Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 11 of 208
Found at i:4347913 original size:28 final size:28
Alignment explanation
Indices: 4347873--4347956 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
4347863 TTATAATTTA
4347873 TCCACGTGTTGTTCAACATCCTATGTTG
1 TCCACGTGTTGTTCAACATCCTATGTTG
*
4347901 TCCACGTGTTGTTCAACGTCCTATGTTG
1 TCCACGTGTTGTTCAACATCCTATGTTG
** *
4347929 TCCACGTGTCATTCGACATCCTATGTTG
1 TCCACGTGTTGTTCAACATCCTATGTTG
4347957 AAAGCTTAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (28 bp):
TCCACGTGTTGTTCAACATCCTATGTTG
Found at i:4367143 original size:18 final size:18
Alignment explanation
Indices: 4367120--4367212 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
4367110 CAATCCCAAC
*
4367120 TACTGTATACGTGAACAG
1 TACTGTATACGTGAATAG
4367138 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
* *
4367156 TGCCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
4367174 TACTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
*
4367192 TGCTGTATACGTGAATAG
1 TACTGTATACGTGAATAG
4367210 TAC
1 TAC
4367213 CATAAACGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:4371965 original size:10 final size:10
Alignment explanation
Indices: 4371950--4371976 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4371940 AGAGATATCA
4371950 CCATTGGAAG
1 CCATTGGAAG
4371960 CCATTGGAAG
1 CCATTGGAAG
4371970 CCATTGG
1 CCATTGG
4371977 CAATGAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (10 bp):
CCATTGGAAG
Found at i:4375839 original size:24 final size:23
Alignment explanation
Indices: 4375785--4375839 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
4375775 TATAATCATT
4375785 TAAATATTTTATTTTTTATAAATG
1 TAAA-ATTTTATTTTTTATAAATG
* *
4375809 GATAATTTATATTTTTTAATAAA-G
1 TAAAATTT-TATTTTTT-ATAAATG
4375833 TAAAATT
1 TAAAATT
4375840 AAATATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 4 0.16
24 16 0.64
25 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (23 bp):
TAAAATTTTATTTTTTATAAATG
Found at i:4381786 original size:15 final size:15
Alignment explanation
Indices: 4381766--4381795 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4381756 ACCTATTAAA
4381766 AAATGATGAAATTAT
1 AAATGATGAAATTAT
*
4381781 AAATGATTAAATTAT
1 AAATGATGAAATTAT
4381796 GTTTTTAACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (15 bp):
AAATGATGAAATTAT
Found at i:4396687 original size:27 final size:27
Alignment explanation
Indices: 4396649--4396708 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
4396639 CCGAATATAA
**
4396649 TAAATATATTTTTTAAT-TTTTTAATTT
1 TAAA-ATATTTTAAAATATTTTTAATTT
*
4396676 TAAAATACTTTTAAAATATTTTTATTTT
1 TAAAATA-TTTTAAAATATTTTTAATTT
4396704 TAAAA
1 TAAAA
4396709 GATTCTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 11 0.39
28 14 0.50
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TAAAATATTTTAAAATATTTTTAATTT
Found at i:4413964 original size:26 final size:26
Alignment explanation
Indices: 4413935--4414016 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
4413925 TGTCCCAGAC
4413935 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
4413961 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
4413986 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
4414012 ATGGT
1 ATGGT
4414017 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:4413978 original size:25 final size:25
Alignment explanation
Indices: 4413950--4414029 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
4413940 CTTACATGGG
4413950 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
4413975 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
4414001 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
4414026 ATGT
1 ATGT
4414030 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:4413993 original size:51 final size:51
Alignment explanation
Indices: 4413921--4414213 Score: 342
Period size: 50 Copynumber: 5.7 Consensus size: 51
4413911 ACATGCCAAA
**
4413921 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
**
4413972 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
* * * * * * *
4414023 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* *
4414073 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* * *
4414123 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGA---T-AGG-TGCCCAT
*
4414179 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4414214 TTACCCAAAT
Statistics
Matches: 215, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 93 0.43
51 79 0.37
54 1 0.00
55 2 0.01
56 39 0.18
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
Found at i:4414040 original size:25 final size:25
Alignment explanation
Indices: 4413961--4414041 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
4413951 TGTTCTCGTG
4413961 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
4413986 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
4414012 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
4414037 ATGGT
1 ATGGT
4414042 CTTATAGGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:4414329 original size:13 final size:13
Alignment explanation
Indices: 4414308--4414339 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4414298 GCTTGGATCA
*
4414308 TCATCAAATAAAT
1 TCATAAAATAAAT
4414321 TCATAAAATAAAT
1 TCATAAAATAAAT
4414334 TCATAA
1 TCATAA
4414340 TTGCTGGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4414585 original size:30 final size:30
Alignment explanation
Indices: 4414551--4414608 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4414541 CCTCGACTCT
* *
4414551 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4414581 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4414609 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4419352 original size:52 final size:48
Alignment explanation
Indices: 4419333--4419535 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
4419323 TGACAAGTGG
* *
4419333 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4419379 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
4419431 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
4419477 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4419523 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4419536 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:4419387 original size:98 final size:98
Alignment explanation
Indices: 4419267--4419535 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
4419257 TTTGAGTACT
*
4419267 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4419332 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
4419365 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
4419430 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
4419463 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
4419528 GATAAGTG
65 GAAAAGTG
4419536 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:4419543 original size:37 final size:37
Alignment explanation
Indices: 4419499--4419644 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4419489 GATAGCTTTA
*
4419499 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4419536 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
4419573 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
4419610 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
4419645 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:4424597 original size:26 final size:26
Alignment explanation
Indices: 4424568--4424649 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
4424558 TGTCCCAGAC
4424568 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
4424594 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
4424619 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
4424645 ATGGT
1 ATGGT
4424650 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:4424611 original size:25 final size:25
Alignment explanation
Indices: 4424583--4424662 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
4424573 CTTACATGGG
4424583 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
4424608 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
4424634 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
4424659 ATGT
1 ATGT
4424663 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:4424626 original size:51 final size:51
Alignment explanation
Indices: 4424554--4424846 Score: 342
Period size: 50 Copynumber: 5.7 Consensus size: 51
4424544 ACATGCCAAA
**
4424554 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
**
4424605 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
* * * * * * *
4424656 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* *
4424706 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* * *
4424756 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGA---T-AGG-TGCCCAT
