Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 240 of 290
Found at i:78144677 original size:11 final size:11
Alignment explanation
Indices: 78144646--78144699 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
78144636 TTATGAATAC
78144646 ATCATGTGCAT
1 ATCATGTGCAT
*
78144657 ATCA--TACAT
1 ATCATGTGCAT
78144666 ATCATGTGCAT
1 ATCATGTGCAT
*
78144677 ATCA--TACAT
1 ATCATGTGCAT
*
78144686 GTCATGTGCAT
1 ATCATGTGCAT
78144697 ATC
1 ATC
78144700 GTATCAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:78152377 original size:32 final size:32
Alignment explanation
Indices: 78152341--78152405 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
78152331 CCTTTTCATA
78152341 TTTCATAT-TCCATAACACTGGGCCGAAGCCTT
1 TTTCATATCT-CATAACACTGGGCCGAAGCCTT
**
78152373 TTTCATATCTCATATTACTGGGCCGAAGCCTT
1 TTTCATATCTCATAACACTGGGCCGAAGCCTT
78152405 T
1 T
78152406 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (32 bp):
TTTCATATCTCATAACACTGGGCCGAAGCCTT
Found at i:78153584 original size:27 final size:27
Alignment explanation
Indices: 78153554--78153990 Score: 495
Period size: 27 Copynumber: 16.2 Consensus size: 27
78153544 AAAGTACTCC
*
78153554 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
78153581 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
78153608 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
78153635 CGATTTAAAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
78153662 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
78153689 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
78153716 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
78153743 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
78153770 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
78153797 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
78153824 C-AGTTTACAGAATTACTATTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
78153851 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
78153878 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
78153905 TAATTTACAAAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
78153932 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
78153959 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
78153986 TGATT
1 CGATT
78153991 GTGAAATTAC
Statistics
Matches: 352, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.01
27 344 0.98
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:78153986 original size:81 final size:81
Alignment explanation
Indices: 78153554--78153985 Score: 553
Period size: 81 Copynumber: 5.3 Consensus size: 81
78153544 AAAGTACTCC
* * * * *
78153554 CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTTTAAA
1 CGATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAGTTTATAGA
78153619 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
* * *
78153635 CGATTTAAAAAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTC-GATTTATAG
1 CGATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG-TTTATAG
78153699 AATTACCGTTTTACCCT
65 AATTACCGTTTTACCCT
* *
78153716 TGATTTGTAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAGTTTATAGA
1 CGATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAGTTTATAGA
**
78153781 ATTACTATTTTACCCT
66 ATTACCGTTTTACCCT
* * * * * ** * *
78153797 CGATTTACAGAATTATCATTTTACCCTCAGTTTACAGAATTACTATTTTACCTTC-GATTTACAG
1 CGATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAG-TTTATAG
78153861 AATTACCGTTTTACCCT
65 AATTACCGTTTTACCCT
* * * * * * * *
78153878 CGATTTGTAAAATTACTGTTTTACCCTTAATTTACAAAATTACTGGTTTACCCTCAGTTTACAAA
1 CGATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAGTTTATAGA
*
78153943 ATTATCGTTTTACCCT
66 ATTACCGTTTTACCCT
*
78153959 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTATAAAATTACCGTTTTACCCT
78153986 TGATTGTGAA
Statistics
Matches: 302, Mismatches: 45, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.00
81 299 0.99
82 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
CGATTTATAAAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCAGTTTATAGA
ATTACCGTTTTACCCT
Found at i:78154025 original size:27 final size:27
Alignment explanation
Indices: 78153995--78154189 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
78153985 TTGATTGTGA
*
78153995 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78154022 AATTTCCGAAATACCCCTATAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78154048 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78154075 AAGTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
78154102 AATTATCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78154129 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78154156 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
78154183 AATTACC
1 AATTACC
78154190 ATTTTGCCCC
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 22 0.16
27 116 0.84
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:78154426 original size:27 final size:26
Alignment explanation
Indices: 78154388--78154470 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
78154378 CGGAGGAAGC
*
78154388 GTTCTGGTGGCTGTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
78154415 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
78154441 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
78154468 GTT
1 GTT
78154471 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:78154807 original size:27 final size:25
Alignment explanation
Indices: 78154777--78154850 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
78154767 TAGATGGGTT
*
78154777 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACA-TATCTG-TTCTGGTGACTC
78154804 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCAC-ATATCTGT-TCTGGTGACTC
*
78154831 TGTCACGATATCTGTTCTGG
1 TGCCAC-ATATCTGTTCTGG
78154851 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.14
27 35 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
TGCCACATATCTGTTCTGGTGACTC
Found at i:78154977 original size:6 final size:6
Alignment explanation
Indices: 78154968--78155117 Score: 132
Period size: 6 Copynumber: 24.8 Consensus size: 6
78154958 TTGCATTCAC
* *
78154968 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
78155017 -TTACTA ATACTG -TTACTA ATTCTG ATTTTG ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
78155065 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
78155113 ATTCT
1 ATTCT
78155118 CATTTTGGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 26
0.75 0.09 0.17
Matches are distributed among these distances:
5 9 0.08
6 98 0.84
7 8 0.07
8 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:78155041 original size:30 final size:31
Alignment explanation
Indices: 78154968--78155043 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
78154958 TTGCATTCAC
* *
78154968 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTAATTCTGATTCTGTCACGTAATACTG
* *
78154999 ATTCTGATTCTGATTCTGTTAC-TAATACTG
1 ATTCTAATTCTGATTCTGTCACGTAATACTG
78155029 -TTACTAATTCTGATT
1 ATT-CTAATTCTGATT
78155044 TTGATTCTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.05
30 18 0.44
31 21 0.51
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTAATTCTGATTCTGTCACGTAATACTG
Found at i:78155052 original size:48 final size:48
Alignment explanation
Indices: 78154993--78155112 Score: 181
Period size: 48 Copynumber: 2.5 Consensus size: 48
78154983 CTGTCACGTA
78154993 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTG-TTACTAATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATT-CTAATTCTG
* * *
78155041 ATTTTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTAATTCTG
78155089 ATTCTG-TTACTGATTCTGATTCTG
1 ATTCTGATT-CTGATTCTGATTCTG
78155113 ATTCTCATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 2 0.03
48 62 0.94
49 2 0.03
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.50
Consensus pattern (48 bp):
ATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTAATTCTG
Found at i:78155908 original size:20 final size:20
Alignment explanation
Indices: 78155842--78155891 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
78155832 TTATGAATAC
78155842 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78155862 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
78155882 GTCATGTGCA
1 ATCATGTGCA
78155892 CATCGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78155977 original size:25 final size:25
Alignment explanation
Indices: 78155945--78155992 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
78155935 ATATCTAAAC
* * *
78155945 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAGAATAGTCATTTTTA
78155970 CCTAGGGGCAGAATAGTCATTTT
1 CCTAGGGGCAGAATAGTCATTTT
78155993 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAGAATAGTCATTTTTA
Found at i:78173929 original size:19 final size:19
Alignment explanation
Indices: 78173905--78173958 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
78173895 ATAGTGTTTA
78173905 GTAGATGGGGGTAGGATAT
1 GTAGATGGGGGTAGGATAT
*
78173924 GTAGAT-GGTGT--G-TA-
1 GTAGATGGGGGTAGGATAT
78173938 GTAGATGGGGGTAGGATAT
1 GTAGATGGGGGTAGGATAT
78173957 GT
1 GT
78173959 TATGATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 1 0.04
17 1 0.04
18 6 0.21
19 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (19 bp):
GTAGATGGGGGTAGGATAT
Found at i:78173945 original size:33 final size:33
Alignment explanation
Indices: 78173893--78173958 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
78173883 GGCTAGACAG
*
78173893 AGATAGTGTTTAGTAGATGGGGGTAGGATATGT
1 AGATAGTGTGTAGTAGATGGGGGTAGGATATGT
*
78173926 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
1 AGATAGTGTGTAGTAGATGGGGGTAGGATATGT
78173959 TATGATTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.32
