Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006158.1 Hibiscus syriacus cultivar Beakdansim tig00014629_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: 116426
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:622 original size:20 final size:20
Alignment explanation
Indices: 512--622 Score: 152
Period size: 20 Copynumber: 5.5 Consensus size: 20
502 TTTTTCCACG
*
512 AATTTGTAAAACCTTCGGGT
1 AATTTGTAAATCCTTCGGGT
* *
532 CATTTGTAAAGT-CTTCAGGT
1 AATTTGTAAA-TCCTTCGGGT
* *
552 CATTTGTAAAGCCTTCGGGT
1 AATTTGTAAATCCTTCGGGT
572 AATTTGTAAATCCTTCGGGT
1 AATTTGTAAATCCTTCGGGT
*
592 AATTTGTAAATCCTTTGGGT
1 AATTTGTAAATCCTTCGGGT
612 AATTTGTAAAT
1 AATTTGTAAAT
623 ATTTTGGGTC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (20 bp):
AATTTGTAAATCCTTCGGGT
Found at i:978 original size:95 final size:96
Alignment explanation
Indices: 775--987 Score: 279
Period size: 96 Copynumber: 2.2 Consensus size: 96
765 TCATTTTTAG
* * * * *
775 TCTTTACAGAAGAGTAGTGAAGCTAGAGCAGAAGCAAGATCAAAAATCGAACTCCACGAAAGAGT
1 TCTTCACAGAAGAGTAGTGAAGCAAAAGCAGAAGCAAGAACAAAAATCGAACTCCACGAAAGAAT
*
840 AGTGGAAAGGATTTTTCAACAAAATATGAGA
66 AGTGGAAAGGATTTTTCAACAAAATATGAAA
* * **
871 TCTTCACGGAAGAGTAGTGAAGCAAAAGCAAGAA-CAAGAACAAAATTCGCTCTCCAC-AGAAGA
1 TCTTCACAGAAGAGTAGTGAAGCAAAAGC-AGAAGCAAGAACAAAAATCGAACTCCACGA-AAGA
* *
934 ATAGT-GAAAGGATTTTTCAGCAAAGTATGAAA
64 ATAGTGGAAAGGATTTTTCAACAAAATATGAAA
966 TCTTCACAGAAGAGTAGTGAAG
1 TCTTCACAGAAGAGTAGTGAAG
988 TAATCCAATT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
95 46 0.45
96 52 0.51
97 4 0.04
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.20
Consensus pattern (96 bp):
TCTTCACAGAAGAGTAGTGAAGCAAAAGCAGAAGCAAGAACAAAAATCGAACTCCACGAAAGAAT
AGTGGAAAGGATTTTTCAACAAAATATGAAA
Found at i:2320 original size:231 final size:230
Alignment explanation
Indices: 1901--2393 Score: 551
Period size: 253 Copynumber: 2.0 Consensus size: 230
1891 ATTTTGGTCA
*
1901 GGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAAT
1 GGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAAT
* * *
1966 ACCCGACCCAAATATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAAAACCCCTC
66 ACCCGACCCAAAAAAATATATAAATTTACCTTATATATTTAGGAATAATTACAATAAAACCCCTC
* * * * *
2031 TATATATCATTTTTTTCAATTAAGTCACTATTTTTATTGAATAAAAATAATTTTTTTATTATTTC
131 TATATATCATATATAT-AATTAAGTCACTATTTTTATTCAATAAAAATAATGTTTTTATTATTTC
2096 AGGTCGGGTCGGATTTCTAATTCATATATTCGGATG
195 AGGTCGGGTCGGATTTCTAATTCATATATTCGGATG
* *
2132 GGTCGGGTTGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGGGCTT-GGGTTTAGGGTGAAAAA
1 GGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGAG-TTCGGGTTTAGGGTGAAAAA
2196 TACCCGACCCGACCCGACCCAAAAAATATATAAATTTACCTTATATATTTAGGAATAATTACAAT
65 T-----ACCCGACCC-A---AAAAAATATATAAATTTACCTTATATATTTAGGAATAATTACAAT
* * *
2261 AATACCCCTCTATATATATATATATATATATATTTTTTTCAATTAAGTCACTGTTTTTA-TCGAA
121 AAAACCCCTC------TATATAT-CATATATA------T-AATTAAGTCACTATTTTTATTC-AA
* * * *
2325 TAAAAATAATTTTTTTATTATTTCAGGTCGGGTTTGG-TTTCTAATTCATATATTTGGGTCG
171 TAAAAATAATGTTTTTATTATTTCAGGTCGGG-TCGGATTTCTAATTCATATATTCGGAT-G
2386 GGTCGGGT
1 GGTCGGGT
2394 GAAACTTTAT
Statistics
Matches: 220, Mismatches: 16, Indels: 29
0.83 0.06 0.11
Matches are distributed among these distances:
231 59 0.27
232 2 0.01
236 9 0.04
237 1 0.00
240 51 0.23
246 7 0.03
247 4 0.02
252 1 0.00
253 74 0.34
254 12 0.05
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (230 bp):
GGTCGGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAAT
ACCCGACCCAAAAAAATATATAAATTTACCTTATATATTTAGGAATAATTACAATAAAACCCCTC
TATATATCATATATATAATTAAGTCACTATTTTTATTCAATAAAAATAATGTTTTTATTATTTCA
GGTCGGGTCGGATTTCTAATTCATATATTCGGATG
Found at i:2765 original size:17 final size:18
Alignment explanation
Indices: 2740--2786 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
2730 TATGGAATTG
*
2740 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
2757 GATTTCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
2775 GATTCCAATTCC
1 GATTCCAATTCC
2787 CTCAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:5319 original size:2 final size:2
Alignment explanation
Indices: 5312--5365 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
5302 AATGAGATAG
* *
5312 AT AT AT AT AT A- AA AT AT AT AT AT AT AT AT AT AA 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
5353 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
5366 ATGGTTTCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:12631 original size:35 final size:34
Alignment explanation
Indices: 12580--12692 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 34
12570 AAAACAATCC
*
12580 TCAATTTCATTCTAAACCAAAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-AAAATTCCAAAATAAT
* *
12615 TCAATTTCATTATAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAA-CCAAAATTCCAAAATAAT
* * * *
12650 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCAAAATTCCAAAATAAT
12685 TCAATTTC
1 TCAATTTC
12693 TGTCTTTTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 62 0.93
36 5 0.07
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCAAAATTCCAAAATAAT
Found at i:13795 original size:35 final size:34
Alignment explanation
Indices: 13747--13858 Score: 143
Period size: 35 Copynumber: 3.2 Consensus size: 34
13737 ATTCATCCTT
*
13747 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGG-TTTAGAATG
* * *
13782 TAATTGAATTATTTTGGAATTTAGGGTTTAAAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
* *
13817 AAATTAAATTACTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
13852 AAATTGA
1 AAATTGA
13859 GGAATGTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 62 0.95
36 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTAGAATTTGGGTTTAGAATG
Found at i:18065 original size:179 final size:178
Alignment explanation
Indices: 17766--18122 Score: 624
Period size: 179 Copynumber: 2.0 Consensus size: 178
17756 GCTAGGGTAA
* * *
17766 TGTTGGTGATATTTTTATTAAATATATAATATATATGTAACACCTCCGACTCGTACCTGACCTAG
1 TGTTGGTGATATTTTTATTAAATATATAATATATATGCAACACCTCCAACTCGTACCTGACCCAG
*
17831 ATACAACTCTGAGGTGTCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAATT
66 ATACAACTCTGAGGTGCCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAATT
* *
17896 TAACTTTTATTAGACAAGTGAAAATATTTTTAAAAAATATATCAGAGC
131 TAACTTTTATTAGACAAATGAAAATATTTTTAAAAAACATATCAGAGC
17944 TGTTGGTGATATTTTTATTAAATTATATAATATATATGCAACACCTCCAACTCGTACCTGACCCA
1 TGTTGGTGATATTTTTATTAAA-TATATAATATATATGCAACACCTCCAACTCGTACCTGACCCA
**
18009 GATATGACTCTGAGGTGCCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAAT
65 GATACAACTCTGAGGTGCCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAAT
*
18074 TTAACTTTTATTAGACAAATGAAAATATTTTTACAAAACATATCAGAGC
130 TTAACTTTTATTAGACAAATGAAAATATTTTTAAAAAACATATCAGAGC
18123 ATCTACATTT
Statistics
Matches: 169, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
178 22 0.13
179 147 0.87
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (178 bp):
TGTTGGTGATATTTTTATTAAATATATAATATATATGCAACACCTCCAACTCGTACCTGACCCAG
ATACAACTCTGAGGTGCCACATTGACTTTCCAACTCTTTGACTCTTTGAAAATTTGACTAAAATT
TAACTTTTATTAGACAAATGAAAATATTTTTAAAAAACATATCAGAGC
Found at i:18663 original size:21 final size:21
Alignment explanation
Indices: 18639--18720 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 21
18629 ATAATTTACA
18639 CCGAAGTG-CCACATATTTGTC
1 CCGAAG-GACCACATATTTGTC
*
18660 CCGAAGGATCACATAGGTTTGTC
1 CCGAAGGACCACATA--TTTGTC
*
18683 CTGAAGGACCACATAGATTTGTC
1 CCGAAGGACCACAT--ATTTGTC
* *
18706 CCGAATGACTACATA
1 CCGAAGGACCACATA
