Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 112 of 199
Found at i:37046635 original size:38 final size:38
Alignment explanation
Indices: 37046577--37046684 Score: 162
Period size: 38 Copynumber: 2.8 Consensus size: 38
37046567 CATCAGCAGA
* *
37046577 AAGCCTACTAGGCGCTAAGCCTGAATAACACCGGCACT
1 AAGCCTACTAGGCACTAAGCCTGAATAACACCGACACT
* * *
37046615 AAGTCTGCTAGGCACTAAGCCTAAATAACACCGACACT
1 AAGCCTACTAGGCACTAAGCCTGAATAACACCGACACT
*
37046653 GAGCCTACTAGGCACTAAGCCTGAATAACACC
1 AAGCCTACTAGGCACTAAGCCTGAATAACACC
37046685 CAATTTGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.34, C:0.31, G:0.19, T:0.17
Consensus pattern (38 bp):
AAGCCTACTAGGCACTAAGCCTGAATAACACCGACACT
Found at i:37052176 original size:16 final size:16
Alignment explanation
Indices: 37052138--37052176 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
37052128 TTCTCATACG
* *
37052138 TTCTTTCCTGTTCCTT
1 TTCTTTTCTGTTCCTA
*
37052154 TTGTTTTCTGTTCCTA
1 TTCTTTTCTGTTCCTA
37052170 TTCTTTT
1 TTCTTTT
37052177 TCTAATTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.23, G:0.08, T:0.67
Consensus pattern (16 bp):
TTCTTTTCTGTTCCTA
Found at i:37061037 original size:21 final size:21
Alignment explanation
Indices: 37061011--37061051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37061001 TTTTAACACA
37061011 TTTAAT-TTTCATAATTTCATC
1 TTTAATATTT-ATAATTTCATC
*
37061032 TTTAATATTTATCATTTCAT
1 TTTAATATTTATAATTTCAT
37061052 TCAGAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATATTTATAATTTCATC
Found at i:37065184 original size:21 final size:22
Alignment explanation
Indices: 37065144--37065187 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
37065134 GTTAGGGAAA
* *
37065144 TAACAGTTTAAAATTTTTCTTT
1 TAACAGATCAAAATTTTTCTTT
37065166 TAACAGATCAAAA-TTTTCTTT
1 TAACAGATCAAAATTTTTCTTT
37065187 T
1 T
37065188 CATTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (22 bp):
TAACAGATCAAAATTTTTCTTT
Found at i:37065870 original size:37 final size:37
Alignment explanation
Indices: 37065829--37065923 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 37
37065819 ACCATAGTTG
*
37065829 CATCTAGACAAAAAAGGAAGCAATGTGGAAGCAACCACA
1 CATCTAGACAAAAAAGGAAGCAACGTGGAAGCAA-CA-A
*
37065868 TCTATGTCCAGACAAAAAAGGAAGCAACGTGGAAGCAACAA
1 -C-A--TCTAGACAAAAAAGGAAGCAACGTGGAAGCAACAA
37065909 CATC-AGGACAAAAAA
1 CATCTA-GACAAAAAA
37065924 ATGTCATCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
36 1 0.02
37 11 0.22
39 1 0.02
40 2 0.04
41 2 0.04
42 2 0.04
43 30 0.61
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (37 bp):
CATCTAGACAAAAAAGGAAGCAACGTGGAAGCAACAA
Found at i:37072511 original size:51 final size:51
Alignment explanation
Indices: 37072386--37072569 Score: 178
Period size: 51 Copynumber: 3.6 Consensus size: 51
37072376 AGTTGCTAGG
* * * * * *
37072386 TCACGTGTGTGGTACTATGTGCAGGCTACTA-CCTGTATCGGAATG-ATA-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGC-GTACCGG-ATGAAAATGA
* **
37072436 TCCCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT-AACTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GA
* * * * * *
37072487 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGAAAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGA
37072538 TCACATGTGTAGTACTATGTGCAGGCTACTAT
1 TCACATGTGTAGTACTATGTGCAGGCTACTAT
37072570 ATGAACCGAA
Statistics
Matches: 109, Mismatches: 20, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
49 3 0.03
50 34 0.31
51 69 0.63
52 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGA
Found at i:37075525 original size:41 final size:43
Alignment explanation
Indices: 37075395--37075591 Score: 196
Period size: 42 Copynumber: 4.7 Consensus size: 43
37075385 ATATATTTAT
* * *
37075395 TTTTTTTAATGTTAAAATATTTTTTACATACTTTTT-AAAT--
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAC
* ** *
37075435 TTTTTTAAAAATTTTAAAATATTTTTAAAATACTTTTTTTAAT-T
1 TTTTTT--TAATTTTAAAATATTTTTAAAATACTTTTTAAAATAC
37075479 TTTTTTTAATTTTAAAATATTTTTAAAATA-TTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAC
**
37075521 TTTTTTTAATTTTTTTAA-A-TTTTAAAATAC-TTTTAAAATAC
1 TTTTTTTAA-TTTTAAAATATTTTTAAAATACTTTTTAAAATAC
* *
37075562 TTTTTTTACTTTTTTAAA-ATTTTTAAAATA
1 TTTTTTTA-ATTTTAAAATATTTTTAAAATA
37075592 AAAATGGGCC
Statistics
Matches: 135, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.04
41 45 0.33
42 69 0.51
43 9 0.07
44 6 0.04
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (43 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAATAC
Found at i:37075535 original size:9 final size:10
Alignment explanation
Indices: 37075426--37075543 Score: 60
Period size: 10 Copynumber: 11.2 Consensus size: 10
37075416 TTTTACATAC
37075426 TTTTTAAATT
1 TTTTTAAATT
**
37075436 TTTTTAAAAA
1 TTTTTAAATT
*
37075446 TTTTAAAATAT
1 TTTTTAAAT-T
*
37075457 TTTTAAAATACTT
1 TTTT-TAA-A-TT
*
37075470 TTTTTAATTT
1 TTTTTAAATT
*
37075480 TTTTTTAA--
1 TTTTTAAATT
*
37075488 TTTTAAAATAT
1 TTTTTAAAT-T
*
37075499 TTTTAAAATAT
1 TTTTTAAAT-T
*
37075510 TTTTAAAATACT
1 TTTTTAAAT--T
*
37075522 TTTTTTAATT
1 TTTTTAAATT
37075532 TTTTTAAATT
1 TTTTTAAATT
37075542 TT
1 TT
37075544 AAAATACTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
8 6 0.07
10 35 0.41
11 24 0.28
12 13 0.15
13 6 0.07
14 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:37075554 original size:11 final size:11
Alignment explanation
Indices: 37075540--37075565 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37075530 TTTTTTTAAA
37075540 TTTTAAAATAC
1 TTTTAAAATAC
37075551 TTTTAAAATAC
1 TTTTAAAATAC
37075562 TTTT
1 TTTT
37075566 TTTACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:37075585 original size:11 final size:11
Alignment explanation
Indices: 37075426--37075543 Score: 65
Period size: 11 Copynumber: 11.2 Consensus size: 11
37075416 TTTTACATAC
37075426 TTTTT-AAATT
1 TTTTTAAAATT
37075436 TTTTTAAAA--
1 TTTTTAAAATT
* *
37075445 ATTTTAAAATA
1 TTTTTAAAATT
37075456 TTTTTAAAATACT
1 TTTTTAAAAT--T
*
37075469 TTTTT-TAATT
1 TTTTTAAAATT
**
37075479 TTTTTTTAA--
1 TTTTTAAAATT
*
37075488 -TTTTAAAATA
1 TTTTTAAAATT
*
37075498 TTTTTAAAATA
1 TTTTTAAAATT
37075509 TTTTTAAAATACT
1 TTTTTAAAAT--T
*
37075522 TTTTT-TAATT
1 TTTTTAAAATT
37075532 TTTTT-AAATT
1 TTTTTAAAATT
37075542 TT
1 TT
37075544 AAAATACTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
8 6 0.07
9 8 0.09
10 23 0.26
11 35 0.40
12 6 0.07
13 10 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:37078005 original size:17 final size:18
Alignment explanation
Indices: 37077992--37078025 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37077982 TTTTTAAAGA
*
37077992 ATTCTTTAT-ATTAAAAT
1 ATTCTATATAATTAAAAT
37078009 ATTCTATATAATTAAAA
1 ATTCTATATAATTAAAA
37078026 AAGTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTCTATATAATTAAAAT
Found at i:37078811 original size:13 final size:13
Alignment explanation
Indices: 37078793--37078818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37078783 AAAAGAGAAA
37078793 TTTTATTTTTTAT
1 TTTTATTTTTTAT
37078806 TTTTATTTTTTAT
1 TTTTATTTTTTAT
37078819 GCCTGTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:37079265 original size:19 final size:18
Alignment explanation
Indices: 37079236--37079282 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
37079226 AGTATTCTAG
37079236 AAATT-ATAAAAATCAAA
1 AAATTAATAAAAATCAAA
*
37079253 AAATTAAATAAAATTCAAA
1 AAATT-AATAAAAATCAAA
*
37079272 AGATTAATAAA
1 AAATTAATAAA
37079283 TAATTTCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 5 0.19
18 6 0.23
19 15 0.58
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATTAATAAAAATCAAA
Found at i:37082724 original size:50 final size:50
Alignment explanation
Indices: 37082663--37082850 Score: 279
Period size: 50 Copynumber: 3.8 Consensus size: 50
37082653 TACTGTCAAT
* * * ** * * *
37082663 GCCATATCCCAGATATGGTCTTACATGTGAGTTCTCATATCGGTGCCTAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
37082713 GCCATGTCCCAGACATGGTCTTAC-TGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCATCTCGGTGCCAAC
37082763 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
37082813 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
37082851 AATCTCAATA
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
49 1 0.01
50 125 0.98
51 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:37084632 original size:27 final size:27
Alignment explanation
Indices: 37084602--37084662 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
37084592 AGTTTTCCAT
* *
37084602 GAAGGCTTTCATTTCGTATATTGCCAC
1 GAAGGCATTCATTTCGTATATTACCAC
*
37084629 GAAGGCATTCCTTTCGTATATTACCAC
1 GAAGGCATTCATTTCGTATATTACCAC
*
37084656 AAAGGCA
1 GAAGGCA
37084663 ATCCTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (27 bp):
GAAGGCATTCATTTCGTATATTACCAC
Found at i:37084667 original size:27 final size:27
Alignment explanation
Indices: 37084613--37084670 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
37084603 AAGGCTTTCA
* * *
37084613 TTTCGTATATTGCCACGAAGGCATTCC
1 TTTCGTATATTACCACAAAGGCAATCC
37084640 TTTCGTATATTACCACAAAGGCAATCC
1 TTTCGTATATTACCACAAAGGCAATCC
37084667 TTTC
1 TTTC