Consensus pattern (33 bp):
AGATAGTGTGTAGTAGATGGGGGTAGGATATGT
Found at i:78175142 original size:31 final size:31
Alignment explanation
Indices: 78175076--78175146 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
78175066 AAGAGCCTAG
* *
78175076 TGACTTAAAAAAAAACTTTTGAATAATTCAG
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
* * * *
78175107 TGACTTAAATGAAAATTTTTGAATAGTTTAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
78175138 TGAC-TAAAT
1 TGACTTAAAT
78175147 TGTAACTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:78176489 original size:48 final size:48
Alignment explanation
Indices: 78176407--78176500 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
78176397 TTTCTTGGCT
* *
78176407 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
78176455 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
78176501 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:78178998 original size:48 final size:48
Alignment explanation
Indices: 78178916--78179009 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
78178906 TTTCTTGGCT
* * *
78178916 TAAAAATGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCA
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCA
*
78178964 TAAAAACGCCTAAGTCAG-CTCAAC-TCGTAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
78179010 AGAATTCCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCA
Found at i:78186327 original size:7 final size:7
Alignment explanation
Indices: 78186312--78186341 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
78186302 TGCATAACAG
78186312 ATCAGAT
1 ATCAGAT
*
78186319 ATCAAAT
1 ATCAGAT
78186326 ATCAGAT
1 ATCAGAT
78186333 ATCAGAT
1 ATCAGAT
78186340 AT
1 AT
78186342 GAGAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (7 bp):
ATCAGAT
Found at i:78186450 original size:40 final size:40
Alignment explanation
Indices: 78186398--78186474 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
78186388 ACACACCATG
* *
78186398 TGGGTATAAAATCGACCCA-CCCGTCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCATCCAG-CCCTACACACCAAGTA
*
78186438 TGGGGATAAAATCGACCCATCTAGCCCTACACACCAA
1 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAA
78186475 ATGGTACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGTA
Found at i:78188139 original size:22 final size:22
Alignment explanation
Indices: 78188111--78188153 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
78188101 TGTGAGTGGG
*
78188111 ATCAGAGTGATAGCGTCTCAAT
1 ATCAGAGTGATAGCATCTCAAT
78188133 ATCAGAGTGATAGCATCTCAA
1 ATCAGAGTGATAGCATCTCAA
78188154 CATCGACACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (22 bp):
ATCAGAGTGATAGCATCTCAAT
Found at i:78193534 original size:40 final size:40
Alignment explanation
Indices: 78193466--78193564 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
78193456 TACACCATCT
* * *
78193466 CCATCCAACCCAACACACC-A-TGTGGGGATAAAATCGAC
1 CCATCCAGCCCTACACACCAAGTATGGGGATAAAATCGAC
*
78193504 CCATCCAGCCCTACAGACCAAGTATGGGGATAAAATCGAC
1 CCATCCAGCCCTACACACCAAGTATGGGGATAAAATCGAC
*
78193544 CCATCCAGTCCTACACACCAA
1 CCATCCAGCCCTACACACCAA
78193565 ATGGTACTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 16 0.30
39 1 0.02
40 36 0.68
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.14
Consensus pattern (40 bp):
CCATCCAGCCCTACACACCAAGTATGGGGATAAAATCGAC
Found at i:78203436 original size:20 final size:21
Alignment explanation
Indices: 78203390--78203436 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
78203380 CACATTTGGT
**
78203390 TGACTCCTTTACTGGAACTCC
1 TGACTCCTTTACTGGAACAAC
*
78203411 T-TCTCCTTTACTGGAA-AAC
1 TGACTCCTTTACTGGAACAAC
78203430 TGACTCC
1 TGACTCC
78203437 ACTGTAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.86
21 1 0.05
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (21 bp):
TGACTCCTTTACTGGAACAAC
Found at i:78204879 original size:3 final size:3
Alignment explanation
Indices: 78204871--78204922 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
78204861 GTATTGAATA
78204871 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
78204919 AAG A
1 AAG A
78204923 GACAGGGAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:78205610 original size:96 final size:97
Alignment explanation
Indices: 78205493--78205681 Score: 229
Period size: 96 Copynumber: 2.0 Consensus size: 97
78205483 AATTTTAGGG
* * ** * * **
78205493 TTTTAAGAAAAAAATTTAAATAAATTAGGATTTAGTGTTTGTTAATTAAATTAATTACTAATTTT
1 TTTTAAGAAAAAAATTCAAATAAATTAGGATTTAGGGTTACTTAAGTAAATTAATTA-TAAATAA
* * *
78205558 AAAAAATTAGATTATGA-TTTAGTGTTTATGGT
65 AAAAAAATAGATTAGGATTTTAGGGTTTATGGT
* * *
78205590 TTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATAAA
1 TTTTAAGAAAAAAATTCAAATAAATTAGGATTTAGGGTTACTTAAGTAAATTAATTATAAATAAA
78205654 AAAAAATAGATTAGGATTTTAGGGTTTA
66 AAAAAATAGATTAGGATTTTAGGGTTTA
78205682 GGGTATTAGG
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
95 19 0.25
96 45 0.58
97 13 0.17
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.40
Consensus pattern (97 bp):
TTTTAAGAAAAAAATTCAAATAAATTAGGATTTAGGGTTACTTAAGTAAATTAATTATAAATAAA
AAAAAATAGATTAGGATTTTAGGGTTTATGGT
Found at i:78205994 original size:126 final size:126
Alignment explanation
Indices: 78205777--78206314 Score: 792
Period size: 126 Copynumber: 4.3 Consensus size: 126
78205767 AAAAGCTTCT
* * *
78205777 ACGTGGACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAAATTTGAGAAGACGTGTCTACGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
78205841 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
78205902 ACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * * * *
78205967 CTAGTGTAAAAAATGCTTCAAGTAGGATGCATTATCAACAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
78206028 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
78206093 ATAGTGGT-AAAAATGCTTCAAGCAGGATGCATTTTTAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
78206154 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
78206219 ATAGTGTCAAAAACGCTTCAAGCAGAATGCATTTTCAGTAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
78206280 ATGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
78206315 TAACTTGGGC
Statistics
Matches: 371, Mismatches: 39, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
125 31 0.08
126 338 0.91
127 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:78209738 original size:116 final size:116
Alignment explanation
Indices: 78209331--78209943 Score: 1104
Period size: 116 Copynumber: 5.3 Consensus size: 116
78209321 TTTATATTTT
* * * *
78209331 ATTACATGAAATAATATAAAAATATTCAAAATATTACTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * *
78209396 AAAA-ATAAAAGTAAATTATAATTACTTTATTTAAAACAACTTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
78209446 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
78209511 AAAATATAAAAGTAAATTACAATTA-TTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
78209561 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
78209626 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
78209677 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
78209742 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
78209793 ATTACATGAAATAATATAAAAATACTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
78209858 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
78209909 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
78209944 TGTATAAATA
Statistics
Matches: 481, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
115 175 0.36
116 306 0.64
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:78210353 original size:18 final size:18
Alignment explanation
Indices: 78210327--78210369 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
78210317 GACTAGAAAA
* *
78210327 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
78210345 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
78210363 AGGATAC
1 AGGATAC
78210370 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:78210996 original size:7 final size:7
Alignment explanation
Indices: 78210986--78211011 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
78210976 GTTAAATAAA
78210986 AAATACT
1 AAATACT
78210993 AAATACT
1 AAATACT
78211000 AAATACT
1 AAATACT
78211007 AAATA
1 AAATA
78211012 TGAATCCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATACT
Found at i:78210997 original size:14 final size:14
Alignment explanation
Indices: 78210978--78211011 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
78210968 AAATATTAGT
78210978 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
78210992 TAAATACTAAATAC
1 TAAATAAAAAATAC
78211006 TAAATA
1 TAAATA
78211012 TGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:78212170 original size:22 final size:22
Alignment explanation
Indices: 78212158--78212212 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
78212148 TAACGAGAGT
78212158 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
78212180 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
78212200 TTTGAGA-GAATTT
1 TTTGAGAGGAATTT
78212213 GAAAGATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 19 0.61
21 5 0.16
22 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:78212181 original size:11 final size:11
Alignment explanation
Indices: 78212158--78212214 Score: 75
Period size: 11 Copynumber: 5.5 Consensus size: 11
78212148 TAACGAGAGT
*
78212158 TTTGAGAGGAA
1 TTTGAGAGAAA
*
78212169 TTTAAGAGAAA
1 TTTGAGAGAAA
78212180 TTTGAGAG--A
1 TTTGAGAGAAA
78212189 TTTGAGAGAAA
1 TTTGAGAGAAA
78212200 TTTGAGAG-AA
1 TTTGAGAGAAA
78212210 TTTGA
1 TTTGA
78212215 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
9 9 0.22
10 7 0.17
