Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 107 of 259
Found at i:34561631 original size:46 final size:46
Alignment explanation
Indices: 34561581--34561753 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
34561571 TTGGGCATCC
34561581 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
34561627 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-AAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* * *
34561674 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* *
34561720 GAGCTCGTTGAGTTGAATCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34561754 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:34561733 original size:93 final size:93
Alignment explanation
Indices: 34561574--34561745 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
34561564 AGGATGTTTG
* * *
34561574 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCTGAACTCGTTGAG
*
34561639 TTGAGTCCGAGTTCGTGAAATGAAACTA
66 TTGAATCCGAGTTCGTGAAATGAAACTA
*
34561667 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCTGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCTGAACTCGTTGAG
34561732 TTGAATCCGAGTTC
66 TTGAATCCGAGTTC
34561746 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCTGAACTCGTTGAG
TTGAATCCGAGTTCGTGAAATGAAACTA
Found at i:34564712 original size:15 final size:15
Alignment explanation
Indices: 34564692--34564760 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
34564682 GTATCTTGGG
34564692 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
34564707 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
34564722 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
34564737 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
34564752 TTTCTTTAT
1 TTTCTTTAT
34564761 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:34564761 original size:30 final size:30
Alignment explanation
Indices: 34564683--34564770 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
34564673 CATAATATCG
* * * *
34564683 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
34564713 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
34564743 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
34564771 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:34567178 original size:46 final size:46
Alignment explanation
Indices: 34567128--34567303 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
34567118 TGTTTGGGCA
*
34567128 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34567174 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-AAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
34567219 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34567267 -CCTAAGCTCGTTGAGTTGAATTCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34567304 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 57 0.54
47 29 0.27
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34567283 original size:93 final size:93
Alignment explanation
Indices: 34567124--34567295 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
34567114 AGGATGTTTG
* *
34567124 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAG
*
34567189 TTGAGTCCGAGTTCGTGAAATGAAACTA
66 TTGAATCCGAGTTCGTGAAATGAAACTA
* *
34567217 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTAAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAA-CTCGTTGA
*
34567281 GTTGAATTCGAGTTC
65 GTTGAATCCGAGTTC
34567296 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAG
TTGAATCCGAGTTCGTGAAATGAAACTA
Found at i:34569850 original size:16 final size:16
Alignment explanation
Indices: 34569829--34569863 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34569819 CTTTCAAAAG
34569829 AAATTAAAA-AAAATTA
1 AAATTAAAATAAAA-TA
34569845 AAATTAAAATAAAATA
1 AAATTAAAATAAAATA
34569861 AAA
1 AAA
34569864 AGATAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATTAAAATAAAATA
Found at i:34571605 original size:40 final size:40
Alignment explanation
Indices: 34571560--34571784 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
34571550 CTTGCGCAAG
* * *
34571560 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
34571600 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
34571640 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* **
34571680 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCATGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
34571720 GCCTTCGGATCTTAGTCCGGTTGTAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
34571761 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34571785 CATTCGAATA
Statistics
Matches: 155, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.82
41 27 0.17
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34595267 original size:28 final size:28
Alignment explanation
Indices: 34595234--34595292 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34595224 CCATAGGAAT
34595234 GGTATCGGATACGAATGTCATGACATTA
1 GGTATCGGATACGAATGTCATGACATTA
34595262 GGTATCGGATACGAATGTCATGACATTA
1 GGTATCGGATACGAATGTCATGACATTA
34595290 GGT
1 GGT
34595293 TGTCAAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
GGTATCGGATACGAATGTCATGACATTA
Found at i:34596110 original size:31 final size:31
Alignment explanation
Indices: 34596072--34596150 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
34596062 TTTAATGGTT
34596072 ACTAGGCCGAAGCCTTTTCATAAATCATACC
1 ACTAGGCCGAAGCCTTTTCATAAATCATACC
*
34596103 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATACC
* *
34596134 ACTGGGCTGAAGCCTTT
1 ACTAGGCCGAAGCCTTT
34596151 ATTGTAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAATCATACC
Found at i:34596221 original size:42 final size:42
Alignment explanation
Indices: 34596174--34596265 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
34596164 TGGGCCACAG
* ** *
34596174 GCCCATTTCAATATCATATGTAATGTCAATGGATGTATGAAA
1 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGAAA
*
34596216 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGAAA
34596258 GCCCATTT
1 GCCCATTT
34596266 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCATATGAAATACCAATGAATGTATGAAA
Found at i:34596488 original size:26 final size:26
Alignment explanation
Indices: 34596398--34596533 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
34596388 CTGAAGGCCT
34596398 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
34596422 AGCCCTTTTCGGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
34596447 ATCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* **
34596473 AGCCATTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
34596499 AGCCCTTTTCAATAGACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
34596525 AGCCCTTTT
1 AGCCCTTTT
34596534 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.32
26 54 0.57
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:34596524 original size:52 final size:50
Alignment explanation
Indices: 34596398--34596533 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 50
34596388 CTGAAGGCCT
*
34596398 AGCCTCTTTT-AATAACTGGGGCA-AAGCCCTTTTCGGTAAATTGGGGCAA
1 AGCC-CTTTTCAATAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
* *
34596447 ATCCCTTTTCAATAAACTGGGGCATAAGCCATTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAAT-AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
34596499 AGCCCTTTTCAATAGACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATA-ACTGGGGCATAAGCCCTTTT
34596534 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
48 5 0.06
49 6 0.08
50 10 0.13
51 24 0.31
52 32 0.42
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTCAATAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:34596608 original size:20 final size:20
Alignment explanation
Indices: 34596583--34596669 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
34596573 TTATGAATAC
34596583 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
34596603 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
34596623 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
34596643 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
34596663 ATCATGT
1 ATCATGT
34596670 CTATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:34596676 original size:18 final size:20
Alignment explanation
Indices: 34596583--34596679 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
34596573 TTATGAATAC
*
34596583 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
*
34596602 TATCATGTGCATTTCATA-CA
1 -ATCATGTGCATATCATATCA
* *
34596622 TATCATGTGCATTTTATA-CA
1 -ATCATGTGCATATCATATCA
34596642 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
34596663 ATCATGT-C-TATCATATC
1 ATCATGTGCATATCATATC
34596680 CCACGTATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
18 9 0.12
19 1 0.01
20 61 0.84
21 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:34597030 original size:17 final size:17
Alignment explanation
Indices: 34597008--34597043 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
34596998 TCAATTTTAC
34597008 CCAAATGGGTCCGAAAG
1 CCAAATGGGTCCGAAAG
34597025 CCAAATGGGTCCGAAAG
1 CCAAATGGGTCCGAAAG
34597042 CC
1 CC
34597044 CATTAGGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (17 bp):
CCAAATGGGTCCGAAAG
Found at i:34597074 original size:21 final size:22
Alignment explanation
Indices: 34597042--34597085 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
34597032 GGTCCGAAAG
34597042 CCCATTAGGCCCAA-TT-CCAT
1 CCCATTAGGCCCAACTTACCAT
34597062 CCCATTGAGGCCCAACTTACCAT
1 CCCATT-AGGCCCAACTTACCAT
34597085 C
1 C
34597086 GTGCACGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 8 0.38
22 2 0.10
23 5 0.24
ACGTcount: A:0.25, C:0.41, G:0.11, T:0.23
Consensus pattern (22 bp):
CCCATTAGGCCCAACTTACCAT
Found at i:34597455 original size:27 final size:27
Alignment explanation
Indices: 34597378--34597480 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
