Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 111 of 207
Found at i:33448091 original size:17 final size:17
Alignment explanation
Indices: 33448077--33448114 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
33448067 AAAAAAAATC
33448077 AAAAAAAATTGAAAAGA
1 AAAAAAAATTGAAAAGA
33448094 AAAAAAAATTGAAAA-A
1 AAAAAAAATTGAAAAGA
33448110 AAAAA
1 AAAAA
33448115 TTGCATACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAAAAATTGAAAAGA
Found at i:33448109 original size:13 final size:13
Alignment explanation
Indices: 33448093--33448117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33448083 AATTGAAAAG
33448093 AAAAAAAAATTGA
1 AAAAAAAAATTGA
33448106 AAAAAAAAATTG
1 AAAAAAAAATTG
33448118 CATACGGTCT
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAAAAAATTGA
Found at i:33452629 original size:22 final size:22
Alignment explanation
Indices: 33452598--33452662 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
33452588 ACCTTTTTGA
*
33452598 ACCATTACCAATTCGTACCAAAT
1 ACCA-TACCATTTCGTACCAAAT
*
33452621 ACCATACCATTTCGTACCAACT
1 ACCATACCATTTCGTACCAAAT
*
33452643 TCCATACCATTTCGTACCAA
1 ACCATACCATTTCGTACCAA
33452663 TTCCCAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.05, T:0.28
Consensus pattern (22 bp):
ACCATACCATTTCGTACCAAAT
Found at i:33456981 original size:19 final size:18
Alignment explanation
Indices: 33456945--33456984 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33456935 TTTCCACTCG
*
33456945 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
33456963 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
33456982 TTT
1 TTT
33456985 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:33457091 original size:17 final size:18
Alignment explanation
Indices: 33457069--33457102 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33457059 TTCTTTCTCC
33457069 AATTTTT-TCTCTTTTTT
1 AATTTTTGTCTCTTTTTT
*
33457086 AATTTTTGTTTCTTTTT
1 AATTTTTGTCTCTTTTT
33457103 CGGTTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (18 bp):
AATTTTTGTCTCTTTTTT
Found at i:33458033 original size:12 final size:12
Alignment explanation
Indices: 33458016--33458060 Score: 63
Period size: 13 Copynumber: 3.6 Consensus size: 12
33458006 ACTAGCTCTC
33458016 TTTTTTTCAATT
1 TTTTTTTCAATT
*
33458028 TTTTTTTCACAAT
1 TTTTTTTCA-ATT
33458041 TTTTTTTCAAATT
1 TTTTTTTC-AATT
33458054 TTTTTTT
1 TTTTTTT
33458061 TCACAACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 9 0.31
13 19 0.66
14 1 0.03
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTTTCAATT
Found at i:33458040 original size:14 final size:14
Alignment explanation
Indices: 33458023--33458066 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
33458013 CTCTTTTTTT
33458023 CAATTTTTTTTTCA
1 CAATTTTTTTTTCA
33458037 CAA-TTTTTTTTCA
1 CAATTTTTTTTTCA
33458050 -AATTTTTTTTTTCA
1 CAA-TTTTTTTTTCA
33458064 CAA
1 CAA
33458067 CTTGATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.07
13 10 0.37
14 13 0.48
15 2 0.07
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (14 bp):
CAATTTTTTTTTCA
Found at i:33458084 original size:27 final size:26
Alignment explanation
Indices: 33458023--33458084 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
33458013 CTCTTTTTTT
* ** *
33458023 CAATTTTTTTTTCACAATTTTTTTTC
1 CAATTTTTTTTTCACAACTTGATATC
*
33458049 AAATTTTTTTTTTCACAACTTGATATC
1 CAA-TTTTTTTTTCACAACTTGATATC
*
33458076 CAATCTTTT
1 CAATTTTTT
33458085 AAGTTTGAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.24, C:0.16, G:0.02, T:0.58
Consensus pattern (26 bp):
CAATTTTTTTTTCACAACTTGATATC
Found at i:33458120 original size:11 final size:11
Alignment explanation
Indices: 33458104--33458146 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
33458094 TGGAAACTAG
*
33458104 TTTTTTTT-AT
1 TTTTTTTTGAA
33458114 TTTTTTTTGAA
1 TTTTTTTTGAA
*
33458125 TTTTTTTTCGAG
1 TTTTTTTT-GAA
33458137 TTTTTTTTGA
1 TTTTTTTTGA
33458147 GAAACTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 8 0.28
11 11 0.38
12 10 0.34
ACGTcount: A:0.12, C:0.02, G:0.09, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:33458121 original size:12 final size:12
Alignment explanation
Indices: 33458104--33458144 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
33458094 TGGAAACTAG
33458104 TTTTTTTT--AT
1 TTTTTTTTGAAT
33458114 TTTTTTTTGAAT
1 TTTTTTTTGAAT
* *
33458126 TTTTTTTCGAGT
1 TTTTTTTTGAAT
33458138 TTTTTTT
1 TTTTTTT
33458145 GAGAAACTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 8 0.30
12 19 0.70
ACGTcount: A:0.10, C:0.02, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:33464486 original size:22 final size:22
Alignment explanation
Indices: 33464456--33464499 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33464446 TTTGGTATTT
33464456 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
33464478 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
33464500 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:33469368 original size:21 final size:22
Alignment explanation
Indices: 33469322--33469368 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
33469312 CATTTTTCTT
*
33469322 TTCTTTTTCACTCTCTCTCAAT
1 TTCTTTTTCACTCTCTCTCAAA
* *
33469344 TTCTTTTTCAGT-TCTTTCAAA
1 TTCTTTTTCACTCTCTCTCAAA
33469365 TTCT
1 TTCT
33469369 CCAAAGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (22 bp):
TTCTTTTTCACTCTCTCTCAAA
Found at i:33471583 original size:15 final size:15
Alignment explanation
Indices: 33471559--33471600 Score: 75
Period size: 15 Copynumber: 2.7 Consensus size: 15
33471549 AGACCGTATA
33471559 CAATTTTTTTTCTTTT
1 CAATTTTTTTTC-TTT
33471575 CAATTTTTTTTCTTT
1 CAATTTTTTTTCTTT
33471590 CAATTTTTTTT
1 CAATTTTTTTT
33471601 AAAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (15 bp):
CAATTTTTTTTCTTT
Found at i:33471971 original size:22 final size:22
Alignment explanation
Indices: 33471941--33471984 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33471931 TTTGGTATTT
33471941 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
* *
33471963 GGGATTTGGTATGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
33471985 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:33476742 original size:15 final size:17
Alignment explanation
Indices: 33476722--33476762 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 17
33476712 TGAAAAGAAG
33476722 TTAAAAAAAGTTT-G-A
1 TTAAAAAAAGTTTCGAA
33476737 TT-AAAAAAGTTTCGAA
1 TTAAAAAAAGTTTCGAA
33476753 TATAAAAAAA
1 T-TAAAAAAA
33476763 AGTGTTGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 2 0.09
17 1 0.05
18 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (17 bp):
TTAAAAAAAGTTTCGAA
Found at i:33478178 original size:92 final size:92
Alignment explanation
Indices: 33478071--33478274 Score: 302
Period size: 92 Copynumber: 2.2 Consensus size: 92
33478061 TAATGTGGAG
* *
33478071 CATGCACCCGATTGTGCATGAATGTCGAGAGCTAGTTTTT-AGCTGGACATTCATGTATCTTCCG
1 CATGCACCCGATTGTGCATGAATGTCGAGAGCTA-TTTTTCAGCTGGACATACATGTATCTTCCA
* *
33478135 GATTCAATGAAGCTACTTTAATGAAGAA
65 GATTCAATGAAGCTAATTTAAAGAAGAA
** * * * *
33478163 CATGCACCTTATTGTGCATGAATGTTGGGAGCTATTTTTCAGCTGGATATAGATGTATCTTCCAG