18721 GAACCCTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 13 0.26
23 35 0.70
25 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (21 bp):
CCGAAGGACCACATATTTGTC
Found at i:18688 original size:23 final size:23
Alignment explanation
Indices: 18653--18722 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
18643 AGTGCCACAT
*
18653 ATTTGTCCCGAAGGATCACATAG
1 ATTTGTCCCGAAGGACCACATAG
* *
18676 GTTTGTCCTGAAGGACCACATAG
1 ATTTGTCCCGAAGGACCACATAG
* *
18699 ATTTGTCCCGAATGACTACATAG
1 ATTTGTCCCGAAGGACCACATAG
18722 A
1 A
18723 ACCCTCAACT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (23 bp):
ATTTGTCCCGAAGGACCACATAG
Found at i:21720 original size:21 final size:21
Alignment explanation
Indices: 21696--21737 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21686 AGTTTATATT
21696 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
21717 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
21738 AACTTGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:21778 original size:33 final size:32
Alignment explanation
Indices: 21726--21802 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
21716 GTAAACTTTG
*
21726 TTTCAATTATCGAACTTGGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTGGAAGTATTTAAGTA
* *
21758 TTTGAATTTATCGAATTTGGAAGTATTTAAGTA
1 TTTCAA-TTATCGAACTTGGAAGTATTTAAGTA
21791 TTTCAATTATCG
1 TTTCAATTATCG
21803 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 29 0.73
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (32 bp):
TTTCAATTATCGAACTTGGAAGTATTTAAGTA
Found at i:41128 original size:11 final size:11
Alignment explanation
Indices: 41108--41143 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
41098 ACCTAAACCC
41108 TAAACCAAAAT
1 TAAACCAAAAT
*
41119 TAACCCAAAAT
1 TAAACCAAAAT
*
41130 AAAACCAAAAT
1 TAAACCAAAAT
41141 TAA
1 TAA
41144 TCTGGACCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.64, C:0.19, G:0.00, T:0.17
Consensus pattern (11 bp):
TAAACCAAAAT
Found at i:41152 original size:16 final size:16
Alignment explanation
Indices: 41132--41198 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
41122 CCCAAAATAA
*
41132 AACCAAAATTAATCTG
1 AACCAAAATTAACCTG
* *
41148 GACCAAAAGTAACCTG
1 AACCAAAATTAACCTG
*
41164 AACCGAAATTAA-CTCG
1 AACCAAAATTAACCT-G
* **
41180 AATCAAAAGCAACCTG
1 AACCAAAATTAACCTG
41196 AAC
1 AAC
41199 TGAAAGAAAC
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
15 2 0.05
16 34 0.89
17 2 0.05
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (16 bp):
AACCAAAATTAACCTG
Found at i:41267 original size:32 final size:33
Alignment explanation
Indices: 41198--41275 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
41188 GCAACCTGAA
* *
41198 CTGAAAGAAAC-CTGAACCGAATTTTAACCCAAT
1 CTGAAAGCAACTC-GAACCGAATTTTAACCCAAC
* **
41231 CTGAAATCAACTCGAACCGAA-TTTAACCTGAC
1 CTGAAAGCAACTCGAACCGAATTTTAACCCAAC
41263 CTGAAAGCAACTC
1 CTGAAAGCAACTC
41276 AAACAAATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 20 0.53
33 17 0.45
34 1 0.03
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.21
Consensus pattern (33 bp):
CTGAAAGCAACTCGAACCGAATTTTAACCCAAC
Found at i:42925 original size:8 final size:8
Alignment explanation
Indices: 42912--42947 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
42902 TTACCGAAGA
42912 AGAGGGAG
1 AGAGGGAG
42920 AGAGGGAG
1 AGAGGGAG
42928 AGAGGGAG
1 AGAGGGAG
42936 AGAGGGAG
1 AGAGGGAG
42944 AGAG
1 AGAG
42948 AGGAAAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (8 bp):
AGAGGGAG
Found at i:43850 original size:3 final size:3
Alignment explanation
Indices: 43842--43883 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
43832 GAATGTAAAT
*
43842 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43884 AAAAGACCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44182 original size:40 final size:40
Alignment explanation
Indices: 44121--44260 Score: 147
Period size: 40 Copynumber: 3.4 Consensus size: 40
44111 TATCTAAGTG
*
44121 TGACGCGACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
1 TGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
* * *** *
44161 TGACACGATTCCTACGTGATGAGGACATCTGGTTATCTAAGA
1 TGACACGACTCCTACGTGATGAGGAGATCTGG-TCGGT-GGA
*
44203 GTGACACTG-CTCCTATGTGATGAGGAGATCTGGTCGGTGGA
1 -TGACAC-GACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
**
44244 TGACACGGTTCCTACGT
1 TGACACGACTCCTACGT
44261 TATAAGGATG
Statistics
Matches: 79, Mismatches: 16, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
39 1 0.01
40 42 0.53
41 4 0.05
42 4 0.05
43 27 0.34
44 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (40 bp):
TGACACGACTCCTACGTGATGAGGAGATCTGGTCGGTGGA
Found at i:44223 original size:83 final size:83
Alignment explanation
Indices: 44080--44260 Score: 258
Period size: 83 Copynumber: 2.2 Consensus size: 83
44070 TTTGGAGATA
* * * * *
44080 ACACGTTTCTTACGTGATGAGGAATTTTGGCTATCTAAGTGTGACGCGACTCCTACGTGATGAGG
1 ACACGATTCCTACGTGATGAGGAATTCTGGCTATCTAAGAGTGACACGACTCCTACGTGATGAGG
44145 AGATCTGGTCGGTGGATG
66 AGATCTGGTCGGTGGATG
* *
44163 ACACGATTCCTACGTGATGAGGACA-TCTGGTTATCTAAGAGTGACACTG-CTCCTATGTGATGA
1 ACACGATTCCTACGTGATGAGGA-ATTCTGGCTATCTAAGAGTGACAC-GACTCCTACGTGATGA
44226 GGAGATCTGGTCGGTGGATG
64 GGAGATCTGGTCGGTGGATG
*
44246 ACACGGTTCCTACGT
1 ACACGATTCCTACGT
44261 TATAAGGATG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 86 0.98
84 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (83 bp):
ACACGATTCCTACGTGATGAGGAATTCTGGCTATCTAAGAGTGACACGACTCCTACGTGATGAGG
AGATCTGGTCGGTGGATG
Found at i:44417 original size:138 final size:137
Alignment explanation
Indices: 44163--44567 Score: 485
Period size: 138 Copynumber: 2.9 Consensus size: 137
44153 TCGGTGGATG
* * *
44163 ACACGATTCCTACGTGATGAGGAC-ATCTGGTTATCTAAGAGTGACACT-GCTCCTATGTGATGA
1 ACACGATTCCTACGTGATGAGGACGA-CTGATTATCTAAGAGTGACA-TGGTTCCTACGTGATGA
* * **
44226 GGAGATCTGGTCGGTGGATGACACGGTTCCTACGTTATAAGGATGGTTGGCCATCTTTAGGGATA
64 GGAGATCTGGTCGGTGGATGACAC-GTTCCTACGTGATGAGGATGACTGGCCATCTTTAGGGATA
44291 AAGGTAGATA
128 AAGGTAGATA
* * * *
44301 ACATGGTTCCTACGTGATGAGGACGGCTGATTATCTAAGAGTGACATGGTTCCTACATGATGAGG
1 ACACGATTCCTACGTGATGAGGACGACTGATTATCTAAGAGTGACATGGTTCCTACGTGATGAGG
* *
44366 AGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATGACTAGCCATCTTTATGGATAAA
66 AGATCTGGTCGGTGGATGACAC-GTTCCTACGTGATGAGGATGACTGGCCATCTTTAGGGATAAA
*
44431 TGTAGATA
130 GGTAGATA
* * * * * * * *
44439 ACCCGATTCCTACATGATGAGGAAGATTGACTATCTAATGA-TGATACGACTT-CTACGTGATGA
1 ACACGATTCCTACGTGATGAGGACGACTGATTATCTAA-GAGTGACATG-GTTCCTACGTGATGA
* * * *
44502 GGAGATCTGGTCGGTGGATAACACGATTCCTACGTGATGAGGACGACTGGCAATTTTTAGGGATA
64 GGAGATCTGGTCGGTGGATGACACG-TTCCTACGTGATGAGGATGACTGGCCATCTTTAGGGATA
44567 A
128 A
44568 TTTTTTTTAT
Statistics
Matches: 229, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
137 2 0.01
138 223 0.97
139 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (137 bp):
ACACGATTCCTACGTGATGAGGACGACTGATTATCTAAGAGTGACATGGTTCCTACGTGATGAGG
AGATCTGGTCGGTGGATGACACGTTCCTACGTGATGAGGATGACTGGCCATCTTTAGGGATAAAG
GTAGATA
Found at i:44628 original size:36 final size:36
Alignment explanation
Indices: 44588--44872 Score: 246
Period size: 36 Copynumber: 8.2 Consensus size: 36
44578 AGAGAAACGG
* *
44588 TCTCAAGCGAGACAAAATATGTTTCAAGGGAAACTG
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* *
44624 TCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
**
44660 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAAAAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* **** *
