Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 36 of 345
Found at i:10901283 original size:17 final size:15
Alignment explanation
Indices: 10901248--10901298 Score: 68
Period size: 14 Copynumber: 3.3 Consensus size: 15
10901238 ATATAACAAT
10901248 TTTATATAATAAAAA
1 TTTATATAATAAAAA
10901263 -TTATATAATAAATGAA
1 TTTATATAATAAA--AA
10901279 TTTATATAATAAAAA
1 TTTATATAATAAAAA
*
10901294 ATTAT
1 TTTAT
10901299 TTTATTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 12 0.38
15 6 0.19
16 2 0.06
17 12 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TTTATATAATAAAAA
Found at i:10902005 original size:51 final size:52
Alignment explanation
Indices: 10901944--10902045 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 52
10901934 ATAGTTTTTC
10901944 ATATAAAATTAAAATTACAAAAAAAAA-TTGTAAATTGTACATTGTAAATTT
1 ATATAAAATTAAAATTACAAAAAAAAATTTGTAAATTGTACATTGTAAATTT
10901995 ATATAAAATTAAAATTACAAAAAAAAATTTGTAAATTGTACATTGTAAATT
1 ATATAAAATTAAAATTACAAAAAAAAATTTGTAAATTGTACATTGTAAATT
10902046 GTTAATCATA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 27 0.54
52 23 0.46
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (52 bp):
ATATAAAATTAAAATTACAAAAAAAAATTTGTAAATTGTACATTGTAAATTT
Found at i:10904088 original size:23 final size:23
Alignment explanation
Indices: 10904045--10904090 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10904035 AGTGTTATCC
* *
10904045 TTTAAATATTTTATCTTTCAAAT
1 TTTAAAAATTATATCTTTCAAAT
10904068 TTTAAAAATTATAT-TTATCAAAT
1 TTTAAAAATTATATCTT-TCAAAT
10904091 AATCTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAAAAATTATATCTTTCAAAT
Found at i:10908118 original size:25 final size:24
Alignment explanation
Indices: 10908071--10908119 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10908061 TTATTAAATG
*
10908071 TCTAACAACGAAAAACATGAAAAA
1 TCTAACAACGAAAAACATAAAAAA
* *
10908095 TCTAACTAACGAATAATATAAAAAA
1 TCTAAC-AACGAAAAACATAAAAAA
10908120 CATGTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.18
Consensus pattern (24 bp):
TCTAACAACGAAAAACATAAAAAA
Found at i:10911173 original size:20 final size:19
Alignment explanation
Indices: 10911132--10911178 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
10911122 AACCATTATA
10911132 AAAATTTATAAAAAAATATT
1 AAAA-TTATAAAAAAATATT
*
10911152 AAGAATTATAAAAATCAT-TT
1 AA-AATTATAAAAA-AATATT
10911172 AAAATTA
1 AAAATTA
10911179 CAATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTATAAAAAAATATT
Found at i:10911190 original size:19 final size:18
Alignment explanation
Indices: 10911143--10911199 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
10911133 AAATTTATAA
*
10911143 AAAAATA-TTAAGAATTAT
1 AAAAATATTTAA-AATTAC
10911161 AAAAATCATTTAAAATTAC
1 AAAAAT-ATTTAAAATTAC
*
10911180 AATAAATATTT-GAATTAC
1 AA-AAATATTTAAAATTAC
10911198 AA
1 AA
10911200 GTTAATTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 14 0.41
19 12 0.35
20 8 0.24
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAATATTTAAAATTAC
Found at i:10912130 original size:25 final size:23
Alignment explanation
Indices: 10912101--10912146 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
10912091 AATAAAAAAA
*
10912101 TTAAAATATAATAAATCAAATATAT
1 TTAAAACATAA-AAA-CAAATATAT
10912126 TTAAAACATAAAAACAAATAT
1 TTAAAACATAAAAACAAATAT
10912147 TAAAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 3 0.15
25 10 0.50
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
TTAAAACATAAAAACAAATATAT
Found at i:10912163 original size:19 final size:20
Alignment explanation
Indices: 10912126--10912164 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
10912116 TCAAATATAT
10912126 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
10912146 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
10912165 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:10912381 original size:15 final size:16
Alignment explanation
Indices: 10912361--10912390 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10912351 AAAGTTATTT
10912361 AAAA-TTAAAAATAAA
1 AAAATTTAAAAATAAA
10912376 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
10912391 TTTAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTTAAAAATAAA
Found at i:10922816 original size:26 final size:26
Alignment explanation
Indices: 10922767--10922816 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10922757 ATAAAAACCC
* *
10922767 AGAAAAGAAGCTAACTAACCTCCAAA
1 AGAAAAGAAGCTAACAAACATCCAAA
10922793 AGAAAAGAAGCTAGA-AAACATCCA
1 AGAAAAGAAGCTA-ACAAACATCCA
10922817 TTGGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.56, C:0.20, G:0.14, T:0.10
Consensus pattern (26 bp):
AGAAAAGAAGCTAACAAACATCCAAA
Found at i:10924682 original size:3 final size:3
Alignment explanation
Indices: 10924674--10924711 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10924664 CCATTTACCT
10924674 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10924712 GAAAGAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10926613 original size:26 final size:27
Alignment explanation
Indices: 10926584--10926639 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
10926574 GTAATGTAAC
10926584 AAAGGA-AAAAAAAACAGTACCCTTTA
1 AAAGGATAAAAAAAACAGTACCCTTTA
*
10926610 AAA-GATCAAAAAAACAGTACCCTTTA
1 AAAGGATAAAAAAAACAGTACCCTTTA
10926636 AAAG
1 AAAG
10926640 ATCGCGTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.57, C:0.16, G:0.11, T:0.16
Consensus pattern (27 bp):
AAAGGATAAAAAAAACAGTACCCTTTA
Found at i:10926640 original size:26 final size:26
Alignment explanation
Indices: 10926591--10926642 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10926581 AACAAAGGAA
10926591 AAAAAAACAGTACCCTTTAAAAGATC
1 AAAAAAACAGTACCCTTTAAAAGATC
10926617 AAAAAAACAGTACCCTTTAAAAGATC
1 AAAAAAACAGTACCCTTTAAAAGATC
10926643 GCGTTGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (26 bp):
AAAAAAACAGTACCCTTTAAAAGATC
Found at i:10929993 original size:19 final size:19
Alignment explanation
Indices: 10929971--10930016 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
10929961 ATTTTTTTTT
10929971 AATTTAATTTCTTT-T-ATA
1 AATTTAATTT-TTTATAATA
10929989 GAATTTAATTTTTTATAATA
1 -AATTTAATTTTTTATAATA
10930009 AATTTAAT
1 AATTTAAT
10930017 AACATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.12
19 19 0.76
20 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTAATTTTTTATAATA
Found at i:10932840 original size:2 final size:2
Alignment explanation
Indices: 10932833--10932857 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10932823 CAAATACCTA
10932833 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10932858 CATGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10933844 original size:15 final size:15
Alignment explanation
Indices: 10933824--10933855 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10933814 CTAACAATGA
10933824 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
10933839 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
10933854 TT
1 TT
10933856 GTAACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTCTTCTTCTT
Found at i:10934325 original size:22 final size:22
Alignment explanation
Indices: 10934273--10934325 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
10934263 ATTGTTGTTA
*
10934273 TGTTGTTATTTTGCTATCATTC
1 TGTTGTTATATTGCTATCATTC
* * * * *
10934295 CGTTATTATATTGTTATTATTT
1 TGTTGTTATATTGCTATCATTC
10934317 TGTTGTTAT
1 TGTTGTTAT
10934326 TGTTAGAATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.17, C:0.08, G:0.13, T:0.62
Consensus pattern (22 bp):
TGTTGTTATATTGCTATCATTC
Found at i:10936204 original size:15 final size:15
Alignment explanation
Indices: 10936184--10936213 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10936174 TTTCATATAA
10936184 AATAATTAATTTTTT
1 AATAATTAATTTTTT
10936199 AATAATTAATTTTTT
1 AATAATTAATTTTTT
10936214 CCTTAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATAATTAATTTTTT
Found at i:10936459 original size:34 final size:34
Alignment explanation
Indices: 10936386--10936459 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
10936376 ATAAAAAAAT
10936386 TAAATA-AATAATTTTTATTTAAATTTAATAATA
1 TAAATATAATAATTTTTATTTAAATTTAATAATA
* * *
10936419 TTAATATAAT-ATTTTT-TTTAAAATTTTATTATTA
1 TAAATATAATAATTTTTATTT-AAA-TTTAATAATA
10936453 TAAATAT
1 TAAATAT
10936460 CACAAATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
32 3 0.09
33 14 0.41
34 17 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (34 bp):
TAAATATAATAATTTTTATTTAAATTTAATAATA
Found at i:10939404 original size:2 final size:2
Alignment explanation
Indices: 10939355--10939387 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10939345 AGCAACTTTG
10939355 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10939388 GTCCAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10942066 original size:3 final size:3
Alignment explanation
Indices: 10942058--10942093 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10942048 TAAAATTTTT
10942058 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
10942094 TTTTTTATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10943081 original size:2 final size:2
Alignment explanation
Indices: 10943074--10943124 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
10943064 GACGTCACGC
10943074 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10943116 AT AT AT AT A
