Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 27 of 311
Found at i:7686919 original size:20 final size:20
Alignment explanation
Indices: 7686889--7686961 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 20
7686879 TATTTAAAAT
*
7686889 TAAAAAA-ATATAAAAATCG
1 TAAAAAATATATAAAAATTG
*
7686908 TAAAAAATATAT-AAAATTT
1 TAAAAAATATATAAAAATTG
* *
7686927 TATAAAATTTTATAAAAATTG
1 TA-AAAAATATATAAAAATTG
7686948 TAAAAAAT-TATAAA
1 TAAAAAATATATAAA
7686962 TATAAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 20 0.44
20 17 0.38
21 8 0.18
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAAAATATATAAAAATTG
Found at i:7686924 original size:19 final size:19
Alignment explanation
Indices: 7686876--7686961 Score: 79
Period size: 18 Copynumber: 4.6 Consensus size: 19
7686866 TAAAAAATTC
* *
7686876 AAATATTTAAAATT-AAAA
1 AAATATATAAAATTGTAAA
*
7686894 AAATATA-AAAATCGTAAA
1 AAATATATAAAATTGTAAA
*
7686912 AAATATATAAAATTTTATAA
1 AAATATATAAAATTGTA-AA
* *
7686932 AATTTTATAAAAATTGTAAA
1 AAATATAT-AAAATTGTAAA
7686952 AAAT-TATAAA
1 AAATATATAAA
7686962 TATAAAATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
17 5 0.09
18 19 0.35
19 10 0.18
20 13 0.24
21 8 0.15
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (19 bp):
AAATATATAAAATTGTAAA
Found at i:7686944 original size:40 final size:35
Alignment explanation
Indices: 7686897--7686977 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 35
7686887 ATTAAAAAAA
7686897 TATAAAAATCGTAAAAAATATATAAAATTTTATAAAATTT
1 TATAAAAATCGTAAAAAAT-TAT-AAA---TATAAAATTT
*
7686937 TATAAAAATTGTAAAAAATTATAAATATAAAATTT
1 TATAAAAATCGTAAAAAATTATAAATATAAAATTT
7686972 TATAAA
1 TATAAA
7686978 GTCATAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 16 0.40
38 3 0.08
39 3 0.08
40 18 0.45
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.37
Consensus pattern (35 bp):
TATAAAAATCGTAAAAAATTATAAATATAAAATTT
Found at i:7686975 original size:10 final size:10
Alignment explanation
Indices: 7686917--7686977 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
7686907 GTAAAAAATA
7686917 TATAAAATTT
1 TATAAAATTT
7686927 TATAAAATTT
1 TATAAAATTT
*
7686937 TATAAAAATTG
1 TAT-AAAATTT
*
7686948 TAAAAAATTAT
1 TATAAAATT-T
7686959 AAATATAAAATTT
1 ---TATAAAATTT
7686972 TATAAA
1 TATAAA
7686978 GTCATAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 25 0.60
11 8 0.19
13 1 0.02
14 8 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAAAATTT
Found at i:7687000 original size:45 final size:47
Alignment explanation
Indices: 7686916--7687026 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 47
7686906 CGTAAAAAAT
** **
7686916 ATATAAAATTTTATAAAATTTTATAAAAATTGTAAAAAAT-T-ATAA
1 ATATAAAATTTTATAAAATCATATAAAAATTACAAAAAATGTAATAA
* *
7686961 ATATAAAATTTTATAAAGTCATA-AGAAAATTACATAAAATGTAAATAA
1 ATATAAAATTTTATAAAATCATATA-AAAATTACAAAAAATGT-AATAA
*
7687009 ATAT-AAATTTTGTAAAAT
1 ATATAAAATTTTATAAAAT
7687027 TTTTTTATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 32 0.59
46 1 0.02
47 12 0.22
48 8 0.15
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (47 bp):
ATATAAAATTTTATAAAATCATATAAAAATTACAAAAAATGTAATAA
Found at i:7687234 original size:18 final size:19
Alignment explanation
Indices: 7687210--7687296 Score: 72
Period size: 18 Copynumber: 4.7 Consensus size: 19
7687200 AAAAAAATTC
7687210 TAATTTTTAATAAATTTTA
1 TAATTTTTAATAAATTTTA
* *
7687229 -AATTTTTATTAAAATTTAA
1 TAATTTTTAAT-AAATTTTA
* *
7687248 TAATTTTT-CTAAAATTTA
1 TAATTTTTAATAAATTTTA
* * * *
7687266 TTATTTATAAT-TATTTTT
1 TAATTTTTAATAAATTTTA
7687284 TAATTTTTAATAA
1 TAATTTTTAATAA
7687297 GAGCATGGGC
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
18 34 0.68
19 9 0.18
20 7 0.14
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATTTTTAATAAATTTTA
Found at i:7687243 original size:19 final size:20
Alignment explanation
Indices: 7687210--7687265 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
7687200 AAAAAAATTC
*
7687210 TAATTTTTAAT-AAATTTTA
1 TAATTTTTAATAAAATTTAA
*
7687229 -AATTTTTATTAAAATTTAA
1 TAATTTTTAATAAAATTTAA
*
7687248 TAATTTTT-CTAAAATTTA
1 TAATTTTTAATAAAATTTA
7687266 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.28
19 16 0.50
20 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:7701353 original size:16 final size:16
Alignment explanation
Indices: 7701331--7701385 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
7701321 GTTTGGTTCA
*
7701331 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* *
7701347 TTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
7701363 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
7701379 CTGTAAT
1 CTGTAAT
7701386 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:7701453 original size:44 final size:46
Alignment explanation
Indices: 7701367--7701460 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
7701357 ATAGAGCTGT
*
7701367 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGA
* ***
7701413 AATGGAGTAGAGCTGTAAT-AG-AATTCTTGTGTTTGGTTGAATGA
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGA
7701457 AATG
1 AATG
7701461 ATATTGTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAACTGTTTGGTTGAATGA
Found at i:7701575 original size:25 final size:25
Alignment explanation
Indices: 7701531--7701581 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
7701521 GTTGATAGAT
7701531 GATTATTGTTATTAAA-TTTTAATAA
1 GATTATTGTTA-TAAATTTTTAATAA
7701556 GATTATTGTTA-AATATTTTTTAATAA
1 GATTATTGTTATAA-A-TTTTTAATAA
7701582 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
23 2 0.09
24 1 0.04
25 11 0.48
26 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (25 bp):
GATTATTGTTATAAATTTTTAATAA
Found at i:7701642 original size:24 final size:22
Alignment explanation
Indices: 7701615--7701700 Score: 86
Period size: 24 Copynumber: 3.8 Consensus size: 22
7701605 ATATTTTAAC
7701615 ATAATTATTATTAAATATAATTTA
1 ATAA-TATTATT-AATATAATTTA
* *
7701639 ATAA-AATAAT-ATATAATTTA
1 ATAATATTATTAATATAATTTA
*
7701659 ATAACATTATTAATATAATTTTTA
1 ATAATATTATTAATATAA--TTTA
*
7701683 ATAATAATATTAATATAA
1 ATAATATTATTAATATAA
7701701 AATTATTATT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 14 0.27
21 4 0.08
22 10 0.19
24 24 0.46
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATATTATTAATATAATTTA
Found at i:7704188 original size:40 final size:40
Alignment explanation
Indices: 7704144--7704224 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7704134 TTAGTTATAC
7704144 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
7704184 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
1 TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
7704224 T
1 T
7704225 AGAGTTCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (40 bp):
TGCAGATACTCAAGCAAATAAGTTATTTTGCCAATTTAGA
Found at i:7706558 original size:12 final size:11
Alignment explanation
Indices: 7706536--7706568 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
7706526 TTTTTATCTT
7706536 AAATTAAATTA
1 AAATTAAATTA
7706547 AAATTAAAATTA
1 AAATT-AAATTA
7706559 AAA-TAAATTA
1 AAATTAAATTA
7706569 TAATGGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 6 0.29
12 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:7706578 original size:6 final size:6
Alignment explanation
Indices: 7706569--7706596 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7706559 AAATAAATTA
7706569 TAATGG TAATGG TAATGG TAATGG TAAT
1 TAATGG TAATGG TAATGG TAATGG TAAT
7706597 TTTAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (6 bp):
TAATGG
Found at i:7707767 original size:21 final size:22
Alignment explanation
Indices: 7707709--7707768 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
7707699 AATTGATTGT
*
7707709 TTTATAAATGGTTTTTACTATTAA
1 TTTATAAAT-GTTATTA-TATTAA
**
7707733 TTTATAAACATTATT-TATTAA
1 TTTATAAATGTTATTATATTAA
7707754 TTTATAAATGTTATT
1 TTTATAAATGTTATT
7707769 CTGAAAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 19 0.61
23 4 0.13
24 8 0.26
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTATAAATGTTATTATATTAA
Found at i:7708219 original size:31 final size:30
Alignment explanation
Indices: 7708155--7708212 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
7708145 TATAGTAATT
* *
7708155 AAGATAAGTTCTCAATTAAATTAATGTAGG
1 AAGATAAGTTCTCAATCAAATTAATATAGG
7708185 AAGATTAAGTTCTCAATCAAATTAATAT
1 AAGA-TAAGTTCTCAATCAAATTAATAT
7708213 GAGAAGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (30 bp):
AAGATAAGTTCTCAATCAAATTAATATAGG
