Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 73 of 105
Found at i:12909613 original size:5 final size:5
Alignment explanation
Indices: 12909603--12909650 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
12909593 TTATTACTAG
*
12909603 TATAT TATAT TATAT TATAT TATAT TATAT TGTAT TATACT T-TAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT TAT
12909651 TGTTGTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 2 0.05
5 35 0.90
6 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:12910658 original size:19 final size:18
Alignment explanation
Indices: 12910631--12910666 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
12910621 GAATCGTAGG
12910631 TTTTCCTTTTTGCATTTTC
1 TTTTCCTTTTTG-ATTTTC
*
12910650 TTTTTCTTTTTGATTTT
1 TTTTCCTTTTTGATTTT
12910667 ATTTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTCCTTTTTGATTTTC
Found at i:12910676 original size:9 final size:9
Alignment explanation
Indices: 12910662--12910750 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
12910652 TTTCTTTTTG
12910662 ATTTTATTT
1 ATTTTATTT
12910671 ATTTTATATT
1 ATTTTAT-TT
* *
12910681 -TTTAATAT
1 ATTTTATTT
12910689 ATTTTTATTTT
1 A-TTTTA-TTT
12910700 ATTTTTAACTTT
1 A-TTTT-A-TTT
12910712 -TTTTATTT
1 ATTTTATTT
*
12910720 ATTTTATTA
1 ATTTTATTT
12910729 ATTTT-TATT
1 ATTTTAT-TT
12910738 A-TTTATTT
1 ATTTTATTT
12910746 ATTTT
1 ATTTT
12910751 TGTTGAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
8 11 0.17
9 31 0.48
10 10 0.16
11 8 0.12
12 4 0.06
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTATTT
Found at i:12910691 original size:22 final size:22
Alignment explanation
Indices: 12910666--12910739 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
12910656 TTTTTGATTT
12910666 TATTTATT-TTATATTTTTAATA
1 TATTT-TTATTATATTTTTAATA
*
12910688 TATTTTTATTTTATTTTTAACT-
1 TATTTTTATTATATTTTTAA-TA
*
12910710 T-TTTTTATT-TA-TTTTATTA
1 TATTTTTATTATATTTTTAATA
12910729 -ATTTTTATTAT
1 TATTTTTATTAT
12910740 TTATTTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
18 1 0.02
19 13 0.29
20 3 0.07
21 10 0.22
22 17 0.38
23 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (22 bp):
TATTTTTATTATATTTTTAATA
Found at i:12910725 original size:30 final size:26
Alignment explanation
Indices: 12910664--12910750 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 26
12910654 TCTTTTTGAT
*
12910664 TTTATTTATTTTA-T-ATTTTTAATA
1 TTTATTTATTTTATTAATTTTTATTA
12910688 TATT-TTTATTTTATT--TTTAACTT-TT-
1 T-TTATTTATTTTATTAATTT---TTATTA
12910713 TTTATTTATTTTATTAATTTTTATTA
1 TTTATTTATTTTATTAATTTTTATTA
12910739 TTTATTTATTTT
1 TTTATTTATTTT
12910751 TGTTGAATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 18
0.73 0.01 0.25
Matches are distributed among these distances:
24 17 0.33
25 17 0.33
26 13 0.25
27 5 0.10
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTATTTATTTTATTAATTTTTATTA
Found at i:12910739 original size:18 final size:18
Alignment explanation
Indices: 12910689--12910751 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 18
12910679 TTTTTAATAT
12910689 ATTTTTATTTTATTT-TTA
1 ATTTTTA-TTTATTTATTA
12910707 ACTTTTTTTATTTATTTTATTA
1 A---TTTTTATTTA-TTTATTA
*
12910729 ATTTTTA-TTATTTATTT
1 ATTTTTATTTATTTATTA
12910746 ATTTTT
1 ATTTTT
12910752 GTTGAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 12 0.31
18 4 0.10
19 6 0.15
20 4 0.10
21 9 0.23
22 4 0.10
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTATTTATTA
Found at i:12910746 original size:21 final size:21
Alignment explanation
Indices: 12910689--12910748 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
12910679 TTTTTAATAT
12910689 ATTTTTA-T-TTTATTT-TTA
1 ATTTTTATTATTTATTTATTA
12910707 ACTTTTT-TTATTTATTTTATTA
1 A-TTTTTATTATTTA-TTTATTA
12910729 ATTTTTATTATTTATTTATT
1 ATTTTTATTATTTATTTATT
12910749 TTTGTTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 4 0.11
21 14 0.39
22 11 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (21 bp):
ATTTTTATTATTTATTTATTA
Found at i:12915872 original size:66 final size:66
Alignment explanation
Indices: 12915788--12915955 Score: 212
Period size: 66 Copynumber: 2.5 Consensus size: 66
12915778 AGTTCAGATC
* * * *
12915788 ATTTTCTTGATTCATGATTTTATCTCGACCATTCATCTTCAATCTCAACTC-AGTCCTGGTCACT
1 ATTTTCTTGACTCATGATTTCATCTCGATCATTCATCTTCAATCTCAACTCTA-TCCTGATCACT
12915852 TT
65 TT
* * * * *
12915854 ATTTTCTTGACTCGTGATTTCATCTTGGTCATTCATCTTCAATCTCGACTCTATCTTGATCACTT
1 ATTTTCTTGACTCATGATTTCATCTCGATCATTCATCTTCAATCTCAACTCTATCCTGATCACTT
12915919 T
66 T
* * *
12915920 ATTTTTTTGACTCACGATTTCATCTCAATCATTCAT
1 ATTTTCTTGACTCATGATTTCATCTCGATCATTCAT
12915956 TTTTGACCTC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 85 0.99
67 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.46
Consensus pattern (66 bp):
ATTTTCTTGACTCATGATTTCATCTCGATCATTCATCTTCAATCTCAACTCTATCCTGATCACTT
T
Found at i:12916165 original size:120 final size:120
Alignment explanation
Indices: 12915920--12916256 Score: 355
Period size: 120 Copynumber: 2.8 Consensus size: 120
12915910 TGATCACTTT
* * * *
12915920 ATTTTTTTGACTCACGATTTCATCTCAATCATTCATTTTTGACCTCGACTTGGTCCTGGTTGATT
1 ATTTTTTTGACTCGC-ATTTCATCTCGATCATTCATTTTTGACCTCGACTTGGTCTTGGTTGCTT
* * **
12915985 TATCTTTTAGACTCACTA-TCTCATCCCGATCATCCAATCTCAACTTAGTTTAGATA
65 TATCTTTTAGACTCA-TAGTTTCATCCCGATCATCAAATCTCAACTTAGTCAAGATA
* * *
12916041 A-TTTTTTGACTCGCAATTTCATCTTGATCATTCATTTTTGACATCGACTTGATCTTGGTTGCTT
1 ATTTTTTTGACTCGC-ATTTCATCTCGATCATTCATTTTTGACCTCGACTTGGTCTTGGTTGCTT
* * * *
12916105 TATCTTTTAGAATCATAGTTTCATCTCGGTCATCAAATCTTC-ACTTAGTCCAAG-TC
65 TATCTTTTAGACTCATAGTTTCATCCCGATCATCAAATC-TCAACTTAGT-CAAGATA
* * * **
12916161 ATTTTTTTAACATACG-ATTTCATCTCGATCATTCA-TTTTCACCTCGACTTGGCCTTGGTCACT
1 ATTTTTTTGAC-T-CGCATTTCATCTCGATCATTCATTTTTGACCTCGACTTGGTCTTGGTTGCT
* * *
12916224 TGATCTTTTA-ACTCACAGTTTCATCCCAATCAT
64 TTATCTTTTAGACTCATAGTTTCATCCCGATCAT
12916257 TCAATGTTGG
Statistics
Matches: 180, Mismatches: 30, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
119 20 0.11
120 126 0.70
121 31 0.17
122 1 0.01
123 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (120 bp):
ATTTTTTTGACTCGCATTTCATCTCGATCATTCATTTTTGACCTCGACTTGGTCTTGGTTGCTTT
ATCTTTTAGACTCATAGTTTCATCCCGATCATCAAATCTCAACTTAGTCAAGATA
Found at i:12916441 original size:66 final size:65
Alignment explanation
Indices: 12916282--12916525 Score: 205
Period size: 66 Copynumber: 3.8 Consensus size: 65
12916272 TCTATATCAT
* * * * * ** * * *
12916282 TTTTTTG-GCTCATAGTTTCATCTTGGTCATTCATCTTTGACCTTGACTTAATTCTAGTTACTTC
1 TTTTTTGAACTCACAGTTTCATCCTGGTCATTCAT-TTTCACCTTAACTCGATTCTGGTCATTTC
12916346 A
65 A
* ** *
12916347 --TTTTG-ACTCGCAGTTTCATCCTAATCATTTATTTTCATCCTTAACTCGATTCTGGTCACTTT
1 TTTTTTGAACTCACAGTTTCATCCTGGTCATTCATTTTCA-CCTTAACTCGATTCTGGTCA-TTT
12916409 -A
64 CA
* * *
12916410 TTTTCTTGAA-TCACGGTTTCAT-CTAGGTCATTCATCTTTGACCTCAACTCGATTCTGGTCATT
1 TTTT-TTGAACTCACAGTTTCATCCT-GGTCATTCAT-TTTCACCTTAACTCGATTCTGGTCATT
12916473 TCA
63 TCA
* *
12916476 TTTTTTTAACTCATAGTTTCATCCTGGTCATTCATTTTCGACCTTAACTC
1 TTTTTTGAACTCACAGTTTCATCCTGGTCATTCATTTTC-ACCTTAACTC
12916526 AGTCCTAGTT
Statistics
Matches: 141, Mismatches: 26, Indels: 23
0.74 0.14 0.12
Matches are distributed among these distances:
62 4 0.03
63 41 0.29
64 2 0.01
65 14 0.10
66 73 0.52
67 7 0.05
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (65 bp):
TTTTTTGAACTCACAGTTTCATCCTGGTCATTCATTTTCACCTTAACTCGATTCTGGTCATTTCA
Found at i:12916546 original size:132 final size:129
Alignment explanation
Indices: 12916296--12916547 Score: 283
Period size: 132 Copynumber: 1.9 Consensus size: 129
12916286 TTGGCTCATA
* ** * * * *
12916296 GTTTCATCTTGGTCATTCATCTTTGACCTTGACTTAATTCTAGTTACTTCATTTTGACTCGCAGT
1 GTTTCATCTAGGTCATTCATCTTTGACCTCAACTCAATTCTAGTCACTTCATTTTAACTCACAGT
* * *
12916361 TTCATCCTAATCATTTATTTTCATCCTTAACTCGATTCTGGTCACTTTATTTTCTTGAATCACG
66 TTCATCCTAATCATTCATTTTCATCCTTAACTCGATCCTAGTCACTTTATTTTCTTGAATCACG
* * * *
12916425 GTTTCATCTAGGTCATTCATCTTTGACCTCAACTCGATTCTGGTCATTTCATTTTTTTAACTCAT
1 GTTTCATCTAGGTCATTCATCTTTGACCTCAACTCAATTCTAGTCACTTCA---TTTTAACTCAC
** **
12916490 AGTTTCATCCTGGTCATTCATTTTCGA-CCTTAACTC-AGTCCTAGTTGCTTTATTTTCT
63 AGTTTCATCCTAATCATTCATTTTC-ATCCTTAACTCGA-TCCTAGTCACTTTATTTTCT
12916548 AAACTTGTGG
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
129 43 0.43
131 1 0.01
132 55 0.55
133 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.11, T:0.46
Consensus pattern (129 bp):
GTTTCATCTAGGTCATTCATCTTTGACCTCAACTCAATTCTAGTCACTTCATTTTAACTCACAGT
TTCATCCTAATCATTCATTTTCATCCTTAACTCGATCCTAGTCACTTTATTTTCTTGAATCACG
Found at i:12916834 original size:5 final size:5
Alignment explanation
Indices: 12916824--12916876 Score: 81
Period size: 5 Copynumber: 10.6 Consensus size: 5
12916814 TTATTACTAG
*
12916824 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TGTAT TATACT T-TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT
12916874 TAT
1 TAT
12916877 TGTTATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 2 0.05
5 40 0.91
6 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:12916934 original size:20 final size:20
Alignment explanation
Indices: 12916905--12916942 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12916895 GTAAACAATC
*
12916905 TATTAATATTATTATTTTAT
1 TATTAATATTACTATTTTAT
*
12916925 TATTATTATTACTATTTT
1 TATTAATATTACTATTTT
12916943 TTTCTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTAATATTACTATTTTAT
Found at i:12916955 original size:15 final size:15
Alignment explanation
Indices: 12916937--12916967 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12916927 TTATTATTAC
12916937 TATTTTTTTCTTTTT
1 TATTTTTTTCTTTTT
12916952 TATTTTTTTCTTTTT
1 TATTTTTTTCTTTTT
12916967 T
1 T
12916968 TTTCTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.87
Consensus pattern (15 bp):
TATTTTTTTCTTTTT
Found at i:12917504 original size:19 final size:19
Alignment explanation
Indices: 12917476--12917527 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
12917466 TATGGGTTTG
* *
12917476 GGATGGATTTTTCGGTGAA
1 GGATGAATTTTTCAGTGAA
12917495 GGATGAATTTTTCAGTGAA
1 GGATGAATTTTTCAGTGAA
*
12917514 AGATGAATTTTTCA
1 GGATGAATTTTTCA
12917528 ACGAGGTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (19 bp):
GGATGAATTTTTCAGTGAA
Found at i:12917852 original size:22 final size:22
Alignment explanation
Indices: 12917827--12917887 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
12917817 TTTCTTTTCC
* *
12917827 ATTTTTTTTAT-TTTTTGATTTT
1 ATTTTTTTTATATTTTT-AATCT
*
12917849 ATTTATTTTATATTTTTAATCT
1 ATTTTTTTTATATTTTTAATCT
* *
12917871 ATTTTTTTCAAATTTTT
1 ATTTTTTTTATATTTTT
12917888 TTATTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (22 bp):
ATTTTTTTTATATTTTTAATCT
Found at i:12917865 original size:17 final size:18
Alignment explanation
Indices: 12917827--12917866 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
