Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 25 of 210
Found at i:8359257 original size:130 final size:128
Alignment explanation
Indices: 8358964--8359407 Score: 590
Period size: 130 Copynumber: 3.4 Consensus size: 128
8358954 TTCCAGTAAA
* * * *
8358964 AAACGCCGCTAAAGGCCGAGACCTTTAGCGGCGC-TTCCAACACAAATGCCGCCAAAGACCAAGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCC-ACACAAACGCCGCTAAAGACCAAGA
*
8359028 CCTTTAGCGGCGCTTTCCACATAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCCTTTT-ATA
65 CCTTTAGCGGCGC-TTCCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-CTTTTAATA
8359092 C
128 C
* *
8359093 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCATACAAACGCCGCTAAAGACCAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
* * *
8359158 CTGTAGCGGCGCTTCCAACACAAACGCCGCCAAAAGACCAAAACCTTTAGCGGCGCTTTTAATAC
66 CTTTAGCGGCGCTTCC-ACACAAACGCCG-CTAAAGACCAAGACCTTTAGCGGCGCTTTTAATAC
* * *
8359223 AAACGCCGCTAAAGACTAAGACCTTTAGCGGCGCTTTCCACACAAACGCCGCTATAGATCAAGAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
** *
8359288 CTTTAGCGGCGCTTCCCACACAAACGCCGCTAAAGA-CAACGACCATTTAGCGGCGCTTACACTA
66 CTTTAGCGGCGCTT-CCACACAAACGCCGCTAAAGACCAA-GACC-TTTAGCGGCGCTTTTAATA
8359352 C
128 C
** * * *
8359353 AAACGCTTCTAAAGATCGAGACCTTTAGCGGCGCTTTTCC-CAAAAACGCCGCTAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTCCACACAAACGCCGCTAA
8359408 TTTTGGCGGA
Statistics
Matches: 279, Mismatches: 28, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
128 7 0.03
129 91 0.33
130 174 0.62
131 7 0.03
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (128 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCACACAAACGCCGCTAAAGACCAAGAC
CTTTAGCGGCGCTTCCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTAATAC
Found at i:8359667 original size:9 final size:9
Alignment explanation
Indices: 8359653--8359698 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
8359643 GTCTAAGACG
8359653 GCGGCTGCT
1 GCGGCTGCT
8359662 GCGGCTGCT
1 GCGGCTGCT
*
8359671 GCGGCTGTT
1 GCGGCTGCT
*
8359680 GTGGCTGCT
1 GCGGCTGCT
*
8359689 GCGACTGCT
1 GCGGCTGCT
8359698 G
1 G
8359699 AAACATATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.02, C:0.28, G:0.43, T:0.26
Consensus pattern (9 bp):
GCGGCTGCT
Found at i:8365413 original size:9 final size:9
Alignment explanation
Indices: 8365385--8365430 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
8365375 GATTTATGTA
8365385 TTATGTAAG
1 TTATGTAAG
*
8365394 TTGTGT-A-
1 TTATGTAAG
8365401 TTATGTAAG
1 TTATGTAAG
8365410 TTATGTAAG
1 TTATGTAAG
8365419 TTATGTAAG
1 TTATGTAAG
8365428 TTA
1 TTA
8365431 AATATTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 26 0.79
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8365424 original size:18 final size:16
Alignment explanation
Indices: 8365378--8365445 Score: 82
Period size: 16 Copynumber: 4.1 Consensus size: 16
8365368 TATATATGAT
8365378 TTATGTATTATGTAAG
1 TTATGTATTATGTAAG
*
8365394 TTGTGTATTATGTAAG
1 TTATGTATTATGTAAG
8365410 TTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAG
**
8365428 TTAAATATTTATGTAAG
1 TTATGTA-TTATGTAAG
8365445 T
1 T
8365446 CCGACAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
16 20 0.44
17 12 0.27
18 13 0.29
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (16 bp):
TTATGTATTATGTAAG
Found at i:8365508 original size:22 final size:22
Alignment explanation
Indices: 8365482--8365523 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8365472 TAATTTAGTT
*
8365482 ATGTACGTTACGTATCATATTA
1 ATGTAAGTTACGTATCATATTA
* *
8365504 ATGTAAGTTATGTATTATAT
1 ATGTAAGTTACGTATCATAT
8365524 AAGTTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTAAGTTACGTATCATATTA
Found at i:8365530 original size:9 final size:9
Alignment explanation
Indices: 8365504--8365598 Score: 81
Period size: 9 Copynumber: 10.6 Consensus size: 9
8365494 TATCATATTA
8365504 ATGTAAGTT
1 ATGTAAGTT
8365513 ATGT-A-TT
1 ATGTAAGTT
*
8365520 ATATAAGTT
1 ATGTAAGTT
*
8365529 ATTTAAGTT
1 ATGTAAGTT
8365538 ATGTAAGTT
1 ATGTAAGTT
*
8365547 GTGTAAGTT
1 ATGTAAGTT
*
8365556 ATGTATAATATT
1 ATG--TAA-GTT
*
8365568 AACGTAAGTT
1 -ATGTAAGTT
8365578 ATGT-A-TT
1 ATGTAAGTT
8365585 ATGTAAGTT
1 ATGTAAGTT
8365594 ATGTA
1 ATGTA
8365599 TAATATTAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
7 11 0.16
8 4 0.06
9 42 0.61
10 2 0.03
11 6 0.09
12 2 0.03
13 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:8365544 original size:18 final size:18
Alignment explanation
Indices: 8365504--8365598 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 18
8365494 TATCATATTA
8365504 ATGTAAGTTATGT-A-TT
1 ATGTAAGTTATGTAAGTT
* *
8365520 ATATAAGTTATTTAAGTT
1 ATGTAAGTTATGTAAGTT
*
8365538 ATGTAAGTTGTGTAAGTT
1 ATGTAAGTTATGTAAGTT
* *
8365556 ATGTATAATATTAACGTAAGTT
1 ATG--TAA-GTT-ATGTAAGTT
8365578 ATGT-A-TTATGTAAGTT
1 ATGTAAGTTATGTAAGTT
8365594 ATGTA
1 ATGTA
8365599 TAATATTAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
16 23 0.37
17 3 0.05
18 20 0.32
19 1 0.02
20 4 0.06
21 2 0.03
22 10 0.16
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (18 bp):
ATGTAAGTTATGTAAGTT
Found at i:8365577 original size:22 final size:21
Alignment explanation
Indices: 8365549--8365623 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 21
8365539 TGTAAGTTGT
8365549 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
8365570 CGTAAGTTATGTAT--TA-T--
1 -GTAAGTTATGTATAATATTAA
8365587 GTAAGTTATGTATAATATTAA
1 GTAAGTTATGTATAATATTAA
8365608 TGTGATAGTTATGTAT
1 -GT-A-AGTTATGTAT
8365624 TATGTTAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
16 13 0.29
18 2 0.04
19 2 0.04
20 2 0.04
22 15 0.33
23 1 0.02
24 10 0.22
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (21 bp):
GTAAGTTATGTATAATATTAA
Found at i:8365700 original size:69 final size:69
Alignment explanation
Indices: 8365625--8365762 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
8365615 GTTATGTATT
* *
8365625 ATGTTAATATTTAGAAAATAGCATTTACAATTATTTCTAAAATTATAAAATTTATTATTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
8365690 ATAG
66 ATAG
*
8365694 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTTTTGAAAAT
1 ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
8365759 ATAG
66 ATAG
8365763 GTTACCATGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (69 bp):
ATGTTAATATTTAGAAAATAACATTTACAATTATTTCTAAAATTATAAAAATTATTATTGAAAAT
ATAG
Found at i:8367004 original size:12 final size:12
Alignment explanation
Indices: 8366987--8367012 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8366977 TTTTTTACTA
8366987 AAGCTAGAGATC
1 AAGCTAGAGATC
8366999 AAGCTAGAGATC
1 AAGCTAGAGATC
8367011 AA
1 AA
8367013 CNNNNNNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (12 bp):
AAGCTAGAGATC
Found at i:8367163 original size:13 final size:13
Alignment explanation
Indices: 8367145--8367181 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
8367135 TACTATAAAC
8367145 AATAATTGTTTAT
1 AATAATTGTTTAT
8367158 AATAATTGTTTAT
1 AATAATTGTTTAT
8367171 AATAATTGTTT
1 AATAATTGTTT
8367182 TTTTAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AATAATTGTTTAT
Found at i:8367971 original size:11 final size:11
Alignment explanation
Indices: 8367929--8367971 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
8367919 GGGTTCAAGA
*
8367929 TTTGGGGGATT
1 TTTGGGGAATT
8367940 TTTGGGGAAATT
1 TTTGGGG-AATT
*
8367952 TTGAGGGGAATT
1 TT-TGGGGAATT
8367964 TTTGGGGA
1 TTTGGGGA
8367972 GAAAAGTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 12 0.44
12 11 0.41
13 4 0.15
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (11 bp):
TTTGGGGAATT
Found at i:8369162 original size:15 final size:15
Alignment explanation
Indices: 8369144--8369216 Score: 73
Period size: 15 Copynumber: 5.0 Consensus size: 15
8369134 ACCCTTGACA
8369144 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
8369159 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
* *
8369174 CCCCCTAAACCCT-AAC
1 --CCCTAACCCCTAAAT
*
8369190 CCCTAA---TTAAAT
1 CCCTAACCCCTAAAT
8369202 CCCTAACCCCTAAAT
1 CCCTAACCCCTAAAT
8369217 TACTAACCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 1 0.02
12 8 0.17
14 6 0.13
15 20 0.43
16 2 0.04
17 10 0.21
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAACCCCTAAAT
Found at i:8369207 original size:19 final size:18
Alignment explanation
Indices: 8369179--8369235 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 18
8369169 TAAATCCCCC
8369179 TAAACCCTAACCCCTAAT
1 TAAACCCTAACCCCTAAT
8369197 TAAATCCCTAACCCCTAAAT
1 TAAA-CCCTAACCCCT-AAT
8369217 TACTAACCCTAACCCCTAA
1 TA--AACCCTAACCCCTAA
8369236 ACCTTAATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.11
19 11 0.31
20 7 0.20
21 11 0.31
22 2 0.06
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAACCCTAACCCCTAAT
Found at i:8369214 original size:7 final size:7
Alignment explanation