Found at i:7711193 original size:42 final size:42
Alignment explanation
Indices: 7711098--7711244 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 42
7711088 CCAACATCCT
* * * *
7711098 AGACGTGGTCTTACATGTAATCAAATATTGATGCCACTGTCCC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCACTGTCCC
*
7711141 AGACAGGGTCTTACACGAAATCAAATACGATGCCGA-TGTCCC
1 AGACATGGTCTTACACGAAATCAAATACGATGCC-ACTGTCCC
* *
7711183 ACACATGGTCTTACACGTATATCATAAGT-CGATGCCAGC-GTCCC
1 AGACATGGTCTTACACG-AAATCA-AA-TACGATGCCA-CTGTCCC
*
7711227 AGACGTGGTCTTACACGA
1 AGACATGGTCTTACACGA
7711245 GAACACATAC
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
42 27 0.31
43 31 0.35
44 29 0.33
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCACTGTCCC
Found at i:7720873 original size:30 final size:31
Alignment explanation
Indices: 7720837--7720905 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
7720827 GGTTTCATTT
* *
7720837 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
7720867 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
7720898 CAGTCACT
1 CAGTCACT
7720906 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:7720964 original size:21 final size:20
Alignment explanation
Indices: 7720936--7720980 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
7720926 GTTTCAACAG
7720936 AACTGCTGATGTGGCAAGTT
1 AACTGCTGATGTGGCAAGTT
*
7720956 AACTAGCTGATGTGGCTAGTT
1 AACT-GCTGATGTGGCAAGTT
7720977 AACT
1 AACT
7720981 TTCCACGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (20 bp):
AACTGCTGATGTGGCAAGTT
Found at i:7722741 original size:16 final size:16
Alignment explanation
Indices: 7722720--7722753 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7722710 GAGTTACCGA
*
7722720 TTCATTTATCAGATAT
1 TTCATTAATCAGATAT
*
7722736 TTCATTAATCCGATAT
1 TTCATTAATCAGATAT
7722752 TT
1 TT
7722754 TTTCTTTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (16 bp):
TTCATTAATCAGATAT
Found at i:7725368 original size:30 final size:32
Alignment explanation
Indices: 7725301--7725369 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
7725291 ACTATTAATC
* *
7725301 AGTGACTGTTTTGTCACTTTTTTATAACGTTA
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
*
7725333 A-TGACTGTTTTGTTA-TTTTTCA-AAAGTTA
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
7725362 AGTGACTG
1 AGTGACTG
7725370 AAATGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 12 0.36
31 13 0.39
32 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (32 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTTA
Found at i:7730000 original size:14 final size:14
Alignment explanation
Indices: 7729966--7730001 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7729956 TTAAATACTT
*
7729966 TCTAGTATACAATA
1 TCTAGTGTACAATA
7729980 TCTAGTGTACAATA
1 TCTAGTGTACAATA
7729994 TCTAGTGT
1 TCTAGTGT
7730002 TTGAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (14 bp):
TCTAGTGTACAATA
Found at i:7736987 original size:23 final size:24
Alignment explanation
Indices: 7736961--7737008 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
7736951 TGCGTAGTAT
7736961 AAAAATATA-TACGTAAT-ATAATG
1 AAAAATATATTA-GTAATAATAATG
*
7736984 AAAAGTATATTAGTAATAATAATG
1 AAAAATATATTAGTAATAATAATG
7737008 A
1 A
7737009 TAATGATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
AAAAATATATTAGTAATAATAATG
Found at i:7737203 original size:19 final size:18
Alignment explanation
Indices: 7737140--7737235 Score: 88
Period size: 18 Copynumber: 5.3 Consensus size: 18
7737130 ATATAATAAT
*
7737140 AATAATAATAATAAT-AA
1 AATAATAATAATAGTGAA
*
7737157 TAATAATAATAATAAT-AA
1 -AATAATAATAATAGTGAA
*
7737175 TAATAATAATAATAGTGGA
1 -AATAATAATAATAGTGAA
* * *
7737194 TATAAATAATAGTCGTGAA
1 AAT-AATAATAATAGTGAA
*
7737213 AATAATAATAATAGTGAC
1 AATAATAATAATAGTGAA
7737231 AATAA
1 AATAA
7737236 CAGAGATAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
18 51 0.77
19 15 0.23
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.30
Consensus pattern (18 bp):
AATAATAATAATAGTGAA
Found at i:7737204 original size:3 final size:3
Alignment explanation
Indices: 7737132--7737188 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
7737122 AAAAGGATAT
7737132 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7737180 ATA ATA ATA
1 ATA ATA ATA
7737189 GTGGATATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7754877 original size:14 final size:15
Alignment explanation
Indices: 7754860--7754891 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
7754850 TTCTTTATTC
7754860 TTTTTTTT-A-TTAA
1 TTTTTTTTCATTTAA
7754873 TTTTTTTTCATTTAA
1 TTTTTTTTCATTTAA
7754888 TTTT
1 TTTT
7754892 ATTTAACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTCATTTAA
Found at i:7760906 original size:25 final size:25
Alignment explanation
Indices: 7760860--7760907 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
7760850 ACTTATATTT
**
7760860 TATTAAAAATATAAAATTAATTTAC
1 TATTAAAAATATAAAAACAATTTAC
7760885 TATT-AAAATATTAAAAACAATTT
1 TATTAAAAATA-TAAAAACAATTT
7760908 CTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
TATTAAAAATATAAAAACAATTTAC
Found at i:7761320 original size:18 final size:18
Alignment explanation
Indices: 7761294--7761337 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
7761284 GACTGAGAAA
* *
7761294 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
7761312 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
7761330 AGGATACA
1 AGGATACA
7761338 CACCTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:7762950 original size:25 final size:24
Alignment explanation
Indices: 7762901--7762952 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
7762891 ACTATTATAA
* *
7762901 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
7762925 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
7762950 AAA
1 AAA
7762953 TAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:7762971 original size:7 final size:7
Alignment explanation
Indices: 7762957--7762985 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7762947 ATTAAATAAT
7762957 ATTT-AA
1 ATTTAAA
7762963 ATTTAAA
1 ATTTAAA
7762970 ATTTAAA
1 ATTTAAA
7762977 ATTTAAA
1 ATTTAAA
7762984 AT
1 AT
7762986 AATCTGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAA
Found at i:7764968 original size:14 final size:13
Alignment explanation
Indices: 7764949--7764986 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
7764939 ATTTAATGTT
7764949 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
7764963 TAATTATTAAGGA
1 TAATTATTTAGGA
7764976 TAATTATTTAG
1 TAATTATTTAG
7764987 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:7765015 original size:10 final size:10
Alignment explanation
Indices: 7765000--7765051 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
7764990 TAAATTTAGG
7765000 ATTTATTTTT
1 ATTTATTTTT
*
7765010 ATTTATCTTT
1 ATTTATTTTT
* *
7765020 AATTATCTTT
1 ATTTATTTTT
*
7765030 ATTTATTTGT
1 ATTTATTTTT
7765040 ATTTATCTTTT
1 ATTTAT-TTTT
7765051 A
1 A
7765052 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:7766987 original size:20 final size:20
Alignment explanation
Indices: 7766923--7766988 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
7766913 CACGTGGATA
7766923 AAAAATTATAAAAAATATTTT
1 AAAAATTATAAAAAATA-TTT
* *
7766944 GAAAAA-T-TAAAAATTA-TC
1 -AAAAATTATAAAAAATATTT
7766962 ATAAAATTATAAAAAATATTT
1 A-AAAATTATAAAAAATATTT
7766983 AAAAAT
1 AAAAAT
7766989 ATTTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 1 0.03
18 5 0.14
19 1 0.03
20 21 0.58
21 3 0.08
22 5 0.14
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAAAATATTT
Found at i:7767468 original size:15 final size:15
Alignment explanation
Indices: 7767450--7767502 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
7767440 AGTAAAATTT
*
7767450 AAATTTAAAATTGAA
1 AAATATAAAATTGAA
* *
7767465 AAATATAAATTTTAA
1 AAATATAAAATTGAA
7767480 AAATA-AAAA-T-AA
1 AAATATAAAATTGAA
7767492 AAATA-AAAATT
1 AAATATAAAATT
7767503 TATTTAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.33
13 2 0.06
14 3 0.09
15 17 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
AAATATAAAATTGAA
Found at i:7767473 original size:21 final size:20
Alignment explanation
Indices: 7767443--7767495 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
7767433 CATAATTAGT
* *
7767443 AAAATTTAAATTTAAAATTGA
1 AAAATATAAATTTAAAAAT-A
7767464 AAAATATAAATTTTAAAAATA
1 AAAATATAAA-TTTAAAAATA
*
7767485 AAAATAAAAAT
1 AAAATATAAAT