44696 TCTC-A-A-TG--TTTTTATGTTTCAAGAGAAACTA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
**** * * * *
44727 TCTCAA-AG-G--TTTTTATGTTTCTAGAGAATCTG
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* * * *
44759 TCTCGAGAGAAACAAAATATGTTTAAAGGGAAACTG
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* *
44795 TCTCAAAAGAGACAAAATATGTTTCAAGGGAAACAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
* * *
44831 TCTAAAGAGAGATAAAATATGTTTCAAGGGAAACAA
1 TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
44867 TCTCAA
1 TCTCAA
44873 TGCTTTTATG
Statistics
Matches: 206, Mismatches: 37, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
31 20 0.10
32 28 0.14
33 3 0.01
34 1 0.00
35 1 0.00
36 153 0.74
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (36 bp):
TCTCAAGAGAGACAAAATATGTTTCAAGGGAAACTA
Found at i:44715 original size:31 final size:32
Alignment explanation
Indices: 44677--44754 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
44667 AGAGACAAAA
* *
44677 TATGTTTCAAGGGAAAAAATCTC-AATGTTTT
1 TATGTTTCAAGAGAAAAAATCTCAAAGGTTTT
**
44708 TATGTTTCAAGAGAAACTATCTCAAAGGTTTT
1 TATGTTTCAAGAGAAAAAATCTCAAAGGTTTT
*
44740 TATGTTTCTAGAGAA
1 TATGTTTCAAGAGAA
44755 TCTGTCTCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 20 0.49
32 21 0.51
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (32 bp):
TATGTTTCAAGAGAAAAAATCTCAAAGGTTTT
Found at i:44862 original size:171 final size:171
Alignment explanation
Indices: 44578--44953 Score: 581
Period size: 171 Copynumber: 2.2 Consensus size: 171
44568 TTTTTTTTAT
** * * * * *
44578 AGAGAAACGGTCTCAAGCGAGACAAAATATGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 AGAGAAACTATCTCAAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
* *
44643 TGTTTCAAGGGAAACAATCTCAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGTTTT
66 TGTTTCAAGGGAAACAATCTAAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGCTTT
* *
44708 TATGTTTCAAGAGAAACTATCTCAAAGGTTTTTATGTTTCT
131 TATGTTTCAAGAGAAAATATCTCAAAGGTTTTTATGTTTCC
* * *
44749 AGAGAATCTGTCTCGAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
1 AGAGAAACTATCTCAAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
* *
44814 TGTTTCAAGGGAAACAATCTAAAGAGAGATAAAATATGTTTCAAGGGAAACAATCTCAATGCTTT
66 TGTTTCAAGGGAAACAATCTAAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGCTTT
*
44879 TATGTTTCAAGAGAAAATATCTCGAAGGTTTTTATGTTTCC
131 TATGTTTCAAGAGAAAATATCTCAAAGGTTTTTATGTTTCC
* *
44920 AGAGAAACTATCTTAAGAGAAACAAAATTTGTTT
1 AGAGAAACTATCTCAAGAGAAACAAAATATGTTT
44954 TAAGATGAAC
Statistics
Matches: 185, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
171 185 1.00
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (171 bp):
AGAGAAACTATCTCAAGAGAAACAAAATATGTTTAAAGGGAAACTGTCTCAAAAGAGACAAAATA
TGTTTCAAGGGAAACAATCTAAAGAGAGACAAAATATGTTTCAAGGGAAAAAATCTCAATGCTTT
TATGTTTCAAGAGAAAATATCTCAAAGGTTTTTATGTTTCC
Found at i:44886 original size:31 final size:32
Alignment explanation
Indices: 44848--44932 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
44838 AGAGATAAAA
* *
44848 TATGTTTCAAGGGAAACAATCTC-AATGCTTT
1 TATGTTTCAAGAGAAACAATCTCGAAGGCTTT
*
44879 TATGTTTCAAGAGAAA-ATATCTCGAAGGTTTT
1 TATGTTTCAAGAGAAACA-ATCTCGAAGGCTTT
* *
44911 TATGTTTCCAGAGAAACTATCT
1 TATGTTTCAAGAGAAACAATCT
44933 TAAGAGAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.02
31 20 0.43
32 25 0.54
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (32 bp):
TATGTTTCAAGAGAAACAATCTCGAAGGCTTT
Found at i:45177 original size:37 final size:35
Alignment explanation
Indices: 45093--45205 Score: 120
Period size: 37 Copynumber: 3.1 Consensus size: 35
45083 GACGGAATTA
* * * *
45093 TCTCAAGCGAGTTC-AAATTTGTTTTGAGGAAATTA
1 TCTCAAGCGAG-ACAAAATTTGTTTTGAGAAAACTG
45128 TCTCAAGCGAGACAAAATTTGTTTCTAGAGAAAACTG
1 TCTCAAGCGAGACAAAATTTGTTT-T-GAGAAAACTG
* *
45165 TCTCAAGTGAGACAAAATTTATTTTGAAGAAAAACTG
1 TCTCAAGCGAGACAAAATTTGTTTTG-AG-AAAACTG
45202 TCTC
1 TCTC
45206 TAGAGAGTCG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
34 1 0.01
35 22 0.33
36 4 0.06
37 40 0.60
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (35 bp):
TCTCAAGCGAGACAAAATTTGTTTTGAGAAAACTG
Found at i:47707 original size:131 final size:131
Alignment explanation
Indices: 47560--47868 Score: 402
Period size: 131 Copynumber: 2.4 Consensus size: 131
47550 GAATGGTAAT
* * * * * * *
47560 GTCATTTATTCTCGATTGAAAATAATTTGATATTGTCATTTTCTCTCGAATTAATATCGATTTTT
1 GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATAGAATTTT
* * * * *
47625 TAGACGGAATATTAATATCTCTTTATTTCAATTGGAGTAATAAATGAATGTTTTAATGCACGAAA
66 AAGACGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGAATGTTTGAATGCACAAAA
47690 G
131 G
** * * * *
47691 GTTGTTTATTCTCGATTGGAAATCATTAGATATTATTATTTTCACTTGAATCGATATAGAATTTT
1 GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATAGAATTTT
* * *
47756 AAGATGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATGAATGACTGTTTGAATGCACAAAA
66 AAGACGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGAATGTTTGAATGCACAAAA
*
47821 T
131 G
* *
47822 GTCATTTATTCTCGATTGGAAATGATTAGGTATTATCATTTTCACTC
1 GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTC
47869 TTAAAATTAT
Statistics
Matches: 150, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
131 150 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (131 bp):
GTCATTTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATAGAATTTT
AAGACGAAATAGTAATATCTCTTTATTTCAATTGGAGTAATAAATGAATGTTTGAATGCACAAAA
G
Found at i:60111 original size:112 final size:110
Alignment explanation
Indices: 59914--60190 Score: 349
Period size: 112 Copynumber: 2.5 Consensus size: 110
59904 CAGATCTGAC
* * *
59914 ATTCCCTTAGAAGAAGCGAAAAAGATCCCTCTCTTCCAAGATTTGAGATTCCCTGAGTGACAGCG
1 ATTCCCTTAGAAGAAGCG-AACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACG
* * * *
59979 GAACAAGTTTACCCCGATTCATTGGATCAACTCCCCCCATATATGAT
65 GAACAAGTTCACACCGATTCAATGGATCAACTCCCCCC-GATATGAT
* * *
60026 ATTCCCTTAGAATAAGCGTAACAGATCTCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAATG
1 ATTCCCTTAGAAGAAGCG-AACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACG
* * * *
60091 GAACAAG-TCAGGATCGATTCAATGGATCAACTCCCCCCGGTCTGAT
65 GAACAAGTTCA-CACCGATTCAATGGATCAACTCCCCCCGATATGAT
** *
60137 ATTCCCTTAGAAGAATTAGAACATATCCCTCTCTTCCAAGATTTGATATTCCCT
1 ATTCCCTTAGAAGAA-GCGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCT
60191 TAGAAGAAGT
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
111 54 0.38
112 89 0.62
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (110 bp):
ATTCCCTTAGAAGAAGCGAACAGATCCCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAACGG
AACAAGTTCACACCGATTCAATGGATCAACTCCCCCCGATATGAT
Found at i:60206 original size:47 final size:47
Alignment explanation
Indices: 60133--60237 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
60123 CCCCCCGGTC
* * *
60133 TGATATTCCCTTAGAAGAATTAGAACATATCCCTCTCTTCCAAGATT
1 TGATATTCCCTTAGAAGAAGTAGAACATATCACTCTATTCCAAGATT
*
60180 TGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATT
1 TGATATTCCCTTAGAAGAAGTAGAACATATCACTCTATTCCAAGATT
60227 TGATATTCCCT
1 TGATATTCCCT
60238 GAGTGACAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (47 bp):
TGATATTCCCTTAGAAGAAGTAGAACATATCACTCTATTCCAAGATT
Found at i:60252 original size:47 final size:47
Alignment explanation
Indices: 60133--60253 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 47
60123 CCCCCCGGTC
* *** * *
60133 TGATATTCCCTTAGAAGAATTAGAACATATCCCTCTCTTCCAAGATT
1 TGATATTCCCTGAGAAGAAGCGGAACATATCACTCTATTCCAAGATT