12917817 TTTCTTTTCC
*
12917827 ATTTTT-TTTATTTTTTG
1 ATTTTTATTTATTTTATG
12917844 A-TTTTATTTATTTTAT-
1 ATTTTTATTTATTTTATG
12917860 ATTTTTA
1 ATTTTTA
12917867 ATCTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
ATTTTTATTTATTTTATG
Found at i:12917934 original size:22 final size:20
Alignment explanation
Indices: 12917886--12917934 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
12917876 TTTCAAATTT
*
12917886 TTTTATTTATTTTACTAATT
1 TTTTATTTATTTTACTAATA
12917906 TTATTATTTATTTTTACTAAATA
1 TT-TTATTTA-TTTTACT-AATA
12917929 TTTTAT
1 TTTTAT
12917935 AAAATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.28
22 11 0.44
23 5 0.20
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATTTATTTTACTAATA
Found at i:12917934 original size:25 final size:21
Alignment explanation
Indices: 12917847--12917925 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
12917837 TTTTTTGATT
*
12917847 TTATTTATTTTA-TATTTTTAA
1 TTATTTATTTTACTAATTTT-A
* *
12917868 TCTATTT-TTTT-CAAATTTTT
1 T-TATTTATTTTACTAATTTTA
12917888 TTATTTATTTTACTAATTTTA
1 TTATTTATTTTACTAATTTTA
12917909 TTATTTATTTTTACTAA
1 TTATTTA-TTTTACTAA
12917926 ATATTTTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.10
20 5 0.10
21 24 0.50
22 14 0.29
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATTTATTTTACTAATTTTA
Found at i:12920295 original size:68 final size:68
Alignment explanation
Indices: 12920147--12920278 Score: 194
Period size: 68 Copynumber: 2.0 Consensus size: 68
12920137 GCATAACACT
* * * *
12920147 AATGAATAAGATATTTATAAAACTATTTTTGCTGGTATATAAATGGATGATTACCTTCTGTACAT
1 AATGAATAAGATATTTATAAAACTATTTCTACTAGCATATAAATGGATGATTACCTTCTGTACAT
12920212 ATG
66 ATG
* * *
12920215 AATGAATAAGATATTTATAAAATTATTTCTACTAGCATATGAATGGATGATTAGCTTCT-TACAT
1 AATGAATAAGATATTTATAAAACTATTTCTACTAGCATATAAATGGATGATTACCTTCTGTACAT
12920279 TCTGTATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
67 5 0.09
68 52 0.91
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (68 bp):
AATGAATAAGATATTTATAAAACTATTTCTACTAGCATATAAATGGATGATTACCTTCTGTACAT
ATG
Found at i:12921667 original size:196 final size:193
Alignment explanation
Indices: 12921465--12921826 Score: 460
Period size: 196 Copynumber: 1.9 Consensus size: 193
12921455 TTATTGAAGT
* * * * **
12921465 TTTTTTATAAATATTCTAATACATTGGTAATATTTAAAAAAAA-CTTCTCACCTAGGGATTTCGT
1 TTTTTTATAAATACTCCAATACACTAGTAATATTTAAAAAAAATCTTCTCACCTAAAGATTTCGT
*
12921529 AAAGCATCACTACTCAGAATACTTTTAGAATCCCGTCATTGGATAAAACTTTTTTTTTATCACTT
66 -AAGCATCACTACTCAGAATACTTTT-GAATCCCATCATTGGATAAAA-TTTTTTTTTA-CACTT
** *
12921594 TATTTTATT-TTTTTTATAAAAGTTAA-TTTTATCTATTATTAATAAAAAAAATTTATTATACTG
127 TAAATTATTATTTTTTAT-AAA-TTAATTTTTATCAATTATTAATAAAAAAAATTTATTATACTG
12921657 AAAA
190 AAAA
*
12921661 TTTTTTATAAATACTCCAATACACTAGTAATATTTAAAAAAAATCTTCTCACTTAAAGATTTCGT
1 TTTTTTATAAATACTCCAATACACTAGTAATATTTAAAAAAAATCTTCTCACCTAAAGATTTCGT
* * * * * * * * *
12921726 AAGTATCGCTGCTCGGAGTACTTTTGAATCTCATCGTTGGATAGAATTTTTTTTTACATTTTAAA
66 AAGCATCACTACTCAGAATACTTTTGAATCCCATCATTGGATAAAATTTTTTTTTACACTTTAAA
*
12921791 TTATTATTTTTTATTAATTAATTTTTATCAATTATT
131 TTATTATTTTTTATAAATTAATTTTTATCAATTATT
12921827 GTATATTTTT
Statistics
Matches: 142, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
192 4 0.03
193 26 0.18
194 18 0.13
195 17 0.12
196 59 0.42
197 18 0.13
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (193 bp):
TTTTTTATAAATACTCCAATACACTAGTAATATTTAAAAAAAATCTTCTCACCTAAAGATTTCGT
AAGCATCACTACTCAGAATACTTTTGAATCCCATCATTGGATAAAATTTTTTTTTACACTTTAAA
TTATTATTTTTTATAAATTAATTTTTATCAATTATTAATAAAAAAAATTTATTATACTGAAAA
Found at i:12921810 original size:14 final size:14
Alignment explanation
Indices: 12921793--12921826 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12921783 ATTTTAAATT
*
12921793 ATTATTTTTTATTA
1 ATTATTTTTTATCA
*
12921807 ATTAATTTTTATCA
1 ATTATTTTTTATCA
12921821 ATTATT
1 ATTATT
12921827 GTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTTTTATCA
Found at i:12922156 original size:14 final size:14
Alignment explanation
Indices: 12922137--12922163 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12922127 CTATAGTCAA
12922137 TGACTTAGTTAGCT
1 TGACTTAGTTAGCT
12922151 TGACTTAGTTAGC
1 TGACTTAGTTAGC
12922164 CCCCAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (14 bp):
TGACTTAGTTAGCT
Found at i:12923129 original size:45 final size:44
Alignment explanation
Indices: 12923040--12923268 Score: 153
Period size: 48 Copynumber: 5.0 Consensus size: 44
12923030 ATGAATTTTG
12923040 AAAATTTAAGAGGGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
1 AAAATTTAAGAGGGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
** * ** *
12923084 AAAATTTAA-AGAGGCTCCTCTAAGCTTAGGCTTAAGGACTTTTA
1 AAAATTTAAGAG-GGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
* * * *
12923128 AAAATATAA-ATGGCTCCT-TAAAGCAGAGGTTCAACAAC-TTAA
1 AAAATTTAAGAGGGCTCCTCT-AAGCAAAGGCTCAACAACTTTAA
* * * * * *
12923170 AATTTCATCTTAAAAAAGGCTTCTCTAAGCAGAGGCTTAACAACTTTAA
1 AA---AAT-TT-AAGAGGGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
**
12923219 AAATTCATCTTGAA-AAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
1 AAA---AT-TT-AAGAGGGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
12923267 AA
1 AA
12923269 TTCTCATCTT
Statistics
Matches: 145, Mismatches: 27, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
42 6 0.04
43 21 0.14
44 44 0.30
45 2 0.01
46 1 0.01
47 2 0.01
48 55 0.38
49 14 0.10
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (44 bp):
AAAATTTAAGAGGGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
Found at i:12923235 original size:49 final size:48
Alignment explanation
Indices: 12923140--12923319 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 48
12923130 AATATAAATG
*
12923140 GCTCCT-TAAAGCAGAGGTTCAACAAC-TTAAAATTTCATCTTAAAAAA
1 GCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAATTTCATCTTAAAAAA
* * * *
12923187 GGCTTCTCTAAGCAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAA
1 -GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTAAAAAA
* * *
12923236 GCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCATCTTCACAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT-TCATCTTAAAAAA
* **
12923285 GCTCCTTTAAATAGAGGCTCAACAACTTTAAAATT
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT
12923320 GCTCCTTTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
48 52 0.46
49 62 0.54
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (48 bp):
GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTAAAAAA
Found at i:12923310 original size:97 final size:96
Alignment explanation
Indices: 12923140--12923317 Score: 234
Period size: 97 Copynumber: 1.8 Consensus size: 96
12923130 AATATAAATG
* * * *
12923140 GCTCCTTAAAGCAGAGGTTCAACAACTTAAAATTTCATCTTAAAAAAGGCTTCTCTAAGCAGAGG
1 GCTCCTTAAAGCAAAGGCTCAACAACTTAAAATTTCATCTTAAAAAAGGCTCCTCTAAACAGAGG
*
12923205 CTTAACAACTTTAAAAATTCATCTTGAAAAA
66 CTCAACAACTTTAAAAATTCATCTTGAAAAA
* * * *
12923236 GCTCCTCT-AAGCAAAGGCTCAACAACTTTAAAATTCTCATCTTCACAAA-GCTCCTTTAAATAG
1 GCTCCT-TAAAGCAAAGGCTCAACAAC-TTAAAATT-TCATCTTAAAAAAGGCTCCTCTAAACAG
12923299 AGGCTCAACAACTTTAAAA
63 AGGCTCAACAACTTTAAAA
12923318 TTGCTCCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
96 22 0.31
97 37 0.53
98 11 0.16
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (96 bp):
GCTCCTTAAAGCAAAGGCTCAACAACTTAAAATTTCATCTTAAAAAAGGCTCCTCTAAACAGAGG
CTCAACAACTTTAAAAATTCATCTTGAAAAA
Found at i:12923338 original size:35 final size:35
Alignment explanation
Indices: 12923285--12923388 Score: 156
Period size: 35 Copynumber: 3.0 Consensus size: 35
12923275 TCTTCACAAA
*
12923285 GCTCCTTTAAATAGAGGCTCAACAACTTTAAAATT
1 GCTCCTTTAAGTAGAGGCTCAACAACTTTAAAATT
* * *
12923320 GCTCCTTTAAGTAAAGGCTCAATAACATTAAAATT
1 GCTCCTTTAAGTAGAGGCTCAACAACTTTAAAATT
*
12923355 GCTCC-TTAAGCAGAGGCTCAACAACTTTAAAATT
1 GCTCCTTTAAGTAGAGGCTCAACAACTTTAAAATT
12923389 TCATCTTGAA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
34 25 0.41
35 36 0.59
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (35 bp):
GCTCCTTTAAGTAGAGGCTCAACAACTTTAAAATT
Found at i:12923412 original size:214 final size:207
Alignment explanation
Indices: 12923135--12923695 Score: 725
Period size: 214 Copynumber: 2.6 Consensus size: 207
12923125 TTAAAAATAT
* * *
12923135 AAATGGCTCCTTAAAGCAGAGGTTCAACAAC-TTAAAATTTCATCTTAAAAAAGGCTTCTCTAAG
1 AAAT-GCTCCTT-AAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAA-GCTCCTCTAAG
*
12923199 CAGAGGCTTAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTT
63 CAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTT
* * * *
12923264 TAAAATTCTCATCTTCACAAAGCTCCTTTAAATAGAGGCTCAACAACTTTAAAATTGCTC-CTTT
128 TAAAATTCTCATCTTCAAAAAGCTCCTCTAAACAAAGGCTCAACAACTTTAAAATT-CTCACTTT
12923328 AAGTAAAGGCTCAATAACATT-A
192 -A--AAAGGCTC-AT--C-TTGA
*
12923350 AAATTGCTCCTTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGTA
1 AAA-TGCTCCTTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGCA
* ** * *
12923415 GAGGCTCAACAATTTTAAATTTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTA
65 GAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTA
* * *
12923480 AAATTCTCATTTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCAAACTTTA
130 AAATTCTCATCTTCAAAAAGCTCCTCTAAACAAAGGCTCAACAACTTTAAAATTCTC--ACTTTA
**
12923545 AAATTCTCATCTTGGA
193 AAAGGCTCATCTT-GA
* *
12923561 AAA-GCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCATCTTGAAAATGCTCCTCTAAGC
1 AAATGCTCCT-TAAGCAGAGGCTCAACAACTTTAAAA-TTTCATCTTGAAAAAGCTCCTCTAAGC
* * *
12923625 AGAGGCTCAACCACTTTAAAAATTCATCTTGGAAAAGCTCCTCTAAGCAAAAGCTCAACAACTTT
64 AGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTT
12923690 AAAATT
129 AAAATT
12923696 AAACTATTGA
Statistics
Matches: 307, Mismatches: 30, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
209 8 0.03
210 26 0.08
211 92 0.30
212 2 0.01
213 9 0.03
214 134 0.44
215 31 0.10
216 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (207 bp):
AAATGCTCCTTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGCAG
AGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAA
AATTCTCATCTTCAAAAAGCTCCTCTAAACAAAGGCTCAACAACTTTAAAATTCTCACTTTAAAA
GGCTCATCTTGA
Found at i:12923425 original size:48 final size:48
Alignment explanation
Indices: 12923355--12923695 Score: 288
Period size: 48 Copynumber: 6.7 Consensus size: 48
12923345 CATTAAAATT
12923355 GCTCCT-TAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAA
* * *
12923402 GCTCCTCTAAGTAGAGGCTCAACAATTTTAAATTTTCATCTTGAAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAA
* *
12923450 GCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTCATTTTGAAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT-TCATCTTGAAAAA
* * * *
12923499 GCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCAAACTTTAAAAT
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT-TC-ATCTTGAAAAA
* * ** * * * * * *
12923549 TCTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCATCTTGAAAAT
1 GCTCCTCTAAGCAGAG--GCTC-AA-CA-A--CT-----TTA---AAA-TTTCATCTTGAAAAA
* * *
12923613 GCTCCTCTAAGCAGAGGCTCAACCACTTTAAAAATTCATCTTGGAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAA
* *
12923661 GCTCCTCTAAGCAAAAGCTCAACAACTTTAAAATT
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATT
12923696 AAACTATTGA
Statistics
Matches: 236, Mismatches: 39, Indels: 37
0.76 0.12 0.12
Matches are distributed among these distances:
47 6 0.03
48 114 0.48
49 51 0.22
50 18 0.08
52 4 0.02
53 2 0.01
54 2 0.01
55 1 0.00
57 4 0.02
59 1 0.00
60 1 0.00
61 2 0.01
62 4 0.02
64 19 0.08
65 5 0.02
66 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (48 bp):
GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAA
Found at i:12923503 original size:49 final size:49
Alignment explanation
Indices: 12923355--12923537 Score: 291
Period size: 49 Copynumber: 3.8 Consensus size: 49
12923345 CATTAAAATT
12923355 GCTCCT-TAAGCAGAGGCTCAACAACTTTAAAATT-TCATCTTGAAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAA
* * *
12923402 GCTCCTCTAAGTAGAGGCTCAACAA-TTTTAAATTTTCATCTTGAAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAA
* *
12923450 GCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTCATTTTGAAAAA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAA
*
12923499 GCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCA
1 GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCA
12923538 AACTTTAAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
47 14 0.11
48 55 0.44
49 57 0.45
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (49 bp):
GCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAA
Found at i:12923543 original size:16 final size:16
Alignment explanation
Indices: 12923522--12923553 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12923512 AAGGCTCAAC
12923522 AACTTTAAAATTCTCA
1 AACTTTAAAATTCTCA
12923538 AACTTTAAAATTCTCA
1 AACTTTAAAATTCTCA
12923554 TCTTGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AACTTTAAAATTCTCA
Found at i:12923549 original size:65 final size:65
Alignment explanation
Indices: 12923473--12923598 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
12923463 GAGGCTCAAC
*
12923473 AACTTTAAAATTCTCATTTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCA
1 AACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCA
* * *
12923538 AACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATT
1 AACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATT
12923599 TTCATCTTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (65 bp):
AACTTTAAAATTCTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCA
Found at i:12923592 original size:162 final size:161
Alignment explanation
Indices: 12923211--12923695 Score: 538
Period size: 162 Copynumber: 3.0 Consensus size: 161
12923201 GAGGCTTAAC
* * * *
12923211 AACTTTAAAAATTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCAT
1 AACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCAT
* * * ** *
12923276 CTTCACAAAGCTCCTTTAAATAGAGGCTCAACAACTTT-AAAATTGC-TCCTTTAAGTAAAGGCT
66 CTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATT-CAT-CTTGAA--AAA-GCT
** ** * **
12923339 -CAATAA-CATTAAAATTGC-TC--C-TTAAGCAGAGGCTCAA
126 CCTCTAAGCA--AAAGCT-CAACAACTTTAA--A-ATTCTC-A
*
12923376 CAACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAATTTT-AAATTTTCA
1 -AACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCA
* * *
12923440 TCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTCATTTTGAAAAAGCTCCT
65 TCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAT-TCATCTTGAAAAAGCTCCT
*
12923505 CTAAGCAAAGGCTCAACAACTTTAAAATTCTCA
129 CTAAGCAAAAGCTCAACAACTTTAAAATTCTCA
*
12923538 AACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCA
1 AACTTTAAAATT-TCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCA
* * *
12923603 TCTTGAAAATGCTCCTCTAAGCAGAGGCTCAACCACTTTAAAAATTCATCTTGGAAAAGCTCCTC
65 TCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTC
12923668 TAAGCAAAAGCTCAACAACTTTAAAATT
130 TAAGCAAAAGCTCAACAACTTTAAAATT
12923696 AAACTATTGA
Statistics
Matches: 279, Mismatches: 29, Indels: 26
0.84 0.09 0.08
Matches are distributed among these distances:
161 12 0.04
162 87 0.31
163 61 0.22
164 8 0.03
165 46 0.16
166 63 0.23
167 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (161 bp):
AACTTTAAAATTTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCAT
CTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCTCCTCT
AAGCAAAAGCTCAACAACTTTAAAATTCTCA
Found at i:12923604 original size:49 final size:49
Alignment explanation
Indices: 12923538--12923695 Score: 239
Period size: 49 Copynumber: 3.2 Consensus size: 49
12923528 AAAATTCTCA
*
12923538 AACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAAC
1 AACTTTAAAATTTTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAAC
*
12923587 AATTTTAAAATTTTCATCTT-GAAAATGCTCCTCTAAGCAGAGGCTCAAC
1 AACTTTAAAATTTTCATCTTGGAAAA-GCTCCTCTAAGCAGAGGCTCAAC
* * * *
12923636 CACTTTAAAA-ATTCATCTTGGAAAAGCTCCTCTAAGCAAAAGCTCAAC
1 AACTTTAAAATTTTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAAC
12923684 AACTTTAAAATT
1 AACTTTAAAATT
12923696 AAACTATTGA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
48 43 0.44
49 54 0.56
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.29
Consensus pattern (49 bp):
AACTTTAAAATTTTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAAC
Found at i:12923631 original size:114 final size:114
Alignment explanation
Indices: 12923431--12923645 Score: 349
Period size: 114 Copynumber: 1.9 Consensus size: 114
12923421 CAACAATTTT
* * *
12923431 AAATTTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAATTCTCATTTTGAA
1 AAATTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAA
12923496 AAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCAAACTTTA
66 AAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCAAACTTTA
* * *
12923545 AAATTCTCATCTTGGAAAAGCTCCTCTAAGCAGAGGCTCAACAATTTTAAAATTTTCATCTTGAA
1 AAATTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAA
* * *
12923610 AATGCTCCTCTAAGCAGAGGCTCAACCACTTTAAAA
66 AAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAA
12923646 ATTCATCTTG
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 92 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (114 bp):
AAATTCTCATCTTGAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAATTCTCATCTTGAA
AAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAATTCTCAAACTTTA
Found at i:12924092 original size:42 final size:41
Alignment explanation
Indices: 12923953--12924205 Score: 231
Period size: 42 Copynumber: 5.8 Consensus size: 41
12923943 TCATTGAAGG
* * * *
12923953 AAACTCGAATATCACCATCGAGAAA-ATACAATTCAAGCTTT
1 AAACTCGGATATCACCACCGA-AAAGATGCAATTCAAACTTT
*
12923994 AATACTTGGATATCACCACCGAGAGAATGCAAATGCAAATTCAAACTTT
1 AA-ACTCGGATATCACCACCGA-A-AA-G---ATGC-AATTCAAACTTT
12924043 AAACTCGGATATCACCACCGAAAAGATGCAATTCAAACTTT
1 AAACTCGGATATCACCACCGAAAAGATGCAATTCAAACTTT
* *
12924084 AATCCTCGGATATCACCACCGAAAGAATGCAAATGTAAATTCAAACTTT
1 AA-ACTCGGATATCACCACCG-AA-AA-G---ATG-CAATTCAAACTTT
* * *
12924133 AAACTCGGATATCACCATCAAAAAGATGCAATTGAAAGC-TT
1 AAACTCGGATATCACCACCGAAAAGATGCAATTCAAA-CTTT
12924174 AACACTCGGATATCACCACCGAAAAGATGCAA
1 AA-ACTCGGATATCACCACCGAAAAGATGCAA
12924206 ATTTTTTTAA
Statistics
Matches: 179, Mismatches: 15, Indels: 35
0.78 0.07 0.15
Matches are distributed among these distances:
41 27 0.15
42 70 0.39
43 4 0.02
44 2 0.01
45 3 0.02
46 4 0.02
47 3 0.02
48 39 0.22
49 27 0.15
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (41 bp):
AAACTCGGATATCACCACCGAAAAGATGCAATTCAAACTTT
Found at i:12924111 original size:90 final size:90
Alignment explanation
Indices: 12923953--12924207 Score: 356
Period size: 90 Copynumber: 2.8 Consensus size: 90
12923943 TCATTGAAGG
* * * * * *
12923953 AAACTCGAATATCACCATCGAGAAA-ATACAATTCAAGCTTTAATACTTGGATATCACCACCGAG
1 AAACTCGGATATCACCATCGA-AAAGATGCAATTCAAACTTTAATCCTCGGATATCACCACCGAA
12924017 AGAATGCAAATGCAAATTCAAACTTT
65 AGAATGCAAATGCAAATTCAAACTTT
*
12924043 AAACTCGGATATCACCACCGAAAAGATGCAATTCAAACTTTAATCCTCGGATATCACCACCGAAA
1 AAACTCGGATATCACCATCGAAAAGATGCAATTCAAACTTTAATCCTCGGATATCACCACCGAAA
*
12924108 GAATGCAAATGTAAATTCAAACTTT
66 GAATGCAAATGCAAATTCAAACTTT
* *
12924133 AAACTCGGATATCACCATCAAAAAGATGCAATTGAAAGC-TTAA-CACTCGGATATCACCACCGA
1 AAACTCGGATATCACCATCGAAAAGATGCAATTCAAA-CTTTAATC-CTCGGATATCACCACCGA
12924196 AA-AGATGCAAAT
64 AAGA-ATGCAAAT
12924208 TTTTTTAATA
Statistics
Matches: 150, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
89 5 0.03
90 144 0.96
91 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.13, T:0.22
Consensus pattern (90 bp):
AAACTCGGATATCACCATCGAAAAGATGCAATTCAAACTTTAATCCTCGGATATCACCACCGAAA
GAATGCAAATGCAAATTCAAACTTT
Found at i:12924656 original size:33 final size:34
Alignment explanation
Indices: 12924605--12924692 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 34
12924595 CATTATGATG
* *
12924605 CAAATGTCTTCTCTTAAAATG-A-GGATGCAAATA
1 CAAATGTCTTTTCTTAAAATGAACGCATG-AAATA
* *
12924638 TAAATGTCTTTTCCTAAAATGATACGCATGAAATA
1 CAAATGTCTTTTCTTAAAATGA-ACGCATGAAATA
12924673 CAAATGTCTTTTCTTAAAAT
1 CAAATGTCTTTTCTTAAAAT
12924693 ACTAATACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 18 0.39
35 24 0.52
36 4 0.09
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (34 bp):
CAAATGTCTTTTCTTAAAATGAACGCATGAAATA
Found at i:12929239 original size:5 final size:5
Alignment explanation
Indices: 12929231--12929256 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12929221 TTTTAAGATT
12929231 TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG T
12929257 ATTAGACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:12930861 original size:14 final size:14
Alignment explanation
Indices: 12930844--12930877 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12930834 ATTTTAAATT
*
12930844 ATTATTTTTTATTA
1 ATTATTTTTTATCA
*
12930858 ATTAATTTTTATCA
1 ATTATTTTTTATCA
12930872 ATTATT
1 ATTATT
12930878 GTATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTTTTATCA
Found at i:12932198 original size:24 final size:24
Alignment explanation
Indices: 12932158--12932204 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12932148 AAAATATATC
* *
12932158 ATATTATGATTAGAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
12932181 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
12932205 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:12932394 original size:62 final size:63
Alignment explanation
Indices: 12932328--12932445 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 63
12932318 AACATATAAC
* * *
12932328 TCTATACTGACAATCTTTAACTGTCAGTATAGGTAA-AAAATTAAAATATATAAGTATACAAT