7767496 AAAAATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 19 0.68
22 8 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATATAAATTTAAAAATA
Found at i:7767476 original size:27 final size:26
Alignment explanation
Indices: 7767443--7767504 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
7767433 CATAATTAGT
** *
7767443 AAAATTTAAATTTAAAATTGAAAAATA
1 AAAATTTAAAAATAAAAAT-AAAAATA
*
7767470 TAAATTTTAAAAATAAAAATAAAAATA
1 -AAAATTTAAAAATAAAAATAAAAATA
7767497 AAAATTTA
1 AAAATTTA
7767505 TTTAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 7 0.24
27 7 0.24
28 15 0.52
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAATTTAAAAATAAAAATAAAAATA
Found at i:7767493 original size:5 final size:6
Alignment explanation
Indices: 7767477--7767501 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7767467 ATATAAATTT
7767477 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
7767502 TTATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:7770986 original size:22 final size:23
Alignment explanation
Indices: 7770956--7771009 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
7770946 GCATATTTAG
*
7770956 TATATATTAATCTA-ATTTTATT
1 TATAAATTAATCTATATTTTATT
*
7770978 TATAAATTAATCTATTTTTTATT
1 TATAAATTAATCTATATTTTATT
7771001 T-TAATATTA
1 TATAA-ATTA
7771010 TACATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TATAAATTAATCTATATTTTATT
Found at i:7776184 original size:22 final size:22
Alignment explanation
Indices: 7776159--7776204 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
7776149 TAATAAGATA
* *
7776159 TGTTCCGATATATGTTGAGCTT
1 TGTTACGATATATGTTAAGCTT
* *
7776181 TGTTATGATTTATGTTAAGCTT
1 TGTTACGATATATGTTAAGCTT
7776203 TG
1 TG
7776205 ATATGTAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (22 bp):
TGTTACGATATATGTTAAGCTT
Found at i:7776926 original size:94 final size:94
Alignment explanation
Indices: 7776765--7776949 Score: 280
Period size: 94 Copynumber: 2.0 Consensus size: 94
7776755 GTAAGAGTTC
* ** *
7776765 TGCAAGTTTTATGTTTTTGTAATGCTCAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
1 TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
*
7776830 ATGTAACTCTTCCAAATTTGGCCATATTA
66 ATGTAACTCTTCCAAATTCGGCCATATTA
* * * *
7776859 TGCAAGTTTTATGTTTTTCTAACACACAATTAAGTTGGTTAAAACAAGAGTTTTTAAATAAATTA
1 TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
*
7776924 ATGTAACTCTTCCAGATTCGGCCATA
66 ATGTAACTCTTCCAAATTCGGCCATA
7776950 ACGTTTAGGC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (94 bp):
TGCAAGTTTTATGTTTTTCTAACACACAACTAAGTTGCTTAAAACAAGAGTTTTTAAACAAACTA
ATGTAACTCTTCCAAATTCGGCCATATTA
Found at i:7792010 original size:32 final size:30
Alignment explanation
Indices: 7791972--7792032 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 30
7791962 ATAATATTAA
*
7791972 AATTATAATTAAAA-TAATATAAAGTATAAAAT
1 AATTATAA-TAAAACAAATA-AAAGT-TAAAAT
7792004 AATTATAATAAAACAAATAAAAGTTAAAA
1 AATTATAATAAAACAAATAAAAGTTAAAA
7792033 AGTATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 5 0.19
31 10 0.37
32 12 0.44
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (30 bp):
AATTATAATAAAACAAATAAAAGTTAAAAT
Found at i:7792041 original size:39 final size:39
Alignment explanation
Indices: 7791992--7792073 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
7791982 AAAATAATAT
7791992 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
1 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
*
7792031 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAG
1 AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
7792070 AAAG
1 AAAG
7792074 ATGAATTCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (39 bp):
AAAGTATAAAATAATTATAATAAAACAAATAAAAGTTAA
Found at i:7795806 original size:20 final size:18
Alignment explanation
Indices: 7795759--7795807 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
7795749 CAAGATAAAC
7795759 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
7795776 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
7795796 ATTAAATTAATA
1 ATTAAATTAATA
7795808 AAACACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:7797339 original size:21 final size:21
Alignment explanation
Indices: 7797313--7797358 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7797303 TTTTAGATAT
*
7797313 TTATGTATTT-TTGTTTTTATC
1 TTATGTATTTATT-TATTTATC
7797334 TTATGTATTTATTTATTTATC
1 TTATGTATTTATTTATTTATC
7797355 TTAT
1 TTAT
7797359 TTTAGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.70
Consensus pattern (21 bp):
TTATGTATTTATTTATTTATC
Found at i:7802538 original size:40 final size:40
Alignment explanation
Indices: 7802324--7802534 Score: 244
Period size: 40 Copynumber: 5.3 Consensus size: 40
7802314 AGATCAACTG
* * *
7802324 AACAAACCAGACAAAAGCTCATAGGAGCTAATCCAACTAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
* * *
7802364 AACACACCAAACAGAAGCTCAAAAGAGCTAATCCAACCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
* **
7802404 AACACACCATACAGAAGCTCATAAGAGCTAATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
** * *
7802444 AACATGCTAGACAGAATCTCATAAGAGCTAATCCAA-TCAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACT-AA
* * * *
7802484 AGCACACTAGATAGAAACTCATAAGAGCTAATCCAACTAA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
*
7802524 AACACGCCAGA
1 AACACACCAGA
7802535 TAGAGAGTAT
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 144 0.99
41 1 0.01
ACGTcount: A:0.48, C:0.27, G:0.12, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCAACTAA
Found at i:7806341 original size:18 final size:18
Alignment explanation
Indices: 7806318--7806356 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
7806308 CAACTATTGA
7806318 CTTAGTTAATAATTAGGG
1 CTTAGTTAATAATTAGGG
7806336 CTTAGTTAATAATTAGGG
1 CTTAGTTAATAATTAGGG
7806354 CTT
1 CTT
7806357 CAATTGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (18 bp):
CTTAGTTAATAATTAGGG
Found at i:7809115 original size:18 final size:18
Alignment explanation
Indices: 7809086--7809137 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
7809076 TTATTATGGC
*
7809086 GAACTGTGTTAATTTGGT
1 GAACTGTATTAATTTGGT
* * *
7809104 TATCTGTATTAATATGGT
1 GAACTGTATTAATTTGGT
*
7809122 GAACTGTACTAATTTG
1 GAACTGTATTAATTTG
7809138 CCAAACTGTG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (18 bp):
GAACTGTATTAATTTGGT
Found at i:7811439 original size:92 final size:92
Alignment explanation
Indices: 7811282--7811478 Score: 322
Period size: 92 Copynumber: 2.1 Consensus size: 92
7811272 GTATCCTATG
* * *
7811282 TTCATCGGTTCAGGGCATTCTATTACAGAACAATACGTAAATATCTCACTATCTCGTATTCCTTA
1 TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
*
7811347 TGCAAGAATTAGTTCAACAACCAAACA
66 TCCAAGAATTAGTTCAACAACCAAACA
* *
7811374 TTCATCGGTTCAGGGCATTCCATCGCAGAACAATATGTAAATATCTCACTATCTCATATTCCTTA
1 TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
*
7811439 TCCAAGCATTAGTTCAACAACCAAACA
66 TCCAAGAATTAGTTCAACAACCAAACA
*
7811466 TTCATCGGCTCAG
1 TTCATCGGTTCAG
7811479 AATATCTCAA
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (92 bp):
TTCATCGGTTCAGGGCATTCCATCACAGAACAATACGTAAATATCTCACTATCTCATATTCCTTA
TCCAAGAATTAGTTCAACAACCAAACA
Found at i:7812319 original size:23 final size:23
Alignment explanation
Indices: 7812293--7812372 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 23
7812283 TTTTAGTTAT
7812293 AATTTACTTATTTACCTAATTAC
1 AATTTACTTATTTACCTAATTAC
* ** * *
7812316 AATTTTAACCTTTACATTATTTTAGTTAT
1 AA-TTT-A-C-TTA-TTTA-CCTAATTAC
7812345 AATTTACTTATTTACCTAATTAC
1 AATTTACTTATTTACCTAATTAC
7812368 AATTT
1 AATTT
7812373 TAACCTTTAC
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 12 0.29
24 6 0.15
25 4 0.10
26 2 0.05
27 4 0.10
28 6 0.15
29 7 0.17
ACGTcount: A:0.34, C:0.14, G:0.01, T:0.51
Consensus pattern (23 bp):
AATTTACTTATTTACCTAATTAC
Found at i:7812341 original size:52 final size:52
Alignment explanation
Indices: 7812280--7812387 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
7812270 AATTTGACTT
7812280 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
1 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
7812332 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
1 TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
7812384 TTAT
1 TTAT
7812388 GAATTATAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (52 bp):
TTATTTTAGTTATAATTTACTTATTTACCTAATTACAATTTTAACCTTTACA
Found at i:7813221 original size:17 final size:17
Alignment explanation