Indices: 8369144--8369195 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
8369134 ACCCTTGACA
8369144 CCCTAAC
1 CCCTAAC
*
8369151 CCCTAAAT
1 CCCT-AAC
8369159 CCCTAAC
1 CCCTAAC
8369166 CCCTAAATCC
1 CCCT-AA--C
*
8369176 CCCTAAA
1 CCCTAAC
8369183 CCCTAAC
1 CCCTAAC
8369190 CCCTAA
1 CCCTAA
8369196 TTAAATCCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 22 0.59
8 8 0.22
9 2 0.05
10 5 0.14
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (7 bp):
CCCTAAC
Found at i:8369228 original size:21 final size:19
Alignment explanation
Indices: 8369179--8369236 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 19
8369169 TAAATCCCCC
8369179 TAAACCCTAACCCCT-AAT
1 TAAACCCTAACCCCTAAAT
8369197 TAAATCCCTAACCCCTAAAT
1 TAAA-CCCTAACCCCTAAAT
8369217 TACTAACCCTAACCCCTAAA
1 TA--AACCCTAACCCCTAAA
8369237 CCTTAATCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.11
19 11 0.31
20 5 0.14
21 14 0.39
22 2 0.06
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAACCCTAACCCCTAAAT
Found at i:8369901 original size:41 final size:41
Alignment explanation
Indices: 8369855--8370009 Score: 117
Period size: 41 Copynumber: 3.8 Consensus size: 41
8369845 GTTTCCATCA
*
8369855 AAACGCCGCT-AAAACTC-CAACATTAGCGGCGCTTTACAAAC
1 AAACGCCACTAAAAAC-CACAACATTAGCGGCGC-TTACAAAC
** *
8369896 AAACGCCACTAAAAACCTTAAC-TATAGCGGCACATTATC-AA-
1 AAACGCCACTAAAAACCACAACAT-TAGCGGCGC-TTA-CAAAC
* * * *
8369937 AAACACCGCTAAAAGCC-CTAA-AGTTAGCGGCGCTTAGAAAC
1 AAACGCCACTAAAAACCAC-AACA-TTAGCGGCGCTTACAAAC
*
8369978 AAACGCCACTAAAAACCATAACATTAGCGGCG
1 AAACGCCACTAAAAACCACAACATTAGCGGCG
8370010 TTTGTTTAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
40 5 0.06
41 60 0.67
42 23 0.26
43 1 0.01
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.16
Consensus pattern (41 bp):
AAACGCCACTAAAAACCACAACATTAGCGGCGCTTACAAAC
Found at i:8369925 original size:42 final size:41
Alignment explanation
Indices: 8369878--8370009 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
8369868 ACTCCAACAT
8369878 TAGCGGCGCTTTACAAACAAACGCCACTAAAAACCTTAACTA
1 TAGCGGCGC-TTACAAACAAACGCCACTAAAAACCTTAACTA
* * * * * *
8369920 TAGCGGCACATTATC-AA-AAACACCGCTAAAAGCCCTAAAGT-
1 TAGCGGCGC-TTA-CAAACAAACGCCACTAAAA-ACCTTAACTA
* *
8369961 TAGCGGCGCTTAGAAACAAACGCCACTAAAAACCATAAC-A
1 TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
8370001 TTAGCGGCG
1 -TAGCGGCG
8370010 TTTGTTTAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 13
0.71 0.15 0.13
Matches are distributed among these distances:
40 9 0.13
41 40 0.58
42 19 0.28
43 1 0.01
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.17
Consensus pattern (41 bp):
TAGCGGCGCTTACAAACAAACGCCACTAAAAACCTTAACTA
Found at i:8370154 original size:40 final size:40
Alignment explanation
Indices: 8370072--8370155 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
8370062 GGGTTTGGAG
* * * * * *
8370072 TTTTTGTGGCGTTTTATCATAAGCGCCGCTAAAGGCCTAT
1 TTTTTGTGGCGCTTTATAACAAACGCCGCTAAAGCCCGAT
**
8370112 TTTTTGTGGCGCTTTATAACAAACGCCGCTAATTCCCGAT
1 TTTTTGTGGCGCTTTATAACAAACGCCGCTAAAGCCCGAT
8370152 TTTT
1 TTTT
8370156 ACTGGCGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTTTGTGGCGCTTTATAACAAACGCCGCTAAAGCCCGAT
Found at i:8374067 original size:14 final size:14
Alignment explanation
Indices: 8374040--8374083 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
8374030 CATATTAGGG
*
8374040 AATA-AAATATATA
1 AATATAAATAAATA
8374053 AATATAAATAAATA
1 AATATAAATAAATA
8374067 AATATATAA-AAATA
1 AATATA-AATAAATA
8374081 AAT
1 AAT
8374084 TGAATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 4 0.14
14 22 0.79
15 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAAATAAATA
Found at i:8375511 original size:11 final size:11
Alignment explanation
Indices: 8375497--8375534 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
8375487 TCAAATTTAT
8375497 TCTCAATTTCC
1 TCTCAATTTCC
*
8375508 TCTCAATTTGC
1 TCTCAATTTCC
*
8375519 TCTCAAATTCC
1 TCTCAATTTCC
8375530 T-TCAA
1 TCTCAA
8375535 AATTTCTCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.24, C:0.32, G:0.03, T:0.42
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:8375548 original size:11 final size:12
Alignment explanation
Indices: 8375484--8375548 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
8375474 AGCTAATCCT
8375484 CTCTCAAATTTA
1 CTCTCAAATTTA
* *
8375496 TTCTC-AATTTC
1 CTCTCAAATTTA
*
8375507 CTCTC-AATTTG
1 CTCTCAAATTTA
*
8375518 CTCTCAAA-TTC
1 CTCTCAAATTTA
8375529 CT-TCAAAATTT-
1 CTCTC-AAATTTA
8375540 CTCTCAAAT
1 CTCTCAAAT
8375549 CCATATTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 32 0.73
12 10 0.23
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTA
Found at i:8375650 original size:17 final size:18
Alignment explanation
Indices: 8375616--8375650 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8375606 TTTTAAATGA
*
8375616 TTTTAAAAAAATTATTAT
1 TTTTAAAAAAAATATTAT
8375634 TTTTAAAAAAAAT-TTAT
1 TTTTAAAAAAAATATTAT
8375651 ACCGTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAAAAAATATTAT
Found at i:8377866 original size:5 final size:5
Alignment explanation
Indices: 8377856--8377883 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8377846 TAATTGCATT
8377856 CATAA CATAA CATAA CATAA CATAA CAT
1 CATAA CATAA CATAA CATAA CATAA CAT
8377884 TTTCATGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (5 bp):
CATAA
Found at i:8386582 original size:25 final size:25
Alignment explanation
Indices: 8386534--8386598 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 25
8386524 ATAAAAAATA
*
8386534 ACCAAAATGTTATAATTTTTTTTATTT
1 ACCAAAAT-ATAT-ATTTTTTTTATTT
*
8386561 ATCAAAATATATATTTTTTTTATTT
1 ACCAAAATATATATTTTTTTTATTT
8386586 ACCAAAATATATA
1 ACCAAAATATATA
8386599 AAAGAAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 25 0.71
26 3 0.09
27 7 0.20
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (25 bp):
ACCAAAATATATATTTTTTTTATTT
Found at i:8386760 original size:4 final size:4
Alignment explanation
Indices: 8386751--8386885 Score: 84
Period size: 4 Copynumber: 33.0 Consensus size: 4
8386741 GAAGGAGAGG
* * *
8386751 GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA GAAA GAAA GAAA
* *
8386799 GAAA GAAAA GGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA G-AA GAAAA
1 GAAA G-AAA -GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAAA G-AAA
* *
8386848 GGAAA GGAGAA GAAA -AAG GAAA GAAA GAAG GAAA GAAA
1 -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
8386886 AGGAAAGGAG
Statistics
Matches: 106, Mismatches: 12, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
3 14 0.13
4 61 0.58
5 27 0.25
6 4 0.04
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:8386776 original size:31 final size:32
Alignment explanation
Indices: 8386741--8386843 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 32
8386731 CAGAAGGACT
8386741 GAAGGAGAGGGAAAGAAAGAAAGAAAGAAAG-
1 GAAGGAGAGGGAAAGAAAGAAAGAAAGAAAGA
*
8386772 GAAGGAGA-GGAAAGAAAGAAAAAGAAGGAAAGA
1 GAAGGAGAGGGAAAGAAAG--AAAGAAAGAAAGA
* * *
8386805 AAAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAA
1 GAAGGAGAGG-GAA-AGAAAGAAAGAAAGAAAG-A
8386840 GAAG
1 GAAG
8386844 AAAAGGAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
30 10 0.17
31 8 0.14
32 11 0.19
33 6 0.10
34 12 0.20
35 7 0.12
36 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (32 bp):
GAAGGAGAGGGAAAGAAAGAAAGAAAGAAAGA
Found at i:8386786 original size:18 final size:18
Alignment explanation
Indices: 8386763--8386817 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
8386753 AAGAAAGAAA
8386763 GAAAGAAAGGAAGGAGAG
1 GAAAGAAAGGAAGGAGAG
**
8386781 GAAAGAAA-GAAAAAGAAG
1 GAAAGAAAGGAAGGAG-AG
8386799 GAAAGAAAAGGAAAGGAGA
1 GAAAG-AAAGG-AAGGAGA
8386818 AGAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 5 0.17
18 15 0.52
19 3 0.10
20 2 0.07
21 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGGAAGGAGAG
Found at i:8386797 original size:40 final size:40
Alignment explanation
Indices: 8386752--8386912 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
8386742 AAGGAGAGGG
8386752 AAAGAAAGAAAGAAAG-AAAGG-AAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAGAAAGAAAAGGAAAGGAGA-GAAA-AAAGAA
8386792 AAAG-AAG---GAAAGAAAAGGAAAGGAGAAGAGAAAAA-AA
1 AAAGAAAGAAAGAAAGAAAAGGAAAGGAG-AGA-AAAAAGAA
*
8386829 GAAAGAAAG-AAG-AAGAAAAGGAAAGGAGA-AGAAAAAG-G
1 -AAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGA-AAAAAGAA
* *
8386867 AAAGAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAA-AA
1 AAAGAAAGAAAGAAAGAAAAGGAAAGGAG-AGAAAAAAGAA
8386907 AAAGAA
1 AAAGAA
8386913 GAAGAGGGAA
Statistics
Matches: 103, Mismatches: 4, Indels: 28
0.76 0.03 0.21
Matches are distributed among these distances:
36 5 0.05
37 15 0.15
38 24 0.23
39 26 0.25
40 31 0.30
41 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (40 bp):
AAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGAAAAAAGAA
Found at i:8386813 original size:5 final size:5
Alignment explanation
Indices: 8386750--8386894 Score: 73
Period size: 5 Copynumber: 30.6 Consensus size: 5
8386740 TGAAGGAGAG
* *
8386750 GGAAA -GAAA -GAAA -GAAA -GAAA GG-AA GGAGA GGAAA -GAAA GAAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
* * * *
8386794 AG-AA GGAAA GAAAA GGAAA GGAGAA GAGAAA --AAA AGAAA -GAAA GAAGAA
1 GGAAA GGAAA GGAAA GGAAA GGA-AA G-GAAA GGAAA GGAAA GGAAA GGA-AA
* * *
8386843 GAAAA GGAAA GGAGAA GAAAAA GGAAA -GAAA -G-AA GGAAA GAAAA GGAAA
1 GGAAA GGAAA GGA-AA G-GAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
8386892 GGA
1 GGA
8386895 GAAGAGAAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
3 5 0.04
4 37 0.33
5 51 0.46
6 16 0.14
7 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:8386861 original size:70 final size:70
Alignment explanation
Indices: 8386742--8386876 Score: 177
Period size: 70 Copynumber: 1.9 Consensus size: 70
8386732 AGAAGGACTG
* * * * *
8386742 AAGGAGAGGGAAAGAAAGAAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAA-GAAGGAAAGAA
1 AAGGAGAGAGAAAAAAAGAAAGAAAGAAAGGAAGAAAAGGAAAGAAAGAAAAAGGAAAGAAAGAA
8386806 AAGGA
66 AAGGA
8386811 AAGGAGAAGAGAAAAAAAGAAAGAAAG-AA-GAAGAAAAGGAAAGGAGAAGAAAAAGGAAAGAAA
1 AAGGAG-AGAGAAAAAAAGAAAGAAAGAAAGGAAGAAAAGGAAA-GA-AAGAAAAAGGAAAGAAA
8386874 GAA
63 GAA
8386877 GGAAAGAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
68 11 0.19
69 10 0.18
70 26 0.46
71 10 0.18
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (70 bp):
AAGGAGAGAGAAAAAAAGAAAGAAAGAAAGGAAGAAAAGGAAAGAAAGAAAAAGGAAAGAAAGAA
AAGGA
Found at i:8386875 original size:45 final size:46
Alignment explanation
Indices: 8386781--8386912 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 46
8386771 GGAAGGAGAG
* * *
8386781 GAAAGAAAGAAA-AAGAAGGAAAGAAAAGGA-AAGGAGAAGAGAAA
1 GAAAGAAAGAAAGAAGAAGGAAAGGAAAGGAGAAGAAAAAGAGAAA
* *
8386825 AAAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAAAAG-GAAA
1 GAAAGAAAGAAAGAAGAAGGAAAGGAAAGGAGAAGAAAAAGAGAAA
* *
8386870 GAAAGAAGGAAAGAA-AAGGAAAGGAGAA-GAGAA-AAAAAAAGAA
1 GAAAGAAAGAAAGAAGAAGGAAAGGA-AAGGAGAAGAAAAAGAGAA
8386913 GAAGAGGGAA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
43 5 0.07
44 28 0.37
45 35 0.47
46 7 0.09
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (46 bp):
GAAAGAAAGAAAGAAGAAGGAAAGGAAAGGAGAAGAAAAAGAGAAA
Found at i:8386896 original size:79 final size:74
Alignment explanation
Indices: 8386752--8386947 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 74
8386742 AAGGAGAGGG
*
8386752 AAAGAAAGAAAGAAAGAAAGGAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
1 AAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
8386817 AAGAGAAAA
66 AAGAGAAAA
*
8386826 AAAGAAAGAAAGAAGAAGAAAAGGAAAGGAGAAGAAA-AAGGAAAGAAAGAAGGAAAGAAAAGGA
1 AAAGAAAGAAAG-A-AAG-AAAGG-AAGGAGAAGAAAGAAAG-AA-AAAGAAGGAAAGAAAAGGA
8386890 AAGGAGAAGAG-AAA
60 AAGGAGAAGAGAAAA
*
8386904 AAA-AAAG-AAGAAGAGGGAAGGAAGGA-AA-AAA-AAAGAAAAA-AAGG
1 AAAGAAAGAAAGAA-A-GAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGG
8386948 TAATTTTTTT
Statistics
Matches: 110, Mismatches: 4, Indels: 21
0.81 0.03 0.16
Matches are distributed among these distances:
69 4 0.04
70 3 0.03
71 2 0.02
72 6 0.05
73 2 0.02
74 18 0.16
75 7 0.06
76 7 0.06
77 12 0.11
78 19 0.17
79 30 0.27
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (74 bp):
AAAGAAAGAAAGAAAGAAAGGAAGGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG
AAGAGAAAA
Found at i:8386908 original size:22 final size:22
Alignment explanation
Indices: 8386828--8386908 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
8386818 AGAGAAAAAA
* *
8386828 AGAA-AGAAAGAAGAAGAAAAGG
1 AGAAGAGAAA-AAAAAGGAAAGG
* *
8386850 A-AAGGAGAAGAAAAAGGAAAGAA
1 AGAA-GAGAAAAAAAAGGAAAG-G
*
8386873 AGAAG-GAAAGAAAAGGAAAGG
1 AGAAGAGAAAAAAAAGGAAAGG
8386894 AGAAGAGAAAAAAAA
1 AGAAGAGAAAAAAAA
8386909 AGAAGAAGAG
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
21 7 0.15
22 31 0.67
23 6 0.13
24 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
AGAAGAGAAAAAAAAGGAAAGG
Found at i:8386925 original size:31 final size:28
Alignment explanation
Indices: 8386880--8386947 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
8386870 GAAAGAAGGA
8386880 AAGAAAAGGAAAGGAGAAGAGAAAAAAAAAG
1 AAGAAAAGGAAA-G-GAAG-GAAAAAAAAAG
* *
8386911 AAGAAGAGGGAAGGAAGGAAAAAAAAAG
1 AAGAAAAGGAAAGGAAGGAAAAAAAAAG
*
8386939 AAAAAAAGG
1 AAGAAAAGG
8386948 TAATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 18 0.55
29 4 0.12
30 1 0.03
31 10 0.30
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (28 bp):
AAGAAAAGGAAAGGAAGGAAAAAAAAAG
Found at i:8386929 original size:40 final size:39
Alignment explanation
Indices: 8386806--8386931 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 39
8386796 AAGGAAAGAA
*
8386806 AAGGAAAGGAGAAGAGAAAAAAAGAAAGAAAGAAGA-AGAA-
1 AAGGAAAGGAGAAGAG-AAAAAA-AAAG-AAGAAGAGGGAAG
** **
8386846 AAGGAAAGGAGAAGA-AAAAGGAAAGAAAGAAGGAAAGAA-
1 AAGGAAAGGAGAAGAGAAAAAAAAAG-AAGAA-GAGGGAAG
8386885 AAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGG
1 AAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGGAA-G
8386925 AAGGAAA
1 AAGGAAA
8386932 AAAAAAGAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
37 10 0.13
38 11 0.15
39 24 0.32
40 30 0.40
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (39 bp):
AAGGAAAGGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAG
Found at i:8389870 original size:9 final size:9
Alignment explanation
Indices: 8389856--8389921 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
8389846 TTTGGTTAAA
8389856 AATTACCCG
1 AATTACCCG
8389865 AATTACCCG
1 AATTACCCG
*
8389874 -ATTAACCG
1 AATTACCCG
*
8389882 AATTAACCG
1 AATTACCCG
8389891 AATTACCCG
1 AATTACCCG
8389900 AAAATTACCCG
1 --AATTACCCG
8389911 AATTACCCG
1 AATTACCCG
8389920 AA
1 AA
8389922 AATTACCCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.13
9 36 0.69
11 9 0.17
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:8389907 original size:11 final size:11
Alignment explanation
Indices: 8389891--8389936 Score: 69
Period size: 11 Copynumber: 4.4 Consensus size: 11
8389881 GAATTAACCG
8389891 AATTACCCGAA
1 AATTACCCGAA
8389902 AATTACCCG--
1 AATTACCCGAA
8389911 AATTACCCGAA
1 AATTACCCGAA
*
8389922 AATTACCCAAA
1 AATTACCCGAA
8389933 AATT
1 AATT
8389937 TCGGTGTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.28
11 23 0.72
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.22
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:8389929 original size:20 final size:18
Alignment explanation
Indices: 8389856--8389921 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 18
8389846 TTTGGTTAAA
8389856 AATTACCCGAATTACCCG
1 AATTACCCGAATTACCCG
* *
8389874 -ATTAACCGAATTAACCG
1 AATTACCCGAATTACCCG
8389891 AATTACCCGAAAATTACCCG
1 AATTACCCG--AATTACCCG
8389911 AATTACCCGAA
1 AATTACCCGAA
8389922 AATTACCCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 15 0.37
18 9 0.22
20 17 0.41
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (18 bp):
AATTACCCGAATTACCCG
Found at i:8390653 original size:3 final size:3
Alignment explanation
Indices: 8390645--8390679 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8390635 TCTTAATACT
8390645 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
8390680 TAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8390780 original size:19 final size:21
Alignment explanation
Indices: 8390756--8390794 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8390746 CTAAAACAAA
*
8390756 AAAAT-ATCACAA-AATATAC
1 AAAATAATAACAACAATATAC
8390775 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
8390795 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:8391024 original size:14 final size:14
Alignment explanation
Indices: 8391005--8391038 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8390995 TCGGTGCAGA
8391005 TTTTTTTGCAGGTT
1 TTTTTTTGCAGGTT
*
8391019 TTTTTTTGTAGGTT
1 TTTTTTTGCAGGTT
8391033 TTTTTT
1 TTTTTT
8391039 ATATATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.03, G:0.18, T:0.74
Consensus pattern (14 bp):
TTTTTTTGCAGGTT
Found at i:8391349 original size:14 final size:14
Alignment explanation
Indices: 8391330--8391365 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
8391320 ACGAGGCAAC
8391330 AAAGCGCGTCCACG
1 AAAGCGCGTCCACG
8391344 AAAGCGCGTCCACG
1 AAAGCGCGTCCACG
8391358 AAAGCGCG
1 AAAGCGCG
8391366 ATTTGTGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.33, G:0.31, T:0.06
Consensus pattern (14 bp):
AAAGCGCGTCCACG
Found at i:8391575 original size:11 final size:11
Alignment explanation
Indices: 8391559--8391610 Score: 77
Period size: 11 Copynumber: 4.7 Consensus size: 11
8391549 TCCTCTATCA
8391559 AATTTCCTCTC
1 AATTTCCTCTC
*
8391570 AATTTCCTCTA
1 AATTTCCTCTC
8391581 AATTTCCTCTC