37084671 ATAGCATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (27 bp):
TTTCGTATATTACCACAAAGGCAATCC
Found at i:37087053 original size:48 final size:48
Alignment explanation
Indices: 37086982--37087076 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
37086972 TTCTTTGCTT
*
37086982 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
*
37087030 AAAAAAGCCTAAGTCAGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
37087077 AATTCTCTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (48 bp):
AAAAAAGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:37087339 original size:17 final size:17
Alignment explanation
Indices: 37087280--37087343 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
37087270 CATCAAAGGC
* *
37087280 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTATA
* *
37087297 TACAATTAGAACTCTAAGA
1 TACAATTAGAA-GCT-ATA
*
37087316 CACAATTAGAAGCTATA
1 TACAATTAGAAGCTATA
37087333 TACAATTAGAA
1 TACAATTAGAA
37087344 CTCTACGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 22 0.59
18 4 0.11
19 11 0.30
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTATA
Found at i:37087603 original size:22 final size:22
Alignment explanation
Indices: 37087561--37087603 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
37087551 TCGTCGCATC
**
37087561 TTCCTTATGGAACTGGTCAATA
1 TTCCTTATGGAACTGCACAATA
37087583 TTCCTT-TGGAACTGCCACAAT
1 TTCCTTATGGAACTG-CACAAT
37087604 GCCTCGGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (22 bp):
TTCCTTATGGAACTGCACAATA
Found at i:37092153 original size:48 final size:48
Alignment explanation
Indices: 37092082--37092175 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 48
37092072 TTCTTTGCTT
* *
37092082 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAAC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAAC
* * *
37092130 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAATATTCAACA
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACA
37092176 GAATTCTCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAAC
Found at i:37094298 original size:28 final size:29
Alignment explanation
Indices: 37094258--37094319 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
37094248 TAAATATATA
37094258 TTTTTTAATTTTTTTAATTTTAAAAT-AC
1 TTTTTTAATTTTTTTAATTTTAAAATAAC
* *
37094286 TTTTTTATTTTTTTTATTTTTAAAATAAC
1 TTTTTTAATTTTTTTAATTTTAAAATAAC
37094315 TTTTT
1 TTTTT
37094320 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTTTAATTTTTTTAATTTTAAAATAAC
Found at i:37096327 original size:21 final size:19
Alignment explanation
Indices: 37096290--37096328 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
37096280 CATACATTAT
*
37096290 ATATTATTTTTAAATGTGC
1 ATATTATTTTAAAATGTGC
37096309 ATATGTATTTTAAATATGTG
1 ATAT-TATTTTAAA-ATGTG
37096329 ATTTCCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (19 bp):
ATATTATTTTAAAATGTGC
Found at i:37098255 original size:22 final size:22
Alignment explanation
Indices: 37098227--37098271 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
37098217 GATGAATAAC
*
37098227 TAATTCTTCGTATACATCCATT
1 TAATTCTTCATATACATCCATT
*
37098249 TAATTCTTCATATATATCCATT
1 TAATTCTTCATATACATCCATT
37098271 T
1 T
37098272 CAATGGGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATTCTTCATATACATCCATT
Found at i:37113459 original size:31 final size:33
Alignment explanation
Indices: 37113404--37113468 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
37113394 TTTTTTGCAT
**
37113404 AGAGTTTTAATTTTTTTTGGAAATTATAAGTAG
1 AGAGTTTTAATTTTTTTTAAAAATTATAAGTAG
* *
37113437 AGAG-TTTAA-TTTTTTTAAAAATTTTAATTAG
1 AGAGTTTTAATTTTTTTTAAAAATTATAAGTAG
37113468 A
1 A
37113469 TTCTCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 19 0.68
32 5 0.18
33 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (33 bp):
AGAGTTTTAATTTTTTTTAAAAATTATAAGTAG
Found at i:37114626 original size:64 final size:64
Alignment explanation
Indices: 37114547--37114667 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
37114537 AAATAAAATA
37114547 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
*
37114611 AAAATTGGATCATTAGATTTAATCAAGTAAACAACTTGATTAAAAAACAAATATTCA
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCA
37114668 TTGTTATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (64 bp):
AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTCAATATATT
Found at i:37118228 original size:18 final size:17
Alignment explanation
Indices: 37118174--37118257 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 17
37118164 ATAATTATTT
37118174 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
37118191 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
37118212 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
*
37118230 TAAATTATATATTTGTAT
1 TAAATTATATATTT-TAG
*
37118248 TAAACTATAT
1 TAAATTATAT
37118258 TTAATAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 10 0.18
18 26 0.46
19 6 0.11
20 6 0.11
21 5 0.09
22 3 0.05
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:37118455 original size:39 final size:44
Alignment explanation
Indices: 37118404--37118504 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
37118394 TTTCCTTATG
* *
37118404 CTATTACACCTCTATT-C-T-ATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATCATTCAACCAAACAAAAGAATTAC
*
37118444 C-ATTACGCCTCTATTCCATTCCATTCAATCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCA-T-CATTCAACCAAACAAAAGAATTAC
37118489 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
37118505 ACGCCTCTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
39 13 0.25
40 2 0.04
42 1 0.02
44 17 0.33
45 4 0.08
46 14 0.27
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.31
Consensus pattern (44 bp):
CTATTACGCCTCTATTCCATCATTCAACCAAACAAAAGAATTAC
Found at i:37118485 original size:44 final size:46
Alignment explanation
Indices: 37118417--37118504 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 46
37118407 TTACACCTCT
* *
37118417 ATTCTATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
37118461 ATTCCATTCAATCAAACAAAAGAATTACCTATTACGCCTCTATT
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATT
37118505 ACGCCTCTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 21 0.54
45 4 0.10
46 14 0.36
ACGTcount: A:0.38, C:0.28, G:0.05, T:0.30
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:37118505 original size:11 final size:11
Alignment explanation
Indices: 37118489--37118515 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37118479 AAAGAATTAC
37118489 CTATTACGCCT
1 CTATTACGCCT
37118500 CTATTACGCCT
1 CTATTACGCCT
37118511 CTATT
1 CTATT
37118516 CCATTACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.33, G:0.07, T:0.41
Consensus pattern (11 bp):
CTATTACGCCT
Found at i:37122687 original size:14 final size:15
Alignment explanation
Indices: 37122668--37122696 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37122658 TTTAAAGGTG
37122668 AAATAAATC-AAATA
1 AAATAAATCTAAATA
37122682 AAATAAATCTAAATA
1 AAATAAATCTAAATA
37122697 CCATCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATCTAAATA
Found at i:37122888 original size:19 final size:18
Alignment explanation
Indices: 37122851--37122905 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 18
37122841 AATATATAAA
37122851 AAAATTTATATAAAATTATT
1 AAAA-TTATATAAAATTA-T
37122871 AAAATTATA-AAAACTTAT
1 AAAATTATATAAAA-TTAT
37122889 AAATATTATATATAAAT
1 AAA-ATTATATA-AAAT
37122906 AATTTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 8 0.26
19 14 0.45
20 6 0.19
21 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATATAAAATTAT
Found at i:37124372 original size:22 final size:23
Alignment explanation
Indices: 37124321--37124393 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 23
37124311 TAATTAAAAT
* *
37124321 TAAAATTAAAATTATTTTTTTAA
1 TAAAATTAAAATTATATTGTTAA
*
37124344 TAAAATTAAAATTA-ATTGTTAG
1 TAAAATTAAAATTATATTGTTAA
37124366 TAAAATTATCAAATTATTAATTGTTAA
1 TAAAATTA--AAATTA-T-ATTGTTAA
37124393 T
1 T
37124394 TGTATTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 13 0.32
23 14 0.34
24 6 0.15
27 8 0.20
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAATTAAAATTATATTGTTAA
Found at i:37124458 original size:9 final size:9
Alignment explanation
Indices: 37124446--37124489 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
37124436 ATTATCAAAT
37124446 TATTAATTG
1 TATTAATTG
37124455 TATTAATTG
1 TATTAATTG
37124464 --TTAATTG
1 TATTAATTG
*
37124471 AATTAATTG
1 TATTAATTG
37124480 TATTAATTG
1 TATTAATTG
37124489 T
1 T
37124490 TGTAACAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.22
9 25 0.78
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (9 bp):
TATTAATTG
Found at i:37124467 original size:16 final size:16
Alignment explanation
Indices: 37124443--37124480 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
37124433 AAAATTATCA
* *
37124443 AATTATTAATTGTATT
1 AATTGTTAATTGAATT
37124459 AATTGTTAATTGAATT
1 AATTGTTAATTGAATT
37124475 AATTGT
1 AATTGT
37124481 ATTAATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
AATTGTTAATTGAATT
Found at i:37124594 original size:68 final size:68
Alignment explanation