1 CATGCACCCGATTGTGCATGAATGTCGAGAGCTATTTTTCAGCTGGACATACATGTATCTTCCAG
33478228 ATTCAATGAAGCTAATTTAAAGAAGAA
66 ATTCAATGAAGCTAATTTAAAGAAGAA
33478255 CATGCACCCGATTGTGCATG
1 CATGCACCCGATTGTGCATG
33478275 TATTTTGAGA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
91 5 0.05
92 94 0.95
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (92 bp):
CATGCACCCGATTGTGCATGAATGTCGAGAGCTATTTTTCAGCTGGACATACATGTATCTTCCAG
ATTCAATGAAGCTAATTTAAAGAAGAA
Found at i:33481335 original size:20 final size:20
Alignment explanation
Indices: 33481310--33481364 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
33481300 TGTGGTTCAA
*
33481310 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
33481330 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
33481350 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
33481365 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:33490094 original size:30 final size:29
Alignment explanation
Indices: 33490047--33490103 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
33490037 TTATATCAAA
*
33490047 CTCTCTTTTTTGTCACTCATTT-TTTTGC
1 CTCTCTTTTTTCTCACTCATTTCTTTTGC
*
33490075 CTCTCCTTTTTTCTACACTCGTTTCTTTT
1 CTCT-CTTTTTTCT-CACTCATTTCTTTT
33490104 TCTTTTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 8 0.33
30 8 0.33
31 4 0.17
ACGTcount: A:0.07, C:0.28, G:0.05, T:0.60
Consensus pattern (29 bp):
CTCTCTTTTTTCTCACTCATTTCTTTTGC
Found at i:33496642 original size:46 final size:47
Alignment explanation
Indices: 33496561--33496669 Score: 157
Period size: 46 Copynumber: 2.3 Consensus size: 47
33496551 ATAATAAGTT
* *
33496561 AAGTCATTTAATTTGTCTAATTTACTACAGTAATTTAAGTTGTCTT-
1 AAGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTA
* * *
33496607 TAGTCATTTAATTTGTCTAAATTATTATAGCAATTTAAGTTGTCTTA
1 AAGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTA
*
33496654 AATTCATTTAATTTGT
1 AAGTCATTTAATTTGT
33496670 TTGTTTATAG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 41 0.75
47 14 0.25
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (47 bp):
AAGTCATTTAATTTGTCTAAATTACTACAGCAATTTAAGTTGTCTTA
Found at i:33497035 original size:31 final size:31
Alignment explanation
Indices: 33497000--33497088 Score: 142
Period size: 31 Copynumber: 2.9 Consensus size: 31
33496990 CACCAAGTCC
* * *
33497000 CTTCATTGCTGATTGTTAACACCTAGAGGCT
1 CTTCATTGCTGATTGTTCACACCTAAAGACT
33497031 CTTCATTGCTGATTGTTCACACCTAAAGACT
1 CTTCATTGCTGATTGTTCACACCTAAAGACT
*
33497062 CTTCATTGCTGATTGTTCACACATAAA
1 CTTCATTGCTGATTGTTCACACCTAAA
33497089 ACTACCCAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.36
Consensus pattern (31 bp):
CTTCATTGCTGATTGTTCACACCTAAAGACT
Found at i:33504244 original size:20 final size:20
Alignment explanation
Indices: 33504199--33504244 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
33504189 GCTTGTTTCT
*
33504199 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* * *
33504219 AACTCATTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
33504239 AGCTCA
1 AGCTCA
33504245 ATCTTAACCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:33509375 original size:14 final size:13
Alignment explanation
Indices: 33509356--33509388 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
33509346 CAAGTTGATA
33509356 AAAAAAATTTCGTG
1 AAAAAAA-TTCGTG
33509370 AAAAAAATTCGTG
1 AAAAAAATTCGTG
33509383 AAAAAA
1 AAAAAA
33509389 GAAGAAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (13 bp):
AAAAAAATTCGTG
Found at i:33512387 original size:20 final size:19
Alignment explanation
Indices: 33512364--33512428 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33512354 AAGCTCAAAC
33512364 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33512384 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33512404 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33512424 GAGCT
1 GAGCT
33512429 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33514241 original size:31 final size:33
Alignment explanation
Indices: 33514205--33514265 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
33514195 GATTACTCAC
33514205 TTCACTCG-TTTCTTTT--AGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCAAG-CTCTCTTTCTTT
*
33514236 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
33514266 AATTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 7 0.27
32 8 0.31
33 9 0.35
34 2 0.08
ACGTcount: A:0.11, C:0.26, G:0.07, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:33514297 original size:14 final size:13
Alignment explanation
Indices: 33514262--33514318 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
33514252 TCAAGCTCTC
33514262 TTTCAA-TTTCTT
1 TTTCAATTTTCTT
**
33514274 TTTCGCTTTTTCTT
1 TTTC-AATTTTCTT
33514288 TTTCAATTTTCTTT
1 TTTCAATTTTC-TT
33514302 TCTTC-ATTTTCTT
1 T-TTCAATTTTCTT
33514315 TTTC
1 TTTC
33514319 TCTCACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 7 0.19
13 8 0.22
14 19 0.51
15 3 0.08
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (13 bp):
TTTCAATTTTCTT
Found at i:33514379 original size:11 final size:12
Alignment explanation
Indices: 33514268--33514384 Score: 55
Period size: 14 Copynumber: 9.6 Consensus size: 12
33514258 TCTCTTTCAA
33514268 TTTCTTTTTCGCTT
1 TTTCTTTTTCG--T
*
33514282 TTTCTTTTTCAAT
1 TTTCTTTTTC-GT
*
33514295 TTTCTTTTCTTCAT
1 TTTC-TTT-TTCGT
33514309 TTTCTTTTTC-T
1 TTTCTTTTTCGT
** *
33514320 CTCACTTTTT-GA
1 -TTTCTTTTTCGT
33514332 TTTCTTTTTC--
1 TTTCTTTTTCGT
* ** *
33514342 TTGCAATTTCTT
1 TTTCTTTTTCGT
33514354 TTTCTTTTTTCGT
1 TTTC-TTTTTCGT
33514367 TTTCTTTTT-GT
1 TTTCTTTTTCGT
33514378 TTTCTTT
1 TTTCTTT
33514385 CAATTTCTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
10 7 0.09
11 17 0.21
12 18 0.22
13 17 0.21
14 19 0.23
15 3 0.04
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTCTTTTTCGT
Found at i:33515472 original size:28 final size:28
Alignment explanation
Indices: 33515393--33515473 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
33515383 GCAAGACTTT
* **
33515393 TCACTTTTTTTTTAACTTGATTTTTTTGC
1 TCAC-TTTTTTTTCACTTTTTTTTTTTGC
*
33515422 TCACTTTTTTTTTC-TTTTCTTTTTTTTGC
1 TCAC-TTTTTTTTCACTTT-TTTTTTTTGC
33515451 TCGA-TTTTTTTTCACTTTTTTTT
1 TC-ACTTTTTTTTCACTTTTTTTT
33515474 GAATTTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 16 0.36
29 27 0.61
30 1 0.02
ACGTcount: A:0.09, C:0.15, G:0.05, T:0.72
Consensus pattern (28 bp):
TCACTTTTTTTTCACTTTTTTTTTTTGC
Found at i:33515473 original size:29 final size:29
Alignment explanation
Indices: 33515413--33515473 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
33515403 TTTAACTTGA
*
33515413 TTTTTTTGCTCACTTTTTTTTTCTTTTCT
1 TTTTTTTGCTCACTTTTTTTTACTTTTCT
33515442 TTTTTTTGCTCGA-TTTTTTTTCACTTTT-T
1 TTTTTTTGCTC-ACTTTTTTTT-ACTTTTCT
33515471 TTT
1 TTT
33515474 GAATTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (29 bp):
TTTTTTTGCTCACTTTTTTTTACTTTTCT
Found at i:33515484 original size:26 final size:26
Alignment explanation
Indices: 33515455--33515515 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
33515445 TTTTGCTCGA
* *
33515455 TTTTTTTTCACTTTTTTTTGAATTTT
1 TTTTTTTTCAATTTTTTTTCAATTTT
***
33515481 TTTTCAATCAATTTTTTTTCAATTTT
1 TTTTTTTTCAATTTTTTTTCAATTTT
