Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 20 of 131
Found at i:6751465 original size:13 final size:13
Alignment explanation
Indices: 6751447--6751504 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
6751437 AAAACGACCT
6751447 AAACCCCAAACCC
1 AAACCCCAAACCC
*
6751460 AAACCCCAAACCTT
1 AAACCCCAAACC-C
*
6751474 AAACCCAAAACTCCC
1 AAACCCCAAA--CCC
* *
6751489 AAACTCTAAACCC
1 AAACCCCAAACCC
6751502 AAA
1 AAA
6751505 ACACTAAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 18 0.49
14 9 0.24
15 8 0.22
16 2 0.05
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.09
Consensus pattern (13 bp):
AAACCCCAAACCC
Found at i:6751492 original size:22 final size:21
Alignment explanation
Indices: 6751454--6751506 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
6751444 CCTAAACCCC
6751454 AAACCC-AAACCCCAAAC-CTT
1 AAACCCAAAACCCCAAACTC-T
6751474 AAACCCAAAACTCCCAAACTCT
1 AAACCCAAAAC-CCCAAACTCT
6751496 AAACCCAAAAC
1 AAACCCAAAAC
6751507 ACTAAACCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.20
21 4 0.13
22 19 0.63
23 1 0.03
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.09
Consensus pattern (21 bp):
AAACCCAAAACCCCAAACTCT
Found at i:6751532 original size:7 final size:7
Alignment explanation
Indices: 6751444--6751533 Score: 58
Period size: 7 Copynumber: 13.0 Consensus size: 7
6751434 ACTAAAACGA
6751444 CCTAAAC
1 CCTAAAC
*
6751451 CCCAAAC
1 CCTAAAC
6751458 CC-AAAC
1 CCTAAAC
*
6751464 CCCAAAC
1 CCTAAAC
*
6751471 CTTAAAC
1 CCTAAAC
*
6751478 CCAAAAC
1 CCTAAAC
*
6751485 TCCCAAAC
1 -CCTAAAC
*
6751493 TCTAAAC
1 CCTAAAC
*
6751500 CCAAAAC
1 CCTAAAC
*
6751507 ACTAAA-
1 CCTAAAC
* *
6751513 CCTACAT
1 CCTAAAC
*
6751520 CATAAAC
1 CCTAAAC
6751527 CCTAAAC
1 CCTAAAC
6751534 TCAAAACTCC
Statistics
Matches: 62, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
6 10 0.16
7 46 0.74
8 6 0.10
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
CCTAAAC
Found at i:6751966 original size:114 final size:114
Alignment explanation
Indices: 6751811--6752217 Score: 451
Period size: 114 Copynumber: 3.6 Consensus size: 114
6751801 TTTTTACATG
*
6751811 AGCGCCACTAATTCTAATATACATCAAGACCAAAC-ATTGCGTTTTGGTTAAGATATTTTGCGGT
1 AGCGCCACTAATTCTAATATACATCAAGACCAAACGA-TGCGTTTTGGTTAAGATATTTTGCGGC
* * * **
6751875 GATTCTTACAAAGCGCCTCTAATACTCTGCTTTAGTGGCCTTTTTCCGTA
65 GTTTCTTACAAAGCGCCTCTAATACTCTGCTTTAGCGGCGTTTTTCCACA
** * * * *
6751925 ATTGCCACTAATTTTTATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCG
1 AGCGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCG
* * * ** *
6751990 TTTCATT-CAAAACGCCACCAATACGGTGCTATAGCGGCGTTTTTCCACA
66 TTTC-TTACAAAGCGCCTCTAATACTCTGCTTTAGCGGCGTTTTTCCACA
* * * *
6752039 AGCGCCACTAATTCTAATATACGTTAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTACGGCG
1 AGCGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCG
* *
6752104 TTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCG-TTTTCCATA
66 TTTCTTACAAAGCGCCTCTAATACTCTGCTTTAGCGGCGTTTTTCCACA
* * * * ** * * * * *
6752152 AACGCCACCAAGTCTAATATACCTCGGGAACAAACGCTGCGTTTTGGCTAACATTTTTTTGCGGC
1 AGCGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGA-TATTTTGCGGC
6752217 G
65 G
6752218 CTTACAAATA
Statistics
Matches: 241, Mismatches: 48, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
113 53 0.22
114 185 0.77
115 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (114 bp):
AGCGCCACTAATTCTAATATACATCAAGACCAAACGATGCGTTTTGGTTAAGATATTTTGCGGCG
TTTCTTACAAAGCGCCTCTAATACTCTGCTTTAGCGGCGTTTTTCCACA
Found at i:6752233 original size:228 final size:227
Alignment explanation
Indices: 6751811--6752233 Score: 535
Period size: 228 Copynumber: 1.9 Consensus size: 227
6751801 TTTTTACATG
* * *
6751811 AGCGCCACTAATTCTAATATACATCAAGACCAAACATTGCGTTTTGGTTAAGATATTTTGCGGTG
1 AGCGCCACTAATTCTAATATACATCAAGACCAAACACTGCGTTTTGGTTAAGATATTTTACGGCG
* * * * ** * * * *
6751876 ATTCTTACAAAGCGCCTCTAATACTCTGCTTTAGTGGCCTTTTTCCGTAATTGCCACTAATTTTT
66 ATTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCCGTTTTCCATAAACGCCACCAAGTCTA
* * * * * *
6751941 ATATTCATCAAGACCAAACGATGCGTTTTGGTTAAGATATCTTGCGGCGTTTCATTCAAAACGCC
131 ATATACATCAAGAACAAACGATGCGTTTTGGCTAACATATCTTGCGGCGTTACAAT-AAAACGCC
6752006 ACCAATACGGTGCTATAGCGGCGTTTTTCCACA
195 ACCAATACGGTGCTATAGCGGCGTTTTTCCACA
* * *
6752039 AGCGCCACTAATTCTAATATACGTTAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTACGGCG
1 AGCGCCACTAATTCTAATATACATCAAGACCAAACACTGCGTTTTGGTTAAGATATTTTACGGCG
*
6752104 TTTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGG-CGTTTTCCATAAACGCCACCAAGTCTA
66 ATTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCCGTTTTCCATAAACGCCACCAAGTCTA
* ** * * *
6752168 ATATACCTCGGGAACAAACGCTGCGTTTTGGCTAACATTTTTTTGCGGCGCTTACAA-ATAAACG
131 ATATACATCAAGAACAAACGATGCGTTTTGGCTAACA-TATCTTGCGGCG-TTACAATA-AAACG
6752232 CC
193 CC
6752234 GCTAATTGTG
Statistics
Matches: 163, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
227 49 0.30
228 110 0.67
229 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (227 bp):
AGCGCCACTAATTCTAATATACATCAAGACCAAACACTGCGTTTTGGTTAAGATATTTTACGGCG
ATTCTTACAAAGCGCCTCTAATACTCTCCTTTAGCGGCCGTTTTCCATAAACGCCACCAAGTCTA
ATATACATCAAGAACAAACGATGCGTTTTGGCTAACATATCTTGCGGCGTTACAATAAAACGCCA
CCAATACGGTGCTATAGCGGCGTTTTTCCACA
Found at i:6754119 original size:84 final size:83
Alignment explanation
Indices: 6753972--6754140 Score: 284
Period size: 84 Copynumber: 2.0 Consensus size: 83
6753962 CTCTAGTAGC
**
6753972 TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGATGAATTAG
1 TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGACAAATTAG
*
6754037 AGAAATAGATTTGTATGTA
66 AGAAATAGA-CTGTATGTA
* *
6754056 TCGATATATCCTTGAGCGGTTTGCGTTTGGATCGATGATGTGAATATATGAAAATGACAAATTAG
1 TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGACAAATTAG
6754121 AGAAATAGACTGTATGTA
66 AGAAATAGACTGTATGTA
6754139 TC
1 TC
6754141 ACTATCCACA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
83 10 0.12
84 70 0.88
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (83 bp):
TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGACAAATTAG
AGAAATAGACTGTATGTA
Found at i:6771689 original size:3 final size:3
Alignment explanation
Indices: 6771675--6771714 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
6771665 TCGTCCGTTG
* * *
6771675 TCA TCA TTA TCA TCA TCA TTA TTA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
6771715 AAGTCCCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (3 bp):
TCA
Found at i:6771692 original size:12 final size:12
Alignment explanation
Indices: 6771675--6771714 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
6771665 TCGTCCGTTG
6771675 TCATCATTATCA
1 TCATCATTATCA
*
6771687 TCATCATTATTA
1 TCATCATTATCA
*
6771699 TCATCATCATCA
1 TCATCATTATCA
6771711 TCAT
1 TCAT
6771715 AAGTCCCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:6771698 original size:15 final size:15
Alignment explanation
Indices: 6771675--6771711 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6771665 TCGTCCGTTG
6771675 TCATCATTATCATCA
1 TCATCATTATCATCA
*
6771690 TCATTATTATCATCA
1 TCATCATTATCATCA
6771705 TCATCAT
1 TCATCAT
6771712 CATAAGTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:6772781 original size:3 final size:3
Alignment explanation
Indices: 6772775--6772834 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
6772765 GGTTTTGGCG
* * * *
6772775 CTT CTT CTT -TGT CTT CTT CTT CTT CAT CAT CAT CAT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
6772820 CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
6772835 GTTGCTGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.07, C:0.32, G:0.02, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:6773912 original size:48 final size:49
Alignment explanation
Indices: 6773858--6773957 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 49
6773848 TGTTTACACA
* * * *
6773858 TTTTATCAATTTGGTCTTGAACT-AAAAATTCAATAATTTTAGCCCTCG
1 TTTTATCAATTTGATCCTAAAATCAAAAATTCAATAATTTTAGCCCTCG
* *
6773906 TTTTATCAATTTGATCCTAAAATCAATAATTCAATAATTTTAGCCCTTG
1 TTTTATCAATTTGATCCTAAAATCAAAAATTCAATAATTTTAGCCCTCG
6773955 TTT
1 TTT
6773958 ATAAAATTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
48 19 0.42
49 26 0.58
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (49 bp):
TTTTATCAATTTGATCCTAAAATCAAAAATTCAATAATTTTAGCCCTCG
Found at i:6774895 original size:29 final size:30
Alignment explanation
Indices: 6774807--6774919 Score: 83
Period size: 29 Copynumber: 3.8 Consensus size: 30
6774797 TTATTTTATT
* *
6774807 TTTTTAGA-ATTAAAATTAAA-TGA-AAAA
1 TTTTTAAATATTAAGATTAAATTGATAAAA
* * *
6774834 TTTTATAAATATTAAAGACT-AATATGGTTAAA
1 TTTT-TAAATATT-AAGATTAAAT-TGATAAAA
6774866 TTTTTAAAT-TTAAGATTAAATTGATAAAA
1 TTTTTAAATATTAAGATTAAATTGATAAAA
* *
6774895 TATGTAAATATTAGAGAGTTAAATT
1 TTTTTAAATATTA-AGA-TTAAATT
6774920 CAAGTATTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
27 4 0.06
28 3 0.05
29 23 0.35
30 12 0.18
31 10 0.15
32 14 0.21
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.41
Consensus pattern (30 bp):
TTTTTAAATATTAAGATTAAATTGATAAAA
Found at i:6780844 original size:23 final size:23
Alignment explanation
Indices: 6780811--6780855 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6780801 TAGGTTTTTT
*
6780811 CTAAATGTTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATC
*
6780834 CTAAATATTATTACTAAATAAT
1 CTAAATATTATCACTAAATAAT
6780856 TCAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATC
Found at i:6783008 original size:18 final size:20
Alignment explanation
Indices: 6782987--6783027 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 20