Indices: 7813201--7813239 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7813191 ATGATGTGGT
*
7813201 ATGAATTG-TCATTTTGC
1 ATGAATTGAT-ATTTTAC
7813218 ATGAATTGATATTTTAC
1 ATGAATTGATATTTTAC
7813235 ATGAA
1 ATGAA
7813240 CAACTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (17 bp):
ATGAATTGATATTTTAC
Found at i:7821402 original size:12 final size:11
Alignment explanation
Indices: 7821380--7821435 Score: 60
Period size: 12 Copynumber: 5.0 Consensus size: 11
7821370 TTTTAAAATT
*
7821380 TATACATAATA
1 TATAAATAATA
7821391 TAATAAATAATA
1 T-ATAAATAATA
* *
7821403 TA-CAATAAAA
1 TATAAATAATA
7821413 TATAAATAATA
1 TATAAATAATA
7821424 TAATAAATAATA
1 T-ATAAATAATA
7821436 CAAATAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
10 8 0.22
11 9 0.24
12 20 0.54
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
TATAAATAATA
Found at i:7821404 original size:21 final size:20
Alignment explanation
Indices: 7821380--7821435 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
7821370 TTTTAAAATT
7821380 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
7821401 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
7821422 TATA-ATAAATAATA
1 TATACATAAATAATA
7821436 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:7821411 original size:14 final size:13
Alignment explanation
Indices: 7821385--7821450 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
7821375 AAATTTATAC
7821385 ATAATAT-AATAA
1 ATAATATAAATAA
7821397 ATAATATACAAT-A
1 ATAATATA-AATAA
7821410 A-AATATAAATAA
1 ATAATATAAATAA
* *
7821422 TATAATAAATAATAC
1 -ATAATATA-AATAA
7821437 A-AATA-AAATAA
1 ATAATATAAATAA
7821448 ATA
1 ATA
7821451 TTTTTTTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 8 0.18
12 16 0.36
13 7 0.16
14 9 0.20
15 4 0.09
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAATAA
Found at i:7821422 original size:33 final size:32
Alignment explanation
Indices: 7821380--7821446 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
7821370 TTTTAAAATT
* *
7821380 TATACATAATATAATAAATAATATACAATAAAA
1 TATAAATAATATAATAAATAATACA-AATAAAA
7821413 TATAAATAATATAATAAATAATACAAATAAAA
1 TATAAATAATATAATAAATAATACAAATAAAA
7821445 TA
1 TA
7821447 AATATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
TATAAATAATATAATAAATAATACAAATAAAA
Found at i:7821431 original size:18 final size:18
Alignment explanation
Indices: 7821393--7821451 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
7821383 ACATAATATA
7821393 ATAAATAATATACAATAAAAT
1 ATAAATAATAT--AAT-AAAT
7821414 ATAAATAATATAATAAAT
1 ATAAATAATATAATAAAT
* *
7821432 AATACA-AATAAAATAAAT
1 -ATAAATAATATAATAAAT
7821450 AT
1 AT
7821452 TTTTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 7 0.20
21 11 0.31
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAATATAATAAAT
Found at i:7827116 original size:25 final size:25
Alignment explanation
Indices: 7827060--7827172 Score: 84
Period size: 25 Copynumber: 4.4 Consensus size: 25
7827050 TATGCCTCTT
* * *
7827060 ATGAGCTTCCCATTATACAGCCCGG
1 ATGAGCTTCCCATTATATAGCTCAG
* *
7827085 ATAAGCTTCCCATTATATAGCTCAC
1 ATGAGCTTCCCATTATATAGCTCAG
** *
7827110 ATGAGCTTCCTGTTATATGGCTCGAG
1 ATGAGCTTCCCATTATATAGCTC-AG
* * * *
7827136 AGAGAGCTTCCCGTT-TATTGCTCAT
1 A-TGAGCTTCCCATTATATAGCTCAG
7827161 ATGAGCATTCCC
1 ATGAGC-TTCCC
7827173 GAATATGAAT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 4 0.06
25 46 0.66
26 9 0.13
27 11 0.16
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATAGCTCAG
Found at i:7827361 original size:24 final size:26
Alignment explanation
Indices: 7827315--7827362 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7827305 AATGTATTGT
*
7827315 TATATTAATATATGATGTGGAAAACA
1 TATATTAATATATGATATGGAAAACA
*
7827341 TATATTTATATAT-ATAT-GAAAA
1 TATATTAATATATGATATGGAAAA
7827363 TTGTTACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (26 bp):
TATATTAATATATGATATGGAAAACA
Found at i:7830773 original size:35 final size:35
Alignment explanation
Indices: 7830727--7830796 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
7830717 TCGAGGGTCA
7830727 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
1 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
7830762 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
1 GACATTAGGCATATAAGTGACAATTTGTGTAACTT
7830797 CTTTTTCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (35 bp):
GACATTAGGCATATAAGTGACAATTTGTGTAACTT
Found at i:7832993 original size:25 final size:27
Alignment explanation
Indices: 7832956--7833008 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7832946 TCAAACATGC
7832956 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
7832982 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
7833008 A
1 A
7833009 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:7834531 original size:26 final size:26
Alignment explanation
Indices: 7834495--7834600 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
7834485 AAATGCCCAG
*
7834495 CATGGAACATTTACCTAAACCATTAT
1 CATGGAACATTTACCTAACCCATTAT
7834521 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
* *
7834547 CATGGAATATTTACCTAATCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
7834573 CATGGAACATTTACCTAACCCATTAT
1 CATGGAACATTTACCTAACCCATTAT
7834599 CA
1 CA
7834601 ATTTGTACTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (26 bp):
CATGGAACATTTACCTAACCCATTAT
Found at i:7841515 original size:26 final size:26
Alignment explanation
Indices: 7841484--7841591 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
7841474 TGAAATGCCC
*
7841484 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
7841510 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
7841536 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
7841562 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7841588 ATCA
1 ATCA
7841592 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7842243 original size:43 final size:43
Alignment explanation
Indices: 7842195--7842276 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
7842185 CCTAACAACT
7842195 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
1 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
7842238 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCT
1 CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCT
7842277 TGTATAGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CCCGGTTGTAAGTCATCCAAGACAGGTACTACAAAATCTCGTA
Found at i:7844735 original size:67 final size:67
Alignment explanation
Indices: 7844622--7844757 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 67
7844612 ATTTGAACCA
* * *
7844622 TTCAAACATGAATTCATTTATATGCCAATTGCACATTTTTCGTTTCTATACACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
7844687 GG
66 GG
*
7844689 TTCAAACATGCATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
1 TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
7844754 GG
66 GG
7844756 TT
1 TT
7844758 AGAAAAAGAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (67 bp):
TTCAAACATGAATTCATTTATATGCCAATTGCACATCTTTCATTTCTATAAACACACGTTTCAAA
GG
Found at i:7845424 original size:36 final size:36
Alignment explanation
Indices: 7845383--7845451 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
7845373 TGATGAAAGG
* *
7845383 TGTGCCCTACACTAGTCGAATAAATCGACAATGTTT
1 TGTGCCCGACACTAGTCGAATAAACCGACAATGTTT
* * *
7845419 TGTGCCCGGCGCTAGTCGGATAAACCGACAATG
1 TGTGCCCGACACTAGTCGAATAAACCGACAATG
7845452 AGTTACACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (36 bp):
TGTGCCCGACACTAGTCGAATAAACCGACAATGTTT
Found at i:7851270 original size:19 final size:19
Alignment explanation
Indices: 7851234--7851272 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7851224 TGTTAGTTAA
*
7851234 TTTTTCTTTTTTTCTTTTC
1 TTTTTCTTTTTTGCTTTTC
7851253 TTTTTC-TTTTTGCATTTTC
1 TTTTTCTTTTTTGC-TTTTC
7851272 T
1 T
7851273 ATCCTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTTTGCTTTTC
Found at i:7851906 original size:63 final size:63
Alignment explanation
Indices: 7851832--7851985 Score: 164
Period size: 63 Copynumber: 2.4 Consensus size: 63
7851822 TGTAACCTAT
** * * * *
7851832 TGTTTGTGAATTAGAGTCACACGGGCTACGGACACGGACGTGTGTCCAAGCCATGTAACTCAC
1 TGTTTGTGAATTAGAGTCACACAAGCCAAGGACACGGACGTGCGTCCAAGCCATGTAACACAC
* * * * * **
7851895 TGTTTATGAATTAGGGTTACACAAGCCAAGGACACGGGCGTGCGTCCAGGCTGTGTAACACAC
1 TGTTTGTGAATTAGAGTCACACAAGCCAAGGACACGGACGTGCGTCCAAGCCATGTAACACAC
* * *
7851958 TGTTTGTGAATTAGTGTCATACAGGCCA
1 TGTTTGTGAATTAGAGTCACACAAGCCA