1 AATTTCCTCTC
*
8391592 AATTTGCTCTC
1 AATTTCCTCTC
*
8391603 AAATTCCT
1 AATTTCCT
8391611 TCCAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:8391610 original size:22 final size:23
Alignment explanation
Indices: 8391556--8391607 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
8391546 TAATCCTCTA
8391556 TCAAATTTCCTCTCAATTTCCTC
1 TCAAATTTCCTCTCAATTTCCTC
*
8391579 T-AAATTTCCTCTCAATTTGCTC
1 TCAAATTTCCTCTCAATTTCCTC
8391601 TCAAATT
1 TCAAATT
8391608 CCTTCCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (23 bp):
TCAAATTTCCTCTCAATTTCCTC
Found at i:8391646 original size:51 final size:51
Alignment explanation
Indices: 8391588--8391687 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
8391578 CTAAATTTCC
8391588 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCT-TTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTT-AAATCCATATTTAA
* * *
8391639 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTTAAATCCATATTT
8391688 TTAAATTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.26, C:0.25, G:0.03, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTTAAATCCATATTTAA
Found at i:8392834 original size:7 final size:7
Alignment explanation
Indices: 8392822--8392847 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8392812 TAGTCGGTTG
8392822 GTATTTA
1 GTATTTA
8392829 GTATTTA
1 GTATTTA
8392836 GTATTTA
1 GTATTTA
8392843 GTATT
1 GTATT
8392848 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:8393818 original size:21 final size:21
Alignment explanation
Indices: 8393794--8393841 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
8393784 GATGCCCAAT
*
8393794 CGGAAGAACCAGAATCC-CCGC
1 CGGAAGAACCACAA-CCGCCGC
*
8393815 CGGAGGAACCACAACCGCCGC
1 CGGAAGAACCACAACCGCCGC
8393836 CGGAAG
1 CGGAAG
8393842 CTGGACAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.31, C:0.38, G:0.29, T:0.02
Consensus pattern (21 bp):
CGGAAGAACCACAACCGCCGC
Found at i:8394125 original size:28 final size:28
Alignment explanation
Indices: 8394079--8394136 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
8394069 TTAATTGACA
*
8394079 AACCCTAAACTCTTAACTTAAAAAACCCT
1 AACCCTAAACCCTTAACTT-AAAAACCCT
*
8394108 AACCCT-AACCCTTAACTTTAAAACCCT
1 AACCCTAAACCCTTAACTTAAAAACCCT
8394135 AA
1 AA
8394137 ACCATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 10 0.37
28 11 0.41
29 6 0.22
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (28 bp):
AACCCTAAACCCTTAACTTAAAAACCCT
Found at i:8394144 original size:22 final size:21
Alignment explanation
Indices: 8394108--8394260 Score: 192
Period size: 22 Copynumber: 7.4 Consensus size: 21
8394098 AAAAAACCCT
8394108 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTTAA
*
8394129 AACCCTAAACCATTAACTTTAA
1 AACCCT-AACCCTTAACTTTAA
8394151 AACCCTAAACCCTTAACTTT--
1 AACCCT-AACCCTTAACTTTAA
8394171 AA----AACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTTAA
*
8394188 AACCCTAGACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTTAA
*
8394210 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTTAA
*
8394231 AACCCCTAACCCTTAACTTTTA
1 AA-CCCTAACCCTTAACTTTAA
8394253 AACCCTAA
1 AACCCTAA
8394261 AGTAGCAAAA
Statistics
Matches: 118, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
15 13 0.11
17 2 0.02
20 2 0.02
21 29 0.25
22 72 0.61
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTTAA
Found at i:8394177 original size:15 final size:15
Alignment explanation
Indices: 8394157--8394193 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8394147 TTAAAACCCT
8394157 AAACCCTTAACTTTA
1 AAACCCTTAACTTTA
8394172 AAACCCTTAACTTTA
1 AAACCCTTAACTTTA
8394187 AAACCCT
1 AAACCCT
8394194 AGACCCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
AAACCCTTAACTTTA
Found at i:8394184 original size:59 final size:58
Alignment explanation
Indices: 8394114--8394240 Score: 200
Period size: 59 Copynumber: 2.2 Consensus size: 58
8394104 CCCTAACCCT
* *
8394114 AACCCTTAACTTTAAAACCCTAAACCATTAACTTTAAAACCCTAAACCCTTAACTTTAA
1 AACCCTTAACTTTAAAACCCTAAACCATTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
8394173 AACCCTTAACTTTAAAACCCTAGACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTTAACTTTAAAACCCTAAACCATTAACTTAAAAACCCTAACCCTTAACTTAAA
*
8394231 AACCCCTAAC
1 AACCCTTAAC
8394241 CCTTAACTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
58 23 0.37
59 40 0.63
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (58 bp):
AACCCTTAACTTTAAAACCCTAAACCATTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:8394214 original size:37 final size:37
Alignment explanation
Indices: 8394135--8394215 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
8394125 TTAAAACCCT
* *
8394135 AAACCATTAACTTTAAAACCCTAAACCCTTAACTTTA
1 AAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
*
8394172 AAACCCTTAACTTTAAAACCCTAGACCCTTAACTTAA
1 AAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
8394209 AAACCCT
1 AAACCCT
8394216 AACCCTTAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.42, C:0.30, G:0.01, T:0.27
Consensus pattern (37 bp):
AAACCCTTAACTTTAAAACCCTAAACCCTTAACTTAA
Found at i:8394222 original size:43 final size:42
Alignment explanation
Indices: 8394108--8394260 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 42
8394098 AAAAAACCCT
*
8394108 AACCCTAACCCTTAACTTTAAAACCCTAAACCATTAACTTTAA
1 AACCCTAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTAA
8394151 AACCCTAAACCCTTAACTTT--AA----AACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
* *
8394188 AACCCTAGACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
*
8394231 AACCCCTAACCCTTAACTTTTAAACCCTAA
1 AA-CCCTAACCCTTAACTTTAAAACCCTAA
8394261 AGTAGCAAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
36 1 0.01
37 31 0.32
39 2 0.02
42 2 0.02
43 42 0.44
44 18 0.19
ACGTcount: A:0.41, C:0.32, G:0.01, T:0.27
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTTAAAACCCTAACCCTTAACTTTAA
Found at i:8394257 original size:37 final size:36
Alignment explanation
Indices: 8394135--8394258 Score: 131
Period size: 37 Copynumber: 3.2 Consensus size: 36
8394125 TTAAAACCCT
*
8394135 AAACCATTAACTTTAAAACCCTAAACCCTTAACTTTA
1 AAACCCTTAACTTTAAAACCCT-AACCCTTAACTTTA
*
8394172 AAACCCTTAACTTTAAAACCCTAGACCCTTAACTTAAAA
1 AAACCCTTAACTTTAAAACCCTA-ACCCTTAACTT--TA
* *
8394211 ACCCTAACCCTTAACTTAAAAACCCCTAACCCTTAACTTTT
1 A----AACCCTTAACTTTAAAA-CCCTAACCCTTAACTTTA
8394252 AAACCCT
1 AAACCCT
8394259 AAAGTAGCAA
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
36 1 0.01
37 38 0.51
39 2 0.03
41 1 0.01
43 27 0.36
44 5 0.07
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.27
Consensus pattern (36 bp):
AAACCCTTAACTTTAAAACCCTAACCCTTAACTTTA
Found at i:8394683 original size:126 final size:126
Alignment explanation
Indices: 8394273--8394689 Score: 649
Period size: 127 Copynumber: 3.3 Consensus size: 126
8394263 TAGCAAAAGT
* *
8394273 GCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTAGAAACGTTTTTTTAAAACTATTTGCTC
1 GCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTTTTTTT-AAACTATTTGCTC
8394337 AGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
64 AGAAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
*
8394400 ACGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCA
1 GCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCA
* *
8394464 GAAACGTCAACTCGAAACTATTTCTTCCAGGACCTACTATAGCAAAAGCGCGTCCACGAGGGC
65 GAAACGTCAACTCGAAATTATTT-TTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
* * *
8394527 GCGATTTCACAATTTCTTCTCATAAAGCATCTTGCTTGAAGCGTTTTTTTATACTATTTGCTCAG
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAG
* *
8394592 AAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGTGGGC
66 AAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
* * * * *
8394653 GCGACTTCAGAAATCCTTTTGATAAAGCATCCTGCTT
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
8394690 TGATTTTATC
Statistics
Matches: 268, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
126 102 0.38
127 164 0.61
128 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (126 bp):
GCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTTAAACTATTTGCTCAG
AAACGTCAACTCGAAATTATTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
Found at i:8394850 original size:22 final size:22
Alignment explanation
Indices: 8394806--8394851 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
8394796 TTTTTCTCTA
** *
8394806 AAACCCTAAAATATTAAACCCT
1 AAACCCTAAAATACAAAAACCT
*
8394828 AAACCCTAAAATCCAAAAACCT
1 AAACCCTAAAATACAAAAACCT
8394850 AA
1 AA
8394852 CATGGGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.17
Consensus pattern (22 bp):
AAACCCTAAAATACAAAAACCT
Found at i:8401512 original size:16 final size:17
Alignment explanation
Indices: 8401479--8401513 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
8401469 AGTAAAAATT
8401479 AAAGCATGAAACAACAA
1 AAAGCATGAAACAACAA