Indices: 37124477--37124612 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
37124467 ATTGAATTAA
*
37124477 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATAAACTTGATATTTTATTATT
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATATTTTATTATT
37124542 ATT
66 ATT
* *
37124545 TTGTGTTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATGTTTTATTATT
1 TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATATTTTATTATT
37124610 ATT
66 ATT
37124613 ATTTTGTAAC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (68 bp):
TTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAACAAACTTGATATTTTATTATT
ATT
Found at i:37133459 original size:25 final size:25
Alignment explanation
Indices: 37133431--37133485 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
37133421 TTTTAAGCAA
*
37133431 TTTAATTTT-TTTTCTTTTATATTCT
1 TTTAATTTTCCTTT-TTTTATATTCT
*
37133456 TTTAATTTTCCTTTTTTTCTATTCT
1 TTTAATTTTCCTTTTTTTATATTCT
37133481 TTTAA
1 TTTAA
37133486 GCTTCTCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTAATTTTCCTTTTTTTATATTCT
Found at i:37134219 original size:25 final size:26
Alignment explanation
Indices: 37134169--37134220 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
37134159 AGAAATAAAT
*
37134169 TTAAATAATATTAAATTTTATGATAA
1 TTAAATAATATTAAATTTTATAATAA
* *
37134195 TTAAATCATA-TATATTTTATAATAA
1 TTAAATAATATTAAATTTTATAATAA
37134220 T
1 T
37134221 ACTATTTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTAAATAATATTAAATTTTATAATAA
Found at i:37138930 original size:23 final size:23
Alignment explanation
Indices: 37138873--37138933 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
37138863 TAAATTACAG
37138873 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
* *
37138896 TTAATTCA-TGTT-TATAATATGA-
1 TTACTTAAGTGTTCTA-AATA-GAT
37138918 TTACTTAAGTGTTCTA
1 TTACTTAAGTGTTCTA
37138934 GATTTAAGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 2 0.07
22 14 0.47
23 12 0.40
24 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (23 bp):
TTACTTAAGTGTTCTAAATAGAT
Found at i:37139300 original size:21 final size:20
Alignment explanation
Indices: 37139276--37139314 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37139266 TTCTTTTATT
37139276 TATTTATAATTTGTTTATTAC
1 TATTTAT-ATTTGTTTATTAC
*
37139297 TATTTATGTTTGTTTATT
1 TATTTATATTTGTTTATT
37139315 TATTTCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (20 bp):
TATTTATATTTGTTTATTAC
Found at i:37144651 original size:101 final size:100
Alignment explanation
Indices: 37144476--37144715 Score: 329
Period size: 101 Copynumber: 2.4 Consensus size: 100
37144466 TGAATTGATG
* *
37144476 GATAAGACCATAACTGGGTTATGGAAATATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACT-GGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
* *
37144541 ATATATAAGACCATGGTTGGGCTATGAAATTCTAAT
65 ATATATAAGACCATAGCTGGGCTATGAAATTCTAAT
*
37144577 GATAAGACCATAACTAGGTTATGGCACTAT-AGACGTAAGACCATGTTTGGACCATGGCAGTGTT
1 GATAAGACCATAACT-GGTTATGGCACTATGA-ACGTAAGACCATGGTTGGACCATGGCAGTGTT
* ** *
37144641 TATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
64 TATATATAAGACCATAGCTGGGCTATGAAATTCTAAT
* * *
37144678 AATAAGACCATAACTGAGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTG-GTTATGGCACTATGAACGTAA
37144716 AGGATGAATT
Statistics
Matches: 123, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
100 2 0.02
101 120 0.98
102 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (100 bp):
GATAAGACCATAACTGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
TATATAAGACCATAGCTGGGCTATGAAATTCTAAT
Found at i:37144669 original size:35 final size:35
Alignment explanation
Indices: 37144510--37144670 Score: 91
Period size: 35 Copynumber: 4.7 Consensus size: 35
37144500 AAATATGAAC
* * *
37144510 GTAAGACCATGGTTGGACCATGGCAGTGTTTATAT
1 GTAAGACCATAGTTGGGCTATGGCAGTGTTTATAT
* * * * *
37144545 ATAAGACCATGGTTGGGCTAT-GAAAT-TCTA-AT
1 GTAAGACCATAGTTGGGCTATGGCAGTGTTTATAT
** * * * * * *
37144577 GATAAGACCATAACTAGGTTATGGCA--CTATAGAC
1 G-TAAGACCATAGTTGGGCTATGGCAGTGTTTATAT
* *
37144611 GTAAGACCAT-GTTTGGACCATGGCAGTGTTTATAT
1 GTAAGACCATAG-TTGGGCTATGGCAGTGTTTATAT
*
37144646 GTAAGACCATAGCTGGGCTATGGCA
1 GTAAGACCATAGTTGGGCTATGGCA
37144671 TTCTGATAAT
Statistics
Matches: 90, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
32 2 0.02
33 38 0.42
34 7 0.08
35 42 0.47
36 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (35 bp):
GTAAGACCATAGTTGGGCTATGGCAGTGTTTATAT
Found at i:37145163 original size:154 final size:154
Alignment explanation
Indices: 37144883--37145348 Score: 869
Period size: 154 Copynumber: 3.0 Consensus size: 154
37144873 AAATAACATG
37144883 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
1 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
*
37144948 ATATATATCAATATCTTGATATGTTGATACATGGAAATCATGTAAGTTGTGATGAGTAATAAACT
66 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
37145013 CAAGTGTGATATGTTGATAAAATA
131 CAAGTGTGATATGTTGATAAAATA
*
37145037 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGC
1 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
37145102 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
66 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
37145167 CAAGTGTGATATGTTGATAAAATA
131 CAAGTGTGATATGTTGATAAAATA
* *
37145191 AATTGTTTTTGGATGATATATGTATATGAAGAAACAGTAAGAGAATGATATGTGTCATGATATGT
1 AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
* *
37145256 ATGTATATAAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
66 ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
*
37145321 CAAGTGTGATATGTTAATAAAATA
131 CAAGTGTGATATGTTGATAAAATA
37145345 AGTT
1 AGTT
37145349 TATCAATGTT
Statistics
Matches: 303, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 303 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (154 bp):
AGTTGTTTTTGGATGATATATGTATATGAAGAAACAATAAGAGAATGATATGTGTCATGATATGT
ATATATATCAATATCTTGATATGTTGATACATGGAAATTATGTAAGTTGTGATGAGTAATAAACT
CAAGTGTGATATGTTGATAAAATA
Found at i:37147138 original size:19 final size:19
Alignment explanation
Indices: 37147114--37147151 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37147104 ATAATTATAG
37147114 AAACATAAATTAAGTAGAA
1 AAACATAAATTAAGTAGAA
*
37147133 AAACATAATTTAAGTAGAA
1 AAACATAAATTAAGTAGAA
37147152 TTTAAATTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.24
Consensus pattern (19 bp):
AAACATAAATTAAGTAGAA
Found at i:37147548 original size:20 final size:20
Alignment explanation
Indices: 37147523--37147562 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
37147513 TCTTGACAAC
37147523 TATTTA-TCAAGATTCATTTT
1 TATTTATTC-AGATTCATTTT
*
37147543 TATTTATTCGGATTCATTTT
1 TATTTATTCAGATTCATTTT
37147563 GTATGCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (20 bp):
TATTTATTCAGATTCATTTT
Found at i:37147618 original size:17 final size:18
Alignment explanation
Indices: 37147586--37147631 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
37147576 AATTATTTAA
*
37147586 AAAAAGATTTTATTTTTG
1 AAAAATATTTTATTTTTG
*
37147604 AAAAATATTTT-TTTTTT
1 AAAAATATTTTATTTTTG
*
37147621 AAAAATCTTTT
1 AAAAATATTTT
37147632 GAATCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (18 bp):
AAAAATATTTTATTTTTG
Found at i:37153746 original size:30 final size:30
Alignment explanation
Indices: 37153675--37153747 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
37153665 GGGAATGTAA
*
37153675 TGCTCACACAAGCTGACAATATTTCAGAGT
1 TGCTCACACAAGCTGACAATATTTCAGAAT
* *
37153705 TGCTC-CACAAGCTGAC-ATTTTTACGGAAT
1 TGCTCACACAAGCTGACAATATTT-CAGAAT
37153734 TGCTCACACAAGCT
1 TGCTCACACAAGCT
37153748 AACGTCTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.13
29 20 0.53
30 13 0.34
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (30 bp):
TGCTCACACAAGCTGACAATATTTCAGAAT
Found at i:37167084 original size:21 final size:21
Alignment explanation
Indices: 37167058--37167114 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
37167048 TAACAGGTAA
37167058 AAATCATGCTTATCGA-ATAAC
1 AAATCATGCTTATC-ACATAAC
* *
37167079 AAATCATACTTATCACATTAC
1 AAATCATGCTTATCACATAAC
*
37167100 AGATCATGCTTATCA
1 AAATCATGCTTATCA
37167115 TATTTCAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (21 bp):
AAATCATGCTTATCACATAAC
Found at i:37167123 original size:21 final size:21
Alignment explanation
Indices: 37167081--37167128 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
37167071 CGAATAACAA
37167081 ATCATACTTATCACATTACAG
1 ATCATACTTATCACATTACAG
* * *
37167102 ATCATGCTTATCATATTTCAG
1 ATCATACTTATCACATTACAG
*
37167123 AACATA
1 ATCATA
37167129 GTGAGCATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (21 bp):
ATCATACTTATCACATTACAG
Found at i:37167346 original size:31 final size:32
Alignment explanation
Indices: 37167303--37167379 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
37167293 CCCACACGAT
* * * *
37167303 CGTGTGGACCACACAGCCTACTTGG-CCAG-C
1 CGTGTGGCCCACACAACCCAATTGGCCCAGAC
37167333 CTGTGTGGCCCACACAACCCAATTGGCCCAGAC
1 C-GTGTGGCCCACACAACCCAATTGGCCCAGAC
*
37167366 CGTGTGGCTCACAC
1 CGTGTGGCCCACAC
37167380 GATGTAGCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
30 1 0.03
