Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 28 of 93
Found at i:11586825 original size:93 final size:93
Alignment explanation
Indices: 11586666--11586993 Score: 374
Period size: 93 Copynumber: 3.5 Consensus size: 93
11586656 ACACACCACA
* *
11586666 ACTTGTTATGCATGGTGAGTCAGAACAATTTAATTGTTATGCATGGCATGTCACAACGTTTAACT
1 ACTTGTTATGCATGGTGAGTCAAAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
*
11586731 TGTTATGCATGGCGTGTCAGTACAATTT
66 TGTTATGCATGGCGTGTCAGAACAATTT
* *
11586759 ACTTGTTATGCATGGTGGGTCAAAACAATTTAATTGTTATGCATGGTGTGTCACAACGTTTAACT
1 ACTTGTTATGCATGGTGAGTCAAAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
* *
11586824 TGTTATGCATGGTGGGTCAGAACAATTT
66 TGTTATGCATGGCGTGTCAGAACAATTT
* * * * * * ** **
11586852 AATTGTTATGCATGGCGTGTCACAACGA-TTAACTTGTTATGCATGGCGTGTCATAAAATTTTTC
1 ACTTGTTATGCATGGTGAGTCAAAACAATTTAA-TTGTTATGCATGGCGTGTCACAACGTTTAAC
* *
11586916 TTGTTATGCATGGCGTGTCACAA-TATATT
65 TTGTTATGCATGGCGTGTCAGAACAAT-TT
* * ** * * *
11586945 ACTTGATATGCACGACGTGTCACAA-TATTTAACTTGTTATGCATGGCGT
1 ACTTGTTATGCATGGTGAGTCAAAACAATTTAA-TTGTTATGCATGGCGT
11586994 TTCTCACATT
Statistics
Matches: 205, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
92 7 0.03
93 198 0.97
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (93 bp):
ACTTGTTATGCATGGTGAGTCAAAACAATTTAATTGTTATGCATGGCGTGTCACAACGTTTAACT
TGTTATGCATGGCGTGTCAGAACAATTT
Found at i:11591204 original size:31 final size:31
Alignment explanation
Indices: 11591132--11591206 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
11591122 TCGTGTTGTT
*
11591132 ACACACCATGCATATAACGTAAAATGTTGTA
1 ACACACCATGCATATAACGTAAAATGTCGTA
* *
11591163 ACACACCATGCATATCAA-GTCAAATGTCGTG
1 ACACACCATGCATAT-AACGTAAAATGTCGTA
**
11591194 ACACGTCATGCAT
1 ACACACCATGCAT
11591207 CAGTATCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
ACACACCATGCATATAACGTAAAATGTCGTA
Found at i:11591243 original size:23 final size:23
Alignment explanation
Indices: 11591189--11591244 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
11591179 AAGTCAAATG
* *
11591189 TCGTGACACGTCATGCATCAGTA
1 TCGTGACACGCCATGCATCACTA
* *
11591212 TCATTACACGCCATGCATCACTA
1 TCGTGACACGCCATGCATCACTA
11591235 TCGTGACACG
1 TCGTGACACG
11591245 TCAATCACTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (23 bp):
TCGTGACACGCCATGCATCACTA
Found at i:11591425 original size:55 final size:55
Alignment explanation
Indices: 11591276--11591461 Score: 167
Period size: 55 Copynumber: 3.4 Consensus size: 55
11591266 TGGTTACACC
* * *
11591276 AACAACCGTGACACGCTAAAAACTCAAAAAACTAGTTAACCCACGACACGCCAGG
1 AACAACCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACCACACCCCAGG
* * * * * * *
11591331 AACAACCATAACATGCCAAAAACCC-ATAAATTCAATTAACCCACCACACCCCAGG
1 AACAACCGTGACACGCTAAAAACCCAAAAAACT-AGTTAACCCACCACACCCCAGG
* ** * * ***
11591386 AAGAGTCGTGACACGCTAACAACCCAAAAAACTAGTTAACCCACAACATGTCAGG
1 AACAACCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACCACACCCCAGG
* * *
11591441 AATAGCCATGACACGCTAAAA
1 AACAACCGTGACACGCTAAAA
11591462 TAACTCTAAC
Statistics
Matches: 100, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
54 5 0.05
55 90 0.90
56 5 0.05
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.13
Consensus pattern (55 bp):
AACAACCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACCACACCCCAGG
Found at i:11591753 original size:63 final size:63
Alignment explanation
Indices: 11591671--11591790 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 63
11591661 CAGCCTGATG
* * * *
11591671 ACGATGGTGCTCAACAGAGAGTTGACAGAGCTCATACAGTTCAGAGATTTGAGAGAGCTGACA
1 ACGACGGTGCTCAACAGAGACTTGACAGAGCTCAGACAGTTCAGAGAGTTGAGAGAGCTGACA
* * * *
11591734 ACGACGGTGCTCAACAGAGACTTGCCAGAGTTGAGACAGTTCAGAGAGTTGGGAGAG
1 ACGACGGTGCTCAACAGAGACTTGACAGAGCTCAGACAGTTCAGAGAGTTGAGAGAG
11591791 AAAGATGACC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (63 bp):
ACGACGGTGCTCAACAGAGACTTGACAGAGCTCAGACAGTTCAGAGAGTTGAGAGAGCTGACA
Found at i:11605490 original size:4 final size:4
Alignment explanation
Indices: 11605452--11605520 Score: 83
Period size: 4 Copynumber: 18.0 Consensus size: 4
11605442 GATAAATGGA
* *
11605452 ATAT AAAT AAAT ATAT ANTA- ATA- ATA- ATA- ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT A-TAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
11605497 ATAT ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT
11605521 TGTCACCCCC
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 11 0.18
4 48 0.79
5 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:11605490 original size:6 final size:6
Alignment explanation
Indices: 11605452--11605520 Score: 83
Period size: 6 Copynumber: 12.0 Consensus size: 6
11605442 GATAAATGGA
* *
11605452 ATATAA ATAAAT ATATANT A-ATA- ATA-AT A-ATAT ATATAT ATATAT
1 ATATAT ATATAT ATATA-T ATATAT ATATAT ATATAT ATATAT ATATAT
11605497 ATATAT ATATAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT
11605521 TGTCACCCCC
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
4 3 0.05
5 5 0.09
6 45 0.82
7 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:11615756 original size:31 final size:31
Alignment explanation
Indices: 11615720--11615779 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
11615710 TTGCATGCAT
11615720 AGTATTTATTAATTGCATAAA-AGAATCTATA
1 AGTATTTATTAATTGCATAAATA-AATCTATA
11615751 AGTATTTATTAATTGCATAAATAAATCTA
1 AGTATTTATTAATTGCATAAATAAATCTA
11615780 CCTCATGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (31 bp):
AGTATTTATTAATTGCATAAATAAATCTATA
Found at i:11625855 original size:21 final size:21
Alignment explanation
Indices: 11625821--11625870 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
11625811 AGTAATTAAT
* *
11625821 AAACCATGCTATTTTAGTTTG
1 AAACCATACAATTTTAGTTTG
* *
11625842 AAACCATACAATTTTTGTTTT
1 AAACCATACAATTTTAGTTTG
*
11625863 AAAACATA
1 AAACCATA
11625871 AAACTATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (21 bp):
AAACCATACAATTTTAGTTTG
Found at i:11631086 original size:21 final size:20
Alignment explanation
Indices: 11631062--11631109 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11631052 ATCTTACCTT
* *
11631062 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTAAA
*
11631083 TTTTCACACTTTTCCCTTAAA
1 TTTT-TCACTTTTCCCTTAAA
11631104 TTTTTC
1 TTTTTC
11631110 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.23, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTAAA
Found at i:11650400 original size:16 final size:17
Alignment explanation
Indices: 11650379--11650410 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11650369 CATATCATAT
11650379 TGTATTATAC-ATATTA
1 TGTATTATACAATATTA
11650395 TGTATTATACAATATT
1 TGTATTATACAATATT
11650411 GATAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
TGTATTATACAATATTA
Found at i:11651027 original size:21 final size:21
Alignment explanation
Indices: 11650979--11651030 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11650969 ATCTATAATT
* *
11650979 ATAAAAATAATTATAACAAAA
1 ATAATAATAATAATAACAAAA
*
11651000 ATAATAATAATAATAACATCAA
1 ATAATAATAATAATAACA-AAA
11651022 AT-ATAATAA
1 ATAATAATAA
11651031 AATTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAATAATAATAATAACAAAA
Found at i:11653309 original size:22 final size:21
Alignment explanation
Indices: 11653268--11653337 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
11653258 AAATACAAAC
*
11653268 ATATTTTTATTATAATTAATA
1 ATATTTTTATTATAAATAATA
11653289 ATATTTTGTATTA-AAGATAATTA
1 ATATTTT-TATTATAA-ATAA-TA
** *
11653312 ACCTTTTTATTATAATTAAATA
1 ATATTTTTATTATAAAT-AATA
11653334 ATAT
1 ATAT
11653338 AAATATATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 9 0.24
22 18 0.47
23 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
ATATTTTTATTATAAATAATA
Found at i:11655029 original size:80 final size:78
Alignment explanation
Indices: 11654911--11655070 Score: 275
Period size: 80 Copynumber: 2.0 Consensus size: 78
11654901 AAGTTATTCA
11654911 TTTTACTATTATTATCATTATTTACAAAAGTTTTTATCAAATGACCAATCATTAATAATATATAT
1 TTTTACTATTATTATCATTATTTACAAAAGTTTTTATCAAATGACCAATCATTAATAATAT-TAT
11654976 TTTAAAATATATTT
65 TTTAAAATATATTT
** *
11654990 TTTTAACTATTATTATCATTATTTACAAATTTTTTTATCAAATGACCAATCATTAATAATATTTT
1 TTTT-ACTATTATTATCATTATTTACAAAAGTTTTTATCAAATGACCAATCATTAATAATATTAT
11655055 TTTAAAATATATTT
65 TTTAAAATATATTT
11655069 TT
1 TT
11655071 AATGTCACAT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
79 22 0.29
80 55 0.71
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.51
Consensus pattern (78 bp):
TTTTACTATTATTATCATTATTTACAAAAGTTTTTATCAAATGACCAATCATTAATAATATTATT
TTAAAATATATTT
Found at i:11655112 original size:18 final size:18
Alignment explanation
Indices: 11655089--11655154 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
11655079 ATTTTTTAAT
11655089 TTTTATTTTTTATTATAA
1 TTTTATTTTTTATTATAA
*
11655107 TTTTATTTTTTATTTTTAA
1 TTTTATTTTTTA-TTATAA
*
11655126 TATATT-TTTTATATTATATA
1 T-T-TTATTTTTTATTATA-A
11655146 TTTTATTTT
1 TTTTATTTT
11655155 AATTCCTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 14 0.35
19 15 0.38
20 9 0.22
21 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTTATTATAA
Found at i:11655116 original size:25 final size:25
Alignment explanation
Indices: 11655082--11655158 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
11655072 ATGTCACATT
*
11655082 TTTTAATTTTTATTTTTTATTATAA
1 TTTTATTTTTTATTTTTTATTATAA
* *
11655107 TTTTATTTTTTA-TTTTTAATATATT
1 TTTTATTTTTTATTTTTTATTATA-A
* * * *
11655132 TTTTATATTATATATTTTATTTTAA
1 TTTTATTTTTTATTTTTTATTATAA
11655157 TT
1 TT
11655159 CCTATGATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
24 10 0.24
25 23 0.56
26 8 0.20
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTTATTTTTTATTATAA
Found at i:11657244 original size:29 final size:26
Alignment explanation
Indices: 11657210--11657277 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
11657200 TTATTTAAAA
11657210 ATTTTAAATAAATTT-TTATTATTTGATT
1 ATTTTAAATAAATTTATTA-TATTT--TT
*
11657238 ATATTT-AATTAATTTATTATATTTTT
1 AT-TTTAAATAAATTTATTATATTTTT
11657264 ATTTTAAATCAAAT
1 ATTTTAAAT-AAAT
11657278 AATATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 3 0.09
26 7 0.21
27 3 0.09
28 15 0.44
29 6 0.18
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (26 bp):
ATTTTAAATAAATTTATTATATTTTT
Found at i:11657535 original size:26 final size:27
Alignment explanation
Indices: 11657505--11657572 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 27
11657495 AAAAATTATT
*
11657505 TTAATTTAAAATAAAAATA-TAAAATA
1 TTAATTTAAAATAAAAAAACTAAAATA
* *
11657531 TTAATTAAATATAATAAAAAAACTAAAATC
1 TTAATT---TAAAATAAAAAAACTAAAATA
11657561 TT-ATTTAAAATA
1 TTAATTTAAAATA
11657573 TTTTAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
26 12 0.35
29 14 0.41
30 8 0.24
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
TTAATTTAAAATAAAAAAACTAAAATA
Found at i:11657551 original size:30 final size:31
Alignment explanation
Indices: 11657491--11657569 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 31
11657481 CAATAGTTAC