*
4424812 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4424847 TTACCCAAAT
Statistics
Matches: 215, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 93 0.43
51 79 0.37
54 1 0.00
55 2 0.01
56 39 0.18
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
Found at i:4424673 original size:25 final size:25
Alignment explanation
Indices: 4424594--4424674 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
4424584 TGTTCTCGTG
4424594 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
4424619 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
4424645 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
4424670 ATGGT
1 ATGGT
4424675 CTTATAGGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:4424962 original size:13 final size:13
Alignment explanation
Indices: 4424941--4424972 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4424931 GCTTGGATCA
*
4424941 TCATCAAATAAAT
1 TCATAAAATAAAT
4424954 TCATAAAATAAAT
1 TCATAAAATAAAT
4424967 TCATAA
1 TCATAA
4424973 TTGCTGGAAA
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:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4439765 original size:25 final size:25
Alignment explanation
Indices: 4439737--4439837 Score: 109
Period size: 25 Copynumber: 4.1 Consensus size: 25
4439727 AGCTCTTTCA
* *
4439737 AGCCATATAATAGGAAGCTCATGTG
1 AGCCATGTAATAGGAAGCTCATGAG
*
4439762 AGCCATGTAACAGGAAGCTCATGAG
1 AGCCATGTAATAGGAAGCTCATGAG
* **
4439787 AGTC--GTAATCAGGAAGCTCCGGAG
1 AGCCATGTAAT-AGGAAGCTCATGAG
4439811 AGCCAT-TAATTAGGAAGCTCATGAG
1 AGCCATGTAA-TAGGAAGCTCATGAG
4439836 AG
1 AG
4439838 AGCCTTTAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
23 4 0.06
24 15 0.24
25 42 0.68
26 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.20
Consensus pattern (25 bp):
AGCCATGTAATAGGAAGCTCATGAG
Found at i:4439814 original size:49 final size:48
Alignment explanation
Indices: 4439744--4439837 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
4439734 TCAAGCCATA
* *
4439744 TAATAGGAAGCTCATGTGAGCCATGTAA-CAGGAAGCTCATGAGAGTCG
1 TAATAGGAAGCTCAGGAGAGCCAT-TAATCAGGAAGCTCATGAGAGTCG
* *
4439792 TAATCAGGAAGCTCCGGAGAGCCATTAATTAGGAAGCTCATGAGAG
1 TAAT-AGGAAGCTCAGGAGAGCCATTAATCAGGAAGCTCATGAGAG
4439838 AGCCTTTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 7 0.17
49 33 0.82
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (48 bp):
TAATAGGAAGCTCAGGAGAGCCATTAATCAGGAAGCTCATGAGAGTCG
Found at i:4439846 original size:27 final size:25
Alignment explanation
Indices: 4439792--4439857 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
4439782 ATGAGAGTCG
*
4439792 TAATCAGGAAGCTCCGGAGAGCCAT
1 TAATTAGGAAGCTCCGGAGAGCCAT
* *
4439817 TAATTAGGAAGCTCATGAGAGAGCCTT
1 TAATTAGGAAGCTC-CG-GAGAGCCAT
4439844 TAATT-GAGAAGCTC
1 TAATTAG-GAAGCTC
4439858 GTAAGAGCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.37
26 2 0.06
27 20 0.57
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (25 bp):
TAATTAGGAAGCTCCGGAGAGCCAT
Found at i:4439864 original size:27 final size:27
Alignment explanation
Indices: 4439808--4439864 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
4439798 GGAAGCTCCG
*
4439808 GAGAGCCATTAATTAGGAAGCTCATGA
1 GAGAGCCATTAATTAGGAAGCTCATAA
* *
4439835 GAGAGCCTTTAATT-GAGAAGCTCGTAA
1 GAGAGCCATTAATTAG-GAAGCTCATAA
4439862 GAG
1 GAG
4439865 CCATATGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (27 bp):
GAGAGCCATTAATTAGGAAGCTCATAA
Found at i:4439925 original size:24 final size:24
Alignment explanation
Indices: 4439874--4439955 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
4439864 GCCATATGTT
4439874 GGGATGCTCATA-AGAGCTAAATAAC
1 GGGATGCTCA-AGAGAGC-AAATAAC
* * * *
4439899 GGGAAGCTCCAGAGAGCCAATATC
1 GGGATGCTCAAGAGAGCAAATAAC
4439923 GGGATGCTCAAGAGAGCAAATAAC
1 GGGATGCTCAAGAGAGCAAATAAC
4439947 GGGATGCTC
1 GGGATGCTC
4439956 TTGCAAGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 35 0.73
25 13 0.27
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (24 bp):
GGGATGCTCAAGAGAGCAAATAAC
Found at i:4445436 original size:4 final size:4
Alignment explanation
Indices: 4445427--4445468 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
4445417 GTGTTATATA
4445427 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
4445469 ATGAAAATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:4450983 original size:18 final size:18
Alignment explanation
Indices: 4450962--4451003 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4450952 AAGTTGATAA
*
4450962 AAAAAACACT-TTTGAGGT
1 AAAAAACACTATTT-AGAT
*
4450980 AAAAAGCACTATTTAGAT
1 AAAAAACACTATTTAGAT
4450998 AAAAAA
1 AAAAAA
4451004 AATATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAAAACACTATTTAGAT
Found at i:4452597 original size:29 final size:30
Alignment explanation
Indices: 4452538--4452595 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4452528 TCCGAGCCTT
*
4452538 GGGGCAAAAATATAATTATGTAAAAGTTTA
1 GGGGCAAAAATATAATTATGAAAAAGTTTA
* *
4452568 GGGGCAAAATTATAATTTTGAAAAAGTT
1 GGGGCAAAAATATAATTATGAAAAAGTT
4452596 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATATAATTATGAAAAAGTTTA
Found at i:4452825 original size:13 final size:13
Alignment explanation
Indices: 4452807--4452838 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4452797 TTTCCAGCAA
4452807 TTATGAATTTATT
1 TTATGAATTTATT
4452820 TTATGAATTTATT
1 TTATGAATTTATT
*
4452833 TGATGA
1 TTATGA
4452839 TGATCCAAGC
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:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:4453024 original size:50 final size:50
Alignment explanation
Indices: 4452933--4453174 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 50
4452923 ATTTGGGTAA
* * * *
4452933 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCA-CC----GA-GATG
* * *
4452989 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
* *
4453039 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
* * * * *
4453089 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGA-GATG
**
4453139 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
4453175 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.56
51 31 0.19
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATCGGCACCGAGATG
Found at i:4453120 original size:100 final size:103
Alignment explanation
Indices: 4452933--4453182 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
4452923 ATTTGGGTAA
*
4452933 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
4452998 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
4453039 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
4453101 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
4453139 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4453183 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4455362 original size:7 final size:8
Alignment explanation
Indices: 4455345--4455369 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4455335 TAAAAGTTTA
4455345 TTTATTTT
1 TTTATTTT
4455353 TTTATTTT
1 TTTATTTT
4455361 TTTATTTT
1 TTTATTTT
4455369 T
1 T
4455370 GAAATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:4461610 original size:24 final size:24
Alignment explanation
Indices: 4461582--4461628 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4461572 TATATATATC
4461582 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
4461606 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
4461629 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:4472048 original size:26 final size:26
Alignment explanation
Indices: 4472012--4472064 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4472002 CAAAAATTAT
4472012 GTTAAAACAGTCTGCACATGATACTA
1 GTTAAAACAGTCTGCACATGATACTA
4472038 GTTAAAACAGTCTGCACATGATACTA
1 GTTAAAACAGTCTGCACATGATACTA
4472064 G
1 G
4472065 AAGAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (26 bp):
GTTAAAACAGTCTGCACATGATACTA
Found at i:4475164 original size:30 final size:30
Alignment explanation
Indices: 4475121--4475191 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
4475111 TGTTTAAAAA
* * *
4475121 ATTGTATGCTTAATACATGCTTACTTGAGT
1 ATTGTGTGATTAATACATGCATACTTGAGT
*
4475151 ATTGTGTGATTAATACATGCATATTTGAGT
1 ATTGTGTGATTAATACATGCATACTTGAGT
4475181 ATTGTGTGATT
1 ATTGTGTGATT
4475192 TTTTTTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (30 bp):
ATTGTGTGATTAATACATGCATACTTGAGT
Found at i:4475320 original size:14 final size:13
Alignment explanation
Indices: 4475301--4475331 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
4475291 ATTAAGAAAA
4475301 TTGTATTTGTTTAT
1 TTGTATTTGTTT-T
4475315 TTGTATTTGTTTT
1 TTGTATTTGTTTT
4475328 TTGT
1 TTGT
4475332 CACTAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.10, C:0.00, G:0.16, T:0.74
Consensus pattern (13 bp):
TTGTATTTGTTTT