6782977 TAAAACATTC
6782987 TAAAATGTAA-AAAAT-AAA
1 TAAAATGTAAGAAAATAAAA
*
6783005 T-AAATTTAAGAAAATAAAA
1 TAAAATGTAAGAAAATAAAA
6783024 TAAA
1 TAAA
6783028 TGGATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 4 0.21
20 2 0.11
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAAATGTAAGAAAATAAAA
Found at i:6783725 original size:22 final size:24
Alignment explanation
Indices: 6783673--6783725 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
6783663 AGTGGGAAGG
*
6783673 AAAAAAGCCTTGAAAGATAATTAAA
1 AAAAAAG-CTTGAAAGATAAATAAA
**
6783698 CTAAAAG-TTGAAAG-TAAATAAA
1 AAAAAAGCTTGAAAGATAAATAAA
6783720 AAAAAA
1 AAAAAA
6783726 AGAATGAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 11 0.48
23 7 0.30
25 5 0.22
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (24 bp):
AAAAAAGCTTGAAAGATAAATAAA
Found at i:6783891 original size:13 final size:13
Alignment explanation
Indices: 6783873--6783938 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
6783863 TAGATTTTTT
6783873 CTAAATATTATCA
1 CTAAATATTATCA
6783886 CTAAATA--AT-A
1 CTAAATATTATCA
*
6783896 CTAAATATTTTCA
1 CTAAATATTATCA
6783909 CTAAATAATT-T--
1 CTAAAT-ATTATCA
6783920 -TAAATATTATCA
1 CTAAATATTATCA
6783932 CTAAATA
1 CTAAATA
6783939 ATTCAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
9 3 0.07
10 14 0.32
11 2 0.05
12 1 0.02
13 21 0.48
14 3 0.07
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:6783941 original size:23 final size:23
Alignment explanation
Indices: 6783871--6783946 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
6783861 GCTAGATTTT
6783871 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
* *
6783894 TACTAAATATTTTCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
*
6783917 TTTTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
6783940 TTC-AAAT
1 TTCTAAAT
6783947 TTTAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 4 0.09
23 43 0.91
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:6787565 original size:10 final size:10
Alignment explanation
Indices: 6787552--6787592 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
6787542 AAATTTAAAA
6787552 TTTTTATAA-
1 TTTTTATAAT
6787561 TTTTTA-AAT
1 TTTTTATAAT
**
6787570 TTTTTATGTT
1 TTTTTATAAT
6787580 TTTTTATAAT
1 TTTTTATAAT
6787590 TTT
1 TTT
6787593 AGAATGAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 2 0.08
9 12 0.46
10 12 0.46
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:6787571 original size:17 final size:17
Alignment explanation
Indices: 6787533--6787573 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6787523 AAATTCAAAT
*
6787533 AATTATTATAAATTTAA
1 AATTTTTATAAATTTAA
* *
6787550 AATTTTTATAATTTTTA
1 AATTTTTATAAATTTAA
6787567 AATTTTT
1 AATTTTT
6787574 TATGTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTATAAATTTAA
Found at i:6798799 original size:37 final size:37
Alignment explanation
Indices: 6798744--6798837 Score: 109
Period size: 37 Copynumber: 2.5 Consensus size: 37
6798734 ATGTGCCGAC
* * *
6798744 TACTTTTACTGTTACCGATTCGGA-ACTGTGTGTCTAA
1 TACTGTTACTGTTACCGATT-GGACACTGCGTGTCGAA
* *
6798781 TATTGTTACTGTTACCGATTTGACACTGCGTGTCGAA
1 TACTGTTACTGTTACCGATTGGACACTGCGTGTCGAA
* *
6798818 TACTGTTACCGTTACTGATT
1 TACTGTTACTGTTACCGATT
6798838 ACTGTTTACT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 2 0.04
37 46 0.96
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (37 bp):
TACTGTTACTGTTACCGATTGGACACTGCGTGTCGAA
Found at i:6799489 original size:43 final size:42
Alignment explanation
Indices: 6799360--6799525 Score: 269
Period size: 42 Copynumber: 3.9 Consensus size: 42
6799350 GTTTACAAAC
* *
6799360 AAAAACGCCGCTAAAAACCATGTTCTTTAGCAGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
6799402 AAAAACACCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
*
6799444 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAGAAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG-AA
* *
6799487 AAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTA
6799526 TTCTTAAGCG
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 77 0.67
43 38 0.33
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:6799559 original size:85 final size:84
Alignment explanation
Indices: 6799360--6799566 Score: 202
Period size: 85 Copynumber: 2.5 Consensus size: 84
6799350 GTTTACAAAC
****
6799360 AAAAACGCCGCTAAA-AACCATGTTCTTTAGCAGCGCTTAGAAAAAAACACCGCTAAAGACCATG
1 AAAAACGCCGCTAAAGAA-CATGAAAATTAGCAGCGCTTAGAAAAAAACACCGCTAAAGACCATG
6799424 TTCTTTAGCGGCGCTTAGAA
65 TTCTTTAGCGGCGCTTAGAA
* **** * * *
6799444 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTAGAAAAAAA-ATGCCGCTAAAGATCAT
1 AAAAACGCCGCTAAAGAACATGAAAATTAGCAGCGCTTAGAAAAAAACA--CCGCTAAAGACCAT
***
6799508 GTTCTTTAGCGGCGCTTATTC
64 GTTCTTTAGCGGCGCTTAGAA
** * *
6799529 TTAAGCGCCGCTAAAGAACATGAAAATTAGCTGCGCTT
1 AAAAACGCCGCTAAAGAACATGAAAATTAGCAGCGCTT
6799567 TCATACAAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
83 1 0.01
84 42 0.41
85 60 0.58
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (84 bp):
AAAAACGCCGCTAAAGAACATGAAAATTAGCAGCGCTTAGAAAAAAACACCGCTAAAGACCATGT
TCTTTAGCGGCGCTTAGAA
Found at i:6822682 original size:7 final size:7
Alignment explanation
Indices: 6822672--6822716 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
6822662 ACCTCAAAAA
6822672 CCAAACC
1 CCAAACC
6822679 CCAAACC
1 CCAAACC
*
6822686 CTAAACC
1 CCAAACC
*
6822693 CTAAACC
1 CCAAACC
6822700 CCAAACC
1 CCAAACC
6822707 CCAAAACC
1 CC-AAACC
6822715 CC
1 CC
6822717 GAACAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
7 28 0.80
8 7 0.20
ACGTcount: A:0.42, C:0.53, G:0.00, T:0.04
Consensus pattern (7 bp):
CCAAACC
Found at i:6822683 original size:14 final size:14
Alignment explanation
Indices: 6822660--6822715 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
6822650 TGTAATCCTT
* *
6822660 AAACCTCAAAAACC
1 AAACCCCAAAACCC
6822674 AAACCCC-AAACCC
1 AAACCCCAAAACCC
* *
6822687 TAAACCCTAAACCCC
1 -AAACCCCAAAACCC
6822702 AAACCCCAAAACCC
1 AAACCCCAAAACCC
6822716 CGAACAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.15
14 24 0.71
15 5 0.15
ACGTcount: A:0.48, C:0.46, G:0.00, T:0.05
Consensus pattern (14 bp):
AAACCCCAAAACCC
Found at i:6823416 original size:18 final size:18
Alignment explanation
Indices: 6823393--6823428 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6823383 ATTGAATTTT
6823393 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
6823411 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
6823429 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:6823436 original size:18 final size:19
Alignment explanation
Indices: 6823397--6823436 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6823387 AATTTTAATT
*
6823397 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
6823416 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
6823434 AAT
1 AAT
6823437 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:6824002 original size:114 final size:115
Alignment explanation
Indices: 6823531--6824094 Score: 421
Period size: 114 Copynumber: 4.9 Consensus size: 115
6823521 GTTTCGGTAA
* ** *
6823531 AAGCGCCGCTAATACTATGC-TTCAGCGGCGTTTTAC--CATGTGCGCCACTAATTCCAATATAC
1 AAGCGCCGCTAATACTATACATT-AGCGGCGTTTT-CTTCATAAGCGCCACTAATTGCAATATAC
* *
6823593 ATCAAGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCGGCGCGTT-ACAC-
64 ATCAAG-ACTAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGC-TTAACACT
* *
6823645 AAACGCCGCTAATGA-TATACTTTAGCGGCG-TTT-TTCATCAAGCGCCACTAATT-CTAATACT
1 AAGCGCCGCTAAT-ACTATACATTAGCGGCGTTTTCTTCAT-AAGCGCCACTAATTGC-AATA-T
* * * * * * *
6823706 -CCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTGGAGGCGCTTACCACA
62 ACATCAAGACTAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
* * * * * * ** *
6823759 AAACACTGCT-ATAACTATCCTTTA-CTGGCGTTTCCCTT-A-AA-CGCCACTAATTATAGTATA
1 AAGCGCCGCTAAT-ACTATACATTAGC-GGCGTTT-TCTTCATAAGCGCCACTAATTGCAATATA
* * * * * *
6823819 CATCAAGACCAAAACGGTGCGTTTTGATTAAGATATCTTGCGGCGTTTAACGCT
63 CATCAAGA-CTAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
** * *
6823873 TTGTGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGCAATATACAT
1 AAGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTCATAAGCGCCACTAATTGCAATATACAT
* * * * *
6823938 CAAGACTAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTT-CCGCT
66 CAAGACTAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
* * * *
6823987 AAGCGCCGCTAATACTATACATTACCGGCG-TTTGTTCATAAGCGCCATTAA-TGCCAATATAGA
1 AAGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTCATAAGCGCCACTAATTG-CAATATACA
* * * *
6824050 -CCAGAACGAGAACGCTGCGTGTTGGTCT-TGATATTTTGCGGCGCT
65 TCAAG-ACTA-AACGCTGCGTTTTGGT-TAAGATATTTTGCGGCGCT
6824095 GCGTGGTAAA
Statistics
Matches: 357, Mismatches: 67, Indels: 52
0.75 0.14 0.11
Matches are distributed among these distances:
112 8 0.02
113 99 0.28
114 180 0.50
115 43 0.12
116 25 0.07
117 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (115 bp):
AAGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTCATAAGCGCCACTAATTGCAATATACAT
CAAGACTAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAACACT
Found at i:6830346 original size:18 final size:19
Alignment explanation
Indices: 6830311--6830352 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6830301 ATTAACTAAA
6830311 TTTATATAAATTTATATTT
1 TTTATATAAATTTATATTT
6830330 TTTAT-TAAATCTT-TATTT
1 TTTATATAAAT-TTATATTT
6830348 TTTAT
1 TTTAT
6830353 GTGTATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATAAATTTATATTT
Found at i:6830867 original size:12 final size:12