11 25 0.61
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:78212187 original size:31 final size:30
Alignment explanation
Indices: 78212152--78212220 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
78212142 AAAAATTAAC
* *
78212152 GAGAGTTTTGAGAGGAATTTAAGAGAAATTT
1 GAGAGATTTGAGAGAAATTTAAGAG-AATTT
*
78212183 GAGAGATTTGAGAGAAATTTGAGAGAATTT
1 GAGAGATTTGAGAGAAATTTAAGAGAATTT
*
78212213 GAAAGATT
1 GAGAGATT
78212221 GAAGATTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.30
Consensus pattern (30 bp):
GAGAGATTTGAGAGAAATTTAAGAGAATTT
Found at i:78214034 original size:44 final size:44
Alignment explanation
Indices: 78213971--78214059 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
78213961 CAAACACCGG
78213971 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
78214015 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
78214059 A
1 A
78214060 TTTTCTGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (44 bp):
AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
Found at i:78216187 original size:46 final size:44
Alignment explanation
Indices: 78216104--78216216 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 44
78216094 GAAGAGTGCT
*
78216104 AGTGTAAGACGTGTCTGGGACACGCATCGGCCTCGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGACGT--ACC
* * * **
78216150 AGTGTAAGACATGTCTGGGATATGCATCGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCT-CGAGACGTACC
78216194 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
78216217 TGGCTTCAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 10 0.17
45 14 0.24
46 34 0.59
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGACGTACC
Found at i:78217389 original size:21 final size:21
Alignment explanation
Indices: 78217365--78217424 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
78217355 TCGAGATGGT
78217365 CACACGGGTGTGTTGCCCTTC
1 CACACGGGTGTGTTGCCCTTC
*
78217386 CACACGGGCGTGTTGCCCTTC
1 CACACGGGTGTGTTGCCCTTC
* *
78217407 TACATGGGTGTG-TGCCCT
1 CACACGGGTGTGTTGCCCT
78217425 ATTTTAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.10, C:0.32, G:0.30, T:0.28
Consensus pattern (21 bp):
CACACGGGTGTGTTGCCCTTC
Found at i:78226565 original size:8 final size:9
Alignment explanation
Indices: 78226509--78226564 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 9
78226499 GGAAACTATG
78226509 ATTTT-AAA
1 ATTTTAAAA
78226517 ATTTTAAAAA
1 ATTTT-AAAA
*
78226527 ATTATTCAAAT
1 ATT-TT-AAAA
78226538 ATTGTTAAAA
1 ATT-TTAAAA
78226548 ATTTT-AAA
1 ATTTTAAAA
78226556 ATTTTAAAA
1 ATTTTAAAA
78226565 TAAATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 13 0.32
9 5 0.12
10 12 0.30
11 10 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:78226646 original size:21 final size:21
Alignment explanation
Indices: 78226622--78226666 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
78226612 TTTTCATTTG
78226622 ATAGTATTTTAA-AATTTATAA
1 ATAGT-TTTTAAGAATTTATAA
*
78226643 ATAGTTTTTAAGAGTTTATAA
1 ATAGTTTTTAAGAATTTATAA
78226664 ATA
1 ATA
78226667 AAATATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
ATAGTTTTTAAGAATTTATAA
Found at i:78226729 original size:21 final size:21
Alignment explanation
Indices: 78226691--78226731 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
78226681 ATTATGGTTA
78226691 AAAAATATTTAATGTATTTATT
1 AAAAATATTTAA-GTATTTATT
78226713 AAAAATATTTTAA-TATTTA
1 AAAAATA-TTTAAGTATTTA
78226732 AAAGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAAATATTTAAGTATTTATT
Found at i:78228738 original size:13 final size:13
Alignment explanation
Indices: 78228722--78228746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78228712 TAATCTGATA
78228722 TTTCTGTATCTGC
1 TTTCTGTATCTGC
78228735 TTTCTGTATCTG
1 TTTCTGTATCTG
78228747 TTTTGGGGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.20, G:0.16, T:0.56
Consensus pattern (13 bp):
TTTCTGTATCTGC
Found at i:78237312 original size:21 final size:20
Alignment explanation
Indices: 78237269--78237322 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
78237259 GCTACCTCAC
*
78237269 ACAC-CCGTGTGGCTGAGGA
1 ACACGCCGTGTGGCTAAGGA
* *
78237288 ACACGACCGTGTGTCTAAGGC
1 ACACG-CCGTGTGGCTAAGGA
78237309 ACACGCCTGTGTGG
1 ACACGCC-GTGTGG
78237323 AAATCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 22 0.79
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (20 bp):
ACACGCCGTGTGGCTAAGGA
Found at i:78242283 original size:23 final size:22
Alignment explanation
Indices: 78242231--78242287 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
78242221 GATTAAAACA
*
78242231 AATA-TACAAAATCGAATCTCT
1 AATATTACAAAATCAAATCTCT
* *
78242252 AAGATTTACAGAATCAAATCTTCT
1 AATA-TTACAAAATCAAATC-TCT
78242276 AATATTACAAAA
1 AATATTACAAAA
78242288 CCTCTAAGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 3 0.11
23 19 0.68
24 6 0.21
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (22 bp):
AATATTACAAAATCAAATCTCT
Found at i:78245031 original size:39 final size:39
Alignment explanation
Indices: 78244973--78245098 Score: 209
Period size: 39 Copynumber: 3.2 Consensus size: 39
78244963 GAATGCTTCG
*
78244973 AGTATTCCAAGGATCGAACCCAAGAGAGTTCTAAGACTA
1 AGTATTCCAAGGATAGAACCCAAGAGAGTTCTAAGACTA
*
78245012 AGTATCCCAAGGATAGAACCCAAGAGAGTTCTAAGACTA
1 AGTATTCCAAGGATAGAACCCAAGAGAGTTCTAAGACTA
78245051 AGTATTCCAAGGATCA-AACCCAAGAGAGTTCTAAGACTA
1 AGTATTCCAAGGAT-AGAACCCAAGAGAGTTCTAAGACTA
78245090 AGTGATTCC
1 AGT-ATTCC
78245099 TAAACAATAA
Statistics
Matches: 82, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
39 76 0.93
40 6 0.07
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (39 bp):
AGTATTCCAAGGATAGAACCCAAGAGAGTTCTAAGACTA
Found at i:78247478 original size:8 final size:8
Alignment explanation
Indices: 78247444--78247518 Score: 53
Period size: 8 Copynumber: 9.4 Consensus size: 8
78247434 ATTTCTTTGA
*
78247444 TTTCTTTC
1 TTTCTTTT
* *
78247452 TTTATTCT
1 TTTCTTTT
* *
78247460 TTTCCTAT
1 TTTCTTTT
78247468 TTTCTTTT
1 TTTCTTTT
*
78247476 TTTC-TTC
1 TTTCTTTT
*
78247483 TTTCTTTC
1 TTTCTTTT
78247491 TTTCTTTT
1 TTTCTTTT
* *
78247499 TTTCCTAT
1 TTTCTTTT
78247507 TTTCTTTGT
1 TTTCTTT-T
78247516 TTT
1 TTT
78247519 TTCATTCTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
7 6 0.12
8 41 0.80
9 4 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTCTTTT
Found at i:78247486 original size:15 final size:15
Alignment explanation
Indices: 78247468--78247529 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
78247458 CTTTTCCTAT
*
78247468 TTTCTTTTTTTCTTC
1 TTTCTTTCTTTCTTC
78247483 TTTCTTTCTTTCTT-
1 TTTCTTTCTTTCTTC
*
78247497 TTT-TTCCTATT-TTC
1 TTTCTTTCT-TTCTTC
*
78247511 TTTGTTT-TTTCATTC
1 TTTCTTTCTTTC-TTC
78247526 TTTC
1 TTTC
78247530 ATCCATTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 8 0.21
14 9 0.24
15 21 0.55
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTCTTTCTTTCTTC
Found at i:78247492 original size:39 final size:39
Alignment explanation
Indices: 78247444--78247529 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
78247434 ATTTCTTTGA
78247444 TTTCTTTCTTTATTCTTTTCCTATTTTCTTT-TTTTCTTC
1 TTTCTTTCTTTATTCTTTTCCTATTTTCTTTGTTTT-TTC
* *
78247483 TTTCTTTCTTTCTTTTTTTCCTATTTTCTTTGTTTTTTC
1 TTTCTTTCTTTATTCTTTTCCTATTTTCTTTGTTTTTTC
*
78247522 ATTCTTTC
1 TTTCTTTC
78247530 ATCCATTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 39 0.91
40 4 0.09
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (39 bp):
TTTCTTTCTTTATTCTTTTCCTATTTTCTTTGTTTTTTC
Found at i:78248875 original size:13 final size:13
Alignment explanation
Indices: 78248857--78248885 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
78248847 GTATTTTGCC
78248857 TTTGTTAATGTGA
1 TTTGTTAATGTGA
78248870 TTTGTTAATGTGA
1 TTTGTTAATGTGA
78248883 TTT
1 TTT
78248886 CTGAAAGCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (13 bp):
TTTGTTAATGTGA
Found at i:78251358 original size:26 final size:26
Alignment explanation
Indices: 78251329--78251410 Score: 130
Period size: 26 Copynumber: 3.2 Consensus size: 26
78251319 TGATACAAAT
78251329 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCTA
*
78251355 TGATGATGGGTTAGGTAAATGTT-TCA
1 TGATAATGGGTTAGGTAAATGTTCT-A
*
78251381 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCTA
78251407 TGAT
1 TGAT
78251411 TGGAATTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 50 0.98
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCTA
Found at i:78252927 original size:25 final size:25
Alignment explanation
Indices: 78252888--78252938 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
78252878 TTTACAGTTT
78252888 TACCCCTAGGATAAATT-ACCGAAA
1 TACCCCTAGGATAAATTGACCGAAA
* *
78252912 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTA-GGATAAATTGACCGAAA
78252938 T
1 T
78252939 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 8 0.35
26 7 0.30
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (25 bp):
TACCCCTAGGATAAATTGACCGAAA
Found at i:78258455 original size:25 final size:25
Alignment explanation
Indices: 78258397--78258476 Score: 151
Period size: 25 Copynumber: 3.2 Consensus size: 25
78258387 TGATACAAAT
78258397 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
78258423 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
78258448 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
78258473 TGAT
1 TGAT
78258477 GGAATTTCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 31 0.57
26 23 0.43
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:78261570 original size:33 final size:33
Alignment explanation
Indices: 78261533--78261700 Score: 161
Period size: 33 Copynumber: 5.3 Consensus size: 33
78261523 ATCGAATGTC