Found at i:4480198 original size:26 final size:25
Alignment explanation
Indices: 4480169--4480259 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 25
4480159 CTTATGAGTG
4480169 TCCCGTTATATGGCTCTTCGTGAGCT
1 TCCCGTTA-ATGGCTCTTCGTGAGCT
* * * *
4480195 TCCCAATTAAAGGCACTTTGTGAGCT
1 TCCC-GTTAATGGCTCTTCGTGAGCT
* *
4480221 TCCTGATTAATGGCTCATCG-GAGCT
1 TCCCG-TTAATGGCTCTTCGTGAGCT
*
4480246 TCCCGAT-ATGGCTC
1 TCCCGTTAATGGCTC
4480260 GCTTGAACTT
Statistics
Matches: 51, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
23 7 0.14
24 1 0.02
25 9 0.18
26 31 0.61
27 3 0.06
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (25 bp):
TCCCGTTAATGGCTCTTCGTGAGCT
Found at i:4483757 original size:12 final size:12
Alignment explanation
Indices: 4483740--4483772 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
4483730 TATTTTTACC
4483740 CAATTTCTTCAA
1 CAATTTCTTCAA
4483752 CAATTTCTTCAA
1 CAATTTCTTCAA
4483764 CAATTTCTT
1 CAATTTCTT
4483773 TTTCTAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (12 bp):
CAATTTCTTCAA
Found at i:4496046 original size:19 final size:19
Alignment explanation
Indices: 4496022--4496058 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4496012 AGCAAGGAAA
4496022 TCTTTTCAGCAATCCAATG
1 TCTTTTCAGCAATCCAATG
4496041 TCTTTTCAGCAATCCAAT
1 TCTTTTCAGCAATCCAAT
4496059 TTGGACCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTTTTCAGCAATCCAATG
Found at i:4506843 original size:17 final size:17
Alignment explanation
Indices: 4506821--4506854 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4506811 ATCCACTAAT
*
4506821 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4506838 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4506855 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:4511482 original size:17 final size:17
Alignment explanation
Indices: 4511460--4511493 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4511450 ATCCACTAAT
*
4511460 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
4511477 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
4511494 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:4524714 original size:19 final size:20
Alignment explanation
Indices: 4524677--4524716 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4524667 ATTTTAAGCG
**
4524677 AACCTAATTTTTTTTGTTTA
1 AACCTAATTTTTTGAGTTTA
4524697 AACCT-ATTTTTTGAGTTTA
1 AACCTAATTTTTTGAGTTTA
4524716 A
1 A
4524717 TGTTTTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (20 bp):
AACCTAATTTTTTGAGTTTA
Found at i:4531029 original size:6 final size:6
Alignment explanation
Indices: 4531018--4531045 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4531008 TGAATTATTC
4531018 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
4531046 GTCTTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:4533064 original size:18 final size:19
Alignment explanation
Indices: 4533029--4533067 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4533019 AATAAACACC
*
4533029 AAAAAATTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
4533048 AAAAAAGTATTTTAAAAAT
1 AAAAAAGTATTTTAAAAAT
4533067 A
1 A
4533068 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAAAGTATTTTAAAAAT
Found at i:4533368 original size:17 final size:19
Alignment explanation
Indices: 4533343--4533380 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4533333 ATCATTCCAA
*
4533343 TTAAAAATT-ATTAATTTT
1 TTAAAATTTAATTAATTTT
4533361 TTAAAATTTAATTAATTTT
1 TTAAAATTTAATTAATTTT
4533380 T
1 T
4533381 AATTGATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAAATTTAATTAATTTT
Found at i:4534650 original size:24 final size:24
Alignment explanation
Indices: 4534612--4534674 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
4534602 AAGAAAAACT
*
4534612 AATAATAATTCAAAAAAT-TTAAA
1 AATAATAATTAAAAAAATATTAAA
* *
4534635 AAGTAATACTTAAAAATATATTAAA
1 AA-TAATAATTAAAAAAATATTAAA
* *
4534660 AATTATATTTAAAAA
1 AATAATAATTAAAAA
4534675 CTATGAGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 2 0.06
24 24 0.73
25 7 0.21
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (24 bp):
AATAATAATTAAAAAAATATTAAA
Found at i:4542690 original size:50 final size:50
Alignment explanation
Indices: 4542615--4542852 Score: 306
Period size: 50 Copynumber: 4.8 Consensus size: 50
4542605 AAGCTCCATA
4542615 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
4542665 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* * *
4542715 AGGTCTCC-CGTAAGACCATGTCTGGGACATGGC-ATGG--GCGAGATGAG
1 AGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* * * * *
4542762 AGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCAACATGAG
1 AGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
** * *
4542812 AACATTCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
4542853 TGTTATTATC
Statistics
Matches: 168, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
47 42 0.25
48 2 0.01
49 3 0.02
50 88 0.52
51 33 0.20
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.21
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
Found at i:4542785 original size:97 final size:100
Alignment explanation
Indices: 4542624--4542845 Score: 292
Period size: 97 Copynumber: 2.2 Consensus size: 100
4542614 AAGGTCCCAT
* *
4542624 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCGATGG-ACCGAGATGAGAGGTCCCACGTAAGACCATGTCTG
* * * * **
4542689 GGACATGGCGTTGGCACCGAGATGAG-AGGTCTCC-C
65 GGACATGGCATGGGCACCAACATGAGAACAT-TCCAC
*
4542724 GTAAGACCATGTCTGGGACATGGC-ATGG-GCGAGATGAGAGGTCTCC-CGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATGGCGATGGACCGAGATGAGAGGTC-CCACGTAAGACCATGTCTG
*
4542786 GGACATGGCATGGGCACCAACATGAGAACATTCCAT
65 GGACATGGCATGGGCACCAACATGAGAACATTCCAC
4542822 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
4542846 TTTGGCATGT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
97 54 0.50
98 28 0.26
99 3 0.03
100 24 0.22
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATGGCGATGGACCGAGATGAGAGGTCCCACGTAAGACCATGTCTGG
GACATGGCATGGGCACCAACATGAGAACATTCCAC
Found at i:4556475 original size:22 final size:23
Alignment explanation
Indices: 4556438--4556481 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4556428 TAATTTAAAT
*
4556438 ATTATAATAATTTTTAACATATA
1 ATTAAAATAATTTTTAACATATA
*
4556461 ATTAAAAT-ATTTTTACCATAT
1 ATTAAAATAATTTTTAACATAT
4556482 TCAACGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTAAAATAATTTTTAACATATA
Found at i:4564884 original size:22 final size:22
Alignment explanation
Indices: 4564856--4564897 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4564846 AAGGAAGTTC
4564856 GTAATAACTGAGACCAAACTTT
1 GTAATAACTGAGACCAAACTTT
4564878 GTAATAACTGAGACCAAACT
1 GTAATAACTGAGACCAAACT
4564898 GCTTCACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (22 bp):
GTAATAACTGAGACCAAACTTT
Found at i:4576465 original size:33 final size:33
Alignment explanation
Indices: 4576428--4576490 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
4576418 TATAAAAAAT
*
4576428 TAACCATGGATTACAAATTTAACTATGGTAAAC
1 TAACCATGGATTACAAATTCAACTATGGTAAAC
*
4576461 TAACCATGGATTACAAATTCAATTATGGTA
1 TAACCATGGATTACAAATTCAACTATGGTA
4576491 CTATAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (33 bp):
TAACCATGGATTACAAATTCAACTATGGTAAAC
Found at i:4581737 original size:42 final size:42
Alignment explanation
Indices: 4581678--4581814 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
4581668 ACCCCTTGGG
4581678 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
* * * *
4581720 GGAATCATCACTTAGCAA-CCAC--CA-A--TGA-AT-AGG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
*
4581753 GGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
4581795 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
4581815 ACCAATGAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
33 17 0.22
34 4 0.05
35 2 0.03
36 4 0.05
37 1 0.01
38 1 0.01
39 4 0.05
40 2 0.03
41 5 0.06
42 37 0.48
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGT
Found at i:4581765 original size:33 final size:33
Alignment explanation
Indices: 4581720--4581941 Score: 134
Period size: 33 Copynumber: 6.3 Consensus size: 33
4581710 CAGATGCGGT
*
4581720 GGAATCATCACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGG
* * *
4581753 GGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGA-AT-AGG
*
4581794 TGGAATCAGCACTTAGCAACCACCAATGAATAAG
1 -GGAATCAGCACTTAGCAACCACCAATGAATAGG
4581828 GGAATCAGCACTTAGCAACC-CC--TCG----GG
1 GGAATCAGCACTTAGCAACCACCAAT-GAATAGG
* *
4581855 GGAATCAGCACTTAGCAACCCCCTTTCACATTAAAAATACGG
1 GGAATCAGCACTTAGCAA-CCAC---CA-A-T--GAATA-GG
* *
4581897 TGGAATCAGCACTTAGCAACCACCAATGAATCGA
1 -GGAATCAGCACTTAGCAACCACCAATGAATAGG
4581931 GGAATCAGCAC
1 GGAATCAGCAC
4581942 ACATCAACCC
Statistics
Matches: 148, Mismatches: 15, Indels: 52