1 AT AT AT AT A
10943125 AAGAATAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10943951 original size:20 final size:21
Alignment explanation
Indices: 10943916--10943954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10943906 AATAAATTTT
*
10943916 AAAATTCAAAATATTTATAAA
1 AAAATCCAAAATATTTATAAA
10943937 AAAATCCAAAA-ATTTATA
1 AAAATCCAAAATATTTATA
10943955 TTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATCCAAAATATTTATAAA
Found at i:10944117 original size:16 final size:16
Alignment explanation
Indices: 10944098--10944128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10944088 TTGAAAAAGT
10944098 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
10944114 TTTCAAATTTATATG
1 TTTCAAATATATATG
10944129 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:10948879 original size:17 final size:18
Alignment explanation
Indices: 10948859--10948903 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
10948849 CATGAATATA
* *
10948859 AATA-TAATACTAATGGT
1 AATAGTAATAATAATGAT
10948876 AATAGT-ATAATAATGAT
1 AATAGTAATAATAATGAT
10948893 AATAGTAATAA
1 AATAGTAATAA
10948904 AAAACAACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.33
Consensus pattern (18 bp):
AATAGTAATAATAATGAT
Found at i:10950154 original size:46 final size:46
Alignment explanation
Indices: 10949749--10950154 Score: 589
Period size: 46 Copynumber: 8.8 Consensus size: 46
10949739 TGATGTCATA
* * * * * * *
10949749 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATA
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
** *** *
10949795 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATG
* *
10949842 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
** *
10949888 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
10949934 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
10949980 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
* *
10950026 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
10950072 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
10950118 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
10950155 AGAGCACACT
Statistics
Matches: 337, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 299 0.89
47 38 0.11
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:10952558 original size:3 final size:3
Alignment explanation
Indices: 10952552--10952589 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
10952542 AATAATAATA
*
10952552 ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
10952590 AATAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:10953530 original size:16 final size:16
Alignment explanation
Indices: 10953498--10953543 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
10953488 ATCGATTTGA
10953498 AAAGAAAAGA-AAGAAAG
1 AAAGAAAA-ATAA-AAAG
10953515 TAAA-AAAAATAAAAAG
1 -AAAGAAAAATAAAAAG
10953531 AAAGAAAAATAAA
1 AAAGAAAAATAAA
10953544 TAAATAGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 6 0.23
18 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAGAAAAATAAAAAG
Found at i:10953530 original size:20 final size:20
Alignment explanation
Indices: 10953507--10953547 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
10953497 AAAAGAAAAG
10953507 AAAGAAAGTAAAAA-AAATAA
1 AAAGAAAG-AAAAATAAATAA
10953527 AAAGAAAGAAAAATAAATAA
1 AAAGAAAGAAAAATAAATAA
10953547 A
1 A
10953548 TAGCGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAGAAAGAAAAATAAATAA
Found at i:10954304 original size:44 final size:43
Alignment explanation
Indices: 10954224--10954465 Score: 182
Period size: 44 Copynumber: 5.6 Consensus size: 43
10954214 TTAACCTGTC
* * ** **
10954224 CCACTGCAACTTCAGGGGGGTAAGGTTTGTGGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAA-GACTGTGATTTCAATCTACT
* * * *
10954268 CCACTGCAACTTCAGGAAGATAAGACTAGTGACTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACT-GTGATTTCAATCTACT
* * * * ** *
10954312 CCACTACAACTTTAGGGAGATAAG-GTTTG-TTTTGATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTGTGATTTCAATCTACT
* * * * *
10954353 CTACTGCAACTTCAGAGAGACAAGATCTGTAATTTCAACCTACT
1 CCACTGCAACTTCAGGGAGATAAGA-CTGTGATTTCAATCTACT
* ** * * *
10954397 CCACTGCATCTTCAGGGAGATAAGGTTAATGGTTTCGATCTACT
1 CCACTGCAACTTCAGGGAGATAAGACT-GTGATTTCAATCTACT
10954441 CCACTGCAACTTCAGGGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
10954466 TTTGTAAGCT
Statistics
Matches: 151, Mismatches: 42, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
41 27 0.18
42 2 0.01
43 6 0.04
44 116 0.77
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGAGATAAGACTGTGATTTCAATCTACT
Found at i:10954399 original size:85 final size:86
Alignment explanation
Indices: 10954224--10954472 Score: 270
Period size: 85 Copynumber: 2.9 Consensus size: 86
10954214 TTAACCTGTC
* * * * * *
10954224 CCACTGCAACTTCAGGGGGGTAAGGTTTGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGAT
1 CCACTACAACTTCAGGGAGATAAGG-TTATGGTTTCGATCTACTCCACTGCAACTTCAGG-AGAT
* *
10954289 AAGA-CTAGTGACTTCAACCTGCT
64 AAGATCT-GTAACTTCAACCTACT
* * * * *
10954312 CCACTACAACTTTAGGGAGATAAGGTT-T-GTTTTGATCTGCTCTACTGCAACTTCAGAGAGACA
1 CCACTACAACTTCAGGGAGATAAGGTTATGGTTTCGATCTACTCCACTGCAACTTCAG-GAGATA
*
10954375 AGATCTGTAATTTCAACCTACT
65 AGATCTGTAACTTCAACCTACT
* *
10954397 CCACTGCATCTTCAGGGAGATAAGGTTAATGGTTTCGATCTACTCCACTGCAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGAGATAAGGTT-ATGGTTTCGATCTACTCCACTGCAACTTCA-GGAGAT
*
10954462 AAGATTTGTAA
64 AAGATCTGTAA
10954473 GCTTTCAAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
85 67 0.50
86 4 0.03
87 3 0.02
88 59 0.44
89 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (86 bp):
CCACTACAACTTCAGGGAGATAAGGTTATGGTTTCGATCTACTCCACTGCAACTTCAGGAGATAA
GATCTGTAACTTCAACCTACT
Found at i:10955621 original size:27 final size:24
Alignment explanation
Indices: 10955570--10955628 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 24
10955560 GTAAAATGGG
10955570 TTTAAAATAAGGTATATAAAATAA
1 TTTAAAATAAGGTATATAAAATAA
*
10955594 TTTTAAAATAA-GTAATATATAAGTTAA
1 -TTTAAAATAAGGT-ATATA-AA-ATAA
10955621 TTTAAAAT
1 TTTAAAAT
10955629 GATATATAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 15 0.50
26 10 0.33
27 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
TTTAAAATAAGGTATATAAAATAA
Found at i:10958280 original size:14 final size:15
Alignment explanation
Indices: 10958248--10958293 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
10958238 ATTGTTTACT
*
10958248 TATTATTTA-AGTAAA
1 TATTATTTATA-TTAA
10958263 TATTA-TTATATTAA
1 TATTATTTATATTAA
10958277 TATTATTTTATATTAA
1 TATTA-TTTATATTAA
10958293 T
1 T
10958294 TAAATAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.41
15 6 0.22
16 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTTATATTAA
Found at i:10958818 original size:12 final size:11
Alignment explanation
Indices: 10958798--10958849 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
10958788 GGTAAGATTA
*
10958798 AAATTGAAATT
1 AAATAGAAATT
10958809 AAAGTAGAAATT
1 AAA-TAGAAATT
*
10958821 GAATAGAAATT
1 AAATAGAAATT
*
10958832 GAATAAGAAATTT
1 AAAT-AGAAA-TT
10958845 AAATA
1 AAATA
10958850 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:10958829 original size:11 final size:11
Alignment explanation
Indices: 10958803--10958843 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
10958793 GATTAAAATT
*
10958803 GAAATTAAAGTA
1 GAAATTGAA-TA
10958815 GAAATTGAATA
1 GAAATTGAATA
10958826 GAAATTGAATAA
1 GAAATTGAAT-A
10958838 GAAATT
1 GAAATT
10958844 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:10959216 original size:24 final size:22
Alignment explanation
Indices: 10959183--10959242 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 22
10959173 TTTACAATTG
* *
10959183 AAATGGATTGATTTGGTATGTGAT
1 AAATGTATTGATTT-ATATG-GAT
10959207 AAATGTATTGAATTTATATGGAT
1 AAATGTATTG-ATTTATATGGAT
*
10959230 ATATGTGATTGAT
1 AAATGT-ATTGAT
10959243 GTGTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.32
24 17 0.55
25 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (22 bp):
AAATGTATTGATTTATATGGAT
Found at i:10959553 original size:44 final size:44
Alignment explanation
Indices: 10959504--10959595 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
10959494 TGTTTAGGGA
* *
10959504 TACTTCGACCTT-TAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
**
10959548 TACTTCGACTTCGAGTCGATGAGGCACCATGTGTGTCGTACTGT
1 TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
10959592 TACT
1 TACT
10959596 GTTACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTCGAGTCGATGAGGCACCATAAGTGTCGTACTGT
Found at i:10959771 original size:18 final size:18
Alignment explanation
Indices: 10959748--10959829 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
10959738 TGAATAAAGG
*
10959748 TACTGAATGACTGACTGT
1 TACTGAATGACTGATTGT
*
10959766 TACTGAATGATTGATTGT
1 TACTGAATGACTGATTGT
* * *
10959784 TATTGAATAACTGATTGC
1 TACTGAATGACTGATTGT
* *
10959802 TACTGAATAATTGATTGT
1 TACTGAATGACTGATTGT
10959820 TACTGAATGA
1 TACTGAATGA
10959830 TACTAATAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (18 bp):
TACTGAATGACTGATTGT
Found at i:10959791 original size:36 final size:36
Alignment explanation
Indices: 10959748--10959829 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
10959738 TGAATAAAGG
* *
10959748 TACTGAATGACTGACTGTTACTGAATGATTGATTGT
1 TACTGAATGACTGACTGCTACTGAATAATTGATTGT
* * *