33515507 TTTTATTTT
1 TTTT-TTTT
33515516 TGTTACTCCA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTTTTTCAATTTTTTTTCAATTTT
Found at i:33515508 original size:10 final size:11
Alignment explanation
Indices: 33515454--33515510 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
33515444 TTTTTGCTCG
33515454 ATTTTTTTTCA
1 ATTTTTTTTCA
* *
33515465 CTTTTTTTTGA
1 ATTTTTTTTCA
33515476 ATTTTTTTTCAATCA
1 A-TTTTTTT---TCA
33515491 ATTTTTTTTCA
1 ATTTTTTTTCA
33515502 ATTTTTTTT
1 ATTTTTTTT
33515511 ATTTTTGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 21 0.55
12 7 0.18
14 7 0.18
15 3 0.08
ACGTcount: A:0.18, C:0.09, G:0.02, T:0.72
Consensus pattern (11 bp):
ATTTTTTTTCA
Found at i:33515510 original size:15 final size:15
Alignment explanation
Indices: 33515475--33515503 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33515465 CTTTTTTTTG
33515475 AATTTTTTTTCAATC
1 AATTTTTTTTCAATC
33515490 AATTTTTTTTCAAT
1 AATTTTTTTTCAAT
33515504 TTTTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTTTTCAATC
Found at i:33517109 original size:20 final size:19
Alignment explanation
Indices: 33517086--33517150 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33517076 AAGCTCAAAC
33517086 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33517106 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33517126 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33517146 GAGCT
1 GAGCT
33517151 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33525614 original size:15 final size:14
Alignment explanation
Indices: 33525577--33525613 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
33525567 GATATCAAGT
33525577 TGAAAAAAATTTCG
1 TGAAAAAAATTTCG
33525591 TGAAAAAAATTTCG
1 TGAAAAAAATTTCG
33525605 TGAAAAAAA
1 TGAAAAAAA
33525614 AGGAAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (14 bp):
TGAAAAAAATTTCG
Found at i:33528587 original size:20 final size:19
Alignment explanation
Indices: 33528564--33528628 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33528554 AAGCTCAAAC
33528564 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33528584 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33528604 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33528624 GAGCT
1 GAGCT
33528629 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33530439 original size:33 final size:33
Alignment explanation
Indices: 33530401--33530463 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33530391 GATTACTCAC
33530401 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
33530434 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
33530464 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:33530490 original size:21 final size:21
Alignment explanation
Indices: 33530461--33530516 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
33530451 CAAGCTCTCT
*
33530461 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
33530482 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
33530503 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
33530517 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:33530509 original size:14 final size:14
Alignment explanation
Indices: 33530460--33530516 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
33530450 TCAAGCTCTC
33530460 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
33530473 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
33530487 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
33530501 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
33530515 TT
1 TT
33530517 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:33530570 original size:18 final size:18
Alignment explanation
Indices: 33530478--33530580 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
33530468 TCTTTTTTCG
33530478 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
33530497 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* ** *
33530517 CTCTCACTTTTTGA-TTT
1 CTTTTTCTTTTTCATTTT
* *
33530534 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
33530552 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
33530570 CTTTTTGTTTT
1 CTTTTTCTTTT
33530581 CTTTCAATTT
Statistics
Matches: 64, Mismatches: 17, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
17 12 0.19
18 33 0.52
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.17, G:0.04, T:0.72
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:33530597 original size:6 final size:6
Alignment explanation
Indices: 33530478--33530584 Score: 65
Period size: 6 Copynumber: 17.7 Consensus size: 6
33530468 TCTTTTTTCG
* * * **
33530478 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
33530529 -GATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
33530576 -GTTTT CTTT
1 CTTTTT CTTT
33530585 CAATTTCTTT
Statistics
Matches: 72, Mismatches: 25, Indels: 8
0.69 0.24 0.08
Matches are distributed among these distances:
5 7 0.10
6 53 0.74
7 9 0.12
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:33533326 original size:20 final size:19
Alignment explanation
Indices: 33533303--33533367 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33533293 AAGCTCAAAC
33533303 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33533323 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33533343 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33533363 GAGCT
1 GAGCT
33533368 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33537237 original size:17 final size:16
Alignment explanation
Indices: 33537207--33537245 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
33537197 ACACTAAAAG
33537207 AAAAAAAAACAAAACA
1 AAAAAAAAACAAAACA
* *
33537223 AAAAAACAAAGAAAATA
1 AAAAAA-AAACAAAACA
33537240 AAAAAA
1 AAAAAA
33537246 TATATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAAAAACAAAACA
Found at i:33558009 original size:22 final size:22
Alignment explanation
Indices: 33557981--33558024 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33557971 TTTTGAACCA
33557981 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33558003 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33558025 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:33558807 original size:20 final size:20
Alignment explanation
Indices: 33558762--33558807 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
33558752 GCTCGTTTCT
*
33558762 AGCTCACTCGAGCTCAAGTC
1 AGCTCACTCAAGCTCAAGTC
* * *
33558782 AACTCATTCAAGCTCAATTC
1 AGCTCACTCAAGCTCAAGTC
33558802 AGCTCA
1 AGCTCA
33558808 ATCTTAACCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (20 bp):
AGCTCACTCAAGCTCAAGTC
Found at i:33560378 original size:12 final size:12
Alignment explanation
Indices: 33560363--33560396 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
33560353 CAAAAAAAGT
33560363 AAAAAAAGTAA-A
1 AAAAAAAG-AACA
33560375 AAAAAAAGAACA
1 AAAAAAAGAACA
33560387 AAAAAAAGAA
1 AAAAAAAGAA
33560397 GTGAAAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 19 0.90
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAACA
Found at i:33560379 original size:10 final size:9
Alignment explanation