* *
60180 TGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATT
1 TGATATTCCCTGAGAAGAAGCGGAACATATCACTCTATTCCAAGATT
*
60227 TGATATTCCCTGAG-TGACAGCGGAACA
1 TGATATTCCCTGAGAAGA-AGCGGAACA
60254 AGTCTGCCCC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 2 0.03
47 64 0.97
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (47 bp):
TGATATTCCCTGAGAAGAAGCGGAACATATCACTCTATTCCAAGATT
Found at i:60317 original size:158 final size:158
Alignment explanation
Indices: 60022--60348 Score: 431
Period size: 158 Copynumber: 2.1 Consensus size: 158
60012 CCCCCATATA
* * * *
60022 TGATATTCCCTTAGAATAAGCGTAACAGATCTCTCTCTTCCAAGATTTGATATTCCCTGAGTGAC
1 TGATATTCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
* * * * * *
60087 AATGGAACAAGTCAGGATCGATTCAATGGATCAACTCCCCCCGGTCTGATATTCCCTTAGAAGAA
66 AACGGAACAAGTCAGCACCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAA
** * *
60152 TTAGAACATATCCCTCTCTTCCAAGATT
131 GCAGAACATATCACTCTCTTCAAAGATT
* *
60180 TGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
1 TGATATTCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
* * * * * *
60245 AGCGGAACAAGTCTGCCCCGA-TCAATGGATTAACTCCCACCATATATGATTTTCCCTTAGAAGA
66 AACGGAACAAGTCAGCACCGATTCAATGGATCAACTCCC-CCAGATATGATATTCCCTTAGAAGA
*
60309 AGCGGAACATATCACTCTCTTCAAAGATT
130 AGCAGAACATATCACTCTCTTCAAAGATT
60338 TGATATTCCCT
1 TGATATTCCCT
60349 GAGTGACAGC
Statistics
Matches: 145, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
157 16 0.11
158 129 0.89
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (158 bp):
TGATATTCCCTTAGAAGAAGCGGAACAGATCACTCTATTCCAAGATTTGATATTCCCTGAGTGAC
AACGGAACAAGTCAGCACCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTAGAAGAA
GCAGAACATATCACTCTCTTCAAAGATT
Found at i:60394 original size:269 final size:270
Alignment explanation
Indices: 59905--60459 Score: 797
Period size: 269 Copynumber: 2.1 Consensus size: 270
59895 TTTAACCTGC
* * * *
59905 AGATCTGACATTCCCTTAGAAGAAGCGAAAAAGATCCCTCTCTTCCAAGATTTGAGATTCCCTGA
1 AGATTTGATATTCCCTTAGAAGAAGCGAAAAAGATCACTCTATTCCAAGATTTGAGATTCCCTGA
* * *
59970 GTGACAGCGGAACAAGTTTACCCCGATTCATTGGATCAACTCCCCCCATATATGATATTCCCTTA
66 GTGACAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCACCATATATGATATTCCCTTA
* * * * *
60035 GAATAAGCGTAACAGATCTCTCTCTTCCAAGATTTGATATTCCCTGAGTGACAATGGAACAAGTC
131 GAAGAAGCGGAACAGATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAACGGAACAAGTC
* * * * **
60100 AGGATCGATTCAATGGATCAACTCCCCCCGGTCTGATATTCCCTTAGAAGAATTAGAACATATCC
196 AGCACCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATCC
60165 CTCTCTTCCA
261 CTCTCTTCCA
* * * * *
60175 AGATTTGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATTTGATATTCCCTGA
1 AGATTTGATATTCCCTTAGAAGAAGCGAAAAAGATCACTCTATTCCAAGATTTGAGATTCCCTGA
* * *
60240 GTGACAGCGGAACAAGTCTGCCCCGA-TCAATGGATTAACTCCCACCATATATGATTTTCCCTTA
66 GTGACAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCACCATATATGATATTCCCTTA
* *
60304 GAAGAAGCGGAACATATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTC
131 GAAGAAGCGGAACAGATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAACGGAACAAGTC
* * * *
60369 TGCCCCTATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGACGCAGAACATATCC
196 AGCACCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATCC
60434 CTCTCTTCCA
261 CTCTCTTCCA
* *
60444 ATATTTTATATTCCCT
1 AGATTTGATATTCCCT
60460 GAGTGAGAGC
Statistics
Matches: 251, Mismatches: 34, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
269 171 0.68
270 80 0.32
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (270 bp):
AGATTTGATATTCCCTTAGAAGAAGCGAAAAAGATCACTCTATTCCAAGATTTGAGATTCCCTGA
GTGACAGCGGAACAAGTCTACCCCGATTCAATGGATCAACTCCCACCATATATGATATTCCCTTA
GAAGAAGCGGAACAGATCACTCTCTTCAAAGATTTGATATTCCCTGAGTGACAACGGAACAAGTC
AGCACCGATTCAATGGATCAACTCCCCCAGATCTGATATTCCCTTAGAAGAAGCAGAACATATCC
CTCTCTTCCA
Found at i:60411 original size:111 final size:111
Alignment explanation
Indices: 60175--60490 Score: 463
Period size: 111 Copynumber: 2.8 Consensus size: 111
60165 CTCTCTTCCA
* * *
60175 AGATTTGATATTCCCTTAGAAGAAGTGGAACATATCACTCTATTCCAAGATTTGATATTCCCTGA
1 AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
*
60240 GTGACAGCGGAACAAGTCTGCCCCGATCAATGGATTAACTCCCACC
66 GTGACAGCGGAACAAGTCTGCCCCGATCAATGGATCAACTCCCACC
* * *
60286 ATATATGATTTTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCAAAGATTTGATATTCCCTGA
1 AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
*
60351 GTGACAGCGGAACAAGTCTGCCCCTATTCAATGGATCAACTCCC-CC
66 GTGACAGCGGAACAAGTCTGCCCCGA-TCAATGGATCAACTCCCACC
* * * * * *
60397 AGATCTGATATTCCCTTAGAAGACGCAGAACATATCCCTCTCTTCCAATATTTTATATTCCCTGA
1 AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
* *
60462 GTGAGAGCGGAACAAGTCTACCCCAGATC
66 GTGACAGCGGAACAAGTCTGCCCC-GATC
60491 TGATATTCCC
Statistics
Matches: 183, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
111 166 0.91
112 17 0.09
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (111 bp):
AGATATGATATTCCCTTAGAAGAAGCGGAACATATCACTCTCTTCCAAGATTTGATATTCCCTGA
GTGACAGCGGAACAAGTCTGCCCCGATCAATGGATCAACTCCCACC
Found at i:60669 original size:3 final size:3
Alignment explanation
Indices: 60663--60688 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60653 TTATTATTAT
60663 TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TA
60689 TTATTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:72864 original size:40 final size:40
Alignment explanation
Indices: 72788--72863 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
72778 TTTGTATCTC
**
72788 TCTCTGTTTCTGTTGTTTCTTTTTCTTTCCTTTTTTTCTG
1 TCTCTGTTTCTGTTCCTTCTTTTTCTTTCCTTTTTTTCTG
*
72828 TCTCTGTTTCTGTCTCCTT-TTTTT-TTTCTTTTTTTT
1 TCTCTGTTTCTGT-TCCTTCTTTTTCTTTCCTTTTTTT
72864 TTCAGGTTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 11 0.34
40 18 0.56
41 3 0.09
ACGTcount: A:0.00, C:0.20, G:0.08, T:0.72
Consensus pattern (40 bp):
TCTCTGTTTCTGTTCCTTCTTTTTCTTTCCTTTTTTTCTG
Found at i:73324 original size:11 final size:11
Alignment explanation
Indices: 73301--73332 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
73291 TGTAATTAAT
73301 TATTTATATATA
1 TATTTA-ATATA
73313 TATTTAATATA
1 TATTTAATATA
73324 TATTTAATA
1 TATTTAATA
73333 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:73336 original size:3 final size:3
Alignment explanation
Indices: 73328--73410 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
73318 AATATATATT
*
73328 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73376 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
73411 TGGATAAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:73875 original size:113 final size:112
Alignment explanation
Indices: 73722--74252 Score: 805
Period size: 113 Copynumber: 4.7 Consensus size: 112
73712 TGTGATAGCA
**
73722 TCAAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
** * * *
73786 TCTCATTATGAACTTTCTCTGGAAAGGCTGATTCATCAATTGATGAAT
66 TCTCATTATGAACTTTCTCTGGAAA-AATAATCCATCAAGTGATGAAT
***
73834 TCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
73899 TCTCATTATGAACTTTCTCTGGAAAAAATAATCCATCCAGTGATGAAT
66 TCTCATTATGAACTTTCTCTGG-AAAAATAATCCATCAAGTGATGAAT
* ** *
73947 TCAGATTAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*
74012 TCTCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAAT
66 TCTCATTATGAACTTTCTCTGG-AAAAATAATCCATCAAGTGATGAAT
74060 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
*** *
74125 TCTCATTATGAACTTTCTCTGGCAATGTTGATCCATCCAA-TGATGAAT
66 TCTCATTATGAACTTTCTCTGG-AAAAATAATCCAT-CAAGTGATGAAT
* *