34597368 TCATACGGAA
34597378 CATA-AGGGCGTATT-CA-TCATTTTAC
1 CATACAGGG-GTATTACAGTCATTTTAC
*
34597403 CATACAGGGGTATTACAGTCACTTTAC
1 CATACAGGGGTATTACAGTCATTTTAC
* * *
34597430 CCTACAGGGGCT-TTACGGTCTTTTTAC
1 CATACAGGGG-TATTACAGTCATTTTAC
* **
34597457 C-TATTAGGGGTATTTTAGTCATTT
1 CATA-CAGGGGTATTACAGTCATTT
34597481 CATCGTACAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
25 9 0.15
26 9 0.15
27 43 0.69
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (27 bp):
CATACAGGGGTATTACAGTCATTTTAC
Found at i:34597541 original size:27 final size:27
Alignment explanation
Indices: 34597511--34597766 Score: 160
Period size: 27 Copynumber: 9.4 Consensus size: 27
34597501 GTAAATCTAC
* *
34597511 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * ** *
34597538 AAACCAATGGTATTTCTATAATTTTTAG
1 AAACTAAGGGTATTTCGGTAA-TTTTAT
* *
34597566 AAAGTCAAGGGTATTTCTGTAATTTTAT
1 AAACT-AAGGGTATTTCGGTAATTTTAT
* * *
34597594 AAA-TCAGGGGTATTTTGGTAATTTTAC
1 AAACT-AAGGGTATTTCGGTAATTTTAT
* * *
34597621 AAATTGAGGGTATTTCGGTAA-TTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * *
34597647 AAAC-CAGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTCGGTAATTTTAT
* * *
34597674 AAACTAGGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAT
* ** *
34597701 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAT
*** * *
34597728 AAA-TCAAGGGTAAAACGGTAATTCTGT
1 AAACT-AAGGGTATTTCGGTAATTTTAT
*
34597755 AAATTAAGGGTA
1 AAACTAAGGGTA
34597767 AAATGGTAAT
Statistics
Matches: 186, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 20 0.11
27 132 0.71
28 18 0.10
29 14 0.08
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACTAAGGGTATTTCGGTAATTTTAT
Found at i:34597711 original size:80 final size:80
Alignment explanation
Indices: 34597488--34597724 Score: 230
Period size: 80 Copynumber: 2.9 Consensus size: 80
34597478 TTTCATCGTA
* * * * ** *
34597488 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
*
34597553 CTA-TAATTTTTAGAAAG
66 C-AGTAA--TTTACAAAG
* ** ***
34597570 TCAAGGGTATTTCT-GTAATTTTATAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
1 -CAAGGGTATTT-TGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTGTAAACCAAGGGTA
*
34597633 TTTCGGTAATTTACAAA-
63 TTTCAGTAATTTACAAAG
*
34597650 CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 CAAG-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
*
34597715 TTAGTAATTT
65 TCAGTAATTT
34597725 TGTAAATCAA
Statistics
Matches: 124, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
79 4 0.03
80 58 0.47
81 8 0.06
82 1 0.01
83 52 0.42
84 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (80 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
CAGTAATTTACAAAG
Found at i:34597739 original size:54 final size:54
Alignment explanation
Indices: 34597488--34597739 Score: 226
Period size: 54 Copynumber: 4.6 Consensus size: 54
34597478 TTTCATCGTA
* * * * * *
34597488 CAAGGGTGTTTTGGTAAATCTACAAA-CTAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATC-AAGGGTATTTCGGTAATTTTATAAAC
* * * *
34597542 CAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTATAAAT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTATAAAC
* * ** *
34597598 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTATAAAC
* * * *
34597651 C-AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAATC-AAGGGTATTTCGGTAATTTTATAAAC
**
34597705 CAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTA
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTA
34597740 AAACGGTAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 43 0.27
54 60 0.38
55 19 0.12
56 35 0.22
57 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTATAAAC
Found at i:34597872 original size:27 final size:27
Alignment explanation
Indices: 34597689--34597874 Score: 219
Period size: 27 Copynumber: 6.9 Consensus size: 27
34597679 AGGGGTATTT
* * ***
34597689 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
34597716 TAGTAATTTTGTAAATCAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
34597743 CGGTAATTCTGTAAATTAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
**
34597770 TGGTAATTCTGTAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* * *
34597797 TGGCAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
*
34597824 TGGTAATTCTGTAAATTAAGGGTAAAA
1 TGGTAATTCTGTAAATCAAGGGTAAAA
* *
34597851 CGGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTGTAAATCAAGGGTA
34597875 CTTTGGCAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCAAGGGTAAAA
Found at i:34597882 original size:81 final size:81
Alignment explanation
Indices: 34597690--34597885 Score: 257
Period size: 81 Copynumber: 2.4 Consensus size: 81
34597680 GGGGTATTTT
* * * * * * * *
34597690 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAACGGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGCAATTCTATAAATCAAGGGTAAAACGGTAATTCTGT
*
34597755 AAATTAAGGGTAAAAT
66 AAATTAAGGGTAAAAC
* ** * *
34597771 GGTAATTCTGTAAATTGAGGGTAAAATGGCAATTCTATAAATCGAGGGTAAAATGGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGCAATTCTATAAATCAAGGGTAAAACGGTAATTCTGT
34597836 AAATTAAGGGTAAAAC
66 AAATTAAGGGTAAAAC
*
34597852 GGTAATTCTGTAAATCGAGGGTACTTTGGCAATT
1 GGTAATTCTGTAAATCGAGGGTAATTTGGCAATT
34597886 TTACAAATTG
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTAATTTGGCAATTCTATAAATCAAGGGTAAAACGGTAATTCTGT
AAATTAAGGGTAAAAC
Found at i:34597894 original size:54 final size:54
Alignment explanation
Indices: 34597584--34597894 Score: 212
Period size: 54 Copynumber: 5.8 Consensus size: 54
34597574 GGGTATTTCT
* * * ***
34597584 GTAATTTTATAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
1 GTAATTCTATAAATCAAGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAACG
* * * * ****
34597638 GTAATT-TACAAA-CCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTCTATAAATCAAG-GGTATTTTGGTAATTTTACAAATTAAGGGTAAAACG
* * * * ** *
34597691 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCAAGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAACG
* * *** * ** * *
34597745 GTAATTCTGTAAATTAAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAACG
* * *** * **
34597799 GCAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTAAGGGTAAAACG
1 GTAATTCTATAAATCAAGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAACG
* * * *
34597853 GTAATTCTGTAAATCGAGGGTACTTTGGCAATTTTACAAATT
1 GTAATTCTATAAATCAAGGGTATTTTGGTAATTTTACAAATT
34597895 GAGGACATTT
Statistics
Matches: 208, Mismatches: 46, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
52 2 0.01
53 43 0.21
54 160 0.77
55 3 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.36
Consensus pattern (54 bp):
GTAATTCTATAAATCAAGGGTATTTTGGTAATTTTACAAATTAAGGGTAAAACG
Found at i:34597919 original size:81 final size:81
Alignment explanation
Indices: 34597745--34597901 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
34597735 GGGTAAAACG
* * *
34597745 GTAATTCTGTAAATTAAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAATGGCAATTCTATA
1 GTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGCAATTCTACA
** *
34597810 AATCGAGGGTAAAATG
66 AATCGAGGACAAAATA
*** *
34597826 GTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTACTTTGGCAATTTTACA
1 GTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGCAATTCTACA
*
34597891 AATTGAGGACA
66 AATCGAGGACA
34597902 TTTTAGTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTCTGTAAATTAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGCAATTCTACA
AATCGAGGACAAAATA
Found at i:34605262 original size:28 final size:28
Alignment explanation
Indices: 34605192--34605267 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
34605182 TGAATGTGAT
34605192 TTGGGCCTAGTGGGCCATAAGAAAATGGA
1 TTGGGCCTAGTGGGCCATAAGAAAA-GGA
* * **
34605221 CTAGGCC-AGATGGGCCATTTGAATAA-GA
1 TTGGGCCTAG-TGGGCCATAAGAA-AAGGA
34605249 TTGGGCCTAGTGGGCCATA
1 TTGGGCCTAGTGGGCCATA
34605268 TGCATGTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
28 17 0.46
29 18 0.49
30 2 0.05
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (28 bp):
TTGGGCCTAGTGGGCCATAAGAAAAGGA
Found at i:34609713 original size:29 final size:29
Alignment explanation
Indices: 34609672--34609786 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
34609662 AGCATGAATA
*
34609672 TAATATGATTTGGGCCTAATGGGCCATAT
1 TAATATGAATTGGGCCTAATGGGCCATAT
* * *
34609701 TAATGTGAATTGGGCCTAGTGGGCCATAA
1 TAATATGAATTGGGCCTAATGGGCCATAT
* * *
34609730 GAATATGAACTGGG-TTAGATGGGCCAT-T
1 TAATATGAATTGGGCCTA-ATGGGCCATAT
* *
34609758 TGAATAAG-ATTGGGCCTAGTGGGCCATAT
1 T-AATATGAATTGGGCCTAATGGGCCATAT
34609787 GCATGTATGT
Statistics
Matches: 67, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
28 15 0.22
29 52 0.78
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
TAATATGAATTGGGCCTAATGGGCCATAT
Found at i:34610988 original size:16 final size:16
Alignment explanation
Indices: 34610964--34611000 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34610954 GTAGCCAAAC
*
34610964 TTTCGGCTTTTCAGCA
1 TTTCAGCTTTTCAGCA
*
34610980 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCAGCA
34610996 TTTCA
1 TTTCA
34611001 AGATTTGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (16 bp):
TTTCAGCTTTTCAGCA
Found at i:34620656 original size:46 final size:46
Alignment explanation
Indices: 34620474--34620646 Score: 274
Period size: 46 Copynumber: 3.8 Consensus size: 46
34620464 ATATATAACA
* * * * *
34620474 CATCTCATACATATCTCACATTAGCCACTCGTCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
34620520 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
* *
34620566 CATCTCATACACGTTTCGCATTAGCCATTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
34620612 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
34620647 CGCCACATAT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:34620701 original size:47 final size:47