7851986 GAGACAAGGG
Statistics
Matches: 73, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (63 bp):
TGTTTGTGAATTAGAGTCACACAAGCCAAGGACACGGACGTGCGTCCAAGCCATGTAACACAC
Found at i:7852005 original size:63 final size:63
Alignment explanation
Indices: 7851817--7852013 Score: 146
Period size: 63 Copynumber: 3.1 Consensus size: 63
7851807 CCGTGTGATT
* * * ** * * * * * *
7851817 GGCCGTGTAAC-CTATTGTTTGTGAATTAGAGTCACACGGGCTACGGACACGGACGTGTGTCCA
1 GGCCGTGTAACAC-ACTGTTTATGAATTAGGGTCACACAAGCCAAGGACAAGGGCATGCGTCCA
* * * * * *
7851880 AGCCATGTAACTCACTGTTTATGAATTAGGGTTACACAAGCCAAGGACACGGGCGTGCGTCCA
1 GGCCGTGTAACACACTGTTTATGAATTAGGGTCACACAAGCCAAGGACAAGGGCATGCGTCCA
* * * * * * *
7851943 GGCTGTGTAACACACTGTTTGTGAATTAGTGTCATACAGGCC-AGAGACAAGGGTATGTGTCCA
1 GGCCGTGTAACACACTGTTTATGAATTAGGGTCACACAAGCCAAG-GACAAGGGCATGCGTCCA
7852006 GGCCGTGT
1 GGCCGTGT
7852014 GAGAGATATT
Statistics
Matches: 106, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
62 2 0.02
63 103 0.97
64 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (63 bp):
GGCCGTGTAACACACTGTTTATGAATTAGGGTCACACAAGCCAAGGACAAGGGCATGCGTCCA
Found at i:7856140 original size:2 final size:2
Alignment explanation
Indices: 7856133--7856175 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
7856123 TGATTATCAA
* *
7856133 CT CT CT CT CT CT CT CT CG CT CT CT CT CT AT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7856175 C
1 C
7856176 ATGGAAGGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.49, G:0.02, T:0.47
Consensus pattern (2 bp):
CT
Found at i:7856608 original size:17 final size:18
Alignment explanation
Indices: 7856573--7856610 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7856563 CCCGGCGCAG
7856573 AGGAACAAAACACGAACA
1 AGGAACAAAACACGAACA
7856591 AGGAAGCAAAA-A-GAACA
1 AGGAA-CAAAACACGAACA
7856608 AGG
1 AGG
7856611 CTAACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.61, C:0.16, G:0.24, T:0.00
Consensus pattern (18 bp):
AGGAACAAAACACGAACA
Found at i:7869613 original size:19 final size:19
Alignment explanation
Indices: 7869589--7869641 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
7869579 ACTAGCGTGC
7869589 AAAATGCATCCTGGTACAA
1 AAAATGCATCCTGGTACAA
* * *
7869608 AAAATGCATACTGGCACAC
1 AAAATGCATCCTGGTACAA
* *
7869627 AAAGTACATCCTGGT
1 AAAATGCATCCTGGT
7869642 GCACGAAGCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (19 bp):
AAAATGCATCCTGGTACAA
Found at i:7869763 original size:77 final size:77
Alignment explanation
Indices: 7869612--7869770 Score: 201
Period size: 77 Copynumber: 2.1 Consensus size: 77
7869602 GTACAAAAAA
* * * *
7869612 TGCATACTGGCACACAAAGTACATCCTGGTGCACGAAGCGCGTATCTGGAACACGATGTGCATCT
1 TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
**
7869677 CAGTGCACGAAG
66 CAGAACACGAAG
** * * *
7869689 TGCATACTAGCACACAAAGTGTATCCTGGTGCACAAAGCGTATATCTGGCACAAGATGTGTATCT
1 TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
**
7869754 TGGAACACGAAG
66 CAGAACACGAAG
7869766 TGCAT
1 TGCAT
7869771 TGTGACGGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (77 bp):
TGCATACTAGCACACAAAGTACATCCTGGTGCACAAAGCGCATATCTGGAACAAGATGTGCATCT
CAGAACACGAAG
Found at i:7870358 original size:28 final size:29
Alignment explanation
Indices: 7870313--7870368 Score: 96
Period size: 28 Copynumber: 1.9 Consensus size: 29
7870303 CAGATTTTAA
7870313 GAGCCACACGGGCTGGACACATGCCCATAT
1 GAGCCACAC-GGCTGGACACATGCCCATAT
7870343 GAGCCACA-GGCTGGACACATGCCCAT
1 GAGCCACACGGCTGGACACATGCCCAT
7870369 GTGCCAGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 18 0.69
30 8 0.31
ACGTcount: A:0.27, C:0.34, G:0.27, T:0.12
Consensus pattern (29 bp):
GAGCCACACGGCTGGACACATGCCCATAT
Found at i:7875253 original size:67 final size:64
Alignment explanation
Indices: 7875112--7875319 Score: 206
Period size: 64 Copynumber: 3.2 Consensus size: 64
7875102 CATAATTTTG
* * * * *
7875112 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCCCGT
7875174 A
64 A
* * * *
7875175 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGTACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCCCG
7875240 TA
63 TA
* * *
7875242 GCTCTTTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT-AT-A--TCCC
7875307 GTA
62 GTA
7875310 GCTCTCTTGT
1 GCTCTCTTGT
7875320 ACACATGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 29 0.24
65 2 0.02
66 24 0.20
67 28 0.24
68 17 0.14
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:7875864 original size:30 final size:30
Alignment explanation
Indices: 7875830--7875890 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7875820 TCCTTAACTC
7875830 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
7875860 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
7875890 A
1 A
7875891 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:7878120 original size:18 final size:17
Alignment explanation
Indices: 7878106--7878158 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 17
7878096 ATTAATAAGC
7878106 ATAATAAATAAAATAAAA
1 ATAA-AAATAAAATAAAA
7878124 ATAAAAATAAAAATAAATAA
1 ATAAAAAT-AAAAT-AA-AA
7878144 ATAAAAATACAAATA
1 ATAAAAATA-AAATA
7878159 TTAAGGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.13
18 9 0.29
19 4 0.13
20 14 0.45
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAAATAAAATAAAA
Found at i:7878124 original size:6 final size:6
Alignment explanation
Indices: 7878106--7878158 Score: 63
Period size: 6 Copynumber: 8.5 Consensus size: 6
7878096 ATTAATAAGC
*
7878106 ATAATAA AT-AAA ATAAAA ATAAAA ATAAAA ATAAATAA ATAAAA ATACAA
1 ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA AT-AA-AA ATAAAA ATAAAA
7878156 ATA
1 ATA
7878159 TTAAGGGCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
5 4 0.10
6 28 0.67
7 6 0.14
8 4 0.10
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:7878152 original size:26 final size:27
Alignment explanation
Indices: 7878108--7878158 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
7878098 TAATAAGCAT
7878108 AATAAATAAAATAAAAATAAAAATAAA
1 AATAAATAAAATAAAAATAAAAATAAA
*
7878135 AATAAAT-AAATAAAAATACAAATA
1 AATAAATAAAATAAAAATAAAAATA
7878159 TTAAGGGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (27 bp):
AATAAATAAAATAAAAATAAAAATAAA
Found at i:7885104 original size:21 final size:20
Alignment explanation
Indices: 7885074--7885114 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7885064 TAGAAATATT
7885074 AAATTAAGAAATAAGCATAAA
1 AAATTAAG-AATAAGCATAAA
*
7885095 AAATTGAGAATAAGCATAAA
1 AAATTAAGAATAAGCATAAA
7885115 GTATTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.20
Consensus pattern (20 bp):
AAATTAAGAATAAGCATAAA
Found at i:7897814 original size:21 final size:20
Alignment explanation
Indices: 7897790--7897828 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7897780 ACTCATCATG
*
7897790 TTATGTTATGTTATTTATTGT
1 TTATGTTAT-TTATATATTGT
7897811 TTATGTTATTTATATATT
1 TTATGTTATTTATATATT
7897829 ACTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTATGTTATTTATATATTGT
Found at i:7917290 original size:18 final size:17
Alignment explanation
Indices: 7917254--7917302 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
7917244 ATTGAATATA
*
7917254 AAAAAAAATAATATACTT
1 AAAATAAATAATA-ACTT
7917272 AAAATAAATAATAACCTT
1 AAAATAAATAATAA-CTT
*
7917290 -AGATAAATAATAA
1 AAAATAAATAATAA
7917303 AATGATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATAAATAATAACTT
Found at i:7917492 original size:10 final size:11
Alignment explanation
Indices: 7917469--7917493 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7917459 ATAAAATACT
7917469 AAAATAAATAA
1 AAAATAAATAA
7917480 AAAATAAATAA
1 AAAATAAATAA
7917491 AAA
1 AAA
7917494 GGTTAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:7925694 original size:20 final size:20
Alignment explanation
Indices: 7925669--7925718 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
7925659 TGGCTTAAAA
7925669 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
7925689 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
7925706 GTGGTAGTGGATT
1 TTGGTAGTGGATT
7925719 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:7930320 original size:20 final size:20
Alignment explanation
Indices: 7930295--7930344 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
7930285 TGGCTTAAAA
7930295 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
7930315 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
7930332 GTGGTAGTGGATT
1 TTGGTAGTGGATT