8401496 AAAGCATGAAA-AACAA
1 AAAGCATGAAACAACAA
8401512 AA
1 AA
8401514 GAGAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.69, C:0.14, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAGCATGAAACAACAA
Found at i:8405550 original size:78 final size:78
Alignment explanation
Indices: 8405306--8405631 Score: 384
Period size: 78 Copynumber: 4.2 Consensus size: 78
8405296 CAGAATTGAG
* * * * * **
8405306 GAAATCGAACAAATCCTGTTGAACGACAGGAATAAAAATCCTAAAATAGGAGTGTTCAATAGAGA
1 GAAATCAAACAAATCCTGTTAAACAACAGGAAT-AAAATCCTAAAACAGGAGTGTTCAATTGATT
*
8405371 TTCTATTTGAAACA
65 TTCTGTTTGAAACA
* * * * *
8405385 AAAATCAAACAAATCTTGTTAAACAACAGGAAAAAAAATCCTAAAATAGGAGTGTTCAATTAATT
1 GAAATCAAACAAATCCTGTTAAACAACAGG-AATAAAATCCTAAAACAGGAGTGTTCAATTGATT
8405450 CTT-TGTTTGAAACA
65 -TTCTGTTTGAAACA
* **** *
8405464 GAAGTCAAACAAATCCTGTTAAACAACAGGAATGGCGTCCTGAAACAGGAGTGTTCAATTGATTT
1 GAAATCAAACAAATCCTGTTAAACAACAGGAATAAAATCCTAAAACAGGAGTGTTCAATTGATTT
*
8405529 TCTGTTTGAAATA
66 TCTGTTTGAAACA
* * * * * *
8405542 GAAATCAAACAAATCCTGTTAAACGACAGGAGTAAAATCTTGAAACAGGAATGTTTAATTGATTT
1 GAAATCAAACAAATCCTGTTAAACAACAGGAATAAAATCCTAAAACAGGAGTGTTCAATTGATTT
8405607 TCTGTTTGAAACA
66 TCTGTTTGAAACA
8405620 GAAATCAAACAA
1 GAAATCAAACAA
8405632 TCTCTCGTTG
Statistics
Matches: 210, Mismatches: 34, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
77 2 0.01
78 115 0.55
79 89 0.42
80 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (78 bp):
GAAATCAAACAAATCCTGTTAAACAACAGGAATAAAATCCTAAAACAGGAGTGTTCAATTGATTT
TCTGTTTGAAACA
Found at i:8406978 original size:25 final size:25
Alignment explanation
Indices: 8406950--8407068 Score: 193
Period size: 25 Copynumber: 4.8 Consensus size: 25
8406940 TTCTCTCATC
*
8406950 GCTGGTTCTTTGTTCCTCTGCTGGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
* * *
8406975 GCTGGTTATTTGTTCCTCTGCTAGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
*
8407000 GCTGGTTATTTGTTCCTCTACTGGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
8407025 GCTGGTTCTTTGTTCCTCTACTGGT
1 GCTGGTTCTTTGTTCCTCTACTGGT
8407050 GCTGGTTCTTTGTTCCTCT
1 GCTGGTTCTTTGTTCCTCT
8407069 TCTCCATTGA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.04, C:0.23, G:0.24, T:0.49
Consensus pattern (25 bp):
GCTGGTTCTTTGTTCCTCTACTGGT
Found at i:8408677 original size:17 final size:17
Alignment explanation
Indices: 8408655--8408690 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8408645 GGTGGAAGAT
8408655 ATTTAACCAGATTCCAC
1 ATTTAACCAGATTCCAC
* *
8408672 ATTTAACCATATTTCAC
1 ATTTAACCAGATTCCAC
8408689 AT
1 AT
8408691 GGATCAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTTAACCAGATTCCAC
Found at i:8409549 original size:18 final size:18
Alignment explanation
Indices: 8409526--8409573 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
8409516 AAAATATGAG
*
8409526 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
8409544 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
8409562 AAATGATGTTCA
1 AAATGATGTTCA
8409574 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:8424798 original size:19 final size:19
Alignment explanation
Indices: 8424770--8424808 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8424760 TAATATTTAG
*
8424770 TTTAAATATTAAATGTGTC
1 TTTAAATATTAAATATGTC
* *
8424789 TTTAATTATTTAATATGTC
1 TTTAAATATTAAATATGTC
8424808 T
1 T
8424809 AAGTATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTAAATATTAAATATGTC
Found at i:8425397 original size:21 final size:21
Alignment explanation
Indices: 8425373--8425416 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
8425363 AAGGTCTTGT
8425373 AGTTT-TTAATTAGCTCAATTA
1 AGTTTATTAA-TAGCTCAATTA
8425394 AGTTTATTAATAGCTCAATTA
1 AGTTTATTAATAGCTCAATTA
8425415 AG
1 AG
8425417 CTGAGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (21 bp):
AGTTTATTAATAGCTCAATTA
Found at i:8428511 original size:19 final size:20
Alignment explanation
Indices: 8428473--8428516 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8428463 CCTTAATTTG
8428473 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAGATTATTA
*
8428493 TTTTATTTATAA-TTTATTA
1 TTTTATTTATAAGATTATTA
8428512 TTTTA
1 TTTTA
8428517 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTATTTATAAGATTATTA
Found at i:8430513 original size:41 final size:41
Alignment explanation
Indices: 8430449--8430526 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
8430439 TTAAAATTTT
*
8430449 ATACATACATATATTTTTCATATTTCTATAATTCTATGTAG
1 ATACATACATATATTCTTCATATTTCTATAATTCTATGTAG
* * *
8430490 ATACATATATATATCTCTT-ATATTTTTATAGTTCTAT
1 ATACATACATATAT-TCTTCATATTTCTATAATTCTAT
8430527 TCATTTTCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.51
Consensus pattern (41 bp):
ATACATACATATATTCTTCATATTTCTATAATTCTATGTAG
Found at i:8431005 original size:109 final size:110
Alignment explanation
Indices: 8430723--8431042 Score: 538
Period size: 110 Copynumber: 2.9 Consensus size: 110
8430713 TACGCATACT
* * *
8430723 AATTTCGAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCACTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
* *
8430788 TTCGATTTTTCTTGTTCGACCAAATAGCCAAATATCATTTTAAAA
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
*
8430833 AATTTCAAAATAAGGCAATGTTTTGCGTTCGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
8430898 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAA
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * *
8430942 ATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTACTGGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
8431007 TTCGA--TTTCTCGTTCGACCAAATAGCCAAATATCCT
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCT
8431043 CCTAAATCTT
Statistics
Matches: 200, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
107 31 0.16
109 69 0.34
110 100 0.50
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (110 bp):
AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:8431272 original size:22 final size:22
Alignment explanation
Indices: 8431229--8431273 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8431219 TCGTGGACCA
* *
8431229 AAATTGTTGTTTTAATAAAATC
1 AAATTGTTGTATTAAAAAAATC
8431251 AAATTGTT-TATTAAAAACAATC
1 AAATTGTTGTATTAAAAA-AATC
8431273 A
1 A
8431274 CTTTTCGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTGTTGTATTAAAAAAATC
Found at i:8445612 original size:110 final size:109
Alignment explanation
Indices: 8445415--8445734 Score: 563
Period size: 110 Copynumber: 2.9 Consensus size: 109
8445405 TACGCATACT
*
8445415 AATTTCGAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
* *
8445480 TTCGATTTTTCTTGTTCAACCAAATAGCCAAATATCCTTTTAAAA
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAA
*
8445525 AATTTCAAAATAAGGCAATGTTTTACGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
8445590 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
* *
8445634 AATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGT
1 AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
8445699 TTCGA--TTTCTCGTTCGACCAAATAGCCAAATATCCT
66 TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCT
8445735 CCTAAATCTT
Statistics
Matches: 203, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
107 31 0.15
109 70 0.34
110 102 0.50
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (109 bp):
AATTTCAAAATAAGGCAATGTTTTGCGTTCGGAAATTCGAGAAAACGTGCCCTAATGTGCTAGGT
TTCGATTTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
Found at i:8454587 original size:14 final size:15
Alignment explanation
Indices: 8454563--8454592 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8454553 CACCGCCACA
8454563 TCAACAAAATAAAAT
1 TCAACAAAATAAAAT
8454578 TCAA-AAAATAAAAT
1 TCAACAAAATAAAAT
8454592 T
1 T
8454593 TATTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
TCAACAAAATAAAAT
Found at i:8454743 original size:17 final size:16
Alignment explanation
Indices: 8454718--8454762 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 16
8454708 TTTTAAAATT
8454718 ATAAAAAAAATTAGAA
1 ATAAAAAAAATTAGAA
*
8454734 ATATAAAAAAATGAGAA
1 ATA-AAAAAAATTAGAA
8454751 ATAAAAAAAATT
1 ATAAAAAAAATT
8454763 CAAAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
ATAAAAAAAATTAGAA
Found at i:8459336 original size:16 final size:16
Alignment explanation
Indices: 8459315--8459347 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8459305 CATTTGGAGT
*
8459315 AGTTAGTTTGTTTAGA
1 AGTTAGTCTGTTTAGA
8459331 AGTTAGTCTGTTTAGA
1 AGTTAGTCTGTTTAGA
8459347 A
1 A
8459348 TTTGTTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (16 bp):
AGTTAGTCTGTTTAGA
Found at i:8462259 original size:19 final size:20
Alignment explanation
Indices: 8462209--8462260 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
8462199 AAAATGATAA
8462209 AATCAAGTT-AAAATGGTTTC
1 AATCAAGTTAAAAAT-GTTTC
** *
8462229 AATTGAGGTAAAAAT-TTTC
1 AATCAAGTTAAAAATGTTTC
8462248 AATCAAGTTAAAA