**
78261533 AAAAGGAAAGGTATACTTTGTGTGTACCACATG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
** *
78261566 AAAAGGCTATGTATACTTTGTGTGTA-C-TCTT-
1 AAAAGGAAAGGTATACTTTGTGTGTACCAT-TTG
**
78261597 --AA--AAAGGTGGACTTTGTGTGTACCATTTG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
* * * *
78261626 AAAAGGGAATGTATACTCTGTGTGTACCATTTC
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
* *
78261659 AAAAGGAAAGGTATACTTTGTTTATACCATTTG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
78261692 AAAAGGAAA
1 AAAAGGAAA
78261701 TGTACACCTC
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
27 15 0.14
28 3 0.03
29 3 0.03
31 2 0.02
32 2 0.02
33 80 0.76
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (33 bp):
AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
Found at i:78261884 original size:21 final size:21
Alignment explanation
Indices: 78261843--78261884 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
78261833 ATGAAATAGA
*
78261843 ATATGTAAATATGAGATGTTT
1 ATATGTAAATATGAGAGGTTT
* *
78261864 ATATGTGAATATGAGCGGTTT
1 ATATGTAAATATGAGAGGTTT
78261885 GACGAATACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.40
Consensus pattern (21 bp):
ATATGTAAATATGAGAGGTTT
Found at i:78264298 original size:17 final size:17
Alignment explanation
Indices: 78264276--78264311 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
78264266 TAGAATTGAG
*
78264276 TTGAAAAAATTATTTAA
1 TTGAAAAAATTAATTAA
*
78264293 TTGAAAATATTAATTAA
1 TTGAAAAAATTAATTAA
78264310 TT
1 TT
78264312 TAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTGAAAAAATTAATTAA
Found at i:78265997 original size:19 final size:20
Alignment explanation
Indices: 78265968--78266005 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
78265958 AAAATAAGGA
78265968 ATTCAAAAACAATGAATAAT
1 ATTCAAAAACAATGAATAAT
78265988 ATTC-AAAACAATGAATAA
1 ATTCAAAAACAATGAATAA
78266006 AGAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
ATTCAAAAACAATGAATAAT
Found at i:78266489 original size:17 final size:16
Alignment explanation
Indices: 78266463--78266497 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
78266453 TAAAATAATT
78266463 AAATAATAAATAATAA
1 AAATAATAAATAATAA
78266479 AAATAAATAAATAATAA
1 AAAT-AATAAATAATAA
78266496 AA
1 AA
78266498 TCTAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATAAATAATAA
Found at i:78266496 original size:7 final size:7
Alignment explanation
Indices: 78266455--78266488 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
78266445 AAACAATTTA
78266455 AAATAATT
1 AAATAA-T
78266463 AAATAAT
1 AAATAAT
78266470 AAATAAT
1 AAATAAT
78266477 AAA-AAT
1 AAATAAT
78266483 AAATAA
1 AAATAA
78266489 ATAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:78268226 original size:40 final size:40
Alignment explanation
Indices: 78268182--78268273 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
78268172 GTTGTATGTG
* * *
78268182 AGACACGACCGTATGGTCGATGAAGGCATGGTCGTGTGCA
1 AGACACGACCGTATAGTCAATGAAAGCATGGTCGTGTGCA
* *
78268222 AGACAC-AGCCGTGTAGTCAATGAAAGCATGGTTGTGTGCA
1 AGACACGA-CCGTATAGTCAATGAAAGCATGGTCGTGTGCA
*
78268262 AGACATGACCGT
1 AGACACGACCGT
78268274 GTGATGGCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (40 bp):
AGACACGACCGTATAGTCAATGAAAGCATGGTCGTGTGCA
Found at i:78268400 original size:17 final size:17
Alignment explanation
Indices: 78268375--78268423 Score: 80
Period size: 17 Copynumber: 2.8 Consensus size: 17
78268365 AGGTTAATTT
*
78268375 GGGCGTGTGGCCCACAC
1 GGGCTTGTGGCCCACAC
78268392 GGGCTTGTGGCCCACAC
1 GGGCTTGTGGCCCACAC
78268409 GGGCTTGTGAGCCCA
1 GGGCTTGTG-GCCCA
78268424 TGTTTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 25 0.83
18 5 0.17
ACGTcount: A:0.12, C:0.33, G:0.39, T:0.16
Consensus pattern (17 bp):
GGGCTTGTGGCCCACAC
Found at i:78269636 original size:21 final size:22
Alignment explanation
Indices: 78269606--78269669 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
78269596 CGATCCTGTA
*
78269606 AGTAT-TTCTGAAACT-TAGAT
1 AGTATATTCTGAAACTGTAGAC
78269626 AGTATATTCTGAAAACATTGTAGAC
1 AGTATATTCTG-AAAC--TGTAGAC
*
78269651 AGTACATTCTGAAACTGTA
1 AGTATATTCTGAAACTGTA
78269670 CTGAAATAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 8 0.22
24 5 0.14
25 14 0.38
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (22 bp):
AGTATATTCTGAAACTGTAGAC
Found at i:78269780 original size:17 final size:18
Alignment explanation
Indices: 78269758--78269793 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
78269748 ATACTGGTAC
78269758 TAATGT-ATAAAATTTTA
1 TAATGTAATAAAATTTTA
78269775 TAATGTAGATAAAATTTTA
1 TAATGTA-ATAAAATTTTA
78269794 AAATTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TAATGTAATAAAATTTTA
Found at i:78275904 original size:8 final size:8
Alignment explanation
Indices: 78275893--78275917 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
78275883 GGTGGTTAAG
78275893 TGGAGTGT
1 TGGAGTGT
78275901 TGGAGTGT
1 TGGAGTGT
78275909 TGGAGTGT
1 TGGAGTGT
78275917 T
1 T
78275918 AGAGATCCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (8 bp):
TGGAGTGT
Found at i:78278595 original size:13 final size:13
Alignment explanation
Indices: 78278554--78278596 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
78278544 TCAAGCATAA
78278554 TATTTATGTATCTG
1 TATTT-TGTATCTG
* * *
78278568 TATATTATATTTG
1 TATTTTGTATCTG
78278581 TATTTTGTATCTG
1 TATTTTGTATCTG
78278594 TAT
1 TAT
78278597 ATGGAGTGGG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (13 bp):
TATTTTGTATCTG
Found at i:78280088 original size:24 final size:25
Alignment explanation
Indices: 78280033--78280089 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
78280023 TTATTATAAA
* **
78280033 ATAATTATAAAAATATTTTTTTGTG
1 ATAATTATAAAAATATCTTTTAATG
78280058 ATAAATTATAAAAATA-CTTTTAATG
1 AT-AATTATAAAAATATCTTTTAATG
78280083 ATAATTA
1 ATAATTA
78280090 GATCTGTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.18
25 10 0.36
26 13 0.46
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (25 bp):
ATAATTATAAAAATATCTTTTAATG
Found at i:78288380 original size:30 final size:30
Alignment explanation
Indices: 78288336--78288404 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
78288326 AATTTGTCAC
*
78288336 TATACTTT-ATTTTAATTGATATTTATAAT
1 TATATTTTAATTTTAATTGATATTTATAAT
78288365 TATATTTTAATTTTAATTGATATTTATAAT
1 TATATTTTAATTTTAATTGATATTTATAAT
78288395 TATATTTTAA
1 TATATTTTAA
78288405 GAATATAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TATATTTTAATTTTAATTGATATTTATAAT
Found at i:78292994 original size:20 final size:19
Alignment explanation
Indices: 78292958--78293008 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
78292948 AAAGGATTTT
*
78292958 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
78292977 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
78292997 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
78293009 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:78295863 original size:13 final size:13
Alignment explanation
Indices: 78295845--78295869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78295835 AGTTTATTTC
78295845 GATTAATATTTAT
1 GATTAATATTTAT
78295858 GATTAATATTTA
1 GATTAATATTTA
78295870 GATGCATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
GATTAATATTTAT
Found at i:78297548 original size:30 final size:30
Alignment explanation
Indices: 78297512--78297686 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
78297502 ACTTTTCTCA
*
78297512 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
78297542 ACTAGCCACGCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
78297572 ACTAGCCACTCCTTTTCCACCGCCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
78297602 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
78297632 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
78297662 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
78297687 CTTGTACCTA
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 3 0.02
30 126 0.98
ACGTcount: A:0.26, C:0.49, G:0.05, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:78298199 original size:23 final size:23
Alignment explanation
Indices: 78298172--78298215 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
78298162 CCTTTTTTGT
78298172 TATTATTATATT-TCTTAATATTA
1 TATTA-TATATTCTCTTAATATTA
*
78298195 TATTATATATTCTTTTAATAT
1 TATTATATATTCTCTTAATAT
78298216 ATTAGGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATATATTCTCTTAATATTA
Found at i:78298216 original size:20 final size:20
Alignment explanation
Indices: 78298175--78298219 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
78298165 TTTTTGTTAT
*
78298175 TATTATATTTCTTAATATTA
1 TATTATATTTCTTAATAATA
*
78298195 TATTATATATTCTT-TTAATA
1 TATTATAT-TTCTTAATAATA
78298215 TATTA
1 TATTA
78298220 GGTATATTTT
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:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATATTTCTTAATAATA
Found at i:78298292 original size:25 final size:25
Alignment explanation
Indices: 78298264--78298387 Score: 87
Period size: 23 Copynumber: 5.0 Consensus size: 25
78298254 TTATACTATT
78298264 TTATGTATATATCTTTAATATTATATTA
1 TTATGTATATATCTTTAATA-T-TA-TA
* * * *
78298292 TCTATATATATATTTTTACATGTTATC
1 T-TATGTATATATCTTTA-ATATTATA
*
78298319 TTATGTATATATC-TT-A-ACTATA
1 TTATGTATATATCTTTAATATTATA
* *
78298341 TTATGTATAT-T-TTTAACACTATA
1 TTATGTATATATCTTTAATATTATA
* *
78298364 TTATGTACATATTTTTAATATTAT
1 TTATGTATATATCTTTAATATTAT
78298388 CACGTATTTA
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.04
22 14 0.18
23 16 0.21
24 1 0.01
25 11 0.14
26 10 0.13
27 2 0.03
28 3 0.04
29 15 0.19
30 2 0.03
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (25 bp):
TTATGTATATATCTTTAATATTATA