* *
11657491 ATATAAAA-ATTATTTTAATTTAAAATAAAA
1 ATATAAAATATTATTTAAATATAAAATAAAA
*
11657521 ATATAAAATATTAATTAAATATAATAA-AAAA
1 ATATAAAATATTATTTAAATATAA-AATAAAA
* *
11657552 A-CTAAAATCTTATTTAAA
1 ATATAAAATATTATTTAAA
11657570 ATATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 22 0.54
31 17 0.41
32 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (31 bp):
ATATAAAATATTATTTAAATATAAAATAAAA
Found at i:11667461 original size:25 final size:25
Alignment explanation
Indices: 11667398--11667473 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
11667388 CACTAGATAC
*
11667398 AATCTTATAGAAATTGAGGTT-TTTA
1 AATCTTATAGAAATTGA-GTTACTTA
* *
11667423 GACCTTAT--AAATTGAGTTACTTA
1 AATCTTATAGAAATTGAGTTACTTA
* *
11667446 AATCTTATAGAAATTGAGCTAGTTA
1 AATCTTATAGAAATTGAGTTACTTA
11667471 AAT
1 AAT
11667474 GTGAGATTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 3 0.07
23 16 0.39
25 22 0.54
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (25 bp):
AATCTTATAGAAATTGAGTTACTTA
Found at i:11670451 original size:2 final size:2
Alignment explanation
Indices: 11670444--11670468 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11670434 ATTGTATGTG
11670444 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11670469 TGTGAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11676672 original size:8 final size:8
Alignment explanation
Indices: 11676656--11676688 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
11676646 TACTTTTCCT
11676656 AAAAA-AA
1 AAAAAGAA
11676663 AAAAAGAA
1 AAAAAGAA
11676671 AAAAAGAA
1 AAAAAGAA
*
11676679 AGAAAGAA
1 AAAAAGAA
11676687 AA
1 AA
11676689 CCACCATGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:11678702 original size:53 final size:51
Alignment explanation
Indices: 11678639--11678799 Score: 162
Period size: 54 Copynumber: 3.0 Consensus size: 51
11678629 TTTAATGTAG
*
11678639 AATTTGTGACATTCTACTTTACTAATTGTGCATCTTGATGTACTAGCTCTTTT
1 AATTTGTGACATTCTACTTTAC-AATTGTGCATCTTGATGCACTAGCT-TTTT
* *
11678692 AATTTGTGACATTCTATCTCATT-CAATTGTGTATCTTGATACACTAGCTTTTT
1 AATTTGTGACATTCTA-CT--TTACAATTGTGCATCTTGATGCACTAGCTTTTT
* * * * * *
11678745 AAATTTGTAATATTTTACCCTATCCAATTGTGCATCTTGATGCACTGGCTTTTT
1 -AATTTGTGACATTCTA--CTTTACAATTGTGCATCTTGATGCACTAGCTTTTT
11678799 A
1 A
11678800 CCCATTTTAC
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
53 22 0.24
54 64 0.70
55 3 0.03
56 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.46
Consensus pattern (51 bp):
AATTTGTGACATTCTACTTTACAATTGTGCATCTTGATGCACTAGCTTTTT
Found at i:11678824 original size:46 final size:47
Alignment explanation
Indices: 11678756--11678846 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 47
11678746 AATTTGTAAT
* * * *
11678756 ATTTTACCCTATCCAATTGTGCATCTTGATGCACTGGCTTTTTACCC
1 ATTTTACCCAATCCAATTGTGCATCTCGATACACTGGCTCTTTACCC
11678803 ATTTTA-CCAATCCAATTGTGCATCTCGATACACTGGCTCTTTAC
1 ATTTTACCCAATCCAATTGTGCATCTCGATACACTGGCTCTTTAC
11678847 TCATAGAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 34 0.85
47 6 0.15
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.38
Consensus pattern (47 bp):
ATTTTACCCAATCCAATTGTGCATCTCGATACACTGGCTCTTTACCC
Found at i:11679277 original size:120 final size:121
Alignment explanation
Indices: 11679056--11679284 Score: 334
Period size: 120 Copynumber: 1.9 Consensus size: 121
11679046 GAAGGATTTT
* * *
11679056 TTGTGCATCTTGATGGCTCTTTACTCATAGAGAAGAAGGGCTTCTACACTAGTTCAATTTTACTC
1 TTGTGCATCTTGATGGCTCTTTACTCATAAAGAAGAAGAGCTTCTACACTAGTCCAATTTTACTC
* * *
11679121 ATCTCTCACACTAGTCCAATTTTACCTATCTTTTACTAATGTTTGTACTCATGCAA
66 ATCTCTCACACTAATCCAATTTTACCCATCTCTTACTAATGTTTGTACTCATGCAA
* * *
11679177 TTGTG-ATCTTGATGGCTCTTTACTCATAAAGAAGAATAGCTTTTACACTAGTCCGATTTTACTC
1 TTGTGCATCTTGATGGCTCTTTACTCATAAAGAAGAAGAGCTTCTACACTAGTCCAATTTTACTC
* * * *
11679241 ATCTCTTACATTAATTCAATTTTACCCATCTCTTACTAGTGTTT
66 ATCTCTCACACTAATCCAATTTTACCCATCTCTTACTAATGTTT
11679285 TTACCTATCT
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
120 90 0.95
121 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (121 bp):
TTGTGCATCTTGATGGCTCTTTACTCATAAAGAAGAAGAGCTTCTACACTAGTCCAATTTTACTC
ATCTCTCACACTAATCCAATTTTACCCATCTCTTACTAATGTTTGTACTCATGCAA
Found at i:11679998 original size:56 final size:56
Alignment explanation
Indices: 11679928--11680040 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
11679918 GATGTTATGA
** *
11679928 TCTTAACGTGGAACCATGTGAATGTAATAAAAAATATTTAAATTTTTATAAATAAT
1 TCTTAACGAAGAACCATGTGAATGTAATAAAAAATATTAAAATTTTTATAAATAAT
11679984 TCTTAACGAAGAACCATGTGAATGTAATAAAAAATATTAAAATTTTTATAAATAAT
1 TCTTAACGAAGAACCATGTGAATGTAATAAAAAATATTAAAATTTTTATAAATAAT
11680040 T
1 T
11680041 AAAAACTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (56 bp):
TCTTAACGAAGAACCATGTGAATGTAATAAAAAATATTAAAATTTTTATAAATAAT
Found at i:11680117 original size:2 final size:2
Alignment explanation
Indices: 11680104--11680137 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
11680094 CTCCACTTAA
11680104 AT AT AT AGT AT AT AT AT AT AT AT AT AGT AT AT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
11680138 CTTAAATCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 26 0.87
3 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11680248 original size:2 final size:2
Alignment explanation
Indices: 11680236--11680286 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
11680226 CCACTTAAAT
11680236 TA TA TA T- TA TA TA TA TA TA TA TA -A TA TA TA TA -A TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11680274 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
11680287 TATCTATCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11680250 original size:9 final size:9
Alignment explanation
Indices: 11680236--11680289 Score: 67
Period size: 9 Copynumber: 6.1 Consensus size: 9
11680226 CCACTTAAAT
11680236 TATATATTA
1 TATATATTA
11680245 TATATA-TA
1 TATATATTA
*
11680253 TATATAATA
1 TATATATTA
*
11680262 TATATAATA
1 TATATATTA
11680271 TA-ATATATA
1 TATATAT-TA
11680280 TATATATTA
1 TATATATTA
11680289 T
1 T
11680290 CTATCACTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
8 11 0.27
9 26 0.63
10 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TATATATTA
Found at i:11694654 original size:28 final size:26
Alignment explanation
Indices: 11694623--11694687 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
11694613 TTTTTTCCTT
11694623 TTTAATTATAAAAATAAAAAGAAAAAAA
1 TTTAATTATAAAAAT--AAAGAAAAAAA
* * * **
11694651 TTTATTTTTTAAAATATGGAAAAAAA
1 TTTAATTATAAAAATAAAGAAAAAAA
11694677 TTTAA-TATAAA
1 TTTAATTATAAA
11694688 TGTTTAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
25 4 0.14
26 13 0.45
28 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (26 bp):
TTTAATTATAAAAATAAAGAAAAAAA
Found at i:11695573 original size:27 final size:27
Alignment explanation
Indices: 11695538--11695595 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
11695528 ACAGGAATGA
*
11695538 AATACAATTGTTATTCTGTGAGAATAG
1 AATAAAATTGTTATTCTGTGAGAATAG
*
11695565 AATAAAATTGTTATTCTGTGGGAATAG
1 AATAAAATTGTTATTCTGTGAGAATAG
11695592 AATA
1 AATA
11695596 GAATAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.19, T:0.36
Consensus pattern (27 bp):
AATAAAATTGTTATTCTGTGAGAATAG
Found at i:11695605 original size:27 final size:27
Alignment explanation
Indices: 11695548--11695606 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
11695538 AATACAATTG
**
11695548 TTATTCTGTGAGAATAGAATAAAATTG
1 TTATTCTGTGAGAATAGAATAAAATAA
* *
11695575 TTATTCTGTGGGAATAGAATAGAATAA
1 TTATTCTGTGAGAATAGAATAAAATAA
11695602 TTATT
1 TTATT
11695607 ACTTTATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (27 bp):
TTATTCTGTGAGAATAGAATAAAATAA
Found at i:11696263 original size:86 final size:84
Alignment explanation
Indices: 11696063--11696274 Score: 241
Period size: 86 Copynumber: 2.5 Consensus size: 84
11696053 TAGTAGAAAT
* * * * *
11696063 AAAAAATCATGTTTTTTGATATATTAAATAGAAAATCATATCTTTAAAATTAAAAAGATAGTCTT
1 AAAAAATTATGTCTTTTGATATATTAAATACAAAATCATATCTTTAAAATTAAAAAGATAGGCCT
*
11696128 TCATTTTTTTCTAACAAAA
66 TCATTTTTTTCCAACAAAA
* * * *
11696147 AAAAAAGATATGTCTTTTGATATATGAAATATAAAATCATATCTAGTTAAAATT-AAATGAT-GG
1 AAAAAA-TTATGTCTTTTGATATATTAAATACAAAATCATATCT--TTAAAATTAAAAAGATAGG
11696210 CCTTCAATTTTTTTCCAA-AAAA
63 CCTTC-ATTTTTTTCCAACAAAA
* *
11696232 AATATAAATTATGTCTTTTGATAGATTAAATACAAATTCATAT
1 AA-A-AAATTATGTCTTTTGATATATTAAATACAAAATCATAT
11696275 TACCTTTTAA
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
84 6 0.06
85 43 0.40
86 48 0.44
87 11 0.10
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (84 bp):
AAAAAATTATGTCTTTTGATATATTAAATACAAAATCATATCTTTAAAATTAAAAAGATAGGCCT
TCATTTTTTTCCAACAAAA
Found at i:11696433 original size:19 final size:19
Alignment explanation
Indices: 11696408--11696452 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11696398 TGACAATTTA
11696408 ATTTCATTAAAATTTCAGC
1 ATTTCATTAAAATTTCAGC
* *
11696427 GTTTCATTAAATTTTCAGC
1 ATTTCATTAAAATTTCAGC
11696446 ATTTCAT
1 ATTTCAT
11696453 ATTTCATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (19 bp):
ATTTCATTAAAATTTCAGC
Found at i:11696962 original size:2 final size:2
Alignment explanation
Indices: 11696955--11697003 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
11696945 TATTGTTTGT
11696955 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
11696997 TA TA TA T
1 TA TA TA T
11697004 TGTTTAATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11698424 original size:35 final size:35
Alignment explanation
Indices: 11698374--11698449 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
11698364 GGGAAGACGA
* * *
11698374 GTGAAAGCGGCTGAGAGAGAAGGGCAGACCCACGG
1 GTGAGAGCAGCTGAGAGAGAAGGGAAGACCCACGG
* *
11698409 GTGAGAGCAGCTGAGAGAGAGGGGAAGACCCATGG
1 GTGAGAGCAGCTGAGAGAGAAGGGAAGACCCACGG
*
11698444 TTGAGA
1 GTGAGA
11698450 ACGCGACTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (35 bp):
GTGAGAGCAGCTGAGAGAGAAGGGAAGACCCACGG
Found at i:11698559 original size:33 final size:33
Alignment explanation
Indices: 11698479--11698559 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
11698469 AGAAGACCAG
* * * *
11698479 TTGAGAGAGGAGATGAAGACGGAGGAAGGTCGG
1 TTGAGAGAGGAGAGGAAGACGGACGAAGATCGA
*
11698512 TTGACAGAGGAGAGGAAGAC-GATCGAAGATCGA
1 TTGAGAGAGGAGAGGAAGACGGA-CGAAGATCGA
*
11698545 TTGAGAGAGAAGAGG
1 TTGAGAGAGGAGAGG
11698560 CTTTTTTGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 2 0.05
33 38 0.95
ACGTcount: A:0.37, C:0.07, G:0.43, T:0.12
Consensus pattern (33 bp):
TTGAGAGAGGAGAGGAAGACGGACGAAGATCGA
Found at i:11699935 original size:47 final size:46
Alignment explanation
Indices: 11699869--11700255 Score: 214
Period size: 47 Copynumber: 8.2 Consensus size: 46
11699859 CAGGGTTTAG
* * * * *
11699869 AGAGTTCGTGAAACGTCATGTTGGGAATGTGTGACATGCCAGCATTT
1 AGAGTTGGTG-AACATCATGGTGGGAATCTGTGACACGCCAGCATTT
* * ** *
11699916 AGAGTTGGTGATACATCATGGAGGAAATCTGTGACACAACAG-AGTTA
1 AGAGTTGGTGA-ACATCATGGTGGGAATCTGTGACACGCCAGCA-TTT
* * *
11699963 AGAGTTGGTG-ACATGCCATGGTGGGAATTTGTGACACGCCAACGTTT
