Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008293.1 Hibiscus syriacus cultivar Beakdansim tig00110957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 338481
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
File 1 of 3
Found at i:3120 original size:10 final size:9
Alignment explanation
Indices: 3111--3152 Score: 52
Period size: 8 Copynumber: 4.9 Consensus size: 9
3101 TTAAAATTAT
3111 TATATTTTA
1 TATATTTTA
*
3120 TA-ATATTA
1 TATATTTTA
3128 TATATTTTA
1 TATATTTTA
*
3137 GATATTTT-
1 TATATTTTA
3145 TATATTTT
1 TATATTTT
3153 TTACTGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TATATTTTA
Found at i:3131 original size:17 final size:18
Alignment explanation
Indices: 3096--3136 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
3086 TATTGTTTAA
*
3096 ATTTTTTAAAATTATTAT
1 ATTTTATAAAATTATTAT
*
3114 ATTTTATAATATTA-TAT
1 ATTTTATAAAATTATTAT
3131 ATTTTA
1 ATTTTA
3137 GATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTATAAAATTATTAT
Found at i:3148 original size:17 final size:17
Alignment explanation
Indices: 3110--3152 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
3100 TTTAAAATTA
*
3110 TTATATTTTATAATATT
1 TTATATTTTAGAATATT
*
3127 ATATATTTTAG-ATATTT
1 TTATATTTTAGAATA-TT
3144 TTATATTTT
1 TTATATTTT
3153 TTACTGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTATATTTTAGAATATT
Found at i:4721 original size:17 final size:18
Alignment explanation
Indices: 4686--4724 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
4676 AAATAATTAA
4686 TAAACATGTAAAAATATT
1 TAAACATGTAAAAATATT
4704 TAAA-ATGTATAAAA-ATT
1 TAAACATGTA-AAAATATT
4721 TAAA
1 TAAA
4725 TTTCAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (18 bp):
TAAACATGTAAAAATATT
Found at i:7889 original size:21 final size:20
Alignment explanation
Indices: 7856--7898 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
7846 CAAAGTTAAC
*
7856 GGTTAAACGGTCAACGATCAAT
1 GGTTAAACAGTCAA-G-TCAAT
7878 GGTT-AACAGTCAAGTCAAT
1 GGTTAAACAGTCAAGTCAAT
7897 GG
1 GG
7899 GTCGGGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 8 0.40
22 4 0.20
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (20 bp):
GGTTAAACAGTCAAGTCAAT
Found at i:9271 original size:179 final size:178
Alignment explanation
Indices: 9020--9490 Score: 671
Period size: 179 Copynumber: 2.6 Consensus size: 178
9010 CGATCTAAAT
* * * * *
9020 AAAAATGTATCAATCCATATC-ATATAACAGGTAAAAATATGACAAAACCGGTCA-CGAAAAGAC
1 AAAAATGTATCGATCCACAACGATAT-A-AGGTAAAAATATGACAAAACCGGT-ATCGAAATGAT
* * * *
9083 AATACCGGTAAAGCGCTATCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
63 AAAACCGGTAAATCACTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
* *
9148 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTA
128 TGTGAATTT-AAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTA
*
9200 TAAAAATGTATCGATCCACAACGATAT-AGGTAAAAATATGACAAAACCGGTATCTAAATGATAA
1 -AAAAATGTATCGATCCACAACGATATAAGGTAAAAATATGACAAAACCGGTATCGAAATGATAA
* *
9264 AACCGGTAAATTACTACCAGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTG
65 AACCGGTAAATCACTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTG
*
9329 TGAATTTAAAGAGAAACAGTTTTAATGCCTATAAAGTGTCGATACTTTA
130 TGAATTTAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTA
* *
9378 AAAAATGTATCGATCCACAACGATATAACAAGT-AAAATATGACAAAACCGATATCGAAATGATA
1 AAAAATGTATCGATCCACAACGATAT-A-AGGTAAAAATATGACAAAACCGGTATCGAAATGATA
* * *
9442 AAATCGGTAAATCACTACCGGATATATTTATAGTGTCGATACTTTAATA
64 AAACCGGTAAATCACTACCGGATATATTGAAAGTGTCGATACTTTAATA
9491 AGTACGTGTA
Statistics
Matches: 262, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
177 26 0.10
178 40 0.15
179 171 0.65
180 3 0.01
181 18 0.07
182 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (178 bp):
AAAAATGTATCGATCCACAACGATATAAGGTAAAAATATGACAAAACCGGTATCGAAATGATAAA
ACCGGTAAATCACTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGT
GAATTTAAAGAGAAACAGTTTTAACGCCTATAAAGTGTCGATACTTTA
Found at i:11716 original size:21 final size:21
Alignment explanation
Indices: 11652--11716 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
11642 AAGACAATCA
11652 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
11673 AAAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
*
11694 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
11715 AG
1 AG
11717 GAATAAAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:11800 original size:33 final size:33
Alignment explanation
Indices: 11761--11826 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
11751 GAAAAGATGG
* * *
11761 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAATAGAGATGTTAAGGGGTGA
*
11794 AGTGGTGAAAGAAATTGAGATGTTAAGGGGTGA
1 AGTGGTGAAAGAAATAGAGATGTTAAGGGGTGA
11827 TCTTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAATAGAGATGTTAAGGGGTGA
Found at i:17136 original size:34 final size:32
Alignment explanation
Indices: 17083--17152 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
17073 CCTTACAAAC
*
17083 TCCCTAGTTTTTCCGGGCTAAACTAGAACATT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACATT
** *
17115 TCCCTAGCTTTTACACGGGCTAAGTTATAACATT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACATT
17149 TCCC
1 TCCC
17153 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACATT
Found at i:18159 original size:200 final size:200
Alignment explanation
Indices: 17816--18459 Score: 918
Period size: 200 Copynumber: 3.2 Consensus size: 200
17806 AAATGTTTTC
*
17816 AACAGAATCAAATCCCAAAAA-GGTGCACCCATATAGTGTCGATACATTTTTAAAAAGTATCGAT
1 AACAGAATCAAATCCCAAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGAT
* * * *
17880 CCCATAAACATCGAAACTCATAAGTATAATGTAATATGTAATTTTTCAATGTAACTGGTATAAAT
66 CCCATAAACATCGAAACCCATAAGTATAATGTAATAAGTAATTTTTCAATGTAACCGATATAAAT
17945 ATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGGAGATTGTGTCGATAC
131 ATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGGAGATTGTGTCGATAC
18010 TCTTGG
196 T-TTGG
* *
18016 AACAGAATCAAATCCCAAAAA-GGTGCACCCATATAGTGTCGATACATTTTTAAAAAGTGTCGAT
1 AACAGAATCAAATCCCAAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGAT
* *
18080 CCCAGAAACATCGAAACCCATAAGTATAATGTAATAAGTAATTTTTTAATGTAACCGATATAAAT
66 CCCATAAACATCGAAACCCATAAGTATAATGTAATAAGTAATTTTTCAATGTAACCGATATAAAT
* * ** **
18145 ATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGATACTTTTTAATTTTGTGTCGATAC
131 ATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGGAGATTGTGTCGATAC
**
18210 TTTTT
196 TTTGG
* *** * ** * **
18215 ATCCAGAAT-AAATGTAAAAAAGGGTGAACGAATAAAGTGTCGGTACATTTGCAAAAAGTATCGA
1 A-ACAGAATCAAATCCCAAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGA
* * *
18279 T-CCATTATACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGATATAA
65 TCCCA-TAAACATCGAAACCCATAAGTATAATGTAATAAGTAATTTTTCAATGTAACCGATATAA
* * *
18343 ATATATCGGTTTTATGAGAGAATAGGTCTACAAGATGTATCGACACTTGTGGAGATCGTGTCGAT
129 ATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGGAGATTGTGTCGAT
18408 ACTTTTGG
194 AC-TTTGG
*
18416 AACATAATCAAATCCCAAAAAGGGTGCACCCATAAAGTGTCGAT
1 AACAGAATCAAATCCCAAAAAGGGTGCACCCATAAAGTGTCGAT
18460 CCCAAGAACA
Statistics
Matches: 387, Mismatches: 52, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
199 15 0.04
200 340 0.88
201 32 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (200 bp):
AACAGAATCAAATCCCAAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGAT
CCCATAAACATCGAAACCCATAAGTATAATGTAATAAGTAATTTTTCAATGTAACCGATATAAAT
ATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTGTGGAGATTGTGTCGATAC
TTTGG
Found at i:19649 original size:21 final size:21
Alignment explanation
Indices: 19623--19666 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19613 ATTCTGGGCT
* *
19623 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
19644 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
19665 AG
1 AG
19667 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:19736 original size:23 final size:22
Alignment explanation
Indices: 19692--19736 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19682 AATGTCATGG
*
19692 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
19714 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
19737 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:20920 original size:18 final size:18
Alignment explanation
Indices: 20897--20932 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20887 CGAGGGTCTA
20897 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
20915 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
20933 ATATGTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:21041 original size:18 final size:18
Alignment explanation
Indices: 21018--21053 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21008 AGGAATGATA
*
21018 TGTGGTCCTTTGGGACAT
1 TGTGGTCCTTCGGGACAT
21036 TGTGGTCCTTCGGGACAT
1 TGTGGTCCTTCGGGACAT
21054 ATATGTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.19, G:0.33, T:0.36
Consensus pattern (18 bp):
TGTGGTCCTTCGGGACAT
Found at i:21065 original size:59 final size:57
Alignment explanation
Indices: 20895--21078 Score: 142
Period size: 62 Copynumber: 3.1 Consensus size: 57
20885 GTCGAGGGTC
* *
20895 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACA
1 TATGTGGTCCTTTGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTAGGAACA
* * * * * *
20952 TGTGTGAAGT-CTGGTGAGACACATACT-TGATCCTT-GGCATATGTATATG-ATTCTTAAGGAA
1 TATGTG--GTCCT-TTG-G-GACAT--TGTGGTCCTTCGGGACA--TATATGTATTCTT-AGGAA
*
21013 TGA
56 -CA
*
21016 TATGTGGTCCTTTGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACA
1 TATGTGGTCCTTTGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTAGGAACA
*
21073 TGTGTG
1 TATGTG
21079 AAGTCTGGTG
Statistics
Matches: 94, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
57 11 0.12