Alignment explanation
Indices: 34620650--34620769 Score: 161
Period size: 47 Copynumber: 2.6 Consensus size: 47
34620640 TCGGCTTCGC
* *
34620650 CACATATATACACT-TCCACGTTCATCACATTGGCCATTCTACCTTAT
1 CACATATATACA-TGTCCACATTCATCACATTGGCCATTCGACCTTAT
* * *
34620697 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTCCACATTCATCACATTGGCCATTCGACCTTAT
* *
34620744 CACATATATGCATGTTCACATTCATC
1 CACATATATACATGTCCACATTCATC
34620770 TCATAAAATC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 66 0.99
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CACATATATACATGTCCACATTCATCACATTGGCCATTCGACCTTAT
Found at i:34636870 original size:10 final size:10
Alignment explanation
Indices: 34636855--34636885 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
34636845 AGTTCTATTC
34636855 CAGCTCAATT
1 CAGCTCAATT
34636865 CAGCTCAATT
1 CAGCTCAATT
*
34636875 CAGCTCGATT
1 CAGCTCAATT
34636885 C
1 C
34636886 TAACTCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:34642486 original size:40 final size:40
Alignment explanation
Indices: 34642442--34642706 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
34642432 GCTCCTCGTT
*
34642442 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34642482 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACACGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
34642522 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
34642562 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
34642602 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
34642641 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34642682 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34642707 CATCATTCAA
Statistics
Matches: 199, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 31 0.16
40 153 0.77
41 13 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34650551 original size:40 final size:40
Alignment explanation
Indices: 34650507--34650771 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
34650497 GCTCCTCGTT
* *
34650507 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
34650547 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34650587 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
34650627 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
34650667 CCAATGCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
34650706 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34650747 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34650772 CATCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 31 0.16
40 154 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34650763 original size:119 final size:121
Alignment explanation
Indices: 34650507--34650771 Score: 351
Period size: 119 Copynumber: 2.2 Consensus size: 121
34650497 GCTCCTCGTT
*
34650507 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
34650571 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* * * *
34650627 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTATCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* ** * *
34650690 GAATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
34650747 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34650772 CATCATTCAA
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
118 3 0.02
119 66 0.52
120 55 0.44
121 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:34659539 original size:28 final size:29
Alignment explanation
Indices: 34659480--34659539 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
34659470 TTCACTTTTA
* *
34659480 TTTCTCAATTTAACCCCTTAATTTACACT
1 TTTCTCAAATTAACCCCTTAATTGACACT
*
34659509 TTTCTCAAATT-ACTCCC-TAATTGACATT
1 TTTCTCAAATTAAC-CCCTTAATTGACACT
34659537 TTT
1 TTT
34659540 GTAAAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTCTCAAATTAACCCCTTAATTGACACT
Found at i:34666573 original size:49 final size:49
Alignment explanation
Indices: 34666498--34666685 Score: 216
Period size: 49 Copynumber: 3.8 Consensus size: 49
34666488 TAGCCGAAGC
* *
34666498 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
* * * * *
34666547 AATCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACGTGATCACAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGA-C-CAAT
* * * * * *
34666598 TTTCGGGTACGCATACTAGCTTGCACTTAGTACTACACATAAGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
*
34666647 TATCCT-GTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TAT-CTGGTACACATAGTAGCCTGCACTTAGTACTACACA
34666686 CGTGACCTCA
Statistics
Matches: 113, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 73 0.65
50 3 0.03
51 37 0.33
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGAGACCAAT
Found at i:34666626 original size:100 final size:100
Alignment explanation
Indices: 34666503--34666690 Score: 306
Period size: 100 Copynumber: 1.9 Consensus size: 100
34666493 GAAGCTATCT
* **
34666503 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAAT-CTGGTACACGTAGTAGC
1 GGTACGCATACTAGCCTGCACTTAGTACTACACATAAGACCAATAATCCT-GTACACGTAGTAGC
34666567 CCGCACTTAGTACTACACACGTGATCACAATTTTCG
65 CCGCACTTAGTACTACACACGTGATCACAATTTTCG
* *
34666603 GGTACGCATACTAGCTTGCACTTAGTACTACACATAAGACCAATTATCCTGTACACGTAGTAGCC
1 GGTACGCATACTAGCCTGCACTTAGTACTACACATAAGACCAATAATCCTGTACACGTAGTAGCC
*
34666668 TGCACTTAGTACTACACACGTGA
66 CGCACTTAGTACTACACACGTGA
34666691 CCTCACCATA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 79 0.98
101 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
GGTACGCATACTAGCCTGCACTTAGTACTACACATAAGACCAATAATCCTGTACACGTAGTAGCC
CGCACTTAGTACTACACACGTGATCACAATTTTCG
Found at i:34683286 original size:40 final size:40
Alignment explanation
Indices: 34683231--34683748 Score: 894
Period size: 40 Copynumber: 12.9 Consensus size: 40
34683221 TATGTGTGCA
34683231 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
34683271 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
34683311 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
34683351 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
34683391 TGTGCGAATTGATATATTCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
34683431 TGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
34683471 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
34683511 TGTGCGATTTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
34683551 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
34683591 TGTGCGAACTGATATATCCGGGCTAAGACCCGACGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
34683631 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
34683671 TGTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
34683711 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
34683749 ATTAAGCTTG
Statistics
Matches: 455, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 452 0.99
41 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:34691058 original size:40 final size:40
Alignment explanation
Indices: 34691013--34691537 Score: 899
Period size: 40 Copynumber: 13.1 Consensus size: 40
34691003 GAATGATATT
34691013 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
34691053 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
* *
34691093 GGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATTC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
34691133 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
* *
34691173 GGGCTAAAACCCGAAGGCATTTGTGCAAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
*
34691213 GGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
*
34691253 GGGCTAAGACCTGAAGGCATTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
*
34691293 GGGCTAAGACCTGAAGGCATTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
*
34691333 GGGCTAAGACCCGAAGGCATTTGTGCGATTTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
* *
34691373 GGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCT
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
* *
34691413 GGGATAAGACCCGAAGGCATTTGTGCGAACTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
* *
34691453 GGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
*
34691493 GGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGATATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGATATATCC
34691533 GGGCT
1 GGGCT
34691538 CGTGCGAGTT
Statistics
Matches: 459, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
39 2 0.00
40 457 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCC
Found at i:34691594 original size:64 final size:64
Alignment explanation
Indices: 34691475--34691598 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
34691465 GACGGCGTTT
* * *
34691475 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTC
1 GTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTC
* * * ** *
34691539 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGG
1 GTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGG
34691599 CTAAATTCCG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (64 bp):
GTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCAATTGAGCAAGTGGATATATCCGGGCTC
Found at i:34700814 original size:55 final size:55
Alignment explanation
Indices: 34700682--34700819 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 55
34700672 GGCTGTGGAG
* *
34700682 GAAACTGTCAAAACAACACGGGCGTGCGACACGCCCATGTCTAAAAACCGTGGTT
1 GAAACTGTCAAAACAACACGGGCGTGTGACACGCCCATGTCTAAAAACCGTGGTC
** ** * ** *
34700737 GAAACTGAGAAATTAACACGGGCGTGTGACATGCCCATG-CTCACTATCCGTGGTC
1 GAAACTGTCAAAACAACACGGGCGTGTGACACGCCCATGTCT-AAAAACCGTGGTC
* *
34700792 GAGACTGTCAAAACAACGCGGGCGTGTG
1 GAAACTGTCAAAACAACACGGGCGTGTG
34700820 CATACATACA
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
54 2 0.03
55 64 0.97
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (55 bp):
GAAACTGTCAAAACAACACGGGCGTGTGACACGCCCATGTCTAAAAACCGTGGTC