10959784 TATTGAATAACTGATTGCTACTGAATAATTGATTGT
1 TACTGAATGACTGACTGCTACTGAATAATTGATTGT
10959820 TACTGAATGA
1 TACTGAATGA
10959830 TACTAATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (36 bp):
TACTGAATGACTGACTGCTACTGAATAATTGATTGT
Found at i:10959825 original size:28 final size:28
Alignment explanation
Indices: 10959793--10959846 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
10959783 TTATTGAATA
* *
10959793 ACTGATTGCTACTGAAT-AATTGATTGTT
1 ACTGAATGATACT-AATAAATTGATTGTT
10959821 ACTGAATGATACTAATAAATTGATTG
1 ACTGAATGATACTAATAAATTGATTG
10959847 ATATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (28 bp):
ACTGAATGATACTAATAAATTGATTGTT
Found at i:10963635 original size:125 final size:123
Alignment explanation
Indices: 10963398--10964076 Score: 650
Period size: 125 Copynumber: 5.4 Consensus size: 123
10963388 AGCATAAGGA
* *
10963398 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGG-TTACGACTTTTTCATT
1 AATATTTCGTGTTTGGAAGTTTGAGGAGTCGTGCCCAATCGTGCTGGGCTT-C-A-TTTTTCATT
* * * * * * * *
10963462 CAACTGAACTAGGGAATATCCTTGTGAGATTTCATCCATGTTTCTT-AAATGGAAACGAGGC
63 CGACTAAAATACGGAATATCCTTTTGAAATTTCATCCATGTTTTTTAAAAT-AAAACGAGGC
* * * * *
10963523 AATATTTCGTGTTTGGGAGTTCGAGGGGTCGTGCCCAATCGGGCTGGGCTTCGATTTTTCGTTC-
1 AATATTTCGTGTTTGGAAGTTTGAGGAGTCGTGCCCAATCGTGCTGGGCTTC-ATTTTTCATTCG
* ** * *
10963587 AGCTAAAATACGGAATATCCTTTGGAAATTTTGTCCATGTTTTTTTAAAAAAATTAAAATGAGAC
65 A-CTAAAATACGGAATATCCTTTTGAAATTTCATCCATG-TTTTTT---AAAA-TAAAACGAGGC
* * * * *
10963652 AATATATCGTATTTGGGGAGTTTGA-GAGATCGTGTCCAATCGTGCTGGGTTTCATTTTTTTCAT
1 AATATTTCGTGTTT-GGAAGTTTGAGGAG-TCGTGCCCAATCGTGCTGGGCTTCA--TTTTTCAT
** *
10963716 TCGACTAAAATATAGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
62 TCGACTAAAATACGGAATATCC--TTTTGAAATTTCATCCATGTTTT-TTAAAATAAAACGAGGC
* *
10963781 AATATTTCGTGTTTGGAAGTTTG-GGAAGTTGTGCCCAATCGTGCTGGGCTTCAATTTTCTATTC
1 AATATTTCGTGTTTGGAAGTTTGAGG-AGTCGTGCCCAATCGTGCTGGGCTTCATTTTTC-ATTC
* * **
10963845 GACTAAAATATGGAATATACTTTTTGAAATTTCATCCACATTTTCTTAAAATAAAACGAGGC
64 GACTAAAATACGGAATAT-CCTTTTGAAATTTCATCCATGTTTT-TTAAAATAAAACGAGGC
*
10963907 AATATTTCGTGTTTGGAAGTTTG-GGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTC
1 AATATTTCGTGTTTGGAAGTTTGAGG-AGTCGTGCCCAATCGTGCTGGGCTTC-ATTTTTCATTC
* * * * * *
10963971 GACTAAAATACAGAATATCCTTTTAAAATTTCGTCCATGTTTTCTCAAATTAAAATGAGGC
64 GACTAAAATACGGAATATCCTTTTGAAATTTCATCCATGTTTT-TTAAAATAAAACGAGGC
* * * * * ** *
10964032 AATGTTTCGTATTTGAAAATTCGATAAATCGTGCCCAATCGTGCT
1 AATATTTCGTGTTTGGAAGTTTGAGGAGTCGTGCCCAATCGTGCT
10964077 AGGTTTCGAT
Statistics
Matches: 466, Mismatches: 66, Indels: 44
0.81 0.11 0.08
Matches are distributed among these distances:
123 1 0.00
124 38 0.08
125 121 0.26
126 118 0.25
127 26 0.06
128 32 0.07
129 48 0.10
130 35 0.08
131 25 0.05
132 5 0.01
133 17 0.04
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (123 bp):
AATATTTCGTGTTTGGAAGTTTGAGGAGTCGTGCCCAATCGTGCTGGGCTTCATTTTTCATTCGA
CTAAAATACGGAATATCCTTTTGAAATTTCATCCATGTTTTTTAAAATAAAACGAGGC
Found at i:10963889 original size:126 final size:125
Alignment explanation
Indices: 10963398--10964076 Score: 688
Period size: 126 Copynumber: 5.4 Consensus size: 125
10963388 AGCATAAGGA
* * *
10963398 AATATTTCGTGTTTGGAAGTTTGAGAAATCGTGCCCAATCGTGCTGGG-TTACGACTTTTTCATT
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTT-C-AATTTTTCATT
* * * * * * * *
10963462 CAACTGAACTAGGGAATATCCTTGTGAGATTTCATCCATG-TTTCTT-AAATGGAAACGAGGC
64 CGACTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAAAT-AAAACGAGGC
* * * * * *
10963523 AATATTTCGTGTTTGGGAGTTCGAGG-GGTCGTGCCCAATCGGGCTGGGCTTCGATTTTTCGTTC
1 AATATTTCGTGTTTGGAAGTTTG-GGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTC
* ** * * * *
10963587 -AGCTAAAATACGGAATATCCTTTGGAAATTTTGTCCATGTTTTTTTAAAAAAATTAAAATGAGA
65 GA-CTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTT---AAAA-TAAAACGAGG
10963651 C
125 C
* * * * * * *
10963652 AATATATCGTATTTGGGGAGTTTGAG-AGATCGTGTCCAATCGTGCTGGGTTTCATTTTTTTCAT
1 AATATTTCGTGTTT-GGAAGTTTGGGAAG-TCGTGCCCAATCGTGCTGGGCTTCA-ATTTTTCAT
**
10963716 TCGACTAAAATATAGAATATCCTTTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
63 TCGACTAAAATACGGAATATCC--TTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
*
10963781 AATATTTCGTGTTTGGAAGTTTGGGAAGTTGTGCCCAATCGTGCTGGGCTTCAA-TTTTCTATTC
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTC-ATTC
* * *
10963845 GACTAAAATATGGAATATACTTTTTGAAATTTCATCCACATTTTCTTAAAATAAAACGAGGC
65 GACTAAAATACGGAATAT-CCTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
*
10963907 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCG
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTCG
* * * * * * *
10963972 ACTAAAATACAGAATATCCTTTTAAAATTTCGTCCATGTTTTCTCAAATTAAAATGAGGC
66 ACTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
* * * * * ** *
10964032 AATGTTTCGTATTTGAAAATTCGATAAATCGTGCCCAATCGTGCT
1 AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCT
10964077 AGGTTTCGAT
Statistics
Matches: 463, Mismatches: 72, Indels: 38
0.81 0.13 0.07
Matches are distributed among these distances:
123 1 0.00
124 38 0.08
125 118 0.25
126 121 0.26
127 25 0.05
128 32 0.07
129 47 0.10
130 34 0.07
131 25 0.05
132 1 0.00
133 21 0.05
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (125 bp):
AATATTTCGTGTTTGGAAGTTTGGGAAGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTCG
ACTAAAATACGGAATATCCTTTTGAAATTTCATCCACGTTTTCTTAAAATAAAACGAGGC
Found at i:10981025 original size:15 final size:15
Alignment explanation
Indices: 10981005--10981034 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10980995 TAGAAAATGC
10981005 ATGCATTTATCATGA
1 ATGCATTTATCATGA
*
10981020 ATGCATTTATTATGA
1 ATGCATTTATCATGA
10981035 GAATATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (15 bp):
ATGCATTTATCATGA
Found at i:10981769 original size:21 final size:20
Alignment explanation
Indices: 10981731--10981783 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
10981721 ACCCTTTCAA
*
10981731 TTTTTTAAT-T-ATTTTTTT
1 TTTTTTAATATAATTATTTT
10981749 TGTTTTTAATATAATTATTTT
1 T-TTTTTAATATAATTATTTT
10981770 TTTATTTAATATAA
1 TTT-TTTAATATAA
10981784 ATAACATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 8 0.27
20 3 0.10
21 18 0.60
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTAATATAATTATTTT
Found at i:10985652 original size:35 final size:35
Alignment explanation
Indices: 10985561--10985726 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
10985551 CATGGCAAAG
*
10985561 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
10985596 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
10985631 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
10985671 TAAGAAATGTAGGT-TGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
**
10985705 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
10985727 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 22 0.19
35 59 0.52
36 1 0.01
37 2 0.02
38 1 0.01
39 4 0.04
40 24 0.21
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:10987242 original size:16 final size:17
Alignment explanation
Indices: 10987221--10987253 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
10987211 TACCCCGGTT
10987221 GCTCCTCCT-CTTAATA
1 GCTCCTCCTCCTTAATA
10987237 GCTCCTCCTCCTTAATA
1 GCTCCTCCTCCTTAATA
10987254 ACTGAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.39, G:0.06, T:0.36
Consensus pattern (17 bp):
GCTCCTCCTCCTTAATA
Found at i:10993130 original size:35 final size:35
Alignment explanation
Indices: 10993039--10993204 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
10993029 CATGGTAAAG
*
10993039 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
*
10993074 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
10993109 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGT
** * *
10993149 TAAGAAATGTAGGT-TGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGT
**
10993183 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
10993205 TCAATGAGGA
Statistics
Matches: 114, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 1 0.01
34 22 0.19
35 59 0.52
36 1 0.01
37 2 0.02
38 1 0.01
39 4 0.04
40 24 0.21
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
Found at i:10995011 original size:131 final size:131
Alignment explanation
Indices: 10994667--10995019 Score: 317
Period size: 131 Copynumber: 2.7 Consensus size: 131
10994657 CGGGAGATTG
* * * * * * * **
10994667 CAACCTAGCACGATAGGGCGCTATTCCCCGAATTGCCAAACATCGAACAT-TTCTTCCGTTTTAA
1 CAACCCAGCACGATAGGGCACGATT-CCCAAATTACCAAACATCTAAGATCACCTT-CGTTTTAA
* * * *
10994731 AGAGTTTTTAGAAAACGA-GAGTGAAATTCCAAAGGGATCTTTGATTGTTTTGAACAAACGAAAA
64 AGGGTTTTTAGAAAAC-ATGAGTGAAATACCAAAGGAATCTTCGATTGTTTTGAACAAACGAAAA
* *
10994795 TGCG
128 TCCA
* * **
10994799 CAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATCTAAGATCACCTTCGTTTCGGAA
1 CAACCCAGCACGATAGGGCACGATTCCCAAATTACCAAACATCTAAGATCACCTTCGTTT-TAAA
* *
10994864 -GGTTTTTA-ATAAACATGAGTGAAA-ACCTAAATGAATGTTCGATTGTTTTGAACAAACGAGAA
65 GGGTTTTTAGA-AAACATGAGTGAAATACC-AAAGGAATCTTCGATTGTTTTGAACAAACGA-AA
10994926 A-CCA
127 ATCCA
* * * **
10994930 CAACCCAGCACGATAGGGCATGATTCCCGAATTATCAAACA-C-AGAGTATTGCCTTCGTTTTAA
1 CAACCCAGCACGATAGGGCACGATTCCCAAATTACCAAACATCTA-AG-ATCACCTTCGTTTTAA
* *
10994993 AGGGTTTTTAGAAGACATGGGTGAAAT
64 AGGGTTTTTAGAAAACATGAGTGAAAT
10995020 TTTGGAGGGA
Statistics