58 13 0.14
59 16 0.17
60 9 0.10
61 9 0.10
62 17 0.18
63 13 0.14
64 6 0.06
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (57 bp):
TATGTGGTCCTTTGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTAGGAACA
Found at i:21115 original size:121 final size:121
Alignment explanation
Indices: 20895--21145 Score: 457
Period size: 121 Copynumber: 2.1 Consensus size: 121
20885 GTCGAGGGTC
20895 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
* *
20960 GTCTGGTGAGACACATACTTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
21016 TATGTGGTCCTTTGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
1 TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
* *
21081 GTCTGGTGAGACGCATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
21137 TATGTGGTC
1 TATGTGGTC
21146 TTTATGGACA
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 125 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (121 bp):
TATGTGGTCCTTCGGGACATTGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAA
GTCTGGTGAGACACATACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:21222 original size:23 final size:23
Alignment explanation
Indices: 21164--21224 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
21154 CATTATTATA
*
21164 TGGCACTACGGTACAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
21187 CGGCACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
21210 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
21225 TTTATATGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:21232 original size:23 final size:23
Alignment explanation
Indices: 21155--21232 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
21145 CTTTATGGAC
* *
21155 ATTATTATATGGCACTACGGTACA
1 ATTA-TATGTGGCACTACGGTGCA
* * *
21179 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
21202 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
21225 TTTATATG
1 ATTATATG
21233 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:24557 original size:127 final size:128
Alignment explanation
Indices: 24330--24588 Score: 367
Period size: 127 Copynumber: 2.0 Consensus size: 128
24320 CCATAAAGTG
* *
24330 TCGATACATTTTTAAAAAGTAACGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTAACGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
* * *
24395 AAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGA-AAAATAAGTCTATAACATGTA
66 AAATTTACAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAAGTCTACAACATGTA
** * *
24457 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGAT
1 TCGATACATTTTCAAAAAGTAACGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
* ** * * * *
24522 AATTTTGTAATATAACCAGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAATATGTA
66 AAATTTACAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAAGTCTACAACATGTA
24585 TCGA
1 TCGA
24589 CACGTTTTAA
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
127 94 0.82
128 21 0.18
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (128 bp):
TCGATACATTTTCAAAAAGTAACGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
AAATTTACAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAAGTCTACAACATGTA
Found at i:24800 original size:200 final size:200
Alignment explanation
Indices: 24457--25216 Score: 1119
Period size: 200 Copynumber: 3.8 Consensus size: 200
24447 ATAACATGTA
* *
24457 TCGATACATTTTCAAAAAGTGTCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATAGAT
1 TCGATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
* *
24522 AATTTTGTAATATAACCAGTATAAATATACTGGTTTTATGAGAGAATAGGTCTACAATATGTATC
66 AATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
* *
24587 GACACGTTTTAATATTGTGTCGATACTTTTTGTCAAGAATGGATGCCAAAAAGGGTTAACGCACA
131 GACACTTTTTAATATTGTGTCGATACTTTTTGTCAAGAATGGATGCCAAAAAGGGTGAACGCACA
24652 AAGTG
196 AAGTG
** * *
24657 TCGATACATTTTTTAAAAGTATCGATTCCAAAAACATCGTAACCGATAATTATAATGTAATAGAT
1 TCGATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
* * *
24722 AATTTTGTAATATAATCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACAACATGTATC
66 AATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
** * * *
24787 GATTCTTTTTAATAATGTGTTGATACTTTTTGTCCAA-AATGGATGCCAAAAAGGGTGAATGCAC
131 GACACTTTTTAATATTGTGTCGATACTTTTTGT-CAAGAATGGATGCCAAAAAGGGTGAACGCAC
24851 AAAGTG
195 AAAGTG
* * ** * *
24857 TCGATACATTTTCAAAAAGTAACGATTCCAAAAACATCTTAACTGATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
*
24922 AATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATATGTATC
66 AATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
* * * *
24987 GACACTTTTTAATATTGTGTCAATACTTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGAATA
131 GACACTTTTTAATATTGTGTCGATACTTTTTGTCAAGAATGGATGCCAAAAAGGGTGAACGCACA
25052 AAGTG
196 AAGTG
* * * * *
25057 TCGATACATTTTCAAAACGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGT
1 TCGATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
* * * * *
25122 AATTTTGTAATATAACC-GATATAAATATACTGATTTTATGATATAATAGGTCTCCAACATGTAT
66 AATTTTGTAATATAACCAG-TATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTAT
* *
25186 CGATACTTTTTAATATTATGTCGATACTTTT
130 CGACACTTTTTAATATTGTGTCGATACTTTT
25217 AAATAATGCG
Statistics
Matches: 502, Mismatches: 55, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
199 3 0.01
200 496 0.99
201 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (200 bp):
TCGATACATTTTCAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGAT
AATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATC
GACACTTTTTAATATTGTGTCGATACTTTTTGTCAAGAATGGATGCCAAAAAGGGTGAACGCACA
AAGTG
Found at i:28900 original size:198 final size:198
Alignment explanation
Indices: 28422--29119 Score: 785
Period size: 198 Copynumber: 3.5 Consensus size: 198
28412 ATAGCTACCT
* * * *
28422 AAAACATCAAAACCAATAATTATAATGTAATAGGTAAATTAACAATGTAATCGGTATAAATATAC
1 AAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATAC
* * * * * ** *
28487 CGGTTAATTAGAAAACAAGTCAACATAATGTATCGACACTTGTGGAATTTGTGTCGAT-ACTTAT
66 CGTTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTGTTAAATTTGTGTCGATAAATT-T
* * * * *
28551 TGTCCAGAATGAATACCCAAACGGGGTGCACGCATAAAGTGTCGATACATTTATTAAA-AGTATC
130 TGTCCATAATGAATGCCC-AACGAGGTGCAAGCATAAAGTGTCGATACATTTA--AAATTGTATC
28615 GATCCCA
192 GATCCCA
* *
28622 AAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATAC
1 AAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATAC
* * *
28687 TTGTTTTATGAGAAAATAGGTCAACATAAAGTAACGACACTTGTTAAATTTGTGTCGATAAATTT
66 -CGTTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTGTTAAATTTGTGTCGATAAATTT
* * *
28752 TGTCCATAATGAATGCCCAACGACGTGCAAGAATAAAGTGTCAATACATTTAAAATTGTATCGAT
130 TGTCCATAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGAT
28817 CCCA
195 CCCA
* * * *
28821 AAAACATCGAAACGAA-AATTACAATGTGATAGGTAAATTTACAATGTACCCGATATAAATATAC
1 AAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATAC
* * * * **
28885 CGATTTTATGAGAAAATAGGTCTAA-ATAATGCATCGACACGTT-TTTAGTTTGTGTCAATACTT
66 CG-TTTTATGAGAAAATAGGTC-AACATAATGTATCGACAC-TTGTTAAATTTGTGTCGATA-AA
* * *
28948 TTTTTTCAGAATGAAATATGAATGTCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAAAT
127 TTTTGTC--CAT---A-ATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAAAT
*
29013 TGTATCGATCCAA
186 TGTATCGATCCCA
* * * * *
29026 AAAACATCGAAACCAATAATTATAATATAATATGTAAATTTGCAATGTTACCGGTATAAATATAC
1 AAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATAC
* ** *
29091 CGATTTACTTCGAAAATAGGTCAATATAA
66 CGTTTTA-TGAGAAAATAGGTCAACATAA
29120 GCGCTACCTA
Statistics
Matches: 423, Mismatches: 59, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
197 1 0.00
198 93 0.22
199 35 0.08
200 88 0.21
201 67 0.16
202 3 0.01
204 1 0.00
205 77 0.18
206 58 0.14
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (198 bp):
AAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCGATATAAATATAC
CGTTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTGTTAAATTTGTGTCGATAAATTTT
GTCCATAATGAATGCCCAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGATC
CCA
Found at i:29207 original size:64 final size:63
Alignment explanation
Indices: 29134--29257 Score: 194
Period size: 64 Copynumber: 2.0 Consensus size: 63
29124 TACCTATTAC
*
29134 ATTATATAAGAGATACCTAATATGTTATTGTACTTGATAAAATTCCCGGTTAAATGCATATTTT
1 ATTATATAAGAGATACCTAATATGTTATTATACTTGATAAAATTCCCGGTTAAATG-ATATTTT
* * * *
29198 ATTATATAAGCGTTACCTAATATGTTATTATACTTGATAATATTTCCGGTTAAATGATAT
1 ATTATATAAGAGATACCTAATATGTTATTATACTTGATAAAATTCCCGGTTAAATGATAT
29258 AACATAACCA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 4 0.07
64 51 0.93
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (63 bp):
ATTATATAAGAGATACCTAATATGTTATTATACTTGATAAAATTCCCGGTTAAATGATATTTT
Found at i:30011 original size:5 final size:5
Alignment explanation
Indices: 30005--30042 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
29995 AATGAGCAGA
*
30005 CCAGA CCAGT CCAGT CCAGT CCAGT CCAGT CCAGT CCA
1 CCAGT CCAGT CCAGT CCAGT CCAGT CCAGT CCAGT CCA
30043 ATCTAATCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.24, C:0.42, G:0.18, T:0.16
Consensus pattern (5 bp):
CCAGT
Found at i:33007 original size:22 final size:22
Alignment explanation
Indices: 32979--33023 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
32969 TCTCGATGAA
*
32979 ACATTGTTTGGTTAAGCATTGT
1 ACATTGTTTGGTAAAGCATTGT
33001 ACATTGTTTGGTAAAGCATTGT
1 ACATTGTTTGGTAAAGCATTGT
33023 A
1 A
33024 TCTATCGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (22 bp):
ACATTGTTTGGTAAAGCATTGT
Found at i:34938 original size:22 final size:21
Alignment explanation
Indices: 34897--34942 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
34887 GTGTTTACTG
34897 TTATTTTTTTATTAATAAAATA
1 TTATTTTTTTATTAATAAAA-A
*
34919 TTATTTTTTTAATTTA-AAAAA