31 20 0.51
32 16 0.41
33 2 0.05
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.17
Consensus pattern (32 bp):
CGTGTGGCCCACACAACCCAATTGGCCCAGAC
Found at i:37178483 original size:27 final size:26
Alignment explanation
Indices: 37178453--37178706 Score: 226
Period size: 27 Copynumber: 9.5 Consensus size: 26
37178443 GGTATAAAAG
37178453 TCATTTTACCCTATGGTGGTATTTCGA
1 TCATTTTACCCTATGG-GGTATTTCGA
* * *
37178480 TCATTTTACCCAATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* **
37178507 TCATTTTACTCTATGGGGGTATTTTAA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* * *
37178534 TCATTTTACTCTATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
** *
37178561 TCATTTTACGTTATAAGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
37178588 TTATTTTACCCTAT-GAG-ATTTCGA
1 TCATTTTACCCTATGGGGTATTTCGA
* * *
37178612 TCATTTTACCCTCTAGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTCGA
* *
37178639 TCATTTTACCCTATGAGCGTATTT-TA
1 TCATTTTACCCTATG-GGGTATTTCGA
*
37178665 GTCATTTTACCCTATGGGGGTATTTCGG
1 -TCATTTTACCCTAT-GGGGTATTTCGA
37178693 TCATTTTACCCTAT
1 TCATTTTACCCTAT
37178707 CTATAGTAGT
Statistics
Matches: 188, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
24 19 0.10
25 2 0.01
26 3 0.02
27 161 0.86
28 3 0.02
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTCGA
Found at i:37178499 original size:54 final size:53
Alignment explanation
Indices: 37178451--37178706 Score: 259
Period size: 54 Copynumber: 4.8 Consensus size: 53
37178441 GGGGTATAAA
*
37178451 AGTCATTTTACCCTATGGTGGTATTTCGATCATTTTACCCAATGGGGGTATTTT
1 AGTCATTTTACCCTATGG-GGTATTTCGATCATTTTACCCTATGGGGGTATTTT
* * ** *
37178505 GGTCATTTTACTCTATGGGGGTATTTTAATCATTTTACTCTATGGGGGTATTTT
1 AGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
* ** * * *
37178559 GGTCATTTTACGTTATAAGGGTATTTCGATTATTTTACCCTAT--GAG-A-TTT
1 AGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
* * * * * *
37178609 CGATCATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTT
1 AG-TCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
*
37178664 AGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT
1 AGTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTAT
37178707 CTATAGTAGT
Statistics
Matches: 168, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
50 4 0.02
51 35 0.21
52 2 0.01
53 2 0.01
54 119 0.71
55 6 0.04
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (53 bp):
AGTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTT
Found at i:37178631 original size:132 final size:135
Alignment explanation
Indices: 37178455--37178701 Score: 383
Period size: 132 Copynumber: 1.9 Consensus size: 135
37178445 TATAAAAGTC
* * *
37178455 ATTTTACCCTATGGTGGTATTTCGATCATTTTACCCAATGGGGGTATTTTGGTCATTTTACTCTA
1 ATTTTACCCTATGGTAGTATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTA
* * * *
37178520 TGGGGGTATTTTAATCATTTTACTCTATGGGGGTATTTTGGTCATTTTACGTTATAAGGGTATTT
66 TGAGCGTATTTTAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACGTTATAAGGGTATTT
37178585 CGATT
131 CGATT
**
37178590 ATTTTACCCTAT-G-AG-ATTTCGATCATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCCTA
1 ATTTTACCCTATGGTAGTATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTA
*
37178652 TGAGCGTATTTTAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC
66 TGAGCGTATTTTAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTAC
37178702 CCTATCTATA
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
132 88 0.86
133 1 0.01
134 1 0.01
135 12 0.12
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (135 bp):
ATTTTACCCTATGGTAGTATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTA
TGAGCGTATTTTAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACGTTATAAGGGTATTT
CGATT
Found at i:37178728 original size:54 final size:54
Alignment explanation
Indices: 37178572--37178728 Score: 133
Period size: 54 Copynumber: 3.0 Consensus size: 54
37178562 CATTTTACGT
* * * * * *
37178572 TATAAGGGTATTTCGATTATTTTACCCTATGAGA-T-TTCGA-TCATTTTACCC
1 TATAGGGGTATTTCGGTCATTTTACCCTATGAGAGTAGTCTACTCAGTTTACCC
* * * * * * *
37178623 TCTAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTTAGTCATTTTACCC
1 TATAGGGGTATTTCGGTCATTTTACCCTATGAGAGTAGTCTACTCAGTTTACCC
* * *
37178677 TATGGGGGTATTTCGGTCATTTTACCCTATCTATAGTAGTCT-CTCAGTTTAC
1 TATAGGGGTATTTCGGTCATTTTACCCTAT-GAGAGTAGTCTACTCAGTTTAC
37178729 TCTAACTAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
51 28 0.33
52 1 0.01
53 3 0.04
54 46 0.55
55 6 0.07
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.43
Consensus pattern (54 bp):
TATAGGGGTATTTCGGTCATTTTACCCTATGAGAGTAGTCTACTCAGTTTACCC
Found at i:37178728 original size:132 final size:131
Alignment explanation
Indices: 37178473--37178728 Score: 325
Period size: 132 Copynumber: 1.9 Consensus size: 131
37178463 CTATGGTGGT
* * * *
37178473 ATTTCGATCATTTTACCCAATGGGGGTATTTTGGTCATTTTACTCTATGGGGGTATTTTAATCAT
1 ATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTTAATCAT
* * ** * * * *
37178538 TTTACTCTATGGGGGTATTTTGGTCATTTTACGTTATAAGGGTATTTCGATTATTTTACCCTATG
66 TTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGAGTATCTC-ATCAGTTTACCCTATG
37178603 AG
130 AG
** *
37178605 ATTTCGATCATTTTACCCTCTAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTTAGTCAT
1 ATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTTAATCAT
* *
37178670 TTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATCTATAGTAGTCTC-TCAGTTTAC
66 TTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-AAGAGTA-TCTCATCAGTTTAC
37178729 TCTAACTAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
132 98 0.93
133 4 0.04
134 3 0.03
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (131 bp):
ATTTCGATCATTTTACCCAATAGGGGTATTTTGGTCATTTTACCCTATGAGCGTATTTTAATCAT
TTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGAGTATCTCATCAGTTTACCCTATGA
G
Found at i:37179357 original size:14 final size:15
Alignment explanation
Indices: 37179338--37179377 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
37179328 TTGATTGCCA
37179338 GTAAAATGTTTTC-C
1 GTAAAATGTTTTCTC
*
37179352 GTAAAATGATTTCTC
1 GTAAAATGTTTTCTC
37179367 G-AAAATGTTTT
1 GTAAAATGTTTT
37179378 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (15 bp):
GTAAAATGTTTTCTC
Found at i:37181364 original size:16 final size:16
Alignment explanation
Indices: 37181343--37181374 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37181333 AGATTTGTTG
*
37181343 TCGATTTGCAGAATAA
1 TCGATTTGCAAAATAA
37181359 TCGATTTGCAAAATAA
1 TCGATTTGCAAAATAA
37181375 GCACTTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (16 bp):
TCGATTTGCAAAATAA
Found at i:37182008 original size:14 final size:14
Alignment explanation
Indices: 37181989--37182018 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37181979 AGGTGAACTA
37181989 GCAGAGAAGATGAG
1 GCAGAGAAGATGAG
*
37182003 GCAGAGATGATGAG
1 GCAGAGAAGATGAG
37182017 GC
1 GC
37182019 TGCAATCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.43, T:0.10
Consensus pattern (14 bp):
GCAGAGAAGATGAG
Found at i:37183228 original size:82 final size:78
Alignment explanation
Indices: 37183082--37183340 Score: 238
Period size: 82 Copynumber: 3.2 Consensus size: 78
37183072 AGGGGTATAA
* **
37183082 CAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTCAGTTGTTTTA
1 CAGTCATTTTACCCTAT-GGGG-ATTTCGGTCATTTTACTCTATG-GGGTATTTCAGTCATTTTA
**
37183147 ACCTATGTGAG-TATTC
63 ACCTATAAG-GCTATTC
* *
37183163 CAGTCATTTTATCTTATGAGGAGAATTTCGGTCATTTTACTCTATGGTGGTATTTCAGTCATTTT
1 CAGTCATTTTACCCTATG-GG-G-ATTTCGGTCATTTTACTCTATGG-GGTATTTCAGTCATTTT
* *
37183228 ACCCTATAAGGCTATTT
62 AACCTATAAGGCTATTC
** *
37183245 CAGTCATTTTACCCTAT-GGGATTTCAATCATTTTA-TCCTATGGGGGTATTTCGGTCATTTT-A
1 CAGTCATTTTACCCTATGGGGATTTCGGTCATTTTACT-CTAT-GGGGTATTTCAGTCATTTTAA
* * *
37183307 CCTTATTAGGGTATTT
64 CC-TATAAGGCTATTC
* *
37183323 CGGTCATTTTACTCTATG
1 CAGTCATTTTACCCTATG
37183341 AGGGCATGTT
Statistics
Matches: 150, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
77 3 0.02
78 59 0.39
79 3 0.02
80 3 0.02
81 19 0.13
82 63 0.42
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.44
Consensus pattern (78 bp):
CAGTCATTTTACCCTATGGGGATTTCGGTCATTTTACTCTATGGGGTATTTCAGTCATTTTAACC
TATAAGGCTATTC
Found at i:37183344 original size:27 final size:27
Alignment explanation
Indices: 37183082--37183344 Score: 273
Period size: 27 Copynumber: 9.8 Consensus size: 27
37183072 AGGGGTATAA
*
37183082 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
37183109 CGGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
** * * * *
37183136 CAGTTGTTTTAACCTATGTGAGTATTC
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
37183163 CAGTCATTTTATCTTATGAGGAGAATTT
1 CAGTCATTTTACCCTATGAGG-GTATTT
* *
37183191 CGGTCATTTTACTCTATG-GTGGTATTT
1 CAGTCATTTTACCCTATGAG-GGTATTT
* *
37183218 CAGTCATTTTACCCTATAAGGCTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
37183245 CAGTCATTTTACCCTAT--GGG-ATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
37183269 CAATCATTTTATCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* * *
37183296 CGGTCATTTTACCTTATTAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