Alignment explanation
Indices: 6830850--6830889 Score: 80
Period size: 12 Copynumber: 3.3 Consensus size: 12
6830840 TATTTTTTAA
6830850 TTTTAAAATACT
1 TTTTAAAATACT
6830862 TTTTAAAATACT
1 TTTTAAAATACT
6830874 TTTTAAAATACT
1 TTTTAAAATACT
6830886 TTTT
1 TTTT
6830890 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:6830918 original size:26 final size:27
Alignment explanation
Indices: 6830873--6830927 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
6830863 TTTAAAATAC
* * *
6830873 TTTTTAAAATACTTTTTTTATTTTTTA
1 TTTTTAAAATACATTTTTTAGTGTTTA
6830900 TTTTTAAAATA-ATTTTTTAGTGTTTA
1 TTTTTAAAATACATTTTTTAGTGTTTA
6830926 TT
1 TT
6830928 AAATAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTAAAATACATTTTTTAGTGTTTA
Found at i:6833728 original size:15 final size:15
Alignment explanation
Indices: 6833708--6833738 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6833698 CTTATAAGGA
6833708 ACCAAGCCTTTTTAC
1 ACCAAGCCTTTTTAC
6833723 ACCAAGCCTTTTTAC
1 ACCAAGCCTTTTTAC
6833738 A
1 A
6833739 GGATCTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.32
Consensus pattern (15 bp):
ACCAAGCCTTTTTAC
Found at i:6836489 original size:11 final size:11
Alignment explanation
Indices: 6836475--6836517 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
6836465 AGTTAAATAT
6836475 TATTTTATTAA
1 TATTTTATTAA
6836486 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
6836499 TA-TTTATTAG
1 TATTTTATTAA
6836509 TATTTTATT
1 TATTTTATT
6836518 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6836504 original size:23 final size:23
Alignment explanation
Indices: 6836478--6836521 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6836468 TAAATATTAT
6836478 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
6836501 TTTATTAGTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
6836522 AAATGGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:6838221 original size:18 final size:19
Alignment explanation
Indices: 6838189--6838233 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
6838179 ACAACACCTA
*
6838189 AACAGTAATTAGTAACGGT
1 AACAGTAATTAGTAACAGT
*
6838208 AGCAGTAA-TAGTAACAGT
1 AACAGTAATTAGTAACAGT
6838226 AACAGTAA
1 AACAGTAA
6838234 CAATATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AACAGTAATTAGTAACAGT
Found at i:6839282 original size:7 final size:7
Alignment explanation
Indices: 6839270--6839317 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
6839260 AACTTACCAA
6839270 TTAAACC
1 TTAAACC
6839277 TTAAACC
1 TTAAACC
6839284 TTAAACC
1 TTAAACC
6839291 -TAAACC
1 TTAAACC
6839297 TTAAACC
1 TTAAACC
*
6839304 CTAAACC
1 TTAAACC
*
6839311 CTAAACC
1 TTAAACC
6839318 CTTTCAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:6839294 original size:20 final size:21
Alignment explanation
Indices: 6839271--6839317 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
6839261 ACTTACCAAT
*
6839271 TAAACCTTAAACCTTAAA-CC
1 TAAACCTTAAACCCTAAACCC
6839291 TAAACCTTAAACCCTAAACCC
1 TAAACCTTAAACCCTAAACCC
6839312 TAAACC
1 TAAACC
6839318 CTTTCAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACCC
Found at i:6839658 original size:17 final size:16
Alignment explanation
Indices: 6839627--6839670 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
6839617 GATTTATTTA
6839627 ATAATATAATATCATT
1 ATAATATAATATCATT
*
6839643 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
6839660 AATTATATAAT
1 -ATAATATAAT
6839671 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:6843471 original size:16 final size:16
Alignment explanation
Indices: 6843450--6843480 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6843440 CCTCCTCTCC
*
6843450 TCAAAATAGAACCTCA
1 TCAAAACAGAACCTCA
6843466 TCAAAACAGAACCTC
1 TCAAAACAGAACCTC
6843481 CTCTGGACAT
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:0.48, C:0.29, G:0.06, T:0.16
Consensus pattern (16 bp):
TCAAAACAGAACCTCA
Found at i:6845718 original size:43 final size:46
Alignment explanation
Indices: 6845671--6845771 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 46
6845661 AGTAGTAATA
* * * *
6845671 GTAACAGTAACAGG-AACAGTATTC-A-ACATACAGTGTTGAATCT
1 GTAACAGTAACAGGTAACAGTATTCGACACACAAAGTGTCGAATCG
*
6845714 GTAACCGTAAC-GGTAACAGTATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGGTAACAGTATTCGACACACAAAGTGTCGAATCG
6845759 GTAACAGTAACAG
1 GTAACAGTAACAG
6845772 TAGCCGGCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
42 2 0.04
43 20 0.42
44 1 0.02
45 24 0.50
46 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.22
Consensus pattern (46 bp):
GTAACAGTAACAGGTAACAGTATTCGACACACAAAGTGTCGAATCG
Found at i:6846019 original size:40 final size:41
Alignment explanation
Indices: 6845973--6846060 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
6845963 AATTCATTAC
* * *
6845973 TTCAGTAATTTCACAGTTCAATGCAGTACAC-ATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
* * *
6846013 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAAATAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
6846054 TTCAGTA
1 TTCAGTA
6846061 TTCCATAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 27 0.66
41 14 0.34
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (41 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAAACAATA
Found at i:6846038 original size:21 final size:21
Alignment explanation
Indices: 6845973--6846040 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
6845963 AATTCATTAC
* *
6845973 TTCAGTAATTTCACAGTTCAA
1 TTCAGTAACTTCACAATTCAA
* * *
6845994 TGCAGTACACATAACAA-T--A
1 TTCAGTA-ACTTCACAATTCAA
6846013 TTCAGTAACTTCACAATTCAA
1 TTCAGTAACTTCACAATTCAA
6846034 TTCAGTA
1 TTCAGTA
6846041 CTCAAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
21 15 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
TTCAGTAACTTCACAATTCAA
Found at i:6846859 original size:24 final size:23
Alignment explanation
Indices: 6846820--6846864 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
6846810 AACTTTGTTT
*
6846820 CTTTTGTTTTATGTTTTCTTTTC
1 CTTTTGTTTTATGTTTACTTTTC
6846843 CTTTT-TTTTATTCGTTTACTTT
1 CTTTTGTTTTA-T-GTTTACTTT
6846865 ATTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 6 0.32
24 8 0.42
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (23 bp):
CTTTTGTTTTATGTTTACTTTTC
Found at i:6847163 original size:17 final size:16
Alignment explanation
Indices: 6847132--6847175 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
6847122 GATTTATTTA
6847132 ATAATATAATATCATT
1 ATAATATAATATCATT
*
6847148 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
6847165 AATTATATAAT
1 -ATAATATAAT
6847176 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:6850819 original size:22 final size:23
Alignment explanation
Indices: 6850789--6850849 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
6850779 TATGCACTAT
*
6850789 TAAAGAGAGAGCACTAAA-GTGC
1 TAAACAGAGAGCACTAAATGTGC
*
6850811 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAATGTGC
*
6850833 TAAACGGAGAGCACTAA
1 TAAACAGAGAGCACTAA
6850850 TGCGCTAGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATGTGC
Found at i:6850851 original size:22 final size:22
Alignment explanation
Indices: 6850789--6851034 Score: 115
Period size: 25 Copynumber: 10.6 Consensus size: 22
6850779 TATGCACTAT
* *
6850789 TAAAGAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAATGTGC
* *
6850811 TATACAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACTAATGTGC
* *
6850833 TAAACGGAGAGCACTAATGCGC
1 TAAACAGAGAGCACTAATGTGC
* * ** *
6850855 TAGTGATCAGAGAGC-GTGCT-AG-
1 TA---AACAGAGAGCACTAATGTGC
* * *
6850877 TAATCAGAGAGCACTGACGTGC
1 TAAACAGAGAGCACTAATGTGC
*
6850899 TAAATATCAGAGAACA-TAGATGTGC
1 T-AA-A-CAGAGAGCACTA-ATGTGC
* * *
6850924 TAAACAGAGAGCACTGACGTGA
1 TAAACAGAGAGCACTAATGTGC
6850946 TAAATATCAGAGAGCAC-ATATGTGC
1 T-AA-A-CAGAGAGCACTA-ATGTGC
* *
6850971 TAAACAGAGAGCACTGACGTGC
1 TAAACAGAGAGCACTAATGTGC
*
6850993 TAATAATCAGAGAGCACTGATGTGC
1 T-A-AA-CAGAGAGCACTAATGTGC
6851018 TAATAATCAGAGAGCAC
1 T-A-AA-CAGAGAGCAC
6851035 GCTAAACTCC
Statistics
Matches: 173, Mismatches: 32, Indels: 35
0.72 0.13 0.15
Matches are distributed among these distances:
19 10 0.06
20 2 0.01
21 1 0.01
22 70 0.40
23 9 0.05
24 10 0.06
25 71 0.41
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (22 bp):
TAAACAGAGAGCACTAATGTGC
Found at i:6850907 original size:25 final size:24
Alignment explanation
Indices: 6850869--6851034 Score: 173
Period size: 25 Copynumber: 6.9 Consensus size: 24
6850859 GATCAGAGAG
*
6850869 CGTGCTAGTAATCAGAGAGCACTGA
1 CGTGCTAAT-ATCAGAGAGCACTGA
*
6850894 CGTGCTAAATATCAGAGAACA-TAGA
1 CGTGCT-AATATCAGAGAGCACT-GA
*
6850919 TGTGCTAA-A-CAGAGAGCACTGA
1 CGTGCTAATATCAGAGAGCACTGA
*
6850941 CGTGATAAATATCAGAGAGCACAT-A
1 CGTGCT-AATATCAGAGAGCAC-TGA
*
6850966 TGTGCTAA-A-CAGAGAGCACTGA
1 CGTGCTAATATCAGAGAGCACTGA
6850988 CGTGCTAATAATCAGAGAGCACTGA
1 CGTGCTAAT-ATCAGAGAGCACTGA
*
6851013 TGTGCTAATAATCAGAGAGCAC
1 CGTGCTAAT-ATCAGAGAGCAC
6851035 GCTAAACTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.01
22 32 0.27
23 5 0.04
24 7 0.06
25 72 0.60
26 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (24 bp):
CGTGCTAATATCAGAGAGCACTGA
Found at i:6850935 original size:47 final size:47
Alignment explanation
Indices: 6850789--6851034 Score: 213
Period size: 47 Copynumber: 5.3 Consensus size: 47
6850779 TATGCACTAT
* * * * *
6850789 TAAAGAGAGAGCACTAAAGTGCT--ATA-CAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCATAGATGTGC
* * * * * * * *
6850833 TAAACGGAGAGCACTAATGCGCT-AGTGATCAGAGAGCGT-GCT-AG-