Found at i:78298330 original size:30 final size:29
Alignment explanation
Indices: 78298251--78298330 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 29
78298241 TACGTAATAT
* * *
78298251 ATATTATACTATTTTATGTATATATCTTTA
1 ATATTATATTA-TCTATATATATATCTTTA
*
78298281 ATATTATATTATCTATATATATATTTTTA
1 ATATTATATTATCTATATATATATCTTTA
* * *
78298310 CATGTTATCTTATGTATATAT
1 -ATATTATATTATCTATATAT
78298331 CTTAACTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (29 bp):
ATATTATATTATCTATATATATATCTTTA
Found at i:78298561 original size:16 final size:14
Alignment explanation
Indices: 78298542--78298575 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
78298532 TATTATTCTA
78298542 ATATTTTGATATTTT
1 ATATTTT-ATATTTT
78298557 GATATTTTATATTTT
1 -ATATTTTATATTTT
78298572 ATAT
1 ATAT
78298576 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (14 bp):
ATATTTTATATTTT
Found at i:78298570 original size:7 final size:8
Alignment explanation
Indices: 78298542--78298575 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
78298532 TATTATTCTA
78298542 ATATTTTG
1 ATATTTTG
78298550 ATATTTTG
1 ATATTTTG
78298558 ATATTTT-
1 ATATTTTG
78298565 ATATTTT-
1 ATATTTTG
78298572 ATAT
1 ATAT
78298576 ATTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:78298577 original size:16 final size:15
Alignment explanation
Indices: 78298542--78298582 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
78298532 TATTATTCTA
78298542 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
*
78298558 ATATTTTATATTTTAT
1 ATATTTTATATTTT-G
78298574 ATATTTTAT
1 ATATTTTAT
78298583 TATTCACATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:78306990 original size:71 final size:70
Alignment explanation
Indices: 78306868--78307043 Score: 203
Period size: 71 Copynumber: 2.5 Consensus size: 70
78306858 CTTTCCAAGG
** *
78306868 AAAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
*
78306932 TTTTTT
65 TGTTTT
* ** * *
78306938 CAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
78307003 TGTTTT
65 TGTTTT
** * *
78307009 -AAATTGACTCATATTGCGAGATGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
78307044 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 30 0.33
71 58 0.64
72 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:78307187 original size:76 final size:74
Alignment explanation
Indices: 78307061--78307399 Score: 434
Period size: 76 Copynumber: 4.5 Consensus size: 74
78307051 TTTGTTTTTC
*
78307061 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
78307126 GTTGTTAAAAA
66 GTT-TT-AAAA
**
78307137 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
78307202 GTTTT--CA
66 GTTTTAAAA
* * * * * *
78307209 AAATTCAACTTATATTGCGAGTA-ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
78307273 TGTTTTCAAAAA
65 TGTTTT--AAAA
* * *
78307285 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
78307349 TCTGTTTTTAAA
63 TCTGTTTTAAAA
* *
78307361 AAGATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
78307400 ATTACACACT
Statistics
Matches: 234, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
72 64 0.27
73 1 0.00
75 4 0.02
76 136 0.58
77 1 0.00
78 28 0.12
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:78307315 original size:148 final size:148
Alignment explanation
Indices: 78307047--78307394 Score: 479
Period size: 148 Copynumber: 2.3 Consensus size: 148
78307037 TAAGCCTTTT
* * *
78307047 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
78307112 TAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
66 TAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GG
78307177 -ACACGCTGAGGTAATTTC
130 TACACGCTGAGGTAATTTC
* * *
78307195 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGTA-ATGAGTTGAGCCTCAAGACACGTTGA
1 AATTTCTGTTTTTCAAAA-TCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAAGACACGCTGA
* * **
78307258 GGTATTTTCAATTTCTGTT-TTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC
64 GGTAATTTCAATTTCTGTTGTT-AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* *
78307322 GGTTCACATGCTGAGGTATTTTC
128 GG-T-ACACGCTGAGGTAATTTC
*
78307345 AATTTCTGTTTTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTGTTTTT-CAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGC
78307395 TTCAGATTAC
Statistics
Matches: 175, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
147 13 0.07
148 102 0.58
149 1 0.01
150 24 0.14
151 5 0.03
152 29 0.17
153 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (148 bp):
AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCAATTTCTGTTGTTAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGT
ACACGCTGAGGTAATTTC
Found at i:78307726 original size:73 final size:73
Alignment explanation
Indices: 78307553--78308177 Score: 824
Period size: 73 Copynumber: 8.4 Consensus size: 73
78307543 TCAAAATCAG
* * * * *
78307553 CTCATATTGCAAGAGGTGACTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT-T-
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGT-TTGTC
* *
78307616 -TAATTTCAA
65 AAAAATT-AA
*
78307625 CTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
78307690 AAAATTAA
66 AAAATTAA
* * **
78307698 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCGT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTCAATTTCTGTT--T
** *
78307763 GAAAAAAATCAA
62 GTCAAAAATTAA
* *
78307775 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
*
78307840 AAAATCAA
66 AAAATTAA
78307848 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
78307913 AAAATTAA
66 AAAATTAA
* * ** *
78307921 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCGT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTCAATTTCTGTTTGT
*
78307986 AAAAAAAATTAA
64 --CAAAAATTAA
* * * *
78307998 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC
*
78308063 AAAAAAATCAA
65 --AAAAATTAA
* *
78308074 CTCATATTGCGAAAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
78308139 AAAATTAA
66 AAAATTAA
*
78308147 CTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGG
78308178 CTCACATGCT
Statistics
Matches: 487, Mismatches: 52, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
71 2 0.00
72 54 0.11
73 179 0.37
74 4 0.01
75 104 0.21
76 65 0.13
77 79 0.16
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (73 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
AAAATTAA
Found at i:78307813 original size:150 final size:147
Alignment explanation
Indices: 78307553--78308206 Score: 848
Period size: 150 Copynumber: 4.4 Consensus size: 147
78307543 TCAAAATCAG
* * ** * **
78307553 CTCATATTGCAAGAGGTGACTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTG-TGT-TT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATTTTCAATTTCTGTTGTGAA
* **
78307616 TAATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
78307681 TGTTTGTCAAAAATTAA
131 TGTTTGTCAAAAATTAA
* *
78307698 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCGT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTATTTTCAATTTCTGTT-GT
* *
78307763 GAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
63 GAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAAT
* *
78307828 TTCTGTTTTTCAAAAATCAA
128 TTCTGTTTGTCAAAAATTAA
* * **
78307848 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTT-TGTC
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATTTTCAATTTCTGTTGTGAA
* * * * **
78307912 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
66 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGG--GACACGCTGAGGTAATTTCAATT
* *
78307977 TCTGTTCGTAAAAAAAATTAA
129 TCTGTTTGT--CAAAAATTAA
* *
78307998 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAAATTTCTGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGGTA-TTTTCAATTTCTG-TTGT
* *
78308062 CAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAAT
63 GAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAAT
78308127 TTCTGTTTGTCAAAAATTAA
128 TTCTGTTTGTCAAAAATTAA
* * * *
78308147 CTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTG
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTATTTTCAATTTCTG
78308207 CTTTTCAATT
Statistics
Matches: 443, Mismatches: 50, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
145 29 0.07
146 40 0.09
147 22 0.05
148 54 0.12
149 39 0.09
150 168 0.38
151 51 0.12
152 2 0.00
153 38 0.09
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (147 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATTTTCAATTTCTGTTGTGAA
AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATTAA
Found at i:78307932 original size:223 final size:223
Alignment explanation
Indices: 78307545--78308206 Score: 1130
Period size: 223 Copynumber: 3.0 Consensus size: 223
78307535 CTACTTTTTC
* * * * * *
78307545 AAAATCAGCTCATATTGCAAGAGGTGACTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
**
78307610 GTGTTTT--AATTTCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATT
66 GT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATT
78307673 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
130 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
*
78307738 TGAGGTCTTTTCAATTTCTGTTCGTGAAA
195 TGAGGTCTTTTCAATTTCTGTTCGTAAAA
*
78307767 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
*
78307832 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTT
78307897 CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
131 CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
78307962 GAGGTCTTTTCAATTTCTGTTCGTAAAA
196 GAGGTCTTTTCAATTTCTGTTCGTAAAA
* *
78307990 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTTC
*
78308055 TGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAA
65 TGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAA
*