7930345 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:7936657 original size:82 final size:81
Alignment explanation
Indices: 7936531--7936688 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
7936521 CTCTTGCCAC
* * * * *
7936531 CTCAGAGAGATAAGGTTGGTGGTAAAATATGTTTCATTGCCAATACATAGAAATAAGATTCACTA
1 CTCAGAGAGATAAGGTTAGTGGTAAAATATGCTCCATTGCCAATACATAGAAACAAGATTCACCA
*
7936596 TTTTCGATCTGATCCA
66 TCTTCGATCTGATCCA
* * * *
7936612 CTCAGAGAGATAAGGTTAGTGGCTAAAATCTGCTCCATTGCCAATACGTGGAGACAAGATTCACC
1 CTCAGAGAGATAAGGTTAGTGG-TAAAATATGCTCCATTGCCAATACATAGAAACAAGATTCACC
7936677 ATCTTCGATCTG
65 ATCTTCGATCTG
7936689 TTCCGCTACT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 21 0.32
82 45 0.68
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (81 bp):
CTCAGAGAGATAAGGTTAGTGGTAAAATATGCTCCATTGCCAATACATAGAAACAAGATTCACCA
TCTTCGATCTGATCCA
Found at i:7936923 original size:176 final size:176
Alignment explanation
Indices: 7936612--7937256 Score: 653
Period size: 176 Copynumber: 3.6 Consensus size: 176
7936602 ATCTGATCCA
* * * * *
7936612 CTCAGAGAGATAAGGTTAGTGGCTAAAATCTGCTCCATTGCCAATACGTGGAGACAAGATTCACC
1 CTCAGAGAGATAAGGCTGGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACC
* * * * * * * *
7936677 ATCTTCGATCTGTTCCGCTAC-TGCTT-AGGGAAATAAGATCTTCAATCTTTAGTGTGCTTTCTC
65 ATCTTCAATCTGCTCCACTACATG-TTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTT
*
7936740 ACTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
129 GCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
* * * *
7936788 CTTAGAGAGATAAGGCTTGG-GGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGC
1 CTCAGAGAGATAAGGC-TGGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
* *
7936852 C-TCTTTCAATCTGCTCTACTAC-TGTTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
64 CATC-TTCAATCTGCTCCACTACATGTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCT
* *
7936915 TGCTACCTCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTAC
128 TGCTACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
* * * * * * *
7936964 CTCAGAGAGATGAGGCTGGTGGTAAAACCTGCTCCTTTGTCGATGCATAGAGATAAGATTCATCA
1 CTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
* * * ** * *
7937029 TCTGCGAAGCTTTACTCCGTTGCAAT-CTCAGGGAGAT-AGAATCTTCAAT-TCTCAGTCTGCTT
66 TCTTC-AA--TCTGCTCCACTAC-ATGTTCAGGGAGATAAG-ATCTTCAATCT-TCAGTCTGCTT
* * * *
7937091 CCTTGCTACATCA-AGATGATAAGACTTACTCTTCAACCTGCTCTCTTGCTAC
125 CCTTGCTACCTCAGA-AAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
* * * * *
7937143 CTCAGAGAGATGAGGCTGGTGGTAAAATCTGCTCCACTGCTGATACAAT-GAGAGAAGATTTACC
1 CTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC-ATGGAGATAAGATTCACC
* * * **
7937207 ATTTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTCAATCTT
65 ATCTTCAATCTGCTCCACTACATGTTCAGGGAGATAAGATCTTCAATCTT
7937257 TACCAATGTC
Statistics
Matches: 388, Mismatches: 64, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
175 43 0.11
176 195 0.50
177 5 0.01
178 11 0.03
179 131 0.34
180 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (176 bp):
CTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
TCTTCAATCTGCTCCACTACATGTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGC
TACCTCAGAAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTAC
Found at i:7936953 original size:43 final size:45
Alignment explanation
Indices: 7936883--7936968 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 45
7936873 CTGTTTAGGG
**
7936883 AGATAAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACCTCAGGA
1 AGATAAGATCTTCAATCTTCAACCTGCTCT-CTTGCTACCTCAGGA
*
7936928 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAG
7936969 AGAGATGAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 27 0.73
44 2 0.05
45 8 0.22
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGGA
Found at i:7943774 original size:44 final size:44
Alignment explanation
Indices: 7943726--7943874 Score: 109
Period size: 44 Copynumber: 3.4 Consensus size: 44
7943716 GTATTGGCAA
* * * * *
7943726 TGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGATGCAG
* * *
7943770 TGGAGCAGGCTCAAGATACAAGTCTTATCTCCCTGAAGATGCAG
1 TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGATGCAG
* * * * * * * * * * *
7943814 CGGAGCAAAATGAAAATGACAGGTCTTGTCTCCCTGAAGTTGTAG
1 TGGAGCAGACTCAAGA-CACAAGCCTTATCTCCCTGAAGATGCAG
*
7943859 TGGAGCAGACTGAAGA
1 TGGAGCAGACTCAAGA
7943875 TAGCGAATCT
Statistics
Matches: 81, Mismatches: 23, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
44 46 0.57
45 35 0.43
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (44 bp):
TGGAGCAGACTCAAGACACAAGCCTTATCTCCCTGAAGATGCAG
Found at i:7943864 original size:45 final size:44
Alignment explanation
Indices: 7943749--7943865 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
7943739 AGCCACTAGC
*** *
7943749 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTCAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAATACAAGT
* * * *
7943793 CTTATCTCCCTGAAGATGCAGCGGAGCAAAATGAAAATGACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAAT-ACAAGT
* *
7943838 CTTGTCTCCCTGAAGTTGTAGTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
7943866 GACTGAAGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 31 0.52
45 29 0.48
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAAATCAAAATACAAGT
Found at i:7944130 original size:182 final size:181
Alignment explanation
Indices: 7943842--7944173 Score: 470
Period size: 182 Copynumber: 1.8 Consensus size: 181
7943832 ACAGGTCTTG
* * *
7943842 TCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGATACAGTGC
* * * ** * * *
7943907 AACAGATGAAGCTATAAATAAATAGATCTTATTTTTCTGAAGTTGTAGTAGAGTAGATCA-TAGC
66 AACAGATAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTACC
7943971 AAA-CCTTATCTCCATGAAGTAGCAGTGGAGTAGGCTGAAGTTAAAGTCCTA
131 AAATCC-TATCTCCATGAAGTAGCAGTGGAGTAGGCTGAAGTTAAAGTCCTA
* * * *
7944022 TCTCCCTGAAGTTGCAGTGGAGCAGACATGAAGTTAGTGAATCTTATTTCCCTGAAGATGCAGTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGAC-TGAAGATAGCGAATCTTATTTCACTGAAGATACAGTG
*
7944087 CAACATATTAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTA
65 CAACAGA-TAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTA
*
7944152 CCAAATCCTATCTCCCTGAAGT
129 CCAAATCCTATCTCCATGAAGT
7944174 TACAGTTTGA
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
180 26 0.20
181 37 0.28
182 47 0.36
183 19 0.15
184 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (181 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCACTGAAGATACAGTGC
AACAGATAAAGCTATAAATAAACAGATCATACCTCTCTGAAGTTGCAGTAGAGTAGATCATTACC
AAATCCTATCTCCATGAAGTAGCAGTGGAGTAGGCTGAAGTTAAAGTCCTA
Found at i:7945165 original size:12 final size:12
Alignment explanation
Indices: 7945148--7945180 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
7945138 TTCCCTATAA
*
7945148 AATAGTGAAAAT
1 AATAGTAAAAAT
7945160 AATAGTAAAAAT
1 AATAGTAAAAAT
7945172 AATAGTAAA
1 AATAGTAAA
7945181 GGGGAAGTAA
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:7946106 original size:20 final size:20
Alignment explanation
Indices: 7946083--7946122 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7946073 TGAAATTCTA
7946083 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
7946103 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
7946123 CCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:7946647 original size:155 final size:155
Alignment explanation
Indices: 7946365--7946654 Score: 553
Period size: 155 Copynumber: 1.9 Consensus size: 155
7946355 TAAAATACCA
*
7946365 CAAAATAAGCATGCAATTAGCACATAAATTATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
1 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
7946430 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
66 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
7946495 TTTTCCAAATTAGTAGGATCATACT
131 TTTTCCAAATTAGTAGGATCATACT
*
7946520 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTTTAGAGTATTATCAAAAAGATAGGAAT
1 CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
*
7946585 CGAATAGGAAAAAAAGGGAATCAATGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
66 CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
7946650 TTTTC
131 TTTTC
7946655 GAATATAGCA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 132 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (155 bp):
CAAAATAAGCATGCAATTAGCACATAAAATATGTCGTTCTAGAGTATTATCAAAAAGATAGGAAT
CGAATAGGAAAAAAAGGGAATCAAGGTGGTCTTTTGTTCTGTTTTCCATTTCCTTTGCAAGTTTA