1 TAAACAGAGAGCACTGACGTGCTAAAT-ATCAGAGAGCATAGATGTGC
* *
6850877 TAATCAGAGAGCACTGACGTGCTAAATATCAGAGAACATAGATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCATAGATGTGC
* * *
6850924 TAAACAGAGAGCACTGACGTGATAAATATCAGAGAGCACATATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCATAGATGTGC
6850971 TAAACAGAGAGCACTGACGTGCT-AATAATCAGAGAGCACT-GATGTGC
1 TAAACAGAGAGCACTGACGTGCTAAAT-ATCAGAGAGCA-TAGATGTGC
6851018 TAATAATCAGAGAGCAC
1 T-A-AA-CAGAGAGCAC
6851035 GCTAAACTCC
Statistics
Matches: 162, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
44 47 0.29
45 6 0.04
46 6 0.04
47 90 0.56
48 1 0.01
49 2 0.01
50 10 0.06
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (47 bp):
TAAACAGAGAGCACTGACGTGCTAAATATCAGAGAGCATAGATGTGC
Found at i:6850973 original size:72 final size:72
Alignment explanation
Indices: 6850877--6851034 Score: 175
Period size: 72 Copynumber: 2.2 Consensus size: 72
6850867 AGCGTGCTAG
*
6850877 TAATCAGAGAGCACTGACGTGCTAAATATCAGAGAACA-TAGATGTGCT-A-AA-CAGAGAGCAC
1 TAATCAGAGAGCACTGACGTGCT-AA-A-CAGAGAACACT-GACGTGCTAATAATCAGAGAGCAC
6850938 TGACGTGATAA
62 TGACGTGATAA
* *
6850949 -ATATCAGAGAGCACAT-ATGTGCTAAACAGAGAGCACTGACGTGCTAATAATCAGAGAGCACTG
1 TA-ATCAGAGAGCAC-TGACGTGCTAAACAGAGAACACTGACGTGCTAATAATCAGAGAGCACTG
* *
6851012 ATGTGCTAA
64 ACGTGATAA
6851021 TAATCAGAGAGCAC
1 TAATCAGAGAGCAC
6851035 GCTAAACTCC
Statistics
Matches: 74, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
69 15 0.20
70 3 0.04
71 5 0.07
72 49 0.66
73 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (72 bp):
TAATCAGAGAGCACTGACGTGCTAAACAGAGAACACTGACGTGCTAATAATCAGAGAGCACTGAC
GTGATAA
Found at i:6854976 original size:35 final size:35
Alignment explanation
Indices: 6854937--6855008 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
6854927 ATTGTTAATT
6854937 GATGTGATATTGAATTCTTGTTAAAATTTTATGAA
1 GATGTGATATTGAATTCTTGTTAAAATTTTATGAA
*
6854972 GATGTGATATTGAATTCTTGTTCAAATTTTATGAA
1 GATGTGATATTGAATTCTTGTTAAAATTTTATGAA
6855007 GA
1 GA
6855009 ATTAAATTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (35 bp):
GATGTGATATTGAATTCTTGTTAAAATTTTATGAA
Found at i:6861926 original size:12 final size:12
Alignment explanation
Indices: 6861895--6861920 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6861885 ATTAATTTTC
6861895 AAAATTTTAAAA
1 AAAATTTTAAAA
6861907 AAAATTTTAAAA
1 AAAATTTTAAAA
6861919 AA
1 AA
6861921 TGTTTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTTTAAAA
Found at i:6862525 original size:5 final size:5
Alignment explanation
Indices: 6862515--6862586 Score: 51
Period size: 5 Copynumber: 13.6 Consensus size: 5
6862505 AAACTACCCC
*
6862515 TTTTA TTTTA TTTTA -TTTA TTTGTTA TTATT- TTTTA TATTA -TTTA
1 TTTTA TTTTA TTTTA TTTTA -TT-TTA TT-TTA TTTTA TTTTA TTTTA
6862560 TTTTTA TTTTCCTA TTTTA TTTTA TTT
1 -TTTTA -TTT--TA TTTTA TTTTA TTT
6862587 ATTATTCTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
4 9 0.16
5 26 0.46
6 13 0.23
7 6 0.11
8 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:6863888 original size:19 final size:18
Alignment explanation
Indices: 6863849--6863892 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
6863839 AAGAAGCTCG
*
6863849 TTTTTATTATTGAATAGT
1 TTTTTATTAATGAATAGT
*
6863867 TTTTTATTAATGTAATTATT
1 TTTTTATTAATG-AA-TAGT
6863887 TTTTTA
1 TTTTTA
6863893 ATTCAGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTTATTAATGAATAGT
Found at i:6867292 original size:15 final size:15
Alignment explanation
Indices: 6867262--6867301 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
6867252 CTAATCTATT
* *
6867262 AAAATATAAATTACA
1 AAAATAAAAATAACA
*
6867277 AACATAAAAATAACA
1 AAAATAAAAATAACA
6867292 AAAATAAAAA
1 AAAATAAAAA
6867302 CTTCAATCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAATAACA
Found at i:6869593 original size:410 final size:410
Alignment explanation
Indices: 6868833--6869655 Score: 1585
Period size: 410 Copynumber: 2.0 Consensus size: 410
6868823 TGTTTTCGTT
6868833 TATGGGGATATTTGCACAATCGGTCCCTCCGCTTTTGCAGTAAAATACAATCGGGTCTTCCTATT
1 TATGGGGATATTTGCACAATCGGTCCCTCCGCTTTTGCAGTAAAATACAATCGGGTCTTCCTATT
* *
6868898 TTTTATATTTTGACCCCGAAAATTTTGTACTTGTTTCAATTCGATCCCGAGTGAAACGCTGCGCA
66 TTTTATATTTTGACCCCGAAAATTTTGTACTTGTTTCAATTCGATCCCGACTGAAACACTGCGCA
**
6868963 CAAGGGGCCTAGAACATTTCCTCATTCGCCCCTGATGTTTCCAGCGCATTATGAATTGGTCCTTT
131 CAAGGGGCCTAGAACATTTCCTCATTCGCCCCTGATGTTTCCAGCAAATTATGAATTGGTCCTTT
6869028 ATCCCATATTTCTATTATTTCGAATGTTTACCTTGAAATTTTATGTAGTTTCCAATTTAATACCT
196 ATCCCATATTTCTATTATTTCGAATGTTTACCTTGAAATTTTATGTAGTTTCCAATTTAATACCT
6869093 ATATCCAATACATTTTATTATTCATATATACATACATATCTATTTTTTATGTTTTATATTTTTAA
261 ATATCCAATACATTTTATTATTCATATATACATACATATCTATTTTTTATGTTTTATATTTTTAA
6869158 AACACATATATACCCACATATATTTTATAGCTCACACATATAAACATATACATATATCTTTTATG
326 AACACATATATACCCACATATATTTTATAGCTCACACATATAAACATATACATATATCTTTTATG
6869223 TTACAATCTTAAAATATATA
391 TTACAATCTTAAAATATATA
6869243 TATGGGGATATTTGCACAATCGGTCCCTCCGCTTTTGCAGTAAAATACAATCGGGTCTTCCTATT
1 TATGGGGATATTTGCACAATCGGTCCCTCCGCTTTTGCAGTAAAATACAATCGGGTCTTCCTATT
6869308 TTTTATATTTTGACCCCGAAAATTTTGTACTTGTTTCAATTCGATCCCG-CTCGAAACACTGCGC
66 TTTTATATTTTGACCCCGAAAATTTTGTACTTGTTTCAATTCGATCCCGACT-GAAACACTGCGC
*
6869372 ACAAGGGGCCTAGAACATTTTCTCATTCGCCCCTGATGTTTCCAGCAAATTATGAATTGGTCCTT
130 ACAAGGGGCCTAGAACATTTCCTCATTCGCCCCTGATGTTTCCAGCAAATTATGAATTGGTCCTT
6869437 TATCCCATATTTCTATTATTTCGAATGTTTACCTTGAAATTTTATGTAGTTTCCAATTTAATACC
195 TATCCCATATTTCTATTATTTCGAATGTTTACCTTGAAATTTTATGTAGTTTCCAATTTAATACC
6869502 TATATCCAATACATTTTATTATTCATATATACATACATATCTATTTTTTATGTTTTATATTTTTA
260 TATATCCAATACATTTTATTATTCATATATACATACATATCTATTTTTTATGTTTTATATTTTTA
6869567 AAACACATATATACCCACATATATTTTATAGCTCACACATATAAACATATACATATATCTTTTAT
325 AAACACATATATACCCACATATATTTTATAGCTCACACATATAAACATATACATATATCTTTTAT
6869632 GTTACAATCTTAAAATATATA
390 GTTACAATCTTAAAATATATA
6869653 TAT
1 TAT
6869656 TTTTTATAAT
Statistics
Matches: 407, Mismatches: 5, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
409 1 0.00
410 406 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (410 bp):
TATGGGGATATTTGCACAATCGGTCCCTCCGCTTTTGCAGTAAAATACAATCGGGTCTTCCTATT
TTTTATATTTTGACCCCGAAAATTTTGTACTTGTTTCAATTCGATCCCGACTGAAACACTGCGCA
CAAGGGGCCTAGAACATTTCCTCATTCGCCCCTGATGTTTCCAGCAAATTATGAATTGGTCCTTT
ATCCCATATTTCTATTATTTCGAATGTTTACCTTGAAATTTTATGTAGTTTCCAATTTAATACCT
ATATCCAATACATTTTATTATTCATATATACATACATATCTATTTTTTATGTTTTATATTTTTAA
AACACATATATACCCACATATATTTTATAGCTCACACATATAAACATATACATATATCTTTTATG
TTACAATCTTAAAATATATA
Found at i:6869834 original size:26 final size:26
Alignment explanation
Indices: 6869790--6869839 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6869780 CTTCAAAAAA
6869790 TATACATATATACACACATAATTTTTT
1 TATACATATATACACACAT-ATTTTTT
**
6869817 TATA-ATATATACGTACATATTTT
1 TATACATATATACACACATATTTT
6869840 AACTTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 12 0.57
27 4 0.19
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (26 bp):
TATACATATATACACACATATTTTTT
Found at i:6871427 original size:16 final size:16
Alignment explanation
Indices: 6871408--6871439 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6871398 TTTTACTTTG
6871408 ACTACATGGCACTTCA
1 ACTACATGGCACTTCA
*
6871424 ACTACATGGCATTTCA
1 ACTACATGGCACTTCA
6871440 TCATGAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.28
Consensus pattern (16 bp):
ACTACATGGCACTTCA
Found at i:6872756 original size:25 final size:25
Alignment explanation
Indices: 6872727--6872777 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
6872717 ACTAAAAGAG
*
6872727 ATAGTAACTACACCGAGGAGCGACA
1 ATAGTAACTACACCAAGGAGCGACA
* *
6872752 ATAGTAGCTACACCAAGGAGGGACA
1 ATAGTAACTACACCAAGGAGCGACA
6872777 A
1 A
6872778 CATCTCGGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (25 bp):
ATAGTAACTACACCAAGGAGCGACA
Found at i:6875936 original size:12 final size:12
Alignment explanation
Indices: 6875919--6875949 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6875909 GGAGTTCTGT
6875919 GAAGAAGTCCAA
1 GAAGAAGTCCAA
*
6875931 GAAGAAGTCTAA
1 GAAGAAGTCCAA
6875943 GAAGAAG
1 GAAGAAG
6875950 GAAGCATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.29, T:0.10
Consensus pattern (12 bp):
GAAGAAGTCCAA
Found at i:6878291 original size:26 final size:26
Alignment explanation
Indices: 6878262--6878313 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6878252 TAAGTACTCA
6878262 GAATGGGTAGCCAATATTGTACCCGT
1 GAATGGGTAGCCAATATTGTACCCGT
6878288 GAATGGGTAGCCAATATTGTACCCGT
1 GAATGGGTAGCCAATATTGTACCCGT
6878314 TCCTAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (26 bp):
GAATGGGTAGCCAATATTGTACCCGT
Found at i:6881716 original size:593 final size:593
Alignment explanation
Indices: 6880589--6881761 Score: 2337
Period size: 593 Copynumber: 2.0 Consensus size: 593
6880579 TATGGGATGC
*
6880589 CTGAAAGAATTATATCTGATAATGTGCTGAATTTGAACAACAGCTTAATAGTAGAAGTTTGTAGT
1 CTGAAAGAATTATATCTGACAATGTGCTGAATTTGAACAACAGCTTAATAGTAGAAGTTTGTAGT
6880654 CAGTTCAAGATCAGACACCATAATTCGTCACCGTATCGCCCCAAAATGAATGGTGCCGTGGAAAC
66 CAGTTCAAGATCAGACACCATAATTCGTCACCGTATCGCCCCAAAATGAATGGTGCCGTGGAAAC
6880719 ATCAAGAGAATTGTAGGGAAAATGACTAAAACCTACAAGGACTGACATGAGAAATTACCTTTCGC
131 ATCAAGAGAATTGTAGGGAAAATGACTAAAACCTACAAGGACTGACATGAGAAATTACCTTTCGC
6880784 TCTCCTTGCATATCGAACATCTATTAGGACTTCTATTGGGGCAACACCTTTCTTTCTAGTTTACG
196 TCTCCTTGCATATCGAACATCTATTAGGACTTCTATTGGGGCAACACCTTTCTTTCTAGTTTACG
6880849 GGATGGAGGTAGTGTTACCCATTAAAGTTGAGATCCTTTCTCTTCGGGTATTAGCTGAGCTAAAG
261 GGATGGAGGTAGTGTTACCCATTAAAGTTGAGATCCTTTCTCTTCGGGTATTAGCTGAGCTAAAG