Found at i:34705363 original size:13 final size:13
Alignment explanation
Indices: 34705330--34705363 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
34705320 AATATTTGAT
*
34705330 TTGTTCTTAATTA
1 TTGTTTTTAATTA
34705343 TGTGTTTTTAATTA
1 T-TGTTTTTAATTA
34705357 TTGTTTT
1 TTGTTTT
34705364 AATATTCCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.03, G:0.12, T:0.68
Consensus pattern (13 bp):
TTGTTTTTAATTA
Found at i:34719044 original size:10 final size:10
Alignment explanation
Indices: 34719029--34719058 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
34719019 CTCTATTCTC
34719029 TTGTTATTTA
1 TTGTTATTTA
34719039 TTGTTATTTA
1 TTGTTATTTA
34719049 TTGTTTATTT
1 TTG-TTATTT
34719059 GAATGTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (10 bp):
TTGTTATTTA
Found at i:34720642 original size:14 final size:13
Alignment explanation
Indices: 34720606--34720644 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
34720596 TGTTTAAGAC
34720606 TTTTATTTTTATT
1 TTTTATTTTTATT
*
34720619 TATTATTTTTATGT
1 TTTTATTTTTAT-T
*
34720633 TTTTACTTTTAT
1 TTTTATTTTTAT
34720645 CCTTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:34735607 original size:190 final size:190
Alignment explanation
Indices: 34735384--34735765 Score: 728
Period size: 190 Copynumber: 2.0 Consensus size: 190
34735374 TTAAGTTTTG
* *
34735384 GTATGGTTTGAATGAGTTGTTGAATGATGATGAAATAGTTTTAATGAAGCATGTTTTGAGCATGA
1 GTATGGTTTGAATAAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
* *
34735449 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGTCTTGTAGGAATGACCCATAAAGGGGTG
66 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCTTGTAAGAATGACCCATAAAGGGGTG
34735514 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCATGTTT
131 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCATGTTT
34735574 GTATGGTTTGAATAAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
1 GTATGGTTTGAATAAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
34735639 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCTTGTAAGAATGACCCATAAAGGGGTG
66 ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCTTGTAAGAATGACCCATAAAGGGGTG
34735704 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCATGTTT
131 GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCATGTTT
34735764 GT
1 GT
34735766 TGGCCGCGGG
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (190 bp):
GTATGGTTTGAATAAGTTGTTGAATGATGATGAAATAGTTGTAATGAAGCATGTTTTGAGCATGA
ATTGGCTGAATATTTTATATGAATGCTGCTTAATTTGGCTTGTAAGAATGACCCATAAAGGGGTG
GCAAATTAGCTTAAACTAAGCCTGCATTGTGCCACACGGCCATAGCACACGGGCATGTTT
Found at i:34736487 original size:43 final size:43
Alignment explanation
Indices: 34736440--34736555 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
34736430 TAACACATAT
* * * * *
34736440 CGATGCCACTATCCTAGACAGGGTCTTACACGAAATC-GATTAA
1 CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCTCAAT-A
* * *
34736483 CGATGCCAATGTCCCAGACATGTTCTTACACGTAATCTCAATA
1 CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCTCAATA
*
34736526 CAATGCCAATGTCCTAGACATGGTCTTACA
1 CGATGCCAATGTCCTAGACATGGTCTTACA
34736556 TGTAATCACA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCTCAATA
Found at i:34736561 original size:43 final size:42
Alignment explanation
Indices: 34736396--34736562 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 42
34736386 CATAAGCTTG
* *
34736396 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTAA--CACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACG-TAATCCA-A
* * * * * * *
34736437 TATCGATGCCACTATCCTAGACAGGGTCTTACACGAAATCGAT
1 TA-CAATGCCAATATCCCAGACATGGTCTTACACGTAATCCAA
* * *
34736480 TAACGATGCCAATGTCCCAGACATGTTCTTACACGTAATCTCAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACACGTAATC-CAA
* * *
34736524 TACAATGCCAATGTCCTAGACATGGTCTTACATGTAATC
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATC
34736563 ACATCATGAT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 85 0.86
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCCAA
Found at i:34738120 original size:57 final size:58
Alignment explanation
Indices: 34737982--34738129 Score: 144
Period size: 57 Copynumber: 2.6 Consensus size: 58
34737972 TTGACCTTGA
* * * *
34737982 TATATAAAGGATTTAG-CTCGGACGGGTAATCCGAATATAATACCTCTCAAGCATACGT
1 TATATTAAGGATTTAGCCT-GGACTGGTAATCCTAATATAATACCTCTCAAGCATACAT
* * *
34738040 TATGATT-AGGGTTTAGCCTGGACTGGTAATCCTAATCA-AGCT-CCTCT-AAGCTTACAT
1 TAT-ATTAAGGATTTAGCCTGGACTGGTAATCCTAAT-ATA-ATACCTCTCAAGCATACAT
* *
34738097 TATATTAAGGATTTAGCCTGGACTAGTTATCCT
1 TATATTAAGGATTTAGCCTGGACTGGTAATCCT
34738130 GTTATACGAT
Statistics
Matches: 75, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
56 3 0.04
57 34 0.45
58 32 0.43
59 6 0.08
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (58 bp):
TATATTAAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTCAAGCATACAT
Found at i:34751099 original size:33 final size:34
Alignment explanation
Indices: 34751031--34751099 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
34751021 CCTAAGCCCA
* * * *
34751031 TATCAGTAACAGTCTAGGCCTAAGCGCTATTCAG
1 TATCAGTAACAATCTAGGCCTAACCCCTATACAG
*
34751065 TATCAGT-ACAATCTAGGCCTTACCCCTATACAG
1 TATCAGTAACAATCTAGGCCTAACCCCTATACAG
34751098 TA
1 TA
34751100 ATAGTGTGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (34 bp):
TATCAGTAACAATCTAGGCCTAACCCCTATACAG
Found at i:34751618 original size:27 final size:26
Alignment explanation
Indices: 34751579--34751635 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
34751569 CAAAACGGTC
* * *
34751579 ATTTTACCTTACAGGGGTATTTTGTTA
1 ATTTTACCTTACAAGGATA-TTTGATA
34751606 ATTTTACAC-TACAAGGATATTTGATA
1 ATTTTAC-CTTACAAGGATATTTGATA
34751632 ATTT
1 ATTT
34751636 CACAAACTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.38
27 15 0.58
28 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (26 bp):
ATTTTACCTTACAAGGATATTTGATA
Found at i:34755196 original size:33 final size:34
Alignment explanation
Indices: 34755145--34755208 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
34755135 GCCTAAGCCC
34755145 ATATCAGTAACAGTCTGGGCCTGAGCCCTATTCA
1 ATATCAGTAACAGTCTGGGCCTGAGCCCTATTCA
* *
34755179 ATATTAGT-ACAGTCTGGGCCTTAGCCCTAT
1 ATATCAGTAACAGTCTGGGCCTGAGCCCTAT
34755209 AGAGCAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (34 bp):
ATATCAGTAACAGTCTGGGCCTGAGCCCTATTCA
Found at i:34756655 original size:40 final size:40
Alignment explanation
Indices: 34756625--34756810 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
34756615 GCTACTCGTT
* *
34756625 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
34756665 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
34756705 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
34756745 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34756786 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34756811 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34772549 original size:80 final size:79
Alignment explanation
Indices: 34772287--34772589 Score: 376
Period size: 80 Copynumber: 3.8 Consensus size: 79
34772277 TCCTCGTTCA
* * * ** *
34772287 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
34772352 TAACAACTCGCACG
66 TAACAACTCGCACG
*
34772366 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCGCGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
34772431 TTAACAACTCGCACG
65 TTAACAACTCGCACG
34772446 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
** * *
34772511 TTAGTATCTCGCACA
65 TTAACAACTCGCACG
* ** * * * * *
34772526 AAGGCCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCCGG
34772589 A
63 A
34772590 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.17
80 159 0.80
81 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:34772549 original size:120 final size:120
Alignment explanation
Indices: 34772317--34772589 Score: 372
Period size: 120 Copynumber: 2.3 Consensus size: 120
34772307 CGGTTTTAGT
*
34772317 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
* * * *
34772382 AACCCGGATTTAACAACTCGCGCGAATGCCTTCGGGACTTAACCCGGATTTA-AC
66 AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
34772436 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACT
** * ** *
34772501 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTC
65 TAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATAC
* * *
34772557 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
34772590 CAGCATTCAA
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
119 11 0.08
120 119 0.88
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (120 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
AACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC
Found at i:34772550 original size:40 final size:40
Alignment explanation
Indices: 34772287--34772536 Score: 385
Period size: 40 Copynumber: 6.3 Consensus size: 40
34772277 TCCTCGTTCA
* * * ** *
34772287 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34772326 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34772366 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCGCG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34772406 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34772446 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
34772486 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34772526 AAGGCCTTCGG
1 AATGCCTTCGG
34772537 ATCTTAGTCC
Statistics
Matches: 197, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 33 0.17
40 164 0.83
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34772598 original size:41 final size:41
Alignment explanation
Indices: 34772521--34772598 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34772511 TTAGTATCTC
* * *