1 AGAGTTGGTGAACAT--CATGGTGGGAATCTGTGACACGCCAGCATTT
** ** * ** *
11700010 AGAGTTGGTGAGACGCCATGGAAGGAATCTGTGACACGTCAAAATTC
1 AGAGTTGGTGA-ACATCATGGTGGGAATCTGTGACACGCCAGCATTT
** * * *
11700057 AGAGTTGGTGACACGA-CATGGTGGGAATCTGTGACACGTTAACGTTC
1 AGAGTTGGTGA-AC-ATCATGGTGGGAATCTGTGACACGCCAGCATTT
* ** * * *
11700104 AAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGTCAG-AGTTC
1 AGAGTTGGTGA-ACATCATGGTGGGAATCTGTGACACGCCAGCA-TTT
**
11700151 AGAGTTGGTGACACGA-CATGGTGGGAATCTGTGACACGTTA--ATGTT
1 AGAGTTGGTGA-AC-ATCATGGTGGGAATCTGTGACACGCCAGCAT-TT
* ** * * *
11700197 CAAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCA-AAGTTC
1 -AGAGTTGGTGA-ACATCATGGTGGGAATCTGTGACACGCCAGCA-TTT
11700245 AGAGTTGGTGA
1 AGAGTTGGTGA
11700256 CACGCCATGG
Statistics
Matches: 269, Mismatches: 55, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
45 5 0.02
46 4 0.01
47 255 0.95
48 2 0.01
49 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (46 bp):
AGAGTTGGTGAACATCATGGTGGGAATCTGTGACACGCCAGCATTT
Found at i:11700030 original size:94 final size:94
Alignment explanation
Indices: 11699869--11700311 Score: 512
Period size: 94 Copynumber: 4.7 Consensus size: 94
11699859 CAGGGTTTAG
* * * * * * * * * **
11699869 AGAGTTCGTGAAACGTCATGTTGGGAATGTGTGACATGCCAGCATTTAGAGTTGGTGATACATCA
1 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGCCAACGTTTAGAGTTGGTGAGACGCCA
* ** * *
11699934 TGGAGGAAATCTGTGACACAACAGAGTTA
66 TGGAGGGAATCTGTGACACGTCAAAGTTC
* * *
11699963 AGAGTTGGTGACATGCCATGGTGGGAATTTGTGACACGCCAACGTTTAGAGTTGGTGAGACGCCA
1 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGCCAACGTTTAGAGTTGGTGAGACGCCA
* *
11700028 TGGAAGGAATCTGTGACACGTCAAAATTC
66 TGGAGGGAATCTGTGACACGTCAAAGTTC
** * *
11700057 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGTTAACGTTCAAAGTTGGTGAGACGCCA
1 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGCCAACGTTTAGAGTTGGTGAGACGCCA
*
11700122 TGGAGGGAATCTGTGACACGTCAGAGTTC
66 TGGAGGGAATCTGTGACACGTCAAAGTTC
** * * *
11700151 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGTTAATGTTCAAAGTTGGTGAGACGCCA
1 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGCCAACGTTTAGAGTTGGTGAGACGCCA
*
11700216 TGGAGGGAATCTGTGACACGCCAAAGTTC
66 TGGAGGGAATCTGTGACACGTCAAAGTTC
* ** * * *
11700245 AGAGTTGGTGACACGCCATGGAAGGAAGT-TGTGACAAGCCAGA-GTTTAGAGTTAGTGACACGC
1 AGAGTTGGTGACACGACATGGTGGGAA-TCTGTGACACGCCA-ACGTTTAGAGTTGGTGAGACGC
11700308 CATG
64 CATG
11700312 TTTAGAGTGT
Statistics
Matches: 305, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
94 303 0.99
95 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (94 bp):
AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGCCAACGTTTAGAGTTGGTGAGACGCCA
TGGAGGGAATCTGTGACACGTCAAAGTTC
Found at i:11700261 original size:47 final size:47
Alignment explanation
Indices: 11699916--11700311 Score: 443
Period size: 47 Copynumber: 8.4 Consensus size: 47
11699906 GCCAGCATTT
* ** * ** * *
11699916 AGAGTTGGTGATACATCATGGAGGAAATCTGTGACACAACAGAGTTA
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * * * * *
11699963 AGAGTTGGTGACATGCCATGGTGGGAATTTGTGACACGCCAACGTTT
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * *
11700010 AGAGTTGGTGAGACGCCATGGAAGGAATCTGTGACACGTCAAAATTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * * *
11700057 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGTTAACGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * *
11700104 AAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGTCAGAGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * * *
11700151 AGAGTTGGTGACACGACATGGTGGGAATCTGTGACACGTTAATGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * *
11700198 AAAGTTGGTGAGACGCCATGGAGGGAATCTGTGACACGCCAAAGTTC
1 AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
* * * * *
11700245 AGAGTTGGTGACACGCCATGGAAGGAAGT-TGTGACAAGCCAGAGTTT
1 AGAGTTGGTGACACGCCATGGAGGGAA-TCTGTGACACGTCAAAGTTC
*
11700292 AGAGTTAGTGACACGCCATG
1 AGAGTTGGTGACACGCCATG
11700312 TTTAGAGTGT
Statistics
Matches: 292, Mismatches: 56, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
47 291 1.00
48 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (47 bp):
AGAGTTGGTGACACGCCATGGAGGGAATCTGTGACACGTCAAAGTTC
Found at i:11700328 original size:23 final size:22
Alignment explanation
Indices: 11700227--11700328 Score: 80
Period size: 23 Copynumber: 4.4 Consensus size: 22
11700217 GGAGGGAATC
*
11700227 TGTGACACGCCAAAGTTCAGAGT
1 TGTGACACGCC-AAGTTTAGAGT
* **
11700250 TGGTGACACGCCATG-GAAGGAAGT
1 T-GTGACACGCCAAGTTTA-G-AGT
*
11700274 TGTGACAAGCCAGAGTTTAGAGT
1 TGTGACACGCCA-AGTTTAGAGT
*
11700297 TAGTGACACGCCATGTTTAGAGT
1 T-GTGACACGCCAAGTTTAGAGT
11700320 GTGTGACAC
1 -TGTGACAC
11700329 AACATTGTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
22 1 0.02
23 34 0.54
24 27 0.43
25 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (22 bp):
TGTGACACGCCAAGTTTAGAGT
Found at i:11701064 original size:31 final size:31
Alignment explanation
Indices: 11700895--11701063 Score: 212
Period size: 31 Copynumber: 5.5 Consensus size: 31
11700885 CATTATTAGC
* *
11700895 GTGTGACAACATTTGACTCGATATGCATGGC
1 GTGTCACAACATTTGACTCGATATGCATGGT
* * *
11700926 GTGTAATAATATTTGACTCGATATGCATGGT
1 GTGTCACAACATTTGACTCGATATGCATGGT
*
11700957 GTGTAACAACATTTGACTCGATATGCATGGT
1 GTGTCACAACATTTGACTCGATATGCATGGT
* * * **
11700988 ATGTCACAATATTTGACTTGATATGCATGAC
1 GTGTCACAACATTTGACTCGATATGCATGGT
* * *
11701019 GTGTCACAACATTTTACTTGTTATGCATGGT
1 GTGTCACAACATTTGACTCGATATGCATGGT
11701050 GTGTCACAACATTT
1 GTGTCACAACATTT
11701064 TGCTTGTTAC
Statistics
Matches: 120, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 120 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (31 bp):
GTGTCACAACATTTGACTCGATATGCATGGT
Found at i:11701077 original size:17 final size:17
Alignment explanation
Indices: 11701055--11701089 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11701045 ATGGTGTGTC
11701055 ACAACATTTTGCTTGTT
1 ACAACATTTTGCTTGTT
11701072 ACAACATTTTGCTTGTT
1 ACAACATTTTGCTTGTT
11701089 A
1 A
11701090 TGCATGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (17 bp):
ACAACATTTTGCTTGTT
Found at i:11703350 original size:31 final size:31
Alignment explanation
Indices: 11703307--11703572 Score: 273
Period size: 31 Copynumber: 8.6 Consensus size: 31
11703297 AGCGTGTGAC
*
11703307 AACATTTTACTTGTTATGCATGGCATGTTAG
1 AACATTTTACTTGTTATGCATGGCATGTCAG
* * *
11703338 AACAATTTACTTGTTATGCATGGCGTGTCAC
1 AACATTTTACTTGTTATGCATGGCATGTCAG
* * **
11703369 AACGTTTAACTTGTTATGCATGAAATGTCAG
1 AACATTTTACTTGTTATGCATGGCATGTCAG
* * ** *
11703400 AACATTTT-GTAGCACATCCATGGCATGTCAG
1 AACATTTTACTTG-TTATGCATGGCATGTCAG
* * * *
11703431 AACATTTTGCTTGTTATACATGGCGTGTTAG
1 AACATTTTACTTGTTATGCATGGCATGTCAG
* * * *
11703462 AACATTTTGCTTATTATGCATGGCGTGTCAC
1 AACATTTTACTTGTTATGCATGGCATGTCAG
* * *
11703493 AACGTTTAACTTGTTATGCATGGCATGTGAG
1 AACATTTTACTTGTTATGCATGGCATGTCAG
* * *
11703524 AACATTTTGCTTGTTATGCATGGCGTGTCAT
1 AACATTTTACTTGTTATGCATGGCATGTCAG
11703555 AACATTTTACTTGTTATG
1 AACATTTTACTTGTTATG
11703573 ATTTGTGGTA
Statistics
Matches: 188, Mismatches: 45, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
30 2 0.01
31 184 0.98
32 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (31 bp):
AACATTTTACTTGTTATGCATGGCATGTCAG
Found at i:11703381 original size:62 final size:62
Alignment explanation
Indices: 11703298--11703572 Score: 318
Period size: 62 Copynumber: 4.4 Consensus size: 62
11703288 GTCAGTGTTA
* *
11703298 GCGTGTGACAACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTGCTTGTTATGCATG
* * ** * * * ** *
11703360 GCGTGTCACAACGTTTAACTTGTTATGCATGAAATGTCAGAACATTTTG-TAGCACATCCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTGCTTG-TTATGCATG
* * * * * * *
11703422 GCATGTCAGAACATTTTGCTTGTTATACATGGCGTGTTAGAACATTTTGCTTATTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTGCTTGTTATGCATG
* * * *
11703484 GCGTGTCACAACGTTTAACTTGTTATGCATGGCATGTGAGAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTGCTTGTTATGCATG
*
11703546 GCGTGTCATAACATTTTACTTGTTATG
1 GCGTGTCACAACATTTTACTTGTTATG
11703573 ATTTGTGGTA
Statistics
Matches: 172, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
61 2 0.01
62 169 0.98
63 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (62 bp):
GCGTGTCACAACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTGCTTGTTATGCATG
Found at i:11703527 original size:124 final size:124
Alignment explanation
Indices: 11703307--11703571 Score: 379
Period size: 124 Copynumber: 2.1 Consensus size: 124
11703297 AGCGTGTGAC
* *
11703307 AACATTTTACTTGTTATGCATGGCATGTTAGAACAATTTACTTGTTATGCATGGCGTGTCACAAC
1 AACATTTTACTTGTTATACATGGCATGTTAGAACAATTTACTTATTATGCATGGCGTGTCACAAC
11703372 GTTTAACTTGTTATGCATGAAATGTCAGAACATTTTGTAGCACATCCATGGCATGTCAG
66 GTTTAACTTGTTATGCATGAAATGTCAGAACATTTTGTAGCACATCCATGGCATGTCAG
* * * *
11703431 AACATTTTGCTTGTTATACATGGCGTGTTAGAACATTTTGCTTATTATGCATGGCGTGTCACAAC
1 AACATTTTACTTGTTATACATGGCATGTTAGAACAATTTACTTATTATGCATGGCGTGTCACAAC
** * * ** * * *
11703496 GTTTAACTTGTTATGCATGGCATGTGAGAACATTTTGCTTG-TTATGCATGGCGTGTCAT
66 GTTTAACTTGTTATGCATGAAATGTCAGAACATTTTG-TAGCACATCCATGGCATGTCAG
11703555 AACATTTTACTTGTTAT
1 AACATTTTACTTGTTAT
11703572 GATTTGTGGT
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
124 122 0.98
125 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (124 bp):
AACATTTTACTTGTTATACATGGCATGTTAGAACAATTTACTTATTATGCATGGCGTGTCACAAC
GTTTAACTTGTTATGCATGAAATGTCAGAACATTTTGTAGCACATCCATGGCATGTCAG
Found at i:11705225 original size:53 final size:51
Alignment explanation
Indices: 11705106--11705239 Score: 171
Period size: 52 Copynumber: 2.5 Consensus size: 51
11705096 TGTACATTTT
* * * *
11705106 TTTTTGTATATAGAATTATTTTAATACAATTCATTGTATACATAATTAATTC
1 TTTTTGTATACACAATTATTTT-ATACAATTAATTGTATACACAATTAATTC
*
11705158 TTTTTGTATACACAATATATTTTATACAATTAATTTTATACACAATTAATT-
1 TTTTTGTATACACAAT-TATTTTATACAATTAATTGTATACACAATTAATTC
11705209 TTTTTGCCTATACACAATTAATTTTATACAA
1 TTTTTG--TATACACAATT-ATTTTATACAA
11705240 AGAATTTTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
51 6 0.08
52 40 0.55
53 27 0.37
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (51 bp):
TTTTTGTATACACAATTATTTTATACAATTAATTGTATACACAATTAATTC
Found at i:11705238 original size:16 final size:16
Alignment explanation
Indices: 11705164--11705210 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
11705154 ATTCTTTTTG
11705164 TATACACAA-TATATTT
1 TATACACAATTA-ATTT
11705180 TAT--ACAATTAATTT
1 TATACACAATTAATTT
11705194 TATACACAATTAATTT
1 TATACACAATTAATTT
11705210 T
1 T
11705211 TTTGCCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACACAATTAATTT
Found at i:11706244 original size:31 final size:31
Alignment explanation
Indices: 11706199--11706362 Score: 238
Period size: 31 Copynumber: 5.3 Consensus size: 31
11706189 TTAGCTTGTG
*
11706199 ACAACATTTTACTTGTTATACATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* *
11706230 ACAACGTTTAACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
11706261 AGAAAATTTTGCTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * *
11706292 ACAATATTTTACTTGATATGCACGACGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
11706323 ACAACATTTTACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
11706354 ACAACATTT
1 ACAACATTT
11706363 ATTCCTTATT
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 115 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (31 bp):
ACAACATTTTACTTGTTATGCATGGCGTGTC
Found at i:11707386 original size:31 final size:31
Alignment explanation
Indices: 11707351--11707412 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
11707341 CCCGTCAAGA
*
11707351 CTGCAAGAAGTTAACGTGTAATGCCATAAGT
1 CTGCAAGAAGTCAACGTGTAATGCCATAAGT
** * *
11707382 CTGCATTAAGTCAACGTGTCATGCCGTAAGT
1 CTGCAAGAAGTCAACGTGTAATGCCATAAGT
11707413 TTGAATTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
CTGCAAGAAGTCAACGTGTAATGCCATAAGT
Found at i:11707421 original size:31 final size:31
Alignment explanation
Indices: 11707358--11707421 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
11707348 AGACTGCAAG
* *
11707358 AAGTTAACGTGTAATGCCATAAGTCTGCATT
1 AAGTCAACGTGTAATGCCATAAGTCTGAATT
* * *
11707389 AAGTCAACGTGTCATGCCGTAAGTTTGAATT
1 AAGTCAACGTGTAATGCCATAAGTCTGAATT
11707420 AA
1 AA
11707422 CTTGGTGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (31 bp):
AAGTCAACGTGTAATGCCATAAGTCTGAATT
Found at i:11711428 original size:55 final size:54
Alignment explanation
Indices: 11711343--11711583 Score: 168
Period size: 55 Copynumber: 4.4 Consensus size: 54
11711333 TCGTTACACC
* * *
11711343 AACAGCCGTGACAAGCTAAAAACCCTAAAAACCAATTTACCCACAACACATCAGG
1 AACAG-CGTGACAAGCTCAAAACCCTAAAAACCAATTAACCCACAACACACCAGG
* * * *
11711398 AACAGTCGTGACATGCTCAAAA-CCTAAAAAACTAGTTAACCCACTACACACCAGG
1 AACAG-CGTGACAAGCTCAAAACCCT-AAAAACCAATTAACCCACAACACACCAGG
* * * * *
11711453 AACAGCAGTGACAAGC-CAAAAACCC-ATAAATCCAGTTAACCCACGACACGCTAGG
1 AACAGC-GTGACAAGCTC-AAAACCCTA-AAAACCAATTAACCCACAACACACCAGG
* * * * * * * * *
11711508 AACAGCCATGACACGCT-AACAATCCAAAAAACTAGTTAACCCACAATACACTAGA
1 AACAG-CGTGACAAGCTCAA-AACCCTAAAAACCAATTAACCCACAACACACCAGG
*
11711563 AACAGCCGTGACATGCT-AAAA
1 AACAG-CGTGACAAGCTCAAAA
11711584 TAACGCTAAC
Statistics
Matches: 152, Mismatches: 25, Indels: 19
0.78 0.13 0.10
Matches are distributed among these distances:
54 10 0.07
55 138 0.91
56 4 0.03
ACGTcount: A:0.44, C:0.29, G:0.13, T:0.14
Consensus pattern (54 bp):
AACAGCGTGACAAGCTCAAAACCCTAAAAACCAATTAACCCACAACACACCAGG
Found at i:11711537 original size:110 final size:110
Alignment explanation
Indices: 11711343--11711575 Score: 276
Period size: 110 Copynumber: 2.1 Consensus size: 110
11711333 TCGTTACACC
* * * *
11711343 AACAGCCGTGACAAGCTAAAAACCCTAAAAACCAATTTACCCACAACACATCAGGAACAGTCGTG
1 AACAGCCGTGACAAGCCAAAAACCCTAAAAACCAATTAACCCACAACACATCAGGAACAGCCATG
* * *
11711408 ACATGCTCAAAACCTAAAAAACTAGTTAACCCACTACACACCAGG
66 ACACGCTCAAAACCTAAAAAACTAGTTAACCCACAACACACCAGA
* * * * *
11711453 AACAGCAGTGACAAGCCAAAAACCC-ATAAATCCAGTTAACCCACGACAC-GCTAGGAACAGCCA
1 AACAGCCGTGACAAGCCAAAAACCCTA-AAAACCAATTAACCCACAACACATC-AGGAACAGCCA
* *
11711516 TGACACGCT-AACAATCC-AAAAAACTAGTTAACCCACAATACACTAGA
64 TGACACGCTCAA-AA-CCTAAAAAACTAGTTAACCCACAACACACCAGA
11711563 AACAGCCGTGACA
1 AACAGCCGTGACA
11711576 TGCTAAAATA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
109 4 0.04
110 98 0.94
111 2 0.02
ACGTcount: A:0.44, C:0.30, G:0.13, T:0.13
Consensus pattern (110 bp):
AACAGCCGTGACAAGCCAAAAACCCTAAAAACCAATTAACCCACAACACATCAGGAACAGCCATG
ACACGCTCAAAACCTAAAAAACTAGTTAACCCACAACACACCAGA
Found at i:11717693 original size:3 final size:3
Alignment explanation
Indices: 11717685--11717710 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11717675 AAGAGAAGAT
11717685 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11717711 TACAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11721405 original size:29 final size:30
Alignment explanation
Indices: 11721356--11721417 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
11721346 ATTATTAATT
11721356 ATAAAAATTTATTTGATATAAAATAAAAAA
1 ATAAAAATTTATTTGATATAAAATAAAAAA
*
11721386 ATAAAAACTTTA-TTGA-ATAAAGTAAAAAA
1 ATAAAAA-TTTATTTGATATAAAATAAAAAA
11721415 ATA
1 ATA
11721418 GAGTTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 15 0.50
30 11 0.37
31 4 0.13
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (30 bp):
ATAAAAATTTATTTGATATAAAATAAAAAA
Found at i:11721429 original size:28 final size:29
Alignment explanation
Indices: 11721356--11721431 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
11721346 ATTATTAATT
*
11721356 ATAAAAATTTATTTGATATAAAATAAAAAA
1 ATAAAACTTTATTTGA-ATAAAATAAAAAA
*
11721386 ATAAAAACTTTA-TTGAATAAAGTAAAAAA
1 AT-AAAACTTTATTTGAATAAAATAAAAAA
* *
11721415 AT-AGAGTTTATTTGAAT
1 ATAAAACTTTATTTGAAT
11721432 TTTTTTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.15
28 6 0.15
29 14 0.35
30 6 0.15
31 8 0.20
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (29 bp):
ATAAAACTTTATTTGAATAAAATAAAAAA
Found at i:11727803 original size:14 final size:14
Alignment explanation
Indices: 11727784--11727814 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11727774 AAATTATAAC
*
11727784 TTATAAAAAAGAAT
1 TTATAAAAAAAAAT
11727798 TTATAAAAAAAAAT
1 TTATAAAAAAAAAT
11727812 TTA
1 TTA
11727815 CCAAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
TTATAAAAAAAAAT
Found at i:11729527 original size:3 final size:3
Alignment explanation
Indices: 11729519--11729543 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11729509 ATCAAAAGCC
11729519 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
11729544 TTAAACATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:11732635 original size:12 final size:12
Alignment explanation
Indices: 11732614--11732652 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
11732604 CTTAGGTACA
11732614 TTAA-CACCAAT
1 TTAAGCACCAAT
11732625 TTAAGCACCAAT
1 TTAAGCACCAAT
*
11732637 TTAAGCACAAAT
1 TTAAGCACCAAT
11732649 TTAA
1 TTAA
11732653 CTAAGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 4 0.15
12 22 0.85
ACGTcount: A:0.46, C:0.21, G:0.05, T:0.28
Consensus pattern (12 bp):
TTAAGCACCAAT
Found at i:11733087 original size:19 final size:19
Alignment explanation
Indices: 11733060--11733096 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11733050 TCCCACATGG
11733060 CACTAATATGATGATGTGA
1 CACTAATATGATGATGTGA
*
11733079 CACTGATATGATGATGTG
1 CACTAATATGATGATGTG
11733097 TCGGTGCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
CACTAATATGATGATGTGA
Found at i:11735800 original size:16 final size:17
Alignment explanation
Indices: 11735781--11735813 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11735771 GAAGAAAGAC
11735781 ACAAAAGAAA-AAAAAA
1 ACAAAAGAAACAAAAAA
*
11735797 ACAAAGGAAACAAAAAA
1 ACAAAAGAAACAAAAAA
11735814 GAAGAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
ACAAAAGAAACAAAAAA
Found at i:11736263 original size:34 final size:34
Alignment explanation
Indices: 11736217--11736335 Score: 157
Period size: 34 Copynumber: 3.5 Consensus size: 34
11736207 TTGTCTGCTG
*
11736217 AAAATTTAAGCTGTTTGCTGCCAATTTGTGCAAA
1 AAAATTTGAGCTGTTTGCTGCCAATTTGTGCAAA
**
11736251 AAAATTTGAGCTGTTTGCTATCAATTTGTGCAAA
1 AAAATTTGAGCTGTTTGCTGCCAATTTGTGCAAA
* * * *
11736285 AAAGTTTGAGCTATTTACTGCCAATTTGTACAAA
1 AAAATTTGAGCTGTTTGCTGCCAATTTGTGCAAA
* *
11736319 AAAATTGGAGTTGTTTG
1 AAAATTTGAGCTGTTTG
11736336 TTGGTAGTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 71 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (34 bp):
AAAATTTGAGCTGTTTGCTGCCAATTTGTGCAAA
Found at i:11736393 original size:24 final size:25
Alignment explanation
Indices: 11736353--11736399 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
11736343 TTTGTGTAAG
11736353 AAAATTGGACAGCTTTG-TGCTGCC
1 AAAATTGGACAGCTTTGTTGCTGCC
*
11736377 AAAATTGAGA-AGTTTTGTTGCTG
1 AAAATTG-GACAGCTTTGTTGCTG
11736400 GAAATTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (25 bp):
AAAATTGGACAGCTTTGTTGCTGCC
Found at i:11736524 original size:22 final size:22
Alignment explanation
Indices: 11736496--11736543 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
11736486 AAGGGGAAAG
11736496 GAAGAGAGAAAGCCACGGTGGT
1 GAAGAGAGAAAGCCACGGTGGT
*
11736518 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGAAAGCCACGGTGGT
11736540 GAAG
1 GAAG
11736544 GGAGTGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.44, T:0.08
Consensus pattern (22 bp):
GAAGAGAGAAAGCCACGGTGGT
Found at i:11736649 original size:25 final size:25
Alignment explanation
Indices: 11736620--11736682 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
11736610 AAGAAAAAGA
11736620 AATAGAAAATAAATGGGCATGACCC
1 AATAGAAAATAAATGGGCATGACCC
* *
11736645 AATAGAAAATAAGTGGGCATGGCCC
1 AATAGAAAATAAATGGGCATGACCC
*
11736670 AATAGGAAATAAA
1 AATAGAAAATAAA
11736683 AATAAATGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.22, T:0.16
Consensus pattern (25 bp):
AATAGAAAATAAATGGGCATGACCC
Found at i:11736770 original size:28 final size:28
Alignment explanation
Indices: 11736730--11736791 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
11736720 GCCCATGGAG
11736730 AAGGCCCAAAGGTCATAAAGAAATGAAA
1 AAGGCCCAAAGGTCATAAAGAAATGAAA
11736758 AAGGCCCAAAGGTCATAAAGAAATGAAA
1 AAGGCCCAAAGGTCATAAAGAAATGAAA
11736786 AAGGCC
1 AAGGCC
11736792 AAATGGTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.52, C:0.16, G:0.23, T:0.10
Consensus pattern (28 bp):
AAGGCCCAAAGGTCATAAAGAAATGAAA
Found at i:11737091 original size:2 final size:2
Alignment explanation
Indices: 11737084--11737109 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11737074 AAAAATTTCG
11737084 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
11737110 CNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11746538 original size:35 final size:34
Alignment explanation
Indices: 11746497--11746570 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
11746487 AAATTTAAAT
* * *
11746497 TTAAATAA-TCAAAAACAAATATCTCAAATATCAAC
1 TTAAATAACT-AAAAACAAATAT-GCAAACAACAAC
11746532 TTAAATAACTAAAAACAAATATGCAAACAACAAC
1 TTAAATAACTAAAAACAAATATGCAAACAACAAC
11746566 TTAAA
1 TTAAA
11746571 CATTACAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 14 0.40
35 20 0.57
36 1 0.03
ACGTcount: A:0.59, C:0.16, G:0.01, T:0.23
Consensus pattern (34 bp):
TTAAATAACTAAAAACAAATATGCAAACAACAAC
Found at i:11747461 original size:31 final size:31
Alignment explanation
Indices: 11747426--11747523 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
11747416 TCGCTCTTTA
*
11747426 GGCTTAATTCATCTTGGTGCCAACTAGATTT
1 GGCTTAATTCATCTTGGTGCCAACTAGATTG
* *
11747457 GGCTTAAAATC-TCTT--TGCCAACTTA-AATG
1 GGCTT-AATTCATCTTGGTGCCAAC-TAGATTG
* * * *
11747486 GGATTAATTCATCTGGGTGTCAGCTAGATTG
1 GGCTTAATTCATCTTGGTGCCAACTAGATTG
11747517 GGCTTAA
1 GGCTTAA
11747524 AATCTCCCTT
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
28 4 0.08
29 16 0.31
30 4 0.08
31 23 0.45
32 4 0.08
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (31 bp):
GGCTTAATTCATCTTGGTGCCAACTAGATTG
Found at i:11747575 original size:61 final size:60
Alignment explanation