Matches: 180, Mismatches: 30, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
129 1 0.01
130 9 0.05
131 139 0.77
132 31 0.17
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (131 bp):
CAACCCAGCACGATAGGGCACGATTCCCAAATTACCAAACATCTAAGATCACCTTCGTTTTAAAG
GGTTTTTAGAAAACATGAGTGAAATACCAAAGGAATCTTCGATTGTTTTGAACAAACGAAAATCC
A
Found at i:10996059 original size:2 final size:2
Alignment explanation
Indices: 10996052--10996085 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10996042 ATGAGTGTAT
*
10996052 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10996086 AATTAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:10996219 original size:15 final size:15
Alignment explanation
Indices: 10996201--10996229 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10996191 AAAATAATTT
10996201 TATACAAAACATATA
1 TATACAAAACATATA
10996216 TATACAAAACATAT
1 TATACAAAACATAT
10996230 TATCATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
TATACAAAACATATA
Found at i:10998331 original size:28 final size:26
Alignment explanation
Indices: 10998300--10998360 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
10998290 ACCTTAATAT
* *
10998300 TTTTTCCTACTTTTAATGTCATAATG-
1 TTTTTCCTACATTTAATATC-TAATGC
*
10998326 TCTTTTCTCTACATTTCATATCTAATGC
1 T-TTTTC-CTACATTTAATATCTAATGC
10998354 TTTTTCC
1 TTTTTCC
10998361 CTGCGTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 2 0.07
27 15 0.52
28 12 0.41
ACGTcount: A:0.20, C:0.21, G:0.05, T:0.54
Consensus pattern (26 bp):
TTTTTCCTACATTTAATATCTAATGC
Found at i:10999360 original size:21 final size:22
Alignment explanation
Indices: 10999325--10999365 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10999315 TAGGTTTATA
*
10999325 ATATAATATATAAGTTAAATAT
1 ATATAATAAATAAGTTAAATAT
10999347 ATATAA-AAATAAGTTAAAT
1 ATATAATAAATAAGTTAAAT
10999366 TAAAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
ATATAATAAATAAGTTAAATAT
Found at i:10999613 original size:54 final size:54
Alignment explanation
Indices: 10999531--10999636 Score: 212
Period size: 54 Copynumber: 2.0 Consensus size: 54
10999521 ACAGTCTTTG
10999531 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAATA
1 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAATA
10999585 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAA
1 GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAA
10999637 CATGTCAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.27
Consensus pattern (54 bp):
GTGTTCAATTGTATAAAAAATGCCTATGCCATATCACCGCATGTAAAAAAAATA
Found at i:11002117 original size:18 final size:18
Alignment explanation
Indices: 11002096--11002131 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11002086 CAATTAAACC
11002096 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
11002114 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
11002132 TAATTGAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:11002128 original size:4 final size:4
Alignment explanation
Indices: 11002108--11002177 Score: 54
Period size: 4 Copynumber: 16.8 Consensus size: 4
11002098 TTGATTGATA
* * *
11002108 TATT TAATT TGATT TATT TATT TA-T AATT GAGTAT TA-T TATA TATT
1 TATT T-ATT T-ATT TATT TATT TATT TATT TA-T-T TATT TATT TATT
11002154 TATT TGATT TATT TATT TATT TAT
1 TATT T-ATT TATT TATT TATT TAT
11002178 AAATAAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
3 5 0.09
4 34 0.63
5 13 0.24
6 2 0.04
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:11003008 original size:7 final size:7
Alignment explanation
Indices: 11002967--11003000 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
11002957 GGTTATTAAT
11002967 TTTTTTA
1 TTTTTTA
11002974 TTTTTTA
1 TTTTTTA
11002981 TTTTTTA
1 TTTTTTA
11002988 TTTTTTA
1 TTTTTTA
11002995 TTTTTT
1 TTTTTT
11003001 TTACTTTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:11006250 original size:18 final size:18
Alignment explanation
Indices: 11006229--11006263 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11006219 ATTTGGCAGT
*
11006229 CCAACTAGATTTTAAGTG
1 CCAAATAGATTTTAAGTG
11006247 CCAAATAGATTTTAAGT
1 CCAAATAGATTTTAAGT
11006264 ATATCTGTTA
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:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (18 bp):
CCAAATAGATTTTAAGTG
Found at i:11009594 original size:6 final size:6
Alignment explanation
Indices: 11009583--11009636 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
11009573 AATGAGATGT
11009583 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
11009631 CATTTC
1 CATTTC
11009637 TTCTATCGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (6 bp):
CATTTC
Found at i:11009867 original size:20 final size:20
Alignment explanation
Indices: 11009844--11009885 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
11009834 GAGCCAGATA
11009844 GAATATAATTGCTTTTAAAG
1 GAATATAATTGCTTTTAAAG
11009864 GAATATAATTGCTTTTAAAG
1 GAATATAATTGCTTTTAAAG
11009884 GA
1 GA
11009886 TAAGGTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
GAATATAATTGCTTTTAAAG
Found at i:11011357 original size:37 final size:32
Alignment explanation
Indices: 11011310--11011392 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 32
11011300 TTAAGCCCCC
11011310 AAAA-AAAAACCTAACCCCCCCAAAAAAAAAAGAAGA
1 AAAAGAAAAACCTAA--CCCCC-AAAAAAAAAG-A-A
*
11011346 AAAAGACAAACCTAA--CCCAAAAAAAAAGAA
1 AAAAGAAAAACCTAACCCCCAAAAAAAAAGAA
11011376 AAAAGAAAAACCTAACC
1 AAAAGAAAAACCTAACC
11011393 AAAAAAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
30 15 0.36
31 1 0.02
32 10 0.24
33 3 0.07
36 4 0.10
37 9 0.21
ACGTcount: A:0.67, C:0.23, G:0.06, T:0.04
Consensus pattern (32 bp):
AAAAGAAAAACCTAACCCCCAAAAAAAAAGAA
Found at i:11011368 original size:29 final size:30
Alignment explanation
Indices: 11011329--11011415 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
11011319 CCTAACCCCC
*
11011329 CCAAAAAAAAAAGAAGAAAAAGACAAACCTAA
1 CCAAAAAAAAAAG-A-AAAAAGAAAAACCTAA
*
11011361 CCCAAAAAAAAAGAAAAAAGAAAAACCTAA
1 CCAAAAAAAAAAGAAAAAAGAAAAACCTAA
*
11011391 CCAAAAAAATAAA-AATAAA-AAAAAC
1 CCAAAAAAA-AAAGAAAAAAGAAAAAC
11011416 TTAGCCACCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 6 0.12
30 28 0.56
31 4 0.08
32 12 0.24
ACGTcount: A:0.75, C:0.15, G:0.06, T:0.05
Consensus pattern (30 bp):
CCAAAAAAAAAAGAAAAAAGAAAAACCTAA
Found at i:11011720 original size:13 final size:13
Alignment explanation
Indices: 11011702--11011751 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
11011692 TATATACATC
11011702 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
11011715 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
11011728 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
11011743 ATAA-AAAAA
1 ATAATAAAAA
11011752 TTACATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.03
13 19 0.59
14 6 0.19
15 6 0.19
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:11011935 original size:29 final size:29
Alignment explanation
Indices: 11011879--11011935 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
11011869 TCTCTTCTTT
* *
11011879 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
11011908 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
11011936 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:11012204 original size:11 final size:11
Alignment explanation
Indices: 11012186--11012215 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11012176 GTGTATATTG
11012186 TATATATTATA
1 TATATATTATA
*
11012197 TTTATATTATA
1 TATATATTATA
11012208 TATATATT
1 TATATATT
11012216 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:11012702 original size:2 final size:2
Alignment explanation
Indices: 11012695--11012725 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11012685 GTATTTCATG
*
11012695 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11012726 GTTATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11012726 original size:10 final size:10
Alignment explanation
Indices: 11012697--11012732 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
11012687 ATTTCATGTA
*
11012697 TATATATATA
1 TATATATATG
11012707 TATATATATG
1 TATATATATG
11012717 TATATATATG
1 TATATATATG
11012727 T-TATAT
1 TATATAT
11012733 GTAGATATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (10 bp):
TATATATATG
Found at i:11013626 original size:30 final size:32
Alignment explanation
Indices: 11013586--11013667 Score: 96
Period size: 33 Copynumber: 2.6 Consensus size: 32
11013576 AGTAAAAATT
*
11013586 TATAAATAAATATTAATAA-CTTTATTA-TAA
1 TATAAATAAATATTAATAACCATTATTATTAA
* * *
11013616 TATAATTAAATAATAATTAACCATTATTATTAT
1 TATAAATAAATATTAA-TAACCATTATTATTAA
*
11013649 TATAAACAAATATTAATAA
1 TATAAATAAATATTAATAA
11013668 GCCTAAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 14 0.33
31 3 0.07
32 10 0.24
33 15 0.36
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
TATAAATAAATATTAATAACCATTATTATTAA
Found at i:11016313 original size:20 final size:20
Alignment explanation
Indices: 11016288--11016328 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11016278 TTTTTAATTT
11016288 TAACCATCAAACCATAGAAG
1 TAACCATCAAACCATAGAAG
* *
11016308 TAACCATCTAACCATGGAAG
1 TAACCATCAAACCATAGAAG
11016328 T
1 T
11016329 TGACATGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (20 bp):
TAACCATCAAACCATAGAAG
Found at i:11020011 original size:22 final size:22
Alignment explanation