0.69 0.07 0.24
Matches are distributed among these distances:
27 19 0.13
28 2 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 3 0.02
33 51 0.34
34 2 0.01
35 5 0.03
36 5 0.03
37 2 0.01
38 2 0.01
39 6 0.04
40 2 0.01
41 2 0.01
42 26 0.18
43 18 0.12
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATAGG
Found at i:4581850 original size:75 final size:75
Alignment explanation
Indices: 4581677--4581850 Score: 321
Period size: 75 Copynumber: 2.3 Consensus size: 75
4581667 AACCCCTTGG
* *
4581677 GGGAATCAGCACTTAGCAACCCCCTTCACATTTCAGATGCGGTGGAATCATCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCAC
*
4581742 CAATGAATAG
66 CAATGAATAA
4581752 GGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCAC
4581817 CAATGAATAA
66 CAATGAATAA
4581827 GGGAATCAGCACTTAGCAACCCCT
1 GGGAATCAGCACTTAGCAACCCCT
4581851 CGGGGGAATC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (75 bp):
GGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCAC
CAATGAATAA
Found at i:4581904 original size:103 final size:102
Alignment explanation
Indices: 4581751--4581941 Score: 312
Period size: 103 Copynumber: 1.9 Consensus size: 102
4581741 CCAATGAATA
** * *
4581751 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTCAGATGCGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACCA
4581816 CCAATGAATA-AGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAATAGA-GGAATCAGCACTTAGCAACCCCTCG
4581853 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAA-CCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACC
*
4581918 ACCAATGAATCGAGGAATCAGCAC
65 ACCAATGAATAGAGGAATCAGCAC
4581942 ACATCAACCC
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
102 20 0.24
103 61 0.74
104 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTAAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATAGAGGAATCAGCACTTAGCAACCCCTCG
Found at i:4592415 original size:32 final size:32
Alignment explanation
Indices: 4592374--4592438 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4592364 TGACAGTAAC
4592374 TAACAATTGATGATAATATCACAATAAATAAT
1 TAACAATTGATGATAATATCACAATAAATAAT
4592406 TAACAATTGATGATAATATCACAATAAATAAT
1 TAACAATTGATGATAATATCACAATAAATAAT
4592438 T
1 T
4592439 GTAGTACTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.32
Consensus pattern (32 bp):
TAACAATTGATGATAATATCACAATAAATAAT
Found at i:4593116 original size:45 final size:46
Alignment explanation
Indices: 4593017--4593135 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
4593007 AGTGCTATAT
* *
4593017 TTATCTGATCAAGTGAGAAAGTGATAAGTGTTAGCCTTAGCTACAC
1 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
4593063 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACAC
1 TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
*
4593108 TTATCTGATC-AGGGAC-AAGTGATAAGTG
1 TTATCTGATCAAGTGACAAAGTGATAAGTG
4593136 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
43 12 0.17
44 5 0.07
45 21 0.30
46 32 0.46
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (46 bp):
TTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACAC
Found at i:4595083 original size:43 final size:43
Alignment explanation
Indices: 4595026--4595113 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
4595016 GAGGCCCAAG
4595026 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
1 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
4595069 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
1 AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
4595112 AA
1 AA
4595114 TTTTCCATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGAGATTGGGCCTGACAATCACAATAACATTCTTATAGAA
Found at i:4605916 original size:100 final size:101
Alignment explanation
Indices: 4605772--4605957 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 101
4605762 GCATTTCCAG
4605772 ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
1 ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
*
4605837 GTGTTAGTTTCTCATACGATATTGTATGAGAAACTA
66 GTATTAGTTTCTCATACGATATTGTATGAGAAACTA
*
4605873 ATATTGTATGGGAAAGT-CCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGCTTAT
1 ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
4605937 GTATTAGTTTCTCATACGATA
66 GTATTAGTTTCTCATACGATA
4605958 CTTGCAATTG
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 66 0.80
101 17 0.20
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (101 bp):
ATATTGTATGGGAAAGTCCCAACACAAAATTTTGCTGTCCCTTGATAGAACTTGGTTAAGATTAT
GTATTAGTTTCTCATACGATATTGTATGAGAAACTA
Found at i:4606186 original size:17 final size:17
Alignment explanation
Indices: 4606164--4606196 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4606154 TTCGATTTTA
4606164 AAAAAAATAAGAGATTG
1 AAAAAAATAAGAGATTG
4606181 AAAAAAATAAGAGATT
1 AAAAAAATAAGAGATT
4606197 TGGTGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAAAAATAAGAGATTG
Found at i:4629527 original size:24 final size:25
Alignment explanation
Indices: 4629492--4629539 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4629482 TTATGAAATT
4629492 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
4629516 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
4629540 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:4629598 original size:28 final size:27
Alignment explanation
Indices: 4629567--4629639 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 27
4629557 ATTTATTAGT
4629567 TATAATTATTTTAAATTTTATGTAATCA
1 TATAATTATTTTAAATTTTATGTAAT-A
* * *
4629595 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATGTAATA
*
4629622 T-TAATTATTTCAAATTTT
1 TATAATTATTTTAAATTTT
4629640 CATTTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
26 9 0.26
27 8 0.23
28 18 0.51
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATGTAATA
Found at i:4629735 original size:16 final size:16
Alignment explanation
Indices: 4629714--4629755 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4629704 TTATTAAATT
*
4629714 ATATATTTTAATTATA
1 ATATATTTTAATAATA
4629730 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
4629745 AT-TATGTTTAA
1 ATATAT-TTTAA
4629756 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:4629740 original size:15 final size:15
Alignment explanation
Indices: 4629705--4629746 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4629695 TTAAGAATTT
*
4629705 TATTAAATTAT-ATA
1 TATTTAATTATAATA
4629719 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
4629733 TATTTAATAATAAT
1 TATTTAATTATAAT
4629747 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:4629841 original size:24 final size:23
Alignment explanation
Indices: 4629811--4629891 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 23
4629801 TTTAAATAAC
4629811 AATAACAATATTTAATATATTTCT
1 AATAACAATATTTAATATATTT-T
4629835 AATAACAATA-TT-ATATATTAATT
1 AATAACAATATTTAATATATT--TT
* * *
4629858 ATTAACAATATTTATTATATATTA
1 AATAACAATATTTAATATAT-TTT
4629882 AATAACAATA
1 AATAACAATA
4629892 ACAATATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
22 7 0.15
23 12 0.25
24 23 0.48
25 5 0.10
26 1 0.02
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAACAATATTTAATATATTTT
Found at i:4629905 original size:16 final size:16
Alignment explanation
Indices: 4629884--4629918 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4629874 ATATATTAAA
4629884 TAACAATAACAATATT
1 TAACAATAACAATATT
*
4629900 TAACAATAACTATATT
1 TAACAATAACAATATT
4629916 TAA
1 TAA
4629919 TAATTTACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:4629983 original size:18 final size:17
Alignment explanation
Indices: 4629955--4629989 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4629945 ATTATTAAGA
*
4629955 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4629972 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4629990 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4630234 original size:45 final size:40
Alignment explanation
Indices: 4630135--4630244 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 40
4630125 TTTTCCATTA
*
4630135 TGCTATTACACCTCTATTCCATT-CAATCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACAATCAAAAACAAGAT
* * * *
4630174 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACAATCAA--AAACA--AGA-T
* *
4630219 TGCTATTACACCTCTAATCCAATACA
1 TGCTATTACACCTCTATTCCATTACA
4630245 GCGAAGCAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 21 0.38
40 6 0.11
42 4 0.07
44 2 0.04
45 23 0.41
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (40 bp):
TGCTATTACACCTCTATTCCATTACAATCAAAAACAAGAT
Found at i:4643505 original size:17 final size:17
Alignment explanation
Indices: 4643483--4643515 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4643473 TCATCCACCA
4643483 AATCTCTTATTTTTTTC
1 AATCTCTTATTTTTTTC
4643500 AATCTCTTATTTTTTT
1 AATCTCTTATTTTTTT