Indices: 11747429--11747703 Score: 234
Period size: 60 Copynumber: 4.5 Consensus size: 60
11747419 CTCTTTAGGC
*
11747429 TTAATTCATCTTGGTGCCAACTAGATTTGGCTTAAAATCTCTTTGCCAACTTAAATGGGA
1 TTAATTCATCTTGGTGCCAACTAGATTGGGCTTAAAATCTCTTTGCCAACTTAAATGGGA
* * * *
11747489 TTAATTCATCTGGGTGTCAGCTAGATTGGGCTTAAAATCTCCCTTT-CCAACTTAACT-GGA
1 TTAATTCATCTTGGTGCCAACTAGATTGGGCTTAAAATCT--CTTTGCCAACTTAAATGGGA
* ** * * ** * * *
11747549 TTTAATTCATTTTTATGCCAATTAGATTGCGCTTGGAATCT-TTCTGCCAACTTAACTAGGT
1 -TTAATTCATCTTGGTGCCAACTAGATTGGGCTTAAAATCTCTT-TGCCAACTTAAATGGGA
* * ** * * * * *
11747610 TTAGTTCATCGTGGTGCCAGTTAAATTGGACTTAAAATCTCTCATGCCAA-TGTAATTGGGC
1 TTAATTCATCTTGGTGCCAACTAGATTGGGCTTAAAATCTCT-TTGCCAACT-TAAATGGGA
* *
11747671 TTAATTCATCTTAGTACCAACTAGATTGGGCTT
1 TTAATTCATCTTGGTGCCAACTAGATTGGGCTT
11747704 GGACTCTCTC
Statistics
Matches: 167, Mismatches: 39, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
58 2 0.01
59 1 0.01
60 80 0.48
61 80 0.48
62 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (60 bp):
TTAATTCATCTTGGTGCCAACTAGATTGGGCTTAAAATCTCTTTGCCAACTTAAATGGGA
Found at i:11747704 original size:121 final size:121
Alignment explanation
Indices: 11747426--11747712 Score: 303
Period size: 121 Copynumber: 2.4 Consensus size: 121
11747416 TCGCTCTTTA
* * ** *
11747426 GGCTTAATTCATCTTGGTGCCAACTAGATTTGGCTTAAAATCTCTTTGCCAACTTAAATGGGATT
1 GGCTTAATTCATCTTAGTGCCAACTAGATTGGGCTTGGAATCTCTTTGCCAACTTAAATAGGATT
* * * * *
11747491 AATTCATCTGGGTGTCAGCTAGATTGGGCTTAAAATCTCCCTTTCCAACTTAACTG
66 AATTCATCTGGGTGCCAGCTAAATTGGACTTAAAATCTCCCATGCCAACTTAACTG
** * * * * *
11747547 GATTTAATTCATTTTTA-TGCCAATTAGATTGCGCTTGGAATCT-TTCTGCCAACTTAACTAGGT
1 GGCTTAATTCA-TCTTAGTGCCAACTAGATTGGGCTTGGAATCTCTT-TGCCAACTTAAATAGGA
* * * *
11747610 TTAGTTCATC-GTGGTGCCAGTTAAATTGGACTTAAAATCTCTCATGCCAA-TGTAATTG
64 TTAATTCATCTG-GGTGCCAGCTAAATTGGACTTAAAATCTCCCATGCCAACT-TAACTG
* *
11747668 GGCTTAATTCATCTTAGTACCAACTAGATTGGGCTTGGACTCTCT
1 GGCTTAATTCATCTTAGTGCCAACTAGATTGGGCTTGGAATCTCT
11747713 CTTCATTGGT
Statistics
Matches: 132, Mismatches: 28, Indels: 11
0.77 0.16 0.06
Matches are distributed among these distances:
120 8 0.06
121 120 0.91
122 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (121 bp):
GGCTTAATTCATCTTAGTGCCAACTAGATTGGGCTTGGAATCTCTTTGCCAACTTAAATAGGATT
AATTCATCTGGGTGCCAGCTAAATTGGACTTAAAATCTCCCATGCCAACTTAACTG
Found at i:11749691 original size:17 final size:17
Alignment explanation
Indices: 11749665--11749705 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
11749655 CAAAGGTTGA
*
11749665 TTTTTCTTTGT-TTTTCT
1 TTTTTTTTTGTGTTTT-T
11749682 TTTTTTTTTGTGTTTTT
1 TTTTTTTTTGTGTTTTT
11749699 TTTTTTT
1 TTTTTTT
11749706 GGGTTAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTGTGTTTTT
Found at i:11749790 original size:22 final size:23
Alignment explanation
Indices: 11749753--11749802 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
11749743 TATTATCAAA
11749753 TTTCTTTCATCATTTTTCTTAGG
1 TTTCTTTCATCATTTTTCTTAGG
* * *
11749776 TTTCTTT-TTCATTTTTTTTTGG
1 TTTCTTTCATCATTTTTCTTAGG
11749798 TTTCT
1 TTTCT
11749803 CTCCTTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.08, C:0.14, G:0.08, T:0.70
Consensus pattern (23 bp):
TTTCTTTCATCATTTTTCTTAGG
Found at i:11752820 original size:252 final size:251
Alignment explanation
Indices: 11752283--11753839 Score: 1603
Period size: 253 Copynumber: 6.2 Consensus size: 251
11752273 AACATAAGGC
* * * * * *
11752283 TTAAATACTTTAAAATTGAGAATATAAATTTAAATATTTAATTTTTCAAGAATTATATTTGTTTC
1 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAATTTTTTAAAAATTATATTTATTT-
* * * *
11752348 AACTTAATTGACTTATT--GTATTAAATCTCACACATTTACATCAATATTTTGACAATGTTTGTT
65 GACTTAATTGACTTATTACG-ATTAAATCTCACACGTTTACATCAATATTTTGACAATATTTATT
** * * * * *
11752411 CTGCCTTTATAATTTTTTACGTTAATTCTTATAAGTTTATGTCAACAATTTTCAACTATTAGTTT
129 CCACCTTTATAATTTTTTACGTTAATTCTTACAAGTTTATGTCAAGATTTTTCAACTACTAATTT
* * * * **
11752476 TCATTATAATTAATTTTATCCTCACTATTATTCCTTTATAAATTAAAATTTGTAAACTG
194 TCATGATAATT-ATTTTAACCTTACTATTATTCATTTATAAATTAAAATTTGTAAACCA
*
11752535 TTAAATGCTTTAAACTCGAGAATATAAATTTAAATGTTTAATTTTTTTAGAAAATTATATTTATT
1 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAA-TTTTTTA-AAAATTATATTTATT
* * * * * * *
11752600 TGACATAATTGACTTGTTACGA-TACATCTCACATGTTTACATTAATATTTTGAAAATACTTATT
64 TGACTTAATTGACTTATTACGATTAAATCTCACACGTTTACATCAATATTTTGACAATATTTATT
* * *
11752664 CCACCTTTATAATTTTTTACGTTAATTCTTATACA-TTTATTTCAAGGTTTTTCAACTACTAATT
129 CCACCTTTATAATTTTTTACGTTAATTCTTACA-AGTTTATGTCAAGATTTTTCAACTACTAATT
* ** * * * * *
11752728 TTTATGATAATTATTCCAACCTTACTATTATTTATTTATAAATTAAAACTCGAAAATCA
193 TTCATGATAATTATTTTAACCTTACTATTATTCATTTATAAATTAAAATTTGTAAACCA
11752787 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAA-TTTTTAAAAA--ATA--T-TTT-
1 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAATTTTTTAAAAATTATATTTATTTG
* * * * * *
11752845 ACTTACTTGACTTATTACG-TTCAATCTCACATGTTTACATTAATATTTTGATAATATTTATTCT
66 ACTTAATTGACTTATTACGATTAAATCTCACACGTTTACATCAATATTTTGACAATATTTATTCC
* * *
11752909 ACTTTTATAATTTTTTACGTTAATTCTTACATGTTTATGTCAAGATTTTTCAACTATTAATTTTC
131 ACCTTTATAATTTTTTACGTTAATTCTTACAAGTTTATGTCAAGATTTTTCAACTACTAATTTTC
* * *
11752974 ATAATAATTATTCTTAACCTTTCTATTATTCATTTATAAATTAAAATTTGTAAACCG
196 ATGATAATTATT-TTAACCTTACTATTATTCATTTATAAATTAAAATTTGTAAACCA
* * * ***
11753031 TTAAATACTTTAAACTCAAAAATATAAATGTAAATGTTTAATTTCAAAAAAAATTATATTTATTT
1 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAATTT-TTTAAAAATTATATTTA-TT
* * * * * *
11753096 TGACTTAATTGACTTATTAC-ATTCAATAT-TTA-ACATTTACGTCAATATTTTAACCATATTTG
64 TGACTTAATTGACTTATTACGATT-AA-ATCTCACACGTTTACATCAATATTTTGACAATATTTA
** * * * *
11753158 TTCCATATTTATAATTTTTTATAG-TAATTCTTACAAGTTTATATTAAGATTTTTCAACTACTAG
127 TTCCACCTTTATAATTTTTTA-CGTTAATTCTTACAAGTTTATGTCAAGATTTTTCAACTACTAA
* * * * *
11753222 TTTCCATTATAATTATTTTTATCC-TATCTATCATTCCTTTATAAATTAAAATTTGTAAACCA
191 TTTTCATGATAATTA-TTTTAACCTTA-CTATTATTCATTTATAAATTAAAATTTGTAAACCA
* * * * *
11753284 TTAAATATTTTAAACTTGAGAATATAAATTCAAATATTTAATTTTCTAAAAAATTATATTTATTT
1 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAATTTT-TTAAAAATTATATTTATTT
* * * ** * * * *
11753349 GACATAATTAACTTGTTAC-ATTAAATCTCACACGTTTATGTTACTATTTTGACAATATTTGTTT
65 GACTTAATTGACTTATTACGATTAAATCTCACACGTTTACATCAATATTTTGACAATATTTATTC
* * * * * *
11753413 CACCTTTATAATTTTTGATGTTAATTCTTACAGGTTTATATCAA-AGTGTTTCAACTACTGATTT
130 CACCTTTATAATTTTTTACGTTAATTCTTACAAGTTTATGTCAAGA-TTTTTCAACTACTAATTT
* *
11753477 TCATGATAATTATTATTAACCTTACTATTTTTCATTTATAAATTAAAATTTGTAATCGC-
194 TCATGATAATTATT-TTAACCTTACTATTATTCATTTATAAATTAAAATTTGTAAAC-CA
* * * *
11753536 -TAAATACTTTAAATTCGAGTATATAAATTTAAATGTTTAGTTTTTCAAAAATTATATTTATTTT
1 TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAATTTTTTAAAAATTATATTTA-TTT
* ** * * * * * *
11753600 AACTTAATTGACTTATTA-TTTTAAATTTCACACATTTACGTCAATATTTTGTCAATGTTTATTT
65 GACTTAATTGACTTATTACGATTAAATCTCACACGTTTACATCAATATTTTGACAATATTTATTC
* * * * * * * *
11753664 CACTTTTGTAATGTTTTACATTAATTCTTGCAAGTTTATGTCAAAATTTTTTAACTACTAGTTTT
130 CACCTTTATAATTTTTTACGTTAATTCTTACAAGTTTATGTCAAGATTTTTCAACTACTAATTTT
* * * * * *
11753729 CACT-ATATTTACTTTTATCCTTACTAGTGTTCATTTATAAATTAAAATTTGTAAGCTA
195 CA-TGATAATTA-TTTTAACCTTACTATTATTCATTTATAAATTAAAATTTGTAAACCA
* *
11753787 TTAAATACTTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTTAAAAA
1 TTAAATAC-TTTAAACTCGAGAATATAAATTTAAATGTTTAATTTTTTAAAAA
11753840 ATTCAATCGT
Statistics
Matches: 1085, Mismatches: 181, Indels: 77
0.81 0.13 0.06
Matches are distributed among these distances:
243 123 0.11
244 76 0.07
245 3 0.00
246 5 0.00
247 3 0.00
248 3 0.00
249 4 0.00
250 24 0.02
251 194 0.18
252 270 0.25
253 355 0.33
254 22 0.02
255 3 0.00
ACGTcount: A:0.36, C:0.11, G:0.06, T:0.47
Consensus pattern (251 bp):
TTAAATACTTTAAACTCGAGAATATAAATTTAAATGTTTAATTTTTTAAAAATTATATTTATTTG
ACTTAATTGACTTATTACGATTAAATCTCACACGTTTACATCAATATTTTGACAATATTTATTCC
ACCTTTATAATTTTTTACGTTAATTCTTACAAGTTTATGTCAAGATTTTTCAACTACTAATTTTC
ATGATAATTATTTTAACCTTACTATTATTCATTTATAAATTAAAATTTGTAAACCA
Found at i:11753288 original size:17 final size:17
Alignment explanation
Indices: 11753266--11753298 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11753256 TCCTTTATAA
11753266 ATTAAA-ATTTGTAAACC
1 ATTAAATATTT-TAAACC
11753283 ATTAAATATTTTAAAC
1 ATTAAATATTTTAAAC
11753299 TTGAGAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTAAATATTTTAAACC
Found at i:11754634 original size:251 final size:249
Alignment explanation
Indices: 11754159--11755722 Score: 1351
Period size: 251 Copynumber: 6.1 Consensus size: 249
11754149 ATTTTTAATA
* * *
11754159 TAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAAAAAATTAAACATTTTAAATTTATATT
1 TAACAAGTCAATTAAGTTAAAATAAATATAATTTTTTAGAAAATTAAACA-TTTAAATTTATATT
* * *
11754224 CT-CAAGTTTAAAGTATTTAACAAG-TTATAAATTTTAATTTATAAATAAATAATAGTAAGGATA
65 CTCCAA-TTTAAAGTATTTAAC-GGTTTATAAATTTTAATTTATAAATGAATAATAGTAAAGATA
* * * ** * * *
11754287 AAAAAAATATAGTGAAAATTAGTAATTGAAAACCTTAACGTAAAGTTATAAGATTTAACTTAAAA
128 AAAAAATTATAGTGAAAATTAGTAGTTGAAAACCTTAACATAAACCTATAAGAATGAACGTAAAA
* * *
11754352 AATTAT-AAAGATGGAATAAGTATTGTCAAAATATTAACGTAATCGTTTGAGACTTAACG
193 AATTATAAAAG-TGGAACAAGTATTATCAAAATATTAACGTAAT-GTATGAGA-TTAACG
* * **
11754411 TAACAACTCGATTAAGTTAAAATAAATATAATTTTTTAGAAAATTAATTATTTAAATTTATATTC
1 TAACAAGTCAATTAAGTTAAAATAAATATAATTTTTTAGAAAATTAAACATTTAAATTTATATTC
* * *
11754476 TCCAATTTAAAGTATTTAACGGTTTGTAATTTTTAATTTATAAATGAATAAGAGTAAAGAT-AAA
66 TCCAATTTAAAGTATTTAACGGTTTATAAATTTTAATTTATAAATGAATAATAGTAAAGATAAAA
* * * *
11754540 AAATTGTAGTGAAAATTAGTAG-TGTATAAACTTTGACATAAACCTATAAGAATGAACATAAAAA
131 AAATTATAGTGAAAATTAGTAGTTG-A-AAACCTTAACATAAACCTATAAGAATGAACGTAAAAA
* ** * * * *
11754604 ATTATAAAGGTGGAACAAAAATTATCAAAATATTAATGTAAATGTGT-AGGATTTACTA
194 ATTATAAAAGTGGAACAAGTATTATCAAAATATTAACGT-AATGTATGA-GATTAAC-G
* * *
11754662 TAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAAAAAAAATTAAACATTTAAATTTATAT
1 TAACAAGTCAATTAAGTTAAAATAAATATAATTTTTT--AGAAAATTAAACATTTAAATTTATAT
* *
11754727 TCT-CAAGTTTAAAGTATTTAACTGTTTAT-AATTTTAATTTATAAATGTATAATAG-AAAGGAT
64 TCTCCAA-TTTAAAGTATTTAACGGTTTATAAATTTTAATTTATAAATGAATAATAGTAAA-GAT
* **
11754789 AAAAATAATTATAGTGAAAATTAGTAGTTGAAATACCTTAACGTAAAATTATAAGAATTG-ACGT
127 AAAAA-AATTATAGTGAAAATTAGTAGTTGAAA-ACCTTAACATAAACCTATAAGAA-TGAACGT
* * * * **
11754853 AAAAAATTATAAAGGTAGAACAAATATTATCAAAATATTAACATAAATAAATGAGATATAACG
189 AAAAAATTATAAAAGTGGAACAAGTATTATCAAAATATTAACGT-AATGTATGAGAT-TAACG
*
11754916 TAATAAGTCAATTAAGTT-AAATAAATATAATTTTTTTA-AAAATTAAACATTTAAATTTATATT
1 TAACAAGTCAATTAAGTTAAAATAAATATAA-TTTTTTAGAAAATTAAACATTTAAATTTATATT
* * * *
11754979 CTCAAATTTAAAGAATTTAACGATTTATAAATTTTAATTTATAAATGAATAATAGTAAGGATAAA
65 CTCCAATTTAAAGTATTTAACGGTTTATAAATTTTAATTTATAAATGAATAATAGTAAAGATAAA
* * * * * * * * *
11755044 AAAA-TATAGTAAAAATTAATAGTTGAAAAACCTTGACTTAAACTTGTAAAAATTAACATAAATT
130 AAAATTATAGTGAAAATTAGTAGTTG-AAAACCTTAACATAAACCTATAAGAATGAACGTAAA--
* * * * * **
11755108 AAACTTGTAAAAAT-TAACATAAAAAATTATAATAGTGAAACAAGTATTGTCAAAATATTGACGT