Indices: 11019977--11020038 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
11019967 AGTTCTAGAC
11019977 ATTAATTATATAAAAAATAAT-AA
1 ATTAA-TA-ATAAAAAATAATGAA
* *
11020000 ATATAATAATAACATATAATGAA
1 AT-TAATAATAAAAAATAATGAA
**
11020023 ATTAATGTTAAAAAAT
1 ATTAATAATAAAAAAT
11020039 TTAATTAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 20 0.65
23 8 0.26
24 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (22 bp):
ATTAATAATAAAAAATAATGAA
Found at i:11021560 original size:40 final size:36
Alignment explanation
Indices: 11021515--11021601 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 36
11021505 AATATCGTAC
*
11021515 ATATTTTATGTAT-TATTATGATTAATTAGTTTTAAACCAT
1 ATATTTTAT-TATCTATTAT-A-T-ATTACTTTTAAA-CAT
*
11021555 ATATTTTATTATCTATTATATGTTACTTTTAAACAT
1 ATATTTTATTATCTATTATATATTACTTTTAAACAT
11021591 ATATTTATATT
1 ATATTT-TATT
11021602 TTAAAATCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
36 9 0.21
37 14 0.33
38 1 0.02
39 4 0.09
40 15 0.35
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (36 bp):
ATATTTTATTATCTATTATATATTACTTTTAAACAT
Found at i:11026458 original size:3 final size:3
Alignment explanation
Indices: 11026450--11026478 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11026440 CCCCTTGCCC
11026450 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
11026479 TACTAGACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.69, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:11026682 original size:39 final size:39
Alignment explanation
Indices: 11026639--11026725 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
11026629 TGCCCCTCCT
11026639 CCTCCACCTCCACCACC-CTCATTGAAGTCCACTGCCCCA
1 CCTCCACCTCCACCACCGC-CATTGAAGTCCACTGCCCCA
* * * * *
11026678 CCTCCACCCCCTCCACCGCCATTGATGTCTAGTGCCCCA
1 CCTCCACCTCCACCACCGCCATTGAAGTCCACTGCCCCA
11026717 CCTCCACCT
1 CCTCCACCT
11026726 TCATTGCTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 40 0.98
40 1 0.02
ACGTcount: A:0.17, C:0.54, G:0.09, T:0.20
Consensus pattern (39 bp):
CCTCCACCTCCACCACCGCCATTGAAGTCCACTGCCCCA
Found at i:11026943 original size:31 final size:33
Alignment explanation
Indices: 11026908--11026976 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
11026898 TGGAGAACCA
*
11026908 GCACCG-CCCC-CCTCCTATGCGTGGGGCACCT
1 GCACCGCCCCCGCCTCCTATGCGGGGGGCACCT
*
11026939 GCACCGCCCCCGCCTCCTATGCGGGGGGCTCCT
1 GCACCGCCCCCGCCTCCTATGCGGGGGGCACCT
*
11026972 CCACC
1 GCACC
11026977 TCCTCCAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 6 0.18
32 4 0.12
33 23 0.70
ACGTcount: A:0.09, C:0.51, G:0.26, T:0.14
Consensus pattern (33 bp):
GCACCGCCCCCGCCTCCTATGCGGGGGGCACCT
Found at i:11035634 original size:5 final size:5
Alignment explanation
Indices: 11035626--11035650 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11035616 TCATGGGATA
11035626 TGATT TGATT TGATT TGATT TGATT
1 TGATT TGATT TGATT TGATT TGATT
11035651 CCTCAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGATT
Found at i:11037417 original size:8 final size:7
Alignment explanation
Indices: 11037389--11037413 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11037379 AGGAAAAAGG
11037389 AAAAGAA
1 AAAAGAA
11037396 AAAAGAA
1 AAAAGAA
11037403 AAAAGAA
1 AAAAGAA
11037410 AAAA
1 AAAA
11037414 AGAATTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:11039895 original size:8 final size:8
Alignment explanation
Indices: 11039882--11039907 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11039872 GACTTTAATC
11039882 TTTTTATT
1 TTTTTATT
11039890 TTTTTATT
1 TTTTTATT
11039898 TTTTTATT
1 TTTTTATT
11039906 TT
1 TT
11039908 ATATATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:11043897 original size:2 final size:2
Alignment explanation
Indices: 11043890--11043917 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11043880 ATTATAACCA
11043890 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
11043918 TTTAAACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11044724 original size:18 final size:17
Alignment explanation
Indices: 11044698--11044731 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11044688 ATAAAATAAA
*
11044698 ATATTTAAAAATCATTAC
1 ATATATAAAAAT-ATTAC
11044716 ATATATAAAAATATTA
1 ATATATAAAAATATTA
11044732 TAGGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATAAAAATATTAC
Found at i:11045099 original size:74 final size:73
Alignment explanation
Indices: 11044960--11045099 Score: 160
Period size: 74 Copynumber: 1.9 Consensus size: 73
11044950 TGATAACTTT
* * ** * *
11044960 GGGGCCAAAAGTAAATTATAATATTTTTAGATATTTAAATTGGAGGTTAAAATAAAATTTGACAA
1 GGGGCCAAAAATAAATTATAACATTTTTAGATAGATAAATTAGAGGTTAAAATAAAATTTAACAA
11045025 AGTTTTAA
66 AGTTTTAA
*
11045033 GGGGCCAAAATATAAATTATCACATTTTTAGATAGAT-AATGTAAGAGG-TAAAATGAAAA-TTA
1 GGGGCCAAAA-ATAAATTATAACATTTTTAGATAGATAAAT-T-AGAGGTTAAAAT-AAAATTTA
11045095 ACAAA
62 ACAAA
11045100 TTTAACAGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
73 13 0.23
74 35 0.62
75 8 0.14
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.31
Consensus pattern (73 bp):
GGGGCCAAAAATAAATTATAACATTTTTAGATAGATAAATTAGAGGTTAAAATAAAATTTAACAA
AGTTTTAA
Found at i:11047589 original size:18 final size:18
Alignment explanation
Indices: 11047538--11047591 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
11047528 AACAAGCCAA
*
11047538 AAATAATAACAATAAAAAT
1 AAATAAT-ACAACAAAAAT
*
11047557 AAA-AATAAAGGACAAAAAT
1 AAATAATACA--ACAAAAAT
11047576 AAATAATACAACAAAA
1 AAATAATACAACAAAA
11047592 CAGCCAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.07
18 9 0.31
19 13 0.45
20 5 0.17
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (18 bp):
AAATAATACAACAAAAAT
Found at i:11047699 original size:3 final size:3
Alignment explanation
Indices: 11047691--11047723 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
11047681 TTTTCTAAAG
11047691 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
11047724 AAGTGTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:11048343 original size:33 final size:33
Alignment explanation
Indices: 11048292--11048366 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 33
11048282 AGGAAAGAAA
* *
11048292 ATAAGAAAGATAGACTACTTTCCTTCTTAATGC
1 ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
11048325 ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
1 ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
11048358 ATAAAAAAA
1 ATAAAAAAA
11048367 CAAATCATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (33 bp):
ATAAAAAAAATAGACTACTTTCCTTCTTAATGC
Found at i:11049316 original size:18 final size:18
Alignment explanation
Indices: 11049295--11049329 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11049285 TCGATCCCTA
*
11049295 TCCCTATCTCGATCACGC
1 TCCCTATCACGATCACGC
11049313 TCCCTATCACGATCACG
1 TCCCTATCACGATCACG
11049330 GTCACGATCT
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:0.20, C:0.43, G:0.11, T:0.26
Consensus pattern (18 bp):
TCCCTATCACGATCACGC
Found at i:11049334 original size:24 final size:24
Alignment explanation
Indices: 11049289--11049335 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11049279 CCTATATCGA
* * *
11049289 TCCCTATCCCTATCTCGATCACGC
1 TCCCTATCACGATCACGATCACGC
*
11049313 TCCCTATCACGATCACGGTCACG
1 TCCCTATCACGATCACGATCACG
11049336 ATCTCTAGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.19, C:0.43, G:0.13, T:0.26
Consensus pattern (24 bp):
TCCCTATCACGATCACGATCACGC
Found at i:11050546 original size:6 final size:6
Alignment explanation
Indices: 11050535--11050564 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11050525 CCAGGGCCAA
*
11050535 CACCAG CACCAG CACCAG CACCAA CACCAG
1 CACCAG CACCAG CACCAG CACCAG CACCAG
11050565 AAACACCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.50, G:0.13, T:0.00
Consensus pattern (6 bp):
CACCAG
Found at i:11050550 original size:12 final size:12
Alignment explanation
Indices: 11050516--11050564 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
11050506 ACCACCACTT
*
11050516 GCACCAACTCCA
1 GCACCAACACCA
**
11050528 GGGCCAACACCA
1 GCACCAACACCA
*
11050540 GCACCAGCACCA
1 GCACCAACACCA
11050552 GCACCAACACCA
1 GCACCAACACCA
11050564 G
1 G
11050565 AAACACCCAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.35, C:0.47, G:0.16, T:0.02
Consensus pattern (12 bp):
GCACCAACACCA
Found at i:11058816 original size:32 final size:32
Alignment explanation
Indices: 11058775--11058841 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
11058765 TCTTGTTAAT
11058775 ATTCTTTTGTGTGTTTTTCTGGTTTTATACAA
1 ATTCTTTTGTGTGTTTTTCTGGTTTTATACAA
11058807 ATTCTTTTGTGTGTTTTTCTGGTTTTATACAA
1 ATTCTTTTGTGTGTTTTTCTGGTTTTATACAA
11058839 ATT
1 ATT
11058842 AGTTTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.16, C:0.09, G:0.15, T:0.60
Consensus pattern (32 bp):
ATTCTTTTGTGTGTTTTTCTGGTTTTATACAA
Found at i:11058864 original size:30 final size:32
Alignment explanation
Indices: 11058780--11058864 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
11058770 TTAATATTCT
* * **
11058780 TTTGTGTGTTTTTCTGGTTTTATACAAATTCT
1 TTTGTCTGTTCTTCTGGTTTTATACAAATTAG
* *
11058812 TTTGTGTGTTTTTCTGGTTTTATACAAATTAG
1 TTTGTCTGTTCTTCTGGTTTTATACAAATTAG
*
11058844 TTT-TCT-TTCTTCTTGTTTTAT
1 TTTGTCTGTTCTTCTGGTTTTAT
11058865 TTTTGTTGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 13 0.27
31 2 0.04
32 33 0.69
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.62