TTTTCCAAATTAGTAGGATCATACT
Found at i:7947753 original size:2 final size:2
Alignment explanation
Indices: 7947748--7947784 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7947738 TTTTTAATGT
* *
7947748 TA TA TA TA TA TA TA CA TA TA TA TA TG TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7947785 TGTCCATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7949619 original size:371 final size:368
Alignment explanation
Indices: 7948927--7949666 Score: 1097
Period size: 371 Copynumber: 2.0 Consensus size: 368
7948917 GAAATAGGAC
* *
7948927 AAAATTAGAAAGATGCAAAAAAGCGGAGGGACCAAAATGGAAATTATCCCCTCGATGCAAAACAC
1 AAAATTAGAAAGATGCAAAAAAACAGAGGGACCAAAATGGAAATTATCCCCTCGATGCAAAACAC
* * * *
7948992 GCGGATCCTAGGGGAGATTCGGGTTGTACTTCAAAATGGCATTGTTTTGGGCCGTACTTCTCTCC
66 GAGGATCCTAGGGGAGATTCGGGTCGTACTTCAAAACGACATTGTTTTGGGCCGTACTTCTCTCC
* *
7949057 TACGTTTTCTTTTAAGTTCTCTTCTTTCCATTATTTTCTCTGAACGCGTCTCTAAGTCATGTCAT
131 TACATTTTCTTTTAAGTTCTCTTCTTTCCATTATTTTCTCTGAACGCGTCTCTAAGTCAGGTCAT
* * * * * * *
7949122 AGGGTCGTCGTCGCCCCGACATGCCCACTGGTCATCGGCGATGGCAGTCGTCGCCTTTGGTGGCT
196 AGGGTCGTCATCGCCCCGACATGCCCACCGGTCATCGGAGACGGCAGTCGTCGCATTCGGTGACT
* *
7949187 GGAGTTACAAAAACAATCACTTTTTAGCCCTATTTAATCCTTTAAGAGCCAAATCTGAAGGCTAA
261 GGAGTTACAAAAAAAATCACTTTTTAGCCCTATTTAATCCCTTAAGAGCCAAATCTGAAGGCTAA
7949252 TGCCTTCTAAAAATCAGAAAGAAGGGAAAAATTAAATTTAAAA
326 TGCCTTCTAAAAATCAGAAAGAAGGGAAAAATTAAATTTAAAA
* * * *
7949295 AAAATTCGAAAGATGCAAAAAAATAGAGGGACCAAAATGGAAATTATCCCCTCGATGTAAAATAC
1 AAAATTAGAAAGATGCAAAAAAACAGAGGGACCAAAATGGAAATTATCCCCTCGATGCAAAACAC
** * *
7949360 GAGGATCCTAGGGGAGATTCGGGTCGTACTTCAAAACGATGTTGTTTTGGGTCGTACTTCTCTCT
66 GAGGATCCTAGGGGAGATTCGGGTCGTACTTCAAAACGACATTGTTTTGGGCCGTACTTCTCTCC
** * * * *
7949425 TACATTTT-TTTTGAAAAAGTTCTCTTCTTTCTGTTTTTTTCTCTGAATGCGTCTTTAAGTTAGG
131 TACATTTTCTTTT----AAGTTCTCTTCTTTCCATTATTTTCTCTGAACGCGTCTCTAAGTCAGG
* * * *
7949489 TCATAGGGTCTTCATCGCCCCGACATGGCCACCGGTCATCGGAGACGGCAGTTGTCTCATTCGGT
192 TCATAGGGTCGTCATCGCCCCGACATGCCCACCGGTCATCGGAGACGGCAGTCGTCGCATTCGGT
*
7949554 GACTGGAGTTACAAAAAAAATCACTTTTTAGCCCTATTTAATCCCTT-AGAAGCCAAATTTGAAG
257 GACTGGAGTTACAAAAAAAATCACTTTTTAGCCCTATTTAATCCCTTAAG-AGCCAAATCTGAAG
7949618 GCTAATGCCTTCTAAAAATCAGAAAGAAGGGAAAAATTAAATTTAAAA
321 GCTAATGCCTTCTAAAAATCAGAAAGAAGGGAAAAATTAAATTTAAAA
7949666 A
1 A
7949667 GAAAAAAAGC
Statistics
Matches: 331, Mismatches: 36, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
367 4 0.01
368 123 0.37
370 2 0.01
371 202 0.61
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (368 bp):
AAAATTAGAAAGATGCAAAAAAACAGAGGGACCAAAATGGAAATTATCCCCTCGATGCAAAACAC
GAGGATCCTAGGGGAGATTCGGGTCGTACTTCAAAACGACATTGTTTTGGGCCGTACTTCTCTCC
TACATTTTCTTTTAAGTTCTCTTCTTTCCATTATTTTCTCTGAACGCGTCTCTAAGTCAGGTCAT
AGGGTCGTCATCGCCCCGACATGCCCACCGGTCATCGGAGACGGCAGTCGTCGCATTCGGTGACT
GGAGTTACAAAAAAAATCACTTTTTAGCCCTATTTAATCCCTTAAGAGCCAAATCTGAAGGCTAA
TGCCTTCTAAAAATCAGAAAGAAGGGAAAAATTAAATTTAAAA
Found at i:7950353 original size:35 final size:37
Alignment explanation
Indices: 7950282--7950379 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
7950272 ATAATCTTCA
7950282 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
7950320 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
7950355 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
7950380 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:7950379 original size:17 final size:19
Alignment explanation
Indices: 7950282--7950372 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
7950272 ATAATCTTCA
7950282 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7950301 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7950320 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7950337 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7950355 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
7950373 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:7950398 original size:22 final size:22
Alignment explanation
Indices: 7950351--7950395 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
7950341 TTGCAATCTT
*
7950351 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
7950373 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
7950396 GATTTAATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:7959315 original size:196 final size:196
Alignment explanation
Indices: 7958977--7959364 Score: 668
Period size: 196 Copynumber: 2.0 Consensus size: 196
7958967 GTTTACACTG
7958977 AAGCAGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGG
1 AAGCAGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGG
* * * *
7959042 CATCTTCATATTCAACGGAGAGCAGATCGAAGACATAGTAGATCTAACCTTCGAATGTTTTCACA
66 CATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTAACATTCGAATGTCTTCACA
*
7959107 TCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAG
131 TCGAAATAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAG
7959172 A
196 A
* *
7959173 AAGCAGATCTAAGATGATTTAACATCTCTGTATTGTTAGAGAACAAATCAAAGAAACAGATTTGG
1 AAGCAGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGG
*
7959238 CATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAACATTCGAATGTCTTCACA
66 CATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTAACATTCGAATGTCTTCACA
* * * *
7959303 TCGAAATAGATCCAAGATGATTTGGCATCCTTGTGTTTACACGGAGTAGATCGAAGACATAG
131 TCGAAATAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAG
7959365 TAGATTTGGC
Statistics
Matches: 180, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
196 180 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (196 bp):
AAGCAGATCCAAGATGATTTAACATCTCTGTATTGTCAGAGAACAAATCAAAGAAACAGATTTGG
CATCTCCATATTCAACGGAGAGCAGATCGAAGACATAGCAGATCTAACATTCGAATGTCTTCACA
TCGAAATAGATCCAAGATGATTTGGCATCCTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAG
A
Found at i:7959562 original size:78 final size:78
Alignment explanation
Indices: 7959452--7959745 Score: 446
Period size: 78 Copynumber: 3.8 Consensus size: 78
7959442 GAAAAAACAA
** * *
7959452 ATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
*
7959517 CACATCCAAGATG
66 CAGATCCAAGATG
* * *
7959530 ATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAAACACAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
7959595 CAGATCCAAGATG
66 CAGATCCAAGATG
* *
7959608 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGGT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGAA
*
7959672 ACAGATCCAAGATG
65 GCAGATCCAAGATG
* * *
7959686 ATTTGGCATCTCTGTATTAGACGAGGAGCAGATTGAAGACATAGCAGATCTAACCTTCAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
7959746 GTGTTTACAT
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 193 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:7959907 original size:89 final size:89
Alignment explanation
Indices: 7959759--7959957 Score: 251
Period size: 89 Copynumber: 2.2 Consensus size: 89
7959749 TTTACATCGA
* * *
7959759 AGCAGATCCAAGAT-GAAAGATTTGGCATCTCTGTATTAGACGGGAGCAAATCGGAGATAACAGA
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGAGCAAATCGAAGATAACAGA
*
7959823 TTTGACATCTCTGTATTAGA-CGGAG
65 TTTGACATCTCTGTATTAGATAGG-G
** ** *
7959848 AGCAGATTGAAGA-AGCAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGAC-GGGAGCAAATCGAAGATAACAGA
* *
7959912 TTTGGCGTCTCTGTATTAGATAGGG
65 TTTGACATCTCTGTATTAGATAGGG
7959937 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
7959958 ATCGCCTTCC
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 22 0.23
89 63 0.67
90 9 0.10
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (89 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGAGCAAATCGAAGATAACAGAT
TTGACATCTCTGTATTAGATAGGG
Found at i:7959927 original size:45 final size:45
Alignment explanation
Indices: 7959759--7959957 Score: 242
Period size: 44 Copynumber: 4.5 Consensus size: 45
7959749 TTTACATCGA
*
7959759 AGCAGATCCAAGATGAA-AGATTTGGCATCTCTGTATTAGAC-GGG
1 AGCAGATCGAAGAT-AACAGATTTGGCATCTCTGTATTAGACGGGG
* * * *
7959803 AGCAAATCGGAGATAACAGATTTGACATCTCTGTATTAGACGGAG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * **
7959848 AGCAGATTGAAGA-AGCAGATTTGGTGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* **
7959892 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATAGGG
1 AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
7959937 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
7959958 ATCGCCTTCC
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
43 2 0.02
44 72 0.55