6880914 TTAGATAAGGCCGAATAGATTCAATCTCGATATGACCAGTTGAACCTGACAGAAGAAAATAGGCT
326 TTAGATAAGGCCGAATAGATTCAATCTCGATATGACCAGTTGAACCTGACAGAAGAAAATAGGCT
6880979 AAAAGTTATTCATCACGGTCAGATGTATTAGAAACGAATGATACGAGCCTATAGCAAAAGGGTTC
391 AAAAGTTATTCATCACGGTCAGATGTATTAGAAACGAATGATACGAGCCTATAGCAAAAGGGTTC
6881044 GCCCTAGAGAATTTCATGAGGGGGACCTGGTGTTGAAGAAGATTCTTCCTCTACAAAAGGATTTT
456 GCCCTAGAGAATTTCATGAGGGGGACCTGGTGTTGAAGAAGATTCTTCCTCTACAAAAGGATTTT
6881109 AGAGGGAAGTGGATGCCAAATTGGGAAGGGCCTTATGTTCTAAAGAAGGCCTTTTCTGGATTTGA
521 AGAGGGAAGTGGATGCCAAATTGGGAAGGGCCTTATGTTCTAAAGAAGGCCTTTTCTGGATTTGA
6881174 ACAATGTG
586 ACAATGTG
6881182 CTGAAAGAATTATATCTGACAATGTGCTGAATTTGAACAACAGCTTAATAGTAGAAGTTTGTAGT
1 CTGAAAGAATTATATCTGACAATGTGCTGAATTTGAACAACAGCTTAATAGTAGAAGTTTGTAGT
6881247 CAGTTCAAGATCAGACACCATAATTCGTCACCGTATCGCCCCAAAATGAATGGTGCCGTGGAAAC
66 CAGTTCAAGATCAGACACCATAATTCGTCACCGTATCGCCCCAAAATGAATGGTGCCGTGGAAAC
6881312 ATCAAGAGAATTGTAGGGAAAATGACTAAAACCTACAAGGACTGACATGAGAAATTACCTTTCGC
131 ATCAAGAGAATTGTAGGGAAAATGACTAAAACCTACAAGGACTGACATGAGAAATTACCTTTCGC
6881377 TCTCCTTGCATATCGAACATCTATTAGGACTTCTATTGGGGCAACACCTTTCTTTCTAGTTTACG
196 TCTCCTTGCATATCGAACATCTATTAGGACTTCTATTGGGGCAACACCTTTCTTTCTAGTTTACG
6881442 GGATGGAGGTAGTGTTACCCATTAAAGTTGAGATCCTTTCTCTTCGGGTATTAGCTGAGCTAAAG
261 GGATGGAGGTAGTGTTACCCATTAAAGTTGAGATCCTTTCTCTTCGGGTATTAGCTGAGCTAAAG
6881507 TTAGATAAGGCCGAATAGATTCAATCTCGATATGACCAGTTGAACCTGACAGAAGAAAATAGGCT
326 TTAGATAAGGCCGAATAGATTCAATCTCGATATGACCAGTTGAACCTGACAGAAGAAAATAGGCT
6881572 AAAAGTTATTCATCACGGTCAGATGTATTAGAAACGAATGATACGAGCCTATAGCAAAAGGGTTC
391 AAAAGTTATTCATCACGGTCAGATGTATTAGAAACGAATGATACGAGCCTATAGCAAAAGGGTTC
6881637 GCCCTAGAGAATTTCATGAGGGGGACCTGGTGTTGAAGAAGATTCTTCCTCTACAAAAGGATTTT
456 GCCCTAGAGAATTTCATGAGGGGGACCTGGTGTTGAAGAAGATTCTTCCTCTACAAAAGGATTTT
6881702 AGAGGGAAGTGGATGCCAAATTGGGAAGGGCCTTATGTTCTAAAGAAGGCCTTTTCTGGA
521 AGAGGGAAGTGGATGCCAAATTGGGAAGGGCCTTATGTTCTAAAGAAGGCCTTTTCTGGA
6881762 AGAGCTTTGA
Statistics
Matches: 579, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
593 579 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (593 bp):
CTGAAAGAATTATATCTGACAATGTGCTGAATTTGAACAACAGCTTAATAGTAGAAGTTTGTAGT
CAGTTCAAGATCAGACACCATAATTCGTCACCGTATCGCCCCAAAATGAATGGTGCCGTGGAAAC
ATCAAGAGAATTGTAGGGAAAATGACTAAAACCTACAAGGACTGACATGAGAAATTACCTTTCGC
TCTCCTTGCATATCGAACATCTATTAGGACTTCTATTGGGGCAACACCTTTCTTTCTAGTTTACG
GGATGGAGGTAGTGTTACCCATTAAAGTTGAGATCCTTTCTCTTCGGGTATTAGCTGAGCTAAAG
TTAGATAAGGCCGAATAGATTCAATCTCGATATGACCAGTTGAACCTGACAGAAGAAAATAGGCT
AAAAGTTATTCATCACGGTCAGATGTATTAGAAACGAATGATACGAGCCTATAGCAAAAGGGTTC
GCCCTAGAGAATTTCATGAGGGGGACCTGGTGTTGAAGAAGATTCTTCCTCTACAAAAGGATTTT
AGAGGGAAGTGGATGCCAAATTGGGAAGGGCCTTATGTTCTAAAGAAGGCCTTTTCTGGATTTGA
ACAATGTG
Found at i:6883238 original size:21 final size:21
Alignment explanation
Indices: 6883212--6883254 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6883202 CTGGTGTTGC
6883212 AGTGGAATAGATTAAAGCTGA
1 AGTGGAATAGATTAAAGCTGA
* *
6883233 AGTGGAGTGGATTAAAGCTGA
1 AGTGGAATAGATTAAAGCTGA
6883254 A
1 A
6883255 AGCAGTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.23
Consensus pattern (21 bp):
AGTGGAATAGATTAAAGCTGA
Found at i:6883497 original size:136 final size:136
Alignment explanation
Indices: 6883357--6883640 Score: 428
Period size: 136 Copynumber: 2.1 Consensus size: 136
6883347 AAGCTGAAGG
* * * *
6883357 CAGCGAATCTTATCTCCCTGGCGTTAAAGCTAAAGGCAGCGAATTTTACTTCCTTAGTGATGTAG
1 CAGCGAATCTTATCTCACTGGCATTAAAGCTAAAGGCAGCGAATTTTACTTCCCTAGCGATGTAG
* * *
6883422 TGGAATAGATTGAAGCTACA-ACAGCAAATCTTGCTTCC-CTGACATTGCAATTAAATAGATTGA
66 TGGAACAGATTGAAGCTA-AGACAACAAATCTTGCTTCCTC-GACATTGCAATTAAACAGATTGA
6883485 AGCTACAA
129 AGCTACAA
* * *
6883493 CAGCGAATCTTATCTCACTGGCATTAAAGCTGAAGGCAGCGAATTTTACTTCCCTGGCGGTGTAG
1 CAGCGAATCTTATCTCACTGGCATTAAAGCTAAAGGCAGCGAATTTTACTTCCCTAGCGATGTAG
* *
6883558 TGGAACAGATTGAAGCTAAGACAACGAATCTTGCTTCCTCGACATTGCAGTTAAACAGATTGAAG
66 TGGAACAGATTGAAGCTAAGACAACAAATCTTGCTTCCTCGACATTGCAATTAAACAGATTGAAG
6883623 CTACAA
131 CTACAA
6883629 CAGCGAATCTTA
1 CAGCGAATCTTA
6883641 CTTCCTTGGT
Statistics
Matches: 134, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
135 1 0.01
136 132 0.99
137 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (136 bp):
CAGCGAATCTTATCTCACTGGCATTAAAGCTAAAGGCAGCGAATTTTACTTCCCTAGCGATGTAG
TGGAACAGATTGAAGCTAAGACAACAAATCTTGCTTCCTCGACATTGCAATTAAACAGATTGAAG
CTACAA
Found at i:6883595 original size:50 final size:50
Alignment explanation
Indices: 6883532--6883826 Score: 243
Period size: 50 Copynumber: 5.9 Consensus size: 50
6883522 CTGAAGGCAG
* * * *
6883532 CGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA-AGACAA
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACA-ACAA
* * * ** * *
6883582 CGAATCTTGCTT-CCTCGACATTGCAGTTAAACAGATTGAAGCTACAACAG
1 CGAATCTTACTTCCCT-GGCAGTGCAGTGGAATAGATTGAAGCTACAACAA
* * * *
6883632 CGAATCTTACTTCCTTGGTAGTGCAGTGGAATAAATTGAAGCTACAACAG
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAACAA
* * * * * **
6883682 CGAATTTTGCTTCCCTGACATTACAGTTAAATAGATTGAAGCTACAACAA
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAACAA
* * * *
6883732 TGAATCTTACTTCCCTAGCGGTGCAGTGGAATAGATTGAAGCTACAACAG
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAACAA
* * * * * * * **
6883782 TGAATTTTGCTTCCCCGACATTACAGTTAAATAGATTGAAGCTAC
1 CGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTAC
6883827 TAATCGCATC
Statistics
Matches: 192, Mismatches: 50, Indels: 6
0.77 0.20 0.02
Matches are distributed among these distances:
49 3 0.02
50 186 0.97
51 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (50 bp):
CGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAACAA
Found at i:6883702 original size:100 final size:100
Alignment explanation
Indices: 6883529--6883826 Score: 420
Period size: 100 Copynumber: 3.0 Consensus size: 100
6883519 AAGCTGAAGG
* * * * *
6883529 CAGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA-AGACAACGAATCTTGCT
1 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACA-ACAGCGAATTTTGCT
* *
6883593 T-CCTCGACATTGCAGTTAAACAGATTGAAGCTACAA
65 TCCCT-GACATTACAGTTAAATAGATTGAAGCTACAA
* ** *
6883629 CAGCGAATCTTACTTCCTTGGTAGTGCAGTGGAATAAATTGAAGCTACAACAGCGAATTTTGCTT
1 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACAGCGAATTTTGCTT
6883694 CCCTGACATTACAGTTAAATAGATTGAAGCTACAA
66 CCCTGACATTACAGTTAAATAGATTGAAGCTACAA
** * *
6883729 CAATGAATCTTACTTCCCTAGCGGTGCAGTGGAATAGATTGAAGCTACAACAGTGAATTTTGCTT
1 CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACAGCGAATTTTGCTT
*
6883794 CCCCGACATTACAGTTAAATAGATTGAAGCTAC
66 CCCTGACATTACAGTTAAATAGATTGAAGCTAC
6883827 TAATCGCATC
Statistics
Matches: 176, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
100 172 0.98
101 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (100 bp):
CAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACAGCGAATTTTGCTT
CCCTGACATTACAGTTAAATAGATTGAAGCTACAA
Found at i:6884072 original size:45 final size:44
Alignment explanation
Indices: 6883919--6884172 Score: 203
Period size: 44 Copynumber: 5.7 Consensus size: 44
6883909 ATCTATCATA
* *
6883919 ACAAGTCTTATCCCCTTGAAGTTGCAGTGGGGCA-AGTTAAAGAT
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAAAGAT
* * * *
6883963 ACAAGTCTTATTTCCCTGAAGTTGCAGTGGGGCAGGTTAAAGAT
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
6884007 ACAAGTCTTATTTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACA
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGA-T
** *
6884052 ACAAACCTTATCTCCTTGAAGTTGCAGTGGAGCA-AGTTAAAAAT
1 ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTAAAGAT
* * ** * * *
6884096 A-AACTGACCTTATCTCCCTGAAGTCACAGTGGAGCAGTTTGAAGCT
1 ACAA--G-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * *
6884142 ACAAGCCGTATCT-CTCTGAAG-TGTAGTGGAG
1 ACAAGTCTTATCTCCT-TGAAGTTGCAGTGGAG
6884173 TGGATCGAAG
Statistics
Matches: 171, Mismatches: 30, Indels: 19
0.78 0.14 0.09
Matches are distributed among these distances:
43 10 0.06
44 91 0.53
45 36 0.21
46 32 0.19
47 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
ACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGAT
Found at i:6886317 original size:16 final size:16
Alignment explanation
Indices: 6886296--6886352 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
6886286 TTTGGTTCGC
*
6886296 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6886312 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6886328 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
6886344 TGTAATGGA
1 TGTAATGGA
6886353 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:6886619 original size:18 final size:17
Alignment explanation
Indices: 6886598--6886632 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6886588 TTATTATTAA
*
6886598 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6886616 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6886633 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6893413 original size:15 final size:15
Alignment explanation
Indices: 6893383--6893422 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
6893373 CTAATCTATT
* *
6893383 AAAATATAAATTACA
1 AAAATAAAAATAACA
*
6893398 AACATAAAAATAACA
1 AAAATAAAAATAACA
6893413 AAAATAAAAA
1 AAAATAAAAA
6893423 CTTCAATCAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAAAATAACA
Found at i:6900948 original size:2 final size:2
Alignment explanation
Indices: 6900941--6900965 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6900931 TTTATGAATG
6900941 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6900966 GATTATGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6901152 original size:20 final size:20