192 AAA-TTATAAAAGTGGAAC------AAGTAT--TA-T-CAA-AA-TA-T-T---AA-CGT-A---
11755172 AAATGTATGAGATCTAACG
234 A--TGTATGAGAT-TAACG
* * * *
11755191 TTATAAG-CAAATTAAGTCAAAATAAACATAATTTTTT-GAAAAATTAAACATTTAAATTTATAT
1 TAACAAGTC-AATTAAGTTAAAATAAATATAATTTTTTAG-AAAATTAAACATTTAAATTTATAT
* * * * * *
11755254 TTTCGAGTTTAAAATATTTAACGATTTATAAATTTTAATTTATAAATAAATAATAGTAAAGATAA
64 TCTCCAATTTAAAGTATTTAACGGTTTATAAATTTTAATTTATAAATGAATAATAGTAAAGAT--
* * * ** * *
11755319 AAAAAAATTATAGTGAAAATAAGTAGTTAAAAATCTTGGCATAAACCTGTAAGAATTAACGTAAA
127 AAAAAAATTATAGTGAAAATTAGTAGTTGAAAACCTTAACATAAACCTATAAGAATGAACGTAAA
* * * * * * *
11755384 AAATTATAAAAGCGGAATAAGCATTGTCAAAATATTTACGTAAACGTATGAGATTTAATG
192 AAATTATAAAAGTGGAACAAGTATTATCAAAATATTAACGT-AATGTATGAGA-TTAACG
* *
11755444 TAACAAGTCAATTAAGTT-AAAT--ATAT--TTTTTT-GAAAAATAAACATTTAAGTTTA-ATGT
1 TAACAAGTCAATTAAGTTAAAATAAATATAATTTTTTAGAAAATTAAACATTTAAATTTATAT-T
** * * * * *
11755502 CTTGAGTTTAAAATATTTAACAGTTTATAAATTTTAATTTATAAGTGAATAATAGTAAGGAT-AA
65 CTCCAATTTAAAGTATTTAACGGTTTATAAATTTTAATTTATAAATGAATAATAGTAAAGATAAA
* * ** *
11755566 AAAATTATAATGAAAATTAGTAGTTAATAAACCTTAATGTAAACCTATAAGAATTAACGTAAAAA
130 AAAATTATAGTGAAAATTAGTAGTTGA-AAACCTTAACATAAACCTATAAGAATGAACGTAAAAA
* * * * * * * *
11755631 ATTATAAAAGTGGAATAAGGATTATTAAAATATTAACGTAAACGTGTAAAATTTAACA
194 ATTATAAAAGTGGAACAAGTATTATCAAAATATTAACGT-AATGTATGAGA-TTAACG
* *
11755689 TAACAAGTTAATTAAGTT-GAATAAATATAATTTT
1 TAACAAGTCAATTAAGTTAAAATAAATATAATTTT
11755723 ATAAGAATTA
Statistics
Matches: 1086, Mismatches: 159, Indels: 137
0.79 0.12 0.10
Matches are distributed among these distances:
244 27 0.02
245 99 0.09
246 2 0.00
247 79 0.07
248 7 0.01
249 7 0.01
250 75 0.07
251 214 0.20
252 127 0.12
253 97 0.09
254 114 0.10
255 9 0.01
258 7 0.01
259 1 0.00
260 2 0.00
261 1 0.00
262 3 0.00
263 3 0.00
264 4 0.00
265 3 0.00
266 3 0.00
267 1 0.00
268 1 0.00
269 2 0.00
270 6 0.01
273 1 0.00
274 1 0.00
275 40 0.04
276 96 0.09
278 37 0.03
279 17 0.02
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (249 bp):
TAACAAGTCAATTAAGTTAAAATAAATATAATTTTTTAGAAAATTAAACATTTAAATTTATATTC
TCCAATTTAAAGTATTTAACGGTTTATAAATTTTAATTTATAAATGAATAATAGTAAAGATAAAA
AAATTATAGTGAAAATTAGTAGTTGAAAACCTTAACATAAACCTATAAGAATGAACGTAAAAAAT
TATAAAAGTGGAACAAGTATTATCAAAATATTAACGTAATGTATGAGATTAACG
Found at i:11755104 original size:504 final size:499
Alignment explanation
Indices: 11754152--11755722 Score: 1676
Period size: 504 Copynumber: 3.1 Consensus size: 499
11754142 ACTACTAATT
*
11754152 TTTAATATAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAAAAAATTAAACATTTTAAAT
1 TTTACTATAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAAAAAATTAAACA-TTTAAAT
*
11754217 TTATATTCTCAAGTTTAAAGTATTTAACAAG-TTATAAATTTTAATTTATAAATAAATAATAGTA
65 TTATATTCTCAAGTTTAAAGTATTTAAC--GTTTATAAATTTTAATTTATAAATAAATAATAGAA
* * * *
11754281 AGGATAAAAAAAATATAGTGAAAATTAGTAATTGAAAACCTTAACGTAAAGTTATAAGATTTAAC
128 AGGATAAAAAAATTATAGTGAAAATTAGTAGTTGAAAACCTTAACGTAAAATTATAAGAATTAAC
* * *
11754346 TTAAAAAATTATAAAGATGGAATAAGTATTGTCAAAATATTAACGT-AATCGTTTGAGACTTAAC
193 GTAAAAAATTATAAAGGTGGAATAAGTATTGTCAAAATATTAACGTAAAT-GTATGAGA-TTAAC
* * **
11754410 GTAACAACTCGATTAAGTTAAAATAAATATAA-TTTTTTAGAAAATTAATTATTTAAATTTATAT
256 GTAACAAGTCAATTAAGTT-AAATAAATATAATTTTTTTA-AAAATTAAACATTTAAATTTATAT
* * * * * * *
11754474 TCTCCAATTTAAAGTATTTAACGGTTTGTAATTTTTAATTTATAAATGAATAAGAGTAAAGATAA
319 TCTCAAATTTAAAGAATTTAACGATTTATAAATTTTAATTTATAAATGAATAATAGTAAGGATAA
* * * * *
11754539 AAAATTGTAGTGAAAATTAGTAG-TGTATAAACTTTGACATAAACCTATAAGAATGAACATAAAA
384 AAAATTATAGTGAAAATTAGTAGTTG-AAAAACCTTGACTTAAACCTATAAGAATTAACATAAAA
* *
11754603 AATTATAAAGGTGGAACAAAAATTATCAAAATATTAATGTAAATGTGTAGGA
448 AATTATAAAAGTGGAACAAAAATTATAAAAATATTAATGTAAATGTGTAGGA
11754655 TTTACTATAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAAAAAAAATTAAACATTTAAA
1 TTTACTATAACAAGTCAATTAAGTCAAAATAAACATAATTTTTT--AAAAAATTAAACATTTAAA
**
11754720 TTTATATTCTCAAGTTTAAAGTATTTAACTGTTTAT-AATTTTAATTTATAAATGTATAATAGAA
64 TTTATATTCTCAAGTTTAAAGTATTTAAC-GTTTATAAATTTTAATTTATAAATAAATAATAGAA
*
11754784 AGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAATACCTTAACGTAAAATTATAAGAATTG
128 AGGATAAAAA-AATTATAGTGAAAATTAGTAGTTGAAA-ACCTTAACGTAAAATTATAAGAATTA
* * * * * **
11754849 ACGTAAAAAATTATAAAGGTAGAACAAATATTATCAAAATATTAACATAAATAAATGAGATATAA
191 ACGTAAAAAATTATAAAGGTGGAATAAGTATTGTCAAAATATTAACGTAAATGTATGAGAT-TAA
*
11754914 CGTAATAAGTCAATTAAGTTAAATAAATATAATTTTTTTAAAAATTAAACATTTAAATTTATATT
255 CGTAACAAGTCAATTAAGTTAAATAAATATAATTTTTTTAAAAATTAAACATTTAAATTTATATT
11754979 CTCAAATTTAAAGAATTTAACGATTTATAAATTTTAATTTATAAATGAATAATAGTAAGGATAAA
320 CTCAAATTTAAAGAATTTAACGATTTATAAATTTTAATTTATAAATGAATAATAGTAAGGATAAA
* * * * * *
11755044 AAAATATAGTAAAAATTAATAGTTGAAAAACCTTGACTTAAACTTGTAAAAATTAACATAAATTA
385 AAATTATAGTGAAAATTAGTAGTTGAAAAACCTTGACTTAAACCTATAAGAATTAACATAAA--A
* * *
11755109 AACTTGTAAAAAT-TAACATAAAAAATTATAATAGTGAAACAAGTATTGTCAAAATATTGACGTA
448 AA-TTATAAAAGTGGAAC----AAAA--AT--TA-T-AAA-AA-TA-T-T----A-A-T---GTA
*
11755173 AATGTAT-GAGA
489 AATGTGTAG-GA
* * *
11755184 TCTAACGT-T-ATAAG-CAAATTAAGTCAAAATAAACATAATTTTTTGAAAAATTAAACATTTAA
1 T-TTAC-TATAACAAGTC-AATTAAGTCAAAATAAACATAATTTTTTAAAAAATTAAACATTTAA
* * *
11755246 ATTTATATTTTCGAGTTTAAAATATTTAACGATTTATAAATTTTAATTTATAAATAAATAATAGT
63 ATTTATATTCTCAAGTTTAAAGTATTTAACG-TTTATAAATTTTAATTTATAAATAAATAATAG-
* * * ** * ** *
11755311 AAA-GATAAAAAAAAATTATAGTGAAAATAAGTAGTTAAAAATCTTGGCATAAACCTGTAAGAAT
126 AAAGGAT--AAAAAAATTATAGTGAAAATTAGTAGTTGAAAACCTTAACGTAAAATTATAAGAAT
* * * * *
11755375 TAACGTAAAAAATTATAAAAGCGGAATAAGCATTGTCAAAATATTTACGTAAACGTATGAGATTT
189 TAACGTAAAAAATTATAAAGGTGGAATAAGTATTGTCAAAATATTAACGTAAATGTATGAGA-TT
* * *
11755440 AATGTAACAAGTCAATTAAGTTAAAT--ATAT--TTTTTTGAAAAA-TAAACATTTAAGTTTA-A
253 AACGTAACAAGTCAATTAAGTTAAATAAATATAATTTTTTTAAAAATTAAACATTTAAATTTATA
** * *
11755499 TGTCTTGAGTTTAAA-ATATTTAAC-AGTTTATAAATTTTAATTTATAAGTGAATAATAGTAAGG
318 T-TCTCAAATTTAAAGA-ATTTAACGA-TTTATAAATTTTAATTTATAAATGAATAATAGTAAGG
* * *
11755562 ATAAAAAATTATAATGAAAATTAGTAGTT-AATAAACCTT-AATGTAAACCTATAAGAATTAACG
380 ATAAAAAATTATAGTGAAAATTAGTAGTTGAA-AAACCTTGACT-TAAACCTATAAGAATTAACA
* ** * * * **
11755625 TAAAAAATTATAAAAGTGGAATAAGGATTATTAAAATATTAACGTAAACGTGTAAAA
443 TAAAAAATTATAAAAGTGGAACAAAAATTATAAAAATATTAATGTAAATGTGTAGGA
* ** *
11755682 TTTAAC-ATAACAAGTTAATTAAGT-TGAATAAATATAATTTT
1 TTT-ACTATAACAAGTCAATTAAGTCAAAATAAACATAATTTT
11755723 ATAAGAATTA
Statistics
Matches: 898, Mismatches: 114, Indels: 118
0.79 0.10 0.10
Matches are distributed among these distances:
497 16 0.02
498 24 0.03
502 1 0.00
503 80 0.09
504 206 0.23
505 111 0.12
506 9 0.01
507 8 0.01
508 1 0.00
509 2 0.00
510 6 0.01
511 2 0.00
512 3 0.00
513 2 0.00
514 2 0.00
515 3 0.00
516 2 0.00
517 4 0.00
518 2 0.00
519 1 0.00
520 9 0.01
521 5 0.01
522 8 0.01
523 120 0.13
524 12 0.01
525 1 0.00
526 6 0.01
527 49 0.05
528 120 0.13
529 73 0.08
530 9 0.01
531 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (499 bp):
TTTACTATAACAAGTCAATTAAGTCAAAATAAACATAATTTTTTAAAAAATTAAACATTTAAATT
TATATTCTCAAGTTTAAAGTATTTAACGTTTATAAATTTTAATTTATAAATAAATAATAGAAAGG
ATAAAAAAATTATAGTGAAAATTAGTAGTTGAAAACCTTAACGTAAAATTATAAGAATTAACGTA
AAAAATTATAAAGGTGGAATAAGTATTGTCAAAATATTAACGTAAATGTATGAGATTAACGTAAC
AAGTCAATTAAGTTAAATAAATATAATTTTTTTAAAAATTAAACATTTAAATTTATATTCTCAAA
TTTAAAGAATTTAACGATTTATAAATTTTAATTTATAAATGAATAATAGTAAGGATAAAAAATTA
TAGTGAAAATTAGTAGTTGAAAAACCTTGACTTAAACCTATAAGAATTAACATAAAAAATTATAA
AAGTGGAACAAAAATTATAAAAATATTAATGTAAATGTGTAGGA
Found at i:11755110 original size:25 final size:25
Alignment explanation
Indices: 11755081--11755130 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11755071 AAACCTTGAC
11755081 TTAAACTTGTAAAAATTAACATAAA
1 TTAAACTTGTAAAAATTAACATAAA
11755106 TTAAACTTGTAAAAATTAACATAAA
1 TTAAACTTGTAAAAATTAACATAAA
11755131 AAATTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
TTAAACTTGTAAAAATTAACATAAA
Found at i:11755528 original size:17 final size:17
Alignment explanation
Indices: 11755506--11755538 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11755496 TAATGTCTTG
11755506 AGTTTA-AAATATTTAAC
1 AGTTTATAAAT-TTTAAC
11755523 AGTTTATAAATTTTAA
1 AGTTTATAAATTTTAA
11755539 TTTATAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
AGTTTATAAATTTTAAC
Found at i:11755705 original size:245 final size:246
Alignment explanation
Indices: 11755213--11755711 Score: 675
Period size: 245 Copynumber: 2.0 Consensus size: 246
11755203 TAAGTCAAAA
*
11755213 TAAACATAATTTTTTGAAAAATTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAACGA
1 TAAATATAATTTTTTGAAAAATTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAACGA
*
11755278 TTTATAAATTTTAATTTATAAATAAATAATAGTAAAGATAAAAAAAAATTATAGTGAAAATAAGT
66 TTTATAAATTTTAATTTATAAATAAATAATAGTAAAGAT--AAAAAAATTATAATGAAAATAAGT
* ** *
11755343 AGTTAAAAATCTTGGCATAAACCTGTAAGAATTAACGTAAAAAATTATAAAAGCGGAATAAGCAT
129 AGTTAAAAACCTTAACATAAACCTATAAGAATTAACGTAAAAAATTATAAAAGCGGAATAAGCAT
* * * * **
11755408 TGTCAAAATATTTACGTAAACGTATGAGATTTAATGTAACAAGTCAATTAAGT
194 TATCAAAATATTAACGTAAACGTATAAAATTTAACATAACAAGTCAATTAAGT
* *
11755461 TAAATATATTTTTTTGAAAAA-TAAACATTTAAGTTTA-ATGTCTT-GAGTTTAAAATATTTAAC
1 TAAATATAATTTTTTGAAAAATTAAACATTTAAATTTATAT-T-TTCGAGTTTAAAATATTTAAC
* * * *
11755523 -AGTTTATAAATTTTAATTTATAAGTGAATAATAGTAAGGAT-AAAAAATTATAATGAAAATTAG
64 GA-TTTATAAATTTTAATTTATAAATAAATAATAGTAAAGATAAAAAAATTATAATGAAAATAAG
** * *
11755586 TAGTTAATAAACCTTAATGTAAACCTATAAGAATTAACGTAAAAAATTATAAAAGTGGAATAAGG
128 TAGTTAA-AAACCTTAACATAAACCTATAAGAATTAACGTAAAAAATTATAAAAGCGGAATAAGC
* * *
11755651 ATTATTAAAATATTAACGTAAACGTGTAAAATTTAACATAACAAGTTAATTAAGT
192 ATTATCAAAATATTAACGTAAACGTATAAAATTTAACATAACAAGTCAATTAAGT
*
11755706 TGAATA
1 TAAATA
11755712 AATATAATTT
Statistics
Matches: 221, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
244 27 0.12
245 100 0.45
246 3 0.01
247 70 0.32
248 21 0.10
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (246 bp):
TAAATATAATTTTTTGAAAAATTAAACATTTAAATTTATATTTTCGAGTTTAAAATATTTAACGA
TTTATAAATTTTAATTTATAAATAAATAATAGTAAAGATAAAAAAATTATAATGAAAATAAGTAG
TTAAAAACCTTAACATAAACCTATAAGAATTAACGTAAAAAATTATAAAAGCGGAATAAGCATTA
TCAAAATATTAACGTAAACGTATAAAATTTAACATAACAAGTCAATTAAGT
Found at i:11756019 original size:39 final size:38
Alignment explanation
Indices: 11755944--11756021 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
11755934 TAGAATAAAA
*
11755944 ATAAAATCGATAAATTTAAAAATTGTTTATGCTGTTAAC
1 ATAAAATAGATAAATTTAAAAATTGTTTAT-CTGTTAAC
* *
11755983 ATAAAATAGATAAGTTTATAAATTAGTTATAT-TGTTAAC
1 ATAAAATAGATAAATTTAAAAATT-GTT-TATCTGTTAAC
11756022 TTATTAAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 28 0.82
40 3 0.09
41 3 0.09
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (38 bp):
ATAAAATAGATAAATTTAAAAATTGTTTATCTGTTAAC
Found at i:11756079 original size:17 final size:17
Alignment explanation
Indices: 11756059--11756096 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
11756049 AAATTATATT
11756059 AATTAACTTTACAGTAA
1 AATTAACTTTACAGTAA
* *
11756076 AATTAGCTTTACTGTAA
1 AATTAACTTTACAGTAA
11756093 AATT