34772521 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34772562 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34772599 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34780493 original size:120 final size:119
Alignment explanation
Indices: 34780271--34780533 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 119
34780261 TCCTCGTTCA
* * **
34780271 AATGCCTTCGGGAC-AAAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAA-CCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGAT
* * * *
34780335 TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
65 TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
*
34780389 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** * ** *
34780454 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
* *
34780510 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34780534 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
119 34 0.28
120 82 0.67
121 6 0.05
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:34780494 original size:40 final size:40
Alignment explanation
Indices: 34780271--34780480 Score: 307
Period size: 40 Copynumber: 5.3 Consensus size: 40
34780261 TCCTCGTTCA
* * ** *
34780271 AATGCCTTCGGGAC-AAAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAA-CCCGGATTTAACAACTCGCACG
34780310 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34780350 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34780390 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
34780430 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34780470 AAGGCCTTCGG
1 AATGCCTTCGG
34780481 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 31 0.19
40 128 0.81
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34780517 original size:80 final size:80
Alignment explanation
Indices: 34780274--34780533 Score: 260
Period size: 80 Copynumber: 3.3 Consensus size: 80
34780264 TCGTTCAAAT
* * ** * * *
34780274 GCCTTCGGGAC-AAAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAA-CCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATAT
* *
34780337 AACAACTCGCACGAAT
65 AACAACTAGCACGAAA
* * *
34780353 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
34780418 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
34780433 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
34780497 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
34780513 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
34780534 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
79 31 0.19
80 122 0.77
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:34780542 original size:41 final size:41
Alignment explanation
Indices: 34780465--34780542 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34780455 TTAGTATCTC
* * *
34780465 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34780506 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34780543 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34783809 original size:7 final size:7
Alignment explanation
Indices: 34783797--34783991 Score: 390
Period size: 7 Copynumber: 27.9 Consensus size: 7
34783787 TAATAATGCC
34783797 GATAAAT
1 GATAAAT
34783804 GATAAAT
1 GATAAAT
34783811 GATAAAT
1 GATAAAT
34783818 GATAAAT
1 GATAAAT
34783825 GATAAAT
1 GATAAAT
34783832 GATAAAT
1 GATAAAT
34783839 GATAAAT
1 GATAAAT
34783846 GATAAAT
1 GATAAAT
34783853 GATAAAT
1 GATAAAT
34783860 GATAAAT
1 GATAAAT
34783867 GATAAAT
1 GATAAAT
34783874 GATAAAT
1 GATAAAT
34783881 GATAAAT
1 GATAAAT
34783888 GATAAAT
1 GATAAAT
34783895 GATAAAT
1 GATAAAT
34783902 GATAAAT
1 GATAAAT
34783909 GATAAAT
1 GATAAAT
34783916 GATAAAT
1 GATAAAT
34783923 GATAAAT
1 GATAAAT
34783930 GATAAAT
1 GATAAAT
34783937 GATAAAT
1 GATAAAT
34783944 GATAAAT
1 GATAAAT
34783951 GATAAAT
1 GATAAAT
34783958 GATAAAT
1 GATAAAT
34783965 GATAAAT
1 GATAAAT
34783972 GATAAAT
1 GATAAAT
34783979 GATAAAT
1 GATAAAT
34783986 GATAAA
1 GATAAA
34783992 AATGTTACTT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 188 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.28
Consensus pattern (7 bp):
GATAAAT
Found at i:34786079 original size:61 final size:61
Alignment explanation
Indices: 34786004--34786126 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
34785994 CCCCCCGAAA
34786004 AGAGCATCGCCTTTATGTTGGAAAAAAAGTGGGTTAGAAAAACACAAAGAAAAATAAATTT
1 AGAGCATCGCCTTTATGTTGGAAAAAAAGTGGGTTAGAAAAACACAAAGAAAAATAAATTT
*
34786065 AGAGCATCGCCTTTATGTTGGAAAAAAAGTGGGTTAGAAAAACACAGAGAAAAATAAATTT
1 AGAGCATCGCCTTTATGTTGGAAAAAAAGTGGGTTAGAAAAACACAAAGAAAAATAAATTT
34786126 A
1 A
34786127 AGGAAAATAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (61 bp):
AGAGCATCGCCTTTATGTTGGAAAAAAAGTGGGTTAGAAAAACACAAAGAAAAATAAATTT
Found at i:34793062 original size:55 final size:55
Alignment explanation
Indices: 34792975--34793086 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
34792965 TCTTGTTGAG
* *
34792975 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCGACTAAAATCATC
1 TCGCCTTAATTTTATTTGATCGTTCTGACATTGGAATGGCTCAACTAAAATCATC
*
34793030 TCGCCTTAATTTTATTTGATCGTTCTGACATTGGAGTGGCTCAACTAAAATCATC
1 TCGCCTTAATTTTATTTGATCGTTCTGACATTGGAATGGCTCAACTAAAATCATC
34793085 TC
1 TC
34793087 TCGACTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (55 bp):
TCGCCTTAATTTTATTTGATCGTTCTGACATTGGAATGGCTCAACTAAAATCATC
Found at i:34798327 original size:42 final size:42
Alignment explanation
Indices: 34798267--34798373 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
34798257 CGGAAACCTG
* *
34798267 TAAGGGTTAAAC-GAAAGCTCATAGGAACTGAATAGAAACCCA
1 TAAGGGTTAAACTG-AAGCTCATAAGAACTAAATAGAAACCCA
* *** * *
34798309 TAAGGGTTAATCTGAAGCTTGGAAGAGCTAAATTGAAACCCA
1 TAAGGGTTAAACTGAAGCTCATAAGAACTAAATAGAAACCCA
* *
34798351 AAAGGGTTAAACTGAAACTCATA
1 TAAGGGTTAAACTGAAGCTCATA
34798374 TGAGTTGACT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (42 bp):
TAAGGGTTAAACTGAAGCTCATAAGAACTAAATAGAAACCCA
Found at i:34799522 original size:18 final size:18
Alignment explanation
Indices: 34799499--34799535 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34799489 CCTTTTCACT
34799499 TAATTAACTATCAAAATG
1 TAATTAACTATCAAAATG
34799517 TAATTAACTATCAAAATG
1 TAATTAACTATCAAAATG
34799535 T
1 T
34799536 TAAAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (18 bp):
TAATTAACTATCAAAATG
Found at i:34805235 original size:19 final size:19
Alignment explanation
Indices: 34805199--34805235 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34805189 ATTTTGCAAA
* *
34805199 TTAATCAATCTAACAAAAG
1 TTAATAAATCTAAAAAAAG
34805218 TTAATAAATCTAAAAAAA
1 TTAATAAATCTAAAAAAA
34805236 AATTTCACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (19 bp):
TTAATAAATCTAAAAAAAG
Found at i:34806138 original size:22 final size:22
Alignment explanation
Indices: 34806112--34806157 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34806102 TTTTCTCCTT
34806112 CTCTAAACCAAGTATCATTTTC
1 CTCTAAACCAAGTATCATTTTC
34806134 CTCTAAACCAAGTATCATTTTC
1 CTCTAAACCAAGTATCATTTTC
34806156 CT
1 CT
34806158 TAGAAAATCT
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:0.30, C:0.28, G:0.04, T:0.37
Consensus pattern (22 bp):
CTCTAAACCAAGTATCATTTTC
Found at i:34809479 original size:23 final size:24
Alignment explanation
Indices: 34809447--34809494 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34809437 TCTGGGCTAT
*
34809447 ATAATGGGAAA-CTCATGAGAGCC
1 ATAATCGGAAAGCTCATGAGAGCC
**
34809470 ATAATCGGAAAGCTTGTGAGAGCC
1 ATAATCGGAAAGCTCATGAGAGCC
34809494 A
1 A
34809495 ATTACAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (24 bp):
ATAATCGGAAAGCTCATGAGAGCC
Found at i:34809621 original size:26 final size:26
Alignment explanation
Indices: 34809562--34809644 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
34809552 AAGTTCAAGC
**
34809562 GAGCCATT-ATCAGGAAGCTC-CGGA
1 GAGCCATTAATCAGGAAGCTCACAAA
34809586 GAGCCATTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* *
34809612 GAGCCTTTAATTAGGAAGCTCACGAAA
1 GAGCCATTAATCAGGAAGCTCAC-AAA
34809639 -AGCCAT
1 GAGCCAT
34809645 ATAACGGGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
24 8 0.16
25 12 0.24
26 28 0.55
27 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:34821167 original size:47 final size:47
Alignment explanation
Indices: 34821095--34821236 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
34821085 GTTGAATTTA
34821095 AAGCTTGTTAAA-TTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
*
34821141 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
* *
34821188 AAGCTTGTTAAATTTGCCCTTATTATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
34821235 AA
1 AA
34821237 AGAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.13
47 79 0.87
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
Found at i:34822132 original size:43 final size:43
Alignment explanation
Indices: 34822043--34822216 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
34822033 ATATCGCACA
* * *
34822043 ATACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCGA-AATGCCGGTGAG
*
34822088 ATACTATTCGGGCTTTTAGCCTAGCAGGCGAAATGCCGGTGAG
1 ATACTATTCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAG
* * *
34822131 ATACTATTCGGGCTTTCGAGCCTAGCAGGCTGTAATGCCGATGAA
1 ATACTATTCGGGCTTT-GAGCCTAGCAGGC-GAAATGCCGGTGAG
* * *
34822176 ATGA-TA-TCGGGCTTCGAGCCTATCAGGTGAAATGCCGGTGA
1 AT-ACTATTCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGA
34822217 ATGAATTCGG
Statistics
Matches: 113, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
42 11 0.10
43 38 0.34
44 36 0.32
45 27 0.24
46 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
ATACTATTCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAG
Found at i:34822252 original size:42 final size:43
Alignment explanation
Indices: 34822048--34822256 Score: 168
Period size: 43 Copynumber: 4.9 Consensus size: 43
34822038 GCACAATACT
* *