1 AATCAAGTTAAAA
8462261 CTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
19 14 0.56
20 6 0.24
21 5 0.20
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (20 bp):
AATCAAGTTAAAAATGTTTC
Found at i:8462354 original size:21 final size:20
Alignment explanation
Indices: 8462304--8462359 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
8462294 AAAAAGTATC
*
8462304 AAGTATCGATA-GTTTTCAA
1 AAGTATCGATACCTTTTCAA
*
8462323 AA-TATCAATACCTTTTCAAA
1 AAGTATCGATACCTTTTC-AA
8462343 AAGTATCGATACCTTTT
1 AAGTATCGATACCTTTT
8462360 ACCAAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 7 0.23
19 7 0.23
20 4 0.13
21 13 0.42
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (20 bp):
AAGTATCGATACCTTTTCAA
Found at i:8462368 original size:20 final size:20
Alignment explanation
Indices: 8462304--8462373 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
8462294 AAAAAGTATC
*
8462304 AAGTATCGATA-GTTTT-CA
1 AAGTATCGATACCTTTTACA
* * *
8462322 AAATATCAATACCTTTTCAAA
1 AAGTATCGATACCTTTT-ACA
*
8462343 AAGTATCGATACCTTTTACC
1 AAGTATCGATACCTTTTACA
*
8462363 AAGTATTGATA
1 AAGTATCGATA
8462374 AATTGTCTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 9 0.22
19 4 0.10
20 11 0.28
21 16 0.40
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (20 bp):
AAGTATCGATACCTTTTACA
Found at i:8469635 original size:14 final size:14
Alignment explanation
Indices: 8469616--8469642 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8469606 GAGTATTTAT
8469616 TTTATGGAAAATAA
1 TTTATGGAAAATAA
8469630 TTTATGGAAAATA
1 TTTATGGAAAATA
8469643 TTCTTTTATA
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:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
TTTATGGAAAATAA
Found at i:8469999 original size:18 final size:17
Alignment explanation
Indices: 8469968--8470027 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
8469958 TTTATTGTTT
8469968 TAATAAAA-TTATTTAA
1 TAATAAAATTTATTTAA
*
8469984 TAATACAATTTTATTTCAA
1 TAATA-AAATTTATTT-AA
*
8470003 AAATAAAATTTATCATTAA
1 TAATAAAATTTAT--TTAA
8470022 TAATAA
1 TAATAA
8470028 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.14
17 2 0.06
18 13 0.37
19 13 0.37
20 2 0.06
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATAAAATTTATTTAA
Found at i:8470026 original size:19 final size:18
Alignment explanation
Indices: 8469968--8470027 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
8469958 TTTATTGTTT
8469968 TAATAAAA-TTAT-TTAA
1 TAATAAAATTTATATTAA
*
8469984 TAATACAATTT-TATTTCAA
1 TAATAAAATTTATA-TT-AA
*
8470003 AAATAAAATTTATCATTAA
1 TAATAAAATTTAT-ATTAA
8470022 TAATAA
1 TAATAA
8470028 TTTTAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
18 2 0.06
19 18 0.53
20 3 0.09
21 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAAATTTATATTAA
Found at i:8475043 original size:21 final size:21
Alignment explanation
Indices: 8475017--8475056 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8475007 AAAAGATATA
*
8475017 TTTGATTTGATGAGTGCAGTC
1 TTTGATTTGATGAATGCAGTC
*
8475038 TTTGATTTTATGAATGCAG
1 TTTGATTTGATGAATGCAG
8475057 CTAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTGATTTGATGAATGCAGTC
Found at i:8479159 original size:9 final size:9
Alignment explanation
Indices: 8479142--8479172 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8479132 TCGAGTTGAT
8479142 TCGAATAAC
1 TCGAATAAC
*
8479151 TCGATTAAC
1 TCGAATAAC
8479160 TCGAATAAC
1 TCGAATAAC
8479169 TCGA
1 TCGA
8479173 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:8479968 original size:25 final size:25
Alignment explanation
Indices: 8479940--8479997 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
8479930 AATTGCATAG
* *
8479940 TTTGTTTTACATCTCAAATGTATAC
1 TTTGTTTTACATCCCAAATGTACAC
8479965 TTTGTTTTACATCCCAAATGTACAC
1 TTTGTTTTACATCCCAAATGTACAC
*
8479990 TTTTTTTT
1 TTTGTTTT
8479998 TTTCAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.52
Consensus pattern (25 bp):
TTTGTTTTACATCCCAAATGTACAC
Found at i:8485131 original size:40 final size:39
Alignment explanation
Indices: 8485076--8485151 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
8485066 TAGCAAAGTG
* *
8485076 AAAACGCGTCCTACAGGGCGCATTTTTATTCTCTCTCTTA
1 AAAACACGTCCTACAGGGCACATTTTTA-TCTCTCTCTTA
8485116 AAAACACGTCCTACAGGGCACATTTTTATCTCTCTC
1 AAAACACGTCCTACAGGGCACATTTTTATCTCTCTC
8485152 CAAAACCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 8 0.24
40 26 0.76
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (39 bp):
AAAACACGTCCTACAGGGCACATTTTTATCTCTCTCTTA
Found at i:8486016 original size:17 final size:17
Alignment explanation
Indices: 8485982--8486019 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8485972 CTTATTTAGC
**
8485982 AATATTTTTATCTTAAA
1 AATATTTTTATCCCAAA
8485999 AATATTTTTATCCCAAA
1 AATATTTTTATCCCAAA
8486016 AATA
1 AATA
8486020 CTTCTTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATTTTTATCCCAAA
Found at i:8490132 original size:13 final size:13
Alignment explanation
Indices: 8490078--8490133 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
8490068 AATTTAGAAT
*
8490078 TATTTAGTGATAA
1 TATTTAGTAATAA
* *
8490091 CATTTAGTGATAA
1 TATTTAGTAATAA
*
8490104 TATTTA--AA-AT
1 TATTTAGTAATAA
8490114 TATTTAGTAATAA
1 TATTTAGTAATAA
8490127 TATTTAG
1 TATTTAG
8490134 GAAAAATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 2 0.06
13 25 0.71
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:8498181 original size:13 final size:13
Alignment explanation
Indices: 8498163--8498218 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
8498153 AATTTAGAAT
8498163 TATTTAGTGATAA
1 TATTTAGTGATAA
8498176 TATTTAGTGATAA
1 TATTTAGTGATAA
*
8498189 TATTTA--GA-AT
1 TATTTAGTGATAA
*
8498199 TATTCAGTGATAA
1 TATTTAGTGATAA
8498212 TATTTAG
1 TATTTAG
8498219 GAAAAATCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 6 0.17
11 2 0.06
12 2 0.06
13 26 0.72
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:8502179 original size:15 final size:14
Alignment explanation
Indices: 8502161--8502192 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
8502151 TAGGACATTG
8502161 TATGGTATGATCTGA
1 TATGGTATGATCT-A
8502176 TATGGTATGATCTA
1 TATGGTATGATCTA
8502190 TAT
1 TAT
8502193 TATACTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGGTATGATCTA
Found at i:8507183 original size:13 final size:12
Alignment explanation
Indices: 8507167--8507196 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
8507157 TTTCGATAAG
8507167 TTTTTTAGATTTA
1 TTTTTTAGA-TTA
8507180 TTTTTTAGATTA
1 TTTTTTAGATTA
8507192 TTTTT
1 TTTTT
8507197 CTATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (12 bp):
TTTTTTAGATTA
Found at i:8508207 original size:21 final size:21
Alignment explanation
Indices: 8508182--8508221 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8508172 AAAAAGAAAG
*
8508182 CCATTTTGAACTTTAAGCTAA
1 CCATTTTCAACTTTAAGCTAA
*
8508203 CCATTTTCAACTTTGAGCT
1 CCATTTTCAACTTTAAGCT
8508222 TAGAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (21 bp):
CCATTTTCAACTTTAAGCTAA
Found at i:8510750 original size:25 final size:25
Alignment explanation
Indices: 8510722--8510919 Score: 131
Period size: 25 Copynumber: 8.0 Consensus size: 25
8510712 GCGTTATTTA
* *
8510722 GCTCTTATGAGCATCCCGTTACATG
1 GCTCTCATGAGCTTCCCGTTACATG
* * *
8510747 GCTCTCACGAGCTTCCCGATA-TTG
1 GCTCTCATGAGCTTCCCGTTACATG
* **
8510771 GCTCACATGAGCTTCCTAATTAC--G
1 GCTCTCATGAGCTTCC-CGTTACATG
* *
8510795 GCTCTTATGAGCTTCCCGTT-TATG
1 GCTCTCATGAGCTTCCCGTTACATG
* *
8510819 GCTCGT-ATGAGCTTCCTGATA-ATTG
1 GCTC-TCATGAGCTTCCCGTTACA-TG
* *
8510844 GCT-TGCAAGAGCTTCCCGTTATATG
1 GCTCT-CATGAGCTTCCCGTTACATG
* *
8510869 GCTCACATGAGCTTCTCGTTACATG
1 GCTCTCATGAGCTTCCCGTTACATG
** *
8510894 GCTCGAAAGAGCTTCCCGATTACATG
1 GCTCTCATGAGCTTCCCG-TTACATG
8510920 CTCGTATGGG
Statistics
Matches: 133, Mismatches: 28, Indels: 23
0.72 0.15 0.12
Matches are distributed among these distances:
23 3 0.02
24 49 0.37
25 73 0.55
26 8 0.06
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGTTACATG
Found at i:8510782 original size:24 final size:24
Alignment explanation
Indices: 8510745--8510883 Score: 95
Period size: 24 Copynumber: 5.7 Consensus size: 24
8510735 TCCCGTTACA
* *
8510745 TGGCTCTCACGAGCTTCCCGATAT
1 TGGCTCACATGAGCTTCCCGATAT
*
8510769 TGGCTCACATGAGCTT-CCTA-AT
1 TGGCTCACATGAGCTTCCCGATAT
** *
8510791 TACGGCTCTTATGAGCTTCCCG-TTT
1 T--GGCTCACATGAGCTTCCCGATAT
** *
8510816 ATGGCTCGTATGAGCTTCCTGATAAT
1 -TGGCTCACATGAGCTTCCCGAT-AT
** * *
8510842 TGGCTTGCAAGAGCTTCCCGTTAT
1 TGGCTCACATGAGCTTCCCGATAT
8510866 ATGGCTCACATGAGCTTC
1 -TGGCTCACATGAGCTTC
8510884 TCGTTACATG
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.03
23 3 0.03
24 46 0.52
25 35 0.39
26 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGATAT
Found at i:8510807 original size:48 final size:49
Alignment explanation
Indices: 8510746--8510883 Score: 147