4643516 TAAAATCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.67
Consensus pattern (17 bp):
AATCTCTTATTTTTTTC
Found at i:4643931 original size:100 final size:98
Alignment explanation
Indices: 4643727--4643907 Score: 281
Period size: 100 Copynumber: 1.8 Consensus size: 98
4643717 GCAAGTATCG
*
4643727 TATGAGAAACTAATACATAAGCTTAACCAAGTTCTATCAAGGGACAGCAAAATTTTGTGTTGGAC
1 TATGAGAAACTAACACATAAGCTTAACCAAGTTCTATCAAGGGACAGCAAAATTTTGTGTTGGAC
** * *
4643792 TTTCCCATACAATATTAGTTTCTCATACAATATC
66 TTTCCCATACAATATTAAATGCTAATACAATA-C
*
4643826 GTATGAGAAACTAACACATAATCTTAACCAAGTTCTATCAAGGGACAGCAAAATTTTGTGTTGGG
1 -TATGAGAAACTAACACATAAGCTTAACCAAGTTCTATCAAGGGACAGCAAAATTTTGTGTT-GG
4643891 ACTTTCCCATACAATAT
64 ACTTTCCCATACAATAT
4643908 CTGGAAATGC
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
100 59 0.76
101 19 0.24
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (98 bp):
TATGAGAAACTAACACATAAGCTTAACCAAGTTCTATCAAGGGACAGCAAAATTTTGTGTTGGAC
TTTCCCATACAATATTAAATGCTAATACAATAC
Found at i:4654352 original size:43 final size:42
Alignment explanation
Indices: 4654276--4654362 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 42
4654266 AAATGGAAAA
4654276 TTTTCTATAAGAATGTTTTGTGATTGTCAGGCCCAATCTCGT
1 TTTTCTATAAGAATGTTTTGTGATTGTCAGGCCCAATCTCGT
4654318 TTTTCTATAAGAATGTTATTGTGATTGTCAGGCCCAATCTCGT
1 TTTTCTATAAGAATGTT-TTGTGATTGTCAGGCCCAATCTCGT
4654361 TT
1 TT
4654363 CTTGGGCCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (42 bp):
TTTTCTATAAGAATGTTTTGTGATTGTCAGGCCCAATCTCGT
Found at i:4656324 original size:45 final size:46
Alignment explanation
Indices: 4656251--4656369 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
4656241 TACGTATGAT
* *
4656251 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAA-GCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
4656294 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
*
4656340 CACTTATCACTTTCTCACTTGATCAGATAA
1 CACTTATCACTTTGTCACTTGATCAGATAA
4656370 ATATAGCACT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
43 10 0.14
44 5 0.07
45 22 0.31
46 33 0.47
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
Found at i:4656974 original size:32 final size:32
Alignment explanation
Indices: 4656938--4657002 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4656928 TCAGTACTAC
4656938 AATTATTTATTGTGATATTATCATCAATTGTT
1 AATTATTTATTGTGATATTATCATCAATTGTT
4656970 AATTATTTATTGTGATATTATCATCAATTGTT
1 AATTATTTATTGTGATATTATCATCAATTGTT
4657002 A
1 A
4657003 GTTACTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.52
Consensus pattern (32 bp):
AATTATTTATTGTGATATTATCATCAATTGTT
Found at i:4667565 original size:102 final size:101
Alignment explanation
Indices: 4667399--4667588 Score: 310
Period size: 102 Copynumber: 1.9 Consensus size: 101
4667389 GGGTTGATGT
* * **
4667399 GTGCTGATTCCTCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTTAATGTGAAAG
1 GTGCTGATTCCTCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAA-
4667464 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGTTGCTAA
65 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGTTGCTAA
*
4667501 GTGCTGATTCC-CTTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAA
1 GTGCTGATTCCTC-GATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAA
4667565 GGGGTTGCTAAGTGCTGATTCCCC
65 GGGGTTGCTAAGTGCTGATTCCCC
4667589 TATTCATTTG
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
101 25 0.30
102 57 0.70
ACGTcount: A:0.19, C:0.20, G:0.27, T:0.34
Consensus pattern (101 bp):
GTGCTGATTCCTCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAG
GGGTTGCTAAGTGCTGATTCCCCCGAGGGTTGCTAA
Found at i:4667627 original size:73 final size:73
Alignment explanation
Indices: 4667491--4667660 Score: 297
Period size: 73 Copynumber: 2.3 Consensus size: 73
4667481 ATTCCCCCGA
* *
4667491 GGGTTGCTAAGTGCTGATTCCCTTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
1 GGGTTGCTAAGTGCTGATTCCCCTATTCATT-GTGGTTGCTAAGTGATGATTCCACCGCATCTGA
4667556 AATGTGAAAG
65 AATGTG-AAG
4667566 GGGTTGCTAAGTGCTGATTCCCCTATTCATT-TGGTTGCTAAGTGATGATTCCACCGCATCTGAA
1 GGGTTGCTAAGTGCTGATTCCCCTATTCATTGTGGTTGCTAAGTGATGATTCCACCGCATCTGAA
4667630 ATGTGAAG
66 ATGTGAAG
4667638 GGGTTGCTAAGTGCTGATTCCCC
1 GGGTTGCTAAGTGCTGATTCCCC
4667661 CAAGGGGTTG
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
72 26 0.28
73 37 0.40
75 30 0.32
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (73 bp):
GGGTTGCTAAGTGCTGATTCCCCTATTCATTGTGGTTGCTAAGTGATGATTCCACCGCATCTGAA
ATGTGAAG
Found at i:4667665 original size:27 final size:27
Alignment explanation
Indices: 4667635--4667687 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
4667625 CTGAAATGTG
4667635 AAGGGGTTGCTAAGTGCTGATTCCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCCC
* **
4667662 AAGGGGTTGTTGTGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
4667688 GATTCATTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (27 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:4680335 original size:18 final size:17
Alignment explanation
Indices: 4680314--4680348 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4680304 TTATTATTAA
*
4680314 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4680332 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4680349 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4680406 original size:16 final size:16
Alignment explanation
Indices: 4680385--4680419 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4680375 TGGTAAATTA
4680385 TTAAATATAGTTATTG
1 TTAAATATAGTTATTG
*
4680401 TTAAATATTGTTATTG
1 TTAAATATAGTTATTG
4680417 TTA
1 TTA
4680420 TTTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (16 bp):
TTAAATATAGTTATTG
Found at i:4680591 original size:16 final size:16
Alignment explanation
Indices: 4680554--4680595 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4680544 TTAATCATAT
*
4680554 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4680570 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4680585 TTAAAATATAT
1 TTAAAATATAT
4680596 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4680602 original size:14 final size:15
Alignment explanation
Indices: 4680563--4680604 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4680553 TTTAAACATA
*
4680563 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4680578 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4680592 A-TATAATTTAATA
1 ATTATAATTAAATA
4680605 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4680742 original size:28 final size:27
Alignment explanation
Indices: 4680664--4680742 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 27
4680654 TATGATACTA
*
4680664 TAAATGAAAATTTGAAATAATTA-ATAT
1 TAAAT-AAAATTTAAAATAATTATATAT
* *
4680691 TAAATATATTTTAATTAA-AA-TATATGAT
1 TAAATAAAATTTAA--AATAATTATAT-AT
*
4680719 TACATAAAATTTAAAATAATTATA
1 TAAATAAAATTTAAAATAATTATA
4680743 ACTAATAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
26 10 0.25
27 11 0.28
28 19 0.47
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (27 bp):
TAAATAAAATTTAAAATAATTATATAT
Found at i:4680816 original size:24 final size:25
Alignment explanation
Indices: 4680770--4680817 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
4680760 TATGAATTTG
4680770 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
4680796 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
4680818 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:4680821 original size:92 final size:92
Alignment explanation
Indices: 4680725--4680900 Score: 214
Period size: 92 Copynumber: 1.9 Consensus size: 92
4680715 TGATTACATA
* * *
4680725 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
4680787 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
4680817 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
*
4680882 ATTAAATATAATTTCATAA
66 ATTAAATATAATTTAATAA
4680901 AATTCTTACT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 63 0.89
93 8 0.11
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:4683567 original size:49 final size:49
Alignment explanation
Indices: 4683495--4683596 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
4683485 GCTACTTGCT
4683495 CATCAACAAGCATGAACCTTGACGACTTCAATCCCCCTATCGATTCTAA
1 CATCAACAAGCATGAACCTTGACGACTTCAATCCCCCTATCGATTCTAA
4683544 CATCAACAAGCATGAACCTTGACGACTTCAATCCCCCTATCGATTCTAA
1 CATCAACAAGCATGAACCTTGACGACTTCAATCCCCCTATCGATTCTAA
4683593 CATC
1 CATC
4683597 TCACATAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.32, C:0.33, G:0.10, T:0.25
Consensus pattern (49 bp):
CATCAACAAGCATGAACCTTGACGACTTCAATCCCCCTATCGATTCTAA
Found at i:4685364 original size:23 final size:23
Alignment explanation
Indices: 4685336--4685419 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
4685326 AACATAAACA
*