1 TTATTTTTTT-ATTAATAAAAA
34940 TTA
1 TTA
34943 AAAACTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 14 0.64
23 4 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTTTTATTAATAAAAA
Found at i:38203 original size:84 final size:84
Alignment explanation
Indices: 38057--38228 Score: 326
Period size: 84 Copynumber: 2.0 Consensus size: 84
38047 TGGCATAACA
* *
38057 AAGCTCAATGGCCTATTTACTTTTAACATGCATAAATGTTGAATATGAAATAAGAATAATTGCAA
1 AAGCGCAATGGCCTATTTACTTTTAACATGCATAAATGTTGAATATGAAATAAGAAGAATTGCAA
38122 AACATGGGCAATAATAATT
66 AACATGGGCAATAATAATT
38141 AAGCGCAATGGCCTATTTACTTTTAACATGCATAAATGTTGAATATGAAATAAGAAGAATTGCAA
1 AAGCGCAATGGCCTATTTACTTTTAACATGCATAAATGTTGAATATGAAATAAGAAGAATTGCAA
38206 AACATGGGCAATAATAATT
66 AACATGGGCAATAATAATT
38225 AAGC
1 AAGC
38229 TTAATGCACC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (84 bp):
AAGCGCAATGGCCTATTTACTTTTAACATGCATAAATGTTGAATATGAAATAAGAAGAATTGCAA
AACATGGGCAATAATAATT
Found at i:38474 original size:23 final size:21
Alignment explanation
Indices: 38440--38497 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
38430 GTCTTTTAGA
* *
38440 TTTTATTCATTTTAATTTTAAAT
1 TTTTATTTATTTTAA-ATT-AAT
38463 TTTTATTTATTTTTAAATTAAT
1 TTTTATTTA-TTTTAAATTAAT
*
38485 TTCTATTTATTTT
1 TTTTATTTATTTT
38498 TATATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 4 0.13
22 11 0.35
23 10 0.32
24 6 0.19
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTATTTTAAATTAAT
Found at i:38476 original size:18 final size:19
Alignment explanation
Indices: 38450--38504 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 19
38440 TTTTATTCAT
*
38450 TTTAATTTTAAATTTT-TA
1 TTTATTTTTAAATTTTCTA
38468 TTTATTTTTAAATTAATTTCTA
1 TTTATTTTTAAA-T--TTTCTA
*
38490 TTTATTTTTATATTT
1 TTTATTTTTAAATTT
38505 ATAATTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 11 0.35
19 3 0.10
21 4 0.13
22 13 0.42
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTTTTAAATTTTCTA
Found at i:39304 original size:16 final size:16
Alignment explanation
Indices: 39242--39300 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
39232 GATTAAGCGC
*
39242 TGAATGATTCAAATAT
1 TGAATGATTCAAATGT
39258 TGAATGATTCAAATGT
1 TGAATGATTCAAATGT
*
39274 TGAATGATTCAGATGT
1 TGAATGATTCAAATGT
39290 TGAATGATTCA
1 TGAATGATTCA
39301 GATGCTCTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (16 bp):
TGAATGATTCAAATGT
Found at i:39412 original size:23 final size:23
Alignment explanation
Indices: 39380--39442 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
39370 ATTTATGTGC
39380 TGAATCATTCAGAACTGTTTTGA
1 TGAATCATTCAGAACTGTTTTGA
* *
39403 TGAATTATTCAGAACTGTTTTGC
1 TGAATCATTCAGAACTGTTTTGA
* *
39426 TGAATCAGTCAGCACTG
1 TGAATCATTCAGAACTG
39443 AATCATTCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (23 bp):
TGAATCATTCAGAACTGTTTTGA
Found at i:46967 original size:3 final size:3
Alignment explanation
Indices: 46959--47099 Score: 210
Period size: 3 Copynumber: 46.7 Consensus size: 3
46949 TCATTTAAAT
* **
46959 TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
47007 TTA TTA TTA GTA TTA GTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
47055 TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
47100 TAATAAATAA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
3 120 0.98
4 3 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:47514 original size:19 final size:19
Alignment explanation
Indices: 47492--47533 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
47482 AAGAGGACGG
47492 CAGAGAAAGAAAAAAAAAA
1 CAGAGAAAGAAAAAAAAAA
* *
47511 C--AGAACGGAAAAAAAAA
1 CAGAGAAAGAAAAAAAAAA
47528 CAGAGA
1 CAGAGA
47534 GGAAAGAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
17 15 0.79
19 4 0.21
ACGTcount: A:0.71, C:0.10, G:0.19, T:0.00
Consensus pattern (19 bp):
CAGAGAAAGAAAAAAAAAA
Found at i:47811 original size:13 final size:13
Alignment explanation
Indices: 47793--47821 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
47783 ACCACCGTTA
47793 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
47806 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
47819 CGG
1 CGG
47822 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:48405 original size:12 final size:12
Alignment explanation
Indices: 48375--48412 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
48365 ATTACTTTTA
48375 TATTTTAATTAT
1 TATTTTAATTAT
**
48387 TGCTTTAATTAT
1 TATTTTAATTAT
48399 TATTTT-ATTAT
1 TATTTTAATTAT
48410 TAT
1 TAT
48413 CTTAGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:53945 original size:18 final size:17
Alignment explanation
Indices: 53922--53955 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
53912 TCATCCAGCA
53922 AAGAAAGAAGAAAAAAAG
1 AAGAAA-AAGAAAAAAAG
53940 AAGAAAAAGAAAAAAA
1 AAGAAAAAGAAAAAAA
53956 TTGAATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAAAAAAAG
Found at i:56358 original size:185 final size:185
Alignment explanation
Indices: 56047--56492 Score: 680
Period size: 185 Copynumber: 2.4 Consensus size: 185
56037 TAAGGAGACC
*
56047 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAAACCAA
* *
56112 TTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
66 TCATTGAATTTGGAAGAGGAATGTGCTCATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGAT
* *
56177 CTGGTTTGGTATG-AACCACAGAACCAGTTATTGAATTTGGAAGAGGAATGTGCT
131 CTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGGAAGAGGAATGTGCT
* * *
56231 CATAGCATCTTCTGGAAGTTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAACCACAGAACTA
1 CATAGCATCTTCTGGAAG-TGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAAACCA
* *
56296 ATCATTGAATTTGGAAGATGAATGTGCTCATAGCATATTTTGGAAGTGTTCTTTGAGTTATCTGA
65 ATCATTGAATTTGGAAGAGGAATGTGCTCATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGA
* *
56361 TCTGGTTTGGTATGAAACCACAGAATCAATCATTGAATTTGGAAGATGAATGTGCT
130 TCTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGGAAGAGGAATGTGCT
* * * * * * *
56417 CATAGCATCTTTTGGAAGTATTCTTTGAATTATCTGATATGATTTGGTATGAACTC-TAAAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAC-CACAAAACCA
*
56481 ATCATTGGATTT
65 ATCATTGAATTT
56493 AAAAGATGAA
Statistics
Matches: 236, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
184 18 0.08
185 163 0.69
186 55 0.23
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (185 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAAACCAA
TCATTGAATTTGGAAGAGGAATGTGCTCATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGAT
CTGGTTTGGTATGAAACCACAGAACCAATCATTGAATTTGGAAGAGGAATGTGCT
Found at i:56510 original size:93 final size:92
Alignment explanation
Indices: 56047--56514 Score: 679
Period size: 93 Copynumber: 5.1 Consensus size: 92
56037 TAAGGAGACC
* *
56047 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
* *
56112 TTATTGAATTTGGAAGAGGAATGTGCT
66 TCATTGAATTTGGAAGATGAATGTGCT
*
56139 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAG
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
* *
56204 TTATTGAATTTGGAAGAGGAATGTGCT
66 TCATTGAATTTGGAAGATGAATGTGCT
* *
56231 CATAGCATCTTCTGGAAGTTGTTCTTTGAGTTATATGATCTGGTTTGGTATGAACCACAGAACTA
1 CATAGCATCTTCTGGAAG-TGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCA
56296 ATCATTGAATTTGGAAGATGAATGTGCT
65 ATCATTGAATTTGGAAGATGAATGTGCT
* * *
56324 CATAGCATATTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAATCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
56389 ATCATTGAATTTGGAAGATGAATGTGCT
65 ATCATTGAATTTGGAAGATGAATGTGCT
* * * * * *
56417 CATAGCATCTTTTGGAAGTATTCTTTGAATTATCTGATATGATTTGGTATGAACTCTA-A-AATC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAC-C-ACAGAACC
* ** *
56480 AATCATTGGATTTAAAAGATGAATTTTGCT
64 AATCATTGAATTTGGAAGATGAA-TGTGCT
56510 CATAG
1 CATAG
56515 TAGAAATAAG
Statistics
Matches: 351, Mismatches: 20, Indels: 9
0.92 0.05 0.02
Matches are distributed among these distances:
92 168 0.48
93 182 0.52
94 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (92 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCATTGAATTTGGAAGATGAATGTGCT
Found at i:59973 original size:76 final size:76
Alignment explanation
Indices: 59844--60791 Score: 1765
Period size: 76 Copynumber: 12.5 Consensus size: 76
59834 CTATTTCTCA
59844 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
59909 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
59920 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
59985 AACCTTCGGGT
66 AGCCTTCGGGT
59996 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60061 AGCCTTCGGGT
66 AGCCTTCGGGT
60072 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60137 AGCCTTCGGGT
66 AGCCTTCGGGT
60148 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60213 AGCCTTCGGGT
66 AGCCTTCGGGT
60224 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60288 AGCCTTCGGGT
66 AGCCTTCGGGT
60299 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60364 AGCCTTCGGGT
66 AGCCTTCGGGT
60375 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60440 AGCCTTCGGGT
66 AGCCTTCGGGT
*
60451 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGGTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60516 AGCCTTCGGGT
66 AGCCTTCGGGT
*
60527 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
60592 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
60603 CATCTGTAAGTCCTTCAGGGCATGATGTTTCCAAAAAGCCTTCTGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
60668 ATCCTTCGGGT
66 AGCCTTCGGGT
60679 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
*
60744 AAAACCTTCGGGT
64 AAAGCCTTCGGGT
*
60757 CATCTGTAAG-CTCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTC-CTTCAGTGCATGATGTTTCCAAA
60792 CATTTCCATC
Statistics
Matches: 851, Mismatches: 17, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
75 75 0.09
76 731 0.86