1 TCTATACTGACAATCTTTAACTATCAGTATAGGTAAGAAAATTAAAAAATACAAGTATACAAT
** *
12932390 TCTATACTGACAATCTTTAACTATTGGTATGGGTAAGAAAATTAAAAAATACAAGT
1 TCTATACTGACAATCTTTAACTATCAGTATAGGTAAGAAAATTAAAAAATACAAGT
12932446 CTATACTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
62 32 0.65
63 17 0.35
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (63 bp):
TCTATACTGACAATCTTTAACTATCAGTATAGGTAAGAAAATTAAAAAATACAAGTATACAAT
Found at i:12932577 original size:57 final size:55
Alignment explanation
Indices: 12932482--12932597 Score: 126
Period size: 57 Copynumber: 2.1 Consensus size: 55
12932472 TATAGGTAAG
* * * *
12932482 AAAAATTATAAGTCTATATTGATAAGCGTTAACTGTTGGAATATATAAGAAAAATT
1 AAAAATTATAAGTCTATACTGACAAGCGCTAACTGTTGGAATAGATAAG-AAAATT
* * * *
12932538 AAAAATATATAAGTTTATACTGACAGGCGCTAA-TCGTTGGTATAGGTAAGAAAATT
1 AAAAAT-TATAAGTCTATACTGACAAGCGCTAACT-GTTGGAATAGATAAGAAAATT
12932594 AAAA
1 AAAA
12932598 CATACAAATC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
56 17 0.34
57 33 0.66
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.31
Consensus pattern (55 bp):
AAAAATTATAAGTCTATACTGACAAGCGCTAACTGTTGGAATAGATAAGAAAATT
Found at i:12934583 original size:15 final size:16
Alignment explanation
Indices: 12934563--12934596 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
12934553 ATAGTTTGAA
*
12934563 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
12934578 AATATAAAATAATTAT
1 AATATAAAATAATTAT
12934594 AAT
1 AAT
12934597 TTTGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:12936600 original size:21 final size:21
Alignment explanation
Indices: 12936556--12936619 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
12936546 TCCTATCAAA
12936556 ATATTTTTTATT-TTTT--AT
1 ATATTTTTTATTATTTTAAAT
12936574 CA-ATTTTTTATTATTTTAAAT
1 -ATATTTTTTATTATTTTAAAT
* *
12936595 ATATTTATAATTATTTTAATAT
1 ATATTTTTTATTATTTTAA-AT
12936617 ATA
1 ATA
12936620 ATTTAATAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.26
19 5 0.13
20 1 0.03
21 17 0.45
22 5 0.13
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
ATATTTTTTATTATTTTAAAT
Found at i:12936628 original size:24 final size:21
Alignment explanation
Indices: 12936583--12936624 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
12936573 TCAATTTTTT
12936583 ATTATTTTAAATATATTTATA
1 ATTATTTTAAATATATTTATA
12936604 ATTATTTTAATATATAATTTA
1 ATTATTTTAA-ATAT-ATTTA
12936625 ATAAGAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTTTAAATATATTTATA
Found at i:12936723 original size:24 final size:25
Alignment explanation
Indices: 12936682--12936730 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
12936672 TGAAACAATC
* *
12936682 ATAAGAGTATTTTTGTAATTATAAT
1 ATAAGAGTATTATAGTAATTATAAT
*
12936707 ATAAGA-TATTATAGTAATTTTAAT
1 ATAAGAGTATTATAGTAATTATAAT
12936731 CAATTGTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (25 bp):
ATAAGAGTATTATAGTAATTATAAT
Found at i:12936804 original size:36 final size:36
Alignment explanation
Indices: 12936757--12936834 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
12936747 TATTTTTTAT
* *
12936757 AATTATGGTAGGAGGAGTATTATAAT-ATCTTTAACA
1 AATTATAGTAGGAGGAATATTATAATAAT-TTTAACA
*
12936793 AATTATAGTAGGAGGAATATTATAATAATTTTAATA
1 AATTATAGTAGGAGGAATATTATAATAATTTTAACA
12936829 AATTAT
1 AATTAT
12936835 TGCATAAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 36 0.95
37 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (36 bp):
AATTATAGTAGGAGGAATATTATAATAATTTTAACA
Found at i:12937057 original size:16 final size:16
Alignment explanation
Indices: 12937036--12937093 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
12937026 ATGAGATTAG
12937036 TAATTTAATATGTA-AT
1 TAATTTAATAT-TATAT
*
12937052 TAATTTTATATTATAT
1 TAATTTAATATTATAT
*
12937068 TAAAATTTAATA-TAT-G
1 T--AATTTAATATTATAT
12937084 TAATTTAATA
1 TAATTTAATA
12937094 AAAGTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 9 0.25
15 2 0.06
16 14 0.39
17 3 0.08
18 8 0.22
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TAATTTAATATTATAT
Found at i:12937276 original size:132 final size:130
Alignment explanation
Indices: 12937037--12937277 Score: 301
Period size: 132 Copynumber: 1.8 Consensus size: 130
12937027 TGAGATTAGT
* *
12937037 AATTTAATATGTAATTAATTTTATATTATATTAAAATTTAATATATGTAATTTAATAAAAGTATT
1 AATTTAATATGTAATTAATTTTATATTATATTAAAATTT-ACATATGCAATTTAATAAAAGTATT
* * * **
12937102 ATAGTAATTTTTAAATAAAATACCACATGTAAAATTTTTATGAAATGATGGCAAGACTATTTTAA
65 ATAATAATTTTCAAATAAAATACCACATATAAAATTCCTATGAAATGATGGCAAGACTATTTTAA
12937167 C
130 C
*
12937168 AATTTAATATGTGATTAATTTTATATTGTTATATTAAAATTT-CATATGCACA-TTAA-AAGAAG
1 AATTTAATATGTAATTAATTTTATA---TTATATTAAAATTTACATATGCA-ATTTAATAA-AAG
* *
12937230 TATTATAATAATTTTCAAATAAAATGA-CACATATCAACTTCCTATGAA
61 TATTATAATAATTTTCAAATAAAAT-ACCACATATAAAATTCCTATGAA
12937278 GCAATCATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
131 26 0.28
132 52 0.55
133 2 0.02
134 14 0.15
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (130 bp):
AATTTAATATGTAATTAATTTTATATTATATTAAAATTTACATATGCAATTTAATAAAAGTATTA
TAATAATTTTCAAATAAAATACCACATATAAAATTCCTATGAAATGATGGCAAGACTATTTTAAC
Found at i:12938366 original size:26 final size:25
Alignment explanation
Indices: 12938315--12938367 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
12938305 CTTTGACCAT
* *
12938315 TTATGGTAGGAGGATATTTCAGTAA
1 TTATGATAGGAGGATATTTCAATAA
12938340 TTATGATAGGAAGGATATTAT-AATAA
1 TTATGATAGG-AGGATATT-TCAATAA
12938366 TT
1 TT
12938368 TTAGTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.38
26 14 0.58
27 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.38
Consensus pattern (25 bp):
TTATGATAGGAGGATATTTCAATAA
Found at i:12938639 original size:62 final size:62
Alignment explanation
Indices: 12938519--12938699 Score: 177
Period size: 62 Copynumber: 2.9 Consensus size: 62
12938509 TTAAGTAATT
* * * * **
12938519 AAAAGGGTATTTTTGTCATTATAGCAAAAAG-GTATTATAGTAAATTTGATCAATTATAGT-G
1 AAAA-GGTATTTTTGTAATTATGGTAAAAAGAGTATTATAGTAATTTTGAAAAATTATAGTAG
* * * * *
12938580 TTAGAGGTATTTTTGTAATTATGGTAAGAGGAGTATTATAATAATTTTGAAAAATTATAGTAG
1 -AAAAGGTATTTTTGTAATTATGGTAAAAAGAGTATTATAGTAATTTTGAAAAATTATAGTAG
* * * * **
12938643 AAAAGATATTTTTATAATTATGGTAATAAGAGTGTTATAGTAATTTTGCCAAATTAT
1 AAAAGGTATTTTTGTAATTATGGTAAAAAGAGTATTATAGTAATTTTGAAAAATTAT
12938700 GCTATCAACG
Statistics
Matches: 96, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
61 21 0.22
62 74 0.77
63 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (62 bp):
AAAAGGTATTTTTGTAATTATGGTAAAAAGAGTATTATAGTAATTTTGAAAAATTATAGTAG
Found at i:12939435 original size:58 final size:58
Alignment explanation
Indices: 12939316--12939461 Score: 145
Period size: 58 Copynumber: 2.5 Consensus size: 58
12939306 GCATTTCATT
* * * * *
12939316 ATTTATAAGAGGGGTATTTTTGTCATTTAAGACATAAGAGACATTACAATGATTTGAC
1 ATTTATAAAAGGGGTATTTTTATCATTTAAGAAAAAAGAGACATTACAATAATTTGAC
* * * *
12939374 ATTTATAAAAGTGGTATTTTTATCATTTAAGAAAAAATGAG-TATTATAGTAATTT-ATC
1 ATTTATAAAAGGGGTATTTTTATCATTTAAGAAAAAA-GAGACATTACAATAATTTGA-C
* *
12939432 ATTTA-AAAGAGGGGTATTTCTCTCATTTAA
1 ATTTATAAA-AGGGGTATTTTTATCATTTAA
12939462 TATAGGACGA
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
57 4 0.05
58 66 0.90
59 3 0.04
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (58 bp):
ATTTATAAAAGGGGTATTTTTATCATTTAAGAAAAAAGAGACATTACAATAATTTGAC
Found at i:12942635 original size:11 final size:11
Alignment explanation
Indices: 12942621--12942649 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12942611 TTTATAGATG
12942621 ATATATAAAAA
1 ATATATAAAAA
12942632 ATATATAAAAA
1 ATATATAAAAA
12942643 ATA-ATAA
1 ATATATAA
12942650 TGAGAGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATATATAAAAA
Found at i:12942917 original size:147 final size:148
Alignment explanation
Indices: 12942728--12942995 Score: 448
Period size: 147 Copynumber: 1.8 Consensus size: 148
12942718 TATTCCGTAT
*
12942728 TTACTAGAATTATCTCATAATTATCTTTAAAAAAATCTTGAGAAAGTCAATATTTTTCAAAACAC
1 TTACTAGAATTATCTCATAATTATCTTTAAAAAAATCTTGAGAAAGTCAATATTTTCCAAAACAC
12942793 CCCCTCAAGTTGGCACACAAAAAATTAGAGTGACAAACTTGAAAAAAATTGTAAAAATCAAGATG
66 CCCCTCAAGTTGGCACACAAAAAATTAGAGTGACAAACTTGAAAAAAATTGTAAAAATCAAGATG
12942858 TATTTGATTATTATCTAA
131 TATTTGATTATTATCTAA
* * * *
12942876 TTACTATAATTA-CTTATAATTGTCTTTAAAAAAATCTTGAGAAAGTCAATATTTTCCAAAACAT
1 TTACTAGAATTATCTCATAATTATCTTTAAAAAAATCTTGAGAAAGTCAATATTTTCCAAAACAC
* ***
12942940 CCCCTCAAGTTGGCACACAAAAAATTAGAGTGATAAACTTGATGGAAATTGTAAAA
66 CCCCTCAAGTTGGCACACAAAAAATTAGAGTGACAAACTTGAAAAAAATTGTAAAA
12942996 GTTGAGATTT
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
147 100 0.90
148 11 0.10
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (148 bp):
TTACTAGAATTATCTCATAATTATCTTTAAAAAAATCTTGAGAAAGTCAATATTTTCCAAAACAC
CCCCTCAAGTTGGCACACAAAAAATTAGAGTGACAAACTTGAAAAAAATTGTAAAAATCAAGATG
TATTTGATTATTATCTAA
Found at i:12943833 original size:109 final size:109
Alignment explanation
Indices: 12943642--12943858 Score: 319
Period size: 109 Copynumber: 2.0 Consensus size: 109
12943632 TGAAAATGAG
* * *
12943642 TAAGAGATAAGGCAAGAAGACAAGAACTCAAAAAAATGTGATTCGACCATGATGGCTTACATTAA
1 TAAGAGAAAAGGCAAGAAGACAAGAACTCAAAAAAATGTGATTCGACCATGATGCCTTACATCAA
* *
12943707 CGGAAGAAAAGCTTAAAGGGTTAC-ATTGTTAATTTTATGGCTTT
66 CGGAAGAAAAGCCTAAAGGGTTACAATT-TTAATATTATGGCTTT
* * * **
12943751 TAAGAGAAAAGGTAAGAAGACAAGAACTCAAAAAAATGTGATTTGGCCATTTTGCCTTACATCAA
1 TAAGAGAAAAGGCAAGAAGACAAGAACTCAAAAAAATGTGATTCGACCATGATGCCTTACATCAA
*
12943816 CGGAAGAAAAGCCTAAAGGGTTACAATTTTAATATTCTGGCTT
66 CGGAAGAAAAGCCTAAAGGGTTACAATTTTAATATTATGGCTT
12943859 CTAGGATTGC
Statistics
Matches: 96, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 93 0.97
110 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (109 bp):
TAAGAGAAAAGGCAAGAAGACAAGAACTCAAAAAAATGTGATTCGACCATGATGCCTTACATCAA
CGGAAGAAAAGCCTAAAGGGTTACAATTTTAATATTATGGCTTT
Found at i:12944172 original size:10 final size:10
Alignment explanation
Indices: 12944159--12944201 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
12944149 TTGAACTAAA
12944159 TTATATATTT
1 TTATATATTT
12944169 TTAT-TAGTTT
1 TTATATA-TTT
12944179 TTATATATTT
1 TTATATATTT
12944189 TT-TA-ATTT
1 TTATATATTT
12944197 TTATA
1 TTATA
12944202 AAAAAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 6 0.20
9 6 0.20
10 16 0.53
11 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTATATATTT
Found at i:12944197 original size:18 final size:20
Alignment explanation
Indices: 12944159--12944201 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
12944149 TTGAACTAAA
*
12944159 TTATATATTTTTATTAGTTT
1 TTATATATTTTTATTAATTT
12944179 TTATATA-TTTT-TTAATTT
1 TTATATATTTTTATTAATTT
12944197 TTATA
1 TTATA
12944202 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 4 0.18
20 7 0.32
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATATATTTTTATTAATTT
Found at i:12944624 original size:2 final size:2
Alignment explanation
Indices: 12944617--12944642 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12944607 GTCTCAAATC
12944617 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
12944643 TACAATATAC
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):
AT
Found at i:12946156 original size:29 final size:29
Alignment explanation
Indices: 12946121--12946187 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
12946111 AATTAAATGT
* *
12946121 ATTTATTTTAATTAGTTTAACTGAATTAA
1 ATTTATTTTAATTAGGTTAACTAAATTAA
*
12946150 ATTTATTTTAATTAGGTTAATTAAATTAA
1 ATTTATTTTAATTAGGTTAACTAAATTAA
*
12946179 ATGTATTTT
1 ATTTATTTT
12946188 CTCAATTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.54
Consensus pattern (29 bp):
ATTTATTTTAATTAGGTTAACTAAATTAA
Found at i:12946848 original size:17 final size:19
Alignment explanation
Indices: 12946814--12946852 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
12946804 TTGTTTACCT
*
12946814 TATTATATATATATATATA
1 TATTATATATACATATATA
12946833 TATTATAT-TACA-ATATA
1 TATTATATATACATATATA
12946850 TAT
1 TAT
12946853 AATTACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 3 0.16
19 8 0.42
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATATATACATATATA
Found at i:12947617 original size:28 final size:30
Alignment explanation
Indices: 12947571--12947627 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 30
12947561 AAATATAGAT
12947571 ATAAAAAAATGTCATATTT-ATATGAAAATTA
1 ATAAAAAAATGT-ATATTTAATAT-AAAATTA
12947602 ATAAAAAAAT-T-TATTTAATATAAAAT
1 ATAAAAAAATGTATATTTAATATAAAAT
12947628 GATAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 10 0.40
29 4 0.16
30 1 0.04
31 10 0.40
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (30 bp):
ATAAAAAAATGTATATTTAATATAAAATTA
Found at i:12948441 original size:18 final size:18
Alignment explanation
Indices: 12948414--12948448 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12948404 TATCCTTTTA
*
12948414 AAAAATCATCTTAAAATT
1 AAAAAGCATCTTAAAATT
12948432 AAAAAGCATCTTAAAAT
1 AAAAAGCATCTTAAAAT
12948449 GTATTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAGCATCTTAAAATT
Found at i:12948532 original size:12 final size:13
Alignment explanation
Indices: 12948510--12948534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12948500 ATTTTAGGCT
12948510 TTTTTTAAAAAAC
1 TTTTTTAAAAAAC
12948523 TTTTTTAAAAAA
1 TTTTTTAAAAAA
12948535 ATAAACTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTTTAAAAAAC
Found at i:12948740 original size:28 final size:27
Alignment explanation
Indices: 12948706--12948787 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
12948696 TACTATTAAT
12948706 TTTTAAAAAATAATATTAATTGAATTTA
1 TTTT-AAAAATAATATTAATTGAATTTA
* *
12948734 TTTTAAAGATAATATTATTTTGAATTTA
1 TTTTAAAAATAATATTA-ATTGAATTTA
*
12948762 TTTTTAAAAA-AATATTAATTCAATTT
1 -TTTTAAAAATAATATTAATTGAATTT
12948788 TTATGAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.40
28 20 0.43
29 8 0.17
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTTAAAAATAATATTAATTGAATTTA
Found at i:12948843 original size:17 final size:17
Alignment explanation
Indices: 12948821--12948853 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12948811 TGTTTAAAAT
*
12948821 TAATTTTCAATATTTAC
1 TAATTTTAAATATTTAC
12948838 TAATTTTAAATATTTA
1 TAATTTTAAATATTTA
12948854 ACAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTTTAAATATTTAC
Found at i:12949206 original size:23 final size:21
Alignment explanation
Indices: 12949178--12949222 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
12949168 AATTCTAAAT
*
12949178 AATTAACAAATTTGATTTTTTTA
1 AATTAA-AAACTT-ATTTTTTTA
*
12949201 AATTAAAACCTTATTTTTTTA
1 AATTAAAAACTTATTTTTTTA
12949222 A
1 A
12949223 GAAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 4 0.20
23 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTAAAAACTTATTTTTTTA
Found at i:12949622 original size:19 final size:19
Alignment explanation
Indices: 12949598--12949636 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12949588 TCTATATTGT
12949598 CACATCATAAGGTTAATGC
1 CACATCATAAGGTTAATGC
12949617 CACATCATAAGGTTAATGC
1 CACATCATAAGGTTAATGC
12949636 C
1 C
12949637 TAGGTCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (19 bp):
CACATCATAAGGTTAATGC
Found at i:12950971 original size:21 final size:21
Alignment explanation
Indices: 12950945--12950992 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
12950935 TGGATACCAT
*
12950945 TGGATATTTATACACATGGAA
1 TGGATATTTATACACACGGAA
12950966 TGGATATTTATACACACGGAA
1 TGGATATTTATACACACGGAA
*
12950987 AGGATA
1 TGGATA
12950993 CCATTGGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (21 bp):
TGGATATTTATACACACGGAA
Found at i:12952862 original size:3 final size:3
Alignment explanation
Indices: 12952851--12952889 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
12952841 AAAAAATGCA
*
12952851 AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12952890 TTAGTAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12953886 original size:3 final size:3
Alignment explanation
Indices: 12953878--12953908 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12953868 TTCTATTTCA
12953878 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12953909 TTACATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12954056 original size:11 final size:11
Alignment explanation
Indices: 12954040--12954076 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
12954030 CTTGAAAAAT
*
12954040 AAAAAATTTTA
1 AAAAAATTATA
12954051 AAAAAATTAT-
1 AAAAAATTATA
12954061 AAAAAATTATA
1 AAAAAATTATA
12954072 AAAAA
1 AAAAA
12954077 TCAACTGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:12954064 original size:9 final size:10
Alignment explanation
Indices: 12954038--12954077 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
12954028 AACTTGAAAA
12954038 ATAAAAAATT
1 ATAAAAAATT
*
12954048 TTAAAAAAATT
1 AT-AAAAAATT
12954059 ATAAAAAATT
1 ATAAAAAATT
12954069 ATAAAAAAT
1 ATAAAAAAT
12954078 CAACTGGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:12956246 original size:32 final size:29
Alignment explanation
Indices: 12956210--12956293 Score: 107
Period size: 28 Copynumber: 2.8 Consensus size: 29
12956200 TAGTTTTTGG
*
12956210 TTTTTCTTTTTTCTTGATTTTTTTGG-TT
1 TTTTTTTTTTTTCTTGATTTTTTTGGTTT
**
12956238 TTCCTTTTTTTTCTTGATTTTTTTTGGTTTT
1 TTTTTTTTTTTTCTTGA-TTTTTTTGG-TTT
12956269 TTCTTTTTTTTTTCTTGATTTTTTT
1 TT-TTTTTTTTTTCTTGATTTTTTT
12956294 TTAAAGTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.30
29 9 0.19
31 11 0.23
32 13 0.28
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTTTTCTTGATTTTTTTGGTTT
Found at i:12956294 original size:32 final size:30
Alignment explanation
Indices: 12956211--12956294 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 30
12956201 AGTTTTTGGT
12956211 TTTTCTTTTTTCTTGA-TTTTTTTGGTTTTC
1 TTTT-TTTTTTCTTGATTTTTTTTGGTTTTC
*
12956241 -CTTTTTTTTCTTGATTTTTTTTGGTTTTTTC
1 TTTTTTTTTTCTTGATTTTTTTTGG--TTTTC
12956272 TTTTTTTTTTCTTGATTTTTTTT
1 TTTTTTTTTTCTTGATTTTTTTT
12956295 TAAAGTTGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
28 11 0.23
29 11 0.23
31 5 0.10
32 21 0.44
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (30 bp):
TTTTTTTTTTCTTGATTTTTTTTGGTTTTC
Found at i:12956645 original size:105 final size:103
Alignment explanation
Indices: 12956460--12956883 Score: 431
Period size: 105 Copynumber: 4.0 Consensus size: 103
12956450 AGGGTTGAAA
* * * * * *
12956460 GTCTTATAAATCTTGATATCTTTGAATGTTTTTTCAATCAGAA-GCATTGAAACTTTAAAAATTT
1 GTCTTACAAATCTCGACATCTTTGAATGTTTCTCCAATTA-AAGGCATTGAAACTTTAAAAATTT
** *
12956524 AAAATGTTTTGTCTTGAGGACTTGGAGATTATACCTTGAG
65 AAAATGTTTTACCTAGAGGACTTGGAGATTAT-CCTTGAG
* * * * *
12956564 ATCTTACAGATCTCGACATCTTTGAATGTTTCTCACAATTAGAGGCATTGAAACTTTGAAATTTT
1 GTCTTACAAATCTCGACATCTTTGAATGTTTCTC-CAATTAAAGGCATTGAAACTTTAAAAATTT
* * * * * *
12956629 AAAATATTTTGCCTTGAGGTCTTTAGAGATTATGCTTGGAG
65 AAAATGTTTTACCTAGAGGAC-TTGGAGATTATCCTT-GAG
* ** *
12956670 GTCTTACAAATCTTGACATCTTTGAATACTCCTCCTAATTAAAGGCATTGAAACTTTAAAAATTT
1 GTCTTACAAATCTCGACATCTTTGAATGTTTCTCC-AATTAAAGGCATTGAAACTTTAAAAATTT
* * *
12956735 AAAATGTTTTACCTAGA-GATCTTGAAGATTATGTCTGGAG
65 AAAATGTTTTACCTAGAGGA-CTTGGAGATTAT-CCTTGAG
* * * *
12956775 GTCTTACAAATCTCAACATCTTTGAATGCTCTTC-CTAATTAAAGGCATTAAAACTTTGAAAATT
1 GTCTTACAAATCTCGACATCTTTGAATG-T-TTCTCCAATTAAAGGCATTGAAACTTTAAAAATT
* **
12956839 TAAAATGTTTTACCTAGAGGTCTTGGAGATTATCCCAGAG
64 TAAAATGTTTTACCTAGAGGACTTGGAGATTATCCTTGAG
12956879 GTCTT
1 GTCTT
12956884 GAAGATTATG
Statistics
Matches: 264, Mismatches: 46, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
104 37 0.14
105 139 0.53
106 86 0.33
107 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (103 bp):
GTCTTACAAATCTCGACATCTTTGAATGTTTCTCCAATTAAAGGCATTGAAACTTTAAAAATTTA
AAATGTTTTACCTAGAGGACTTGGAGATTATCCTTGAG
Found at i:12956710 original size:106 final size:105
Alignment explanation
Indices: 12956503--12956871 Score: 449
Period size: 105 Copynumber: 3.5 Consensus size: 105
12956493 TCAATCAGAA
** * * * * *
12956503 GCATTGAAACTTTAAAAATTTAAAATGTTTTGTCTTGAGGACTTGGAGATTATACCTT-GAGATC
1 GCATTGAAACTTTAAAAATTTAAAATGTTTTACCTAGAGGTCTTAGAGATTAT-GCTTGGAGGTC
* * * *
12956567 TTACAGATCTCGACATCTTTGAATGTTTCTCAC-AATTAGAG
65 TTACAAATCTCGACATCTTTGAATGCTCCTC-CTAATTAAAG
* * * * *
12956608 GCATTGAAACTTTGAAATTTTAAAATATTTTGCCTTGAGGTCTTTAGAGATTATGCTTGGAGGTC
1 GCATTGAAACTTTAAAAATTTAAAATGTTTTACCTAGAGGTC-TTAGAGATTATGCTTGGAGGTC
* *
12956673 TTACAAATCTTGACATCTTTGAATACTCCTCCTAATTAAAG
65 TTACAAATCTCGACATCTTTGAATGCTCCTCCTAATTAAAG
*
12956714 GCATTGAAACTTTAAAAATTTAAAATGTTTTACCTAGAGATCTT-GAAGATTATG-TCTGGAGGT
1 GCATTGAAACTTTAAAAATTTAAAATGTTTTACCTAGAGGTCTTAG-AGATTATGCT-TGGAGGT
* *
12956777 CTTACAAATCTCAACATCTTTGAATGCTCTTCCTAATTAAAG
64 CTTACAAATCTCGACATCTTTGAATGCTCCTCCTAATTAAAG
* * *
12956819 GCATTAAAACTTTGAAAATTTAAAATGTTTTACCTAGAGGTCTTGGAGATTAT
1 GCATTGAAACTTTAAAAATTTAAAATGTTTTACCTAGAGGTCTTAGAGATTAT
12956872 CCCAGAGGTC
Statistics
Matches: 231, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
104 2 0.01
105 144 0.62
106 85 0.37
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (105 bp):
GCATTGAAACTTTAAAAATTTAAAATGTTTTACCTAGAGGTCTTAGAGATTATGCTTGGAGGTCT
TACAAATCTCGACATCTTTGAATGCTCCTCCTAATTAAAG
Found at i:12957266 original size:22 final size:21
Alignment explanation
Indices: 12957232--12957316 Score: 53
Period size: 22 Copynumber: 3.8 Consensus size: 21
12957222 GGGTACTAAC
*
12957232 TAATCTGACCTTAGGTGCCAAT
1 TAATCTG-GCTTAGGTGCCAAT
* * * *
12957254 TAATCTAGGCTTAAAGTACCGAG
1 TAATCT-GGCTT-AGGTGCCAAT
*
12957277 TAATCTGGACTTAGGTGCCAGT
1 TAATCTGG-CTTAGGTGCCAAT
* *
12957299 TGATCTGGGTTTAGGTGC
1 TAATCT-GGCTTAGGTGC
12957317 TAGCTAAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
22 29 0.62
23 18 0.38