34822048 ATTCGGGCCTTT-GAGCCTAGTAGGCT-ATAATGCCAGTGAGAT-A
1 ATTCGGG-CTTTCGAGCCTAGCAGGCTGA-AATGCCGGTGA-ATGA
*
34822091 CTATTCGGGCTTT-TAGCCTAGCAGGC-GAAATGCCGGTGAGAT-A
1 --ATTCGGGCTTTCGAGCCTAGCAGGCTGAAATGCCGGTGA-ATGA
* *
34822134 CTATTCGGGCTTTCGAGCCTAGCAGGCTGTAATGCCGATGAAATG-
1 --ATTCGGGCTTTCGAGCCTAGCAGGCTGAAATGCCGGTG-AATGA
*
34822179 ATATCGGGC-TTCGAGCCTATCAGG-TGAAATGCCGGTGAATGA
1 AT-TCGGGCTTTCGAGCCTAGCAGGCTGAAATGCCGGTGAATGA
* ** *
34822221 ATTCGGGTTTTTAAACCTAGCAGGCTG-AATGCCGGT
1 ATTCGGGCTTTCGAGCCTAGCAGGCTGAAATGCCGGT
34822257 AATTTGATAA
Statistics
Matches: 141, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
41 9 0.06
42 33 0.23
43 45 0.32
44 34 0.24
45 19 0.13
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
ATTCGGGCTTTCGAGCCTAGCAGGCTGAAATGCCGGTGAATGA
Found at i:34822774 original size:16 final size:18
Alignment explanation
Indices: 34822743--34822775 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
34822733 AACTCGTCAC
34822743 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
34822761 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
34822776 AGCTTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:34824038 original size:13 final size:13
Alignment explanation
Indices: 34824019--34824054 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
34824009 GTGCAGACTT
34824019 CACATGCCCTGGA
1 CACATGCCCTGGA
*
34824032 TACATGCCCTGGA
1 CACATGCCCTGGA
*
34824045 CACACGCCCT
1 CACATGCCCT
34824055 TGTCCCTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.22, C:0.42, G:0.19, T:0.17
Consensus pattern (13 bp):
CACATGCCCTGGA
Found at i:34828627 original size:25 final size:25
Alignment explanation
Indices: 34828599--34828708 Score: 91
Period size: 25 Copynumber: 4.4 Consensus size: 25
34828589 ACACTCTCTC
34828599 GAGCCATATAACGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAT
* * * **
34828624 GAGCCATGTAACGGGGAGCTTATCC
1 GAGCCATATAACGGGAAGCTCATAT
* *
34828649 GGGCTATATAACGGGAAGCTCATGA-
1 GAGCCATATAACGGGAAGCTCAT-AT
* * *
34828674 GAGCCATA-ATCGGGAAGGCTCGTGT
1 GAGCCATATAACGGGAA-GCTCATAT
34828699 GAGCCA-ATAA
1 GAGCCATATAA
34828709 TAGGTAGCTC
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
24 8 0.12
25 56 0.88
ACGTcount: A:0.31, C:0.20, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAT
Found at i:34828823 original size:25 final size:26
Alignment explanation
Indices: 34828773--34828853 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
34828763 AGTTCAAGCA
* * *
34828773 AGCCATT-ATCAGGAAACTC-TAGAG
1 AGCCATTAATCAGGAAGCTCACAAAG
*
34828797 AGCCATTAATCAGGAAG-TTACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* **
34828822 AGCCTTTAATTGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
34828848 AGCCAT
1 AGCCAT
34828854 ATAACGGGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
24 8 0.18
25 25 0.56
26 12 0.27
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:34828862 original size:26 final size:25
Alignment explanation
Indices: 34828795--34828862 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
34828785 GAAACTCTAG
* *
34828795 AGAGCCATTAATCAGGAAGTTACAA
1 AGAGCCATTAATCGGGAAGTCACAA
* *
34828820 AGAGCCTTTAATTGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAG-TCACAA
34828846 AGAGCCATATAA-CGGGA
1 AGAGCCAT-TAATCGGGA
34828863 CACTCATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 16 0.46
26 16 0.46
27 3 0.09
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCGGGAAGTCACAA
Found at i:34833023 original size:25 final size:25
Alignment explanation
Indices: 34832989--34833040 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34832979 AATATTTTTA
34832989 TTGATCAATAAAATACATAATTCTC
1 TTGATCAATAAAATACATAATTCTC
34833014 TTGATCAATAAAATACATAATTCTC
1 TTGATCAATAAAATACATAATTCTC
34833039 TT
1 TT
34833041 TTACTATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (25 bp):
TTGATCAATAAAATACATAATTCTC
Found at i:34833073 original size:20 final size:21
Alignment explanation
Indices: 34833045--34833087 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
34833035 TCTCTTTTAC
*
34833045 TATTCTATTTCTTA-TTATTT
1 TATTCTATTTATTATTTATTT
*
34833065 TATTTTATTTATTATTTATTT
1 TATTCTATTTATTATTTATTT
34833086 TA
1 TA
34833088 ATAACATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTCTATTTATTATTTATTT
Found at i:34833076 original size:17 final size:16
Alignment explanation
Indices: 34833056--34833087 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
34833046 ATTCTATTTC
34833056 TTATTATTTTATTTTAT
1 TTATTA-TTTATTTTAT
34833073 TTATTATTTATTTTA
1 TTATTATTTATTTTA
34833088 ATAACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTATTTATTTTAT
Found at i:34833422 original size:18 final size:19
Alignment explanation
Indices: 34833389--34833424 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34833379 TTAAGAATTT
34833389 TTTTATTTAATATTTAATA
1 TTTTATTTAATATTTAATA
*
34833408 TTTTA-TTAATTTTTAAT
1 TTTTATTTAATATTTAAT
34833425 TAATTAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTTAATATTTAATA
Found at i:34835728 original size:20 final size:20
Alignment explanation
Indices: 34835677--34835728 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
34835667 ATAAGAATTT
34835677 ACATGAATATTTATTAAAGA
1 ACATGAATATTTATTAAAGA
* *
34835697 GCATAAATATTTATTAAAGA
1 ACATGAATATTTATTAAAGA
* *
34835717 ACTTGAAGATTT
1 ACATGAATATTT
34835729 TTCATTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (20 bp):
ACATGAATATTTATTAAAGA
Found at i:34846781 original size:58 final size:58
Alignment explanation
Indices: 34846711--34846826 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
34846701 TAAACATGGC
*
34846711 AACCACATATCAACAAGGTGAGTATCAACATATATTGCAT-CTTATAATAAATCAAGCA
1 AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTT-TAATAAATCAAGCA
*
34846769 AACCACATATCAATAAGGTGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
1 AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
34846827 TATAACACTC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 52 0.95
59 3 0.05
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (58 bp):
AACCACATATCAACAAGGTGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
Found at i:34850346 original size:42 final size:42
Alignment explanation
Indices: 34850287--34850492 Score: 220
Period size: 42 Copynumber: 4.9 Consensus size: 42
34850277 TTAGGGTTAC
* *
34850287 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGTATCAATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
34850329 TGAGACTTCGTATAAGACTATATTTAGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
34850371 TGAGACTTTGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
34850413 TGAGACTTCGTGTAAGAACATAGCTGGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * * *
34850456 CT-AGA-TTACATGTAATACGATATCTAGGATATGGCAT
1 -TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCAT
34850493 TGGTACGGTA
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 105 0.76
43 32 0.23
44 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:34850488 original size:85 final size:85
Alignment explanation
Indices: 34850284--34850492 Score: 246
Period size: 84 Copynumber: 2.5 Consensus size: 85
34850274 ACATTAGGGT
*
34850284 TACTGAGATTACGTGTAAGACCATATCTGGGATATGGTATCAATATGAGACTTCGTATAAGACTA
1 TACTGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGTATAAGACTA
**
34850349 TATTTAGGATATGGCATCGA
66 TAGCTAGGATATGGCATCGA
* * * *
34850369 TA-TGAGACTT-TGTGTAAGACCATATTTGGGATATGGCATCGATATGAGACTTCGTGTAAGAAC
1 TACTGAGA-TTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGTATAAG-AC
* *
34850432 -ATAGCTGGGCTATTGGCATCGA
64 TATAGCTAGGATA-TGGCATCGA
* * * *
34850454 TACT-AGATTACATGTAATACGATATCTAGGATATGGCAT
1 TACTGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
34850493 TGGTACGGTA
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
84 60 0.58
85 43 0.41
86 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (85 bp):
TACTGAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTCGTATAAGACTA
TAGCTAGGATATGGCATCGA
Found at i:34850587 original size:12 final size:12
Alignment explanation
Indices: 34850557--34850581 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34850547 TTTAACGTGA
34850557 AATTCAACGGGT
1 AATTCAACGGGT
34850569 AATTCAACGGGT
1 AATTCAACGGGT
34850581 A
1 A
34850582 TGTCAAAGAA
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
AATTCAACGGGT
Found at i:34855152 original size:47 final size:47
Alignment explanation
Indices: 34855052--34855294 Score: 326
Period size: 47 Copynumber: 5.1 Consensus size: 47
34855042 TTTAGGATTT
*
34855052 AATGTGATGAATGTGAACATGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATG----CATATGTGTGATAAGGCCGAATGGCC
* * *
34855103 AATGTGATGAATGTGAACATGCGTATGTGTGACAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
*
34855150 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* *
34855197 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* * * * *
34855244 AATGTGATGAACGTGGAA-GTGTATATGTGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCC
34855291 AATG
1 AATG
34855295 CGAAACGTGT
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
47 151 0.86
48 3 0.02
51 21 0.12
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
Found at i:34855334 original size:46 final size:46
Alignment explanation
Indices: 34855271--34855358 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
34855261 AGTGTATATG
* * *
34855271 TGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATA
1 TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGGATA
* * *
34855317 TGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
34855359 TGTATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.32, C:0.09, G:0.33, T:0.26
Consensus pattern (46 bp):
TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGGATA
Found at i:34858885 original size:34 final size:34
Alignment explanation
Indices: 34858824--34858977 Score: 157
Period size: 34 Copynumber: 4.5 Consensus size: 34
34858814 TTTTTACTTG
* * *
34858824 TTATAATGTTGTCCAAATCTGGTTGTTTTGCATA
1 TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
* *
34858858 TTATAATGCTATCAAAATGTGGCTGTTTTGCATA
1 TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
* ** * *
34858892 TTAAAATGCTGTCCAAATACGGTTGTTTTGCATG
1 TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
* *
34858926 TTATAATGATGTCCAAATGTGGCT-TTTATGCATG
1 TTATAATGCTGTCCAAATGTGGCTGTTT-TGCATA
* * *
34858960 TTACAATGATGACCAAAT
1 TTATAATGCTGTCCAAAT
34858978 ATGTTTACAA
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
33 3 0.03
34 97 0.97
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (34 bp):
TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
Found at i:34858944 original size:68 final size:69
Alignment explanation
Indices: 34858828--34858978 Score: 191
Period size: 68 Copynumber: 2.2 Consensus size: 69
34858818 TACTTGTTAT
* *
34858828 AATGTTGTCCAAAT-CTGGTTGTTTTGCATATTATAATGCTATCAAAATGTGGCTGTTT-TGCAT
1 AATGATGTCCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCT-TTTATGCAT
34858891 ATTAA
65 ATTAA
* * * * *
34858896 AATGCTGTCCAAATAC-GGTTGTTTTGCATGTTATAATGATGTCCAAATGTGGCTTTTATGCATG
1 AATGATGTCCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTTTTATGCATA
*
34858960 TTAC
66 TTAA
*
34858964 AATGATGACCAAATA
1 AATGATGTCCAAATA
34858979 TGTTTACAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
67 3 0.04
68 68 0.94
69 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (69 bp):
AATGATGTCCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTTTTATGCATA
TTAA
Found at i:34859048 original size:36 final size:36
Alignment explanation
Indices: 34859001--34859082 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
34858991 TTTCTTCTTG
* *
34859001 ATGTTCGAATGAGATTGAATTTAATTGTGTTAATGC
1 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
34859037 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
1 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
34859073 ATGTTCAAAT
1 ATGTTCAAAT
34859083 ATAGTTATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (36 bp):
ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
Found at i:34860650 original size:37 final size:37
Alignment explanation
Indices: 34860607--34860701 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 37
34860597 TTTTAGGAGT
* ** **
34860607 TGCGATCTTAAATTAGCTAACTCAATGAAATTTAGGC
1 TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
* * *
34860644 TGCGATCTTAAATCAACTAACTTAAAAAAAAATAGGT
1 TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
*
34860681 TGCAATCTTAAATCAGCTAAC
1 TGCGATCTTAAATCAGCTAAC
34860702 CTTTATAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (37 bp):
TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
Found at i:34862214 original size:26 final size:26
Alignment explanation
Indices: 34862178--34862231 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
34862168 TAATAAAGCC
34862178 TATGCAACACCTTCAAACTCACAAGT
1 TATGCAACACCTTCAAACTCACAAGT
*
34862204 TATGCAACACCTTTAAACTCACAAGT
1 TATGCAACACCTTCAAACTCACAAGT
34862230 TA
1 TA
34862232 GCATACTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (26 bp):
TATGCAACACCTTCAAACTCACAAGT
Found at i:34866297 original size:5 final size:5
Alignment explanation
Indices: 34866287--34866318 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
34866277 TAATAAAAAG
*
34866287 ATAAA ATAAA ATAAA ATAAA ATAAG ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
34866319 GGCACTTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:34867518 original size:41 final size:41
Alignment explanation
Indices: 34867473--34867555 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
34867463 AGGGCTAATA
34867473 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
1 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
*
34867514 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCGATGGTC
1 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
34867555 A
1 A
34867556 CATGAATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (41 bp):
ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
Found at i:34877987 original size:21 final size:21
Alignment explanation
Indices: 34877948--34877987 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34877938 AATGCTTGAT
* *
34877948 ATTTTGAATGATTGTTGATGA
1 ATTTTGAAAGATTGATGATGA
*
34877969 ATTTTGAAAGCTTGATGAT
1 ATTTTGAAAGATTGATGAT
34877988 AGATATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTTTGAAAGATTGATGATGA
Found at i:34878659 original size:43 final size:42
Alignment explanation
Indices: 34878573--34878722 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 42
34878563 GATTACATGA
* * * *
34878573 AAGACCATGTCTGGGACATTAGCATTG-CATTGAGATTAT-GTGT
1 AAGACCATATCTGGGACATTGGCATCGTTATT--GATT-TCGTGT
*
34878616 AAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTCGTGT
1 AAGACCATATCTGGGACATTGGCATCGTT-ATTGATTTCGTGT
* * * ** *
34878659 AAGACCCTATCTGGGACAGTGGCATCGATATATGATAACATGT
1 AAGACCATATCTGGGACATTGGCATCGTTAT-TGATTTCGTGT
*
34878702 AAGACCATATCTGGGGCATTG
1 AAGACCATATCTGGGACATTG
34878723 TATGAGCTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.03
43 84 0.93
45 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
AAGACCATATCTGGGACATTGGCATCGTTATTGATTTCGTGT
Found at i:34883422 original size:28 final size:28
Alignment explanation
Indices: 34883359--34883540 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
34883349 ATATTAAGTC
* *
34883359 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
34883386 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
34883414 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
34883442 CGCACACCTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
34883470 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
34883498 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
34883526 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34883541 GTACAATTTA
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 125 0.85
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:34885974 original size:13 final size:13
Alignment explanation
Indices: 34885952--34885983 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34885942 GTAAGAGAGT
*
34885952 GAGCTTGACTTGC
1 GAGCTCGACTTGC
34885965 GAGCTCGACTTGC
1 GAGCTCGACTTGC
34885978 GAGCTC
1 GAGCTC
34885984 ATCCTACGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (13 bp):
GAGCTCGACTTGC
Found at i:34887143 original size:41 final size:40
Alignment explanation
Indices: 34887098--34887177 Score: 90
Period size: 41 Copynumber: 1.9 Consensus size: 40
34887088 ATTAAAATTT
* *
34887098 AATTAGATTTTT-AATAAATATTTATAATTATAAATTTTACA
1 AATTAGATTTTTAAATAAACATTT-TAATT-GAAATTTTACA
**
34887139 AATTATTTTTTTAAAATAAACATTTTAATTGAAATTTTA
1 AATTAGATTTTT-AAATAAACATTTTAATTGAAATTTTA
34887178 TGTATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 18 0.55
42 5 0.15
43 10 0.30
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (40 bp):
AATTAGATTTTTAAATAAACATTTTAATTGAAATTTTACA
Found at i:34892922 original size:56 final size:56
Alignment explanation
Indices: 34892832--34892942 Score: 186
Period size: 56 Copynumber: 2.0 Consensus size: 56
34892822 ATATTTGATA
* * *
34892832 TGGTCAATTAACTCATTATAAGATAAATTGTATTCAAAATCACTTAACAATTAATG
1 TGGTCAATTAACTCATTATAAGATAAACTATATTCAAAATCACTCAACAATTAATG
*
34892888 TGGTCAATTAACTCATTATAGGATAAACTATATTCAAAATCACTCAACAATTAAT
1 TGGTCAATTAACTCATTATAAGATAAACTATATTCAAAATCACTCAACAATTAAT
34892943 AAGTTCACAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.34
Consensus pattern (56 bp):
TGGTCAATTAACTCATTATAAGATAAACTATATTCAAAATCACTCAACAATTAATG
Found at i:34894254 original size:15 final size:15
Alignment explanation
Indices: 34894236--34894267 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34894226 TCAAAAGGGA
34894236 AATGGTGAGTGAGTT
1 AATGGTGAGTGAGTT
34894251 AATGGTGAGTGAGTT
1 AATGGTGAGTGAGTT
34894266 AA
1 AA
34894268 GAATGAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (15 bp):
AATGGTGAGTGAGTT
Found at i:34897675 original size:29 final size:30
Alignment explanation
Indices: 34897621--34897685 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
34897611 TTTAATATAT
*
34897621 AATTTTATATATGAACTTTGATTTTG-TGC
1 AATTTTATACATGAACTTTGATTTTGATGC
* *
34897650 AATTTTATACATGAAATTTTGA-TTTGATTC
1 AATTTTATACATG-AACTTTGATTTTGATGC
34897680 AATTTT
1 AATTTT
34897686 CATAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (30 bp):
AATTTTATACATGAACTTTGATTTTGATGC
Found at i:34897843 original size:31 final size:29
Alignment explanation
Indices: 34897808--34897876 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
34897798 TATATATATA
*
34897808 TATATATTTGAGCCGCAAATAAAATTTCATG
1 TATATATTTGAG-C-CAAATAAAAGTTCATG
* * *
34897839 TATATAATTGTGCCAAATTAAAGTTCATG
1 TATATATTTGAGCCAAATAAAAGTTCATG
*
34897868 TATAAATTT
1 TATATATTT
34897877 AAAAATTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 21 0.66
30 1 0.03
31 10 0.31
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TATATATTTGAGCCAAATAAAAGTTCATG
Found at i:34898662 original size:21 final size:21
Alignment explanation
Indices: 34898636--34898678 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
34898626 ATTATACATT
*
34898636 ATTAATAACTATAAAATCCTA
1 ATTAATAACAATAAAATCCTA
* *
34898657 ATTAATCACAATAAAATTCTA
1 ATTAATAACAATAAAATCCTA
34898678 A
1 A
34898679 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAATAACAATAAAATCCTA
Found at i:34899649 original size:21 final size:21
Alignment explanation
Indices: 34899623--34899665 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34899613 CATTTAAAAA
* *