Alignment explanation
Indices: 6901127--6901183 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
6901117 GTTGTACAGG
6901127 ATTTGCACTTTGGTGCCTCT
1 ATTTGCACTTTGGTGCCTCT
6901147 ATTTGCACTTTGGTGCCTCT
1 ATTTGCACTTTGGTGCCTCT
* *
6901167 GTTTGCACTTCGGTGCC
1 ATTTGCACTTTGGTGCC
6901184 CCTGTATACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTTGCACTTTGGTGCCTCT
Found at i:6901188 original size:20 final size:20
Alignment explanation
Indices: 6901128--6901211 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 20
6901118 TTGTACAGGA
* * *
6901128 TTTGCACTTTGGTGCCTCTA
1 TTTGCACTTCGGTGCCCCTG
* *
6901148 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCCCTG
6901168 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * *
6901188 TATACACTTCGGTGTCCTTG
1 TTTGCACTTCGGTGCCCCTG
6901208 TTTG
1 TTTG
6901212 TACATTTGTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:6901196 original size:40 final size:40
Alignment explanation
Indices: 6901128--6901211 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
6901118 TTGTACAGGA
* * * * *
6901128 TTTGCACTTTGGTGCCTCTATTTGCACTTTGGTG-CCTCTG
1 TTTGCACTTCGGTGCCCCTATATACACTTCGGTGTCCT-TG
*
6901168 TTTGCACTTCGGTGCCCCTGTATACACTTCGGTGTCCTTG
1 TTTGCACTTCGGTGCCCCTATATACACTTCGGTGTCCTTG
6901208 TTTG
1 TTTG
6901212 TACATTTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
40 34 0.92
41 3 0.08
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (40 bp):
TTTGCACTTCGGTGCCCCTATATACACTTCGGTGTCCTTG
Found at i:6909734 original size:5 final size:5
Alignment explanation
Indices: 6909720--6909777 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
6909710 ATTAATATCC
* * *
6909720 AAAT- AAATA AAATA AAATA AAATA AAGTAA TAAATA AAGTA AAATA ATA-A
1 AAATA AAATA AAATA AAATA AAATA AAAT-A -AAATA AAATA AAATA AAATA
6909770 AAATA AAA
1 AAATA AAA
6909778 ATTGGGTTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
4 7 0.16
5 32 0.73
6 2 0.05
7 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:6909754 original size:22 final size:19
Alignment explanation
Indices: 6909728--6909777 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 19
6909718 CCAAATAAAT
6909728 AAAATAAAATAAAATAAAGTA
1 AAAATAAAATAAAAT-AA-TA
*
6909749 ATAAATAAAGTAAAATAATA
1 A-AAATAAAATAAAATAATA
6909769 AAAATAAAA
1 AAAATAAAA
6909778 ATTGGGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 3 0.12
22 13 0.50
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAATAAAATAAAATAATA
Found at i:6909756 original size:17 final size:17
Alignment explanation
Indices: 6909720--6909770 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
6909710 ATTAATATCC
6909720 AAAT-AAATAAAAT-A-
1 AAATAAAATAAAATAAT
*
6909734 AAATAAAATAAAGTAAT
1 AAATAAAATAAAATAAT
*
6909751 AAATAAAGTAAAATAAT
1 AAATAAAATAAAATAAT
6909768 AAA
1 AAA
6909771 AATAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 4 0.13
15 8 0.26
16 1 0.03
17 18 0.58
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:6911952 original size:524 final size:498
Alignment explanation
Indices: 6910963--6911985 Score: 1796
Period size: 524 Copynumber: 2.0 Consensus size: 498
6910953 ATGTTGATCT
6910963 CGGCATTCCTAAATGTTTCGAGGATTTCCTTATCTTCTTTATCTCTTCGACACTGGTTGAATCAT
1 CGGCATTCCTAAATGTTTCGAGGATTTCCTTATCTTCTTTATCTCTTCGACACTGGTTGAATCAT
6911028 TTTTGAAATGGAGGTTGAATTTTAGGCAATGGAGGCTTCGGTCAGACCTGTTCGTCTTTCTTAGT
66 TTTTGAAATGGAGGTTGAATTTTAGGCAATGGAGGCTTCGGTCAGACCTGTTCGTCTTTCTTAGT
6911093 TTTTCTTGGGAGATTTCTTGGGCATGATTCCTGTCAGGAATTGATTCCAGTACCTTTCTGCTTCG
131 TTTTCTTGGGAGATTTCTTGGGCATGATTCCTGTCAGGAATTGATTCCAGTACCTTTCTGCTTCG
6911158 CAACGTCACTGCATTTGCATTTTGTCTAGGGTTTGGTTCTGTTTGTGACGGCAACTTCCCTTGAG
196 CAACGTCACTGCATTTGCATTTTGTCTAGGGTTTGGTTCTGTTTGTGACGGCAACTTCCCTTGAG
6911223 AGGTCAATTTCTCAATCGATGTGGTCAACTCTCTGATGGACGCCTCGGTTTTATATTCGAAATCC
261 AGGTCAATTTCTCAATCGATGTGGTCAACTCTCTGATGGACGCCTCGGTTTTATATTCGAAATCC
6911288 TTCATCTCTTTTCAGAAATTAAGATTTTGTGTTGAAAATTCAAGAACATTAGCTGCTAACTTATT
326 TTCATCTCTTTTCAGAAATTAAGATTTTGTGTTGAAAATTCAAGAACATTAGCTGCTAACTTATT
6911353 GACCATGGTTTCTAGAAAATTACCTGAACCTTGTGGCTGTTGCGGAAACTGATTTTGGTATGGCT
391 GACCATGGTTTCTAGAAAATTACCTGAACCTTGTGGCTGTTGCGGAAACTGATTTTGGTATGGCT
6911418 GGTTGTTTCGTGGATTGGCCCCATAACTTAAGTTAGGATGGTC
456 GGTTGTTTCGTGGATTGGCCCCATAACTTAAGTTAGGATGGTC
6911461 CNNNNNNNNNNNNNNNNNNNNNNNNNNGGCATTCCTAAATGTTTCGAGGATTTCCTTATCTTCTT
1 C--------------------------GGCATTCCTAAATGTTTCGAGGATTTCCTTATCTTCTT
6911526 TATCTCTTCGACACTGGTTGAATCATTTTTGAAATGGAGGTTGAATTTTAGGCAATGGAGGCTTC
40 TATCTCTTCGACACTGGTTGAATCATTTTTGAAATGGAGGTTGAATTTTAGGCAATGGAGGCTTC
6911591 GGTCAGACCTGTTCGTCTTTCTTAGTTTTTCTTGGGAGATTTCTTGGGCATGATTCCTGTCAGGA
105 GGTCAGACCTGTTCGTCTTTCTTAGTTTTTCTTGGGAGATTTCTTGGGCATGATTCCTGTCAGGA
6911656 ATTGATTCCAGTACCTTTCTGCTTCGCAACGTCACTGCATTTGCATTTTGTCTAGGGTTTGGTTC
170 ATTGATTCCAGTACCTTTCTGCTTCGCAACGTCACTGCATTTGCATTTTGTCTAGGGTTTGGTTC
6911721 TGTTTGTGACGGCAACTTCCCTTGAGAGGTCAATTTCTCAATCGATGTGGTCAACTCTCTGATGG
235 TGTTTGTGACGGCAACTTCCCTTGAGAGGTCAATTTCTCAATCGATGTGGTCAACTCTCTGATGG
6911786 ACGCCTCGGTTTTATATTCGAAATCCTTCATCTCTTTTCAGAAATTAAGATTTTGCTGTTGAAAA
300 ACGCCTCGGTTTTATATTCGAAATCCTTCATCTCTTTTCAGAAATTAAGATTTTG-TGTTGAAAA
6911851 -TCAAGAACATTAGCTGCTAACTTATTGACCATGGTTTCTAGAAAATTACCTGAACCTTGTGGCT
364 TTCAAGAACATTAGCTGCTAACTTATTGACCATGGTTTCTAGAAAATTACCTGAACCTTGTGGCT
6911915 GTTGCGGAAACTGATTTTGGTATGGCTGGTTGTTTCGTGGATTGGCCCCATAACTTAAGTTAGGA
429 GTTGCGGAAACTGATTTTGGTATGGCTGGTTGTTTCGTGGATTGGCCCCATAACTTAAGTTAGGA
6911980 TGGTC
494 TGGTC
6911985 C
1 C
6911986 CTCCACCCTG
Statistics
Matches: 498, Mismatches: 0, Indels: 28
0.95 0.00 0.05
Matches are distributed among these distances:
498 1 0.00
524 488 0.98
525 9 0.02
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.37
Consensus pattern (498 bp):
CGGCATTCCTAAATGTTTCGAGGATTTCCTTATCTTCTTTATCTCTTCGACACTGGTTGAATCAT
TTTTGAAATGGAGGTTGAATTTTAGGCAATGGAGGCTTCGGTCAGACCTGTTCGTCTTTCTTAGT
TTTTCTTGGGAGATTTCTTGGGCATGATTCCTGTCAGGAATTGATTCCAGTACCTTTCTGCTTCG
CAACGTCACTGCATTTGCATTTTGTCTAGGGTTTGGTTCTGTTTGTGACGGCAACTTCCCTTGAG
AGGTCAATTTCTCAATCGATGTGGTCAACTCTCTGATGGACGCCTCGGTTTTATATTCGAAATCC
TTCATCTCTTTTCAGAAATTAAGATTTTGTGTTGAAAATTCAAGAACATTAGCTGCTAACTTATT
GACCATGGTTTCTAGAAAATTACCTGAACCTTGTGGCTGTTGCGGAAACTGATTTTGGTATGGCT
GGTTGTTTCGTGGATTGGCCCCATAACTTAAGTTAGGATGGTC
Found at i:6921870 original size:42 final size:42
Alignment explanation
Indices: 6921726--6921880 Score: 144
Period size: 41 Copynumber: 3.8 Consensus size: 42
6921716 TTTAAACAAA
* * * *
6921726 CGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCT-GAG
1 CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
* * *
6921767 CGCCGCTAACT-TTAGGGCTTTTAGCGGC-ATT-TTTGATAATG
1 CGCCGCTAA-TGTTAGGGTTTTTAGCGGCGTTTGTTTG-TAAAG
* *
6921808 CGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAG
1 CGCCGCTAAT-GTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
6921850 CGCCGCTAATGTT-GGAG-TTTTAGCGGCGTTT
1 CGCCGCTAATGTTAGG-GTTTTTAGCGGCGTTT
6921881 TGATGGAAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
39 4 0.04
40 4 0.04
41 59 0.65
42 18 0.20
43 6 0.07
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.39
Consensus pattern (42 bp):
CGCCGCTAATGTTAGGGTTTTTAGCGGCGTTTGTTTGTAAAG
Found at i:6921894 original size:82 final size:81
Alignment explanation
Indices: 6921723--6921895 Score: 203
Period size: 82 Copynumber: 2.1 Consensus size: 81
6921713 GTTTTTAAAC
* *
6921723 AAACGCCGCTAATGTTATGGTTTTTAGTGGCGTTTGTTTCTGAGCGCCGCTAACTTTAGGGCTTT
1 AAACGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTT
*
6921788 TAGCGGCATTTTTGAT
66 TAGCGGCAGTTTTGAT
* *
6921804 AATGCGCCGCT-ATAGTTAAGGTTTTTAGTGGCGTTTGTTTGTAAAGCGCCGCTAA-TGTT-GGA
1 AA-ACGCCGCTAAT-GTTAAGGTTTTTAGTGGCGTTTGTTTCT-AAGCGCCGCTAACT-TTAGG-
6921866 G-TTTTAGCGGC-GTTTTGAT
61 GCTTTTAGCGGCAGTTTTGAT
6921885 GGAAACGCCGC
1 --AAACGCCGC
6921896 AAAATACATT
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
81 11 0.14
82 52 0.66
83 16 0.20
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.36
Consensus pattern (81 bp):
AAACGCCGCTAATGTTAAGGTTTTTAGTGGCGTTTGTTTCTAAGCGCCGCTAACTTTAGGGCTTT
TAGCGGCAGTTTTGAT
Found at i:6935726 original size:21 final size:21
Alignment explanation
Indices: 6935702--6935766 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
6935692 GTAAAGCTGA
6935702 GCGGCAGCAAGAGAAGCAGAG
1 GCGGCAGCAAGAGAAGCAGAG
* * *
6935723 GCGGCAGCGAGAGAAGTACAG
1 GCGGCAGCAAGAGAAGCAGAG
6935744 G-GTGCAGCGAAG-GAAGCAGAG
1 GCG-GCAGC-AAGAGAAGCAGAG
6935765 GC
1 GC
6935767 TAAAGGGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 32 0.91
22 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGCAGAG
Found at i:6935881 original size:9 final size:9
Alignment explanation
Indices: 6935867--6935904 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
6935857 ATGTTTTAGG
6935867 GCAGCAGCC
1 GCAGCAGCC
6935876 GCAGCAGCC
1 GCAGCAGCC
6935885 GCAGCAGCC
1 GCAGCAGCC
*
6935894 GCAACAGCC
1 GCAGCAGCC
6935903 GC
1 GC
6935905 TGTCTTAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.24, C:0.45, G:0.32, T:0.00
Consensus pattern (9 bp):
GCAGCAGCC
Found at i:6936136 original size:22 final size:22
Alignment explanation
Indices: 6936108--6936150 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6936098 TACCGGCGCT
* *
6936108 AAAAAGCGTCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
6936130 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
6936151 GTTTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:6936764 original size:21 final size:21
Alignment explanation