78308120 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACAT
128 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
78308185 GCTGAGGTCTTTTTAATTTCTG
193 GCTGAGGTCTTTTCAATTTCTG
78308207 CTTTTCAATT
Statistics
Matches: 417, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
221 4 0.01
222 60 0.14
223 198 0.47
224 17 0.04
226 138 0.33
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (223 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGACACGCTGAGGTAATTT
CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
GAGGTCTTTTCAATTTCTGTTCGTAAAA
Found at i:78308405 original size:77 final size:76
Alignment explanation
Indices: 78308316--78308492 Score: 214
Period size: 77 Copynumber: 2.3 Consensus size: 76
78308306 AAATCTACTT
** * * *
78308316 TTGCGAGAGGTGAGTTGAACCTTTGCTCAC-GTGCTGA-GCTATTTTCAATTTCTGTTTTTCAAA
1 TTGCGAGAGGTGAGTTGAACCTCGGCTCACACT-CTGAGGC-ATTTCCAATTTCTGCTTTTCAAA
78308379 AGAATCAACTCATA
64 A-AATCAACTCATA
* * * *
78308393 TTGCGAGAGGTGAGTTGAGCCTCGGGTCACACTCTGAGGCGTTTCCAATTTCTGCTTTTCAAAAT
1 TTGCGAGAGGTGAGTTGAACCTCGGCTCACACTCTGAGGCATTTCCAATTTCTGCTTTTCAAAAA
*
78308458 ATCAACTTATA
66 ATCAACTCATA
*
78308469 TTGCGAGAGGTGAGTTGAGCCTCG
1 TTGCGAGAGGTGAGTTGAACCTCG
78308493 AGTCACATGC
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
76 34 0.39
77 51 0.58
78 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (76 bp):
TTGCGAGAGGTGAGTTGAACCTCGGCTCACACTCTGAGGCATTTCCAATTTCTGCTTTTCAAAAA
ATCAACTCATA
Found at i:78308595 original size:54 final size:54
Alignment explanation
Indices: 78308524--78308634 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
78308514 CAAATTCTAT
* * *
78308524 TTTTAATTTTTACTTTTCAAAAATTAACTCATATTGAGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCC
* *
78308578 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCC
78308632 TTT
1 TTT
78308635 GCTCACGTGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (54 bp):
TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCC
Found at i:78308655 original size:295 final size:295
Alignment explanation
Indices: 78308223--78308837 Score: 882
Period size: 295 Copynumber: 2.1 Consensus size: 295
78308213 AATTTCTGGT
* * *
78308223 TTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGGTTCA
1 TTTTT-AATTTATACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTT--GTTCA
* *
78308288 CATGTCGAGGTATTTTCAAAATCTACTTTTGCGAGAGGTGAGTTGAACCTTTGCTCACGTGCTGA
63 CATGTCGA-GTATTTTCAAAATCAACTTTTGCGAGAAGTGAGTTGAACCTTTGCTCACGTGCTGA
** *
78308353 GCTATTTTCAATTTCTGTTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
127 GCTATTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGG
*
78308418 GTCACAC-TCTGAGGCGTTTCCAATTTCTGCTTTTCAAAATATCAACTTATATTGCGAGAGGTGA
192 GTCACACGT-TGAGGCGTTTCCAATTTCTGCTTTTCAAAA-ATCAACTCATATTGCGAGAGGTGA
* **
78308482 GTTGAGCCTCGAGTCACATGCCGAGGTATTTTCAAATTCTA
255 GTTGAGCCTCGAGCCACACACCGAGGTATTTTCAAATTCTA
* *
78308523 TTTTTAATTTTTACTTTTCAAAAATTAACTCATATTGAGAGAGGTGAGTTGAGCCTT-TT-A-AT
1 TTTTTAATTTATACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGTTCACAT
* * *
78308585 TTCTA-T-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGA
66 GTCGAGTATTTTC-AAAATCAACT--T-TTGCGAGAAGTGAGTTGAACCTTTGCTCACGTGCTGA
78308648 GCTATTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGG
127 GCTATTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGG
*
78308713 GTCACACGTTGAGGCGTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
192 GTCACACGTTGAGGCGTTTCCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
78308778 TGAGTCTCGGGCCACACACTGAGGTCTTTTCAAATTCTA
257 TGAGCCTCGAGCCACACACCGAGGTATTTTCAAATTCTA
* *
78308817 TTTTTAATTTCTGCTTTTCAA
1 TTTTTAATTTATACTTTTCAA
78308838 TTTCTGTTTT
Statistics
Matches: 286, Mismatches: 24, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
291 5 0.02
292 10 0.03
294 82 0.29
295 134 0.47
296 3 0.01
299 47 0.16
300 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (295 bp):
TTTTTAATTTATACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTTGTTCACAT
GTCGAGTATTTTCAAAATCAACTTTTGCGAGAAGTGAGTTGAACCTTTGCTCACGTGCTGAGCTA
TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGTCA
CACGTTGAGGCGTTTCCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCGAGCCACACACCGAGGTATTTTCAAATTCTA
Found at i:78308801 original size:75 final size:74
Alignment explanation
Indices: 78308572--78308821 Score: 281
Period size: 75 Copynumber: 3.3 Consensus size: 74
78308562 AGAGGTGAGT
* * * **
78308572 TGAGCCTTTT-AATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TT
1 TGAGGCTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
**
78308635 GCTCACGTGC
66 GC-CACACGC
*
78308645 TGA-GCTATTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
1 TGAGGC--TTTTCAATTTCTACTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
78308709 TCGGGTCACACGT
62 TCGGGCCACACGC
* *
78308722 TGAGGCGTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCG
1 TGAGGC-TTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
78308787 GGCCACACAC
65 GGCCACACGC
* *
78308797 TGAGGTCTTTTCAAATTCTATTTTT
1 TGAGG-CTTTTCAATTTCTACTTTT
78308822 AATTTCTGCT
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.01
73 3 0.02
74 4 0.03
75 74 0.50
76 7 0.05
77 57 0.38
78 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (74 bp):
TGAGGCTTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
GCCACACGC
Found at i:78308863 original size:16 final size:16
Alignment explanation
Indices: 78308831--78308864 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
78308821 TAATTTCTGC
* *
78308831 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
78308847 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
78308863 TT
1 TT
78308865 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:78309650 original size:30 final size:30
Alignment explanation
Indices: 78309614--78309742 Score: 222
Period size: 30 Copynumber: 4.3 Consensus size: 30
78309604 ACTTTTCTCA
78309614 ACTAGCCACGCCTTTTCCACCACCAACTCC
1 ACTAGCCACGCCTTTTCCACCACCAACTCC
78309644 ACTAGCCACGCCTTTTCCACCACCAACTCC
1 ACTAGCCACGCCTTTTCCACCACCAACTCC
*
78309674 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACGCCTTTTCCACCACCAACTCC
* * *
78309704 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACGCCTTTTCCACCACCAACTCC
78309734 ACTAGCCAC
1 ACTAGCCAC
78309743 ACTTGCTCCA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 95 1.00
ACGTcount: A:0.26, C:0.50, G:0.05, T:0.19
Consensus pattern (30 bp):
ACTAGCCACGCCTTTTCCACCACCAACTCC
Found at i:78309752 original size:30 final size:29
Alignment explanation
Indices: 78309614--78309788 Score: 179
Period size: 30 Copynumber: 5.8 Consensus size: 29
78309604 ACTTTTCTCA
* *
78309614 ACTAGCCACGCCTTTTCCACCACCAACTCC
1 ACTAGCCAC-ACTTCTCCACCACCAACTCC
* *
78309644 ACTAGCCACGCCTTTTCCACCACCAACTCC
1 ACTAGCCAC-ACTTCTCCACCACCAACTCC
* *
78309674 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCAC-ACTTCTCCACCACCAACTCC
*
78309704 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACA-CTTCTCCACCACCAACTCC
** *
78309734 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTT-CTCCACCACCAACTCC
* * *
78309764 GCTAACCACACTTGCTCCATCACCA
1 ACTAGCCACACTT-CTCCACCACCA
78309789 CTTGTACCTA
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
29 3 0.02
30 128 0.98
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.21
Consensus pattern (29 bp):
ACTAGCCACACTTCTCCACCACCAACTCC
Found at i:78309788 original size:90 final size:90
Alignment explanation
Indices: 78309614--78309788 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
78309604 ACTTTTCTCA
* * * * * *
78309614 ACTAGCCACGCCTTTTCCACCACCAACTCCACTAGCCACGCCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACGACTTCTCCACCACCAACTCCACTAA
* *
78309679 CCACTCCTTTTCCACCACCAACTCC
66 CCACTACTTCTCCACCACCAACTCC
** * *
78309704 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCAC-ACTTGCTCCATTACCTACTCCGCTA
1 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACGACTT-CTCCACCACCAACTCCACTA
*
78309768 ACCAC-ACTTGCTCCATCACCA
65 ACCACTACTT-CTCCACCACCA
78309789 CTTGTACCTA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 6 0.09
90 64 0.91
ACGTcount: A:0.25, C:0.48, G:0.06, T:0.21
Consensus pattern (90 bp):
ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACGACTTCTCCACCACCAACTCCACTAA
CCACTACTTCTCCACCACCAACTCC
Found at i:78310317 original size:23 final size:23
Alignment explanation
Indices: 78310274--78310401 Score: 61
Period size: 25 Copynumber: 5.5 Consensus size: 23
78310264 CCTTTTTTGT
78310274 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATATTA
**
78310297 TATTA-TATA-TTCTTTTTA-TA
1 TATTATTATATTTCTTAATATTA
* *
78310317 TATTAGGTATATTT-TAAAT-TCTA
1 TATTA-TTATATTTCTTAATAT-TA
* * *
78310340 TATTACGTATATATATATT-ATACTA
1 TATTA--T-TATATTTCTTAATATTA
* *
78310365 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATATTTC-TTAATATTA
78310390 TATTATTTATAT
1 TATTA-TTATAT
78310402 ATATATTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 7 0.09
21 7 0.09
22 10 0.13
23 22 0.28
24 3 0.04
25 28 0.35
26 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATTATATTTCTTAATATTA
Found at i:78310318 original size:20 final size:19
Alignment explanation
Indices: 78310273--78310321 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
78310263 TCCTTTTTTG
78310273 TTAT-TATTATATTTCTTA
1 TTATATATTATATTTCTTA
* *
78310291 ATATTATATTATATATTCTTT
1 TTA-TATATTATAT-TTCTTA
78310312 TTATATATTA
1 TTATATATTA
78310322 GGTATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 1 0.04
20 15 0.60
21 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATATTATATTTCTTA
Found at i:78310377 original size:27 final size:26
Alignment explanation
Indices: 78310337--78310454 Score: 91