74173 TCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
74238 TCTCATTATGAACTT
66 TCTCATTATGAACTT
74253 ATCTGGCAAT
Statistics
Matches: 388, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
112 3 0.01
113 379 0.98
114 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (112 bp):
TCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
TCTCATTATGAACTTTCTCTGGAAAAATAATCCATCAAGTGATGAAT
Found at i:75073 original size:83 final size:83
Alignment explanation
Indices: 74927--75645 Score: 1235
Period size: 83 Copynumber: 8.7 Consensus size: 83
74917 GTTCTTACCA
*
74927 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCATATTCAT-TTGCCAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT-CCAAA
74990 TTCAATGATTGATTCTGTCC
64 TTCAATGATTGATTCTGTCC
* * * *
75010 AACAAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGTCAAATTTATCTTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
*
75075 CAATGATTGATTTTGTCC
66 CAATGATTGATTCTGTCC
* *
75093 AACCAGATCAGATAACTCAAAGAAGACTTCCAGAAAATGCTATTGGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
75158 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
*
75176 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCTAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
75241 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
* *
75259 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
75324 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
*
75342 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCTAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
75407 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
** * *
75425 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCTTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
* *
75490 CAATGACTGATTCTGTTC
66 CAATGATTGATTCTGTCC
*
75508 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCTAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
75573 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
75591 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCAT
75646 TTGTTCTATT
Statistics
Matches: 598, Mismatches: 36, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
83 594 0.99
84 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
CAATGATTGATTCTGTCC
Found at i:76713 original size:20 final size:18
Alignment explanation
Indices: 76685--76735 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
76675 CTTGACCCCG
76685 TTTCTTTTTCTTCTCTTTTT
1 TTTC-TTTTCTTCT-TTTTT
*
76705 TTTCATTTTC-TATTTTTT
1 TTTC-TTTTCTTCTTTTTT
76723 TTTCTTTT-TTCTT
1 TTTCTTTTCTTCTT
76736 CAAGCATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 7 0.26
18 9 0.33
19 2 0.07
20 9 0.33
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTCTTCTTTTTT
Found at i:87349 original size:26 final size:25
Alignment explanation
Indices: 87294--87349 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
87284 TACTTGCAAA
*
87294 TAAAATAAAAACATATAAATATTAT
1 TAAAATAAAAACATATAAAAATTAT
* *
87319 GAAAATAATAAATATATAAAAAATT-T
1 TAAAATAA-AAACATAT-AAAAATTAT
87345 TAAAA
1 TAAAA
87350 AGAAAGAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 7 0.28
26 12 0.48
27 6 0.24
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
TAAAATAAAAACATATAAAAATTAT
Found at i:88125 original size:16 final size:18
Alignment explanation
Indices: 88091--88125 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
88081 CATATATTTA
88091 AAAACAATAAAATAAATG
1 AAAACAATAAAATAAATG
88109 AAAAC-ATAAAA-AAATG
1 AAAACAATAAAATAAATG
88125 A
1 A
88126 CTAAATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 6 0.35
18 5 0.29
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAACAATAAAATAAATG
Found at i:89092 original size:12 final size:12
Alignment explanation
Indices: 89059--89092 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
89049 TTTCCTTTTT
89059 TTTCTGTCTCTG
1 TTTCTGTCTCTG
* *
89071 TGTCTCTCTCTG
1 TTTCTGTCTCTG
89083 TTTCTGTCTC
1 TTTCTGTCTC
89093 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.15, T:0.56
Consensus pattern (12 bp):
TTTCTGTCTCTG
Found at i:89568 original size:11 final size:11
Alignment explanation
Indices: 89552--89576 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
89542 TTATTTATAT
89552 ATATATATTTA
1 ATATATATTTA
89563 ATATATATTTA
1 ATATATATTTA
89574 ATA
1 ATA
89577 ATAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATATATTTA
Found at i:89580 original size:3 final size:3
Alignment explanation
Indices: 89572--89624 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
89562 AATATATATT
*
89572 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89620 TAA TA
1 TAA TA
89625 TGGATAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:95344 original size:17 final size:17
Alignment explanation
Indices: 95322--95361 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
95312 GAGCCATCTA
95322 TGTCTTATACATTTTAG
1 TGTCTTATACATTTTAG
95339 TGTCTTATACATTTTAG
1 TGTCTTATACATTTTAG
95356 TGTCTT
1 TGTCTT
95362 TTTACTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (17 bp):
TGTCTTATACATTTTAG
Found at i:95705 original size:13 final size:13
Alignment explanation
Indices: 95687--95753 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
95677 GACTTTTTGA
95687 TCAAAGTCAACGG
1 TCAAAGTCAACGG
**
95700 TCAAAGTCAACTA
1 TCAAAGTCAACGG
*
95713 TCAGAGTCAACGTG
1 TCAAAGTCAACG-G
*
95727 TCAAAGTCAATGGG
1 TCAAAGTCAA-CGG
*
95741 TCAAATTCAACGG
1 TCAAAGTCAACGG
95754 GTTGACTCGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
13 23 0.53
14 19 0.44
15 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (13 bp):
TCAAAGTCAACGG
Found at i:95722 original size:26 final size:27
Alignment explanation
Indices: 95686--95736 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
95676 TGACTTTTTG
95686 ATCAAAGTCAACG-GTCAAAGTCAACT
1 ATCAAAGTCAACGTGTCAAAGTCAACT
*
95712 ATCAGAGTCAACGTGTCAAAGTCAA
1 ATCAAAGTCAACGTGTCAAAGTCAA
95737 TGGGTCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (27 bp):
ATCAAAGTCAACGTGTCAAAGTCAACT
Found at i:95736 original size:14 final size:14
Alignment explanation
Indices: 95687--95752 Score: 73
Period size: 14 Copynumber: 4.9 Consensus size: 14
95677 GACTTTTTGA
95687 TCAAAGTCAACG-G
1 TCAAAGTCAACGTG
*
95700 TCAAAGTCAAC-TA
1 TCAAAGTCAACGTG
*
95713 TCAGAGTCAACGTG
1 TCAAAGTCAACGTG
* *
95727 TCAAAGTCAATGGG
1 TCAAAGTCAACGTG
*
95741 TCAAATTCAACG
1 TCAAAGTCAACG
95753 GGTTGACTCG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
13 21 0.49
14 22 0.51
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (14 bp):
TCAAAGTCAACGTG
Found at i:99064 original size:10 final size:9
Alignment explanation
Indices: 99045--99089 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
99035 ATGCATATAC
*
99045 TAATATATA
1 TAATAAATA
99054 TAATTAAATA
1 TAA-TAAATA
99064 TAATAAATAA
1 TAATAAAT-A
99074 TAATAAATA
1 TAATAAATA
99083 TATATAA
1 TA-ATAA
99090 TAATATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 11 0.34
10 21 0.66
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TAATAAATA
Found at i:99080 original size:19 final size:19
Alignment explanation
Indices: 99039--99108 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 19
99029 TTAATTATGC
*
99039 ATATACTAATATATATAATTAA
1 ATATAATAA-ATA-ATAA-TAA
99061 ATATAATAAATAATAATAA
1 ATATAATAAATAATAATAA
*
99080 ATAT-ATATAATAAT-ATTA
1 ATATAATA-AATAATAATAA
99098 ATATTAATAAA
1 ATA-TAATAAA
99109 GGTAAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 9 0.21
19 16 0.37
20 7 0.16
21 3 0.07