37183323 CGGTCATTTTACTCTATGAGGG
1 CAGTCATTTTACCCTATGAGGG
37183345 CATGTTGATT
Statistics
Matches: 192, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
24 19 0.10
25 2 0.01
26 3 0.02
27 148 0.77
28 20 0.10
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:37186466 original size:27 final size:27
Alignment explanation
Indices: 37186425--37186522 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
37186415 TTTCCTACGA
* *
37186425 GGGTATTTCGGTTATTTTACCTTATGG
1 GGGTATTTCGATTATTTTACCCTATGG
* * *
37186452 GGGTATTTCGATTATTTTATCGTATGA
1 GGGTATTTCGATTATTTTACCCTATGG
* * *
37186479 GGTTATTTCGGTCATTTTACCCTAT-G
1 GGGTATTTCGATTATTTTACCCTATGG
* *
37186505 GGGTATTTTGATTGTTTT
1 GGGTATTTCGATTATTTT
37186523 GCTTATTTTG
Statistics
Matches: 56, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 13 0.23
27 43 0.77
ACGTcount: A:0.16, C:0.10, G:0.23, T:0.50
Consensus pattern (27 bp):
GGGTATTTCGATTATTTTACCCTATGG
Found at i:37190221 original size:20 final size:20
Alignment explanation
Indices: 37190146--37190250 Score: 88
Period size: 20 Copynumber: 5.2 Consensus size: 20
37190136 GATGCAAAAA
*
37190146 CAGGGGCACCAAAGTGCAAT
1 CAGGGGCACCATAGTGCAAT
** *
37190166 CAGAAGCACGAGT-GTGCAAT
1 CAGGGGCACCA-TAGTGCAAT
* * * *
37190186 CAGGGGTATCAGAGTGCAGT
1 CAGGGGCACCATAGTGCAAT
*
37190206 CAGGGGCACCATAGTGCATT
1 CAGGGGCACCATAGTGCAAT
*
37190226 CAAGGGCACGCAT-GTGCAAT
1 CAGGGGCAC-CATAGTGCAAT
37190246 CAGGG
1 CAGGG
37190251 ACACTGAAGT
Statistics
Matches: 64, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
20 61 0.95
21 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (20 bp):
CAGGGGCACCATAGTGCAAT
Found at i:37199390 original size:22 final size:22
Alignment explanation
Indices: 37199347--37199390 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37199337 ATATTTGTTG
*
37199347 CTTTATAAATAAAAATTTTAAA
1 CTTTATAAATAAAAATTATAAA
*
37199369 CTTTATAATTATAAAA-TATAAA
1 CTTTATAAATA-AAAATTATAAA
37199391 ATGATGTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
CTTTATAAATAAAAATTATAAA
Found at i:37199851 original size:3 final size:3
Alignment explanation
Indices: 37199843--37199867 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37199833 AACATAAAAT
37199843 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
37199868 GTATAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37206042 original size:12 final size:12
Alignment explanation
Indices: 37206025--37206058 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37206015 CGGCCCGCCC
37206025 ATATTAATTTTT
1 ATATTAATTTTT
*
37206037 ATATTATTTTTT
1 ATATTAATTTTT
37206049 ATA-TAATTTT
1 ATATTAATTTT
37206059 AAAATGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:37206240 original size:30 final size:31
Alignment explanation
Indices: 37206181--37206244 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
37206171 ACTTAACAAG
37206181 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
* * *
37206212 CAAATGTCTTTAAAATAAT-AACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
37206242 CAA
1 CAA
37206245 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATTAA
Found at i:37207549 original size:17 final size:17
Alignment explanation
Indices: 37207477--37207559 Score: 62
Period size: 17 Copynumber: 4.8 Consensus size: 17
37207467 TGTCTATCTT
*
37207477 TTTTCTATAT-TATATA
1 TTTTATATATATATATA
* *
37207493 -TTTATATATATTTCTGAA
1 TTTTATATATATATAT--A
*
37207511 TTTTTATATATATATTTA
1 -TTTTATATATATATATA
* *
37207529 TTTTATTTATTTATATA
1 TTTTATATATATATATA
*
37207546 TTTTGTATATATAT
1 TTTTATATATATAT
37207560 TTAATAAAAG
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
15 8 0.16
16 3 0.06
17 25 0.49
18 2 0.04
20 13 0.25
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTATATATATATATA
Found at i:37208275 original size:14 final size:14
Alignment explanation
Indices: 37208256--37208295 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37208246 TTGATTGCCA
37208256 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
37208270 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
37208284 GGAAAATGTTTT
1 GTAAAATGTTTT
37208296 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:37208304 original size:20 final size:20
Alignment explanation
Indices: 37208279--37208318 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
37208269 CGTAAAATGA
*
37208279 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
37208299 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
37208319 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:37208308 original size:34 final size:35
Alignment explanation
Indices: 37208264--37208330 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
37208254 CAGTAAAATG
*
37208264 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
37208298 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
37208331 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:37208334 original size:14 final size:15
Alignment explanation
Indices: 37208258--37208334 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
37208248 GATTGCCAGT
* *
37208258 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
37208272 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
37208286 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
37208306 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
37208321 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
37208335 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:37212617 original size:5 final size:6
Alignment explanation
Indices: 37212599--37212623 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37212589 AAGCTTCCAC
37212599 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
37212624 CGTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:37212648 original size:18 final size:17
Alignment explanation
Indices: 37212622--37212669 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
37212612 ATAAAAATAA
37212622 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
37212640 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
37212658 AATGTTTTGAAA
1 AACGTTTTGAAA
37212670 ACGAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:37213137 original size:15 final size:16
Alignment explanation
Indices: 37213112--37213141 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37213102 CATTTGAAAG
37213112 AATATATAATTAATTA
1 AATATATAATTAATTA
37213128 AATA-ATAATTAATT
1 AATATATAATTAATT
37213142 TTCATAAAAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATAATTAATTA
Found at i:37214209 original size:28 final size:29
Alignment explanation
Indices: 37214175--37214229 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
37214165 GCCCAATATG
*
37214175 CAATTATATACA-TAAACTTTAATTTTGT
1 CAATTATATACACAAAACTTTAATTTTGT
37214203 CAATTATATACACAAAACTTTAATTTT
1 CAATTATATACACAAAACTTTAATTTT
37214230 AATTCAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (29 bp):
CAATTATATACACAAAACTTTAATTTTGT
Found at i:37222718 original size:22 final size:21
Alignment explanation
Indices: 37222682--37222768 Score: 83
Period size: 22 Copynumber: 4.3 Consensus size: 21
37222672 TAGTATTTTG
** *
37222682 ATTTTTTAAAATTTATA-CAT
1 ATTTTTTAATTTTTATATAAT
37222702 ATTTTTTAATTTTT-T-TAA-
1 ATTTTTTAATTTTTATATAAT
* * *
37222720 AATTTTCAATATTTATATAAT
1 ATTTTTTAATTTTTATATAAT
37222741 ATTTTTTCAATTTTTATATAAT
1 ATTTTTT-AATTTTTATATAAT
37222763 ATTTTT
1 ATTTTT
37222769 AAAAAAATTA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
18 11 0.21
19 3 0.06
20 15 0.28
21 5 0.09
22 19 0.36
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTTAATTTTTATATAAT
Found at i:37222740 original size:29 final size:30
Alignment explanation
Indices: 37222682--37222747 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
37222672 TAGTATTTTG
*
37222682 ATTTTTTAAAATTTATACATATTTTTTAAT
1 ATTTTTTAAAATTTATACATATTTTATAAT
37222712 -TTTTTTAAAATTT-T-CAATATTTATATAAT
1 ATTTTTTAAAATTTATAC-ATATTT-TATAAT
37222741 ATTTTTT
1 ATTTTTT
37222748 CAATTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.03
28 7 0.22
29 18 0.56
30 6 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTTTTAAAATTTATACATATTTTATAAT
Found at i:37223696 original size:25 final size:26
Alignment explanation
Indices: 37223637--37223697 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
37223627 AAACTATAAA
37223637 ATATAAAAATATATATATATGTACAT
1 ATATAAAAATATATATATATGTACAT
* *
37223663 ATAAGAAAAATATATATGTATGTGA-AT
1 AT-ATAAAAATATATATATATGT-ACAT
37223690 -TATAAAAA
1 ATATAAAAA
37223698 ATAAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 6 0.20
26 3 0.10
27 20 0.67
28 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATAAAAATATATATATATGTACAT
Found at i:37224428 original size:23 final size:24
Alignment explanation
Indices: 37224398--37224444 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
37224388 AAATTAAATC
37224398 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
37224421 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
37224445 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:37224674 original size:25 final size:25
Alignment explanation