Indices: 33560354--33560378 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33560344 AGAAGTGAGC
33560354 AAAAAAAGT
1 AAAAAAAGT
33560363 AAAAAAAGT
1 AAAAAAAGT
33560372 AAAAAAA
1 AAAAAAA
33560379 AAAGAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:33563272 original size:20 final size:20
Alignment explanation
Indices: 33563226--33563272 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33563216 AGCTCGTTTC
*
33563226 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
33563246 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
33563266 CAGCTCA
1 CAGCTCA
33563273 ATCTTAACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:33565268 original size:21 final size:21
Alignment explanation
Indices: 33565230--33565269 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33565220 TTCTCAATTT
*
33565230 TCTTTTCTTTATTATTTTCAC
1 TCTTTTCTTTACTATTTTCAC
33565251 TCTTTTCTTTTACT-TTTTC
1 TCTTTTC-TTTACTATTTTC
33565270 TCTCGATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (21 bp):
TCTTTTCTTTACTATTTTCAC
Found at i:33567428 original size:11 final size:12
Alignment explanation
Indices: 33567404--33567428 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33567394 ATTTTTTTAA
33567404 TTTCAAATTTTT
1 TTTCAAATTTTT
33567416 TTTCAAATTTTT
1 TTTCAAATTTTT
33567428 T
1 T
33567429 CACGTACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCAAATTTTT
Found at i:33567721 original size:22 final size:22
Alignment explanation
Indices: 33567690--33567809 Score: 87
Period size: 22 Copynumber: 5.4 Consensus size: 22
33567680 TTGGTCGAAT
* * *
33567690 ATGGTTTAGGTTTAGTTATGGA
1 ATGGTATAGGTTTAGGTATGAA
*
33567712 ATGGTATAGGTTTTGGTATGAA
1 ATGGTATAGGTTTAGGTATGAA
* ** *
33567734 ATGGGTTTTCGTTTAGGTACGAA
1 AT-GGTATAGGTTTAGGTATGAA
* *
33567757 ATGGTATAGGTTTTGGTACGAA
1 ATGGTATAGGTTTAGGTATGAA
* ** * *
33567779 ATGGGTTTTCGTGTAGGTAGGAA
1 AT-GGTATAGGTTTAGGTATGAA
33567802 ATGGTATA
1 ATGGTATA
33567810 ATGTTTGGTA
Statistics
Matches: 75, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
22 42 0.56
23 33 0.44
ACGTcount: A:0.25, C:0.03, G:0.33, T:0.39
Consensus pattern (22 bp):
ATGGTATAGGTTTAGGTATGAA
Found at i:33567748 original size:45 final size:44
Alignment explanation
Indices: 33567699--33567828 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 44
33567689 TATGGTTTAG
* *
33567699 GTTTAGTTATGGAATGGTATAGGTTTTGGTATGAAATGGGTTTTC
1 GTTTAGGTA-GGAATGGTATAGGTTTTGGTACGAAATGGGTTTTC
*
33567744 GTTTAGGTACGAAATGGTATAGGTTTTGGTACGAAATGGGTTTTC
1 GTTTAGGTA-GGAATGGTATAGGTTTTGGTACGAAATGGGTTTTC
* *
33567789 GTGTAGGTAGGAAATGGTATA-ATGTTTGGTACGTAAATGG
1 GTTTAGGTAGG-AATGGTATAGGT-TTTGGTACG-AAATGG
33567829 ATCAAAAGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.03
45 67 0.89
46 6 0.08
ACGTcount: A:0.25, C:0.04, G:0.32, T:0.38
Consensus pattern (44 bp):
GTTTAGGTAGGAATGGTATAGGTTTTGGTACGAAATGGGTTTTC
Found at i:33567752 original size:23 final size:23
Alignment explanation
Indices: 33567721--33567805 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
33567711 AATGGTATAG
* *
33567721 GTTTTGGTATGAAATGGGTTTTC
1 GTTTAGGTACGAAATGGGTTTTC
* **
33567744 GTTTAGGTACGAAAT-GGTATAG
1 GTTTAGGTACGAAATGGGTTTTC
*
33567766 GTTTTGGTACGAAATGGGTTTTC
1 GTTTAGGTACGAAATGGGTTTTC
* *
33567789 GTGTAGGTAGGAAATGG
1 GTTTAGGTACGAAATGG
33567806 TATAATGTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.38
Consensus pattern (23 bp):
GTTTAGGTACGAAATGGGTTTTC
Found at i:33568281 original size:31 final size:31
Alignment explanation
Indices: 33568246--33568307 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
33568236 GCTGAATAGG
33568246 GAGCTCCAATGGTCAAATTCTAGAATAAGCA
1 GAGCTCCAATGGTCAAATTCTAGAATAAGCA
33568277 GAGCTCCAATGGTCAAATTCTAGAATAAGCA
1 GAGCTCCAATGGTCAAATTCTAGAATAAGCA
33568308 ATGTACTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (31 bp):
GAGCTCCAATGGTCAAATTCTAGAATAAGCA
Found at i:33573466 original size:21 final size:23
Alignment explanation
Indices: 33573421--33573467 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33573411 TCACCTGCAA
* *
33573421 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
33573444 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
33573465 TAA
1 TAA
33573468 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:33577480 original size:20 final size:20
Alignment explanation
Indices: 33577455--33577509 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
33577445 TGTGGTTCAA
*
33577455 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
33577475 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
33577495 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
33577510 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:33580477 original size:10 final size:10
Alignment explanation
Indices: 33580462--33580523 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
33580452 TTTGAACCAT
*
33580462 TACCAATTCG
1 TACCAATTCA
*
33580472 TACCAAATACCA
1 TACC-AAT-TCA
*
33580484 TACCATTTCA
1 TACCAATTCA
33580494 TACCAATTCCA
1 TACCAATT-CA
* *
33580505 TACCATTTCG
1 TACCAATTCA
33580515 TACCAATTC
1 TACCAATTC
33580524 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:33580507 original size:21 final size:21
Alignment explanation
Indices: 33580462--33580524 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
33580452 TTTGAACCAT
* *
33580462 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
33580484 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
33580505 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
33580525 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:33581302 original size:52 final size:52
Alignment explanation
Indices: 33581241--33581341 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
33581231 CATGCACATA
* *
33581241 TTTGAGCTTCAACAGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACAGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
*
33581293 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACAGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
33581342 CGTTTCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACAGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:33584147 original size:11 final size:11
Alignment explanation
Indices: 33584131--33584174 Score: 79
Period size: 11 Copynumber: 3.9 Consensus size: 11
33584121 TAGTAGTTTC
33584131 TTCAAAAAAAA
1 TTCAAAAAAAA
33584142 TTCAAAAAAAAA
1 TTC-AAAAAAAA
33584154 TTCAAAAAAAA
1 TTCAAAAAAAA
33584165 TTCAAAAAAA
1 TTCAAAAAAA
33584175 GAATTTGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:33584151 original size:12 final size:12
Alignment explanation
Indices: 33584134--33584179 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
33584124 TAGTTTCTTC
33584134 AAAAAAAATTCA
1 AAAAAAAATTCA
33584146 AAAAAAAATTC-
1 AAAAAAAATTCA
33584157 AAAAAAAATTCA
1 AAAAAAAATTCA
33584169 AAAAAAGAATT
1 AAAAAA-AATT
33584180 TGGTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.34
12 17 0.53
13 4 0.12
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:33584161 original size:23 final size:24
Alignment explanation
Indices: 33584131--33584179 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
33584121 TAGTAGTTTC
33584131 TTCAAAAAAAATTCAAAAAAA-AA