Consensus pattern (32 bp):
TTTGTCTGTTCTTCTGGTTTTATACAAATTAG
Found at i:11066173 original size:16 final size:16
Alignment explanation
Indices: 11066152--11066186 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11066142 ACCCTGTGAG
* *
11066152 AATTAATTATACAAAT
1 AATTAATAATAAAAAT
11066168 AATTAATAATAAAAAT
1 AATTAATAATAAAAAT
11066184 AAT
1 AAT
11066187 GGAAATGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTAATAATAAAAAT
Found at i:11069100 original size:24 final size:24
Alignment explanation
Indices: 11069068--11069119 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
11069058 CTATTTGGAC
11069068 AAAAGAGTAATTGAATGAAAGTGT
1 AAAAGAGTAATTGAATGAAAGTGT
11069092 AAAAGAGTAATTGAATGAAAGTGT
1 AAAAGAGTAATTGAATGAAAGTGT
11069116 AAAA
1 AAAA
11069120 ATTACCGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGAGTAATTGAATGAAAGTGT
Found at i:11078526 original size:108 final size:108
Alignment explanation
Indices: 11078337--11078554 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 108
11078327 GGTGTTGTTA
11078337 CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
1 CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
11078402 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
66 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
*
11078445 CAGGCTAACTAAAAGCTGTTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
1 CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
11078510 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
66 TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
11078553 CA
1 CA
11078555 CAACTTATAG
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (108 bp):
CAGGCTAACTAAAAGCTGGTTTTGCTTGCAATTTATGCCCAAAACAGTTTGCTTTGGTACTGTTC
TGCCTCTTGTACATTGGTTTCATTGTGACATGCTTCTATGAAT
Found at i:11079392 original size:7 final size:7
Alignment explanation
Indices: 11079380--11079408 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11079370 GCAACTGCTG
11079380 TTAAAAA
1 TTAAAAA
11079387 TT-AAAA
1 TTAAAAA
11079393 TTAAAAA
1 TTAAAAA
11079400 TTAAAAA
1 TTAAAAA
11079407 TT
1 TT
11079409 TATAAGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (7 bp):
TTAAAAA
Found at i:11079398 original size:13 final size:13
Alignment explanation
Indices: 11079380--11079405 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11079370 GCAACTGCTG
11079380 TTAAAAATTAAAA
1 TTAAAAATTAAAA
11079393 TTAAAAATTAAAA
1 TTAAAAATTAAAA
11079406 ATTTATAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:11079420 original size:13 final size:13
Alignment explanation
Indices: 11079404--11079428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11079394 TAAAAATTAA
11079404 AAATTTATAAGAT
1 AAATTTATAAGAT
11079417 AAATTTATAAGA
1 AAATTTATAAGA
11079429 GAACATTGTT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAATTTATAAGAT
Found at i:11080789 original size:46 final size:45
Alignment explanation
Indices: 11080625--11080799 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
11080615 TCACTTGTGT
*
11080625 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGA-GATGA
* * * *
11080671 GAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGACATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTGAGATGA
*
11080719 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATG-A
*
11080766 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG
11080800 TTATGATATG
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 57 0.51
47 29 0.26
48 23 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATGA
Found at i:11082699 original size:111 final size:108
Alignment explanation
Indices: 11082572--11082834 Score: 291
Period size: 111 Copynumber: 2.4 Consensus size: 108
11082562 CTGGTATACA
* *
11082572 AAAATACTAGTATTTTAAAAAAAAAATTTGGTGCTGGCTTGTCAATGGCCGGCACCAGT-AT-TT
1 AAAATACGAGT-TTTTAAAAAAAAAATTTGGTGCTGGCTTGTCAATAGCCGGCACCA-TAATATT
**
11082635 AAAAAAAAAATCAAATTTTTTTGGTGCTGGCCTGTTAATGACCGGTACC
64 AAAAAAAAAA--AAA--TTTTTGGTGCTGGCCTGTTAATGACCGACACC
* * *
11082684 AGAATACGAGTTTTTAAAAAAAAAA-TTGGTGCTGGCCTGTCACTAGCCGGCACCATAATACGAG
1 AAAATACGAGTTTTTAAAAAAAAAATTTGGTGCTGGCTTGTCAATAGCCGGCACCATAAT---A-
**** **
11082748 TTTTTTAAAAAAAAATTTTTGGTGCTGGCCTGTTAATGGTCGACACC
62 TTAAAAAAAAAAAAATTTTTGGTGCTGGCCTGTTAATGACCGACACC
11082795 AAAATACGAG-TTTTAAAAAAAAAATTTGGTGCTGGCTTGT
1 AAAATACGAGTTTTTAAAAAAAAAATTTGGTGCTGGCTTGT
11082835 TAAAAAAAAT
Statistics
Matches: 129, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
109 1 0.01
110 43 0.33
111 65 0.50
112 9 0.07
113 3 0.02
115 8 0.06
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (108 bp):
AAAATACGAGTTTTTAAAAAAAAAATTTGGTGCTGGCTTGTCAATAGCCGGCACCATAATATTAA
AAAAAAAAAAATTTTTGGTGCTGGCCTGTTAATGACCGACACC
Found at i:11082795 original size:57 final size:55
Alignment explanation
Indices: 11082653--11082837 Score: 230
Period size: 54 Copynumber: 3.4 Consensus size: 55
11082643 AATCAAATTT
* * *
11082653 TTTTGGTGCTGGCCTGTTAATGACCGGTACCAGAATACGAGTTTTTAAAAAAAAA
1 TTTTGGTGCTGGCCTGTTAATGGCCGGCACCAAAATACGAGTTTTTAAAAAAAAA
* * * * *
11082708 -ATTGGTGCTGGCCTGTCACTAGCCGGCACCATAATACGAGTTTTTTAAAAAAAAA
1 TTTTGGTGCTGGCCTGTTAATGGCCGGCACCAAAATACGAG-TTTTTAAAAAAAAA
* *
11082763 TTTTTGGTGCTGGCCTGTTAATGGTCGACACCAAAATACGAG-TTTTAAAAAAAAA
1 -TTTTGGTGCTGGCCTGTTAATGGCCGGCACCAAAATACGAGTTTTTAAAAAAAAA
* *
11082818 ATTTGGTGCTGGCTTGTTAA
1 TTTTGGTGCTGGCCTGTTAA
11082838 AAAAAATTCA
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
54 51 0.46
55 27 0.24
57 33 0.30
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (55 bp):
TTTTGGTGCTGGCCTGTTAATGGCCGGCACCAAAATACGAGTTTTTAAAAAAAAA
Found at i:11090860 original size:872 final size:873
Alignment explanation
Indices: 11089175--11090918 Score: 2947
Period size: 872 Copynumber: 2.0 Consensus size: 873
11089165 TGTTGCTGTC
* * * *
11089175 AAATCAAATACTGTTCTTACAAAAAAAGAAATGTATTTCATCCGGTACAGTTGTATGCTGTTGTA
1 AAATCAAATACAGGTCTTACAAAAAAAGAAATGTACTTCATCCGGTACAGTTGTATGCTGCTGTA
* *
11089240 TTTCATCCGGGTATATTACAGCAGCTTAATCTTGATATAAGTTGTATGCATTTCATCCGCATGAC
66 TTTCATCCGAGTATATTACAGCAGCTTAATCTTGATATAAGTTGCATGCATTTCATCCGCATGAC
* *
11089305 TTGTGCTACATAGTGTGCTGCGTCCAGGCCAACTTCAACAAGCCTGCAGTCCATCACGAACAGCA
131 TTGTGCTACATAGTGTGCTGCATCCAGGCCAACTTCAACAAGCCCGCAGTCCATCACGAACAGCA
*
11089370 TCCTTAATTTGGGCAATTGTGTGGTCATTAGGCCCTATGTTATTGACAATAGCATTAGTATTATA
196 TCCTTAATTTGGGCAATTGTGTGGTCATTAGGCCCTATGTTATTGACAATAACATTAGTATTATA
* *
11089435 TAAATAGCAATTAAAATGTTGCACAAGCAGCACTGACAATATTGATATTAAATTTACATAAATTA
261 TAAATAGCAATTAAAATGTTGCACAAGCAACACTAACAATATTGATATTAAATTTACATAAATTA
11089500 TATGGAACATCAACCAGTTCTACATACATTTGATCAAAATTATACATGAATGGGGATGCCTCACA
326 TATGGAACATCAACCAGTTCTACATACATTTGATCAAAATTATACATGAATGGGGATGCCTCACA
* *
11089565 TTTTCCACAAATGTATACTTATCTTCCCCAAGGACATGCTCGTAGAAAGTCCTGCCCAACCAAGA
391 TTTTCCACAAATGTATACTTATCTTCCCCAAGGACATGCTCATAGAAAGTCCCGCCCAACCAAGA
* * *
11089630 CAATTTGGGGTTAAATCATCAACAGAATTTACAGCTTCTCCTCCACAAGCCAAAACAAGCCTTTC
456 CAATCTAGGGTTAAATCATCAACAGAATTTACAACTTCTCCTCCACAAGCCAAAACAAGCCTTTC
* * *
11089695 CATATTTCTTCTCTTTGCTCTTCTAAGGATAACAATCTATAACACCACAGATCAACACATTGCAA
521 CATATTTCTTCTCTTGGCTCTTCTAAGGACAACAATCTACAACACCACAGATCAACACATTGCAA
* *
11089760 TTAAACACAGTTGTGACAAACTTCAACCATTAAATTGAACCAAACAGGGTGTAGTGCAATAGAAA
586 TGAAACAAAGTTGTGACAAACTTCAACCATTAAATTGAACCAAACAGGGTGTAGTGCAATAGAAA
* **
11089825 GATGCATAAGTAATGACAAACTTATTACTTTTTTTTTAGCTCTATTTTTGTGCTCTCCTTTTCTT
651 GATGCATAAGTAATGACAAACTTATTACTTGTTTTCGAGCTCTATTTTTGTGCTCTCCTTTTCTT
* * **
11089890 AGAAGGTAGGTGTTGCTCATACGGTAAAGACTCCTCCACCTTTCTCTTGCATGTATTTTGGGGTT
716 AGAAGGTAGGTGTTGCTCATACAGTAAAGACTCCTCCACCTTTCTCTTACATACATTTTGGGGTT
*
11089955 GAAGTCTTGTTGACACATCAAGGATGAGCTTGTAACAGTAGTCTACTTTTTCCTATTTCCCACCC
781 GAAGTCTTGTTGACACATCAAGAATGAGCTTGTAACAGTAGTCTACTTTTTCCTATTTCCCACCC
*
11090020 AAACCCAGCAGCTATTTAGTGCAATGGT
846 AAACCCAGCAGCTATTTAGTACAATGGT
*
11090048 AAATCAAATACAGGTCTTACAAAAATAGAAATGTACTTCATCCGGTACAGTTGTATGCTGCTGTA
1 AAATCAAATACAGGTCTTACAAAAAAAGAAATGTACTTCATCCGGTACAGTTGTATGCTGCTGTA
* *
11090113 TTTCATCCGAGTATATTACAGCAGCTTGATCTTGATAT-AGTTGCATGCACTTT-ATCTGCATGA
66 TTTCATCCGAGTATATTACAGCAGCTTAATCTTGATATAAGTTGCATGCA-TTTCATCCGCATGA
* * * *
11090176 CTTGTGCTGCATGGTGTGCTGCATCCAGGCCAACTTCAACAAGCCCGCAGTCCATCATGAACAGT
130 CTTGTGCTACATAGTGTGCTGCATCCAGGCCAACTTCAACAAGCCCGCAGTCCATCACGAACAGC
11090241 ATCCTTAATTTGGGCAATTGTGTGGTCATTAGGCCCTATGTTATTGACAATAACATTAGTATTAT
195 ATCCTTAATTTGGGCAATTGTGTGGTCATTAGGCCCTATGTTATTGACAATAACATTAGTATTAT
11090306 ATAAATAGCAATTAAAATGTTGCACAAGCAACACTAACAATATTGATATTAAATTTACATAAATT
260 ATAAATAGCAATTAAAATGTTGCACAAGCAACACTAACAATATTGATATTAAATTTACATAAATT
* * *
11090371 ATATGGAATATCAACCAGTTCTATATACATTTGATCAAAATTGTACATGAATGGGGATGCCTCAC
325 ATATGGAACATCAACCAGTTCTACATACATTTGATCAAAATTATACATGAATGGGGATGCCTCAC
*
11090436 ATTTTCCACAAATGTATACTTATCTTCCCCAAGGACATGCTCATAGACAAGTCCCGCCCAGCCAA
390 ATTTTCCACAAATGTATACTTATCTTCCCCAAGGACATGCTCATAGA-AAGTCCCGCCCAACCAA
* *
11090501 GACAATCTAGGGTT-AATCATCAACAGAATTTATAACTTCTCCTCTACAAGCCAAAACAAGCCTT
454 GACAATCTAGGGTTAAATCATCAACAGAATTTACAACTTCTCCTCCACAAGCCAAAACAAGCCTT
* *
11090565 TCCATATTTCTTCTCTTGGCTCTTCTAAGGGCAACAATCTACAACACCACAGATCAGCACATTGC
519 TCCATATTTCTTCTCTTGGCTCTTCTAAGGACAACAATCTACAACACCACAGATCAACACATTGC
* *
11090630 AATGAAACAAAGTTGTGACAAACTTCAACCATTAAATTGAACTAAACAGGGTGTTAGTGCAATGG
584 AATGAAACAAAGTTGTGACAAACTTCAACCATTAAATTGAACCAAACAGGGTG-TAGTGCAATAG