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (21 bp):
TAATCTGGCTTAGGTGCCAAT
Found at i:12958020 original size:17 final size:17
Alignment explanation
Indices: 12958006--12958039 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
12957996 TTTCTTTTGT
*
12958006 TTTTTGTTTTTTTTTTC
1 TTTTTATTTTTTTTTTC
12958023 TTTTTATTTTTTCTTTT
1 TTTTTATTTTTT-TTTT
12958040 GCAACATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTATTTTTTTTTTC
Found at i:12958709 original size:8 final size:8
Alignment explanation
Indices: 12958696--12958726 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
12958686 CTGAAAATTA
12958696 TTTTTTAT
1 TTTTTTAT
12958704 TTTTTTATT
1 TTTTTTA-T
12958713 TTTTTTAT
1 TTTTTTAT
12958721 TTTTTT
1 TTTTTT
12958727 TGCAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:12958716 original size:10 final size:9
Alignment explanation
Indices: 12958696--12958727 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
12958686 CTGAAAATTA
12958696 TTTTTTA-T
1 TTTTTTATT
12958704 TTTTTTATT
1 TTTTTTATT
12958713 TTTTTTATT
1 TTTTTTATT
12958722 TTTTTT
1 TTTTTT
12958728 GCAAAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTATT
Found at i:12959033 original size:5 final size:5
Alignment explanation
Indices: 12959025--12959067 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
12959015 AAATGAGCTA
12959025 AAAAT AAAAT AAAAT AGAAAT -AAA- AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAA
12959068 AAGAAACCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 6 0.17
5 25 0.71
6 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:12959054 original size:19 final size:18
Alignment explanation
Indices: 12959030--12959069 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
12959020 AGCTAAAAAT
12959030 AAAATAAAATAGAAATAAA
1 AAAATAAAATA-AAATAAA
12959049 AAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAA
12959067 AAA
1 AAA
12959070 GAAACCTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:12960446 original size:3 final size:3
Alignment explanation
Indices: 12960438--12960470 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
12960428 TTAAGTATAT
*
12960438 TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12960471 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:12960500 original size:22 final size:22
Alignment explanation
Indices: 12960438--12960524 Score: 65
Period size: 22 Copynumber: 4.0 Consensus size: 22
12960428 TTAAGTATAT
*
12960438 TAATAATAAT-AATAA-TAATAA
1 TAATAAAAATAAATAATTAA-AA
*
12960459 TAATAAAAATAAATATTTAAAA
1 TAATAAAAATAAATAATTAAAA
*
12960481 TATATAAAATTAAA-AATTAAATA
1 TA-ATAAAAATAAATAATTAAA-A
* * *
12960504 AAATTAAAA-AAATAATAAAAA
1 TAATAAAAATAAATAATTAAAA
12960525 AAAGAAGGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
21 13 0.25
22 25 0.47
23 15 0.28
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAAAAATAAATAATTAAAA
Found at i:12960504 original size:17 final size:16
Alignment explanation
Indices: 12960465--12960523 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
12960455 ATAATAATAA
*
12960465 AAATAAATATTTAAAAT
1 AAATAAA-ATTAAAAAT
*
12960482 ATATAAAATTAAAAATT
1 AAATAAAATTAAAAA-T
*
12960499 AAATAAAATTAAAAAA
1 AAATAAAATTAAAAAT
12960515 ATAATAAAA
1 A-AATAAAA
12960524 AAAAGAAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAATTAAAAAT
Found at i:12960523 original size:9 final size:9
Alignment explanation
Indices: 12960439--12960524 Score: 54
Period size: 9 Copynumber: 9.2 Consensus size: 9
12960429 TAAGTATATT
*
12960439 AATAATAAT
1 AATAATAAA
*
12960448 AATAATAAT
1 AATAATAAA
12960457 AATAATAAA
1 AATAATAAA
12960466 AATAAATATTTAA
1 AAT-AATA---AA
12960479 AAT-ATATAA
1 AATAATA-AA
12960488 AAT--TAAA
1 AATAATAAA
12960495 AATTAAATAAA
1 AA-T-AATAAA
*
12960506 ATTAA-AAA
1 AATAATAAA
12960514 AATAATAAA
1 AATAATAAA
12960523 AA
1 AA
12960525 AAAGAAGGGA
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
7 4 0.06
8 10 0.15
9 33 0.51
10 5 0.08
11 8 0.12
13 5 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AATAATAAA
Found at i:12960624 original size:23 final size:23
Alignment explanation
Indices: 12960576--12960624 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12960566 CCGCTGCCAC
* *
12960576 CCCCCTGTCAGCCTCTCGACTAG
1 CCCCCTATCAGCCTCTCGACCAG
* *
12960599 CCCCCTATCAGCCTCTTGACCGG
1 CCCCCTATCAGCCTCTCGACCAG
12960622 CCC
1 CCC
12960625 TCTAACGCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.12, C:0.51, G:0.16, T:0.20
Consensus pattern (23 bp):
CCCCCTATCAGCCTCTCGACCAG
Found at i:12961647 original size:23 final size:22
Alignment explanation
Indices: 12961621--12961664 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12961611 TTTTTATTAT
*
12961621 TTTATATTTATGCATGATAAATG
1 TTTAAATTTAT-CATGATAAATG
*
12961644 TTTAAATTTATTATGATAAAT
1 TTTAAATTTATCATGATAAAT
12961665 ATCTAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTAAATTTATCATGATAAATG
Found at i:12962028 original size:17 final size:16
Alignment explanation
Indices: 12962008--12962061 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
12961998 CTAAGTTTTT
12962008 AAAACCCCTAAAAATCC
1 AAAACCCCT-AAAATCC
* *
12962025 AAAATCCCCTAAGATTC
1 AAAA-CCCCTAAAATCC
*
12962042 AAAACCTCTTAAAATCC
1 AAAACC-CCTAAAATCC
12962059 AAA
1 AAA
12962062 GTCCTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.07
17 23 0.77
18 5 0.17
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:12973501 original size:9 final size:8
Alignment explanation
Indices: 12973486--12973549 Score: 53
Period size: 8 Copynumber: 8.0 Consensus size: 8
12973476 ATATTTTGCC
12973486 TAAAAAAA
1 TAAAAAAA
*
12973494 T-GAAAAA
1 TAAAAAAA
*
12973501 -AAAAATA
1 TAAAAAAA
*
12973508 CAAAAAAA
1 TAAAAAAA
12973516 TGAAAAAAAA
1 T--AAAAAAA
12973526 TAAAAAAA
1 TAAAAAAA
12973534 -ACAAAAAA
1 TA-AAAAAA
12973542 TAAAAAAA
1 TAAAAAAA
12973550 AGAGAGAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 10 0.22
8 26 0.58
9 1 0.02
10 8 0.18
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.09
Consensus pattern (8 bp):
TAAAAAAA
Found at i:12973530 original size:16 final size:16
Alignment explanation
Indices: 12973520--12973550 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12973510 AAAAAATGAA
12973520 AAAAAATAAAAAAAAC
1 AAAAAATAAAAAAAAC
12973536 AAAAAATAAAAAAAA
1 AAAAAATAAAAAAAA
12973551 GAGAGAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAATAAAAAAAAC
Found at i:12973534 original size:22 final size:22
Alignment explanation
Indices: 12973487--12973534 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 22
12973477 TATTTTGCCT
*
12973487 AAAAAAATGAAAAAAAAAATAC
1 AAAAAAATGAAAAAAAAAATAA
12973509 AAAAAAATG--AAAAAAAATAA
1 AAAAAAATGAAAAAAAAAATAA
12973529 AAAAAA
1 AAAAAA
12973535 CAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.64
22 9 0.36
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.08
Consensus pattern (22 bp):
AAAAAAATGAAAAAAAAAATAA
Found at i:12973546 original size:22 final size:20
Alignment explanation
Indices: 12973486--12973547 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
12973476 ATATTTTGCC
**
12973486 TAAAAAAATGAAAAAAAAAA
1 TAAAAAAAAAAAAAAAAAAA
* **
12973506 TACAAAAAAATGAAAAAAAA
1 TAAAAAAAAAAAAAAAAAAA
12973526 TAAAAAAAACAAAAAATAAAAA
1 TAAAAAAAA-AAAAAA-AAAAA
12973548 AAAGAGAGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 23 0.72
21 4 0.12
22 5 0.16
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.10
Consensus pattern (20 bp):
TAAAAAAAAAAAAAAAAAAA
Found at i:12973550 original size:9 final size:9
Alignment explanation
Indices: 12973498--12973550 Score: 65
Period size: 10 Copynumber: 5.9 Consensus size: 9
12973488 AAAAAATGAA
12973498 AAAAAAAAT
1 AAAAAAAAT
12973507 ACAAAAAAAT
1 A-AAAAAAAT
12973517 GAAAAAAAAT
1 -AAAAAAAAT
12973527 -AAAAAAA-
1 AAAAAAAAT
*
12973534 ACAAAAAAT
1 AAAAAAAAT
12973543 AAAAAAAA
1 AAAAAAAA
12973551 GAGAGAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 13 0.34
9 8 0.21
10 16 0.42
11 1 0.03
ACGTcount: A:0.87, C:0.04, G:0.02, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:12974756 original size:73 final size:73
Alignment explanation
Indices: 12974577--12976354 Score: 1549
Period size: 74 Copynumber: 24.6 Consensus size: 73
12974567 TATATTTTTT
* * *** *
12974577 TGACTTGCAGTTCAGTCCCAGTCATCTTTAATCTTTGGCTCACAGTTTAATCCCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* *
12974642 TTATTCCC
66 TAATTTCC
* * ** * * *
12974650 TCGACTTGCGATTTAGTCTTAGTCATCTTTAATTTTTGACTCGCGGTTTAATCCC-AGTCATATC
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTTC
12974714 ATTAATTTCC
64 ATTAATTTCC
* * * * *
12974724 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATTTTTGACTCGCGATTTAATCTCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
**
12974789 TAATTTTT
66 TAATTTCC
* * * * * * * * * * *
12974797 TGACTTGTGGTTTAGGCCTAGTCATCTCTAATTTTTGACTTGCGATTTAATCTCGGTCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
12974862 TAATTCCC
66 TAATTTCC
* * * ****
12974870 TCGACTTACGATTCAGTCCCAGTCATCTTTAATCCTTGACTCACAATTTAATCCCGATCATTTCA
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
12974935 TTAA-TTCT
65 TTAATTTCC
** * * ** ** * *
12974943 TCGACTTATGGTTCAATCCTAGTCATCTTTAATCTTTGGTTCACGGTTTAATCCCGGTCGTTTCA
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
12975008 TTAATTCCC
65 TTAATTTCC
* * * * * *
12975017 TCGACTTACGGTTTAGTCCTAATCATCTTTAATTTTTGACTCGTGGTTTAATCTCGATCATTTCA
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
12975082 TT-A---CC
65 TTAATTTCC
* * * * * * * *
12975087 CGACTTACGGTTTAATCCTAGTCGTCTTT-ATCTTTTGACTCGTGGTTTAATTCTGATCATTTCA
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATC-TTTGACTCGTGGTTTAATCCCGATCATTTCA
*
12975151 -T--TCTCC
65 TTAATTTCC
* * ** * * * *
12975157 -GACTTACGGTTCAGTCCTAGTTGTCTTTAATCTTTGACTCATAGTTTAATCTCGTTCA-TT--T
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
12975218 T-A-TTCTC
66 TAATTTC-C
* * * * * * *
12975225 TGACTTGCAGTTCAGTCCCAATCATATTTATTCTTTGGCTCGCGGTTTAATCTCGATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
12975290 TAATTTTC
66 TAATTTCC
* * * * * *
12975298 AGACTTACAGTTCACTCCTAGTCATCTTTATTCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
12975363 TAATTTCCC
66 TAATTT-CC
* * * * * * *
12975372 TGACTTGCAGTTTAGTCTCAGTCATCTTTAATCTTTGGCTCGTAGTTTAATTCCGGTCA-TT--T
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
12975434 T-A-TTGC
66 TAATTTCC
* * * *
12975440 TCGACTTACGGTTCAATCCTAGTCATCTTT-ATCCTTTGACTTGTGGTTTAATCCCGATCATTTC
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGATCATTTC
*
12975504 A-T--TCTCC
64 ATTAATTTCC
* * * *
12975511 -GACTTGTGGTTCAGTCCCAGTCGTCTTTAATCCTTGACTCGTGGTTTAATCCAGATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
12975575 TAA-TTCTT
66 TAATTTC-C
* * * * * * *
12975583 TGACTTGCGATTCAATCCCAGTCATTTTTAATCTTTGACTCATGGTTTAATCTCGGTCATTTTAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