1 TTCAAAAAAAATTCAAAAAAAGAA
33584154 TTCAAAAAAAATTCAAAAAAAGAA
1 TTCAAAAAAAATTCAAAAAAAGAA
33584178 TT
1 TT
33584180 TGGTTTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (24 bp):
TTCAAAAAAAATTCAAAAAAAGAA
Found at i:33584238 original size:16 final size:16
Alignment explanation
Indices: 33584217--33584272 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
33584207 GATATCAAGT
33584217 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
*
33584233 TG--AAAAAAAATTAG
1 TGAAAAAAAAAATTCG
*
33584247 TGAAAAAAAAATTTCG
1 TGAAAAAAAAAATTCG
33584263 TGAAAAAAAA
1 TGAAAAAAAA
33584273 GAAGAAGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 13 0.37
16 22 0.63
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (16 bp):
TGAAAAAAAAAATTCG
Found at i:33584240 original size:14 final size:14
Alignment explanation
Indices: 33584221--33584272 Score: 77
Period size: 15 Copynumber: 3.6 Consensus size: 14
33584211 TCAAGTTGAA
33584221 AAAAAAAATTCGTG
1 AAAAAAAATTCGTG
*
33584235 AAAAAAAATTAGTG
1 AAAAAAAATTCGTG
33584249 AAAAAAAAATTTCGTG
1 -AAAAAAAA-TTCGTG
33584265 AAAAAAAA
1 AAAAAAAA
33584273 GAAGAAGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
14 13 0.38
15 16 0.47
16 5 0.15
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (14 bp):
AAAAAAAATTCGTG
Found at i:33585794 original size:200 final size:200
Alignment explanation
Indices: 33585451--33585852 Score: 786
Period size: 200 Copynumber: 2.0 Consensus size: 200
33585441 TATTGTTTCT
33585451 TCTTTCTAGGTTTCTAGAGATTCAAATGATAAGTTTCAACTTCATTACCTTCCTGATGAGAGACG
1 TCTTTCTAGGTTTCTAGAGATTCAAATGATAAGTTTCAACTTCATTACCTTCCTGATGAGAGACG
33585516 ATTCCATTTGATCGAAAAAGGTAAGGTTCAAGCGCTTAAAGGTAAGCAAGGTAAGGAGTTTTTAG
66 ATTCCATTTGATCGAAAAAGGTAAGGTTCAAGCGCTTAAAGGTAAGCAAGGTAAGGAGTTTTTAG
* *
33585581 TCAATGAATCATGGCAATCAGGTTTGAAAGTTGTTGATAAAATCTCCGATAACTTAGTTTTAAAA
131 TCAATGAATCATGGCAAACACGTTTGAAAGTTGTTGATAAAATCTCCGATAACTTAGTTTTAAAA
33585646 ACATC
196 ACATC
33585651 TCTTTCTAGGTTTCTAGAGATTCAAATGATAAGTTTCAACTTCATTACCTTCCTGATGAGAGACG
1 TCTTTCTAGGTTTCTAGAGATTCAAATGATAAGTTTCAACTTCATTACCTTCCTGATGAGAGACG
33585716 ATTCCATTTGATCGAAAAAGGTAAGGTTCAAGCGCTTAAAGGTAAGCAAGGTAAGGAGTTTTTAG
66 ATTCCATTTGATCGAAAAAGGTAAGGTTCAAGCGCTTAAAGGTAAGCAAGGTAAGGAGTTTTTAG
33585781 TCAATGAATCATGGCAAACACGTTTGAAAGTTGTTGATAAAATCTCCGATAACTTAGTTTTAAAA
131 TCAATGAATCATGGCAAACACGTTTGAAAGTTGTTGATAAAATCTCCGATAACTTAGTTTTAAAA
33585846 ACATC
196 ACATC
33585851 TC
1 TC
33585853 CTTATTTTGA
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (200 bp):
TCTTTCTAGGTTTCTAGAGATTCAAATGATAAGTTTCAACTTCATTACCTTCCTGATGAGAGACG
ATTCCATTTGATCGAAAAAGGTAAGGTTCAAGCGCTTAAAGGTAAGCAAGGTAAGGAGTTTTTAG
TCAATGAATCATGGCAAACACGTTTGAAAGTTGTTGATAAAATCTCCGATAACTTAGTTTTAAAA
ACATC
Found at i:33592276 original size:23 final size:22
Alignment explanation
Indices: 33592225--33592276 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33592215 CCTCGTCTTT
*
33592225 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33592247 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33592270 TTCTTTT
1 TTCTTTT
33592277 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33594438 original size:25 final size:25
Alignment explanation
Indices: 33594393--33594440 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
33594383 ACAACTTCTA
* *
33594393 AAGAAAACTCAAGAGAGAATTCTTG
1 AAGAAAACCCAAGAGAAAATTCTTG
33594418 AAGAAAACCCCAA-AGAAAATTCT
1 AAGAAAA-CCCAAGAGAAAATTCT
33594441 GCACTCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.17
Consensus pattern (25 bp):
AAGAAAACCCAAGAGAAAATTCTTG
Found at i:33599363 original size:10 final size:11
Alignment explanation
Indices: 33599343--33599370 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33599333 TTTCTTTCTC
33599343 TTTTTGTTTTT
1 TTTTTGTTTTT
33599354 TTTTTGTTTTT
1 TTTTTGTTTTT
33599365 TTTTTG
1 TTTTTG
33599371 AAATTGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:33600439 original size:52 final size:52
Alignment explanation
Indices: 33600382--33600482 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
33600372 CATGCACATA
* *
33600382 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
33600434 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
33600483 CGTTTCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:33603948 original size:6 final size:6
Alignment explanation
Indices: 33603878--33603927 Score: 55
Period size: 6 Copynumber: 7.8 Consensus size: 6
33603868 AGAGTCTTTG
* *
33603878 GAAAAA GAAAAG GAAAAA GAACAA GAAAAAA TTGAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA G-AAAAA --GAAAAA GAAAAA GAAAA
33603928 GAACATTGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
6 27 0.73
7 4 0.11
8 5 0.14
9 1 0.03
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (6 bp):
GAAAAA
Found at i:33607205 original size:13 final size:13
Alignment explanation
Indices: 33607187--33607216 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33607177 GTCCAGATTT
*
33607187 TTAAATTAGTTAA
1 TTAAATAAGTTAA
33607200 TTAAATAAGTTAA
1 TTAAATAAGTTAA
33607213 TTAA
1 TTAA
33607217 TTTGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (13 bp):
TTAAATAAGTTAA
Found at i:33609683 original size:14 final size:14
Alignment explanation
Indices: 33609664--33609705 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
33609654 TAGTTTAATG
33609664 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
33609678 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
33609692 ATTTCTTAGTTTTT
1 ATTT-TTA-TTTTT
33609706 AAGTTAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 18 0.69
15 3 0.12
16 5 0.19
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:33609704 original size:22 final size:22
Alignment explanation
Indices: 33609665--33609706 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33609655 AGTTTAATGA
*
33609665 TTTTTATTTTTTTATTTTTATT
1 TTTTTATTTTCTTATTTTTATT
33609687 TTTTTA-TTTCTTAGTTTTTA
1 TTTTTATTTTCTTA-TTTTTA
33609707 AGTTAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTATTTTCTTATTTTTATT
Found at i:33610378 original size:11 final size:11
Alignment explanation
Indices: 33610362--33610403 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
33610352 ACGAGATTGT
33610362 AAAAAAATTCA
1 AAAAAAATTCA
33610373 AAAAAAATTTCAA
1 AAAAAAA-TTC-A
*
33610386 AAAAAAATTCG
1 AAAAAAATTCA
33610397 AAAAAAA
1 AAAAAAA
33610404 GTTTGTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 14 0.50
12 6 0.21
13 8 0.29
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:33610379 original size:12 final size:12
Alignment explanation
Indices: 33610362--33610403 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
33610352 ACGAGATTGT
33610362 AAAAAAATTCAA
1 AAAAAAATTCAA
*
33610374 AAAAAATTTCAA
1 AAAAAAATTCAA
33610386 AAAAAAATTCGAA
1 AAAAAAATTC-AA
33610399 AAAAA
1 AAAAA
33610404 GTTTGTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 20 0.74
13 7 0.26
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:33611135 original size:20 final size:20
Alignment explanation
Indices: 33611112--33611165 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
33611102 AGTTTTTCCC