22 8 0.19
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (19 bp):
ATATAATAAATAATAATAA
Found at i:99095 original size:10 final size:10
Alignment explanation
Indices: 99039--99107 Score: 51
Period size: 10 Copynumber: 7.1 Consensus size: 10
99029 TTAATTATGC
99039 ATATACTAAT-
1 ATATA-TAATA
99049 ATATATAATTA
1 ATATATAA-TA
99060 A-ATATAATA
1 ATATATAATA
99069 A-ATAATAATA
1 ATAT-ATAATA
99079 A-ATATATATA
1 ATATATA-ATA
*
99089 ATA-ATATTA
1 ATATATAATA
99098 ATAT-TAATA
1 ATATATAATA
99107 A
1 A
99108 AGGTAAATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
9 21 0.41
10 28 0.55
11 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATATAATA
Found at i:99490 original size:59 final size:59
Alignment explanation
Indices: 99398--99526 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
99388 AATGTCCATA
* * * * * *
99398 GTCCATCGTTTGATGGGTCTAGAACTAGATTATGTTGGTCGACTTATCATTCTCTTGTG
1 GTCCACCGTTCGATGGGCCTAGAACTAGATTATGTTGGTCGACTCATCATTCGCTTATG
* *
99457 GTCCACCGTTCGATGGGCCTGGAACTGGATTATGTTGGTCGACTCATCATTCGCTTATG
1 GTCCACCGTTCGATGGGCCTAGAACTAGATTATGTTGGTCGACTCATCATTCGCTTATG
*
99516 GTTCACCGTTC
1 GTCCACCGTTC
99527 AAATTTGTCG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (59 bp):
GTCCACCGTTCGATGGGCCTAGAACTAGATTATGTTGGTCGACTCATCATTCGCTTATG
Found at i:103476 original size:21 final size:21
Alignment explanation
Indices: 103450--103547 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
103440 ATCAGTTTCC
103450 AAAATCGCAACGCGATTATTG
1 AAAATCGCAACGCGATTATTG
* *
103471 AAAATCGCAATGCGA-TAGT-
1 AAAATCGCAACGCGATTATTG
** *
103490 ACAAATTCGCATTGCGATT-TTCC
1 A-AAA-TCGCAACGCGATTATT-G
*
103513 AAAATCGCAACGCGAATA-TG
1 AAAATCGCAACGCGATTATTG
103533 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
103548 ACACATAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 21 0.33
21 36 0.57
22 4 0.06
23 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTATTG
Found at i:103538 original size:20 final size:20
Alignment explanation
Indices: 103450--103566 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
103440 ATCAGTTTCC
*
103450 AAAATCGCAACGCGATTATTG
1 AAAATCGCAACGCGAATA-TG
*
103471 AAAATCGCAATGCG-ATA-G
1 AAAATCGCAACGCGAATATG
** * * *
103489 TACAAATTCGCATTGCGATTTTCC
1 -A-AAA-TCGCAACGCGAATAT-G
103513 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGAATATG
* *
103533 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATG
103552 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
103567 TATCCGTAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 35 0.46
21 33 0.43
22 4 0.05
23 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATG
Found at i:103576 original size:20 final size:20
Alignment explanation
Indices: 103514--103706 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
103504 CGATTTTCCA
* ** *
103514 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
103534 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
103554 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
103574 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
* **
103594 AAATCGCAACACGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
103614 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
103634 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
103654 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
103674 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
103694 AAATCGCAACGCG
1 AAATCGCAACGCG
103707 ATATTTAAAG
Statistics
Matches: 143, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
19 1 0.01
20 140 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:104123 original size:33 final size:33
Alignment explanation
Indices: 104084--104154 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
104074 TTCACTTAGA
* *
104084 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
104117 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
104150 TTTCA
1 TTTCA
104155 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:104291 original size:41 final size:38
Alignment explanation
Indices: 104227--104343 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
104217 TTCAATTTGC
* *
104227 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
104265 AGAATGACTGTCGCAACGAGAGAAATGACAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
104306 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
104339 AGAAT
1 AGAAT
104344 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:104307 original size:21 final size:21
Alignment explanation
Indices: 104234--104309 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
104224 TGCAGAAGAG
* *
104234 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
104255 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
104275 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
104296 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
104310 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:104313 original size:14 final size:14
Alignment explanation
Indices: 104294--104350 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
104284 GAGAAATGAC
104294 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
104308 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
104327 AATCGCAACGAGAG
1 AATCGCAACGAGAG
104341 AATCGCAACG
1 AATCGCAACG
104351 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:104331 original size:33 final size:33
Alignment explanation
Indices: 104286--104366 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
104276 CGCAACGAGA
*
104286 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
104319 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
104352 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
104367 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:104384 original size:19 final size:19
Alignment explanation
Indices: 104362--104459 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
104352 GAAACCAAAA
*
104362 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
104381 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
104395 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
104414 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
104428 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
104447 TCGCGTTGCGATT
1 TCGCGTTGCGATT
104460 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:104403 original size:14 final size:14
Alignment explanation
Indices: 104384--104473 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
104374 TTTCATTTCG
104384 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
104398 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
104417 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
104431 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
104448 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
104464 CGTTGCGATT
1 CGTTGCGATT
104474 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 2 0.03
16 7 0.11
17 7 0.11
18 2 0.03
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:104413 original size:33 final size:33
Alignment explanation
Indices: 104367--104481 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
104357 CAAAATCGCA
*
104367 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
104400 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
104433 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
104466 TTGCGATTTTCATTTC
1 TTGCGATTGTCATTTC
104482 AACCAAAAAG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
Found at i:106436 original size:92 final size:93