1 AATT
11756097 CACCCTTTGA
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:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (17 bp):
AATTAACTTTACAGTAA
Found at i:11761225 original size:8 final size:8
Alignment explanation
Indices: 11761205--11761344 Score: 54
Period size: 8 Copynumber: 16.9 Consensus size: 8
11761195 TTATTAGAAC
11761205 ATTATTAA
1 ATTATTAA
*
11761213 TATTAATAA
1 -ATTATTAA
11761222 ATTATTAA
1 ATTATTAA
11761230 ATTATTAA
1 ATTATTAA
* **
11761238 ATAATGGA
1 ATTATTAA
*
11761246 ATCCATTGAATA
1 AT-TATT--A-A
*
11761258 ATTATTAC
1 ATTATTAA
*
11761266 ATAATTAA
1 ATTATTAA
11761274 ATTATATAA
1 ATTAT-TAA
*
11761283 A-TATTTA
1 ATTATTAA
11761290 ATTATTAA
1 ATTATTAA
*
11761298 TGATTTTTAA
1 --ATTATTAA
*
11761308 A-TATTAT
1 ATTATTAA
11761315 ATCT-TT-A
1 AT-TATTAA
*
11761322 ATAATTAA
1 ATTATTAA
*
11761330 ACTATTAA
1 ATTATTAA
*
11761338 ATAATTA
1 ATTATTA
11761345 TTAAAATTAT
Statistics
Matches: 95, Mismatches: 24, Indels: 25
0.66 0.17 0.17
Matches are distributed among these distances:
7 12 0.13
8 55 0.58
9 15 0.16
10 7 0.07
11 3 0.03
12 3 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (8 bp):
ATTATTAA
Found at i:11769366 original size:26 final size:27
Alignment explanation
Indices: 11769332--11769385 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
11769322 TTGCAACTAA
11769332 ACTTCC-TTTTGATCAACCCAACTCCT
1 ACTTCCTTTTTGATCAACCCAACTCCT
*
11769358 ACTTTCTTTTTGATCAACCCAACTCCT
1 ACTTCCTTTTTGATCAACCCAACTCCT
11769385 A
1 A
11769386 TAGGGTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.24, C:0.35, G:0.04, T:0.37
Consensus pattern (27 bp):
ACTTCCTTTTTGATCAACCCAACTCCT
Found at i:11771134 original size:24 final size:23
Alignment explanation
Indices: 11771096--11771144 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
11771086 GTTTATAAGA
*
11771096 TTAAATTTTTTTTATTTCATTAT
1 TTAAATTTTTTTTATTTAATTAT
*
11771119 TTAATTTTTTTCTTATTTAATTAT
1 TTAAATTTTTT-TTATTTAATTAT
11771143 TT
1 TT
11771145 CGGTACCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (23 bp):
TTAAATTTTTTTTATTTAATTAT
Found at i:11771136 original size:16 final size:18
Alignment explanation
Indices: 11771105--11771140 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
11771095 ATTAAATTTT
11771105 TTTTATTTCATTATTTAA
1 TTTTATTTCATTATTTAA
11771123 TTTT-TTTC-TTATTTAA
1 TTTTATTTCATTATTTAA
11771139 TT
1 TT
11771141 ATTTCGGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 4 0.22
18 4 0.22
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATTTCATTATTTAA
Found at i:11771605 original size:14 final size:15
Alignment explanation
Indices: 11771588--11771628 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
11771578 ATGTTGAGCC
11771588 TTAAATGTTAAAA-T
1 TTAAATGTTAAAATT
*
11771602 TTAAAAGTTAAAATTT
1 TTAAATGTTAAAA-TT
11771618 TTAAATGTTAA
1 TTAAATGTTAA
11771629 TTTAATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
TTAAATGTTAAAATT
Found at i:11772522 original size:3 final size:3
Alignment explanation
Indices: 11772514--11772543 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11772504 CACTTTAGCT
11772514 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11772544 ATTCTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:11776525 original size:2 final size:2
Alignment explanation
Indices: 11776518--11776551 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11776508 AAATGTTAAA
11776518 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11776552 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11776795 original size:79 final size:78
Alignment explanation
Indices: 11776664--11776821 Score: 298
Period size: 79 Copynumber: 2.0 Consensus size: 78
11776654 TCGTAAACCC
11776664 AATTCAAAAATATCATTTATTATAATTTTAATCATTTTTGGTCAATTTTTAGCATGACTTGACAA
1 AATTCAAAAATATCATTTATTATAATTTTAATCATTTTTGGTCAATTTTTAGCATGACTTGACAA
11776729 TAATACCCTCTAA
66 TAATACCCTCTAA
*
11776742 NAATTCAAAAATATCATTTTTTATAATTTTAATCATTTTTGGTCAATTTTTAGCATGACTTGACA
1 -AATTCAAAAATATCATTTATTATAATTTTAATCATTTTTGGTCAATTTTTAGCATGACTTGACA
11776807 ATAATACCCTCTAA
65 ATAATACCCTCTAA
11776821 A
1 A
11776822 CAATTTCAGA
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 1 0.01
79 77 0.99
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.42
Consensus pattern (78 bp):
AATTCAAAAATATCATTTATTATAATTTTAATCATTTTTGGTCAATTTTTAGCATGACTTGACAA
TAATACCCTCTAA
Found at i:11777472 original size:22 final size:22
Alignment explanation
Indices: 11777424--11777465 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11777414 GAAATTGATT
11777424 AGACTGATTTTTAAGTATTGCA
1 AGACTGATTTTTAAGTATTGCA
*
11777446 AGACTGATTTTTAGGTATTG
1 AGACTGATTTTTAAGTATTG
11777466 TGTGACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (22 bp):
AGACTGATTTTTAAGTATTGCA
Found at i:11777517 original size:21 final size:22
Alignment explanation
Indices: 11777486--11777537 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
11777476 TCACTGTATG
11777486 ATTAGATTTTAGGCATTACGTA
1 ATTAGATTTTAGGCATTACGTA
*
11777508 ATTAG-TTTTAGGCATTGCGTA
1 ATTAGATTTTAGGCATTACGTA
*
11777529 ACT-GATTTT
1 ATTAGATTTT
11777538 TAGACATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.78
22 5 0.19
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (22 bp):
ATTAGATTTTAGGCATTACGTA
Found at i:11777545 original size:22 final size:22
Alignment explanation
Indices: 11777513--11777561 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
11777503 ACGTAATTAG
*
11777513 TTTTAGGCATTGCGTAACTGAT
1 TTTTAGACATTGCGTAACTGAT
*
11777535 TTTTAGACATTGTGTAACTGAT
1 TTTTAGACATTGCGTAACTGAT
11777557 TTTTA
1 TTTTA
11777562 AGCAATACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.47
Consensus pattern (22 bp):
TTTTAGACATTGCGTAACTGAT
Found at i:11777599 original size:23 final size:23
Alignment explanation
Indices: 11777572--11777656 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
11777562 AGCAATACCT
**
11777572 AAGTCACATAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* ** *
11777595 TAGTCACGCAATGTTTTACTAGC
1 AAGTCACGCAATGCCTTACTAAC
*
11777618 AAATCACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
11777641 AAGTCACGCAATGCCT
1 AAGTCACGCAATGCCT
11777657 ATCAACTAGT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:11777670 original size:22 final size:22
Alignment explanation
Indices: 11777621--11777697 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
11777611 TACTAGCAAA
11777621 TCACGCAATGCCT-TACTAACAAG
1 TCACGCAATGCCTAT-C-AACAAG
*
11777644 TCACGCAATGCCTATCAACTAG
1 TCACGCAATGCCTATCAACAAG
* * *
11777666 TCACGTAATGTCATATCAACCAG
1 TCACGCAATG-CCTATCAACAAG
*
11777689 TCACACAAT
1 TCACGCAAT
11777698 ACTTAAAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 14 0.30
23 31 0.67
24 1 0.02
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (22 bp):
TCACGCAATGCCTATCAACAAG
Found at i:11777739 original size:21 final size:21
Alignment explanation
Indices: 11777715--11777756 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11777705 AACTAATCAT
11777715 GCAATGGT-CAAAGTCAGTCAC
1 GCAAT-GTCCAAAGTCAGTCAC
*
11777736 GCAATGTCCAAAGTTAGTCAC
1 GCAATGTCCAAAGTCAGTCAC
11777757 CTAATGCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
GCAATGTCCAAAGTCAGTCAC
Found at i:11777762 original size:21 final size:21
Alignment explanation
Indices: 11777723--11777790 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
11777713 ATGCAATGGT
*
11777723 CAAAGTCAGTCACGC-AATGTC
1 CAAAGTTAGTCAC-CTAATGTC
11777744 CAAAGTTAGTCACCTAATG-C
1 CAAAGTTAGTCACCTAATGTC
* * *
11777764 CTAAAAATTAATCACGTAATGTC
1 C--AAAGTTAGTCACCTAATGTC
11777787 CAAA
1 CAAA
11777791 AATCACAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 3 0.08
21 19 0.49
22 15 0.38
23 2 0.05
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.24
Consensus pattern (21 bp):
CAAAGTTAGTCACCTAATGTC
Found at i:11777915 original size:9 final size:10
Alignment explanation
Indices: 11777892--11777925 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11777882 CTACTTGACA
11777892 AAAAATGCTC
1 AAAAATGCTC
*
11777902 AAAAATGCTT
1 AAAAATGCTC
*
11777912 AAAAATACTC
1 AAAAATGCTC
11777922 AAAA
1 AAAA
11777926 CGTTCAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (10 bp):
AAAAATGCTC
Found at i:11778010 original size:60 final size:61
Alignment explanation
Indices: 11777900--11778040 Score: 198
Period size: 60 Copynumber: 2.3 Consensus size: 61
11777890 CAAAAAATGC
* *
11777900 TCAAAAATGCTTAAAAATACTCAAAACGTTCAAAAGTTTTTCTTCATATATCAAAAA-TCAT
1 TCAAAAATGCTTAAAAATGCTCAAAACGTTCAAAAGGTTTTCTTCATATATCAAAAACT-AT
* *
11777961 TCAAAAATGCTTAAAAATGCTCCAAACGTTC-AAAGGTTTTCTTCGTATATCAAAAACTAT
1 TCAAAAATGCTTAAAAATGCTCAAAACGTTCAAAAGGTTTTCTTCATATATCAAAAACTAT
* *
11778021 TCCAAAATGC-TCAAAATGCT
1 TCAAAAATGCTTAAAAATGCT
11778041 TAAACATTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
59 9 0.12
60 34 0.47
61 30 0.41
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (61 bp):
TCAAAAATGCTTAAAAATGCTCAAAACGTTCAAAAGGTTTTCTTCATATATCAAAAACTAT
Found at i:11786636 original size:6 final size:6
Alignment explanation
Indices: 11786627--11786668 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
11786617 GCAGGGAATA
11786627 CCACAT CCACAT CCACAT CCACAT CCACAT CCACAT CC-CAT C
1 CCACAT CCACAT CCACAT CCACAT CCACAT CCACAT CCACAT C
11786669 GGCCTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.31, C:0.52, G:0.00, T:0.17
Consensus pattern (6 bp):
CCACAT
Found at i:11788577 original size:46 final size:46
Alignment explanation
Indices: 11788510--11788602 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
11788500 AATCAAGTTT
11788510 TATATATATATATAAGGAAAATGTGAAAATAAAAGACATTATTATC
1 TATATATATATATAAGGAAAATGTGAAAATAAAAGACATTATTATC
11788556 TATATATATATATAAGGAAAATGTGAAAATAAAAGACATTATTATC
1 TATATATATATATAAGGAAAATGTGAAAATAAAAGACATTATTATC
11788602 T
1 T
11788603 GATACAATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (46 bp):
TATATATATATATAAGGAAAATGTGAAAATAAAAGACATTATTATC
Found at i:11791197 original size:103 final size:103
Alignment explanation
Indices: 11790998--11791312 Score: 427
Period size: 103 Copynumber: 3.0 Consensus size: 103
11790988 AATTTCATTT
* * * *
11790998 AACTGCCTTGCCTTTAGGGTTAGGTGATTTTTCTGCTCCATGACATGACATGTTCCGGTTCTTGT
1 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGCT-C----CATGACATGTT-CTGTTCTTGT
* * *
11791063 TTGCTAGCCTTTTCTGC-TGTGTTATAAGTTAGGAAATGCTCTGA
60 TTGCTAGTCTTTTCT-CATGTGTTCTAAGTTAGGAAATGCACTGA
*
11791107 AGCTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGCTCCATGACATGTTCTGTTCTTGTTTGCTA
1 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGCTCCATGACATGTTCTGTTCTTGTTTGCTA
*
11791172 GTCTTTTCTCATGTGTTCCAAGTTAGGAAATGCACTGA
66 GTCTTTTCTCATGTGTTCTAAGTTAGGAAATGCACTGA
* * *
11791210 AACTGCCCTGCATTTAGGGGTAAGTGATTTTTCTGCTCCATGGCATGTTCTGCTCTTGTTTGCTA
1 AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGCTCCATGACATGTTCTGTTCTTGTTTGCTA
*
11791275 GTCTTTTCTCATGTG-TCATAAGTTAGGTAATGCACTGA
66 GTCTTTTCTCATGTGTTC-TAAGTTAGGAAATGCACTGA
11791313 TAATGGTGAA
Statistics