*
33611112 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
33611132 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
33611152 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
33611166 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:33611147 original size:30 final size:30
Alignment explanation
Indices: 33611112--33611185 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
33611102 AGTTTTTCCC
33611112 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
33611142 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
33611172 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
33611186 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:33611175 original size:20 final size:20
Alignment explanation
Indices: 33611112--33611176 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
33611102 AGTTTTTCCC
* * * *
33611112 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
33611132 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
33611151 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
33611172 AGCTC
1 AGCTC
33611177 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:33615524 original size:55 final size:56
Alignment explanation
Indices: 33615420--33615525 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 56
33615410 ATTAATGCCA
* * * *
33615420 TCCATGCATGGGAACATCTCATTAAATCCATGTCTTTGCTTCCCTTTAAATGCCGT
1 TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTACACATTAAATGCCGT
* * *
33615476 TCCATGCATGGGAACATCTCCTT-AATTCGTGGCTTTGCTACACATTAAAT
1 TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTACACATTAAAT
33615526 CAGCAAGCAG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 21 0.49
56 22 0.51
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (56 bp):
TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTACACATTAAATGCCGT
Found at i:33615992 original size:13 final size:13
Alignment explanation
Indices: 33615976--33616010 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33615966 TTTAAACAAA
*
33615976 TTAATTAACTTAT
1 TTAATTAACTAAT
33615989 TTAATTAACTAAT
1 TTAATTAACTAAT
*
33616002 TTAACTAAC
1 TTAATTAAC
33616011 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:33617824 original size:12 final size:12
Alignment explanation
Indices: 33617807--33617835 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33617797 CTCACTCTCT
33617807 TTTTCAATTTTC
1 TTTTCAATTTTC
33617819 TTTTCAATTTTC
1 TTTTCAATTTTC
33617831 TTTTC
1 TTTTC
33617836 TATCTCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCAATTTTC
Found at i:33618912 original size:14 final size:14
Alignment explanation
Indices: 33618893--33618951 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
33618883 GAATACAAAA
*
33618893 TTTTTTTTTGAA--
1 TTTTTTTTTCAATT
**
33618905 TTTTTTTTTCAAAA
1 TTTTTTTTTCAATT
*
33618919 TTTTTTTTT-GATT
1 TTTTTTTTTCAATT
*
33618932 TTTTTTGTTCAATT
1 TTTTTTTTTCAATT
33618946 TTTTTT
1 TTTTTT
33618952 ACAATACCGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
12 11 0.29
13 9 0.24
14 18 0.47
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTCAATT
Found at i:33618917 original size:26 final size:27
Alignment explanation
Indices: 33618888--33618951 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 27
33618878 AAATTGAATA
33618888 CAAAATTTTTTTTTGAATTTTTTT-TT
1 CAAAATTTTTTTTTGAATTTTTTTGTT
*
33618914 CAAAATTTTTTTTTGATTTTTTTTGTT
1 CAAAATTTTTTTTTGAATTTTTTTGTT
33618941 C--AATTTTTTTT
1 CAAAATTTTTTTT
33618952 ACAATACCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
25 10 0.28
26 23 0.64
27 3 0.08
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (27 bp):
CAAAATTTTTTTTTGAATTTTTTTGTT
Found at i:33618956 original size:12 final size:12
Alignment explanation
Indices: 33618891--33618956 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
33618881 TTGAATACAA
*
33618891 AATTTTTTTTTG
1 AATTTTTTTTTC
33618903 AATTTTTTTTTC
1 AATTTTTTTTTC
*
33618915 AAAATTTTTTTTTG
1 --AATTTTTTTTTC
*
33618929 ATTTTTTTTGTTC
1 AATTTTTTT-TTC
*
33618942 AATTTTTTTTAC
1 AATTTTTTTTTC
33618954 AAT
1 AAT
33618957 ACCGTAATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
12 24 0.53
13 10 0.22
14 11 0.24
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (12 bp):
AATTTTTTTTTC
Found at i:33620291 original size:55 final size:55
Alignment explanation
Indices: 33620176--33620292 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
33620166 TGCATGTTTT
* * *
33620176 CATT-AATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGTCTTTGCTTCC
1 CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
* * * *
33620230 CTTTAAATGCCGTTCCATGCATGGGAACATCTCCTT-AATTCGTGGCTTTGCTGCA
1 CATTAAATGCCG-TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
33620285 CATTAAAT
1 CATTAAAT
33620293 CAGCAAGCAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 3 0.06
55 28 0.53
56 22 0.42
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (55 bp):
CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
Found at i:33620514 original size:23 final size:22
Alignment explanation
Indices: 33620480--33620544 Score: 103
Period size: 23 Copynumber: 2.9 Consensus size: 22
33620470 GACACCATTT
*
33620480 AAAACATGCATTAAATTCGGCC
1 AAAACATACATTAAATTCGGCC
33620502 AGAAACATACATTAAATTCGGCC
1 A-AAACATACATTAAATTCGGCC
33620525 AAAGACATACATTAAATTCG
1 AAA-ACATACATTAAATTCG
33620545 TCTGGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (22 bp):
AAAACATACATTAAATTCGGCC
Found at i:33620782 original size:13 final size:13
Alignment explanation
Indices: 33620766--33620800 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33620756 TTTAAACAAA
*
33620766 TTAATTAACTTAT
1 TTAATTAACTAAT
33620779 TTAATTAACTAAT
1 TTAATTAACTAAT
*
33620792 TTAACTAAC
1 TTAATTAAC
33620801 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:33622613 original size:12 final size:12
Alignment explanation
Indices: 33622596--33622624 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33622586 CTCACTCTCT
33622596 TTTTCAATTTTC
1 TTTTCAATTTTC
33622608 TTTTCAATTTTC
1 TTTTCAATTTTC
33622620 TTTTC
1 TTTTC
33622625 TATCTCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCAATTTTC
Found at i:33623701 original size:13 final size:13
Alignment explanation
Indices: 33623683--33623739 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
33623673 GAATACAAAA
33623683 TTTTTTTTGAATT
1 TTTTTTTTGAATT
** *
33623696 TTTTTTTCAAAAT
1 TTTTTTTTGAATT
33623709 TTTTTTTTG-ATT
1 TTTTTTTTGAATT
* *
33623721 TTTTTGTTCAATT
1 TTTTTTTTGAATT
33623734 TTTTTT
1 TTTTTT
33623740 ACAATACCGT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 9 0.26
13 25 0.74
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (13 bp):
TTTTTTTTGAATT
Found at i:33623706 original size:25 final size:25
Alignment explanation
Indices: 33623678--33623739 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 25
33623668 AAATTGAATA
33623678 CAAAATTTTTTTTGAATTTTTTT-TT
1 CAAAATTTTTTTTG-ATTTTTTTGTT
33623703 CAAAATTTTTTTTTGATTTTTTTGTT
1 CAAAA-TTTTTTTTGATTTTTTTGTT
33623729 C--AATTTTTTTT
1 CAAAATTTTTTTT
33623740 ACAATACCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.23
24 2 0.06
25 13 0.37