Indices: 6936740--6936787 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
6936730 TATATATTTA
*
6936740 TTAGAATACTTTGTATATGA-T
1 TTAGAATAC-TTGTATAAGAGT
6936761 TTAGGAATACTTGTATAAGAGT
1 TTA-GAATACTTGTATAAGAGT
6936783 TTAGA
1 TTAGA
6936788 TATGTTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (21 bp):
TTAGAATACTTGTATAAGAGT
Found at i:6936771 original size:22 final size:22
Alignment explanation
Indices: 6936743--6936786 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6936733 ATATTTATTA
*
6936743 GAATACTTTGTATATGA-TTTAG
1 GAATAC-TTGTATAAGAGTTTAG
6936765 GAATACTTGTATAAGAGTTTAG
1 GAATACTTGTATAAGAGTTTAG
6936787 ATATGTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (22 bp):
GAATACTTGTATAAGAGTTTAG
Found at i:6937496 original size:30 final size:30
Alignment explanation
Indices: 6937462--6937577 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 30
6937452 CTGGGCATTT
* * *
6937462 CCACACGAGCTGGCCACACGCTCTTGCAAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
*
6937492 CCACACGGGCTGGCCACACCCTCATGCGAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
* * *
6937522 CCATACGGGCTGGCCACACGCTCGTGTGAG
1 CCACACGGGCTGGCCACACGCTCATGCGAG
* *
6937552 CCACATGGGCTGGCCACACGCCCATG
1 CCACACGGGCTGGCCACACGCTCATG
6937578 AGCCAACCCT
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.20, C:0.40, G:0.28, T:0.13
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACGCTCATGCGAG
Found at i:6938422 original size:14 final size:14
Alignment explanation
Indices: 6938399--6938429 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6938389 TGTTGTGTTT
*
6938399 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
6938413 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
6938427 TTA
1 TTA
6938430 AAAACAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:6942791 original size:31 final size:31
Alignment explanation
Indices: 6942753--6942815 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
6942743 ACTCTTAAAG
6942753 AAAAATTAATTAATGCTCTGATTGTGGTTGC
1 AAAAATTAATTAATGCTCTGATTGTGGTTGC
6942784 AAAAATTAATTAATGCTCTGATTGTGGTTGC
1 AAAAATTAATTAATGCTCTGATTGTGGTTGC
6942815 A
1 A
6942816 CCTGATTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (31 bp):
AAAAATTAATTAATGCTCTGATTGTGGTTGC
Found at i:6945836 original size:19 final size:20
Alignment explanation
Indices: 6945757--6945833 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
6945747 CCACCACCAT
*
6945757 TTGTTTATT-TTATTTATTTG
1 TTGTTTATTATTATTT-TTTA
* *
6945777 TTTTTTATTTATTA-TTCTTA
1 TTGTTTA-TTATTATTTTTTA
6945797 TTAG-TTA-TATTATTTTTTA
1 TT-GTTTATTATTATTTTTTA
6945816 TTGTTTATTATTATTTTT
1 TTGTTTATTATTATTTTT
6945834 ATTCTTAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
18 6 0.13
19 10 0.22
20 23 0.50
21 4 0.09
22 3 0.07
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.74
Consensus pattern (20 bp):
TTGTTTATTATTATTTTTTA
Found at i:6945845 original size:19 final size:20
Alignment explanation
Indices: 6945804--6945845 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
6945794 TTATTAGTTA
*
6945804 TATTATTTTTTATTGTTTAT
1 TATTATTTTTTATTGCTTAT
6945824 TATTA-TTTTTATT-CTTAGT
1 TATTATTTTTTATTGCTTA-T
6945843 TAT
1 TAT
6945846 ATATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 12 0.60
20 5 0.25
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (20 bp):
TATTATTTTTTATTGCTTAT
Found at i:6946743 original size:69 final size:69
Alignment explanation
Indices: 6946632--6946769 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
6946622 CGAGCTAGGC
6946632 ACCGTCACTTTCAGACTCGGTGGCTTGGTGTGCCATATTAGTGTCCTCAAGTTAGACGCTACTGT
1 ACCGTCACTTTCAGACTCGGTGGCTTGGTGTGCCATATTAGTGTCCTCAAGTTAGACGCTACTGT
6946697 GGGA
66 GGGA
*
6946701 ACCGTCACTTTTAGACTCGGTGGCTTGGTGTGCCATATTAGTGTCCTCAAGTTAGACGCTACTGT
1 ACCGTCACTTTCAGACTCGGTGGCTTGGTGTGCCATATTAGTGTCCTCAAGTTAGACGCTACTGT
6946766 GGGA
66 GGGA
6946770 CTCTACACTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (69 bp):
ACCGTCACTTTCAGACTCGGTGGCTTGGTGTGCCATATTAGTGTCCTCAAGTTAGACGCTACTGT
GGGA
Found at i:6947597 original size:6 final size:5
Alignment explanation
Indices: 6947561--6947611 Score: 75
Period size: 5 Copynumber: 9.6 Consensus size: 5
6947551 ATTGAGTCTA
6947561 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT GTTTAT GTTTAT TGTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT -TTTAT T-TTAT
6947609 TTT
1 TTT
6947612 CTTAGACTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 28 0.64
6 16 0.36
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:6950330 original size:14 final size:14
Alignment explanation
Indices: 6950307--6950337 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6950297 TGTTGCATTT
*
6950307 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
6950321 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
6950335 TTA
1 TTA
6950338 AAAAAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:6956629 original size:27 final size:26
Alignment explanation
Indices: 6956582--6956633 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
6956572 AAATAACTAT
**
6956582 TTATTCTTATTTTATTTATTTATTTTA
1 TTATTCTTATTTTATAAATTT-TTTTA
6956609 TTATTCTTATTTT-TGAAATTTTTTT
1 TTATTCTTATTTTAT-AAATTTTTTT
6956634 CTTCTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (26 bp):
TTATTCTTATTTTATAAATTTTTTTA
Found at i:6956684 original size:15 final size:15
Alignment explanation
Indices: 6956666--6956708 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
6956656 CTCCTCTCCC
6956666 CTTTTCTTT-TGTTTG
1 CTTTTCTTTCT-TTTG
*
6956681 CTTTTTCTTTCTTTTT
1 C-TTTTCTTTCTTTTG
6956697 CTTTTCTTTCTT
1 CTTTTCTTTCTT
6956709 GAAAACGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 12 0.48
16 12 0.48
17 1 0.04
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (15 bp):
CTTTTCTTTCTTTTG
Found at i:6960164 original size:33 final size:33
Alignment explanation
Indices: 6960118--6960320 Score: 156
Period size: 33 Copynumber: 5.6 Consensus size: 33
6960108 ATTATACGGT
6960118 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
6960151 GGAATCAGTACTTAGAAACCCCTTTCACATTTAAGATAT-GG
1 GGAATCAGCACTTAGCAACCAC---CA-A--T--GA-ATCGG
*
6960192 TGGGATCAGCACTTAGCAACCACCAATGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
6960226 GGAATCAGCACTTAACAACCCCCTTCACATTTAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CGG
*
6960267 TGGAATCAGCACTTAGCAACCACCAACGAATCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
6960301 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
6960321 CCTTAGGGGA
Statistics
Matches: 135, Mismatches: 15, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
33 57 0.42
34 10 0.07
35 3 0.02
36 5 0.04
37 2 0.01
38 2 0.01
39 6 0.04
40 3 0.02
41 10 0.07
42 37 0.27
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:6960215 original size:75 final size:75
Alignment explanation
Indices: 6960091--6960324 Score: 362
Period size: 75 Copynumber: 3.1 Consensus size: 75
6960081 ATATATTATT
* *
6960091 AACCCCTTTCACATTCAATTATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAAT
1 AACCCCTTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAAT
*
6960156 CAGTACTTAGA
65 CAGCACTTAGA
* * *
6960167 AACCCCTTTCACATTTAAGATATGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATC
1 AACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATC
6960232 AGCACTTA-A
66 AGCACTTAGA
* *
6960241 CAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAACGAATCGGGGAAT
1 -AACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAAT
*
6960306 CAGCACTTAGC
65 CAGCACTTAGA
6960317 AACCCCTT
1 AACCCCTT
6960325 AGGGGAATCA
Statistics
Matches: 144, Mismatches: 12, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
74 1 0.01
75 126 0.88
76 17 0.12
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (75 bp):
AACCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATC
AGCACTTAGA
Found at i:6964708 original size:23 final size:23
Alignment explanation
Indices: 6964677--6964727 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
6964667 ACCTATTTTC
* *
6964677 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTTGGGATA
6964700 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTTGGGATA
6964723 TTACA
1 TTACA
6964728 CAAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTTGGGATA
Found at i:6964735 original size:23 final size:23
Alignment explanation
Indices: 6964686--6964737 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
6964676 CTTACTGTAG
* ** *
6964686 TAATTTTTGGGGTATTACAGTAG
1 TAATTTTTGGGATATTACACAAA
6964709 TAATTTTTGGGATATTACACAAA
1 TAATTTTTGGGATATTACACAAA
6964732 TAATTT
1 TAATTT
6964738 CTATTTTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (23 bp):
TAATTTTTGGGATATTACACAAA
Found at i:6972167 original size:14 final size:14
Alignment explanation
Indices: 6972148--6972175 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6972138 GGCAATATAG
6972148 CAATTCTGGAATTC
1 CAATTCTGGAATTC
6972162 CAATTCTGGAATTC
1 CAATTCTGGAATTC
6972176 TACTCCCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (14 bp):
CAATTCTGGAATTC
Found at i:6975068 original size:15 final size:15
Alignment explanation
Indices: 6975048--6975093 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
6975038 AAAAAAAAAT
6975048 TGGTTGGCTATAAAG
1 TGGTTGGCTATAAAG
*
6975063 TGGTTGGCTATAAAAT
1 TGGTTGGCTAT-AAAG
6975079 TGGTTGGCTATAAAG
1 TGGTTGGCTATAAAG
6975094 CAGAAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (15 bp):
TGGTTGGCTATAAAG
Found at i:6975084 original size:16 final size:16
Alignment explanation