Indices: 37224624--37224674 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
37224614 GGTATTACAT
* * *
37224624 ATATTATATATGATTTCTTAACAGC
1 ATATTATATATAATTTCTAAAAAGC
37224649 ATATTATATATAATATT-TAAAAAGC
1 ATATTATATATAAT-TTCTAAAAAGC
37224674 A
1 A
37224675 AAAAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (25 bp):
ATATTATATATAATTTCTAAAAAGC
Found at i:37225404 original size:2 final size:2
Alignment explanation
Indices: 37225397--37225424 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
37225387 CTTCAGGGTG
37225397 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
37225425 TTTACATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:37226219 original size:12 final size:12
Alignment explanation
Indices: 37226182--37226232 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
37226172 ATTAGAATCT
* *
37226182 TTACTCGCTTAT
1 TTACTTGCTTAC
* *
37226194 TTACTTACTCAC
1 TTACTTGCTTAC
*
37226206 TTACTTGTTTAC
1 TTACTTGCTTAC
37226218 TTACTTGCTTAC
1 TTACTTGCTTAC
37226230 TTA
1 TTA
37226233 AATAACTCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:37226556 original size:50 final size:50
Alignment explanation
Indices: 37226432--37226673 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 50
37226422 TGATAATACA
* * * * * *
37226432 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGT-AC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATCAG
* * * *
37226481 TGCCAATGCCATATCCTAGATATGGTCTTACATGAGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
* ** ** * *
37226531 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
* **
37226581 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCAT-ATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTC-TCAT-A--TC-A-G
*
37226636 ATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
37226674 TCTCATTCCC
Statistics
Matches: 155, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 5 0.03
49 32 0.21
50 79 0.51
51 1 0.01
53 2 0.01
55 1 0.01
56 35 0.23
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCAG
Found at i:37227788 original size:16 final size:16
Alignment explanation
Indices: 37227763--37227800 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
37227753 CCATAACTTA
37227763 ACCA-ATGGTCTAATT
1 ACCATATGGTCTAATT
37227778 ACCATATGGTCTAATT
1 ACCATATGGTCTAATT
37227794 ACCATAT
1 ACCATAT
37227801 AAAGAAATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (16 bp):
ACCATATGGTCTAATT
Found at i:37228632 original size:19 final size:20
Alignment explanation
Indices: 37228586--37228638 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
37228576 TGTTACGGAA
37228586 AAAACTTATAAAATATTATTT
1 AAAA-TTATAAAATATTATTT
***
37228607 TTTATTATAAAATA-TATTT
1 AAAATTATAAAATATTATTT
37228626 AAAATTATAAAAT
1 AAAATTATAAAAT
37228639 TAATTTATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 15 0.58
20 10 0.38
21 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATTATAAAATATTATTT
Found at i:37228802 original size:5 final size:5
Alignment explanation
Indices: 37228792--37228825 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
37228782 AAATTTTCAT
37228792 AATAA AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA
37228826 TTCTTAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:37231046 original size:26 final size:25
Alignment explanation
Indices: 37230999--37231050 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
37230989 ATTAAAATGT
*
37230999 AATAAACATGACATATTAAAGACAC
1 AATAAACAAGACATATTAAAGACAC
* *
37231024 AATAAACTAAGACATGTTTAAGACAC
1 AATAAAC-AAGACATATTAAAGACAC
37231050 A
1 A
37231051 TTTAGAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (25 bp):
AATAAACAAGACATATTAAAGACAC
Found at i:37232915 original size:30 final size:30
Alignment explanation
Indices: 37232881--37233175 Score: 333
Period size: 30 Copynumber: 9.9 Consensus size: 30
37232871 TGTAAATGGT
* *
37232881 TATACATTGTCGAATTGATTTGTATGTAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37232911 TATACATTGCCAAATTGA--TATATATATA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37232939 TGTACATTGCCGAATTGATTCGTATTTAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37232969 TATACATTGCCGAATTGATTTGTTTTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* *
37232999 TATACATTGCCGAATTGATTTGTATATGGT
1 TATACATTGCCGAATTGATTTGTATATAGA
** ** *
37233029 TATACATTGTTGAATTGATTTGTACGTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
37233059 TATACATTGCCGAATTGATTTGTATATAGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * * * *
37233089 TGTACATTACCGAATTGATTCGTATTTGGA
1 TATACATTGCCGAATTGATTTGTATATAGA
* * *
37233119 TATACATTACCAAATTGATTTGTATATAGG
1 TATACATTGCCGAATTGATTTGTATATAGA
*
37233149 TGTACATTGCCGAATTGATTTGTATAT
1 TATACATTGCCGAATTGATTTGTATAT
37233176 GTATATATAT
Statistics
Matches: 221, Mismatches: 42, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
28 23 0.10
30 198 0.90
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATAGA
Found at i:37233116 original size:36 final size:35
Alignment explanation
Indices: 37233072--37233188 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 35
37233062 ACATTGCCGA
37233072 ATTG-ATTTGTATATAGATGTACATTACCGAATTG
1 ATTGTATTTGTATATAGATGTACATTACCGAATTG
*
37233106 ATTCGTATTTG------GATATACATTACC-AA---
1 ATT-GTATTTGTATATAGATGTACATTACCGAATTG
* *
37233132 ATTG-ATTTGTATATAGGTGTACATTGCCGAATTG
1 ATTGTATTTGTATATAGATGTACATTACCGAATTG
* *
37233166 ATTTGTATATGTATATATATGTA
1 A-TTGTATTTGTATATAGATGTA
37233189 TTGCCGAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 26
0.65 0.07 0.27
Matches are distributed among these distances:
24 5 0.08
25 1 0.02
26 3 0.05
29 2 0.03
30 22 0.35
31 2 0.03
34 4 0.06
35 4 0.06
36 19 0.31
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (35 bp):
ATTGTATTTGTATATAGATGTACATTACCGAATTG
Found at i:37239662 original size:30 final size:30
Alignment explanation
Indices: 37239618--37239928 Score: 363
Period size: 30 Copynumber: 10.4 Consensus size: 30
37239608 ATTCAAAGGC
*
37239618 ATATGGTTATACATTGCCGAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* *
37239648 ATGTGGATAAACATTGCCGAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * *
37239678 ATATAGATGTACATTGCCGAATTGATTCGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * * *
37239708 ATTTGGATATACATTGTCAAATTTATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * **
37239738 ATTTGGATATACATCGCTTAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* **
37239768 ATATGGTTATACATTGCCGAATTGATTCAT
1 ATATGGATATACATTGCCGAATTGATTTGT
37239798 ATATGGATATACATTGCCGAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * * *
37239828 ATATAGATGTACATTGTCGAATTGATTCGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* * *
37239858 ATTTGGATATACATTTCCAAATTGATTTGT
1 ATATGGATATACATTGCCGAATTGATTTGT
* *
37239888 ATATAGG-TGTGCATTGCCGAATTGATTTGT
1 ATAT-GGATATACATTGCCGAATTGATTTGT
*
37239918 ATATGTATATA
1 ATATGGATATA
37239929 TATGTACTGC
Statistics
Matches: 230, Mismatches: 49, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
29 1 0.00
30 227 0.99
31 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (30 bp):
ATATGGATATACATTGCCGAATTGATTTGT
Found at i:37244270 original size:17 final size:16
Alignment explanation
Indices: 37244250--37244283 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
37244240 CACTTTATTT
*
37244250 TTCATTCTTTTTTCTTC
1 TTCACTCTTTTTT-TTC
37244267 TTCACTCTTTTTTTTC
1 TTCACTCTTTTTTTTC
37244283 T
1 T
37244284 CTCGATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCACTCTTTTTTTTC
Found at i:37244283 original size:26 final size:27
Alignment explanation
Indices: 37244218--37244286 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
37244208 AGAAATTTGA
37244218 TTTTTTTTCTCTCTTTTCGTTTCACT-
1 TTTTTTTTCTCTCTTTTCGTTTCACTC
* * *
37244244 TTATTTTTCATTCTTTTTTCTTCTTCACTC
1 TTTTTTTTC--TCTCTTTTCGT-TTCACTC
37244274 TTTTTTTTCTCTC
1 TTTTTTTTCTCTC
37244287 GATTTCATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 8 0.24
28 12 0.35
29 6 0.18
30 8 0.24
ACGTcount: A:0.06, C:0.23, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTTTTTTCTCTCTTTTCGTTTCACTC
Found at i:37246791 original size:105 final size:106
Alignment explanation
Indices: 37246653--37246868 Score: 287
Period size: 105 Copynumber: 2.0 Consensus size: 106
37246643 AGTGTTTTTT
* * * *
37246653 TTCTTTCTTCCATAGAACCCTCTCAAATTTTCTCTCATTTGT-TTTCCATCCAATCACCATCAAA
1 TTCTTTCTTCCATAAAAACCTCTCAAATTTTCTCTCATTT-TCTTGCCATCCAATCACCACCAAA
37246717 -AT-TTC-TTCTTTCTTCTATCAAATTATACACTAAATCTTTC
65 TATCTTCTTTCTTTCTTCTATCAAATTATACACT-AATCTTTC
* *
37246757 TTCTTTCTTTCATCAAAAACCTCTTAAATTTTCTCTCATTTTCTTGCCATCCAATCACCACCAAA
1 TTCTTTCTTCCAT-AAAAACCTCTCAAATTTTCTCTCATTTTCTTGCCATCCAATCACCACCAAA
* * *
37246822 TTTTCTTCTTTCTTTCTTCTGTCAAATTATACACTTATCTTTC
65 -TATCTTCTTTCTTTCTTCTATCAAATTATACACTAATCTTTC
37246865 TTCT
1 TTCT
37246869 GTCAAAAACT
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
104 13 0.13
105 44 0.45
107 1 0.01
108 14 0.14
109 25 0.26
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (106 bp):
TTCTTTCTTCCATAAAAACCTCTCAAATTTTCTCTCATTTTCTTGCCATCCAATCACCACCAAAT