4685336 AATCAACACAATTTCCAGCAGAC
1 AATCAAAACAATTTCCAGCAGAC
*
4685359 AATCAAAACAATTTCCAGCAGCC
1 AATCAAAACAATTTCCAGCAGAC
* *
4685382 AATCATACCAATTTCCAGCAGAC
1 AATCAAAACAATTTCCAGCAGAC
4685405 AATCAAAACAATTTC
1 AATCAAAACAATTTC
4685420 AGAACAAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.44, C:0.29, G:0.07, T:0.20
Consensus pattern (23 bp):
AATCAAAACAATTTCCAGCAGAC
Found at i:4685447 original size:22 final size:21
Alignment explanation
Indices: 4685405--4685450 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4685395 TCCAGCAGAC
* *
4685405 AATCAAAACAATTTCAGAACA
1 AATCAAAACAATATCAAAACA
*
4685426 AATCAAGACCAATATCAAAACA
1 AATCAA-AACAATATCAAAACA
4685448 AAT
1 AAT
4685451 GCAACAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (21 bp):
AATCAAAACAATATCAAAACA
Found at i:4686207 original size:10 final size:10
Alignment explanation
Indices: 4686192--4686219 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4686182 AATTGTATGC
4686192 TTTCTTATCG
1 TTTCTTATCG
4686202 TTTCTTATCG
1 TTTCTTATCG
4686212 TTTCTTAT
1 TTTCTTAT
4686220 GGATTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.18, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTCTTATCG
Found at i:4687513 original size:5 final size:5
Alignment explanation
Indices: 4687503--4687527 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4687493 GGCAGAGAGA
4687503 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
4687528 GAGGGAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:4708068 original size:33 final size:32
Alignment explanation
Indices: 4707996--4708071 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
4707986 TAGATACATG
* * **
4707996 TGTAAGACCATACCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
*
4708028 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACAAA
4708062 TGTAAGACCA
1 TGTAAGACCA
4708072 CGGCAGGGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:4711755 original size:16 final size:16
Alignment explanation
Indices: 4711734--4711767 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4711724 CTCACTCTTC
4711734 CATAGATTACTTGTCT
1 CATAGATTACTTGTCT
4711750 CATAGATTACTTGTCT
1 CATAGATTACTTGTCT
4711766 CA
1 CA
4711768 CTCTTCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (16 bp):
CATAGATTACTTGTCT
Found at i:4712615 original size:16 final size:16
Alignment explanation
Indices: 4712594--4712627 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4712584 CTCACTCTTC
*
4712594 CATAGTTTACTTGTCT
1 CATAGTTTACTTATCT
4712610 CATAGTTTACTTATCT
1 CATAGTTTACTTATCT
4712626 CA
1 CA
4712628 CTCTTTCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.47
Consensus pattern (16 bp):
CATAGTTTACTTATCT
Found at i:4712984 original size:863 final size:859
Alignment explanation
Indices: 4711380--4713107 Score: 3044
Period size: 863 Copynumber: 2.0 Consensus size: 859
4711370 TATTTTTAAA
* *
4711380 TATAATGTTAATAAATTATATAAGAGTATCCGTTAGGTTCTAGAAATGATATTTTTTTTTGGGTA
1 TATAATGTCAATAAATTATATAAGAGTATCCGTTAGGTTCTAGAAATGATATTTTTTCTTGGGTA
* * * *
4711445 ACACATTGATTTTCTCAAAGACACTTGGATTTAGCTAAAATTTCCCTTAATCGTTACAGTAATAA
66 ACACATTGACTTTCTCAAAGACACTTGAATTTAGCTAAAATTTCCATTAACCGTTACAGTAATAA
*
4711510 AATATTAAAAAAATAAAAAGAGACATATGGTTGTAAAAGTAGTGTTGAGAAACTTAACACGAGGT
131 AATATTAAAAAAATAAAAAGAGACATATGGTTGTAAAAGTAGTGTTGAGAAACTTAACACAAGGT
*
4711575 CCATTAGAAGAAAACAATGACTAGAATTTAAGATTTTATATTAAAAATTTTGAGTTTTCAAATTT
196 CCAATAGAAGAAAACAATGACTAGAATTTAAGATTTTATATTAAAAATTTTGAGTTTTCAAATTT
* *
4711640 ATATGATAGCTATTGTCCGCACCCTCCTAGATAGAATTTAGATGATGAGAGTCAAACGCATAAAA
261 ATATGATAGCTATTATCCGCACCCTCCTAGATAAAATTTAGATGATGAGAGTCAAACGCATAAAA
*
4711705 GCTAACATAGTTTACTTGTCTCACTCTTCCATAGATTACTTGTCTCATAGATTACTTGTCTCACT
326 GCTAACATAGTTTACTTGTCTCACTCTTCCATAGATTACTTGTCTCATAGATTACTTATCTCACT
4711770 CTTCCATCTTTCTTCCTTTTAATAAGGTTTCAAACACATTCACTGAAACCCTTAAGAAAACCAAA
391 CTTCCATCTTTCTTCCTTTTAATAAGGTTTCAAACACATTCACTGAAACCCTTAAGAAAACCAAA
4711835 AACAATCTACTACCAACCAACACGAGCCCAGTCCCACAACAACACCATTTCGCACATACCATAAT
456 AACAATCTACTACCAACCAACACGAGCCCAGTCCCACAACAACACCATTTCGCACATACCATAAT
* * *
4711900 TCAAACCAGAACATTTTACAGGTGTTAGTGTCTCAGACATTCAGAGCATTATGTCTATGGCGTCA
521 TCAAACCAAAAAATTTTACAGGTGTTAATGTCTCAGACATTCAGAGCATTATGTCTATGGCGTCA
4711965 CGATATCACGAGAGAAGAAAAATAATCAAATCCATCAAGAAATGAAAGGCTGATTCATTTGATGA
586 CGATATCACGAGAGAAGAAAAATAATCAAATCCATCAAGAAATGAAAGGCTGATTCATTTGATGA
*
4712030 TGATAAGTAGCTGTGGAAATTAATTATAAATATTTTATTGATAGAAAAATAATTATTTTTTTCAC
651 CGATAAGTAGCTGTGGAAATTAATTATAAATATTTTATTGATAGAAAAATAATTATTTTTTTCAC
*
4712095 AAGTTAGATCGAGTAAAATTGTAAATAATAAATTGATTTTTAGATAATATTTGAAAAGATACCCA
716 AAGTTAGATCGAATAAAATTGTAAATAATAAATTGATTTTTAGATAATATTTGAAAAGATACCCA
* *
4712160 ATAATTAGATTTAAATGTAATTATTTATACAATAACATGCTTAAATAATAATTACAATTGGTGGA
781 ATAATTAGATTTAAATGTAATTATTTATACAATAACATG-TTAAATAATAATTACAATTAGTGAA
4712225 TCCCATAGAATTGAG
845 TCCCATAGAATTGAG
* *
4712240 TATAATGTCGATAAATTATATAAGAGTATCCGTTAGGTTCTAGAAATGATGTTTTTTCTTGGGTA
1 TATAATGTCAATAAATTATATAAGAGTATCCGTTAGGTTCTAGAAATGATATTTTTTCTTGGGTA
* * *
4712305 ACACGTTGACTTTCTCAAAGACACTTGAATTTGGCTAAAACTTT-CATTAACCGTTATAGTAATA
66 ACACATTGACTTTCTCAAAGACACTTGAATTTAGCTAAAA-TTTCCATTAACCGTTACAGTAATA
*
4712369 AAATATTAAAAAAATAAAAAGAGACGTATGGTTGTAAAAGTAGTGTTGAGAAACTTAACACAAGG
130 AAATATTAAAAAAATAAAAAGAGACATATGGTTGTAAAAGTAGTGTTGAGAAACTTAACACAAGG
*
4712434 TCCAATAGAAGAAAACAATGACTAGAATTTAATATTTTATATTAAAAATTTTGAGTTTTCAAATT
195 TCCAATAGAAGAAAACAATGACTAGAATTTAAGATTTTATATTAAAAATTTTGAGTTTTCAAATT
* * *
4712499 TATATGATAGCTATTATCCGTACCCTCCTAGGTAAAATTTAGATGATGAGAGTCAAATGCATAAA
260 TATATGATAGCTATTATCCGCACCCTCCTAGATAAAATTTAGATGATGAGAGTCAAACGCATAAA
* *
4712564 AGCTAACATAGTTTACTTGTCTCACTCTTCCATAGTTTACTTGTCTCATAGTTTACTTATCTCAC
325 AGCTAACATAGTTTACTTGTCTCACTCTTCCATAGATTACTTGTCTCATAGATTACTTATCTCAC
* * *
4712629 TCTTTCATCTTTCTTCCTTTTATTAATAAGTTTTCAAACACATTTACTGAAACCCTTAAGAAAAC
390 TCTTCCATCTTTCTTCC--TT-TTAATAAGGTTTCAAACACATTCACTGAAACCCTTAAGAAAAC
*
4712694 CAAAAACAATCTACTACCAACCAACACGATCCCAGTCCCACAACAACACCATTTCGCACATACCA
452 CAAAAACAATCTACTACCAACCAACACGAGCCCAGTCCCACAACAACACCATTTCGCACATACCA
*
4712759 TAATTCAAACCAAAAAATTTTACAGGTGTTAATTTCTCAGACATTCAGAGCATTATGTCTATGGC
517 TAATTCAAACCAAAAAATTTTACAGGTGTTAATGTCTCAGACATTCAGAGCATTATGTCTATGGC
* *
4712824 GTCACGATATCACGAGAGAAGAAAAATAGTCAAATCCATCCAGAAATGAAAGGCTGATTCATTTG
582 GTCACGATATCACGAGAGAAGAAAAATAATCAAATCCATCAAGAAATGAAAGGCTGATTCATTTG
*
4712889 ATGACGATAAGTAGTTGTGGAAATTAATTATAAATATTTTATTGATAGAAAAATAATTATTTTTT
647 ATGACGATAAGTAGCTGTGGAAATTAATTATAAATATTTTATTGATAGAAAAATAATTATTTTTT
* *
4712954 TCACAAGTTAGATCGAATAAAATTGTAAATAATAAATTGATTTTTAGATAATATTTGAAAAGTTT
712 TCACAAGTTAGATCGAATAAAATTGTAAATAATAAATTGATTTTTAGATAATATTTGAAAAGATA
4713019 CCCAATAATTAGATTTAAATGTAATTATTTATACAATAACATGTTAAATAATAATTACAATTAGT
777 CCCAATAATTAGATTTAAATGTAATTATTTATACAATAACATGTTAAATAATAATTACAATTAGT
4713084 GAATCCCATAGAATTGAG
842 GAATCCCATAGAATTGAG
4713102 TATAAT
1 TATAAT
4713108 TAAAACATTC
Statistics
Matches: 824, Mismatches: 40, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
860 378 0.46
861 3 0.00
862 46 0.06
863 397 0.48
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (859 bp):
TATAATGTCAATAAATTATATAAGAGTATCCGTTAGGTTCTAGAAATGATATTTTTTCTTGGGTA
ACACATTGACTTTCTCAAAGACACTTGAATTTAGCTAAAATTTCCATTAACCGTTACAGTAATAA
AATATTAAAAAAATAAAAAGAGACATATGGTTGTAAAAGTAGTGTTGAGAAACTTAACACAAGGT
CCAATAGAAGAAAACAATGACTAGAATTTAAGATTTTATATTAAAAATTTTGAGTTTTCAAATTT
ATATGATAGCTATTATCCGCACCCTCCTAGATAAAATTTAGATGATGAGAGTCAAACGCATAAAA
GCTAACATAGTTTACTTGTCTCACTCTTCCATAGATTACTTGTCTCATAGATTACTTATCTCACT
CTTCCATCTTTCTTCCTTTTAATAAGGTTTCAAACACATTCACTGAAACCCTTAAGAAAACCAAA
AACAATCTACTACCAACCAACACGAGCCCAGTCCCACAACAACACCATTTCGCACATACCATAAT
TCAAACCAAAAAATTTTACAGGTGTTAATGTCTCAGACATTCAGAGCATTATGTCTATGGCGTCA
CGATATCACGAGAGAAGAAAAATAATCAAATCCATCAAGAAATGAAAGGCTGATTCATTTGATGA
CGATAAGTAGCTGTGGAAATTAATTATAAATATTTTATTGATAGAAAAATAATTATTTTTTTCAC
AAGTTAGATCGAATAAAATTGTAAATAATAAATTGATTTTTAGATAATATTTGAAAAGATACCCA
ATAATTAGATTTAAATGTAATTATTTATACAATAACATGTTAAATAATAATTACAATTAGTGAAT
CCCATAGAATTGAG
Found at i:4733717 original size:9 final size:9
Alignment explanation
Indices: 4733703--4733760 Score: 89
Period size: 9 Copynumber: 6.4 Consensus size: 9
4733693 TTTGGTTAAA
4733703 AATTAACCG
1 AATTAACCG
4733712 AATTAACCG
1 AATTAACCG
*
4733721 AATTACCCG
1 AATTAACCG
4733730 AATTAACCG
1 AATTAACCG
* *
4733739 GATTACCCG
1 AATTAACCG
4733748 AATTAACCG
1 AATTAACCG
4733757 AATT
1 AATT
4733761 GAATCACTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:4733730 original size:18 final size:18
Alignment explanation
Indices: 4733703--4733760 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
4733693 TTTGGTTAAA
*
4733703 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