*
11090695 AAAGAT-CATAAGTAATGACAAACTTATTACTTGTTTTCGGGCTCTATTTTTGTGCTCTCCTTTT
648 AAAGATGCATAAGTAATGACAAACTTATTACTTGTTTTCGAGCTCTATTTTTGTGCTCTCCTTTT
* *
11090759 CTTAGAAGGTAGGTGTTGCTCATGCAGTAAAGACTCGTCCACCTTTCTCTTACATACATTTTGGG
713 CTTAGAAGGTAGGTGTTGCTCATACAGTAAAGACTCCTCCACCTTTCTCTTACATACATTTTGGG
* * *
11090824 GTTGAAGTCTTGTTGACACATCAAGAATGAGCTTGTAATAGTAGTCTACTTTTTTCTGTTTCCCA
778 GTTGAAGTCTTGTTGACACATCAAGAATGAGCTTGTAACAGTAGTCTACTTTTTCCTATTTCCCA
*
11090889 CCCAAACCCAGCAGCTATTTGGTACAATGG
843 CCCAAACCCAGCAGCTATTTAGTACAATGG
11090919 AAAGATGCAT
Statistics
Matches: 814, Mismatches: 54, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
872 672 0.83
873 142 0.17
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (873 bp):
AAATCAAATACAGGTCTTACAAAAAAAGAAATGTACTTCATCCGGTACAGTTGTATGCTGCTGTA
TTTCATCCGAGTATATTACAGCAGCTTAATCTTGATATAAGTTGCATGCATTTCATCCGCATGAC
TTGTGCTACATAGTGTGCTGCATCCAGGCCAACTTCAACAAGCCCGCAGTCCATCACGAACAGCA
TCCTTAATTTGGGCAATTGTGTGGTCATTAGGCCCTATGTTATTGACAATAACATTAGTATTATA
TAAATAGCAATTAAAATGTTGCACAAGCAACACTAACAATATTGATATTAAATTTACATAAATTA
TATGGAACATCAACCAGTTCTACATACATTTGATCAAAATTATACATGAATGGGGATGCCTCACA
TTTTCCACAAATGTATACTTATCTTCCCCAAGGACATGCTCATAGAAAGTCCCGCCCAACCAAGA
CAATCTAGGGTTAAATCATCAACAGAATTTACAACTTCTCCTCCACAAGCCAAAACAAGCCTTTC
CATATTTCTTCTCTTGGCTCTTCTAAGGACAACAATCTACAACACCACAGATCAACACATTGCAA
TGAAACAAAGTTGTGACAAACTTCAACCATTAAATTGAACCAAACAGGGTGTAGTGCAATAGAAA
GATGCATAAGTAATGACAAACTTATTACTTGTTTTCGAGCTCTATTTTTGTGCTCTCCTTTTCTT
AGAAGGTAGGTGTTGCTCATACAGTAAAGACTCCTCCACCTTTCTCTTACATACATTTTGGGGTT
GAAGTCTTGTTGACACATCAAGAATGAGCTTGTAACAGTAGTCTACTTTTTCCTATTTCCCACCC
AAACCCAGCAGCTATTTAGTACAATGGT
Found at i:11092157 original size:212 final size:212
Alignment explanation
Indices: 11091781--11092164 Score: 696
Period size: 212 Copynumber: 1.8 Consensus size: 212
11091771 GCTTTGAGTT
* *
11091781 TTTAAATACTTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCTAAATAACAT
1 TTTAAATACTTATACCTAATAAAACATGTATCTAATTACAATAATAGTTATTTTCCAAATAACAT
11091846 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAATTTTAATAATGCATACTTTAGCC
66 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAATTTTAATAATGCATACTTTAGCC
*
11091911 GGAGGGAGTATGTATTAGCAAATTCACAAATATGATTATATATATATATATTTACGCATGTATCG
131 GGAGGAAGTATGTATTAGCAAATTCACAAATATGATTATATATATATATATTTACGCATGTATCG
11091976 CATTACAAAAATAAAAA
196 CATTACAAAAATAAAAA
*
11091993 TTTAAATACTTATACCTAATAAAATATGTATCTAATTACAATAATAGTTATTTTCCAAATAACAT
1 TTTAAATACTTATACCTAATAAAACATGTATCTAATTACAATAATAGTTATTTTCCAAATAACAT
11092058 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAATTTTAATAATGCATACTTTAGCC
66 ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAATTTTAATAATGCATACTTTAGCC
* * * *
11092123 GGATGAAGTATGTATTAGTAGATTCACTAATATGATTATATA
131 GGAGGAAGTATGTATTAGCAAATTCACAAATATGATTATATA
11092165 ATAGTTATTT
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
212 164 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.44
Consensus pattern (212 bp):
TTTAAATACTTATACCTAATAAAACATGTATCTAATTACAATAATAGTTATTTTCCAAATAACAT
ATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTTAATTTTAATAATGCATACTTTAGCC
GGAGGAAGTATGTATTAGCAAATTCACAAATATGATTATATATATATATATTTACGCATGTATCG
CATTACAAAAATAAAAA
Found at i:11092195 original size:129 final size:129
Alignment explanation
Indices: 11092033--11092292 Score: 484
Period size: 129 Copynumber: 2.0 Consensus size: 129
11092023 TCTAATTACA
11092033 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* *
11092098 AATTTTAATAATGCATACTTTAGCCGGATGAAGTATGTATTAGTAGATTCACTAATATGATTAT
66 AATTTTAATAATGCATACTTTAGCCGGATGAAGTAGGTATTAGTAGATTCACTAATATAATTAT
11092162 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
* *
11092227 AATTTTAATAATGCATACTTTATCCGGATGAAGTAGGTATTAGTAGATTCACTCATATAATTAT
66 AATTTTAATAATGCATACTTTAGCCGGATGAAGTAGGTATTAGTAGATTCACTAATATAATTAT
11092291 AT
1 AT
11092293 TATACTTCAG
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (129 bp):
ATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATATTTTAATTT
AATTTTAATAATGCATACTTTAGCCGGATGAAGTAGGTATTAGTAGATTCACTAATATAATTAT
Found at i:11092320 original size:2 final size:2
Alignment explanation
Indices: 11092313--11092341 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11092303 ACATGCGTAA
11092313 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11092342 AGTATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11092431 original size:24 final size:24
Alignment explanation
Indices: 11092404--11092452 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
11092394 ATTTATTCTT
11092404 TCATCT-CCCCCAAATCTTTAGCAG
1 TCATCTCCCCCCAAATCTTTA-CAG
*
11092428 TCATTTCCCCCCAAATCTTTACAG
1 TCATCTCCCCCCAAATCTTTACAG
11092452 T
1 T
11092453 TCACTCAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.24, C:0.37, G:0.06, T:0.33
Consensus pattern (24 bp):
TCATCTCCCCCCAAATCTTTACAG
Found at i:11094580 original size:39 final size:39
Alignment explanation
Indices: 11094537--11094625 Score: 151
Period size: 39 Copynumber: 2.3 Consensus size: 39
11094527 CAGTTGGTGA
*
11094537 TTGATTACCCGCCAACGGGGCAGCAGCAGATGGATGTGC
1 TTGATGACCCGCCAACGGGGCAGCAGCAGATGGATGTGC
* *
11094576 TTGATGACCAGCCCACGGGGCAGCAGCAGATGGATGTGC
1 TTGATGACCCGCCAACGGGGCAGCAGCAGATGGATGTGC
11094615 TTGATGACCCG
1 TTGATGACCCG
11094626 TCCATAGAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.18
Consensus pattern (39 bp):
TTGATGACCCGCCAACGGGGCAGCAGCAGATGGATGTGC
Found at i:11094638 original size:39 final size:39
Alignment explanation
Indices: 11094556--11094645 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
11094546 CGCCAACGGG
* *
11094556 GCAGCAGCAGATGGATGTGCTTGATGACCAGCCCACGGG
1 GCAGCAGCAGATGGATGTGCTTGATGACCAGCCCACAGA
* * *
11094595 GCAGCAGCAGATGGATGTGCTTGATGACCCGTCCATAGA
1 GCAGCAGCAGATGGATGTGCTTGATGACCAGCCCACAGA
*
11094634 GCAGCAACAGAT
1 GCAGCAGCAGAT
11094646 AGATCATGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.27, C:0.24, G:0.32, T:0.17
Consensus pattern (39 bp):
GCAGCAGCAGATGGATGTGCTTGATGACCAGCCCACAGA
Found at i:11094705 original size:54 final size:54
Alignment explanation
Indices: 11094611--11094787 Score: 210
Period size: 54 Copynumber: 3.3 Consensus size: 54
11094601 GCAGATGGAT
* * * *
11094611 GTGCTTGATGACCCGTCCATAGAGCAGCAACAGATAGATCATGATGAGCCCTTA
1 GTGCGTGATGACCCGCCCATAGAGCAGCAGCAGATGGATCATGATGAGCCCTTA
* * *
11094665 GTGCGTGATGACCCGCCCATAGATCAGTAGTAGATGGATCATGATGAGCCCTTA
1 GTGCGTGATGACCCGCCCATAGAGCAGCAGCAGATGGATCATGATGAGCCCTTA
* * ** * * * *
11094719 GTGTGTGATGACCCACCCACGGGGCAGCAGCAAATGGATTATGATGATCCCTTA
1 GTGCGTGATGACCCGCCCATAGAGCAGCAGCAGATGGATCATGATGAGCCCTTA
*
11094773 GTGCATGATGACCCG
1 GTGCGTGATGACCCG
11094788 TCAACGGGGC
Statistics
Matches: 102, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (54 bp):
GTGCGTGATGACCCGCCCATAGAGCAGCAGCAGATGGATCATGATGAGCCCTTA
Found at i:11094795 original size:54 final size:54
Alignment explanation
Indices: 11094647--11094817 Score: 162
Period size: 54 Copynumber: 3.2 Consensus size: 54
11094637 GCAACAGATA
* * * ** ** * * *
11094647 GATCATGATGAGCCCTTAGTGCGTGATGACCCGCCCATAGATCAGTAGTAGATG
1 GATCATGATGAGCCCTTAGTGCATGATGACCCACCAACGGGGCAGCAGCAAATG
** *
11094701 GATCATGATGAGCCCTTAGTGTGTGATGACCCACCCACGGGGCAGCAGCAAATG
1 GATCATGATGAGCCCTTAGTGCATGATGACCCACCAACGGGGCAGCAGCAAATG
* * ** * **
11094755 GATTATGATGATCCCTTAGTGCATGATGACCCGTCAACGGGGCAGTAGCAGCTG
1 GATCATGATGAGCCCTTAGTGCATGATGACCCACCAACGGGGCAGCAGCAAATG
11094809 GATCATGAT
1 GATCATGAT
11094818 AATCTCAATG
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (54 bp):
GATCATGATGAGCCCTTAGTGCATGATGACCCACCAACGGGGCAGCAGCAAATG
Found at i:11098783 original size:11 final size:12
Alignment explanation
Indices: 11098762--11098786 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11098752 AGGGATAGGC
11098762 TTCATTTTTTTT
1 TTCATTTTTTTT
11098774 TTCATTTTTTTT
1 TTCATTTTTTTT
11098786 T
1 T
11098787 GAATCAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTCATTTTTTTT
Found at i:11099520 original size:52 final size:53
Alignment explanation
Indices: 11099458--11099591 Score: 189
Period size: 54 Copynumber: 2.5 Consensus size: 53
11099448 TCGTATTGTG
* * *
11099458 GTGCCGGCCATTGACAGGCCAACACCAAAAAAATTTAA-TTTTTTTAATACTA
1 GTGCCGGCCATTGACAGGACAGCACCAAAAAAATTAAATTTTTTTTAATACTA
* * *
11099510 GTGCCGGCCATAGACAGGACAGCACAAAAAAAAATTAAATTTTTTTTAATACTG
1 GTGCCGGCCATTGACAGGACAGCAC-CAAAAAAATTAAATTTTTTTTAATACTA
*
11099564 GTGCCGGCCATTGACAGGTCAGCACCAA
1 GTGCCGGCCATTGACAGGACAGCACCAA
11099592 TTTTTTTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
52 22 0.31
53 13 0.18
54 36 0.51
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (53 bp):
GTGCCGGCCATTGACAGGACAGCACCAAAAAAATTAAATTTTTTTTAATACTA
Found at i:11101934 original size:21 final size:21
Alignment explanation
Indices: 11101872--11101934 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
11101862 CTACTATCAC
* **
11101872 TATTAAATTACTTGTACTTTA
1 TATTAAATTATTTGTGTTTTA
*
11101893 TATT--ATTATTTATGTTATTTA
1 TATTAAATTATTTGTG-T-TTTA
11101914 TATTAAATTATTTGTGTTTTA
1 TATTAAATTATTTGTGTTTTA
11101935 CGTTTACTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 7 0.21
21 16 0.48
22 1 0.03
23 9 0.27
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.60
Consensus pattern (21 bp):
TATTAAATTATTTGTGTTTTA
Found at i:11105184 original size:44 final size:47
Alignment explanation