Matches: 189, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
102 3 0.02
103 141 0.75
104 11 0.06
108 1 0.01
109 33 0.17
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (103 bp):
AACTGCCTTGCATTTAGGGGTAAGTGATTTTTCTGCTCCATGACATGTTCTGTTCTTGTTTGCTA
GTCTTTTCTCATGTGTTCTAAGTTAGGAAATGCACTGA
Found at i:11795512 original size:70 final size:70
Alignment explanation
Indices: 11795430--11795572 Score: 259
Period size: 70 Copynumber: 2.0 Consensus size: 70
11795420 CCAGAGGAGG
*
11795430 AGATATAAACACACTAGTATATTGAAAGCAAGATTGTTAACAGCATCATATTGCAATATAGATTG
1 AGATATAAACACACTAGTATATTGAAAGCAAGATTATTAACAGCATCATATTGCAATATAGATTG
11795495 GTGCA
66 GTGCA
* *
11795500 AGATATAAACACACTAGTATATTGAAAGCAAGGTTATTAGCAGCATCATATTGCAATATAGATTG
1 AGATATAAACACACTAGTATATTGAAAGCAAGATTATTAACAGCATCATATTGCAATATAGATTG
11795565 GTGCA
66 GTGCA
11795570 AGA
1 AGA
11795573 GACAGTAGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (70 bp):
AGATATAAACACACTAGTATATTGAAAGCAAGATTATTAACAGCATCATATTGCAATATAGATTG
GTGCA
Found at i:11802939 original size:12 final size:12
Alignment explanation
Indices: 11802908--11802949 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
11802898 CATTCATTAC
11802908 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
11802920 TTCTTTTTCTTT
1 TTTTTTTTCTTT
*
11802932 TTTTTTTTGTTT
1 TTTTTTTTCTTT
11802944 ATTTTT
1 -TTTTT
11802950 GTCTANTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.02, C:0.07, G:0.02, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:11803017 original size:7 final size:7
Alignment explanation
Indices: 11803000--11803031 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
11802990 TTCATTACTT
11803000 TTTTTTC
1 TTTTTTC
11803007 -TTTTTC
1 TTTTTTC
11803013 TTTTTTC
1 TTTTTTC
11803020 TTTTTT-
1 TTTTTTC
11803026 TTTTTT
1 TTTTTT
11803032 GATTTTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Found at i:11803024 original size:90 final size:88
Alignment explanation
Indices: 11802865--11803039 Score: 307
Period size: 90 Copynumber: 2.0 Consensus size: 88
11802855 ATTTAATCTC
11802865 ATTGTGCTGATTAAGAAATTTAATTACGTTGTTCATTCATTACTTTTTTTTCTTTTTCTTTTTCT
1 ATTGTGCTGATTAAGAAATTTAATTACGTTGTTCATTCATTACTTTTTTTTCTTTTTCTTTTTCT
*
11802930 TTTTTTTTTTGTTTATTTTTGTCT
66 TTTTTTTTTT-TTGATTTTTGTCT
11802954 ANTTGTGCTGATTAAGAAATTTAATTACGTTGTTCATTCATTACTTTTTTTTCTTTTTCTTTTT-
1 A-TTGTGCTGATTAAGAAATTTAATTACGTTGTTCATTCATTACTTTTTTTTCTTTTTCTTTTTC
11803018 TCTTTTTTTTTTTTGATTTTTG
65 T-TTTTTTTTTTTTGATTTTTG
11803040 CATTGATAAT
Statistics
Matches: 83, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
89 11 0.13
90 72 0.87
ACGTcount: A:0.16, C:0.10, G:0.09, T:0.65
Consensus pattern (88 bp):
ATTGTGCTGATTAAGAAATTTAATTACGTTGTTCATTCATTACTTTTTTTTCTTTTTCTTTTTCT
TTTTTTTTTTTTGATTTTTGTCT
Found at i:11803031 original size:13 final size:13
Alignment explanation
Indices: 11802998--11803031 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
11802988 CATTCATTAC
11802998 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
*
11803011 TCTTTTTTCTTTT
1 TTTTTTTTCTTTT
11803024 TTTTTTTT
1 TTTTTTTT
11803032 GATTTTTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:11806107 original size:26 final size:26
Alignment explanation
Indices: 11806078--11806128 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11806068 TTTAATTTCT
11806078 AATAAAACATTAATGA-TTAAATTATA
1 AATAAAACATTAAT-ATTTAAATTATA
*
11806104 AATAAAATATTAATATTTAAATTAT
1 AATAAAACATTAATATTTAAATTAT
11806129 TAATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAACATTAATATTTAAATTATA
Found at i:11806139 original size:22 final size:22
Alignment explanation
Indices: 11806111--11806154 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11806101 ATAAATAAAA
11806111 TATTAATATTTAAATTATTAAT
1 TATTAATATTTAAATTATTAAT
**
11806133 TATTAATATTTTTATTATTAAT
1 TATTAATATTTAAATTATTAAT
11806155 ATTTTNAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTAATATTTAAATTATTAAT
Found at i:11806154 original size:15 final size:15
Alignment explanation
Indices: 11806131--11806159 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11806121 TAAATTATTA
11806131 ATTATTAATATTTTT
1 ATTATTAATATTTTT
11806146 ATTATTAATATTTT
1 ATTATTAATATTTT
11806160 NAACAGAGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTAATATTTTT
Found at i:11806179 original size:4 final size:4
Alignment explanation
Indices: 11806170--11806235 Score: 96
Period size: 4 Copynumber: 16.5 Consensus size: 4
11806160 NAACAGAGCG
*
11806170 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CCCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * *
11806218 CCCT CCCT CTCC CTCT CT
1 CTCT CTCT CTCT CTCT CT
11806236 GTGGGTGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (4 bp):
CTCT
Found at i:11806181 original size:6 final size:6
Alignment explanation
Indices: 11806170--11806235 Score: 96
Period size: 6 Copynumber: 11.0 Consensus size: 6
11806160 NAACAGAGCG
*
11806170 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCC CTCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * *
11806218 CCCTCC CTCTCC CTCTCT
1 CTCTCT CTCTCT CTCTCT
11806236 GTGGGTGCAA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (6 bp):
CTCTCT
Found at i:11811338 original size:21 final size:19
Alignment explanation
Indices: 11811305--11811346 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
11811295 CTTTCTTTTT
*
11811305 TTATTAATTAAAAAAATTA
1 TTATTAATTAAAAAAAATA
11811324 TTATTATATTTAAAAAAAATA
1 TTATTA-A-TTAAAAAAAATA
11811345 TT
1 TT
11811347 GATCGGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATTAATTAAAAAAAATA
Found at i:11813487 original size:21 final size:21
Alignment explanation
Indices: 11813463--11813502 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11813453 CTCACTCGTC
11813463 CGTCTTCCCCTCTCTCTCACT
1 CGTCTTCCCCTCTCTCTCACT
*
11813484 CGTCTTCCCCTCTTTCTCA
1 CGTCTTCCCCTCTCTCTCA
11813503 ACCGTCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.50, G:0.05, T:0.40
Consensus pattern (21 bp):
CGTCTTCCCCTCTCTCTCACT
Found at i:11813508 original size:21 final size:20
Alignment explanation
Indices: 11813462--11813508 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
11813452 TCTCACTCGT
11813462 CCGTCTTCCCCTCTCTCTCA
1 CCGTCTTCCCCTCTCTCTCA
*
11813482 CTCGTCTTCCCCTCTTTCTCAA
1 C-CGTCTTCCCCTCTCTCTC-A
11813504 CCGTC
1 CCGTC
11813509 CATAGTCCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 21 0.88
22 2 0.08
ACGTcount: A:0.06, C:0.51, G:0.06, T:0.36
Consensus pattern (20 bp):
CCGTCTTCCCCTCTCTCTCA
Found at i:11817732 original size:23 final size:23
Alignment explanation
Indices: 11817700--11817931 Score: 150
Period size: 23 Copynumber: 10.1 Consensus size: 23
11817690 GTTTAGAGTT
* * *
11817700 TGTGAAACGGCAGGGTGGGAATG
1 TGTGACACGGCATGGTGAGAATG
11817723 TGTGACACGGCATGGT-AGGAATG
1 TGTGACACGGCATGGTGA-GAATG
11817746 TGTGACACGGCATGGTGAGAA--
1 TGTGACACGGCATGGTGAGAATG
* * *
11817767 TGTGACACGGCATGGTATAGAGTT
1 TGTGACACGGCATGGT-GAGAATG
*
11817791 TGTGACACAGCATGGTGAGAATG
1 TGTGACACGGCATGGTGAGAATG
** ** *
11817814 TGTGACACGTTATAATGAGAATA
1 TGTGACACGGCATGGTGAGAATG
* *
11817837 TGTGACAC-G-ATAGGATTTAGAGTG
1 TGTGACACGGCAT-GG--TGAGAATG
** ** * *
11817861 TGTGACACACCATGAAGGGAATA
1 TGTGACACGGCATGGTGAGAATG
* *
11817884 TGTGACACGTCATGGTGATAATG
1 TGTGACACGGCATGGTGAGAATG
** * *
11817907 TGTGTGACGACATAGTGAGAATG
1 TGTGACACGGCATGGTGAGAATG
11817930 TG
1 TG
11817932 ACAAGGGTGT
Statistics
Matches: 159, Mismatches: 40, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
21 18 0.11
22 3 0.02
23 106 0.67
24 29 0.18
25 1 0.01
26 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.25
Consensus pattern (23 bp):
TGTGACACGGCATGGTGAGAATG
Found at i:11817833 original size:68 final size:70
Alignment explanation
Indices: 11817721--11817896 Score: 182
Period size: 70 Copynumber: 2.5 Consensus size: 70
11817711 AGGGTGGGAA
* * **
11817721 TGTGTGACACGGCATGGT-AGGAATGTGTGACACGGCATGGTGAG-A-ATGTGACACGGCAT-GG
1 TGTGTGACACAGCATGGTGA-GAATGTGTGACACGTCATAATGAGAATATGTGACAC-G-ATAGG
11817782 -TATAGAG
63 ATATAGAG
* * *
11817789 TTTGTGACACAGCATGGTGAGAATGTGTGACACGTTATAATGAGAATATGTGACACGATAGGATT
1 TGTGTGACACAGCATGGTGAGAATGTGTGACACGTCATAATGAGAATATGTGACACGATAGGATA
11817854 TAGAG
66 TAGAG
* ** * *
11817859 TGTGTGACACACCATGAAGGGAATATGTGACACGTCAT
1 TGTGTGACACAGCATGGTGAGAATGTGTGACACGTCAT
11817897 GGTGATAATG
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
68 38 0.43
69 5 0.06
70 46 0.52
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (70 bp):
TGTGTGACACAGCATGGTGAGAATGTGTGACACGTCATAATGAGAATATGTGACACGATAGGATA
TAGAG
Found at i:11818013 original size:23 final size:23
Alignment explanation
Indices: 11817985--11818127 Score: 110
Period size: 23 Copynumber: 6.2 Consensus size: 23
11817975 TGGTCAGACA
* *
11817985 TGTGACACAACAGGGTTATAGTG
1 TGTGACACGACAGGGTTATAATG
* * * * *
11818008 TGTGACACGTCATGGTCA-GACG
1 TGTGACACGACAGGGTTATAATG
11818030 TGTGACACGACAGGGTTATAATG
1 TGTGACACGACAGGGTTATAATG
* ** *
11818053 TGTGAAACGACACTGTGATAATG
1 TGTGACACGACAGGGTTATAATG
* *
11818076 TGTGACACGACAGAGTT-TAGTGTG
1 TGTGACACGACAGGGTTATA--ATG
** *
11818100 TGTGACACGGTAGGGTGATAATG
1 TGTGACACGACAGGGTTATAATG
11818123 TGTGA
1 TGTGA
11818128 GACAACACAG
Statistics
Matches: 90, Mismatches: 26, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
22 18 0.20
23 55 0.61
24 15 0.17
25 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (23 bp):
TGTGACACGACAGGGTTATAATG
Found at i:11818023 original size:45 final size:45
Alignment explanation
Indices: 11817939--11818057 Score: 168
Period size: 45 Copynumber: 2.6 Consensus size: 45
11817929 GTGACAAGGG
*
11817939 TGTGACACGACAGGGTTTAAAGTGTGTGACCTGCCATGGTCAGACA
1 TGTGACACGACAGGG-TTATAGTGTGTGACCTGCCATGGTCAGACA
* * *
11817985 TGTGACACAACAGGGTTATAGTGTGTGACAC-GTCATGGTCAGACG
1 TGTGACACGACAGGGTTATAGTGTGTGAC-CTGCCATGGTCAGACA
*
11818030 TGTGACACGACAGGGTTATAATGTGTGA
1 TGTGACACGACAGGGTTATAGTGTGTGA
11818058 AACGACACTG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
45 51 0.77
46 15 0.23
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (45 bp):
TGTGACACGACAGGGTTATAGTGTGTGACCTGCCATGGTCAGACA
Found at i:11818231 original size:81 final size:80
Alignment explanation
Indices: 11818091--11818268 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 80
11818081 CACGACAGAG
* * * * *
11818091 TTTAGTGTGTGTGACACGGTAGGGTGATAATGTGTGAGACAACACAGTGAGAATATGTGAAACGG
1 TTTAGAGTGTGTGACACGGCAGGGTCATAATGTGTGAAACAACACAATGAGAATATGTGAAACGG
*
11818156 GTGTGACACGGTAGCA
66 GTGTGACA-GGCAGCA
* * * *
11818172 TTTAGAGTGTGTGACACGGCAGGGTCATAATGTGTGAAACAGCACAATGATAATGTGTGACACGG
1 TTTAGAGTGTGTGACACGGCAGGGTCATAATGTGTGAAACAACACAATGAGAATATGTGAAACGG
**
11818237 GTGTGACAGGCAGGG
66 GTGTGACAGGCAGCA
11818252 TTTAGAGTGTGTGACAC
1 TTTAGAGTGTGTGACAC
11818269 ACCATGGAGG
Statistics
Matches: 85, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 21 0.25
81 64 0.75
ACGTcount: A:0.29, C:0.12, G:0.34, T:0.25
Consensus pattern (80 bp):
TTTAGAGTGTGTGACACGGCAGGGTCATAATGTGTGAAACAACACAATGAGAATATGTGAAACGG
GTGTGACAGGCAGCA
Done.