Period size: 25 Copynumber: 4.6 Consensus size: 26
78310327 ATTTTAAATT
*
78310337 CTATATTACGTATATATATA-TTATA
1 CTATATTATGTATATATATATTTATA
* * *
78310362 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTTATA
* * *
78310387 TTATATTATTTATATATATATTTTTTA
1 CTATATTATGTATATATATA-TTTATA
* * *
78310414 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTATATATATAT-TTATA
78310440 CTATATTATGTATAT
1 CTATATTATGTATAT
78310455 TTTAACACTA
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
25 35 0.50
26 13 0.19
27 22 0.31
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTTATA
Found at i:78310449 original size:22 final size:23
Alignment explanation
Indices: 78310423--78310480 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 23
78310413 ACATGTTATC
78310423 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATAT-TTAACACTATA
78310445 TTATGTATAT-TTTAACACTATA
1 TTATGTATATATTTAACACTATA
*
78310467 TTATGTACATATTT
1 TTATGTATATATTT
78310481 TTAATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 25 0.78
23 3 0.09
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (23 bp):
TTATGTATATATTTAACACTATA
Found at i:78310674 original size:17 final size:17
Alignment explanation
Indices: 78310633--78310681 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
78310623 ATATTAATTA
*
78310633 TTAT-TATTCTAATATT
1 TTATATATTTTAATATT
*
78310649 TT-GATATTTTAATATT
1 TTATATATTTTAATATT
*
78310665 TTATATATTTTATTATT
1 TTATATATTTTAATATT
78310682 CACATCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATATTTTAATATT
Found at i:78311332 original size:68 final size:68
Alignment explanation
Indices: 78311257--78311408 Score: 195
Period size: 67 Copynumber: 2.2 Consensus size: 68
78311247 CATCATGTGT
* * * *
78311257 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
78311319 ATGTAG
63 ATGTAG
* *
78311325 ACAAGAGAGCTACGAG-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATG
78311389 TAG
66 TAG
78311392 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
78311409 TAAACTGGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
64 20 0.27
65 7 0.09
66 3 0.04
67 28 0.38
68 16 0.22
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATG
TAG
Found at i:78315019 original size:14 final size:14
Alignment explanation
Indices: 78315000--78315030 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
78314990 GGTGTCTAGT
78315000 TTTGGGGTTTAGAG
1 TTTGGGGTTTAGAG
*
78315014 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGAG
78315028 TTT
1 TTT
78315031 AGTGTTTGTG
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:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (14 bp):
TTTGGGGTTTAGAG
Found at i:78315023 original size:7 final size:7
Alignment explanation
Indices: 78315004--78315058 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
78314994 TCTAGTTTTG
78315004 GGGTTTA
1 GGGTTTA
* *
78315011 GAGTTTG
1 GGGTTTA
78315018 GGGTTTA
1 GGGTTTA
78315025 GGGTTTA
1 GGGTTTA
*
78315032 GTGTTT-
1 GGGTTTA
78315038 GTGGTTTA
1 G-GGTTTA
78315046 GGGTTTA
1 GGGTTTA
78315053 GGGTTT
1 GGGTTT
78315059 TAAGGCTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 1 0.03
7 38 0.95
8 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:78315028 original size:21 final size:21
Alignment explanation
Indices: 78315004--78315058 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
78314994 TCTAGTTTTG
78315004 GGGTTTAGAGTTTGGGGTTTA
1 GGGTTTAGAGTTTGGGGTTTA
* *
78315025 GGGTTTAGTGTTTGTGGTTTA
1 GGGTTTAGAGTTTGGGGTTTA
*
78315046 GGGTTTAGGGTTT
1 GGGTTTAGAGTTT
78315059 TAAGGCTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
GGGTTTAGAGTTTGGGGTTTA
Found at i:78315121 original size:15 final size:15
Alignment explanation
Indices: 78315101--78315132 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
78315091 TTTAATTTAA
78315101 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
78315116 AAGATAAATATATAT
1 AAGATAAATATAAAT
78315131 AA
1 AA
78315133 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:78316333 original size:37 final size:37
Alignment explanation
Indices: 78316292--78316456 Score: 231
Period size: 37 Copynumber: 4.5 Consensus size: 37
78316282 TCCCCCAAAT
* * * *
78316292 CCTTCACCTCGTGGATCGCAACCCATCCCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
78316329 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
78316366 CCTTTGCCCCGTGCATCGCAACTCATCTCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* * *
78316403 CCTTCGCCCTGTGCATCACAACCCATCTCCTCCATTG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
78316440 CCTTCGCCTCGTACATC
1 CCTTCGCCCCGTGCATC
78316457 TACTGTATAG
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 114 1.00
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.25
Consensus pattern (37 bp):
CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
Found at i:78316868 original size:28 final size:28
Alignment explanation
Indices: 78316828--78316884 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
78316818 AGTAAGTTTT
78316828 TTACTTAAGTACTTTTACATTTATGTTC
1 TTACTTAAGTACTTTTACATTTATGTTC
78316856 TTACTTAAGTACTTTTACATTTATGTTC
1 TTACTTAAGTACTTTTACATTTATGTTC
78316884 T
1 T
78316885 GTGTATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
TTACTTAAGTACTTTTACATTTATGTTC
Found at i:78318809 original size:27 final size:27
Alignment explanation
Indices: 78318778--78318938 Score: 140
Period size: 27 Copynumber: 6.1 Consensus size: 27
78318768 ATCTTAATGT
78318778 TAAATATATATCATATAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
*
78318805 TAAATATATATCATATCATAACTTACA
1 TAAATATATATCATATAATAACTTACA
* *
78318832 TAACT-TATATACCT-TACATAA--TACA
1 TAAATATATAT-CATATA-ATAACTTACA
*
78318857 TAAATATATATCATAAAATAACTTACA
1 TAAATATATATCATATAATAACTTACA
* * **
78318884 TAACT-TACAAAACT-TACATAA--TACA
1 TAAATATATATCA-TATA-ATAACTTACA
* *
78318909 TAAATATATCTCATATCATAACTTACA
1 TAAATATATATCATATAATAACTTACA
78318936 TAA
1 TAA
78318939 CTTACATAAC
Statistics
Matches: 104, Mismatches: 18, Indels: 24
0.71 0.12 0.16
Matches are distributed among these distances:
25 27 0.26
26 21 0.20
27 56 0.54
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAATATATATCATATAATAACTTACA
Found at i:78318833 original size:9 final size:9
Alignment explanation
Indices: 78318821--78319042 Score: 115
Period size: 9 Copynumber: 25.1 Consensus size: 9
78318811 TATATCATAT
78318821 CATAACTTA
1 CATAACTTA
78318830 CATAACTTA
1 CATAACTTA
* *
78318839 TATACCTTA
1 CATAACTTA
78318848 CATAA--TA
1 CATAACTTA
*
78318855 CATAA-ATA
1 CATAACTTA
* * *
78318863 TATATCATAA
1 CATAAC-TTA
*
78318873 AATAACTTA
1 CATAACTTA
78318882 CATAACTTA
1 CATAACTTA
*
78318891 CAAAACTTA
1 CATAACTTA
78318900 CATAA--TA
1 CATAACTTA
*
78318907 CATAA-ATA
1 CATAACTTA
* ** *
78318915 TATCTCATA
1 CATAACTTA
78318924 TCATAACTTA
1 -CATAACTTA
78318934 CATAACTTA
1 CATAACTTA
78318943 CATAACTTA
1 CATAACTTA
*
78318952 CATAAATGT-
1 CATAACT-TA
* *
78318961 -ATATCATA
1 CATAACTTA
78318969 TCATAACTTA
1 -CATAACTTA
78318979 CAT-ACATTA
1 CATAAC-TTA
*
78318988 CATAAATGT-
1 CATAACT-TA
* *
78318997 -ATATCATA
1 CATAACTTA
78319005 TCATAACTTA
1 -CATAACTTA
78319015 CATAACTTA
1 CATAACTTA
*
78319024 CAAAACTTA
1 CATAACTTA
*
78319033 CTTAACTTA
1 CATAACTTA
78319042 C
1 C
78319043 GTAATACATA
Statistics
Matches: 161, Mismatches: 36, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
7 16 0.10
8 17 0.11
9 103 0.64
10 25 0.16
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:78318838 original size:36 final size:36
Alignment explanation
Indices: 78318795--78319025 Score: 152
Period size: 36 Copynumber: 6.3 Consensus size: 36
78318785 ATATCATATA
78318795 ATAACTTACATAAATATATATCATATCATAACTTAC
1 ATAACTTACATAAATATATATCATATCATAACTTAC
* ** * * * *
78318831 ATAACTTATATACCT-TACATAATA-CATAA-ATAT
1 ATAACTTACATAAATATATATCATATCATAACTTAC
* * * * * * * *
78318864 ATATCATAAAATAACTTACATAACTTA-CAAAACTTAC
1 ATAAC-TTACATAA-ATATATATCATATCATAACTTAC
78318901 ATAA--TACATAAATATATCTCATATCATAACTTACATAACTTAC
1 ATAACTTACAT-AA-ATA--T-ATATCAT-A--T-CATAACTTAC
*
78318944 ATAACTTACATAAATGTATATCATATCATAACTTAC
1 ATAACTTACATAAATATATATCATATCATAACTTAC
*
78318980 AT-ACATTACATAAATGTATATCATATCATAACTTAC
1 ATAAC-TTACATAAATATATATCATATCATAACTTAC
78319016 ATAACTTACA
1 ATAACTTACA
78319026 AAACTTACTT
Statistics
Matches: 148, Mismatches: 30, Indels: 34
0.70 0.14 0.16
Matches are distributed among these distances:
33 6 0.04
34 13 0.09
35 14 0.09
36 70 0.47
37 8 0.05
38 5 0.03
39 2 0.01
40 7 0.05
41 1 0.01
43 15 0.10
44 2 0.01
45 5 0.03
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (36 bp):
ATAACTTACATAAATATATATCATATCATAACTTAC
Found at i:78318848 original size:45 final size:44
Alignment explanation
Indices: 78318793--78319023 Score: 181
Period size: 52 Copynumber: 5.0 Consensus size: 44
78318783 ATATATCATA
*
78318793 TAATAACTTACATAAATATATATCATATCATAACTTACATAACT
1 TAATACCTTACATAAATATATATCATATCATAACTTACATAACT
**
78318837 TATATACCTTACATAATACATAAATATATATCATAAAATAACTTACATAACT
1 TA-ATA-C---C-T--TACATAAATATATATCATATCATAACTTACATAACT
* *
78318889 TACAAAACTTACATAATACATAAATATATCTCATATCATAACTTACATAACT
1 T----AA--TACCT--TACATAAATATATATCATATCATAACTTACATAACT
* *
78318941 TACATAACTTACATAAATGTATATCATATCATAACTTACAT-AC-
1 TA-ATACCTTACATAAATATATATCATATCATAACTTACATAACT
*
78318984 ----A--TTACATAAATGTATATCATATCATAACTTACATAACT
1 TAATACCTTACATAAATATATATCATATCATAACTTACATAACT
78319022 TA
1 TA
78319024 CAAAACTTAC
Statistics
Matches: 157, Mismatches: 11, Indels: 42
0.75 0.05 0.20
Matches are distributed among these distances:
36 33 0.21
37 2 0.01
38 1 0.01
44 4 0.03
45 33 0.21
47 3 0.02
48 1 0.01
49 2 0.01
50 1 0.01
52 72 0.46
55 1 0.01
56 2 0.01