Alignment explanation
Indices: 106179--106557 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 93
106169 TAGATTGCTT
*
106179 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
106244 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
106272 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
106337 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
106365 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
106429 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
106456 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
106521 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
106549 AGTAAATTT
1 AGTAAATTT
106558 ATCCATTCAA
Statistics
Matches: 281, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 23 0.08
92 134 0.48
93 124 0.44
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:106641 original size:19 final size:19
Alignment explanation
Indices: 106601--106729 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
106591 TAGTTTACTT
* *
106601 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
106621 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
106640 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
106659 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
106673 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
106692 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
106706 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
106725 TCGCA
1 TCGCA
106730 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:106680 original size:33 final size:32
Alignment explanation
Indices: 106637--106729 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
106627 CGCGAAACCA
**
106637 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
106669 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
106702 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
106730 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:106727 original size:52 final size:52
Alignment explanation
Indices: 106601--106729 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
106591 TAGTTTACTT
**
106601 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
106653 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
106706 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
106730 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:106747 original size:19 final size:19
Alignment explanation
Indices: 106725--106845 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
106715 GAAACCAAAA
*
106725 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
106744 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
106763 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
106779 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
106796 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
106815 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
106835 TCGTGTTGCGA
1 TCGCGTTGCGA
106846 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
19 57 0.66
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:108931 original size:19 final size:19
Alignment explanation
Indices: 108907--109005 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
108897 AAAATTGACT
108907 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
108926 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
108944 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
108958 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
108977 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
108997 ATCGCAATG
1 ATCGCAATG
109006 GGAGAATCGC
Statistics
Matches: 71, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
13 1 0.01
14 9 0.13
16 4 0.06
18 10 0.14
19 29 0.41
20 18 0.25
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:108983 original size:51 final size:53
Alignment explanation
Indices: 108907--109022 Score: 200
Period size: 51 Copynumber: 2.2 Consensus size: 53
108897 AAAATTGACT
108907 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
108958 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
109011 ATCGCAATGCGA
1 ATCGCAATGCGA
109023 TTTTAATTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 29 0.48
52 6 0.10
53 26 0.43
ACGTcount: A:0.43, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:109040 original size:19 final size:19
Alignment explanation
Indices: 109012--109160 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
109002 AATGGGAGAA
* *
109012 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
109031 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
109047 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
109064 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
109083 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
109099 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
109116 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
109132 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
109149 TCCGCATTGCGA
1 T-CGCATTGCGA
109161 AATGTAATGG
Statistics
Matches: 107, Mismatches: 7, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
14 18 0.17
16 21 0.20
17 19 0.18
18 2 0.02
19 41 0.38
20 6 0.06
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:109075 original size:52 final size:52
Alignment explanation
Indices: 109012--109128 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
109002 AATGGGAGAA
*
109012 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* *
109064 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
109116 TCGCATTGCGATT
1 TCGCATTGCGATT
109129 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:109087 original size:85 final size:86
Alignment explanation
Indices: 108998--109160 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 86
108988 GAAATGAAAA
*
108998 TCGCAATGGGAGAATCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCAT
1 TCGCAATGCGAGAATCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCAT
109063 TT-CGCATTGCGATTTTCATT
66 TTCCGCATTGCGATTTTCATT
* *** * ** * *
109083 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TCGCAATGCGAGAATCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCAT
109148 TTCCGCATTGCGA
66 TTCCGCATTGCGA
109161 AATGTAATGG
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 57 0.85
86 10 0.15
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (86 bp):
TCGCAATGCGAGAATCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCAT
TTCCGCATTGCGATTTTCATT
Found at i:109106 original size:33 final size:33
Alignment explanation
Indices: 109069--109160 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
109059 TCATTTCGCA
109069 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
109102 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
109135 TTGCGATTTTCATTTCCGCATTGCGA
1 TTGCGATTTTCATTT-CGCATTGCGA
109161 AATGTAATGG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:109107 original size:14 final size:14
Alignment explanation
Indices: 109088--109142 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
109078 TCATTTCGCA
109088 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
109102 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
109119 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
109135 TTGCGATT
1 TTGCGATT
109143 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:109243 original size:19 final size:19
Alignment explanation
Indices: 109219--109315 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
109209 AAAATTGACT