77 1 0.00
78 44 0.05
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:60925 original size:3 final size:3
Alignment explanation
Indices: 60917--61073 Score: 215
Period size: 3 Copynumber: 51.7 Consensus size: 3
60907 TCATTTAAAT
* **
60917 TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
60965 TTA TTA TTA GTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
61013 TAA TAA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
61059 TATA TTA TTA TTA TT
1 T-TA TTA TTA TTA TT
61074 TAATAAATAA
Statistics
Matches: 138, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
3 132 0.96
4 6 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:61783 original size:13 final size:13
Alignment explanation
Indices: 61765--61793 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
61755 ACCACCGTTA
61765 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
61778 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
61791 CGG
1 CGG
61794 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:62377 original size:12 final size:12
Alignment explanation
Indices: 62347--62384 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
62337 ATTACTTTTA
62347 TATTTTAATTAT
1 TATTTTAATTAT
**
62359 TGCTTTAATTAT
1 TATTTTAATTAT
62371 TATTTT-ATTAT
1 TATTTTAATTAT
62382 TAT
1 TAT
62385 CTTAGTCATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 8 0.36
12 14 0.64
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:67863 original size:20 final size:21
Alignment explanation
Indices: 67831--67870 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
67821 TCCTAGAGGG
67831 TGGGAAGAACAAAAAGAAGAA
1 TGGGAAGAACAAAAAGAAGAA
*
67852 TGGGAA-AACAAAATGAAGA
1 TGGGAAGAACAAAAAGAAGA
67871 TGCTGGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.05, G:0.28, T:0.07
Consensus pattern (21 bp):
TGGGAAGAACAAAAAGAAGAA
Found at i:72050 original size:21 final size:21
Alignment explanation
Indices: 72024--72068 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
72014 GATTTCTGGG
* *
72024 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
72045 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
72066 CAA
1 CAA
72069 ACGAAAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:72491 original size:16 final size:17
Alignment explanation
Indices: 72457--72496 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
72447 TTATATGAAA
*
72457 TGATATGTGCTTATATG
1 TGATATGTGATTATATG
*
72474 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
72490 TGATATG
1 TGATATG
72497 CCATATGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:73654 original size:29 final size:30
Alignment explanation
Indices: 73564--73657 Score: 154
Period size: 30 Copynumber: 3.1 Consensus size: 30
73554 TCGAGACATA
73564 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
73595 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* *
73625 TGGACAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
73654 TGGA
1 TGGA
73658 TAGGTCCTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 18 0.30
30 36 0.59
31 7 0.11
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:76735 original size:21 final size:21
Alignment explanation
Indices: 76709--76753 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76699 GATTTCTGGG
* *
76709 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
76730 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
76751 CAA
1 CAA
76754 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:77178 original size:16 final size:17
Alignment explanation
Indices: 77144--77183 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
77134 TTATATGAAA
*
77144 TGATATGTGCTTATATG
1 TGATATGTGATTATATG
*
77161 TGCTATGTGATT-TATG
1 TGATATGTGATTATATG
77177 TGATATG
1 TGATATG
77184 CCATATGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (17 bp):
TGATATGTGATTATATG
Found at i:77563 original size:2 final size:2
Alignment explanation
Indices: 77556--77626 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
77546 CATGAGTTAG
77556 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
77598 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
77627 GGAATTGTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78351 original size:30 final size:30
Alignment explanation
Indices: 78307--78400 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
78297 TCGAGACATA
78307 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
78338 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
78368 TGGACAATTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
78397 TGGA
1 TGGA
78401 TAGGTCCTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 18 0.30
30 35 0.58
31 7 0.12
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:94593 original size:103 final size:103
Alignment explanation
Indices: 94409--94642 Score: 364
Period size: 103 Copynumber: 2.3 Consensus size: 103
94399 GTCGATGGTC
* *
94409 TATGTGGTCATTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
94474 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* * *
94512 TATGTGGTCCTTCAGGATATATATGTATTCTTTGGAACATGTGTGATGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
94577 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
94615 TATGTGGTCCTT-ATGGACAT-TATTATAT
1 TATGTGGTCCTTCA-GGACATATA-TATAT
94643 GGCACTACGG
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
102 3 0.03
103 116 0.97
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:100210 original size:105 final size:105
Alignment explanation
Indices: 99984--100219 Score: 372
Period size: 105 Copynumber: 2.3 Consensus size: 105
99974 GTCAAGGGTC
*
99984 TATGTGGTCCTTCGGGAC--ATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TATGTGGTCCTTCGGGACATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
* *
100047 ACGTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 ACGTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
100087 TATGTGGTCATTCGGGACATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TATGTGGTCCTTCGGGACATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
* *
100152 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 ACGTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
**
100192 TATGTGGTCCTTATGGACAT-TAT-TATAT
1 TATGTGGTCCTTCGGGACATATATATATAT
100220 GGCACTACGG
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
103 22 0.18
104 3 0.02
105 97 0.80
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (105 bp):
TATGTGGTCCTTCGGGACATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
ACGTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:100286 original size:23 final size:23
Alignment explanation
Indices: 100210--100287 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
100200 CCTTATGGAC
*
100210 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
100234 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
100257 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
100280 ATTATATG
1 ATTATATG
100288 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:104017 original size:32 final size:32
Alignment explanation
Indices: 103976--104039 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
103966 ACTCAATATC
103976 ATAATTTTGACACTCTTTGTAGTAATTTTCTG
1 ATAATTTTGACACTCTTTGTAGTAATTTTCTG
104008 ATAATTTTGACACTCTTTGTAGTAATTTTCTG
1 ATAATTTTGACACTCTTTGTAGTAATTTTCTG
104040 TTTCCTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (32 bp):
ATAATTTTGACACTCTTTGTAGTAATTTTCTG
Found at i:112643 original size:24 final size:24
Alignment explanation
Indices: 112616--112667 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
112606 CGTTCATTTA
* *
112616 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCATGAACGTTCGATTATGTT
* **
112640 CGTTTATGTTCGTTCGATTATGTT
1 CGTTCATGAACGTTCGATTATGTT
112664 CGTT
1 CGTT
112668 TATGTTCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (24 bp):
CGTTCATGAACGTTCGATTATGTT
Found at i:112654 original size:14 final size:14
Alignment explanation
Indices: 112637--112667 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
112627 GTTCGGTTAT
*
112637 GTTCGTTTATGTTC
1 GTTCGATTATGTTC
112651 GTTCGATTATGTTC
1 GTTCGATTATGTTC
112665 GTT
1 GTT
112668 TATGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.23, T:0.55
Consensus pattern (14 bp):
GTTCGATTATGTTC
Found at i:112668 original size:24 final size:24
Alignment explanation
Indices: 112626--112674 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
112616 CGTTCGTGAA
*
112626 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
112650 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGATTATGTTCGTTTATGTT
112674 C
1 C
112675 ATTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.14, G:0.22, T:0.53
Consensus pattern (24 bp):
CGTTCGATTATGTTCGTTTATGTT
Found at i:113430 original size:10 final size:10
Alignment explanation
Indices: 113415--113489 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
113405 GGGTCTCCAA
113415 CGTTTATGTT
1 CGTTTATGTT
113425 CGTTTATGTT
1 CGTTTATGTT
113435 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
113446 ATGTTCGTGTT
1 -CGTTTATGTT
113457 CGTTTATGTT
1 CGTTTATGTT
113467 CG----TGTT
1 CGTTTATGTT
113473 CGTTTATGTT
1 CGTTTATGTT
113483 CGTTTAT
1 CGTTTAT
113490 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:113446 original size:16 final size:16
Alignment explanation
Indices: 113421--113485 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
113411 CCAACGTTTA
113421 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
113437 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
113453 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
113469 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
113485 T
1 T
