATAAAATTT
* *
79140311 TATAACTTTTTTAT-ATTTCA-AAATATTT
1 TATAATTTTTTTATAATTTTATAAA-ATTT
79140339 TATAATTTTTTTATAATTTTTATAAAATTT
1 TATAATTTTTTTATAA-TTTTATAAAATTT
* * * *
79140369 TACAATTTTTTTTATATTTTTTTACAATTT
1 TATAA-TTTTTTTATAATTTTATAAAATTT
79140399 T-TATATTTT
1 TATA-ATTTT
79140408 CTAATTTTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
27 3 0.04
28 22 0.27
29 18 0.22
30 25 0.31
31 13 0.16
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.63
Consensus pattern (29 bp):
TATAATTTTTTTATAATTTTATAAAATTT
Found at i:79140380 original size:22 final size:22
Alignment explanation
Indices: 79140355--79140400 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
79140345 TTTTTTATAA
79140355 TTTTTATAAAATTTTACAATTT
1 TTTTTATAAAATTTTACAATTT
***
79140377 TTTTTATATTTTTTTACAATTT
1 TTTTTATAAAATTTTACAATTT
79140399 TT
1 TT
79140401 ATATTTTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATAAAATTTTACAATTT
Done.