Indices: 11105023--11105240 Score: 154
Period size: 49 Copynumber: 4.6 Consensus size: 47
11105013 TTAAGTTACT
** ** * *
11105023 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGGGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAACTATCAACATCGGAGCC
* * * * * ** * **
11105072 GATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTATATAAGTGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAACTATC-AACATCGGAGCC
* * **
11105122 GATGCATGTTCCAAACATGTCTTACACTAAC-A-CAAC-TCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTAACTATCAACATCGGAGCC
** * *
11105166 GATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAACTATCAACATCGGAGCC
11105213 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
11105241 GGTACTCGTC
Statistics
Matches: 134, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
44 29 0.22
45 2 0.01
46 4 0.03
47 33 0.25
48 12 0.09
49 45 0.34
50 9 0.07
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAACTATCAACATCGGAGCC
Found at i:11105223 original size:47 final size:49
Alignment explanation
Indices: 11105023--11105386 Score: 256
Period size: 47 Copynumber: 7.7 Consensus size: 49
11105013 TTAAGTTACT
* *
11105023 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGGGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGGGGCC
* * * ** * **
11105072 GATGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCGTAT-ATAAGTGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATC--ATCATCGGGGCC
* * ** * ***
11105122 GATG-CATGTTCCAAACAT-GTCTTACACTAAC-A-CAAC-TCTTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGGGGCC
11105166 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGGGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGGGGCC
* ***
11105213 GATG-CATGTCCCAGACAT-GTCTTACACTGG-TACTCGTC-TCTAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCATCGGGGCC
* * * * * *
11105259 GATGCCATGTCCCAGACGTGGTTTTACACTGGCTTTCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGGGGCC
* * * ** * ***
11105307 GATG-CATGTCCCAAACAT-GTCTTACGCTAGCCCTCGTC-TCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGGGGCC
11105353 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
11105387 TTCACATAAC
Statistics
Matches: 243, Mismatches: 58, Indels: 29
0.74 0.18 0.09
Matches are distributed among these distances:
44 30 0.12
45 2 0.01
46 34 0.14
47 77 0.32
48 43 0.18
49 47 0.19
50 9 0.04
51 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGGGGCC
Found at i:11105311 original size:141 final size:139
Alignment explanation
Indices: 11105021--11105384 Score: 360
Period size: 141 Copynumber: 2.6 Consensus size: 139
11105011 GGTTAAGTTA
*
11105021 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGGGGCTGATGCCATGTCCCA
1 CTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCGTCATCGGGGCCGATGCCATGTCCCA
* * ** *
11105086 GAAATGGTCTTACACTAGCTCTCGTATATAAGTGTTGATGCATGTTCCAAACATGTCTTACACTA
64 GACATGGTCTTACACT-GGTCTCGTATATAAG-GCCGATGCATGTCCCAAACATGTCTTACACTA
* *
11105151 ACACAACTCTTAG
127 ACACAAATCGTAG
* *
11105164 CCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGGGGCCGATG-CATGTCCCAGA
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTATCGTCATCGGGGCCGATGCCATGTCCCAGA
* * * * * **
11105228 CAT-GTCTTACACTGGTACTCGTCTCTAA-GCCGATGCCATGTCCCAGACGTGGTTTTACACTGG
66 CATGGTCTTACACTGGT-CTCGTATATAAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAA
* *
11105291 CTTTCATAAT-GTGG
128 C--ACA-AATCGTAG
* * * ** ***
11105305 CTGATGCATGTCCCAAACATGTCTTACGCTAGCCCTCGTC-TCAATGCCGATGCCATGTCCCAGA
1 CTGATGCATGTCCCAGACATGTCTTACACTGGCTATCGTCATCGGGGCCGATGCCATGTCCCAGA
11105369 CATGGTCTTACACTGG
66 CATGGTCTTACACTGG
11105385 CTTTCACATA
Statistics
Matches: 184, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
137 5 0.03
138 13 0.07
139 29 0.16
140 22 0.12
141 82 0.45
142 28 0.15
143 5 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (139 bp):
CTGATGCATGTCCCAGACATGTCTTACACTGGCTATCGTCATCGGGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGTCTCGTATATAAGGCCGATGCATGTCCCAAACATGTCTTACACTAACAC
AAATCGTAG
Found at i:11105312 original size:94 final size:94
Alignment explanation
Indices: 11105021--11105390 Score: 367
Period size: 94 Copynumber: 3.9 Consensus size: 94
11105011 GGTTAAGTTA
* *** *
11105021 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCGTCATCGGGGCTGATGCCATGTCCC
1 CTGATG-CATGTCCCAAACAT-GTCTTACACTGG-TACTCGTC-TCTAAGCCGATGCCATGTCCC
* * * *
11105085 AGAAATGGTCTTACACTAGCTCTCGTATATAAGT-G
62 AGACATGGTCTTACACTGGCTTTC--ATA-ATGTGG
* * * * ** *
11105120 TTGATGCATGTTCCAAACATGTCTTACACT--AACACAACTCTTAGCCGATG-CATGTCCCAGAC
1 CTGATGCATGTCCCAAACATGTCTTACACTGGTACTCGTCTCTAAGCCGATGCCATGTCCCAGAC
* * *
11105182 AT-GTCTTACACTGGCTATCATCATCGGGG
66 ATGGTCTTACACTGGCTTTCATAAT-GTGG
* *
11105211 CCGATGCATGTCCCAGACATGTCTTACACTGGTACTCGTCTCTAAGCCGATGCCATGTCCCAGAC
1 CTGATGCATGTCCCAAACATGTCTTACACTGGTACTCGTCTCTAAGCCGATGCCATGTCCCAGAC
* *
11105276 GTGGTTTTACACTGGCTTTCATAATGTGG
66 ATGGTCTTACACTGGCTTTCATAATGTGG
* * **
11105305 CTGATGCATGTCCCAAACATGTCTTACGCTAGCCCTCGTCTC-AATGCCGATGCCATGTCCCAGA
1 CTGATGCATGTCCCAAACATGTCTTACACTGGTACTCGTCTCTAA-GCCGATGCCATGTCCCAGA
11105369 CATGGTCTTACACTGGCTTTCA
65 CATGGTCTTACACTGGCTTTCA
11105391 CATAACCCAA
Statistics
Matches: 224, Mismatches: 39, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 27 0.12
92 15 0.07
93 30 0.13
94 100 0.45
95 21 0.09
97 10 0.04
98 12 0.05
99 5 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CTGATGCATGTCCCAAACATGTCTTACACTGGTACTCGTCTCTAAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTTTCATAATGTGG
Found at i:11107945 original size:24 final size:25
Alignment explanation
Indices: 11107909--11107961 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
11107899 AAATATCCCT
11107909 GAAG-TAATGAGAGTTTAATTGTGAA
1 GAAGATAATGAGAGTTTAATTG-GAA
11107934 -AAGATAAT-AGAGTTTAATTGGAA
1 GAAGATAATGAGAGTTTAATTGGAA
11107957 GAAGA
1 GAAGA
11107962 AACTCGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.12
24 19 0.73
25 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.28
Consensus pattern (25 bp):
GAAGATAATGAGAGTTTAATTGGAA
Found at i:11111843 original size:15 final size:16
Alignment explanation
Indices: 11111823--11111860 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11111813 GATTTTGGTA
11111823 TAATTTATATT-CATT
1 TAATTTATATTGCATT
*
11111838 TAATTTATGTTGCATT
1 TAATTTATATTGCATT
11111854 TGAATTT
1 T-AATTT
11111861 TTTTATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (16 bp):
TAATTTATATTGCATT
Found at i:11111974 original size:28 final size:29
Alignment explanation
Indices: 11111942--11111996 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
11111932 TCTTGAGGGC
11111942 ATAAAAATTTAT-TAATTTTCAAAAAAAA
1 ATAAAAATTTATATAATTTTCAAAAAAAA
* * *
11111970 ATAAAATTTTATATATTTTTTAAAAAA
1 ATAAAAATTTATATAATTTTCAAAAAA
11111997 TAAAATAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (29 bp):
ATAAAAATTTATATAATTTTCAAAAAAAA
Found at i:11119799 original size:2 final size:2
Alignment explanation
Indices: 11119792--11119824 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11119782 AATATTCTTG
11119792 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11119825 ATTGTACAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11123726 original size:20 final size:19
Alignment explanation
Indices: 11123676--11123727 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
11123666 TTTTATTTAC
*
11123676 TTGAAAATTTATTATTTTT
1 TTGAAATTTTATTATTTTT
***
11123695 CAAAAATATTTATATATTTTT
1 TTGAAAT-TTTAT-TATTTTT
11123716 TTGAAATTTTAT
1 TTGAAATTTTAT
11123728 CTCATAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (19 bp):
TTGAAATTTTATTATTTTT
Found at i:11124268 original size:6 final size:6
Alignment explanation
Indices: 11124257--11124285 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11124247 CCTCCTCCCC
11124257 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
11124286 AGTTTGGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:11125276 original size:56 final size:55
Alignment explanation
Indices: 11125193--11125530 Score: 227
Period size: 56 Copynumber: 6.0 Consensus size: 55
11125183 GACCGTGTGT
** * * * * *
11125193 CCCCTATTTTCCAAATCTTACAGTTTTTCCCTATTTTTT-GAATTTTATAGTTTTAC
1 CCCCTATTTTTTAAATTTTATAGTTTTTCCCTATTTTTTAG-ATTTTACAATTTT-G
* * * *
11125249 CCCCTATTTTTTAAATTTTTTAATTTTTCCCTTATTTCTTCAAATTTTACAATTTTG
1 CCCCTATTTTTTAAATTTTATAGTTTTTCCC-TATTT-TTTAGATTTTACAATTTTG
* * * * * * * *
11125306 TCCCTATTTTTCCAAATCTTACAGTTTTACCCT-TATTTTCATATTTTACAATTTTAT
1 CCCCTATTTTT-TAAATTTTATAGTTTTTCCCTAT-TTTTTAGATTTTACAATTTT-G
* ** * * * *
11125363 CCACTATTTTTTTAGGTATTATAGTTTTTCCTCTATTTTCTAGATTTTATAGTTTTG
1 CCCCTA-TTTTTTAAATTTTATAGTTTTTCC-CTATTTTTTAGATTTTACAATTTTG
* *
11125420 TCCCTATTTTTTAGATTTTATAGTTTTTCCCTTATTTTTTAGATTTTACAATTTT-
1 CCCCTATTTTTTAAATTTTATAGTTTTTCCC-TATTTTTTAGATTTTACAATTTTG
* * * * *
11125475 CCCCTA-TTTTTAAGATTTTATCA-TTTTGCCCCTAATTTTCAAAATTTACAATTTTG
1 CCCCTATTTTTTAA-ATTTTAT-AGTTTT-TCCCTATTTTTTAGATTTTACAATTTTG
11125531 ACCCAAAATT
Statistics
Matches: 220, Mismatches: 48, Indels: 28
0.74 0.16 0.09
Matches are distributed among these distances:
54 6 0.03
55 36 0.16
56 89 0.40
57 39 0.18
58 49 0.22
59 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.05, T:0.55
Consensus pattern (55 bp):
CCCCTATTTTTTAAATTTTATAGTTTTTCCCTATTTTTTAGATTTTACAATTTTG
Done.