113486 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:113576 original size:16 final size:16
Alignment explanation
Indices: 113555--113587 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
113545 AAAAAAAATT
113555 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
113571 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
113587 T
1 T
113588 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:114829 original size:32 final size:31
Alignment explanation
Indices: 114793--114868 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
114783 GGGGCCGTGA
*
114793 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
114825 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
114856 AGCCTACCTAAGA
1 GGCCTACCTAAGA
114869 GTCACATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:114851 original size:63 final size:63
Alignment explanation
Indices: 114745--114868 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
114735 CCCTAAGGGA
* * *
114745 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
* *
114808 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
114869 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 49 0.92
64 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:115772 original size:17 final size:17
Alignment explanation
Indices: 115750--115809 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
115740 AACGGTCAAC
*
115750 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
115767 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
**
115784 GGTCGGGTCAGTCGGGTCG
1 GGTC--AACAGTCGGGTCG
115803 GGTCAAC
1 GGTCAAC
115810 CCGGTTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.58
19 15 0.42
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:115785 original size:22 final size:19
Alignment explanation
Indices: 115757--115806 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
115747 AACGGTCAAC
115757 GGTCGGGTCGGGTCAACAGTCG
1 GGTCGGGTCGGGT---CAGTCG
115779 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
115798 GGTCGGGTC
1 GGTCGGGTC
115807 AACCCGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.54
22 13 0.46
ACGTcount: A:0.08, C:0.22, G:0.50, T:0.20
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:115799 original size:14 final size:14
Alignment explanation
Indices: 115780--115807 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
115770 CAACAGTCGG
115780 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
115794 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
115808 ACCCGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:115825 original size:19 final size:19
Alignment explanation
Indices: 115803--115873 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
115793 AGTCGGGTCG
*
115803 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
115822 GGTCAAACCGGTTCAGACT
1 GGTCAAACCGGTTCAGACC
* * *
115841 GGTCAAACCGGTTTAAAACT
1 GGTCAAACCGG-TTCAGACC
115861 GGTCAAACCGGTT
1 GGTCAAACCGGTT
115874 TTCCAGCAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 30 0.64
20 17 0.36
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:115833 original size:9 final size:9
Alignment explanation
Indices: 115803--115872 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
115793 AGTCGGGTCG
*
115803 GGTCAACCC
1 GGTCAAACC
*
115812 GGTTCAGACC
1 GG-TCAAACC
115822 GGTCAAACC
1 GGTCAAACC
* *
115831 GGTTCAGACT
1 GG-TCAAACC
115841 GGTCAAACC
1 GGTCAAACC
* *
115850 GGTTTAAAACT
1 GG--TCAAACC
115861 GGTCAAACC
1 GGTCAAACC
115870 GGT
1 GGT
115873 TTTCCAGCAG
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
9 25 0.54
10 14 0.30
11 7 0.15
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (9 bp):
GGTCAAACC
Found at i:115863 original size:20 final size:20
Alignment explanation
Indices: 115822--115874 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
115812 GGTTCAGACC
* *
115822 GGTCAAACCGG-TTCAGACT
1 GGTCAAACCGGTTTAAAACT
115841 GGTCAAACCGGTTTAAAACT
1 GGTCAAACCGGTTTAAAACT
115861 GGTCAAACCGGTTT
1 GGTCAAACCGGTTT
115875 TCCAGCAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
GGTCAAACCGGTTTAAAACT
Found at i:122151 original size:32 final size:31
Alignment explanation
Indices: 122115--122190 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
122105 GGGGCCGTGA
*
122115 GGCCTACCTAAGAACACATCTTAGGGCCGCAG
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCAG
** **
122147 GGCCTACCCGAGAATGATCTCAGGGCCGCAG
1 GGCCTACCTAAGAAACATCTCAGGGCCGCAG
*
122178 AGCCTACCTAAGA
1 GGCCTACCTAAGA
122191 GTCACATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCAG
Found at i:122173 original size:63 final size:63
Alignment explanation
Indices: 122067--122190 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
122057 CCCTAAGGGA
* * *
122067 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCG-TGAGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGA-GCCTACCTAAGAAC
* *
122130 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
122191 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 49 0.92
64 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:123095 original size:17 final size:17
Alignment explanation
Indices: 123073--123132 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
123063 AACGGTCAAC
*
123073 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
123090 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
**
123107 GGTCGGGTCAGTCGGGTCG
1 GGTC--AACAGTCGGGTCG
123126 GGTCAAC
1 GGTCAAC
123133 CCGGTTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.58
19 15 0.42
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:123108 original size:22 final size:19
Alignment explanation
Indices: 123080--123129 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
123070 AACGGTCAAC
123080 GGTCGGGTCGGGTCAACAGTCG
1 GGTCGGGTCGGGT---CAGTCG
123102 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
123121 GGTCGGGTC
1 GGTCGGGTC
123130 AACCCGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.54
22 13 0.46
ACGTcount: A:0.08, C:0.22, G:0.50, T:0.20
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:123122 original size:14 final size:14
Alignment explanation
Indices: 123103--123130 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
123093 CAACAGTCGG
123103 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
123117 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
123131 ACCCGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:123148 original size:19 final size:19
Alignment explanation
Indices: 123126--123196 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
123116 AGTCGGGTCG
*
123126 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
123145 GGTCAAACCGGTTCAGACT
1 GGTCAAACCGGTTCAGACC
* * *
123164 GGTCAAACCGGTTTAAAACT
1 GGTCAAACCGG-TTCAGACC
123184 GGTCAAACCGGTT
1 GGTCAAACCGGTT
123197 TTCCAGCAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
19 30 0.64
20 17 0.36
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:123156 original size:9 final size:9
Alignment explanation
Indices: 123126--123195 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
123116 AGTCGGGTCG
*
123126 GGTCAACCC
1 GGTCAAACC
*
123135 GGTTCAGACC
1 GG-TCAAACC
123145 GGTCAAACC
1 GGTCAAACC
* *
123154 GGTTCAGACT
1 GG-TCAAACC
123164 GGTCAAACC
1 GGTCAAACC
* *
123173 GGTTTAAAACT
1 GG--TCAAACC
123184 GGTCAAACC
1 GGTCAAACC
123193 GGT
1 GGT
123196 TTTCCAGCAG
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
9 25 0.54
10 14 0.30
11 7 0.15
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (9 bp):
GGTCAAACC
Found at i:123186 original size:20 final size:20
Alignment explanation
Indices: 123145--123197 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
123135 GGTTCAGACC
* *
123145 GGTCAAACCGG-TTCAGACT
1 GGTCAAACCGGTTTAAAACT
123164 GGTCAAACCGGTTTAAAACT
1 GGTCAAACCGGTTTAAAACT
123184 GGTCAAACCGGTTT
1 GGTCAAACCGGTTT
123198 TCCAGCAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
GGTCAAACCGGTTTAAAACT
Found at i:124954 original size:28 final size:27
Alignment explanation
Indices: 124922--124985 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
124912 TCGAATATGT
*
124922 ATTGTAATTTTTTTTGGGTGAATAAAGG
1 ATTGT-ATTTTTTTTAGGTGAATAAAGG
*
124950 ATTGTATTTTTTTTAGTTGAATAAAGG
1 ATTGTATTTTTTTTAGGTGAATAAAGG
*
124977 ATTGCATTT
1 ATTGTATTT
124986 ATGGTGGATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 28 0.85
28 5 0.15
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (27 bp):
ATTGTATTTTTTTTAGGTGAATAAAGG
Found at i:125178 original size:11 final size:11
Alignment explanation
Indices: 125159--125197 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
125149 TGATTAAAAC
*
125159 ATTTTCAATTA
1 ATTTCCAATTA
125170 ATTTCCAATTA
1 ATTTCCAATTA
125181 ATTT-CAATTA
1 ATTTCCAATTA
125191 ATTTCCA
1 ATTTCCA
125198 GCCGTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTTCCAATTA
Found at i:125188 original size:10 final size:10
Alignment explanation
Indices: 125161--125195 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
125151 ATTAAAACAT
125161 TTTCAATTAA
1 TTTCAATTAA
125171 TTTCCAATTAA
1 TTT-CAATTAA
125182 TTTCAATTAA
1 TTTCAATTAA
125192 TTTC
1 TTTC
125196 CAGCCGTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTCAATTAA
Found at i:130932 original size:20 final size:21
Alignment explanation
Indices: 130894--130933 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
130884 AAACCATTCA
130894 GGGGGGAATCAGTACTCCCTTG
1 GGGGGGAATCAGTA-TCCCTTG
*
130916 GGGGGGAATCGGT-TCCCT
1 GGGGGGAATCAGTATCCCT
130934 CTGAGCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.15, C:0.23, G:0.40, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCAGTATCCCTTG
Found at i:131568 original size:15 final size:15
Alignment explanation