109219 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
109238 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
109257 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
109271 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
109289 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
109309 ATCGCAA
1 ATCGCAA
109316 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 12 0.17
19 33 0.48
20 9 0.13
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:109304 original size:52 final size:52
Alignment explanation
Indices: 109219--109334 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
109209 AAAATTGACT
109219 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
109271 ATCGCAATGCGAAATG-AAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
109323 ATCGCAATGCGA
1 ATCGCAATGCGA
109335 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 12 0.19
52 51 0.81
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:111851 original size:24 final size:24
Alignment explanation
Indices: 111817--111863 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
111807 CTGAAACATC
111817 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
111841 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
111864 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:112574 original size:20 final size:20
Alignment explanation
Indices: 112546--112772 Score: 189
Period size: 20 Copynumber: 11.5 Consensus size: 20
112536 AAATTTCAGT
* * *
112546 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
112566 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
112586 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
112606 GTT----TTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
112622 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
112642 GTTGCGATTTTACGGATACGC
1 GTTGCGA-TTTACGGATTCGC
* *
112663 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
112683 ATTGCGATTTACCCATAT-GC
1 GTTGCGATTTACGGAT-TCGC
*
112703 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
112723 GTTTGCGATTTACGGATACGC
1 G-TTGCGATTTACGGATTCGC
*
112744 G-TGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
112763 GTTGCGATTT
1 GTTGCGATTT
112773 TGGAAAATCG
Statistics
Matches: 173, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
16 14 0.08
19 15 0.09
20 107 0.62
21 37 0.21
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:112620 original size:36 final size:37
Alignment explanation
Indices: 112546--112645 Score: 157
Period size: 36 Copynumber: 2.6 Consensus size: 37
112536 AAATTTCAGT
*
112546 GTTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATC
1 GTTGCGATTTACAGATTCTCGTT--G-TTTACGGATTATC
112586 GTTGCGATTTACAGATTCTCGTT-TTTACGGATTATC
1 GTTGCGATTTACAGATTCTCGTTGTTTACGGATTATC
112622 GTTGCGATTTACAGATTCTCGTTG
1 GTTGCGATTTACAGATTCTCGTTG
112646 CGATTTTACG
Statistics
Matches: 58, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
36 36 0.62
40 22 0.38
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (37 bp):
GTTGCGATTTACAGATTCTCGTTGTTTACGGATTATC
Found at i:112689 original size:61 final size:60
Alignment explanation
Indices: 112623--112753 Score: 176
Period size: 61 Copynumber: 2.2 Consensus size: 60
112613 CGGATTATCG
* *
112623 TTGCGATTTACAGAT-TCTCGTTGCGATTTTACGGATACGCG-TTGCGATATACGGATACGC
1 TTGCGATTTACACATAT-GCGTTGCGA-TTTACGGATACGCGTTTGCGATATACGGATACGC
* *
112683 ATTGCGATTTACCCATATGCGTTGCGATTTACGGATACGCGTTTGCGATTTACGGATACGC
1 -TTGCGATTTACACATATGCGTTGCGATTTACGGATACGCGTTTGCGATATACGGATACGC
*
112744 GTGCGATTTA
1 TTGCGATTTA
112754 TGTGTTCGCG
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
60 23 0.37
61 39 0.62
62 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (60 bp):
TTGCGATTTACACATATGCGTTGCGATTTACGGATACGCGTTTGCGATATACGGATACGC
Found at i:112789 original size:21 final size:21
Alignment explanation
Indices: 112759--112841 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
112749 ATTTATGTGT
*
112759 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
112780 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
112801 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
112822 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
112842 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:113827 original size:20 final size:19
Alignment explanation
Indices: 113804--113850 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
113794 CGATATAACA
113804 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
113824 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
113844 GGTAAAA
1 GGTAAAA
113851 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:113852 original size:17 final size:19
Alignment explanation
Indices: 113813--113855 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
113803 AGGTAAAAAT
113813 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
113833 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
113850 ATGATA
1 ATGATA
113856 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:113862 original size:180 final size:180
Alignment explanation
Indices: 113417--113883 Score: 606
Period size: 179 Copynumber: 2.6 Consensus size: 180
113407 GATCCAAATT
* * * * **
113417 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATAACAAAACCAGTAT-TGAATGATA
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * *
113481 AAACCGGT-AAGCGGTACCGAATATATTTAAGTGTCGATACTTTAATATAAGGATCGACAATTCG
66 AAACCGGTAAAACGATACCGGATATATTAAAGTGTCGATACTTTAATATAAGGATCGACAATTCG
* * **
113545 TTAATTTAAAAGAAAGCATTTTTAGCGCCTATAAAGTGTCGATACTTTCA
131 TGAATTTAAAAGAAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTAAA
* *
113595 AAAAATATATCGATCAACAACGATATAACA-GTAAAAAATATGATAAAA-CTGTATCAAAATGAT
1 AAAAATGTATCGATCAACAACGATATAACAGGT-AAAAATATGATAAAACCAGTATCAAAATGAT
* * * *
113658 GAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATT-AAAGTGTCGATACTTTAATATAAGGATCGACAATT
* * * *
113722 TGTGAATTTAAAAGAGAAGTAGTTTTAGTGTCTAT-AAGTGTCGATA-TTAAA
129 CGTGAATTTAAAAGA-AAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTAAA
*
113773 AAAAATGTATCGATCAAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGAT
*
113838 AAAACCGGTAAAATGATACCGGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATT-AAAGTGTCGATACTTT
113884 CGTAAGTACG
Statistics
Matches: 251, Mismatches: 30, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
177 7 0.03
178 71 0.28
179 87 0.35
180 86 0.34
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (180 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAGTGTCGATACTTTAATATAAGGATCGACAATTCG
TGAATTTAAAAGAAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTAAA
Found at i:115974 original size:14 final size:14
Alignment explanation
Indices: 115951--115981 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
115941 GGTTGTATTG
*
115951 GGGGATGACGGTGA
1 GGGGACGACGGTGA
115965 GGGGACGACGGTGA
1 GGGGACGACGGTGA
115979 GGG
1 GGG
115982 AAAACAGAGT
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:0.19, C:0.10, G:0.61, T:0.10
Consensus pattern (14 bp):
GGGGACGACGGTGA
Found at i:116422 original size:32 final size:32
Alignment explanation
Indices: 116362--116426 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
116352 AAAAATATGA
116362 GAAGAAAAGAGGGAGGAGGAAGAAAAGAGATG
1 GAAGAAAAGAGGGAGGAGGAAGAAAAGAGATG
116394 GAAGAAAAGA-GGAGGAGGAAGAAGAAGAGATG
1 GAAGAAAAGAGGGAGGAGGAAGAA-AAGAGATG
116426 G
1 G
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.03
Consensus pattern (32 bp):
GAAGAAAAGAGGGAGGAGGAAGAAAAGAGATG
Done.