4733721 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
4733739 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
4733757 AATT
1 AATT
4733761 GAATCACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:4733811 original size:6 final size:6
Alignment explanation
Indices: 4733800--4733847 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
4733790 ACTTTTAGAC
* *
4733800 TTTAGT TTTAGT TTTAGT TTTAGT TTTAGAAT TTTATT TTTATT TTTA
1 TTTAGT TTTAGT TTTAGT TTTAGT TTTAG--T TTTAGT TTTAGT TTTA
4733848 TTTATTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 34 0.87
8 5 0.13
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (6 bp):
TTTAGT
Found at i:4733823 original size:18 final size:19
Alignment explanation
Indices: 4733784--4733847 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
4733774 ATTAAATTAT
*
4733784 TTTTAGACTTTTAGACTTTAG
1 TTTTAGA-TTTTAG-TTTTAG
4733805 TTTTAG-TTTTAGTTTTAG
1 TTTTAGATTTTAGTTTTAG
* *
4733823 TTTTAGAATTTTATTTTTAT
1 TTTTAG-ATTTTAGTTTTAG
4733843 TTTTA
1 TTTTA
4733848 TTTATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 11 0.29
19 6 0.16
20 15 0.39
21 6 0.16
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTTAGATTTTAGTTTTAG
Found at i:4736152 original size:7 final size:7
Alignment explanation
Indices: 4736140--4736164 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4736130 TGAAGTTTTA
4736140 TTTTTCT
1 TTTTTCT
4736147 TTTTTCT
1 TTTTTCT
4736154 TTTTTCT
1 TTTTTCT
4736161 TTTT
1 TTTT
4736165 GATTTCTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:4764268 original size:12 final size:12
Alignment explanation
Indices: 4764249--4764278 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4764239 TCTGATGGCC
4764249 CCGAGGCGGAGG
1 CCGAGGCGGAGG
*
4764261 CGGAGGCGGAGG
1 CCGAGGCGGAGG
4764273 CCGAGG
1 CCGAGG
4764279 ATGCGCCCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.60, T:0.00
Consensus pattern (12 bp):
CCGAGGCGGAGG
Found at i:4773634 original size:13 final size:13
Alignment explanation
Indices: 4773591--4773635 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4773581 AAAATTAAAA
4773591 TATTA-AATAATT
1 TATTATAATAATT
* *
4773603 TATTAAAATAATA
1 TATTATAATAATT
*
4773616 AATTATAATAATT
1 TATTATAATAATT
4773629 TATTATA
1 TATTATA
4773636 TGACTAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTATAATAATT
Found at i:4778668 original size:27 final size:27
Alignment explanation
Indices: 4778634--4778695 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
4778624 AAAAAATAAT
4778634 CAAAATATTATAACTTTTTTTATTTAC
1 CAAAATATTATAACTTTTTTTATTTAC
* *
4778661 CAAAATATTATAATTTTTTTTATTTAT
1 CAAAATATTATAACTTTTTTTATTTAC
4778688 CAAAATAT
1 CAAAATAT
4778696 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (27 bp):
CAAAATATTATAACTTTTTTTATTTAC
Found at i:4779135 original size:37 final size:37
Alignment explanation
Indices: 4779094--4779196 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
4779084 ACTATTTACT
* *
4779094 TAATTTTTTAAATTAAAAAAGAGTTATTAAATGAGAA
1 TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
4779131 TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
1 TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
*
4779168 TAGTTTATTAAATTAAAATAGAGTTATTA
1 TAATTTATTAAATTAAAATAGAGTTATTA
4779197 CTTAATTAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.40
Consensus pattern (37 bp):
TAATTTATTAAATTAAAATAGAGTTATTAAATGAGAA
Found at i:4779140 original size:18 final size:18
Alignment explanation
Indices: 4779117--4779180 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
4779107 TAAAAAAGAG
4779117 TTATTAAATGAGAATAAT
1 TTATTAAATGAGAATAAT
* * *
4779135 TTATTAAATTAAAATAGAG
1 TTATTAAATGAGAATA-AT
*
4779154 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAAT
4779172 TTATTAAAT
1 TTATTAAAT
4779181 TAAAATAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 23 0.61
19 15 0.39
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
TTATTAAATGAGAATAAT
Found at i:4779311 original size:18 final size:18
Alignment explanation
Indices: 4779288--4779351 Score: 101
Period size: 18 Copynumber: 3.5 Consensus size: 18
4779278 TAAAATAGAG
4779288 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
* *
4779306 TTATTAAATTAAAATAGAT
1 TTATTAAATGAGAATAG-T
4779325 TTATTAAATGAGAATAGT
1 TTATTAAATGAGAATAGT
4779343 TTATTAAAT
1 TTATTAAAT
4779352 TAAAATAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 25 0.61
19 16 0.39
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (18 bp):
TTATTAAATGAGAATAGT
Found at i:4779320 original size:37 final size:37
Alignment explanation
Indices: 4779272--4779367 Score: 174
Period size: 37 Copynumber: 2.6 Consensus size: 37
4779262 TTTAATTTTT
*
4779272 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
*
4779309 TTAAATTAAAATAGATTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
4779346 TTAAATTAAAATAGAATTATTA
1 TTAAATTAAAATAGAATTATTA
4779368 CTTAATTAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (37 bp):
TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
Found at i:4779331 original size:171 final size:169
Alignment explanation
Indices: 4779014--4779382 Score: 623
Period size: 171 Copynumber: 2.2 Consensus size: 169
4779004 ATAAGCTCTT
*
4779014 AAATAGAGTTATTACTTAATTATAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATTA
1 AAATAGAGTTATTACTTAATTAGAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATTA
4779079 AGTAAACTATTTACTTAATTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTAAAT
66 AGTAAACTATTTACTTAATTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTAAAT
4779144 TAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
131 TAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
* *
4779183 AAATAGAGTTATTACTTAATTAGAATTCTCTCATTTAGTAACTCTATTTTAATTTAAAAAAATTA
1 AAATAGAGTTATTACTTAATTAGAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATT-
* * * *
4779248 AATTAAACT-TTTAATTTAATTTTTTTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTATTA
65 AAGTAAACTATTT-ACTTAA-TTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTA
*
4779312 AATTAAAATAGATTTATTAAATGAGAATAGTTTATTAAATTA
128 AATTAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
*
4779354 AAATAGAATTATTACTTAATTAGAATTCT
1 AAATAGAGTTATTACTTAATTAGAATTCT
4779383 AAGTATCTTA
Statistics
Matches: 188, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
169 64 0.34
170 13 0.07
171 111 0.59
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (169 bp):
AAATAGAGTTATTACTTAATTAGAATTCTCTCAATTAATAACTCTATTTTAATTTAAAAAAATTA
AGTAAACTATTTACTTAATTTTTTAAATTAAAAAAGAGTTATTAAATGAGAATAATTTATTAAAT
TAAAATAGAGTTATTAAATGAGAATAGTTTATTAAATTA
Found at i:4779358 original size:18 final size:19
Alignment explanation
Indices: 4779096--4779367 Score: 132
Period size: 19 Copynumber: 14.4 Consensus size: 19
4779086 TATTTACTTA
* *
4779096 ATTTTTTAAATTAAAAAAG
1 ATTTATTAAATTAAAATAG
* * *
4779115 AGTTATTAAATGAGAATA-
1 ATTTATTAAATTAAAATAG
4779133 ATTTATTAAATTAAAATAG
1 ATTTATTAAATTAAAATAG
* * *
4779152 AGTTATTAAATGAGAATAG
1 ATTTATTAAATTAAAATAG
4779171 -TTTATTAAATTAAAATAG
1 ATTTATTAAATTAAAATAG
* * *
4779189 AGTTATT-ACTT-AATTAG
1 ATTTATTAAATTAAAATAG
* * * * * **
4779206 AATTCTCTCATTTAGTAACTCT
1 ATTTAT-TAAATTA--AAATAG
* *
4779228 A-TT-TTAATTTAAAA-AA
1 ATTTATTAAATTAAAATAG
* **
4779244 ATTAAATTAAACTTTTAATTTA-
1 ATT-TATTAAA---TTAAAATAG
*
4779266 ATTTTTTTAAATTAAAATAG
1 A-TTTATTAAATTAAAATAG
* * *
4779286 AGTTATTAAATGAGAATAG
1 ATTTATTAAATTAAAATAG
4779305 -TTTATTAAATTAAAATAG
1 ATTTATTAAATTAAAATAG
* *
4779323 ATTTATTAAATGAGAATAG
1 ATTTATTAAATTAAAATAG
4779342 -TTTATTAAATTAAAATAG
1 ATTTATTAAATTAAAATAG
*
4779360 AATTATTA
1 ATTTATTA
4779368 CTTAATTAGA
Statistics
Matches: 188, Mismatches: 47, Indels: 36
0.69 0.17 0.13
Matches are distributed among these distances:
16 1 0.01
17 12 0.06
18 65 0.35
19 89 0.47
20 2 0.01
21 2 0.01
22 14 0.07
23 3 0.02
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTTATTAAATTAAAATAG
Found at i:4781913 original size:37 final size:37
Alignment explanation
Indices: 4781872--4781970 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
4781862 TTTGAGTGCT
*
4781872 TCTGATCAAGTAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4781909 TCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
**
4781946 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGAAACAAAGTGATAAGTG
4781971 ATTATACGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.19
36 4 0.07
37 42 0.74
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.25
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:4782731 original size:27 final size:27
Alignment explanation
Indices: 4782701--4782762 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
4782691 TTTTTTGGGT
*