Indices: 131548--131593 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
131538 ATAAATCCAA
131548 ACAAATTCAAAATCC
1 ACAAATTCAAAATCC
131563 ACAAATTCAAACATTCC
1 ACAAATTCAAA-A-TCC
*
131580 AAAATATTCAAAAT
1 ACAA-ATTCAAAAT
131594 GTTAAAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.41
16 2 0.07
17 7 0.26
18 7 0.26
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (15 bp):
ACAAATTCAAAATCC
Found at i:133073 original size:2 final size:2
Alignment explanation
Indices: 133066--133114 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
133056 TTGAGAAACA
133066 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
133108 AT AT AT A
1 AT AT AT A
133115 ATTTTCATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:133615 original size:21 final size:22
Alignment explanation
Indices: 133564--133628 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
133554 GATTCCCCTG
*
133564 TGGGGGGAATCAGTTCCCCTTCAA
1 TGGGGGGAATCGGTT-CCC-TCAA
*
133588 AGGGGGGAATCGGTTCCCTC-A
1 TGGGGGGAATCGGTTCCCTCAA
* *
133609 TGGGGGGGATCGATTCCCTC
1 TGGGGGGAATCGGTTCCCTC
133629 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.50
22 2 0.06
23 3 0.08
24 13 0.36
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (22 bp):
TGGGGGGAATCGGTTCCCTCAA
Found at i:140250 original size:94 final size:94
Alignment explanation
Indices: 140089--140285 Score: 385
Period size: 94 Copynumber: 2.1 Consensus size: 94
140079 TCCTTACTTA
140089 CTAATTTTGGTGGCAGAGCTGATTCCTCGAAAATGATGTTGGTGTGCTCCCTATTTTCCTTTTAG
1 CTAATTTTGGTGGCAGAGCTGATTCCTCGAAAATGATGTTGGTGTGCTCCCTATTTTCCTTTTAG
140154 CTTGCACCTACGTGTAAAACACTCACACG
66 CTTGCACCTACGTGTAAAACACTCACACG
140183 CTAATTTTGGTGGCAGAGCTGATTCCTCGAAAATGATGTTGGTGTGCTCCCTATTTTCCTTTTAG
1 CTAATTTTGGTGGCAGAGCTGATTCCTCGAAAATGATGTTGGTGTGCTCCCTATTTTCCTTTTAG
140248 CTTGCACCTACGTGTAAAACACTCACACG
66 CTTGCACCTACGTGTAAAACACTCACACG
140277 CTAAGTTTT
1 CTAA-TTTT
140286 CACTTAGTGA
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
94 98 0.96
95 4 0.04
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (94 bp):
CTAATTTTGGTGGCAGAGCTGATTCCTCGAAAATGATGTTGGTGTGCTCCCTATTTTCCTTTTAG
CTTGCACCTACGTGTAAAACACTCACACG
Found at i:146354 original size:628 final size:628
Alignment explanation
Indices: 145158--146410 Score: 2391
Period size: 628 Copynumber: 2.0 Consensus size: 628
145148 TGGGTCAGAG
145158 TGCGAGAGTTACTAGATGGTGCAAAGGTTATCCAATATAAATTCAAGGAATTGAATTTCCGGGGA
1 TGCGAGAGTTACTAGATGGTGCAAAGGTTATCCAATATAAATTCAAGGAATTGAATTTCCGGGGA
145223 ACTTATTGGAGCTACATTTCGAGGAGTTTGAAATTATTTTGGGTATGAATTGGTTATCCACTTAC
66 ACTTATTGGAGCTACATTTCGAGGAGTTTGAAATTATTTTGGGTATGAATTGGTTATCCACTTAC
* *
145288 CATGCCATAATAGATTGTCGTTTAAAGTGAGTGATATTAAAAGATTCGGGACACTCAAAGGTGAT
131 CATGCCATAATAGATTGTCATTTAAAGTGAGTGATATTAAAAGATTCAGGACACTCAAAGGTGAT
145353 ATTATTTTGGGAAAGGATAAATACTTTATTCAATTTGATATCAACTATTTCTGCTAAGAAGTTAT
196 ATTATTTTGGGAAAGGATAAATACTTTATTCAATTTGATATCAACTATTTCTGCTAAGAAGTTAT
* *
145418 TACTACAATGGTGTCAAGCGTTCTTAGCTAACGTGTTAGACACTCGAACTTCTGAAGTAAGATTG
261 TACTACAATGGTGTCAAGCGTTCTTAGCCAACGTGTTAGACACTCGAACTTATGAAGTAAGATTG
*
145483 GAGGATATTCCAACTGTTAAAAAGTACCTGGATGTTTTCCAGATGAATTATCATGATTATCTCCT
326 GAGGATATTCCAACTGTTAAAAAGTACATGGATGTTTTCCAGATGAATTATCATGATTATCTCCT
145548 GATAGAGAGGTAAAGTTTATAATTGAAGTATTTACTGGTAATGTGCCAATATCGATGGCTCCATA
391 GATAGAGAGGTAAAGTTTATAATTGAAGTATTTACTGGTAATGTGCCAATATCGATGGCTCCATA
145613 CAGGATGACACCAATAAAAATCAGAGAATTAAAGGCCCAATTGCAAGAATTGTTGGATAGGGGAT
456 CAGGATGACACCAATAAAAATCAGAGAATTAAAGGCCCAATTGCAAGAATTGTTGGATAGGGGAT
*
145678 TTATCAGACCGAGTATGTCACCTTGGGGAGCACCAGTGCTATTTGTAAAGAACAAGGATGGATCT
521 TTATCAGACCGAGTATGTCACCTTGGGGAGCACCAGTGCTATTTGTAAAGAACAAGGATGGATAT
145743 AGGTGATTATGTATAGATTATCGACAATTACACAAGGTGACAC
586 AGGTGATTATGTATAGATTATCGACAATTACACAAGGTGACAC
145786 TGCGAGAGTTACTAGATGGTGCAAAGGTTATCCAATATAAATTCAAGGAATTGAATTTCCGGGGA
1 TGCGAGAGTTACTAGATGGTGCAAAGGTTATCCAATATAAATTCAAGGAATTGAATTTCCGGGGA
145851 ACTTATTGGAGCTACATTTCGAGGAGTTTGAAATTATTTTGGGTATGAATTGGTTATCCACTTAC
66 ACTTATTGGAGCTACATTTCGAGGAGTTTGAAATTATTTTGGGTATGAATTGGTTATCCACTTAC
* *
145916 CATGCCATAATAGATTGTCATTTAAAGTGAGTGATATTAAAAGATTCAGGACGCTCAGAGGTGAT
131 CATGCCATAATAGATTGTCATTTAAAGTGAGTGATATTAAAAGATTCAGGACACTCAAAGGTGAT
145981 ATTATTTTGGGAAAGGATAAATACTTTATTCAATGTT-ATATCAACTATTTCTGCTAAGAAGTTA
196 ATTATTTTGGGAAAGGATAAATACTTTATTCAAT-TTGATATCAACTATTTCTGCTAAGAAGTTA
146045 TTACTACAATGGTGTCAAGCGTTCTTAGCCAACGTGTTAGACACTCGAACTTATGAAGTAAGATT
260 TTACTACAATGGTGTCAAGCGTTCTTAGCCAACGTGTTAGACACTCGAACTTATGAAGTAAGATT
146110 GGAGGATATTCCAACTGTTAAAAAGTACATGGATGTTTTCCAGATGAATTATCATGATTATCTCC
325 GGAGGATATTCCAACTGTTAAAAAGTACATGGATGTTTTCCAGATGAATTATCATGATTATCTCC
*
146175 TGATAGAGAGGTAAAGTTTATAATTGACGTATTTACTGGTAATGTGCCAATATCGATGGCTCCAT
390 TGATAGAGAGGTAAAGTTTATAATTGAAGTATTTACTGGTAATGTGCCAATATCGATGGCTCCAT
* *
146240 ACATGATGGCACCAATAAAAATCAGAGAATTAAAGGCCCAATTGCAAGAATTGTTGGATAGGGGA
455 ACAGGATGACACCAATAAAAATCAGAGAATTAAAGGCCCAATTGCAAGAATTGTTGGATAGGGGA
146305 TTTATCAGACCGAGTATGTCACCTTGGGGAGCACCAGTGCTATTTGTAAAGAACAAGGATGGATA
520 TTTATCAGACCGAGTATGTCACCTTGGGGAGCACCAGTGCTATTTGTAAAGAACAAGGATGGATA
146370 TAGGTGATTATGTATAGATTATCGACAATTACACAAGGTGA
585 TAGGTGATTATGTATAGATTATCGACAATTACACAAGGTGA
146411 AAGTGAAGAA
Statistics
Matches: 613, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
628 611 1.00
629 2 0.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (628 bp):
TGCGAGAGTTACTAGATGGTGCAAAGGTTATCCAATATAAATTCAAGGAATTGAATTTCCGGGGA
ACTTATTGGAGCTACATTTCGAGGAGTTTGAAATTATTTTGGGTATGAATTGGTTATCCACTTAC
CATGCCATAATAGATTGTCATTTAAAGTGAGTGATATTAAAAGATTCAGGACACTCAAAGGTGAT
ATTATTTTGGGAAAGGATAAATACTTTATTCAATTTGATATCAACTATTTCTGCTAAGAAGTTAT
TACTACAATGGTGTCAAGCGTTCTTAGCCAACGTGTTAGACACTCGAACTTATGAAGTAAGATTG
GAGGATATTCCAACTGTTAAAAAGTACATGGATGTTTTCCAGATGAATTATCATGATTATCTCCT
GATAGAGAGGTAAAGTTTATAATTGAAGTATTTACTGGTAATGTGCCAATATCGATGGCTCCATA
CAGGATGACACCAATAAAAATCAGAGAATTAAAGGCCCAATTGCAAGAATTGTTGGATAGGGGAT
TTATCAGACCGAGTATGTCACCTTGGGGAGCACCAGTGCTATTTGTAAAGAACAAGGATGGATAT
AGGTGATTATGTATAGATTATCGACAATTACACAAGGTGACAC
Found at i:152478 original size:110 final size:108
Alignment explanation
Indices: 152338--152695 Score: 361
Period size: 110 Copynumber: 3.3 Consensus size: 108
152328 GGTGATCCCG
* *
152338 CTCCCTATTTCTTCAG-GAAGTATA-AGACTCGAACAATCTTCAGCAAATGTGTATGCTCCCTAT
1 CTCCCTA-TTCCTCAGAG-AGTATAGA-ACTCGAACAATCTTCAGCAAATGTGTCTGCTCCCTAT
*
152401 TCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGTTCG
63 TCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACG-GTTCA
* * * * *
152448 CTCCCTATTGCCTCAGGGAGTATAGAACTCGAATAATCTTCAGTAAACGTGTCTGCTCCCTATTT
1 CTCCCTATT-CCTCAGAGAGTATAGAACTCGAACAATCTTCAGCAAATGTGTCTGCTCCCTATTC
* * *
152513 GTTTAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGGGTCTA
65 GTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGTTC-A
* * * * * * * *
152558 CTCTCTATTCTTTCAAAGAGTATAGAACTCGAACAATCTTTAACAAATGGGTCCGCTCTCTATTC
1 CTCCCTATTC-CTCAGAGAGTATAGAACTCGAACAATCTTCAGCAAATGTGTCTGCTCCCTATTC
** * *
152623 CATCAGAGAGTAT-AGAACTTG----ATCTTCAATAAACGGGTTCA
65 GTTCAGGGAGTATAAG-ACTCGAACAATCTTCAATAAAC-GGTTCA
*
152664 CTCTCTATTCCATCAGAGAGTATAGAACTCGA
1 CTCCCTATTCC-TCAGAGAGTATAGAACTCGA
152696 TCTTCATAAA
Statistics
Matches: 208, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
106 42 0.20
107 4 0.02
109 8 0.04
110 152 0.73
111 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (108 bp):
CTCCCTATTCCTCAGAGAGTATAGAACTCGAACAATCTTCAGCAAATGTGTCTGCTCCCTATTCG
TTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGGTTCA
Found at i:152545 original size:55 final size:55
Alignment explanation
Indices: 152337--152597 Score: 298
Period size: 55 Copynumber: 4.7 Consensus size: 55
152327 TGGTGATCCC
* * * * *
152337 GCTCCCTATTTCTTCAGGAAGTATAAGACTCGAACAATCTTCAGCAAATGTGTAT
1 GCTCCCTATTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGTGTCT
* * *
152392 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGT-T
1 GCTCCCTATTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGTGTCT
* *
152446 CGCTCCCTA-TTGCCTCAGGGAGTAT-AGAACTCGAATAATCTTCAGTAAACGTGTCT
1 -GCTCCCTATTTG-TTCAGGGAGTATAAG-ACTCGAACAATCTTCAGTAAACGTGTCT
* *
152502 GCTCCCTATTTGTTTAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGGGTCT
1 GCTCCCTATTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGTGTCT
* * **
152557 ACTCTCTATTCT-TTCAAAGAGTAT-AGAACTCGAACAATCTT
1 GCTCCCTATT-TGTTCAGGGAGTATAAG-ACTCGAACAATCTT
152598 TAACAAATGG
Statistics
Matches: 177, Mismatches: 21, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
54 7 0.04
55 163 0.92
56 7 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (55 bp):
GCTCCCTATTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGTGTCT
Found at i:152610 original size:55 final size:55
Alignment explanation
Indices: 152356--152695 Score: 250
Period size: 55 Copynumber: 6.3 Consensus size: 55
152346 TTCTTCAGGA
** * * * * * ** *
152356 AGTATA-AGACTCGAACAATCTTCAGCAAATGTGTATGCTCCCTATTCGTTCAGGG
1 AGTATAGA-ACTCGAACAATCTTCAATAAACGGGTCTACTCTCTATTCCATCAGAG
* * * *
152411 AGTATA-AGACTCGAACAATCTTCAATAAACGAGT-TCGCTCCCTATTGCC-TCAGGG
1 AGTATAGA-ACTCGAACAATCTTCAATAAACGGGTCT-ACTCTCTATT-CCATCAGAG
* * * * * *** * *
152466 AGTATAGAACTCGAATAATCTTCAGTAAACGTGTCTGCTCCCTATTTGTTTAGGG
1 AGTATAGAACTCGAACAATCTTCAATAAACGGGTCTACTCTCTATTCCATCAGAG
* ** *
152521 AGTATA-AGACTCGAACAATCTTCAGTAAACGGGTCTACTCTCTATTCTTTCAAAG
1 AGTATAGA-ACTCGAACAATCTTCAATAAACGGGTCTACTCTCTATTCCATCAGAG
* * * **
152576 AGTATAGAACTCGAACAATCTTTAACAAATGGGTCCGCTCTCTATTCCATCAGAG
1 AGTATAGAACTCGAACAATCTTCAATAAACGGGTCTACTCTCTATTCCATCAGAG
*
152631 AGTATAGAACTTG----ATCTTCAATAAACGGGT-TCACTCTCTATTCCATCAGAG
1 AGTATAGAACTCGAACAATCTTCAATAAACGGGTCT-ACTCTCTATTCCATCAGAG
152682 AGTATAGAACTCGA
1 AGTATAGAACTCGA
152696 TCTTCATAAA