26 12 0.34
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (25 bp):
CAAAATTTTTTTTGATTTTTTTGTT
Found at i:33623723 original size:26 final size:26
Alignment explanation
Indices: 33623678--33623739 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
33623668 AAATTGAATA
*
33623678 CAAAA-TTTTTTTTGAATTTTTTTTT
1 CAAAATTTTTTTTTGAATTTTTTGTT
*
33623703 CAAAATTTTTTTTTGATTTTTTTGTT
1 CAAAATTTTTTTTTGAATTTTTTGTT
33623729 C--AATTTTTTTT
1 CAAAATTTTTTTT
33623740 ACAATACCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 10 0.29
25 5 0.15
26 19 0.56
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (26 bp):
CAAAATTTTTTTTTGAATTTTTTGTT
Found at i:33625079 original size:55 final size:55
Alignment explanation
Indices: 33624964--33625080 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
33624954 TGCATGTTTT
* * *
33624964 CATT-AATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGTCTTTGCTTCC
1 CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
* * * *
33625018 CTTTAAATGCCGTTCCATGCATGGGAACATCTCCTT-AATTCGTGGCTTTGCTGCA
1 CATTAAATGCCG-TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
33625073 CATTAAAT
1 CATTAAAT
33625081 CAGCAAGCAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 3 0.06
55 28 0.53
56 22 0.42
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (55 bp):
CATTAAATGCCGTCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTGCA
Found at i:33625302 original size:23 final size:22
Alignment explanation
Indices: 33625268--33625332 Score: 103
Period size: 23 Copynumber: 2.9 Consensus size: 22
33625258 GACTCCATTT
*
33625268 AAAACATGCATTAAATTCGGCC
1 AAAACATACATTAAATTCGGCC
33625290 AGAAACATACATTAAATTCGGCC
1 A-AAACATACATTAAATTCGGCC
33625313 AAAGACATACATTAAATTCG
1 AAA-ACATACATTAAATTCG
33625333 TCTGGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (22 bp):
AAAACATACATTAAATTCGGCC
Found at i:33625565 original size:13 final size:13
Alignment explanation
Indices: 33625549--33625583 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33625539 TTTAAACAAA
*
33625549 TTAATTAACTTAT
1 TTAATTAACTAAT
33625562 TTAATTAACTAAT
1 TTAATTAACTAAT
*
33625575 TTAACTAAC
1 TTAATTAAC
33625584 AGCAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:33626887 original size:15 final size:14
Alignment explanation
Indices: 33626851--33626905 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
33626841 CCTATTGAGC
33626851 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33626865 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33626879 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
33626894 GAAAGAAAAGAA
1 GAGA-AAAAGAA
33626906 TGATGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33632166 original size:15 final size:14
Alignment explanation
Indices: 33632130--33632184 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
33632120 TCTATTGAGC
33632130 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
33632144 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
33632158 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
33632173 GAAAGAAAAGAA
1 GAGA-AAAAGAA
33632185 TGAACAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:33636009 original size:25 final size:21
Alignment explanation
Indices: 33635944--33636014 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
33635934 TTGGGATTCC
* *
33635944 AAAAAA-AATTTCAAAAGTAAA
1 AAAAAAGAAATTCGAAAG-AAA
33635965 AAAAAAGAAATTCGAAAGAAA
1 AAAAAAGAAATTCGAAAGAAA
*
33635986 AAAAAGAGAAATTCGAAAGCAGA
1 AAAAA-AGAAATTCGAAAG-AAA
33636009 AAAAAA
1 AAAAAA
33636015 TTGTGAACGG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
21 14 0.32
22 23 0.52
23 7 0.16
ACGTcount: A:0.70, C:0.06, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAAAAGAAATTCGAAAGAAA
Found at i:33642651 original size:30 final size:30
Alignment explanation
Indices: 33642617--33642712 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
33642607 GCTCACTCCT
33642617 AGCTCATA-TTTAGCTCACGAGCTAAACCTC
1 AGCTCA-ACTTTAGCTCACGAGCTAAACCTC
* * * * * *
33642647 AGCTCAACTTCAGCTTAGGAGTTTAGCCTC
1 AGCTCAACTTTAGCTCACGAGCTAAACCTC
* *
33642677 AGCTCAACTTTAGCTCACGAGCTAAAGCTT
1 AGCTCAACTTTAGCTCACGAGCTAAACCTC
33642707 AGCTCA
1 AGCTCA
33642713 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (30 bp):
AGCTCAACTTTAGCTCACGAGCTAAACCTC
Found at i:33645438 original size:37 final size:37
Alignment explanation
Indices: 33645387--33645457 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
33645377 CATTCTTGTA
33645387 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
33645424 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
33645458 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:33645457 original size:6 final size:6
Alignment explanation
Indices: 33645397--33645446 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
33645387 AAGAGAAAAC
*
33645397 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
33645446 A
1 A
33645447 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:33645539 original size:11 final size:12
Alignment explanation
Indices: 33645507--33645537 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33645497 TTGAGAGAAC
33645507 TTGAAAAAGCCT
1 TTGAAAAAGCCT
33645519 TTGAAAAAGCCT
1 TTGAAAAAGCCT
33645531 TTGAAAA
1 TTGAAAA
33645538 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:33647726 original size:30 final size:30
Alignment explanation
Indices: 33647692--33647787 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
33647682 GCTCACTCCT
33647692 AGCTCATA-TTTAGCTCACGAGCTAAACCTC
1 AGCTCA-ACTTTAGCTCACGAGCTAAACCTC
* * * * * *
33647722 AGCTCAACTTCAGCTTAGGAGTTTAGCCTC
1 AGCTCAACTTTAGCTCACGAGCTAAACCTC
* *
33647752 AGCTCAACTTTAGCTCACGAGCTAAAGCTT
1 AGCTCAACTTTAGCTCACGAGCTAAACCTC
33647782 AGCTCA
1 AGCTCA
33647788 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (30 bp):
AGCTCAACTTTAGCTCACGAGCTAAACCTC
Found at i:33658112 original size:22 final size:23
Alignment explanation
Indices: 33658087--33658146 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
33658077 TGGACTGAAT
33658087 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
33658109 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
33658131 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
33658147 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:33658114 original size:4 final size:4
Alignment explanation
Indices: 33658096--33658129 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33658086 TATAAAAATT
33658096 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
33658130 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:33658917 original size:20 final size:20
Alignment explanation
Indices: 33658892--33658949 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
33658882 TCAACTTCAA
33658892 CTCACTTTTTTTTTTGTTTT
1 CTCACTTTTTTTTTTGTTTT
* *
33658912 CTCAC-TCTTTTTTTCTTTT
1 CTCACTTTTTTTTTTGTTTT
* *
33658931 CCCATCTTTTCTTTTTGTT
1 CTCA-CTTTTTTTTTTGTT
33658950 CCTTTGCCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 15 0.50
20 6 0.20
21 9 0.30
ACGTcount: A:0.05, C:0.22, G:0.03, T:0.69
Consensus pattern (20 bp):
CTCACTTTTTTTTTTGTTTT