34899623 TGTTCATCTTGTCTCTAGACT
1 TGTTCAACTTGTCTCGAGACT
34899644 TGTTCAACTTGTCTCGAGACT
1 TGTTCAACTTGTCTCGAGACT
34899665 T
1 T
34899666 AAACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (21 bp):
TGTTCAACTTGTCTCGAGACT
Found at i:34900971 original size:40 final size:40
Alignment explanation
Indices: 34900905--34901125 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
34900895 AATTATTGAA
** *
34900905 GAATGCACATTTGTACCCC-GATTTGTACTTCGGTACCCCT
1 GAATGCACATTCATGCCCCTGA-TTGTACTTCGGTACCCCT
* * ** *
34900945 GAATGCACATTCATGCCACAGATTGTACTTCAATACCCTT
1 GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
* * * * *
34900985 GAATGCACATTCGTGCCCCTGTTTGTTCTTTGGTACCCTT
1 GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
* * *
34901025 GAATGCACATAT-GTGCCCCTGAGTGTACTTTGGTACCCCT
1 GAATGCACAT-TCATGCCCCTGATTGTACTTCGGTACCCCT
* *
34901065 GAATGCATATACATGCCCC-GAATTGTACTTCGGTACCCCT
1 GAATGCACATTCATGCCCCTG-ATTGTACTTCGGTACCCCT
* *
34901105 GAATGCACATACGTGCCCCTG
1 GAATGCACATTCATGCCCCTG
34901126 TTTATACTCC
Statistics
Matches: 150, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 145 0.97
41 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (40 bp):
GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
Found at i:34901052 original size:80 final size:80
Alignment explanation
Indices: 34900905--34901125 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
34900895 AATTATTGAA
* * * * * *
34900905 GAATGCACATTTGTACCCCGATTTGTACTTCGGTACCCCTGAATGCACAT-TCATGCCACAGATT
1 GAATGCACATTCGTGCCCCGATTTGTACTTCGGTACCCCTGAATGCACATAT-GTGCCCCTGAGT
*
34900969 GTACTTCAATACCCTT
65 GTACTTCAATACCCCT
* * *
34900985 GAATGCACATTCGTGCCCCTG-TTTGTTCTTTGGTACCCTTGAATGCACATATGTGCCCCTGAGT
1 GAATGCACATTCGTGCCCC-GATTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTGAGT
***
34901049 GTACTTTGGTACCCCT
65 GTACTTCAATACCCCT
* * * * *
34901065 GAATGCATATACATGCCCCGAATTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTG
1 GAATGCACATTCGTGCCCCGATTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTG
34901126 TTTATACTCC
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 114 0.97
81 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (80 bp):
GAATGCACATTCGTGCCCCGATTTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTGAGTG
TACTTCAATACCCCT
Found at i:34901102 original size:120 final size:120
Alignment explanation
Indices: 34900905--34901128 Score: 317
Period size: 120 Copynumber: 1.9 Consensus size: 120
34900895 AATTATTGAA
* * *
34900905 GAATGCACATTTGTACCCCGATTTGTACTTCGGTACCCCTGAATGCACATTCATGCCACAGATTG
1 GAATGCACATATGTACCCCGATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATTG
* *
34900970 TACTTCAATACCCTTGAATGCACATTCGTGCCCCTGTTTGTTCTTTGGTACCCTT
66 TACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTTGTTCTTTGGTACCCTT
* * * *
34901025 GAATGCACATATGTGCCCCTGA-GTGTACTTTGGTACCCCTGAATGCATATACATGCC-CCGAAT
1 GAATGCACATATGTACCCC-GATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAG-AT
**
34901088 TGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
64 TGTACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTT
34901129 ATACTCCAGT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
119 2 0.02
120 87 0.96
121 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (120 bp):
GAATGCACATATGTACCCCGATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATTG
TACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTTGTTCTTTGGTACCCTT
Found at i:34901125 original size:20 final size:20
Alignment explanation
Indices: 34901024--34901125 Score: 64
Period size: 20 Copynumber: 5.1 Consensus size: 20
34901014 TTGGTACCCT
*
34901024 TGAATGCACATATGTGCCCC
1 TGAATGCACATACGTGCCCC
* * * ** *
34901044 TGAGTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCC
* *
34901064 TGAATGCATATACATGCCCC
1 TGAATGCACATACGTGCCCC
* * *
34901084 -GAATTGTAC-TTCGGTACCCC
1 TGAA-TGCACATAC-GTGCCCC
34901104 TGAATGCACATACGTGCCCC
1 TGAATGCACATACGTGCCCC
34901124 TG
1 TG
34901126 TTTATACTCC
Statistics
Matches: 56, Mismatches: 22, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
19 5 0.09
20 46 0.82
21 5 0.09
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (20 bp):
TGAATGCACATACGTGCCCC
Found at i:34906539 original size:30 final size:30
Alignment explanation
Indices: 34906503--34906559 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
34906493 ATTCATCATG
34906503 AGAGTAAATCAAAATGTCATCAATAAACAC
1 AGAGTAAATCAAAATGTCATCAATAAACAC
34906533 AGAGTAAATCAAAATGTCATCAATAAA
1 AGAGTAAATCAAAATGTCATCAATAAA
34906560 TAAAACTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (30 bp):
AGAGTAAATCAAAATGTCATCAATAAACAC
Found at i:34912346 original size:79 final size:81
Alignment explanation
Indices: 34912210--34912392 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34912200 TCGAATGATG
* *
34912210 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34912274 GGTGCGAGTTACTA-A
66 GGTGCGAGTTACTATA
* * * **
34912289 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34912351 TTTGTGCGAGTTACTATA
64 TTGGTGCGAGTTACTATA
* *
34912369 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34912393 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GGTGCGAGTTACTATA
Found at i:34912408 original size:40 final size:40
Alignment explanation
Indices: 34912211--34912394 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
34912201 CGAATGATGT
* * * *
34912211 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
34912251 CCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34912291 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34912329 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34912370 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34912395 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 81 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34912416 original size:79 final size:79
Alignment explanation
Indices: 34912263--34912417 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
34912253 GGACTAAGAT
* **
34912263 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
34912328 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
34912342 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
34912405 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
34912418 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:34920327 original size:79 final size:81
Alignment explanation
Indices: 34920191--34920373 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34920181 TCGAATGATG
* *
34920191 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34920255 GGTGCGAGTTACTA-A
66 GGTGCGAGTTACTATA
* * * **
34920270 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34920332 TTTGTGCGAGTTACTATA
64 TTGGTGCGAGTTACTATA
* *
34920350 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34920374 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GGTGCGAGTTACTATA
Found at i:34920389 original size:40 final size:40
Alignment explanation
Indices: 34920192--34920375 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
34920182 CGAATGATGT
* * * *
34920192 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
34920232 CCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34920272 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34920310 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34920351 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34920376 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 81 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34920397 original size:79 final size:79
Alignment explanation
Indices: 34920244--34920408 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
34920234 GGACTAAGAT
* **
34920244 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34920309 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34920323 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34920386 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34920402 CCGAAGG
1 CCGAAGG
34920409 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34937488 original size:25 final size:25
Alignment explanation
Indices: 34937437--34937504 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
34937427 TTATCCCAAC
* * * *
34937437 TTTATCCCTGGTAAAAATATGATAT
1 TTTACCCCTAGTAAAATTATGAAAT
34937462 TTTA-CCCTAGTAAAATTATGACAAT
1 TTTACCCCTAGTAAAATTATGA-AAT
*
34937487 TTTACCCCTATTAAAATT
1 TTTACCCCTAGTAAAATT
34937505 TCCAAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 15 0.41
25 10 0.27
26 12 0.32
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (25 bp):
TTTACCCCTAGTAAAATTATGAAAT
Found at i:34939520 original size:23 final size:23
Alignment explanation
Indices: 34939477--34939545 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
34939467 GAAATACATA
*
34939477 GAAATGATGGTACATGATATATT
1 GAAATGATGATACATGATATATT
* *
34939500 GAAATGGATGATATATGTATATAAT
1 GAAAT-GATGATACATG-ATATATT
*
34939525 GAAACGATAAGATA-ATGATAT
1 GAAATGAT--GATACATGATAT
34939546 GTATCATGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.13
24 16 0.42
25 13 0.34
26 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (23 bp):
GAAATGATGATACATGATATATT
Found at i:34939527 original size:25 final size:23
Alignment explanation
Indices: 34939461--34939545 Score: 64
Period size: 25 Copynumber: 3.5 Consensus size: 23
34939451 ATACAGGTAT
*
34939461 ATACATGAAATACATAGAAATGATG
1 ATACATGATATA-AT-GAAATGATG
* *
34939486 GTACATGATATATTGAAATGGATG
1 ATACATGATATAATGAAAT-GATG
* *
34939510 ATATATGTATATAATGAAACGATAAG
1 ATACATG-ATATAATGAAATGAT--G
34939536 ATA-ATGATAT
1 ATACATGATAT
34939546 GTATCATGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.10
24 17 0.35
25 23 0.47
26 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.31
Consensus pattern (23 bp):
ATACATGATATAATGAAATGATG
Done.