Period size: 48 Copynumber: 2.8 Consensus size: 49
8510736 CCCGTTACAT
* *
8510746 GGCTCTCACGAGCTTCCCG-ATATTGGCTCACATGAGCTTCCTAATTA-C
1 GGCTCTCAAGAGCTTCCCGTATA-TGGCTCACATGAGCTTCCTAATAATC
* * * ** * *
8510794 GGCTCTTATGAGCTTCCCGTTTATGGCTCGTATGAGCTTCCTGATAATT
1 GGCTCTCAAGAGCTTCCCGTATATGGCTCACATGAGCTTCCTAATAATC
8510843 GGCT-TGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTC
1 GGCTCT-CAAGAGCTTCCCG-TATATGGCTCACATGAGCTTC
8510884 TCGTTACATG
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 38 0.52
49 17 0.23
50 18 0.25
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (49 bp):
GGCTCTCAAGAGCTTCCCGTATATGGCTCACATGAGCTTCCTAATAATC
Found at i:8510856 original size:73 final size:73
Alignment explanation
Indices: 8510722--8510913 Score: 183
Period size: 73 Copynumber: 2.6 Consensus size: 73
8510712 GCGTTATTTA
*
8510722 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCACATGAGCTTCC
1 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCACAAGAGCTTCC
8510787 TAATTACG
66 TAATTACG
* * * * **
8510795 GCTCTTATGAGCTTCCCGTT-TATGGCTCGT-ATGAGCTTCCTGATAATTGGCTTGCAAGAGCTT
1 GCTCTTATGAGCATCCCGTTACATGGCTC-TCACGAGCTTCCCGAT-ATTGGCTCACAAGAGCTT
* *
8510858 CCCGTTA-TATG
64 -CC-TAATTACG
** * * ** *
8510869 GCTCACATGAGCTTCTCGTTACATGGCTCGAAAGAGCTTCCCGAT
1 GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGAT
8510914 TACATGCTCG
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
72 19 0.20
73 35 0.36
74 22 0.23
75 21 0.22
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (73 bp):
GCTCTTATGAGCATCCCGTTACATGGCTCTCACGAGCTTCCCGATATTGGCTCACAAGAGCTTCC
TAATTACG
Found at i:8510896 original size:50 final size:51
Alignment explanation
Indices: 8510697--8510911 Score: 164
Period size: 50 Copynumber: 4.4 Consensus size: 51
8510687 ACACACCACA
* * * * ** * *
8510697 GCTC-GCAAGAGCGTCGCGTTATTTAGCTCTTATGAGCATCCCGTTACATG
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
* * **
8510747 GCTCT-CACGAGCTTCCCGATAT-TGGCTCACATGAGCTTCCTAATTAC--G
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTT-CTCGTTACATG
* * ** *
8510795 GCTCT-TATGAGCTTCCCGTT-TATGGCTCGTATGAGCTTC-CTGATA-ATTG
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTC-GTTACA-TG
8510844 GCT-TGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
1 GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
*
8510894 GCTC-GAAAGAGCTTCCCG
1 GCTCTGCAAGAGCTTCCCG
8510912 ATTACATGCT
Statistics
Matches: 128, Mismatches: 25, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
47 4 0.03
48 33 0.26
49 29 0.23
50 60 0.47
51 2 0.02
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (51 bp):
GCTCTGCAAGAGCTTCCCGTTATATGGCTCACATGAGCTTCTCGTTACATG
Found at i:8513306 original size:20 final size:21
Alignment explanation
Indices: 8513264--8513310 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
8513254 TTTTTTAATT
* **
8513264 ATTAAAGTTTAATTAAATTAA
1 ATTAAAGTTTAATAAAAGAAA
8513285 ATTAAAG-TTAATAAAAGAAA
1 ATTAAAGTTTAATAAAAGAAA
8513305 ATTAAA
1 ATTAAA
8513311 AAGGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (21 bp):
ATTAAAGTTTAATAAAAGAAA
Found at i:8514488 original size:24 final size:24
Alignment explanation
Indices: 8514460--8514524 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
8514450 CAAGTACACT
8514460 TGAATGATTTTGATTAAATATACA
1 TGAATGATTTTGATTAAATATACA
* **
8514484 TGAATGATCTTGATTGGATATACA
1 TGAATGATTTTGATTAAATATACA
**
8514508 CAAATGATCTTT-ATTAA
1 TGAATGAT-TTTGATTAA
8514525 TTCTTGATGA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (24 bp):
TGAATGATTTTGATTAAATATACA
Found at i:8517015 original size:43 final size:42
Alignment explanation
Indices: 8516858--8517016 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
8516848 AATGTGACAT
*
8516858 CGTGTAAGACCACGTCTGGGACGTTGGCCTCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTT-A-A-TTA
* * ** * * * * *
8516902 TGTGTAAGACAATTTTTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTAATTA
*
8516944 CGTGTAAGACC-CTATCTGGGACAG-TGGCATCGTTATTTAATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTAATTA
*
8516987 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
8517017 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 27 0.30
43 33 0.37
44 26 0.29
45 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTAATTA
Found at i:8517209 original size:2 final size:2
Alignment explanation
Indices: 8517195--8517229 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
8517185 ACAAATCACT
8517195 TA TA TA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
8517230 GTATGTGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 29 0.94
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8519003 original size:6 final size:6
Alignment explanation
Indices: 8518987--8519087 Score: 193
Period size: 6 Copynumber: 16.8 Consensus size: 6
8518977 TGAAGGGTGT
*
8518987 TACATA CACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
8519035 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
8519083 TACAT
1 TACAT
8519088 TATTTTTTGG
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:8526472 original size:25 final size:26
Alignment explanation
Indices: 8526428--8526477 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
8526418 TCTTTTCTAT
* *
8526428 TCTTTTCACTTTTAGTTTAGGTTTTC
1 TCTTTTCACTTTTAGGTTAGATTTTC
*
8526454 TCTTTTC-TTTTTAGGTTAGATTTT
1 TCTTTTCACTTTTAGGTTAGATTTT
8526478 ATTTTTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (26 bp):
TCTTTTCACTTTTAGGTTAGATTTTC
Found at i:8537812 original size:27 final size:27
Alignment explanation
Indices: 8537782--8537878 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
8537772 CTTATTGGTG
8537782 AATCATGAAAGAAAAGTCTTTGT-AGCA
1 AATCATGAAAGAAAAGTCTTTGTGA-CA
*
8537809 AATCATGAAAGGAAAA-CCTTTGTGACA
1 AATCATGAAA-GAAAAGTCTTTGTGACA
* *
8537836 AAACATGAAAGGAAAGTCTTTGTGACGA
1 AATCATGAAAGAAAAGTCTTTGTGAC-A
*
8537864 AA-CATGAAAGGAAAG
1 AATCATGAAAGAAAAG
8537879 AGGAAAGTCT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
26 4 0.06
27 49 0.79
28 9 0.15
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (27 bp):
AATCATGAAAGAAAAGTCTTTGTGACA
Found at i:8537907 original size:34 final size:34
Alignment explanation
Indices: 8537845--8537912 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
8537835 AAAACATGAA
* * *
8537845 AGGAAAGTCTTTGTGACGAAACATGAAAGGAAAG
1 AGGAAAGTCTTTATGACGAAACACGAAAGAAAAG
* *
8537879 AGGAAAGTCTTTATGGCGAAATACGAAAGAAAAG
1 AGGAAAGTCTTTATGACGAAACACGAAAGAAAAG
8537913 CCTTTGTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.46, C:0.09, G:0.28, T:0.18
Consensus pattern (34 bp):
AGGAAAGTCTTTATGACGAAACACGAAAGAAAAG
Found at i:8543132 original size:78 final size:73
Alignment explanation
Indices: 8542998--8543179 Score: 215
Period size: 77 Copynumber: 2.4 Consensus size: 73
8542988 ATCGTACAAC
* *
8542998 TCTTATTGTACAATATGAGTAACATGCTTTTTAGGGTTATTTTTGAAATATGACTAAATGCTTAC
1 TCTTATCGTACAAGATGAGTAACATGCTTTTTAGGGTTATTTTTGAAATATGACTAAATGCTTAC
*
8543063 TTGTATATAAT
66 -T-TACA-AAT
* * *
8543074 ATCTTATCGTACAAGATGAGTAACCT-TTTCTTTTGGGATTATTTTTGAAATATGACTAAATGCT
1 -TCTTATCGTACAAGATGAGTAACATGCTT-TTTAGGG-TTATTTTTGAAATATGACTAAATGCT
* *
8543138 TGCTTACAACT
63 TACTTACAAAT
*
8543149 T-TTATCGTACAAGATGAGTAACATGTTTTTT
1 TCTTATCGTACAAGATGAGTAACATGCTTTTT
8543180 TTTGGAGGGC
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
73 25 0.27
74 4 0.04
75 2 0.02
76 5 0.05
77 29 0.31
78 28 0.30
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (73 bp):
TCTTATCGTACAAGATGAGTAACATGCTTTTTAGGGTTATTTTTGAAATATGACTAAATGCTTAC
TTACAAAT
Found at i:8545762 original size:30 final size:30
Alignment explanation
Indices: 8545728--8545789 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
8545718 GTATCATCTC
* *
8545728 AAATTCGAATCTTGCTGCATGAATCAATTG
1 AAATTCGAATCCTACTGCATGAATCAATTG
* *
8545758 AAATTTGTATCCTACTGCATGAATCAATTG
1 AAATTCGAATCCTACTGCATGAATCAATTG
8545788 AA
1 AA
8545790 GCAAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (30 bp):
AAATTCGAATCCTACTGCATGAATCAATTG
Found at i:8552707 original size:3 final size:3
Alignment explanation
Indices: 8552699--8552731 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8552689 AAGTGAAAAT
8552699 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8552732 GAAGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8555463 original size:2 final size:2
Alignment explanation
Indices: 8555456--8555510 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
8555446 TAAGTTTGAG
8555456 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8555498 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
8555511 TTTTAAGGAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8555966 original size:87 final size:86
Alignment explanation
Indices: 8555831--8556001 Score: 202
Period size: 87 Copynumber: 2.0 Consensus size: 86