4782701 ATATTTTGATAAATAAAAAAATTTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
4782728 ATATTTTGATAAATAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAGTTATA
4782755 ATATTTTG
1 ATATTTTG
4782763 GTTTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTTATA
Found at i:4796889 original size:21 final size:21
Alignment explanation
Indices: 4796865--4796907 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4796855 TAATAATAAA
4796865 TTTTAAAAATCTTTTAATTTT
1 TTTTAAAAATCTTTTAATTTT
** **
4796886 TTTTCCACTTCTTTTAATTTT
1 TTTTAAAAATCTTTTAATTTT
4796907 T
1 T
4796908 CATCTTTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAAAAATCTTTTAATTTT
Found at i:4797474 original size:14 final size:14
Alignment explanation
Indices: 4797455--4797481 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4797445 GGTCATTTAG
4797455 CCCAACCAAACTGC
1 CCCAACCAAACTGC
4797469 CCCAACCAAACTG
1 CCCAACCAAACTG
4797482 GCCCGGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.48, G:0.07, T:0.07
Consensus pattern (14 bp):
CCCAACCAAACTGC
Found at i:4802605 original size:14 final size:14
Alignment explanation
Indices: 4802586--4802617 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4802576 AGGTCATTTA
4802586 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4802600 GCCCAACCAAACTG
1 GCCCAACCAAACTG
4802614 GCCC
1 GCCC
4802618 GGTAATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:4820311 original size:43 final size:43
Alignment explanation
Indices: 4820248--4820403 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
4820238 TATCGTAACA
* * * * ***
4820248 ATGCC-ATATCCCAGATATGGTCTTATATGTAATCTTGTATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* *
4820290 ATGCCAATATCCCTGCCATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
* * *
4820333 ATGCCAATGTCCCAGACATGGTCTTACACGAATTCTCATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
*
4820376 ATGCC-ATATCCCAGATATGGTCTTACAC
1 ATGCCAATATCCCAGACATGGTCTTACAC
4820404 ATAATCTCGG
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 26 0.27
43 71 0.73
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:4827782 original size:21 final size:21
Alignment explanation
Indices: 4827756--4827989 Score: 167
Period size: 21 Copynumber: 11.3 Consensus size: 21
4827746 GTGTTTTACT
*
4827756 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTAAGCTCTTACGAGC
* *
4827777 TTCTGTTCAA-CTCTTATGAGT
1 TTCTGTT-AAGCTCTTACGAGC
* *
4827798 TTTTGTTTAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
* *
4827819 TTCTGTTCAGCT-TT-CAAGC
1 TTCTGTTAAGCTCTTACGAGC
* * * *
4827838 TTCTACTCAA-CTCTTATGAGT
1 TTCT-GTTAAGCTCTTACGAGC
* *
4827859 TTCTATTTAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
*
4827880 TTCTGTTTAGCT-TT-CGAGC
1 TTCTGTTAAGCTCTTACGAGC
* ** *
4827899 TTCAGTTCAA-CTCTTATAAGT
1 TTCTGTT-AAGCTCTTACGAGC
* * *
4827920 TTTTGTTTAGATCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
* * *
4827941 TTCTGTTCAGCTCTTATGAGA
1 TTCTGTTAAGCTCTTACGAGC
*
4827962 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGC
4827983 TTCTGTT
1 TTCTGTT
4827990 GGTGTATTCA
Statistics
Matches: 164, Mismatches: 39, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
19 23 0.14
20 15 0.09
21 124 0.76
22 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (21 bp):
TTCTGTTAAGCTCTTACGAGC
Found at i:4827811 original size:42 final size:42
Alignment explanation
Indices: 4827756--4827989 Score: 226
Period size: 42 Copynumber: 5.7 Consensus size: 42
4827746 GTGTTTTACT
* * * *
4827756 TTCTGTTAAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
*
4827798 TTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCT-TTCA--AGC
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTT-ATGAGC
** * * * * * * *
4827838 TTCTACTCAACTCTTATGAGTTTCTATTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
* * * *
4827880 TTCTGTTTAGCT-TT-CGAGCTTCAGTTCAACTCTTATAAGT
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
* * *
4827920 TTTTGTTTAGATCTTACGAGCTTCTGTTCAGCTCTTATGAGA
1 TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
*
4827962 TTCTGTTCAGCTCTTACGAGCTTCTGTT
1 TTCTGTTTAGCTCTTACGAGCTTCTGTT
4827990 GGTGTATTCA
Statistics
Matches: 150, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
40 54 0.36
41 8 0.05
42 88 0.59
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTACGAGCTTCTGTTCAGCTCTTATGAGC
Found at i:4827841 original size:61 final size:61
Alignment explanation
Indices: 4827774--4827952 Score: 277
Period size: 61 Copynumber: 2.9 Consensus size: 61
4827764 AGCTCTTATG
4827774 AGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTCA
1 AGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTCA
** * * * *
4827835 AGCTTCTACTCAACTCTTATGAGTTTCTATTTAGCTCTTACGAGCTTCTGTTTAGCTTTCG
1 AGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTCA
* * *
4827896 AGCTTCAGTTCAACTCTTATAAGTTTTTGTTTAGATCTTACGAGCTTCTGTTCAGCT
1 AGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCT
4827953 CTTATGAGAT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 104 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (61 bp):
AGCTTCTGTTCAACTCTTATGAGTTTTTGTTTAGCTCTTACGAGCTTCTGTTCAGCTTTCA
Found at i:4828244 original size:112 final size:112
Alignment explanation
Indices: 4828047--4828270 Score: 448
Period size: 112 Copynumber: 2.0 Consensus size: 112
4828037 CTATTATCCG
4828047 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGGTGATTTATCTAATGAATTTTAAAGACATGT
1 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGGTGATTTATCTAATGAATTTTAAAGACATGT
4828112 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
66 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
4828159 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGGTGATTTATCTAATGAATTTTAAAGACATGT
1 TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGGTGATTTATCTAATGAATTTTAAAGACATGT
4828224 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
66 TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
4828271 GTTATGTATG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 112 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (112 bp):
TAAGTTGTTCTTCGAATGGAAAAATTTCGGTAAGGTGATTTATCTAATGAATTTTAAAGACATGT
TATTCATTTTTATATTGATTTGAAAATAGATGTATTTATTAATAGAA
Found at i:4828312 original size:21 final size:20
Alignment explanation
Indices: 4828278--4828322 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
4828268 GAAGTTATGT
*
4828278 ATGACAGGAAATTGTCAGTGA
1 ATGACAGGAAATTGACA-TGA
**
4828299 ATGACAGGGGATTGACATGA
1 ATGACAGGAAATTGACATGA
4828319 ATGA
1 ATGA
4828323 TTTTATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.22
Consensus pattern (20 bp):
ATGACAGGAAATTGACATGA
Found at i:4830489 original size:42 final size:42
Alignment explanation
Indices: 4830394--4830496 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
4830384 TTCCATTCAG
* * * *
4830394 CTCATTGAGC-TTCTGTTTAACCCTTCTTGGTTTTTGTTCAGCT
1 CTCA-TGAGCTTTC-GTTCAACCCTTATGGGTTTCTGTTCAGCT
* ** *
4830437 CTTACAAGCTTTCGTTCAACCCTTATGGGTTTCTGTTTAGCT
1 CTCATGAGCTTTCGTTCAACCCTTATGGGTTTCTGTTCAGCT
*
4830479 CTCATGAGCTTTTGTTCA
1 CTCATGAGCTTTCGTTCA
4830497 GCCTTCGGGT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
42 41 0.87
43 6 0.13
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.46
Consensus pattern (42 bp):
CTCATGAGCTTTCGTTCAACCCTTATGGGTTTCTGTTCAGCT
Found at i:4832185 original size:50 final size:51
Alignment explanation
Indices: 4832061--4832309 Score: 279
Period size: 50 Copynumber: 4.8 Consensus size: 51
4832051 GATAATAACA
* * ** * * *
4832061 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TCTTGTGATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCT-ACGG
* *
4832112 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTACGG
* * *
4832162 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCT-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTACGG
* *
4832212 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-TACGG
* *
4832267 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4832310 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
50 87 0.51
51 34 0.20
52 4 0.02
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTACGG
Found at i:4832247 original size:100 final size:104
Alignment explanation
Indices: 4832060--4832309 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
4832050 TGATAATAAC
** *
4832060 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTTGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
4832125 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
4832162 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
4832225 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4832267 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4832310 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Done.