Statistics
Matches: 240, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
51 44 0.18
54 2 0.01
55 190 0.79
56 4 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (55 bp):
AGTATAGAACTCGAACAATCTTCAATAAACGGGTCTACTCTCTATTCCATCAGAG
Found at i:152636 original size:165 final size:165
Alignment explanation
Indices: 152337--152641 Score: 407
Period size: 165 Copynumber: 1.8 Consensus size: 165
152327 TGGTGATCCC
* * *
152337 GCTCCCTATTTCTTCAGGAAGTATAAGACTCGAACAATCTTCAGCAAATGTGTATGCTCCCTATT
1 GCTCCCTATTTCTTCAGGAAGTATAAGACTCGAACAATCTTCAGCAAACGGGTATACTCCCTATT
** * * *
152402 CGTTCAGGGAGTATAAGACTCGAACAATCTTCAATAAACGAGTTCGCTCCCTATTGCCTCAGGGA
66 CGTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACGAGTCCGCTCCCTATTGCCTCAGAGA
152467 GTATAGAACTCGAATAATCTTCAGTAAACGTGTCT
131 GTATAGAACTCGAATAATCTTCAGTAAACGTGTCT
* * * * * *
152502 GCTCCCTATTTGTTTAGGGAGTATAAGACTCGAACAATCTTCAGTAAACGGGTCTACTCTCTATT
1 GCTCCCTATTTCTTCAGGAAGTATAAGACTCGAACAATCTTCAGCAAACGGGTATACTCCCTATT
* * * * *
152567 CTTTCAAAGAGTAT-AGAACTCGAACAATCTTTAACAAATGGGTCCGCTCTCTATT-CCATCAGA
66 CGTTCAAAGAGTATAAG-ACTCGAACAATCTTCAACAAACGAGTCCGCTCCCTATTGCC-TCAGA
152630 GAGTATAGAACT
129 GAGTATAGAACT
152642 TGATCTTCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
164 4 0.03
165 115 0.97
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (165 bp):
GCTCCCTATTTCTTCAGGAAGTATAAGACTCGAACAATCTTCAGCAAACGGGTATACTCCCTATT
CGTTCAAAGAGTATAAGACTCGAACAATCTTCAACAAACGAGTCCGCTCCCTATTGCCTCAGAGA
GTATAGAACTCGAATAATCTTCAGTAAACGTGTCT
Found at i:152673 original size:51 final size:51
Alignment explanation
Indices: 152538--152705 Score: 187
Period size: 51 Copynumber: 3.2 Consensus size: 51
152528 GACTCGAACA
* ** *
152538 ATCTTCAGTAAACGGG-TCTACTCTCTATTCTTTCAAAGAGTATAGAACTCG
1 ATCTTCAATAAACGGGTTC-ACTCTCTATTCCATCAGAGAGTATAGAACTCG
* * * * * *
152589 AACAATCTTTAACAAATGGGTCCGCTCTCTATTCCATCAGAGAGTATAGAACTTG
1 ----ATCTTCAATAAACGGGTTCACTCTCTATTCCATCAGAGAGTATAGAACTCG
152644 ATCTTCAATAAACGGGTTCACTCTCTATTCCATCAGAGAGTATAGAACTCG
1 ATCTTCAATAAACGGGTTCACTCTCTATTCCATCAGAGAGTATAGAACTCG
152695 ATCTTC-ATAAA
1 ATCTTCAATAAA
152706 ATGAATTCGC
Statistics
Matches: 96, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
50 5 0.05
51 51 0.53
55 39 0.41
56 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (51 bp):
ATCTTCAATAAACGGGTTCACTCTCTATTCCATCAGAGAGTATAGAACTCG
Found at i:154130 original size:40 final size:39
Alignment explanation
Indices: 154086--154216 Score: 115
Period size: 40 Copynumber: 3.3 Consensus size: 39
154076 TTTTTCATCA
*
154086 TTTTTTCTTTTATTTTGTCTTCCATTTTCT-ATTTTTCTTT
1 TTTTTTCTTTTATTTT-TCTTCCATTTTCTCATTTTT-TTC
* * * * *
154126 TTTTTTCATTCATTTTTTTTTCATTTTTTCATTTTTTTC
1 TTTTTTCTTTTATTTTTCTTCCATTTTCTCATTTTTTTC
*
154165 TTTTTTCTTTTTTTCATTTTCTT-CATTTTCTTCATTTTTTT-
1 TTTTTTC-TTTTAT--TTTTCTTCCATTTTC-TCATTTTTTTC
*
154206 ATTTTTCTTTT
1 TTTTTTCTTTT
154217 TTCATCATTT
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
39 19 0.26
40 27 0.36
41 12 0.16
42 16 0.22
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (39 bp):
TTTTTTCTTTTATTTTTCTTCCATTTTCTCATTTTTTTC
Found at i:154142 original size:51 final size:50
Alignment explanation
Indices: 154064--154178 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 50
154054 ACCCCCATTT
154064 TATTTTT-TTTCTTTTTTCATCATTTTTTCTTTT-ATTTTGTC-TTCCATTTTC
1 TATTTTTCTTT-TTTTTTCATCATTTTTT-TTTTCATTTTGTCATT--ATTTTC
* *
154115 TATTTTTCTTTTTTTTTCATTCA-TTTTTTTTTCATTTTTTCATTTTTTTC
1 TATTTTTCTTTTTTTTTCA-TCATTTTTTTTTTCATTTTGTCATTATTTTC
154165 T-TTTTTCTTTTTTT
1 TATTTTTCTTTTTTT
154179 CATTTTCTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
49 13 0.22
50 10 0.17
51 27 0.47
52 8 0.14
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.77
Consensus pattern (50 bp):
TATTTTTCTTTTTTTTTCATCATTTTTTTTTTCATTTTGTCATTATTTTC
Found at i:154154 original size:33 final size:31
Alignment explanation
Indices: 154125--154232 Score: 126
Period size: 32 Copynumber: 3.3 Consensus size: 31
154115 TATTTTTCTT
*
154125 TTTTTTTCATTCATTTTTTTTTCATTTTTTCA
1 TTTTTTTCATT-TTTTTTTTTTCATTTTTTCA
*
154157 TTTTTTTCTTTTTTCTTTTTTTCATTTTCTTCA
1 TTTTTTTCATTTTT-TTTTTTTCATTTT-TTCA
* *
154190 TTTTCTTCATTTTTTTATTTTTCTTTTTTCATCA
1 TTTTTTTCATTTTTTT-TTTTTCATTTTT--TCA
154224 TTTTTTTCA
1 TTTTTTTCA
154233 AGCGAAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
31 2 0.03
32 26 0.40
33 26 0.40
34 11 0.17
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (31 bp):
TTTTTTTCATTTTTTTTTTTTCATTTTTTCA
Found at i:154168 original size:6 final size:7
Alignment explanation
Indices: 154141--154219 Score: 61
Period size: 9 Copynumber: 10.0 Consensus size: 7
154131 TCATTCATTT
154141 TTTTTTC
1 TTTTTTC
154148 ATTTTTTC
1 -TTTTTTC
154156 ATTTTTTTC
1 --TTTTTTC
154165 TTTTTTC
1 TTTTTTC
154172 TTTTTTTC
1 -TTTTTTC
154180 ATTTTCTTC
1 -TTTT-TTC
154189 ATTTTCTTC
1 -TTTT-TTC
154198 ATTTTTT-
1 -TTTTTTC
154205 TATTTTTC
1 T-TTTTTC
154213 TTTTTTC
1 TTTTTTC
154220 ATCATTTTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
6 1 0.02
7 18 0.28
8 21 0.33
9 24 0.38
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTTC
Found at i:154199 original size:42 final size:41
Alignment explanation
Indices: 154117--154232 Score: 137
Period size: 41 Copynumber: 2.8 Consensus size: 41
154107 CCATTTTCTA
**
154117 TTTTTCTTTTTT-TTTCATTCATTTTTTTTTCATTTTTTCATT
1 TTTTTCTTTTTTCTTTTTTTCA--TTTTTTTCATTTTTTCATT
*
154159 TTTTTCTTTTTTCTTTTTTTCATTTTCTTCATTTTCTTCATT
1 TTTTTCTTTTTTCTTTTTTTCATTTTTTTCATTTT-TTCATT
*
154201 TTTTT-ATTTTTCTTTTTTCATCATTTTTTTCA
1 TTTTTCTTTTTTCTTTTTT--TCATTTTTTTCA
154233 AGCGAAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
41 24 0.37
42 23 0.35
43 18 0.28
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (41 bp):
TTTTTCTTTTTTCTTTTTTTCATTTTTTTCATTTTTTCATT
Found at i:155892 original size:24 final size:24
Alignment explanation
Indices: 155865--155964 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
155855 GATATCAAAA
*
155865 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
155889 ATCATAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
155913 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
155937 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
155961 ATCA
1 ATCA
155965 GATAAAATAT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:155964 original size:48 final size:48
Alignment explanation
Indices: 155858--155966 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
155848 AAACGGAGAT
* * * * *
155858 ATCAAAAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
155906 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
155954 ATCAGAAATCAGA
1 ATCAGAAATCAGA
155967 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:158466 original size:7 final size:7
Alignment explanation
Indices: 158454--158492 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
158444 TGGTCAACTC
158454 CGGTCAA
1 CGGTCAA
158461 CGGTCAA
1 CGGTCAA
158468 CGGTCAA
1 CGGTCAA
158475 CGGGTCAA
1 C-GGTCAA
158483 CGGTCAA
1 CGGTCAA
158490 CGG
1 CGG
158493 GTCGGGTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:158482 original size:15 final size:15
Alignment explanation
Indices: 158454--158508 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
158444 TGGTCAACTC
158454 CGGTCAAC-GGTCAA
1 CGGTCAACGGGTCAA
158468 CGGTCAACGGGTCAA
1 CGGTCAACGGGTCAA
158483 CGGTCAACGGGTC--
1 CGGTCAACGGGTCAA
*
158496 GGGTCAACGGGTC
1 CGGTCAACGGGTC
158509 GGGTCGGGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
13 12 0.31
14 8 0.21
15 19 0.49
ACGTcount: A:0.22, C:0.27, G:0.36, T:0.15
Consensus pattern (15 bp):
CGGTCAACGGGTCAA
Found at i:158513 original size:18 final size:18
Alignment explanation
Indices: 158490--158566 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
158480 CAACGGTCAA
158490 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
158508 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
158521 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
158539 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
158557 CGGGTCGGGT
1 CGGGTCGGGT
158567 TGTGACCGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.12, C:0.21, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:158522 original size:31 final size:31
Alignment explanation
Indices: 158484--158562 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
158474 ACGGGTCAAC
158484 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
158515 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
158546 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
158563 GGGTTGTGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.14, C:0.22, G:0.48, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:158562 original size:13 final size:13
Alignment explanation
Indices: 158469--158544 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
158459 AACGGTCAAC
*
158469 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
158484 GGTCAACGGGTCG
1 GGTCAACGGGTCG
158497 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
158515 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
158528 GGTAAACGGGTCG
1 GGTCAACGGGTCG
158541 GGTC
1 GGTC
158545 GGGTCAACGG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.53
15 12 0.23
18 13 0.25
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:160725 original size:24 final size:24
Alignment explanation
Indices: 160698--160797 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
160688 GATATCAAAA
*
160698 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * * *
160722 ATCATAACAGAATCCAGGTTAGGA-
1 ATCAAAACAGAATTCAGATCA-GAT
* *
160746 ATCAGAACAGATTTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
160770 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