8555821 TAAGTTCTTC
* * * *
8555831 TTTTTTTTACACTCAATTGAGCATTTGAACTTTCAAAATGCGTAAAAAATG-CCCTTAAACTTCT
1 TTTTTTTTA-ACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAA-GACCCTCAAA-AT-T
8555895 TTTAAAAAAAGCAATTAAGCCCATG
62 TTTAAAAAAAGCAATTAAGCCCATG
* * * * * *
8555920 TTTTTTTT-ACTCAATTGTGTACTTGAACTTTCAAAATGTATCAAAAAGACTCTCAAAATTTTTC
1 TTTTTTTTAACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTTTTA
8555984 AAAAAAGCAATTAAGCCC
66 AAAAAAGCAATTAAGCCC
8556002 TTGCTCTTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 22 0.31
86 2 0.03
87 39 0.55
89 8 0.11
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (86 bp):
TTTTTTTTAACTCAATTGAGCACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTTTTA
AAAAAAGCAATTAAGCCCATG
Found at i:8556092 original size:17 final size:18
Alignment explanation
Indices: 8556043--8556084 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
8556033 AAAAAAATTT
8556043 AAAATAATAAAATTTAATA
1 AAAAT-ATAAAATTTAATA
*
8556062 AAAATATAAAATTTATTA
1 AAAATATAAAATTTAATA
8556080 AAAAT
1 AAAAT
8556085 TAGAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATAAAATTTAATA
Found at i:8556147 original size:19 final size:19
Alignment explanation
Indices: 8556043--8556148 Score: 74
Period size: 19 Copynumber: 5.6 Consensus size: 19
8556033 AAAAAAATTT
* *
8556043 AAAATAATAAAATTTAATA
1 AAAATTATAAAATTTTATA
8556062 AAAA-TATAAAA-TTTATTA
1 AAAATTATAAAATTTTA-TA
* **
8556080 AAAATTAGAATTTTTTATA
1 AAAATTATAAAATTTTATA
* ***
8556099 AAAATTGTAAAA-AAAATAA
1 AAAATTATAAAATTTTAT-A
*
8556118 AAAATTGTAAAATTTTATA
1 AAAATTATAAAATTTTATA
*
8556137 AAAATCATAAAA
1 AAAATTATAAAA
8556149 AATTAACAAC
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
17 3 0.05
18 14 0.22
19 42 0.65
20 6 0.09
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAATTATAAAATTTTATA
Found at i:8556355 original size:19 final size:17
Alignment explanation
Indices: 8556333--8556411 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 17
8556323 TTACATTTTG
8556333 TATAATTTTCTTATGATTT
1 TATAATTTT-TTAT-ATTT
**
8556352 TATAAAATTTTATATTT
1 TATAATTTTTTATATTT
* *
8556369 TTTATATTTCTATATATTT
1 TATA-ATTT-TTTATATTT
*
8556388 TATAATTTTTCATGATTGT
1 TATAATTTTTTAT-ATT-T
8556407 TATAA
1 TATAA
8556412 AATTTCACAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
17 10 0.21
18 13 0.28
19 24 0.51
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (17 bp):
TATAATTTTTTATATTT
Found at i:8556382 original size:17 final size:16
Alignment explanation
Indices: 8556358--8556396 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
8556348 ATTTTATAAA
*
8556358 ATTTTATATTTTTTAT
1 ATTTTATATATTTTAT
8556374 ATTTCTATATATTTTAT
1 ATTT-TATATATTTTAT
8556391 AATTTT
1 -ATTTT
8556397 TCATGATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 12 0.60
18 4 0.20
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATATATTTTAT
Found at i:8556443 original size:55 final size:53
Alignment explanation
Indices: 8556316--8556454 Score: 152
Period size: 55 Copynumber: 2.5 Consensus size: 53
8556306 ATGAAATATA
* * * *
8556316 TATTTCTTTACATTTTGTATAATTTTCTTATGATTTTATAAAATTTTATATTTTT
1 TATTTTTTTACATTTT-TATAATTTT-TCATGATTTTATAAAATTTCAAATTTTT
* * *
8556371 TATATTTCTATATATTTTATAATTTTTCATGATTGTTATAAAATTTCACAATTTTT
1 TATTTTTTTACAT-TTTTATAATTTTTCATGATT-TTATAAAATTTCA-AATTTTT
*
8556427 TATTTTTTTACGATTTTTATACTTTTTC
1 TATTTTTTTAC-ATTTTTATAATTTTTC
8556455 TAATTTTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
54 7 0.10
55 30 0.43
56 30 0.43
57 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (53 bp):
TATTTTTTTACATTTTTATAATTTTTCATGATTTTATAAAATTTCAAATTTTT
Found at i:8564470 original size:24 final size:24
Alignment explanation
Indices: 8564442--8564495 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8564432 TTCCTGAAAT
*
8564442 ATGGCTATCCAGAGCTTCCCGTTA
1 ATGGCTATCCAGAGCTACCCGTTA
* * *
8564466 ATGGCTCTTCGGAGCTACCCGTTA
1 ATGGCTATCCAGAGCTACCCGTTA
*
8564490 AAGGCT
1 ATGGCT
8564496 CGCATGAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (24 bp):
ATGGCTATCCAGAGCTACCCGTTA
Found at i:8570793 original size:20 final size:22
Alignment explanation
Indices: 8570755--8570803 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
8570745 AATTAGGTTT
8570755 ATTT-AAAATAAAAACATTA-A
1 ATTTAAAAATAAAAACATTATA
*
8570775 ATTTAAAAATAGAAA-ATTATA
1 ATTTAAAAATAAAAACATTATA
8570796 ATATTAAA
1 AT-TTAAA
8570804 TATCTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 8 0.32
21 12 0.48
22 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTTAAAAATAAAAACATTATA
Found at i:8572979 original size:114 final size:115
Alignment explanation
Indices: 8572742--8572990 Score: 288
Period size: 114 Copynumber: 2.2 Consensus size: 115
8572732 CTTTCTTTAG
* *
8572742 AAACGCCGCAATAGTCAAGAATTACCGGCGTTTTATCATAAACGCCGCAAAAACTGCTAAGAAAA
1 AAACGCCGCAACAGTCAAGAATTACCGGCGCTTTATCATAAACGCCGCAAAAACTGCTAAGAAAA
* * * * *
8572807 CGGAGCCGTTTTAGGTTTAGGTTTTAGGAAAGTTAGTGGCGCTTACTGAA
66 CGGAGCCGTTTTACGTTTAGCTTTTAAGAAAGATAGTGGCGATTACTGAA
* * * *
8572857 AAACGCCGCAACGGTCAAGAATTAGCGGCGCTTTATCATAAGCGCCGC-AAAACTGTTAAGAAAA
1 AAACGCCGCAACAGTCAAGAATTACCGGCGCTTTATCATAAACGCCGCAAAAACTGCTAAGAAAA
** * * *
8572921 CGTTGCCGTTTTTCGTTTATCTTTTCAAG-ACGATAGTGGCGATTA-TCGAA
66 CGGAGCCGTTTTACGTTTAGCTTTT-AAGAAAGATAGTGGCGATTACT-GAA
* * *
8572971 AAATGCCGCAATAGCCAAGA
1 AAACGCCGCAACAGTCAAGA
8572991 TTTGGCTGCG
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
113 1 0.01
114 66 0.59
115 45 0.40
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (115 bp):
AAACGCCGCAACAGTCAAGAATTACCGGCGCTTTATCATAAACGCCGCAAAAACTGCTAAGAAAA
CGGAGCCGTTTTACGTTTAGCTTTTAAGAAAGATAGTGGCGATTACTGAA
Found at i:8573752 original size:7 final size:7
Alignment explanation
Indices: 8573742--8573824 Score: 53
Period size: 7 Copynumber: 11.7 Consensus size: 7
8573732 TAAGAGATAT
8573742 GGGTTAG
1 GGGTTAG
*
8573749 GGGTTTAT
1 GGG-TTAG
* *
8573757 GGATTAT
1 GGGTTAG
* *
8573764 GGTTTAA
1 GGGTTAG
8573771 GGGTT-G
1 GGGTTAG
8573777 GGGTTAAG
1 GGGTT-AG
*
8573785 GGTTTAG
1 GGGTTAG
*
8573792 GGGTTAA
1 GGGTTAG
*
8573799 GGG-CAG
1 GGGTTAG
8573805 GGGTTAG
1 GGGTTAG
8573812 GGGTTTAG
1 GGG-TTAG
8573820 GGGTT
1 GGGTT
8573825 TATAGTTAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
6 9 0.15
7 33 0.56
8 17 0.29
ACGTcount: A:0.17, C:0.01, G:0.48, T:0.34
Consensus pattern (7 bp):
GGGTTAG
Found at i:8573785 original size:13 final size:13
Alignment explanation
Indices: 8573767--8573816 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
8573757 GGATTATGGT
8573767 TTAAGGGTTGGGG
1 TTAAGGGTTGGGG
8573780 TTAAGGGTTTAGGGG
1 TTAAGGG-TT-GGGG
**
8573795 TTAAGGGCAGGGG
1 TTAAGGGTTGGGG
*
8573808 TTAGGGGTT
1 TTAAGGGTT
8573817 TAGGGGTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 17 0.57
14 2 0.07
15 11 0.37
ACGTcount: A:0.18, C:0.02, G:0.50, T:0.30
Consensus pattern (13 bp):
TTAAGGGTTGGGG
Found at i:8573798 original size:28 final size:28
Alignment explanation
Indices: 8573767--8573824 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
8573757 GGATTATGGT
**
8573767 TTAAGGGTTGGGGTTAAGGGTTTAGGGG
1 TTAAGGGCAGGGGTTAAGGGTTTAGGGG
*
8573795 TTAAGGGCAGGGGTTAGGGGTTTAGGGG
1 TTAAGGGCAGGGGTTAAGGGTTTAGGGG
8573823 TT
1 TT
8573825 TATAGTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.17, C:0.02, G:0.50, T:0.31
Consensus pattern (28 bp):
TTAAGGGCAGGGGTTAAGGGTTTAGGGG
Found at i:8573806 original size:20 final size:20
Alignment explanation
Indices: 8573783--8573821 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8573773 GTTGGGGTTA
*
8573783 AGGGTTTAGGGGTTAAGGGC
1 AGGGGTTAGGGGTTAAGGGC
*
8573803 AGGGGTTAGGGGTTTAGGG
1 AGGGGTTAGGGGTTAAGGG
8573822 GTTTATAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.54, T:0.26
Consensus pattern (20 bp):
AGGGGTTAGGGGTTAAGGGC
Found at i:8574026 original size:21 final size:22
Alignment explanation
Indices: 8573985--8574039 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
8573975 TATGGATTAT
8573985 GGTTTAAGGGTTGGTGTTTAA-
1 GGTTTAAGGGTTGGTGTTTAAG
8574006 GGTTTAAGGGTTAAGG-G-TTAAG
1 GGTTTAAGGGTT--GGTGTTTAAG
*
8574028 GGTTTAGGGGTT
1 GGTTTAAGGGTT
8574040 TATAGTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 16 0.53
22 12 0.40
23 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.42, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTGGTGTTTAAG
Found at i:8574040 original size:8 final size:8
Alignment explanation
Indices: 8574000--8574041 Score: 54
Period size: 7 Copynumber: 5.6 Consensus size: 8
8573990 AAGGGTTGGT
8574000 GTTTAA-G
1 GTTTAAGG
8574007 GTTTAAGG
1 GTTTAAGG
8574015 G-TTAAGG
1 GTTTAAGG
8574022 G-TTAAGG
1 GTTTAAGG
*
8574029 GTTTAGGG
1 GTTTAAGG
8574037 GTTTA
1 GTTTA
8574042 TAGTTAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 20 0.62
8 12 0.38
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (8 bp):
GTTTAAGG
Done.