12975648 TAATTTTC
66 TAATTTCC
** * * * * * * * * *
12975656 TGACTTATGATTTAGACCCAGTCATCTTTAATTTTTAACTCGTAGTTTAATCCTGGTTATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
12975721 TAATTTCC
66 TAATTTCC
* * *
12975729 TCGACTTGTC-GTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATTATTTC
1 T-GACTTG-CGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
*
12975793 A-T--TCT-C
64 ATTAATTTCC
** * * * *
12975799 TGACTTGTAGTTTAGT-CCAATCGTCTTTAATCCTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
12975863 TAACTCTT-C
66 TAA-T-TTCC
* *
12975872 -GACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
12975936 TAATTTCC
66 TAATTTCC
* * * * * * **
12975944 TGACTTGTGGTTTAGACCTAGTCATCTTTAATTTTTGACTCGTGGTTTAATCCCGGTTGTTTCAT
1 TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
12976009 TAATTCCC
66 TAATTTCC
* * * * * *
12976017 TCGACTTACGGTTCAATTCCAGTCATCTTTAATTTTTGACTCGCGATTTAATCCCGATCATTTCA
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
12976082 TTAATTTTCT
65 TTAA-TTTCC
** * * ** *
12976092 TGACTTATGGTTCAATCTC-GATCATCTTTAATCTTTGACTCGTGGTTTAATCTTGGTCATTTCA
1 TGACTTGCGGTTCAGTCCCAG-TCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
12976156 TTAATTTTC
65 TTAATTTCC
* * * * *
12976165 TCGATTTGCGGTTCAGTCTCAGTCATCTTTAATTTTTGACTCGCGGTTTAATCTCGATCATTTCA
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
12976230 TTAATTTCC
65 TTAATTTCC
* *
12976239 TCGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTTGTGGTTTAATCCCGGTCATTTCA
1 T-GACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
*
12976304 TTAATTCCC
65 TTAATTTCC
* * *
12976313 TTGACTTGCGGTTCTGTCTCAGTCATCTTTAATCGTTGACTC
1 -TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTC
12976355 ACGGTGTCGT
Statistics
Matches: 1392, Mismatches: 263, Indels: 99
0.79 0.15 0.06
Matches are distributed among these distances:
67 3 0.00
68 52 0.04
69 253 0.18
70 17 0.01
71 11 0.01
72 15 0.01
73 487 0.35
74 548 0.39
75 6 0.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (73 bp):
TGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
TAATTTCC
Found at i:12974876 original size:147 final size:147
Alignment explanation
Indices: 12974586--12976354 Score: 1625
Period size: 147 Copynumber: 12.2 Consensus size: 147
12974576 TTGACTTGCA
* *** * * **
12974586 GTTCAGTCCCAGTCATCTTTAATCTTTGGCTCACAGTTTAATCCCGGTCATTTCATTTATTCCCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
* * * * * *
12974651 CGACTTGCGATTTAGTCTTAGTCATCTTTAATTTTTGACTCGCGGTTTAATCCCAGTCATATCAT
66 -GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCAT
* *
12974716 TAATTTCCT-GACTTGCG
130 TAATTCCCTCGACTTACG
* * * * * *
12974733 GTTCAGTCCCAGTCATCTTTAATTTTTGACTCGCGATTTAATCTCGGTCATTTCATTAATTTTTT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
* * * * * *
12974798 GACTTGTGGTTTAGGCCTAGTCATCTCTAATTTTTGACTTGCGATTTAATCTCGGTCATTTCATT
66 GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT
12974863 AATTCCCTCGACTTACG
131 AATTCCCTCGACTTACG
* * ****
12974880 ATTCAGTCCCAGTCATCTTTAATCCTTGACTCACAATTTAATCCCGATCATTTCATTAATTCTTC
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATT-TTC
* * * ** * *
12974945 -GACTTATGGTTCAATCCTAGTCATCTTTAATCTTTGGTTCACGGTTTAATCCCGGTCGTTTCAT
65 TGACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCAT
12975009 TAATTCCCTCGACTTACG
130 TAATTCCCTCGACTTACG
* * * * * * *
12975027 GTTTAGTCCTAATCATCTTTAATTTTTGACTCGTGGTTTAATCTCGATCATTTCATT-A---CCC
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
** * * * * * *
12975088 GACTTACGGTTTAATCCTAGTCGTCTTT-ATCTTTTGACTCGTGGTTTAATTCTGATCATTTC--
66 GACTTGTGGTTTAGTCCTAGTCATCTTTAATC-TTTGACTCGCGGTTTAATCCCGGTCATTTCAT
*
12975150 --ATTCTC-CGACTTACG
130 TAATTCCCTCGACTTACG
* ** * * * * *
12975165 GTTCAGTCCTAGTTGTCTTTAATCTTTGACTCATAGTTTAATCTCGTTCA-TT--TT-ATTCTCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
** * * * * * * * *
12975226 GACTTGCAGTTCAGTCCCAATCATATTTATTCTTTGGCTCGCGGTTTAATCTCGATCATTTCATT
66 GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT
* *
12975291 AATT--TTCAGACTTACA
131 AATTCCCTC-GACTTACG
* * * *
12975307 GTTCACTCCTAGTCATCTTTATTCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTCCC
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTT-TC
** * ** *
12975372 TGACTTGCAGTTTAGT-CTCAGTCATCTTTAATCTTTGGCTCGTAGTTTAATTCCGGTCA-TT--
65 TGACTTGTGGTTTAGTCCT-AGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCA
*
12975433 TT-ATT-GCTCGACTTACG
129 TTAATTCCCTCGACTTACG
* * * *
12975450 GTTCAATCCTAGTCATCTTT-ATCCTTTGACTTGTGGTTTAATCCCGATCATTTC----ATTCTC
1 GTTCAGTCCCAGTCATCTTTAAT-CTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTC
* * * * * * * *
12975510 CGACTTGTGGTTCAGTCCCAGTCGTCTTTAATCCTTGACTCGTGGTTTAATCCAGATCATTTCAT
65 TGACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCAT
* * *
12975575 TAATT-CTTTGACTTGCG
130 TAATTCCCTCGACTTACG
* * * * * * *
12975592 ATTCAATCCCAGTCATTTTTAATCTTTGACTCATGGTTTAATCTCGGTCATTTTATTAATTTTCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
* * * * * * ** * *
12975657 GACTTATGATTTAGACCCAGTCATCTTTAATTTTTAACTCGTAGTTTAATCCTGGTTATTTCATT
66 GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT
* *
12975722 AATTTCCTCGACTTGTC-
131 AATTCCCTCGACTT-ACG
* * * *
12975739 GTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCTGATTATTTC----ATTCTCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
* * * * * *
12975800 GACTTGTAGTTTAGTCC-AATCGTCTTTAATCCTTGACTCGTGGTTTAATCCCGATCATTTCATT
66 GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT
* *
12975864 AACT-CTTCGACTTACG
131 AATTCCCTCGACTTACG
* *
12975880 GTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTCCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
* * * **
12975945 GACTTGTGGTTTAGACCTAGTCATCTTTAATTTTTGACTCGTGGTTTAATCCCGGTTGTTTCATT
66 GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT
12976010 AATTCCCTCGACTTACG
131 AATTCCCTCGACTTACG
* * * * *
12976027 GTTCAATTCCAGTCATCTTTAATTTTTGACTCGCGATTTAATCCCGATCATTTCATTAATTTTCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTC-
* * * * * **
12976092 TGACTTATGGTTCAAT-CTCGATCATCTTTAATCTTTGACTCGTGGTTTAATCTTGGTCATTTCA
65 TGACTTGTGGTTTAGTCCTAG-TCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCA
** * *
12976156 TTAATTTTCTCGATTTGCG
129 TTAATTCCCTCGACTTACG
* * * * *
12976175 GTTCAGTCTCAGTCATCTTTAATTTTTGACTCGCGGTTTAATCTCGATCATTTCATTAATTTCCT
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
* * * * *
12976240 CGACTTGCGGTTCAGTCCCAGTCATCTTTAATCTTTGACTTGTGGTTTAATCCCGGTCATTTCAT
66 -GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCAT
* *
12976305 TAATTCCCTTGACTTGCG
130 TAATTCCCTCGACTTACG
* * *
12976323 GTTCTGTCTCAGTCATCTTTAATCGTTGACTC
1 GTTCAGTCCCAGTCATCTTTAATCTTTGACTC
12976355 ACGGTGTCGT
Statistics
Matches: 1336, Mismatches: 241, Indels: 89
0.80 0.14 0.05
Matches are distributed among these distances:
135 3 0.00
137 2 0.00
138 143 0.11
139 13 0.01
140 1 0.00
141 63 0.05
142 152 0.11
143 129 0.10
144 4 0.00
145 22 0.02
146 174 0.13
147 406 0.30
148 222 0.17
149 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (147 bp):
GTTCAGTCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCATTAATTTTCT
GACTTGTGGTTTAGTCCTAGTCATCTTTAATCTTTGACTCGCGGTTTAATCCCGGTCATTTCATT
AATTCCCTCGACTTACG
Found at i:12974882 original size:39 final size:38
Alignment explanation
Indices: 12974833--12975031 Score: 115
Period size: 35 Copynumber: 5.3 Consensus size: 38
12974823 TCTAATTTTT
* *
12974833 GACTTGCGATTTAATCTCGGTCATTTCATTAATTCCCTC
1 GACTTACGATTTAATCCCGGTCATTTCATTAATT-CCTC
* * * * *
12974872 GACTTACGATTCAGTCCCAGTCA--TCTTTAA-TCCTT
1 GACTTACGATTTAATCCCGGTCATTTCATTAATTCCTC
* * * *
12974907 GACTCACAATTTAATCCCGATCATTTCATTAATTCTTC
1 GACTTACGATTTAATCCCGGTCATTTCATTAATTCCTC
* * * ** * * *
12974945 GACTTATGGTTCAATCCTAGTCA--TCTTTAA-TCTTT
1 GACTTACGATTTAATCCCGGTCATTTCATTAATTCCTC
* * *
12974980 G-GTTCACGGTTTAATCCCGGTCGTTTCATTAATTCCCTC
1 GACTT-ACGATTTAATCCCGGTCATTTCATTAATT-CCTC
*
12975019 GACTTACGGTTTA
1 GACTTACGATTTA
12975032 GTCCTAATCA
Statistics
Matches: 115, Mismatches: 36, Indels: 18
0.68 0.21 0.11
Matches are distributed among these distances:
34 2 0.02
35 38 0.33
36 7 0.06
37 18 0.16
38 19 0.17
39 29 0.25
40 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (38 bp):
GACTTACGATTTAATCCCGGTCATTTCATTAATTCCTC
Found at i:12976338 original size:39 final size:38
Alignment explanation
Indices: 12976147--12976338 Score: 114
Period size: 39 Copynumber: 5.1 Consensus size: 38
12976137 TTTAATCTTG
* * * *
12976147 GTCATTTCATTAATTTTCTCGATTTGCGGTTCAGTCTCA
1 GTCATTTCATTAA-TTCCTTGACTTGCGGTTCTGTCTCA
* * * *
12976186 GTCA--TCTTTAATT-TTTGACTCGCGGTT-TAATCTC-
1 GTCATTTCATTAATTCCTTGACTTGCGGTTCT-GTCTCA
* * *
12976220 GATCATTTCATTAATTTCCTCGACTTGCGGTTCAGTCCCA
1 G-TCATTTCATTAA-TTCCTTGACTTGCGGTTCTGTCTCA
* * * * * *
12976260 GTCA--TCTTTAA-TCTTTGACTTGTGGTT-TAATCCCG
1 GTCATTTCATTAATTCCTTGACTTGCGGTTCT-GTCTCA
12976295 GTCATTTCATTAATTCCCTTGACTTGCGGTTCTGTCTCA
1 GTCATTTCATTAATT-CCTTGACTTGCGGTTCTGTCTCA
12976334 GTCAT
1 GTCAT
12976339 CTTTAATCGT
Statistics
Matches: 112, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
34 1 0.01
35 38 0.34
36 2 0.02
37 24 0.21
38 3 0.03
39 42 0.38
40 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.44
Consensus pattern (38 bp):
GTCATTTCATTAATTCCTTGACTTGCGGTTCTGTCTCA
Found at i:12977797 original size:23 final size:22
Alignment explanation
Indices: 12977771--12977814 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
12977761 TTTTTGTTAT
*
12977771 TTTATATTTATGCATGATAAATG
1 TTTAAATTTAT-CATGATAAATG
*
12977794 TTTAAATTTATTATGATAAAT
1 TTTAAATTTATCATGATAAAT
12977815 ATCTAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTAAATTTATCATGATAAATG
Found at i:12978214 original size:17 final size:16
Alignment explanation
Indices: 12978164--12978217 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
12978154 CTAAGTTTTT
*
12978164 AAAACCCTTAAAAATCC
1 AAAACCCTT-AAAATTC
* *
12978181 AAAATCCCCTAAGATTC
1 AAAA-CCCTTAAAATTC
12978198 AAAACCTCTTAAAATTC
1 AAAACC-CTTAAAATTC
12978215 AAA
1 AAA
12978218 GTCCTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.07
17 24 0.80
18 4 0.13
ACGTcount: A:0.50, C:0.26, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAACCCTTAAAATTC
Found at i:12980857 original size:31 final size:31
Alignment explanation
Indices: 12980819--12980877 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
12980809 AGCAAGAGAA
* *
12980819 AAAAAAAACAAAAAGATAAGAATTTAAAGAG
1 AAAAAAAACAAAAACATAAGAATATAAAGAG
* *
12980850 AAAAAAAATAAAAACATAATAATATAAA
1 AAAAAAAACAAAAACATAAGAATATAAA
12980878 AAATAAGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (31 bp):
AAAAAAAACAAAAACATAAGAATATAAAGAG
Found at i:12982448 original size:109 final size:109
Alignment explanation
Indices: 12982257--12982465 Score: 350