45 58 0.44
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:7960378 original size:35 final size:37
Alignment explanation
Indices: 7960307--7960404 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
7960297 GTAATCTTCA
7960307 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
7960345 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
7960380 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
7960405 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:7960404 original size:17 final size:19
Alignment explanation
Indices: 7960307--7960397 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
7960297 GTAATCTTCA
7960307 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7960326 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7960345 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7960362 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
7960380 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
7960398 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:7960423 original size:22 final size:22
Alignment explanation
Indices: 7960307--7960420 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
7960297 GTAATCTTCA
7960307 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
7960326 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
7960345 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
7960362 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
7960380 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
7960402 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
7960421 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:7960710 original size:18 final size:17
Alignment explanation
Indices: 7960687--7960721 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7960677 TGTTTCCCTG
*
7960687 ATTTTTTTATATATTTTA
1 ATTTTTTAATAT-TTTTA
7960705 ATTTTTTAATATTTTTA
1 ATTTTTTAATATTTTTA
7960722 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTAATATTTTTA
Found at i:7968888 original size:19 final size:20
Alignment explanation
Indices: 7968851--7968888 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7968841 AGAGGGACAA
*
7968851 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
7968871 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
7968889 AATGTTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:7970833 original size:25 final size:25
Alignment explanation
Indices: 7970805--7970857 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
7970795 ATAACTAGAG
7970805 AATGTGTACATAAAAGTAAAGTTAT
1 AATGTGTACATAAAAGTAAAGTTAT
7970830 AATGTGTACATAAAAGTAAAGTTAT
1 AATGTGTACATAAAAGTAAAGTTAT
7970855 AAT
1 AAT
7970858 ATTGATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.15, T:0.32
Consensus pattern (25 bp):
AATGTGTACATAAAAGTAAAGTTAT
Found at i:7972586 original size:38 final size:37
Alignment explanation
Indices: 7972540--7972614 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 37
7972530 AATGCAAAGT
7972540 ACGTGGCAAAGAAGAAATTTTCATCACATAGATCACA
1 ACGTGGCAAAGAAGAAATTTTCATCACATAGATCACA
7972577 ACGTGGGCAAAGAAGAAATTTTCATCACATAGATCACA
1 ACGT-GGCAAAGAAGAAATTTTCATCACATAGATCACA
7972615 CAAACGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (37 bp):
ACGTGGCAAAGAAGAAATTTTCATCACATAGATCACA
Found at i:7972720 original size:20 final size:20
Alignment explanation
Indices: 7972670--7972721 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
7972660 TGTTAAATAA
*
7972670 TTGTTTTTTTATCTTTTAAT
1 TTGTTTTTTTATCTCTTAAT
** *
7972690 TAATTTATTTAT-TACTTAAT
1 TTGTTTTTTTATCT-CTTAAT
7972710 TTGTTTTTTTAT
1 TTGTTTTTTTAT
7972722 AAAAAAATTC
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (20 bp):
TTGTTTTTTTATCTCTTAAT
Found at i:7974629 original size:25 final size:24
Alignment explanation
Indices: 7974584--7974630 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
7974574 TTTATGGAAT
*
7974584 TTATTTGAATGTGAAATTGTATTC
1 TTATTTGAATGTGAAAGTGTATTC
7974608 TTATTATGAAT-TGAAAAGTGTAT
1 TTATT-TGAATGTG-AAAGTGTAT
7974631 GTGTAGTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (24 bp):
TTATTTGAATGTGAAAGTGTATTC
Found at i:7981216 original size:34 final size:34
Alignment explanation
Indices: 7981176--7981244 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
7981166 TATATTATAA
*
7981176 ATGAAGAGGCATCTGCTCAAATCGATGTAAAATT
1 ATGAAGAGGCATATGCTCAAATCGATGTAAAATT
7981210 ATGAAGAGGCATATGCTCAAATCGATGTAAAATT
1 ATGAAGAGGCATATGCTCAAATCGATGTAAAATT
7981244 A
1 A
7981245 GAGCGGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (34 bp):
ATGAAGAGGCATATGCTCAAATCGATGTAAAATT
Found at i:7988526 original size:13 final size:13
Alignment explanation
Indices: 7988508--7988563 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
7988498 TAACTTTTTC
7988508 CTAAATATTATCA
1 CTAAATATTATCA
7988521 CTAAATA--ATC-
1 CTAAATATTATCA
*
7988531 CTAACTATTATCA
1 CTAAATATTATCA
*
7988544 CTAAATATAATCA
1 CTAAATATTATCA
7988557 CTAAATA
1 CTAAATA
7988564 ATTCAAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 6 0.16
11 3 0.08
12 3 0.08
13 25 0.68
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:7988533 original size:23 final size:23
Alignment explanation
Indices: 7988506--7988550 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
7988496 GCTAACTTTT
7988506 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
*
7988529 TCCTAACTATTATCACTAAATA
1 TCCTAAATATTATCACTAAATA
7988551 TAATCACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:7989423 original size:8 final size:9
Alignment explanation
Indices: 7989412--7989441 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7989402 AAAAATATTT
7989412 TTTTAAT-A
1 TTTTAATAA
7989420 TTTTAATAA
1 TTTTAATAA
7989429 TTTTAATAA
1 TTTTAATAA
7989438 TTTT
1 TTTT
7989442 TAATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTAATAA
Found at i:7989423 original size:9 final size:9
Alignment explanation
Indices: 7989411--7989452 Score: 52
Period size: 8 Copynumber: 4.8 Consensus size: 9
7989401 AAAAAATATT
7989411 TTTTTAATA
1 TTTTTAATA
7989420 -TTTTAATA
1 TTTTTAATA
*
7989428 ATTTTAATAA
1 TTTTTAAT-A
7989438 TTTTTAAT-
1 TTTTTAATA
7989446 TTTTTAA
1 TTTTTAA
7989453 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 15 0.50
9 7 0.23
10 8 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:7989427 original size:19 final size:18
Alignment explanation
Indices: 7989405--7989451 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
7989395 AAATTGAAAA
*
7989405 AATATTTTTTTAATATTTT
1 AATATTTTTATAAT-TTTT
*
7989424 AATAATTTTAATAATTTTT
1 AAT-ATTTTTATAATTTTT
7989443 AAT-TTTTTA
1 AATATTTTTA
7989452 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.21
19 10 0.42
20 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
AATATTTTTATAATTTTT
Found at i:7994011 original size:6 final size:6
Alignment explanation
Indices: 7994000--7994060 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
7993990 CATACATACG
7994000 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA TACATA
7994048 TACATA TACATA T
1 TACATA TACATA T
7994061 CGGCATTTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
TACATA
Found at i:8012633 original size:46 final size:46
Alignment explanation
Indices: 8012558--8012877 Score: 403
Period size: 46 Copynumber: 7.0 Consensus size: 46
8012548 TTATCTTTGA
* * * * * *
8012558 CATGATGCCATAGTATCTTTC-ACCTATGGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACC-ATGGTCTTACAC-ATTTCATAT
** ***
8012604 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** *
8012651 CATGTTGCAAT-GTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
8012696 CACGTTGCCATGGTTTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8012742 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
8012788 CAGGTTACCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
8012834 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
8012878 TTCAGAGAGC
Statistics
Matches: 249, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
45 15 0.06
46 219 0.88
47 15 0.06
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:8015269 original size:17 final size:18
Alignment explanation
Indices: 8015233--8015274 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
8015223 ACACCTTTAA
*
8015233 TTTTCCCTTTTCTTCTTTC
1 TTTTCTCTTTTC-TCTTTC
8015252 TTTTCTCTTTTC-CTTTC
1 TTTTCTCTTTTCTCTTTC
8015269 TTTTCT
1 TTTTCT
8015275 TCCCCTACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTCTCTTTTCTCTTTC
Done.