57 2 0.01
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (44 bp):
TAATACCTTACATAAATATATATCATATCATAACTTACATAACT
Found at i:78318863 original size:52 final size:51
Alignment explanation
Indices: 78318801--78318991 Score: 252
Period size: 52 Copynumber: 3.8 Consensus size: 51
78318791 TATAATAACT
*
78318801 TACATAAATATATATCATATCATAACTTACATAACTTATATACCTTACATAA
1 TACATAAATATATATCATATCATAACTTACATAACTTACATA-CTTACATAA
** *
78318853 TACATAAATATATATCATAAAATAACTTACATAACTTACAAAACTTACATAA
1 TACATAAATATATATCATATCATAACTTACATAACTTAC-ATACTTACATAA
*
78318905 TACATAAATATATCTCATATCATAACTTACATAACTTACATA---AC-T--
1 TACATAAATATATATCATATCATAACTTACATAACTTACATACTTACATAA
*
78318950 TACATAAATGTATATCATATCATAACTTACAT-ACATTACATA
1 TACATAAATATATATCATATCATAACTTACATAAC-TTACATA
78318992 AATGTATATC
Statistics
Matches: 127, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
44 2 0.02
45 37 0.29
47 1 0.01
48 2 0.02
51 2 0.02
52 81 0.64
53 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (51 bp):
TACATAAATATATATCATATCATAACTTACATAACTTACATACTTACATAA
Found at i:78324113 original size:13 final size:14
Alignment explanation
Indices: 78324097--78324125 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78324087 TTTTAAATAT
78324097 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
78324110 TTATAATGGTTTAA
1 TTATAATGGTTTAA
78324124 TT
1 TT
78324126 TGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:78324927 original size:43 final size:42
Alignment explanation
Indices: 78324875--78325006 Score: 158
Period size: 43 Copynumber: 3.1 Consensus size: 42
78324865 AATATATATT
* *
78324875 TTTAGCGGCGTTTAAGATAAAAGTGCCGCTAAAAGTCACGTTC
1 TTTAGCGGCGTTT-TGATAAAAGCGCCGCTAAAAGTCACGTTC
* * * *
78324918 TTTAGCGGCGTTTGTGCA-AAAAGCGCAGCTAAAGGTCACATTT
1 TTTAGCGGCGTTT-TG-ATAAAAGCGCCGCTAAAAGTCACGTTC
**
78324961 TTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAGTCACGTTC
1 TTTAGCGGCGTTTTGATAAAAGCGCCGCTAAAAGTCACGTTC
78325003 TTTA
1 TTTA
78325007 ATATATATTT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
42 26 0.35
43 47 0.64
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTTGATAAAAGCGCCGCTAAAAGTCACGTTC
Found at i:78325119 original size:141 final size:140
Alignment explanation
Indices: 78324865--78325146 Score: 390
Period size: 141 Copynumber: 2.0 Consensus size: 140
78324855 CCTCAAAAAG
* *
78324865 AATATATATTTTTAGCGGCGTTTAAGATAAAAGTGCCGCTAAAAGTCACGTTCTTTAGCGGCGTT
1 AATATATATTTTTAGCGGCATTTAAGATAAAAGCGCCGCTAAAAGTCACGTTCTTTAGCGGCGTT
* * *
78324930 TGTGCAAAAAGCGCAGCTAAAGGTCACATTTTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAAAAG
66 TGTACAAAAAGCGCAGCTAAAGGTCACATTCTTTAGCGGCGTTTTTTT-AAAGCACCGCTAAAAG
78324995 TCACGTTCTTT
130 TCACGTTCTTT
* * * *
78325006 AATATATATTTTTAGCGGCATTTGAGATAAAAGCGTCGCTACAGGTCAAC-TTCTTTAGCGGCGT
1 AATATATATTTTTAGCGGCATTTAAGATAAAAGCGCCGCTAAAAGTC-ACGTTCTTTAGCGGCGT
* * * *
78325070 TTGTACAAAAAGTGCCA-TTAAAGGTCACGTTCTTTAGTGGCAG-TTTTTTAAAGCACCGCTAAA
65 TTGTACAAAAAGCG-CAGCTAAAGGTCACATTCTTTAGCGGC-GTTTTTTTAAAGCACCGCTAAA
78325133 AGTCACGTTCTTT
128 AGTCACGTTCTTT
78325146 A
1 A
78325147 GCGGTGTTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
140 27 0.22
141 93 0.74
142 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (140 bp):
AATATATATTTTTAGCGGCATTTAAGATAAAAGCGCCGCTAAAAGTCACGTTCTTTAGCGGCGTT
TGTACAAAAAGCGCAGCTAAAGGTCACATTCTTTAGCGGCGTTTTTTTAAAGCACCGCTAAAAGT
CACGTTCTTT
Found at i:78325197 original size:34 final size:34
Alignment explanation
Indices: 78325144--78325227 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
78325134 GTCACGTTCT
* * *
78325144 TTAGCGGTGTTTTTTTACATAAATGCCGTAAAATG
1 TTAGCGGCG-TTTTTTACATAAACGCCATAAAATG
78325179 TTAGCGGCGTTTTTTACATAAACGCCATAAAATG
1 TTAGCGGCGTTTTTTACATAAACGCCATAAAATG
*
78325213 TTAGCGGCATTTTTT
1 TTAGCGGCGTTTTTT
78325228 GCGGCGCTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
34 37 0.82
35 8 0.18
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.39
Consensus pattern (34 bp):
TTAGCGGCGTTTTTTACATAAACGCCATAAAATG
Found at i:78331675 original size:5 final size:5
Alignment explanation
Indices: 78331659--78331688 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
78331649 TAGAAAGATA
*
78331659 TTATT TTGTT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT
78331689 AATTTAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:78333645 original size:113 final size:113
Alignment explanation
Indices: 78333447--78333666 Score: 359
Period size: 113 Copynumber: 1.9 Consensus size: 113
78333437 ATATTGTGGG
* * *
78333447 AATTCGTCAAAAAGACACTGAATCACTTTACGATTACTGGGAGCGATGCAAAAAGTTGTGCGCAA
1 AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTGTGCGCAA
78333512 GCTACCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
66 GCTACCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
** *
78333560 AATTCGTCAAAAAGATGCTGAATCACTCTACGGTTACTGGGAGCAATACAAAAAGTTGTGCGCAA
1 AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTGTGCGCAA
* * *
78333625 GCTGCCCATAACATGGACTGATTGAACAGTCACTCTTGCAGT
66 GCTACCCACAACATGGACTGACTGAACAGTCACTCTTGCAGT
78333667 TTTTACTCCC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 98 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (113 bp):
AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTGTGCGCAA
GCTACCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
Found at i:78340167 original size:27 final size:26
Alignment explanation
Indices: 78340101--78340167 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
78340091 CCTAAACTCA
78340101 AATACCAAACTACCCATCCATCAGCAC
1 AATACCAAAC-ACCCATCCATCAGCAC
* * * *
78340128 AATACCCACCACCCAATCCACTTA-CCC
1 AATACCAAACACCC-ATCCA-TCAGCAC
78340155 AATACCAAACACC
1 AATACCAAACACC
78340168 TAACCTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 4 0.12
27 26 0.81
28 2 0.06
ACGTcount: A:0.40, C:0.45, G:0.01, T:0.13
Consensus pattern (26 bp):
AATACCAAACACCCATCCATCAGCAC
Found at i:78340233 original size:13 final size:13
Alignment explanation
Indices: 78340215--78340239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78340205 ACATAATATA
78340215 CCAACACCCAAAC
1 CCAACACCCAAAC
78340228 CCAACACCCAAA
1 CCAACACCCAAA
78340240 AGAAGCCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (13 bp):
CCAACACCCAAAC
Found at i:78342974 original size:4 final size:4
Alignment explanation
Indices: 78342967--78342993 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
78342957 AAAAAGAAAA
78342967 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
78342994 AATTTAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:78343611 original size:5 final size:5
Alignment explanation
Indices: 78343595--78343637 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
78343585 TAGGAAGATA
*
78343595 TTATT TTGTT TTATT TTATT TTATTAT TTATT ATTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTATT -TTATT TTATT
78343638 AATTTAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 22 0.67
6 7 0.21
7 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:78343631 original size:18 final size:18
Alignment explanation
Indices: 78343604--78343643 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
78343594 ATTATTTTGT
78343604 TTTATTTTATTTTATT-A
1 TTTATTTTATTTTATTAA
78343621 TTTATTATTATTTTATTAA
1 TTTATT-TTATTTTATTAA
78343640 TTTA
1 TTTA
78343644 GGTTAAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTTTATTAA
Found at i:78348995 original size:23 final size:23
Alignment explanation
Indices: 78348968--78349015 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
78348958 CTTCAAATAT
78348968 TTGACTTAAGTGAGAAATAAACA
1 TTGACTTAAGTGAGAAATAAACA
78348991 TTGACTTAAGTGAGAAATAAACA
1 TTGACTTAAGTGAGAAATAAACA
78349014 TT
1 TT
78349016 CTACTGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (23 bp):
TTGACTTAAGTGAGAAATAAACA
Found at i:78355133 original size:19 final size:19
Alignment explanation
Indices: 78355111--78355165 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
78355101 TAAAAATATA
78355111 TTTTGGTCAAAAAAAAAAC
1 TTTTGGTCAAAAAAAAAAC
* *
78355130 TTTTGAG-CAAAAATTAAAAT
1 TTTTG-GTCAAAAA-AAAAAC
*
78355150 TTTTTGTCAAAAAAAA
1 TTTTGGTCAAAAAAAA
78355166 CTTTTAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (19 bp):
TTTTGGTCAAAAAAAAAAC
Found at i:78355170 original size:37 final size:37
Alignment explanation
Indices: 78355121--78355191 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
78355111 TTTTGGTCAA
* *
78355121 AAAAAAAACTTTTGAGCAAAAATTAAAATTTTTTGTC
1 AAAAAAAACTTTTAAGCAAAAACTAAAATTTTTTGTC
*
78355158 AAAAAAAACTTTTAAGTAAAAACTAAAATTTTTT
1 AAAAAAAACTTTTAAGCAAAAACTAAAATTTTTT
78355192 ACTTTTGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (37 bp):
AAAAAAAACTTTTAAGCAAAAACTAAAATTTTTTGTC
Found at i:78355179 original size:18 final size:18
Alignment explanation
Indices: 78355120--78355179 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
78355110 ATTTTGGTCA
* *
78355120 AAAAAAAAACTTTTGAGC
1 AAAAAAAAACTTTTAAGT
**
78355138 AAAAATTAAAA-TTTTTTGT
1 AAAAA--AAAACTTTTAAGT
*
78355157 CAAAAAAAACTTTTAAGT
1 AAAAAAAAACTTTTAAGT
78355175 AAAAA
1 AAAAA
78355180 CTAAAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 4 0.12
18 15 0.47
19 9 0.28
20 4 0.12
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (18 bp):
AAAAAAAAACTTTTAAGT
Found at i:78355303 original size:17 final size:18
Alignment explanation
Indices: 78355281--78355319 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
78355271 CTTATTTAAT
78355281 AATA-TTTTTA-CCTCAAA
1 AATATTTTTTATCC-CAAA
78355298 AATATTTTTTATCCCAAA
1 AATATTTTTTATCCCAAA
78355316 AATA
1 AATA
78355320 AAAAAGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTTTTTATCCCAAA
Done.