160794 ATCA
1 ATCA
160798 GATAAAATAT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:160797 original size:48 final size:48
Alignment explanation
Indices: 160691--160799 Score: 119
Period size: 48 Copynumber: 2.3 Consensus size: 48
160681 AAACGGAGAT
* * * * *
160691 ATCAAAAATCAAAACATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
160739 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
160787 ATCAGAAATCAGA
1 ATCAGAAATCAGA
160800 TAAAATATTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:163298 original size:7 final size:7
Alignment explanation
Indices: 163286--163317 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
163276 TGGTCAACTC
163286 CGGTCAA
1 CGGTCAA
163293 CGGTCAA
1 CGGTCAA
163300 CGGGTCAA
1 C-GGTCAA
163308 CGGTCAA
1 CGGTCAA
163315 CGG
1 CGG
163318 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:163307 original size:8 final size:8
Alignment explanation
Indices: 163287--163333 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
163277 GGTCAACTCC
163287 GGTCAAC-
1 GGTCAACG
163294 GGTCAACG
1 GGTCAACG
163302 GGTCAAC-
1 GGTCAACG
163309 GGTCAACG
1 GGTCAACG
163317 GGT---CG
1 GGTCAACG
163322 GGTCAACG
1 GGTCAACG
163330 GGTC
1 GGTC
163334 GGGTCGGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:163307 original size:15 final size:15
Alignment explanation
Indices: 163287--163333 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
163277 GGTCAACTCC
163287 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
163302 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
163317 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
163330 GGTC
1 GGTC
163334 GGGTCGGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:163338 original size:18 final size:18
Alignment explanation
Indices: 163315--163391 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
163305 CAACGGTCAA
163315 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
163333 CGGGTCGGGT-AA----A
1 CGGGTCGGGTCAACGGGT
*
163346 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
163364 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
163382 CGGGTCGGGT
1 CGGGTCGGGT
163392 TGTGACCGGT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
13 10 0.20
14 2 0.04
17 2 0.04
18 37 0.73
ACGTcount: A:0.13, C:0.19, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:163351 original size:31 final size:31
Alignment explanation
Indices: 163313--163387 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
163303 GTCAACGGTC
163313 AACGGGTCGGGTCAACGGGTCGGGTCGGGTA
1 AACGGGTCGGGTCAACGGGTCGGGTCGGGTA
* *
163344 AACGGGTCGGGTAAACGGGTCGGGTCGGGTC
1 AACGGGTCGGGTCAACGGGTCGGGTCGGGTA
163375 AACGGGTCGGGTC
1 AACGGGTCGGGTC
163388 GGGTTGTGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.48, T:0.16
Consensus pattern (31 bp):
AACGGGTCGGGTCAACGGGTCGGGTCGGGTA
Found at i:163387 original size:13 final size:13
Alignment explanation
Indices: 163294--163369 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
163284 TCCGGTCAAC
*
163294 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
163309 GGTCAACGGGTCG
1 GGTCAACGGGTCG
163322 GGTCAACGGGTCG
1 GGTCAACGGGTCG
163335 GGTCGGGTAAACGGGTCG
1 GGTC-----AACGGGTCG
*
163353 GGTAAACGGGTCG
1 GGTCAACGGGTCG
163366 GGTC
1 GGTC
163370 GGGTCAACGG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 29 0.55
15 12 0.23
18 12 0.23
ACGTcount: A:0.18, C:0.21, G:0.45, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:167244 original size:21 final size:21
Alignment explanation
Indices: 167218--167263 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
167208 GAGTTCTGGG
* *
167218 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
167239 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
167260 CAAG
1 CAAG
167264 CGACAGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.15
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:168170 original size:31 final size:31
Alignment explanation
Indices: 168132--168349 Score: 375
Period size: 31 Copynumber: 7.0 Consensus size: 31
168122 AGGGTCGAGG
168132 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
168163 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
168194 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
168225 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
168256 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
168287 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
168318 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
168349 G
1 G
168350 GTCCTTCGGG
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 178 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:171528 original size:21 final size:21
Alignment explanation
Indices: 171502--171547 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
171492 GAGTTCTGGG
* *
171502 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
171523 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
171544 CAAG
1 CAAG
171548 CGACAGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.15
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:172454 original size:31 final size:31
Alignment explanation
Indices: 172416--172633 Score: 375
Period size: 31 Copynumber: 7.0 Consensus size: 31
172406 AGGGTCGAGG
172416 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
172447 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
172478 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
172509 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
172540 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
172571 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
172602 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
172633 G
1 G
172634 GTCCTTCGGG
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
31 178 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:173599 original size:2 final size:2
Alignment explanation
Indices: 173592--173625 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
173582 GAAAGAGAAG
*
173592 AT AT AT AT AC 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
173626 GGGAGGATCT
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):
AT
Found at i:175161 original size:22 final size:22
Alignment explanation
Indices: 175114--175161 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
175104 ACATAATGTC
175114 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* * *
175135 CAGGAGGGAACCGATTCCCCTA
1 AAGGAGGGAACCGATACCCCCA
175157 AAGGA
1 AAGGA
175162 AAATTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.33, C:0.29, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:176819 original size:103 final size:103
Alignment explanation
Indices: 176640--176860 Score: 372
Period size: 103 Copynumber: 2.1 Consensus size: 103
176630 GGGTCTACGC
*
176640 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
176705 CATTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CACTAGCATATGTATATGATTCTTAAGGAATGATATGT
*
176743 GGTCCTTCAGGACTTATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
176808 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CACTAGCATATGTATATGATTCTTAAGGAATGATATGT
176846 GGTCCTT-ATGGACAT
1 GGTCCTTCA-GGACAT
176861 TATTATATGG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 109 0.99
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
GGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CACTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:176895 original size:23 final size:23
Alignment explanation
Indices: 176869--176928 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
176859 ATTATTATAT
*
176869 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTACGC
* *
176892 GGCAATACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
176915 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
176929 TTTATATGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:181578 original size:103 final size:105
Alignment explanation
Indices: 181394--181609 Score: 355
Period size: 103 Copynumber: 2.1 Consensus size: 105
181384 GGGTCTACGC
*
181394 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
181459 -CCTTGGCATATGTAT-ATGATTCTTAAGGAATGATATGT
66 CCCTAGACATATATATGATGATTCTTAAGGAATGATATGT
*
181497 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAATTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
181562 CCCTAGTATATATATATGATGATTCTTAAGGAATGATATGT
66 CCCTAG-ACATATATATGATGATTCTTAAGGAATGATATGT
181603 GGTCCTT
1 GGTCCTT
181610 ATGGACATTA
Statistics
Matches: 104, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
103 63 0.61
104 4 0.04
105 7 0.07
106 30 0.29
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (105 bp):
GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGACATATATATGATGATTCTTAAGGAATGATATGT
Found at i:181683 original size:23 final size:23
Alignment explanation
Indices: 181625--181685 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
181615 CATTATTATA
* *
181625 TGGCACTAT-GGTACAATTCTATG
1 TGGCACT-TCGGTGCAATTCTACG
* *
181648 CGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
181671 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
181686 TTTATATGAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:188500 original size:21 final size:21
Alignment explanation
Indices: 188474--188569 Score: 138
Period size: 21 Copynumber: 4.6 Consensus size: 21
188464 TTTCTGGGCT
* *
188474 AGGGGAATTGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
188495 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
188516 AGGGGAATCGATATCCATTCA
1 AGGGGAATCGATACCCATTCA
*
188537 AGGGGAATCGATATCCATTCA
1 AGGGGAATCGATACCCATTCA
*
188558 ATGGGAATCGAT
1 AGGGGAATCGAT
188570 CCCCCCTCAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Done.