Period size: 109 Copynumber: 1.9 Consensus size: 109
12982247 AAAAATGAGT
12982257 AAGAGAAAAGGTAAGAAGAAAAGAACTCAAAAAAATGTGATTCGACCATGATGGCTTACATCAAT
1 AAGAGAAAAGGTAAGAAGAAAAGAACTCAAAAAAATGTGATTCGACCATGATGGCTTACATCAAT
*
12982322 GGAAGAAAAGCTTAAAGGGTTAC-ATTGTTAATATTTTGGCTTTC
66 GGAAGAAAAGCCTAAAGGGTTACAATT-TTAATATTTTGGCTTTC
* * *
12982366 AAGAGAAAAGGTAAGAAGACAAGAACTCAAAAAAATGTGATTCGGCCATTG-TGGTTTACATCAA
1 AAGAGAAAAGGTAAGAAGAAAAGAACTCAAAAAAATGTGATTCGACCA-TGATGGCTTACATCAA
12982430 TGGAAGAAAAGCCTAAAGGGTTACAATTTTAATATT
65 TGGAAGAAAAGCCTAAAGGGTTACAATTTTAATATT
12982466 CTAGCTTCTA
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
109 89 0.95
110 5 0.05
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (109 bp):
AAGAGAAAAGGTAAGAAGAAAAGAACTCAAAAAAATGTGATTCGACCATGATGGCTTACATCAAT
GGAAGAAAAGCCTAAAGGGTTACAATTTTAATATTTTGGCTTTC
Found at i:12982798 original size:10 final size:10
Alignment explanation
Indices: 12982778--12982821 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
12982768 GTGAACTAAA
12982778 TTATATATTT
1 TTATATATTT
12982788 TTAT-TAGTTT
1 TTATATA-TTT
12982798 TTATATATTT
1 TTATATATTT
*
12982808 TTA-AAATTT
1 TTATATATTT
12982817 TTATA
1 TTATA
12982822 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 10 0.33
10 18 0.60
11 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATATATTT
Found at i:12982818 original size:20 final size:20
Alignment explanation
Indices: 12982778--12982821 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
12982768 GTGAACTAAA
**
12982778 TTATATATTTTTATTAGTTT
1 TTATATATTTTTAAAAGTTT
12982798 TTATATATTTTTAAAA-TTT
1 TTATATATTTTTAAAAGTTT
12982817 TTATA
1 TTATA
12982822 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTAAAAGTTT
Found at i:12983244 original size:2 final size:2
Alignment explanation
Indices: 12983237--12983266 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12983227 GTCTCAAATC
12983237 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
12983267 TACAATATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12984781 original size:29 final size:29
Alignment explanation
Indices: 12984739--12984804 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
12984729 ATTAAATGTT
* *
12984739 TTTATTTTAATTAGTTTAACTGAATTAAA
1 TTTATTTTAATTAGGTTAACTAAATTAAA
*
12984768 TTTATTTTAATTAGGTTAATTAAATTAAA
1 TTTATTTTAATTAGGTTAACTAAATTAAA
*
12984797 TGTATTTT
1 TTTATTTT
12984805 CTCAATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (29 bp):
TTTATTTTAATTAGGTTAACTAAATTAAA
Found at i:12987309 original size:12 final size:12
Alignment explanation
Indices: 12987292--12987324 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
12987282 AGAAACGAAA
12987292 ATAAAAATAAAT
1 ATAAAAATAAAT
12987304 ATAAAAATAAAT
1 ATAAAAATAAAT
*
12987316 ATAATAATA
1 ATAAAAATA
12987325 GTAACAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAAAAATAAAT
Found at i:12987324 original size:3 final size:3
Alignment explanation
Indices: 12987316--12987460 Score: 66
Period size: 3 Copynumber: 49.0 Consensus size: 3
12987306 AAAAATAAAT
* * * * * * * * *
12987316 ATA ATA ATA GTA ACA AAA AT- ATA ATA ATA ATA ATG GTG ATG ATG ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
12987363 ACA ATA ATA AT- ATA ATA ATA AT- GTA ATA ATG ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
12987409 ATA ATA TATT ATA AT- ATT ATA TATA ATA TGTA CT- ATA ATA ATA ATA
1 ATA ATA -ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA ATA ATA ATA
*
12987455 AAA ATA
1 ATA ATA
12987461 CTGATAACAA
Statistics
Matches: 109, Mismatches: 25, Indels: 16
0.73 0.17 0.11
Matches are distributed among these distances:
2 8 0.07
3 94 0.86
4 7 0.06
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12987424 original size:10 final size:11
Alignment explanation
Indices: 12987366--12987448 Score: 52
Period size: 11 Copynumber: 7.5 Consensus size: 11
12987356 GATGATGACA
12987366 ATAATA-ATAT
1 ATAATATATAT
*
12987376 AATAATA-ATGT
1 -ATAATATATAT
12987387 AATAATGATA-AT
1 -ATAAT-ATATAT
12987399 ACTAATA-ATA-
1 A-TAATATATAT
12987409 ATAATATAT-T
1 ATAATATATAT
12987419 ATAATATTATAT
1 ATAATA-TATAT
*
12987431 ATAATATGTACT
1 ATAATATATA-T
12987443 ATAATA
1 ATAATA
12987449 ATAATAAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
9 5 0.08
10 10 0.17
11 24 0.40
12 20 0.33
13 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (11 bp):
ATAATATATAT
Found at i:12987447 original size:40 final size:40
Alignment explanation
Indices: 12987365--12987454 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 40
12987355 TGATGATGAC
*
12987365 AATAATAATATAATAATAATGTAATAATGATAATACTAAT
1 AATAATAATATAATAATAATATAATAATGATAATACTAAT
* *
12987405 AATAATAATATATTATAATATTATATATAAT-AT-GTACT-AT
1 AATAATAATATA--ATAATAATATA-ATAATGATAATACTAAT
12987445 AATAATAATA
1 AATAATAATA
12987455 AAAATACTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
40 24 0.55
41 4 0.09
42 11 0.25
43 5 0.11
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (40 bp):
AATAATAATATAATAATAATATAATAATGATAATACTAAT
Found at i:12987831 original size:114 final size:114
Alignment explanation
Indices: 12987616--12988002 Score: 374
Period size: 114 Copynumber: 3.4 Consensus size: 114
12987606 CAAGAGTAAA
* * * * * * * * *
12987616 CCGTGAGTTTGAA-AATGACTAAAACCGAGTCGAGGTTATAAATGAATGATTGGGACGATGCCGC
1 CCGTGAGTCT-AAGAATGACCAAGACTGAGTCAAGGTCATAGATGAATGATTGGGACGATGTCGT
* * *
12987680 GAGTTTGAGAATGA-TCT-AACTCGTGCCAAGATCAAATGACTGGAGTGATG
65 GAGTTTGAGAATGACT-TGACCT-GTGTCGAGATCAAATGACTGGAGTGATG
** * * *
12987730 TTGCGAGTCTAAGAATGACCAAGATTGAGTCAAGGTCATATATGAATGATTGGGACGATGTCGTG
1 CCGTGAGTCTAAGAATGACCAAGACTGAGTCAAGGTCATAGATGAATGATTGGGACGATGTCGTG
* *
12987795 AGTCTGAGAATGACTTGACCTGTGTCGAGATTAAATGACT-GAGGTGATG
66 AGTTTGAGAATGACTTGACCTGTGTCGAGATCAAATGACTGGA-GTGATG
* * * * *
12987844 CCATGAGTTTGAGAATGACCAAGACTGAGTCGAA-GTCATAGATGAATGATTGGGATGATGTCAT
1 CCGTGAGTCTAAGAATGACCAAGACTGAGTC-AAGGTCATAGATGAATGATTGGGACGATGTCGT
* * * * * *
12987908 GAATTTGAAAATGATCTCG-CCTATGTCGAGATCAAATGACTGG-GCTAATA
65 GAGTTTGAGAATGA-CTTGACCTGTGTCGAGATCAAATGACTGGAG-TGATG
**
12987958 CCGTGAGTCTAAGAATGACCAAGACCAAGTCAAGGTCATAGATGA
1 CCGTGAGTCTAAGAATGACCAAGACTGAGTCAAGGTCATAGATGA
12988003 CAATGACTAT
Statistics
Matches: 223, Mismatches: 41, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
113 7 0.03
114 206 0.92
115 10 0.04
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (114 bp):
CCGTGAGTCTAAGAATGACCAAGACTGAGTCAAGGTCATAGATGAATGATTGGGACGATGTCGTG
AGTTTGAGAATGACTTGACCTGTGTCGAGATCAAATGACTGGAGTGATG
Found at i:12999455 original size:16 final size:16
Alignment explanation
Indices: 12999421--12999452 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
12999411 TTCATGAATG
12999421 TATTCTAAAAGATTTT
1 TATTCTAAAAGATTTT
12999437 TATT-TAAAAGATTTT
1 TATTCTAAAAGATTTT
12999452 T
1 T
12999453 TATAGGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TATTCTAAAAGATTTT
Found at i:12999564 original size:10 final size:10
Alignment explanation
Indices: 12999559--12999643 Score: 59
Period size: 10 Copynumber: 8.4 Consensus size: 10
12999549 TTAAAAAAAT
*
12999559 AAAAAATAGA
1 AAAAAATAAA
12999569 AAAAAATAATA
1 AAAAAATAA-A
12999580 AAAACAA-AAA
1 AAAA-AATAAA
* **
12999590 AAGAGCTAAA
1 AAAAAATAAA
12999600 AATAAAATAAA
1 AA-AAAATAAA
*
12999611 ATAAAAAT--C
1 A-AAAAATAAA
12999620 AAAAAATAAA
1 AAAAAATAAA
*
12999630 AAAAAATCAA
1 AAAAAATAAA
12999640 AAAA
1 AAAA
12999644 GAAAACCTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
8 6 0.10
9 1 0.02
10 30 0.52
11 18 0.31
12 3 0.05
ACGTcount: A:0.80, C:0.05, G:0.04, T:0.12
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:12999572 original size:18 final size:17
Alignment explanation
Indices: 12999551--12999643 Score: 68
Period size: 17 Copynumber: 5.3 Consensus size: 17
12999541 AAAATTACTT
*
12999551 AAAAAAATAAAAAATAG
1 AAAAAAATAAAAAATAA
12999568 AAAAAAATAATAAAA-ACA
1 AAAAAAATAA-AAAATA-A
12999586 AAAAAAGAGCT-AAAAATAA
1 AAAAAA-A--TAAAAAATAA
*
12999605 AATAAAAT-AAAAATCAA
1 AAAAAAATAAAAAAT-AA
*
12999622 AAAATAAA-AAAAAATCA
1 AAAA-AAATAAAAAATAA
12999639 AAAAA
1 AAAAA
12999644 GAAAACCTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
16 8 0.13
17 21 0.33
18 20 0.32
19 11 0.17
20 2 0.03
21 1 0.02
ACGTcount: A:0.81, C:0.04, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAAAATAAAAAATAA
Found at i:12999636 original size:24 final size:24
Alignment explanation
Indices: 12999550--12999642 Score: 80
Period size: 24 Copynumber: 3.7 Consensus size: 24
12999540 TAAAATTACT
*
12999550 TAAAAAAATAA-AAAATAGAAAAAAA
1 TAAAAAAA-AATAAAA-AGCAAAAAA
* *
12999575 TAATAAAAACAAAAAAAGAGCTAAAAA
1 TAA-AAAAA-AATAAAA-AGCAAAAAA
* *
12999602 TAAAATAAAATAAAAATCAAAAAA
1 TAAAAAAAAATAAAAAGCAAAAAA
12999626 TAAAAAAAAATCAAAAA
1 TAAAAAAAAAT-AAAAA
12999643 AGAAAACCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 17 0.30
25 14 0.25
26 11 0.20
27 14 0.25
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.13
Consensus pattern (24 bp):
TAAAAAAAAATAAAAAGCAAAAAA
Found at i:12999642 original size:7 final size:6
Alignment explanation
Indices: 12999553--12999635 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
12999543 AATTACTTAA
* **
12999553 AAAAAT AAAAAAT AGAAAA- AAATAAT AAAAAC AAAAA- AAGAGCT AAAAAT
1 AAAAAT -AAAAAT A-AAAAT AAA-AAT AAAAAT AAAAAT AA-AAAT AAAAAT
12999603 -AAAAT -AAAAT AAAAAT CAAAAAAT AAAAA- AAAA
1 AAAAAT AAAAAT AAAAAT --AAAAAT AAAAAT AAAA
12999636 TCAAAAAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
5 18 0.29
6 24 0.38
7 15 0.24
8 6 0.10
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:12999648 original size:18 final size:19
Alignment explanation
Indices: 12999603--12999648 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
12999593 AGCTAAAAAT
12999603 AAAATAAAATAAAAATCAA
1 AAAATAAAATAAAAATCAA
12999622 AAAATAAAA-AAAAATCAA
1 AAAATAAAATAAAAATCAA
*
12999640 AAAAGAAAA
1 AAAATAAAA
12999649 CCTTGCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAATAAAATAAAAATCAA
Found at i:13000468 original size:8 final size:8
Alignment explanation
Indices: 13000455--13000491 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
13000445 ATTAAAGCCA
13000455 AAAAAATG
1 AAAAAATG
13000463 AAAAAATG
1 AAAAAATG
13000471 -AAAAAT-
1 AAAAAATG
*
13000477 AAAAAATA
1 AAAAAATG
13000485 AAAAAAT
1 AAAAAAT
13000492 AATAATAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 12 0.44
8 15 0.56
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (8 bp):
AAAAAATG
Found at i:13000489 original size:7 final size:7
Alignment explanation
Indices: 13000455--13000489 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
13000445 ATTAAAGCCA
13000455 AAAAAAT
1 AAAAAAT
13000462 GAAAAAAT
1 -AAAAAAT
*
13000470 GAAAAAT
1 AAAAAAT
13000477 AAAAAAT
1 AAAAAAT
13000484 AAAAAA
1 AAAAAA
13000490 ATAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Done.