Indices: 6975043--6975092 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
6975033 TTTTTAAAAA
6975043 AAAATTGGTTGGCTAT
1 AAAATTGGTTGGCTAT
*
6975059 -AAAGTGGTTGGCTAT
1 AAAATTGGTTGGCTAT
6975074 AAAATTGGTTGGCTAT
1 AAAATTGGTTGGCTAT
6975090 AAA
1 AAA
6975093 GCAGAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 14 0.45
16 17 0.55
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (16 bp):
AAAATTGGTTGGCTAT
Found at i:6975776 original size:12 final size:11
Alignment explanation
Indices: 6975760--6975795 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
6975750 ATAGTTTATA
6975760 AAATTAGGATT
1 AAATTAGGATT
6975771 AGAATTAGGATT
1 A-AATTAGGATT
6975783 AAATCTAGGATT
1 AAAT-TAGGATT
6975795 A
1 A
6975796 CGTTTAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (11 bp):
AAATTAGGATT
Found at i:6976120 original size:156 final size:156
Alignment explanation
Indices: 6975834--6976143 Score: 494
Period size: 156 Copynumber: 2.0 Consensus size: 156
6975824 CAAAACTAGG
* *
6975834 TTTAGAACTAGAATTAGGATTAAACTTAGACTTAGTATATAAGATTAATATTTTTAATTAAGCTT
1 TTTAGAACTAGAATTAGGATTAAACTTAGACTTAGGATATAAGATTAATATTTTTAATTAAGATT
* * *
6975899 AAGACTTTGGAATTCTCGATGGCATCATGCTTTGAATTAATATATCATTTACATACCACTATTCC
66 AAGACTTTGGAATTCTCAATGGCATCATGCTATGAATTAATATATCATTTACATACCAATATTCC
6975964 ATGACATGTTTATTTGAGCTTACAGA
131 ATGACATGTTTATTTGAGCTTACAGA
* ** * * *
6975990 TTTAGAACTAGAATTAGGATTAGACTTAGACTTAGGATATAATTTTCATATTTTTACTTAGGATT
1 TTTAGAACTAGAATTAGGATTAAACTTAGACTTAGGATATAAGATTAATATTTTTAATTAAGATT
* * *
6976055 AAGACTTTGGAATTCTCAATGGTATCATGCTATGAATTGATATATCATTTACATACCAATTTTCC
66 AAGACTTTGGAATTCTCAATGGCATCATGCTATGAATTAATATATCATTTACATACCAATATTCC
6976120 ATGACATGTTTATTTGAGCTTACA
131 ATGACATGTTTATTTGAGCTTACA
6976144 TTTGATATCG
Statistics
Matches: 140, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
156 140 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.40
Consensus pattern (156 bp):
TTTAGAACTAGAATTAGGATTAAACTTAGACTTAGGATATAAGATTAATATTTTTAATTAAGATT
AAGACTTTGGAATTCTCAATGGCATCATGCTATGAATTAATATATCATTTACATACCAATATTCC
ATGACATGTTTATTTGAGCTTACAGA
Found at i:6978824 original size:20 final size:20
Alignment explanation
Indices: 6978782--6978821 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6978772 GTCCTTCAAA
* *
6978782 ATAAATTTATATTTTTGTTT
1 ATAAATTAATATTTGTGTTT
6978802 ATAAATTAATATTATGTGTT
1 ATAAATTAATATT-TGTGTT
6978822 ATAGGTTGAA
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:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATAAATTAATATTTGTGTTT
Found at i:6980791 original size:5 final size:5
Alignment explanation
Indices: 6980783--6980823 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
6980773 TTACTCAGGT
6980783 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC T
1 TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC TTCCC T
6980824 CTCTTCGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
TTCCC
Found at i:6981911 original size:3 final size:3
Alignment explanation
Indices: 6981903--6981929 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6981893 CCTTAATCCC
6981903 TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA
6981930 CCCCCACCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:6982984 original size:104 final size:105
Alignment explanation
Indices: 6982804--6983011 Score: 409
Period size: 104 Copynumber: 2.0 Consensus size: 105
6982794 TTCATGGAAA
6982804 CTCGTTCATGAGAGATTATTGGATCTATATATTTGTCCGTCCTTTGATTTCAATCACTAGCCTTT
1 CTCGTTCATGAGAGATTATTGGATCTATATATTTGTCCGTCCTTTGATTTCAATCACTAGCCTTT
6982869 TTCCCTATGCTGTGAGGGGTG-TTTTTTTTTTTTTATTTT
66 TTCCCTATGCTGTGAGGGGTGTTTTTTTTTTTTTTATTTT
6982908 CTCGTTCATGAGAGATTATTGGATCTATATATTTGTCCGTCCTTTGATTTCAATCACTAGCCTTT
1 CTCGTTCATGAGAGATTATTGGATCTATATATTTGTCCGTCCTTTGATTTCAATCACTAGCCTTT
6982973 TTCCCTATGCTGTGAGGGGTGTTTTTTTTTTTTTTATTT
66 TTCCCTATGCTGTGAGGGGTGTTTTTTTTTTTTTTATTT
6983012 CTTTGTAGGC
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 86 0.83
105 17 0.17
ACGTcount: A:0.16, C:0.16, G:0.17, T:0.50
Consensus pattern (105 bp):
CTCGTTCATGAGAGATTATTGGATCTATATATTTGTCCGTCCTTTGATTTCAATCACTAGCCTTT
TTCCCTATGCTGTGAGGGGTGTTTTTTTTTTTTTTATTTT
Found at i:6986475 original size:9 final size:9
Alignment explanation
Indices: 6986461--6986494 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
6986451 AACCAAACTC
6986461 ATTTTCTTT
1 ATTTTCTTT
6986470 ATTTTCTTT
1 ATTTTCTTT
*
6986479 ATTCTCTTT
1 ATTTTCTTT
6986488 ATTTTCT
1 ATTTTCT
6986495 ATCCTACTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTCTTT
Found at i:7002731 original size:4 final size:4
Alignment explanation
Indices: 7002722--7002751 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
7002712 GTTATCCTCT
7002722 TTTC TTTC TTTC TTTC TTTC TTTC -TTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
7002752 TTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:7002815 original size:1 final size:1
Alignment explanation
Indices: 7002809--7002845 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
7002799 AAATAAAATG
7002809 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7002846 GAATTCTGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7005327 original size:32 final size:32
Alignment explanation
Indices: 7005282--7005346 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
7005272 TATTAAACTT
* *
7005282 ATTCAGCCTCATTTCTACATTCAAGTTAGCTA
1 ATTCAGCCACATTTCTACATTAAAGTTAGCTA
* *
7005314 ATTCAGTCACATTTTTACATTAAAGTTAGCTA
1 ATTCAGCCACATTTCTACATTAAAGTTAGCTA
7005346 A
1 A
7005347 GTCTATGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.38
Consensus pattern (32 bp):
ATTCAGCCACATTTCTACATTAAAGTTAGCTA
Found at i:7006557 original size:3 final size:3
Alignment explanation
Indices: 7006549--7006582 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7006539 AGAAACCAGA
7006549 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7006583 TTCAAGGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7009942 original size:16 final size:15
Alignment explanation
Indices: 7009921--7009951 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7009911 TCGCTAACTG
7009921 TAGAAAACAAGAATCA
1 TAGAAAACAA-AATCA
7009937 TAGAAAACAAAATCA
1 TAGAAAACAAAATCA
7009952 AAGGACACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
TAGAAAACAAAATCA
Found at i:7012208 original size:18 final size:18
Alignment explanation
Indices: 7012185--7012221 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7012175 TTATTAGGGA
*
7012185 AGTACCAAAAATAATAAT
1 AGTACCAAAAACAATAAT
*
7012203 AGTACCAATAACAATAAT
1 AGTACCAAAAACAATAAT
7012221 A
1 A
7012222 ATAAAAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (18 bp):
AGTACCAAAAACAATAAT
Found at i:7015420 original size:5 final size:5
Alignment explanation
Indices: 7015410--7015445 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
7015400 GAAAGTCTAA
7015410 GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT G
7015446 CCTAATGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:7019039 original size:18 final size:18
Alignment explanation
Indices: 7019013--7019055 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7019003 CAATCATCTG
* *
7019013 ATATAATTAAATAACTTA
1 ATATTATTAAATAAATTA
*
7019031 ATATTATTAATTAAATTA
1 ATATTATTAAATAAATTA
7019049 ATATTAT
1 ATATTAT
7019056 ATAACATTAT
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:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATTAAATAAATTA
Found at i:7028553 original size:20 final size:20
Alignment explanation
Indices: 7028510--7028554 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
7028500 GCTTCCCTTT
* *
7028510 TTTATTTTTTGTTTTTTGTT
1 TTTATTTTTTATTTTTTGTA
7028530 TTTATTTTTTATTATTTTG-A
1 TTTATTTTTTATT-TTTTGTA
7028550 TTTAT
1 TTTAT
7028555 GCTTACGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTATTTTTTATTTTTTGTA
Found at i:7036233 original size:28 final size:28
Alignment explanation
Indices: 7036197--7036253 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
7036187 TAAGGGTGTT
7036197 GAATGGCTTAGTTTAGCTTGTGCTTTGA
1 GAATGGCTTAGTTTAGCTTGTGCTTTGA
*
7036225 GAATTGCTTAGTTTAGCTTGTGCTTTGA
1 GAATGGCTTAGTTTAGCTTGTGCTTTGA
7036253 G
1 G
7036254 TCTTTTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.44
Consensus pattern (28 bp):
GAATGGCTTAGTTTAGCTTGTGCTTTGA
Found at i:7040310 original size:15 final size:15
Alignment explanation
Indices: 7040290--7040331 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
7040280 ATAAATATAA
* *
7040290 ATAATTTTAAAACCT
1 ATAATTTCAAAACCG
7040305 ATAATTTCAAAACCG
1 ATAATTTCAAAACCG
*
7040320 ATAAATTCAAAA
1 ATAATTTCAAAA
7040332 TATTTTAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAATTTCAAAACCG
Found at i:7040912 original size:15 final size:16
Alignment explanation
Indices: 7040892--7040923 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7040882 TAACTTTCAA
7040892 ATTTTAG-AATTTTTT
1 ATTTTAGAAATTTTTT
7040907 ATTTTAGAAATTTTTT
1 ATTTTAGAAATTTTTT
7040923 A
1 A
7040924 GAAACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
ATTTTAGAAATTTTTT
Found at i:7042267 original size:32 final size:32
Alignment explanation
Indices: 7042231--7042294 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
7042221 CACCACTTTT
*
7042231 TTTGCCCGGGCCCGGCCCGGCCCGAATAATAA
1 TTTGCCCGGGCCCCGCCCGGCCCGAATAATAA
7042263 TTTGCCCGGGCCCCGCCCGGCCCGAATAATAA
1 TTTGCCCGGGCCCCGCCCGGCCCGAATAATAA
7042295 ATATTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.39, G:0.27, T:0.16
Consensus pattern (32 bp):
TTTGCCCGGGCCCCGCCCGGCCCGAATAATAA
Done.