ATCTTCTTTCTTTCTTCTATCAAATTATACACTAATCTTTC
Found at i:37253394 original size:35 final size:35
Alignment explanation
Indices: 37253355--37253430 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
37253345 AAAAATTACT
*
37253355 TTTTAATAT-GAATGCCACATCAGCAATTAATTAAC
1 TTTTAATATCG-ATCCCACATCAGCAATTAATTAAC
* ** *
37253390 TTTTAATGTCGATCCCATGTCAGCAATTAATTAAT
1 TTTTAATATCGATCCCACATCAGCAATTAATTAAC
37253425 TTTTAA
1 TTTTAA
37253431 AATATAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (35 bp):
TTTTAATATCGATCCCACATCAGCAATTAATTAAC
Found at i:37263983 original size:23 final size:23
Alignment explanation
Indices: 37263934--37263984 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
37263924 AACATTAATA
37263934 AACTTATTTTATTAACATATCAC
1 AACTTATTTTATTAACATATCAC
37263957 -ACTTGATTTTATT-AC-TCATCAC
1 AACTT-ATTTTATTAACAT-ATCAC
37263979 AACTTA
1 AACTTA
37263985 CATAATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 12 0.48
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (23 bp):
AACTTATTTTATTAACATATCAC
Found at i:37264405 original size:101 final size:101
Alignment explanation
Indices: 37264217--37264452 Score: 319
Period size: 101 Copynumber: 2.3 Consensus size: 101
37264207 AATTCATCCT
* * * * * *
37264217 TTACATTCGTAGTGCCATAATCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGAT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTGATCATCAAAATGCCATAGCCCAACTATGAT
* **
37264282 CTTACATATAAACACTGTCATGGTCCAAATGTGGTC
66 CTTACATATAAACACTGCCATGGTCCAAACATGGTC
* * *
37264318 TTACGTTCATAGTGTCATAACCCAGTTATGGTCTGATCATCAAAATGTCATAGCCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTGATCATCAAAATGCCATAGCCCAACTATGAT
* * * *
37264383 CTTACATATAAATATTGCCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGCCATGGTCCAAACATGGTC
*
37264419 TTACGTTAATAGTGCCATAACCCAGTTATGGTCT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCT
37264453 TATCCGTCAA
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 117 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTGATCATCAAAATGCCATAGCCCAACTATGAT
CTTACATATAAACACTGCCATGGTCCAAACATGGTC
Found at i:37267341 original size:13 final size:13
Alignment explanation
Indices: 37267323--37267348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37267313 ATTGTCGTGG
37267323 AAATGTTAAGTTT
1 AAATGTTAAGTTT
37267336 AAATGTTAAGTTT
1 AAATGTTAAGTTT
37267349 TAATACTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
AAATGTTAAGTTT
Found at i:37270947 original size:45 final size:45
Alignment explanation
Indices: 37270888--37270979 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
37270878 TTATTTTTAC
37270888 ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
1 ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
*
37270933 ACATATCAAGCACTTAAATGTATGTGATTTAAACTCTTTTATTCT
1 ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
37270978 AC
1 AC
37270980 TGATATTTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (45 bp):
ACATATCAAACACTTAAATGTATGTGATTTAAACTCTTTTATTCT
Found at i:37281133 original size:42 final size:42
Alignment explanation
Indices: 37281058--37281139 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
37281048 TAAGGGCAAG
**
37281058 CTAAAATAAGTTTGGATTAGTCATTTATTAATATAATTAAAC
1 CTAAAATAAGTTTGGATTAGTCATTTACAAATATAATTAAAC
* *
37281100 CTAAAATGAGTTT-GAGTTAGTCATTTACAAATATAGTTAA
1 CTAAAATAAGTTTGGA-TTAGTCATTTACAAATATAATTAA
37281140 GACTTGAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (42 bp):
CTAAAATAAGTTTGGATTAGTCATTTACAAATATAATTAAAC
Found at i:37286366 original size:46 final size:44
Alignment explanation
Indices: 37286225--37286601 Score: 264
Period size: 43 Copynumber: 8.7 Consensus size: 44
37286215 TTTTAACCCA
* *
37286225 CTCCACTGTAACTTCAGGGAGATAGGAT-AG-TGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAT-TCTTCGATCTG
* * * *
37286268 CTCCGCTGTAA-TCTC-GGGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGAT-TCTTCGATCTG
* * *
37286311 CTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG--ATTCTTCGATCTG
* * * * *
37286357 CTCCACTGTAACCTCAGAGAGAATAAGACCTGA---TGCGATCTA
1 CTCCACTGTAACTTCAGGGAG-ATAAGATCTGATTCTTCGATCTG
* * * * *
37286399 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAACTTCAGGGAGATAAGAT-C-TGATTCTTCGATCTG
*
37286443 CTCCACTGTAACTTCAGGGAGATAGGAT-T-ATATCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTGAT-TCTTCGATCTG
* * * *
37286486 CTCCGCTGTAACCTCAGGGAGACAAGATCTGCATTTCTTCGGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGATCTG-A-TTCTTCGATCTG
* * * *
37286532 TTCCACTGTAA-TCTCAGGGAGATAAGACCTGA-T-GT-GATCTT
1 CTCCACTGTAACT-TCAGGGAGATAAGATCTGATTCTTCGATCTG
* *
37286573 CTCTACTGTAACTTCAGAGAGATAAGATC
1 CTCCACTGTAACTTCAGGGAGATAAGATC
37286602 CTTTAATCGC
Statistics
Matches: 264, Mismatches: 48, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
40 2 0.01
41 35 0.13
42 43 0.16
43 66 0.25
44 43 0.16
45 3 0.01
46 61 0.23
47 11 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGATCTGATTCTTCGATCTG
Found at i:37286606 original size:174 final size:170
Alignment explanation
Indices: 37286267--37286663 Score: 498
Period size: 175 Copynumber: 2.3 Consensus size: 170
37286257 TCTTCGATCT
* * * ** * * *
37286267 GCTCCGCTGTAATCTC-GGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACTTCAGGG
1 GCTCCACTGTAATCTCAAGGAGATAGGAT-TACTATCTTCGATCTGCTCCGCTGTAACCTCAGGG
* *
37286330 GGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGAATAAGACCTGATGCGA
65 AGACAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGAATAAGACCTGATGCGA
37286395 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCC
130 TCTACTCTACTGTAACTTCAGAGAGATAAGATCC-----TTTAAT-C
*
37286442 GCTCCACTGTAA-CTTCAGGGAGATAGGATTA-TATCTTCGATCTGCTCCGCTGTAACCTCAGGG
1 GCTCCACTGTAATC-TCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGG
* ** * * *
37286505 AGACAAGATCTGCATTTCTTCGGTCTGTTCCACTGTAATCTCAGGGAG-ATAAGACCTGATGTGA
65 AGACAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGAATAAGACCTGATGCGA
*
37286569 TCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATC
130 TCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATC
* * *
37286610 GCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTTCGCTGT
1 GCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGT
37286664 TAATGCAGGA
Statistics
Matches: 197, Mismatches: 20, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
168 28 0.14
169 27 0.14
174 49 0.25
175 82 0.42
176 11 0.06
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (170 bp):
GCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCGCTGTAACCTCAGGGA
GACAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACCTCAGAGAGAATAAGACCTGATGCGAT
CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATC
Found at i:37286821 original size:43 final size:43
Alignment explanation
Indices: 37286772--37286907 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
37286762 CAAGATCCTT
37286772 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
* * * ** ** * * * *
37286815 TGTCTTCGATCTGCTCGCTGTCAA-TGTAGGAAGGCAAGATCTT-
1 TGTCTTCAACCAGCTCTATCACAACCGAAAG-AGGCAAGGT-TTG
37286858 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
37286901 TGTCTTC
1 TGTCTTC
37286908 GATCTGCTTC
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
42 5 0.07
43 57 0.85
44 5 0.07
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTG
Found at i:37286851 original size:87 final size:88
Alignment explanation
Indices: 37286644--37286953 Score: 411
Period size: 86 Copynumber: 3.6 Consensus size: 88
37286634 AGGATTACTA
* * * * * *
37286644 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGAT-CTACT-TCTTTAACTAGCTCCA-CT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCCT-TTGTCTTCAACCAGCTCTATC-
* * ** *
37286706 GCAATCGATGGATGCAAGGCTTTGT-
64 ACAACCGAAAGAGGCAAGG-TTTGTG
*
37286731 T-TTCGATCTGCTTCGCTGTCGATGCA-GAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCAC
37286794 AACCGAAAGAGGCAAGGTTTGTG
66 AACCGAAAGAGGCAAGGTTTGTG
*
37286817 TCTTCGATCTGC-TCGCTGTCAATGTAGGAAGGCAAGAT-CTTTGTCTTCAACCAGCTCTATCAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCAC
37286880 AACCGAAAGAGGCAAGGTTTGTG
66 AACCGAAAGAGGCAAGGTTTGTG
*
37286903 TCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCCTTTGTCTTCA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCCTTTGTCTTCA
37286954 TTGATCTGTC
Statistics
Matches: 199, Mismatches: 16, Indels: 15
0.87 0.07 0.07
Matches are distributed among these distances:
85 17 0.09
86 124 0.62
87 47 0.24
88 11 0.06
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCCTTTGTCTTCAACCAGCTCTATCAC
AACCGAAAGAGGCAAGGTTTGTG
Found at i:37312942 original size:101 final size:100
Alignment explanation
Indices: 37312800--37313029 Score: 370
Period size: 101 Copynumber: 2.3 Consensus size: 100
37312790 GAATTGACGA
* *
37312800 ATAAGACCATAACTGGGTTATGACACTATGAATGTAAGACCATGGTTGGACCATGACAGTGTTTA
1 ATAAGACCATAACT-GGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTA
*
37312865 TATGTAAGACCATAATTGGGCTATGGCATTCTGATG
65 TATGTAAGACCATAACTGGGCTATGGCATTCTGATG
*
37312901 ATAAGACCAGAACTAGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTA
1 ATAAGACCATAACT-GGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTA
* *
37312966 TATGTAAGACCATAGCTGGGCTATGGCATTTTGATG
65 TATGTAAGACCATAACTGGGCTATGGCATTCTGATG
*
37313002 ATAAGGCCATAACTGTGTTATGGCACTA
1 ATAAGACCATAACTG-GTTATGGCACTA
37313030 CGAATATAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 118 0.99
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (100 bp):
ATAAGACCATAACTGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGACAGTGTTTAT
ATGTAAGACCATAACTGGGCTATGGCATTCTGATG
Found at i:37339426 original size:16 final size:18
Alignment explanation
Indices: 37339395--37339428 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
37339385 AGGATTTCTC
37339395 CTTGAATTTAATAACTTT
1 CTTGAATTTAATAACTTT
37339413 CTTGAA-TT-ATAACTTT
1 CTTGAATTTAATAACTTT
37339429 ATAAGTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTGAATTTAATAACTTT
Found at i:37340045 original size:22 final size:22
Alignment explanation
Indices: 37340020--37340065 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
37340010 TATTTTATTC
37340020 TTTTGGTTTGGTAACTCAACAA
1 TTTTGGTTTGGTAACTCAACAA
37340042 TTTTGGTTTGGTAACTCAACAA
1 TTTTGGTTTGGTAACTCAACAA
37340064 TT
1 TT
37340066 CAACTCTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTTGGTTTGGTAACTCAACAA
Found at i:37343481 original size:27 final size:25
Alignment explanation
Indices: 37343429--37343531 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 25
37343419 TCAATAATTC
37343429 AAAAATATGTTGAAAATTTAAAAATAA
1 AAAAATAT-TT-AAAATTTAAAAATAA
*
37343456 AAAAATATTTAAAATTTTAGAGAATACA
1 AAAAATATTTAAAA-TTTA-AAAATA-A
* * *
37343484 AAAAAAATTGAAAATATAAAAAATAA
1 AAAAATATTTAAAAT-TTAAAAATAA
* *
37343510 AAAAATAATTTGAATTTTAAAA
1 AAAAAT-ATTTAAAATTTAAAA
37343532 GTTATAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
25 4 0.07
26 17 0.28
27 25 0.41
28 15 0.25
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (25 bp):
AAAAATATTTAAAATTTAAAAATAA
Found at i:37344331 original size:30 final size:30
Alignment explanation
Indices: 37344297--37344356 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37344287 TCTCCTTCAA
*
37344297 GCTCTCACCATTCCTGTCACCACTATAGCT
1 GCTCTCAACATTCCTGTCACCACTATAGCT
** *
37344327 GCTCTCAACATTGTTGTGACCACTATAGCT
1 GCTCTCAACATTCCTGTCACCACTATAGCT
37344357 ATTTAGTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.32
Consensus pattern (30 bp):
GCTCTCAACATTCCTGTCACCACTATAGCT
Found at i:37346843 original size:21 final size:21
Alignment explanation
Indices: 37346817--37346857 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37346807 ATCTGCTCAA
* *
37346817 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
37346838 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
37346858 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:37367628 original size:13 final size:13
Alignment explanation
Indices: 37367610--37367638 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37367600 ACAAAATTGG
37367610 AAAGATGATAAAT
1 AAAGATGATAAAT
37367623 AAAGATGATAAAT
1 AAAGATGATAAAT
37367636 AAA
1 AAA
37367639 AAATAAAAGA
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:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:37368656 original size:24 final size:24
Alignment explanation
Indices: 37368628--37368681 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
37368618 TTCCTGATAT
*
37368628 ATGGCTATTCGGAGCTTCCCGTTA
1 ATGGCTATTCGGAGCTACCCGTTA
* * *
37368652 ATGGCTCTTTGTAGCTACCCGTTA
1 ATGGCTATTCGGAGCTACCCGTTA
*
37368676 TTGGCT
1 ATGGCT
37368682 CGTATGAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (24 bp):
ATGGCTATTCGGAGCTACCCGTTA
Found at i:37368691 original size:24 final size:23
Alignment explanation
Indices: 37368639--37368691 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
37368629 TGGCTATTCG
* *
37368639 GAGCTTCCCGTTAATGGCTCTTT
1 GAGCTACCCGTTAATGGCTCTAT
*
37368662 GTAGCTACCCGTTATTGGCTCGTAT
1 G-AGCTACCCGTTAATGGCTC-TAT
37368687 GAGCT
1 GAGCT
37368692 TCACAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.84
25 3 0.12
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.36
Consensus pattern (23 bp):
GAGCTACCCGTTAATGGCTCTAT
Found at i:37368756 original size:25 final size:25
Alignment explanation
Indices: 37368712--37368782 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
37368702 GGCACTTATG
** *
37368712 AGCTTCCCGTTATACAGCTCGGATA
1 AGCTTCCCGTTATATGGCTCGCATA
*
37368737 AGCTTCCCGTTATATGGCTCACATA
1 AGCTTCCCGTTATATGGCTCGCATA
* *
37368762 AACTTCCTGTTATATGGCTCG
1 AGCTTCCCGTTATATGGCTCG
37368783 AGAGAGGGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCGCATA
Found at i:37376944 original size:105 final size:103
Alignment explanation
Indices: 37376763--37377030 Score: 428
Period size: 105 Copynumber: 2.6 Consensus size: 103
37376753 TAACCGTTGT
* * * *
37376763 CGGTGGATCCCGCACTTAACACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGAT-ACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
37376828 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
37376867 CGGTGGATATCGCACATAGCACCACCAATGAAATCGGGGAATCAACACTTAGCAACCCCTCGGGG
1 CGGTGGATA-CGCACATAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
37376932 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
64 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
37376972 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
37377031 TTTATATACA
Statistics
Matches: 152, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
104 51 0.34
105 100 0.66
106 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (103 bp):
CGGTGGATACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:37389236 original size:19 final size:19
Alignment explanation
Indices: 37389212--37389260 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
37389202 TTTATATTTT
* *
37389212 TTTTAAATTTTTTTTAAAA
1 TTTTAAATTTTATTAAAAA
*
37389231 TTTTAAAATTTATTAAAAA
1 TTTTAAATTTTATTAAAAA
* *
37389250 ATATAAATTTT
1 TTTTAAATTTT
37389261 GAAATTTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAAATTTTATTAAAAA
Found at i:37389287 original size:18 final size:21
Alignment explanation
Indices: 37389256--37389298 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 21
37389246 AAAAATATAA
*
37389256 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTAAAAATT
37389276 ATTTTG-AA-TTTTAAAAATT
1 ATTTTGAAATTTTTAAAAATT
37389295 ATTT
1 ATTT
37389299 CGATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTTGAAATTTTTAAAAATT
Found at i:37390376 original size:18 final size:19
Alignment explanation
Indices: 37390355--37390390 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37390345 TTGTTTAAGA
*
37390355 AATTA-TTTGTATTAAATG
1 AATTATTTTATATTAAATG
37390373 AATTATTTTATATTAAAT
1 AATTATTTTATATTAAAT
37390391 TTATTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
AATTATTTTATATTAAATG
Found at i:37391824 original size:10 final size:10
Alignment explanation
Indices: 37391809--37391833 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37391799 CTTTGTTATT
37391809 ACCTATATAA
1 ACCTATATAA
37391819 ACCTATATAA
1 ACCTATATAA
37391829 ACCTA
1 ACCTA
37391834 CTTGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (10 bp):
ACCTATATAA
Found at i:37398351 original size:31 final size:28
Alignment explanation
Indices: 37398311--37398423 Score: 82
Period size: 30 Copynumber: 3.8 Consensus size: 28
37398301 ATAAATAGCA
*
37398311 AATTTATACATGAACTTTGGTCTAAGGTGC
1 AATTTATACATGAACTTTGAT-T-AGGTGC
** *
37398341 AATTTGATACAAAAACTTTGATTTGGTGC
1 AATTT-ATACATGAACTTTGATTAGGTGC
** *
37398370 AATTATATACATGAAACTTAAATTAGGTTC
1 AATT-TATACATG-AACTTTGATTAGGTGC
* *
37398400 ATATGTATATATGGAACTTTGATT
1 A-ATTTATACAT-GAACTTTGATT
37398424 TTGATTCAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
29 14 0.22
30 34 0.53
31 16 0.25
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (28 bp):
AATTTATACATGAACTTTGATTAGGTGC
Found at i:37404249 original size:38 final size:38
Alignment explanation
Indices: 37404198--37404289 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 38
37404188 ACCACTTTGA
* *
37404198 CCACCCTGCACACCACATATGAGCTAT-ATCAAGCCCAT
1 CCACCCTGCACACCACATATGAACCATGAT-AAGCCCAT
* *
37404236 CCACCCTGCACACCGCATATGAACCATGATAGGCCCAT
1 CCACCCTGCACACCACATATGAACCATGATAAGCCCAT
*
37404274 CCACCCTACACACCAC
1 CCACCCTGCACACCAC
37404290 GTAACATGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 45 0.96
39 2 0.04
ACGTcount: A:0.30, C:0.43, G:0.11, T:0.15
Consensus pattern (38 bp):
CCACCCTGCACACCACATATGAACCATGATAAGCCCAT
Found at i:37406116 original size:38 final size:37
Alignment explanation
Indices: 37406044--37406125 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 37
37406034 AATTAATTAA
37406044 TTTTTAAAAATTTAAAAATATTTTTTAATGTTTATAC
1 TTTTTAAAAATTTAAAAATATTTTTTAATGTTTATAC
* * *
37406081 TTTTTAAATAATTT-AATAT-TTTTTTTATGTTTTTA-
1 TTTTTAAA-AATTTAAAAATATTTTTTAATGTTTATAC
*
37406116 TATTTAAAAA
1 TTTTTAAAAA
37406126 ACTAATTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 2 0.05
35 7 0.17
36 14 0.35
37 12 0.30
38 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (37 bp):
TTTTTAAAAATTTAAAAATATTTTTTAATGTTTATAC
Done.