Found at i:33661187 original size:12 final size:12
Alignment explanation
Indices: 33661142--33661193 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
33661132 AGACCGTATA
33661142 CAATTTTTTTTT
1 CAATTTTTTTTT
33661154 CAATTAATTTTTCTT
1 CAATT--TTTTT-TT
**
33661169 TGA-TTTTTTTT
1 CAATTTTTTTTT
33661180 CAATTTTTTTTT
1 CAATTTTTTTTT
33661192 CA
1 CA
33661194 CGAATCTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 3 0.09
12 20 0.62
14 6 0.19
15 3 0.09
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:33670118 original size:20 final size:20
Alignment explanation
Indices: 33670072--33670118 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33670062 AGCTCGTTTC
*
33670072 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
33670092 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
33670112 CAGCTCA
1 CAGCTCA
33670119 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:33675194 original size:15 final size:16
Alignment explanation
Indices: 33675174--33675203 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
33675164 TTTGTTTTCT
33675174 TTTTCTTTTT-CTATC
1 TTTTCTTTTTGCTATC
33675189 TTTTCTTTTTGCTAT
1 TTTTCTTTTTGCTAT
33675204 TTTGCTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTCTTTTTGCTATC
Found at i:33682374 original size:13 final size:13
Alignment explanation
Indices: 33682353--33682387 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33682343 ATAAGTTGCT
* *
33682353 GTTAGTTAAATTA
1 GTTAATTAAATAA
33682366 GTTAATTAAATAA
1 GTTAATTAAATAA
33682379 GTTAATTAA
1 GTTAATTAA
33682388 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:33682641 original size:23 final size:23
Alignment explanation
Indices: 33682611--33682672 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
33682601 TTTCCAGACG
33682611 AATTTAATGTATGTCTT-TGGCCA
1 AATTTAATGTATGT-TTCTGGCCA
*
33682634 AATTTAATGTATGTTTCTGGCCG
1 AATTTAATGTATGTTTCTGGCCA
*
33682657 AATTTAATGCATGTTT
1 AATTTAATGTATGTTT
33682673 TAAATGGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 2 0.06
23 34 0.94
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (23 bp):
AATTTAATGTATGTTTCTGGCCA
Found at i:33684244 original size:13 final size:12
Alignment explanation
Indices: 33684220--33684280 Score: 77
Period size: 12 Copynumber: 5.0 Consensus size: 12
33684210 TCATTACGGT
*
33684220 ATTGTAAAAAAA
1 ATTGAAAAAAAA
* *
33684232 ATCGAACAAAAA
1 ATTGAAAAAAAA
33684244 ATTGAAAAAAAA
1 ATTGAAAAAAAA
33684256 ATTTGAAAAAAAA
1 A-TTGAAAAAAAA
*
33684269 ATTCAAAAAAAA
1 ATTGAAAAAAAA
33684281 TTGTATTCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
12 30 0.71
13 12 0.29
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (12 bp):
ATTGAAAAAAAA
Found at i:33684252 original size:24 final size:25
Alignment explanation
Indices: 33684220--33684280 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
33684210 TCATTACGGT
* *
33684220 ATTGTAAAAAAAA-TCGAACAAAAA
1 ATTGAAAAAAAAATTCGAAAAAAAA
*
33684244 ATTGAAAAAAAAATTTGAAAAAAAA
1 ATTGAAAAAAAAATTCGAAAAAAAA
*
33684269 ATTCAAAAAAAA
1 ATTGAAAAAAAA
33684281 TTGTATTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (25 bp):
ATTGAAAAAAAAATTCGAAAAAAAA
Found at i:33685370 original size:13 final size:12
Alignment explanation
Indices: 33685339--33685367 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
33685329 GTGTGAGATA
33685339 GAAAAGAAAATT
1 GAAAAGAAAATT
33685351 GAAAAGAAAATT
1 GAAAAGAAAATT
33685363 GAAAA
1 GAAAA
33685368 AGAGAGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (12 bp):
GAAAAGAAAATT
Found at i:33689377 original size:12 final size:12
Alignment explanation
Indices: 33689360--33689386 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33689350 TTGGTTCATT
33689360 CTTGTTTTTAAG
1 CTTGTTTTTAAG
33689372 CTTGTTTTTAAG
1 CTTGTTTTTAAG
33689384 CTT
1 CTT
33689387 TTCTTTCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (12 bp):
CTTGTTTTTAAG
Found at i:33692775 original size:23 final size:22
Alignment explanation
Indices: 33692724--33692775 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33692714 CCTCGTCTTT
*
33692724 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33692746 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33692769 TTCTTTT
1 TTCTTTT
33692776 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33692784 original size:12 final size:12
Alignment explanation
Indices: 33692733--33692787 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
33692723 TTTCTTTTGT
33692733 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
33692746 -TCATTTTC-TC
1 TTCTTTTTCAAC
33692756 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
33692769 TTCTTTTTCAAT
1 TTCTTTTTCAAC
33692781 TTCTTTT
1 TTCTTTT
33692788 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:33692794 original size:17 final size:18
Alignment explanation
Indices: 33692769--33692806 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
33692759 TTTCTTCAAC
* *
33692769 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
33692786 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
33692804 TTC
1 TTC
33692807 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:33698742 original size:17 final size:17
Alignment explanation
Indices: 33698720--33698757 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
33698710 TTTAACAAAT
33698720 TAAAATA-AATAAATAAA
1 TAAAATATAATAAAT-AA
*
33698737 TAAAATATAATTAATAA
1 TAAAATATAATAAATAA
33698754 TAAA
1 TAAA
33698758 TTCGGCTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATATAATAAATAA
Found at i:33699914 original size:13 final size:13
Alignment explanation
Indices: 33699893--33699927 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33699883 ATAAGTTGCT
* *
33699893 GTTAGTTAAATTA
1 GTTAATTAAATAA
33699906 GTTAATTAAATAA
1 GTTAATTAAATAA
33699919 GTTAATTAA
1 GTTAATTAA
33699928 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:33700180 original size:23 final size:23
Alignment explanation
Indices: 33700149--33700212 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
33700139 ATTTTCCAGA
33700149 CGAATTTAATGTATGTCTT-TGGC
1 CGAATTTAATGTATGT-TTCTGGC
*
33700172 TGAATTTAATGTATGTTTCTGGC
1 CGAATTTAATGTATGTTTCTGGC
*
33700195 CGAATTTAATGCATGTTT
1 CGAATTTAATGTATGTTT
33700213 TAAATGGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.45
Consensus pattern (23 bp):
CGAATTTAATGTATGTTTCTGGC
Found at i:33706292 original size:15 final size:16
Alignment explanation
Indices: 33706253--33706293 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
33706243 AACAACACTC
33706253 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
33706269 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
33706283 CTTTCTTTTTC
1 CTTTCTTTTTC
33706294 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:33706488 original size:17 final size:15
Alignment explanation
Indices: 33706451--33706489 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
33706441 TATCTCCCAC
33706451 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
33706467 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
33706484 TCATTT
1 TCATTT
33706490 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Done.