Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004064.1 Hibiscus syriacus cultivar Beakdansim tig00008886_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: 146507
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:1658 original size:99 final size:99
Alignment explanation
Indices: 1487--1683 Score: 270
Period size: 99 Copynumber: 2.0 Consensus size: 99
1477 ATATTTTATA
*** * ** *** *
1487 TATACAATAAAACTTGAGTTGTCCCTCTAGAGCAATTGGTTAAATGCCCCGGCTTTATGGATACG
1 TATACAATAAAACTTGAACCGTCCCACTAGAGCAATTGGTTAAACACCCCAAATTTATGGATAAG
1552 ATTCAGCTAGCCTGATAAAGGT-AGTTATAATATC
66 ATTCAGCTAGCCTGATAAAGGTGA-TTATAATATC
* *
1586 TATACAATAAAGCTTGAACCGTCCCACTAGAGCAATTGGTTAAACACCCTAAATTTATGGATAAG
1 TATACAATAAAACTTGAACCGTCCCACTAGAGCAATTGGTTAAACACCCCAAATTTATGGATAAG
1651 ATTCAGCTAGCCTGATAAAGGTGATTATAATAT
66 ATTCAGCTAGCCTGATAAAGGTGATTATAATAT
1684 TGAGCTGTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 84 0.99
100 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (99 bp):
TATACAATAAAACTTGAACCGTCCCACTAGAGCAATTGGTTAAACACCCCAAATTTATGGATAAG
ATTCAGCTAGCCTGATAAAGGTGATTATAATATC
Found at i:3020 original size:156 final size:156
Alignment explanation
Indices: 2736--3057 Score: 479
Period size: 156 Copynumber: 2.1 Consensus size: 156
2726 ACCAATGTGA
* * *
2736 CCAATTCAAAGCTCAACTTCACAGCGAAAGAGTGTCTGTCAAGAAACAACTTTCTAGTTTTATTT
1 CCAATTCAAAGCTCAACTTCACAGCGAAAGAGTGTCTGTCAACAAACAACTTTCTAGTTTCATTC
* * * *
2801 AGAGTCAATTTCAACTTCATAGCGAAGGATATTGGACTCGAAACAACACAACTTACACAAGATTG
66 AGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCGAAACAACAAAACTTACACAAGATTG
*
2866 GATTTCAACTTCACAATGAAGGATAT
131 GATTTCAACTTCACAACGAAGGATAT
*
2892 CCAATTCAAAGCTCAACTTCACAGCGAAGGAGTGTCTGTCAACAAACAACTTT-TCAGTTTCATT
1 CCAATTCAAAGCTCAACTTCACAGCGAAAGAGTGTCTGTCAACAAACAACTTTCT-AGTTTCATT
** *
2956 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTC-AAAGTGACAAAATTTACTA-AAGA
65 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCGAAA-CAACAAAACTTAC-ACAAGA
3019 TTGGATTTCAACTTCACAACGAAGGATAT
128 TTGGATTTCAACTTCACAACGAAGGATAT
*
3048 CCAACTCAAA
1 CCAATTCAAA
3058 ACCAATTTGG
Statistics
Matches: 150, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
155 4 0.03
156 145 0.97
157 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (156 bp):
CCAATTCAAAGCTCAACTTCACAGCGAAAGAGTGTCTGTCAACAAACAACTTTCTAGTTTCATTC
AGAGTCAATTTCAACTTCACAACGAAGGATATTGAACTCGAAACAACAAAACTTACACAAGATTG
GATTTCAACTTCACAACGAAGGATAT
Found at i:3113 original size:65 final size:65
Alignment explanation
Indices: 3009--3176 Score: 220
Period size: 65 Copynumber: 2.7 Consensus size: 65
2999 GTGACAAAAT
*
3009 TTACTAAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTGGTGAAAC
1 TTACTAAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTAAAAACCAATTTGGTGAAAC
* ** *
3074 TTACTCAAGATTGGATTTCAACTTCATGACGAAGGATATCCAACTAAAAACCATTTTGGTG-AA-
1 TTACTAAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTAAAAACCAATTTGGTGAAAC
*** *
3137 --AC-AATCCTTGGATTTCAAATTCACAACGAAGGATATCCAA
1 TTACTAAAGATTGGATTTCAACTTCACAACGAAGGATATCCAA
3177 TTCAAAGCTC
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
60 31 0.34
61 2 0.02
64 2 0.02
65 56 0.62
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (65 bp):
TTACTAAAGATTGGATTTCAACTTCACAACGAAGGATATCCAACTAAAAACCAATTTGGTGAAAC
Found at i:3449 original size:85 final size:85
Alignment explanation
Indices: 3306--3889 Score: 498
Period size: 85 Copynumber: 6.9 Consensus size: 85
3296 TACAACATAA
* * ** * *
3306 CTCAAGGCGAGAAGGGTTATCTATCAATAAAGACATTTGAGTTCGATTACATTCAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
* *
3371 TCATCAAATTTACATAATAG
66 ACATCAAATTTACAGAATAG
* * * * *
3391 CTCAAAGTGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTTGATTATACTT-AGCTCAGAGG
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACA-TTCAGCTCA-AAG
* *
3455 GGACATCAAATTTACAGCATAG
64 GCACATCAAATTTACAGAATAG
* * * * *
3477 CTTAAGGCGAGAAGGGTTATCTGTTAACAAAGACCTTCGA-TTTGATTACATTCAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
* *
3541 ACATCAAATTTACAGCATTG
66 ACATCAAATTTACAGAATAG
*
3561 CTCAAGGCGAGAAGGGCTATCTGTCAACCAATACCTTCGAGTTCGATTACACTT-AGCTCAAAGG
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACA-TTCAGCTCAAAGG
* *
3625 CATATCAAATTTATA-ACATAG
65 CACATCAAATTTACAGA-ATAG
* * * * *
3646 CTCAAGGTGAAAAGGGCTATCTGTCAACCAAGACCGTCGAGTTCAATTACATTCAGCTC-TAGGA
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG-
* * * * *
3710 CATATTAAATTTATAGCATAA
65 CACATCAAATTTACAGAATAG
* * * ** * * * * * *
3731 CCCAGGGCGAGAAGGGTTATCTGTCAATAAATATCTTCGAGTTTGATTCCATTCAGCTCAAGGGT
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
*** *
3796 ATGCCAAATTTA-AAACATAG
66 ACATCAAATTTACAGA-ATAG
* * *** * * * * *
3816 CTTAAGTCGAGAAAAACTATCTATCAA-CAAGAAACTGTCGAGTTCGATTCCATTCAGCTCGATG
1 CTCAAGGCGAGAAGGGCTATCTGTCAACCAAG-ACCT-TCGAGTTCGATTACATTCAGCTCAAAG
*
3880 ACACATCAAA
64 GCACATCAAA
3890 CACATGGTAG
Statistics
Matches: 400, Mismatches: 86, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
84 67 0.17
85 244 0.61
86 89 0.22
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGC
ACATCAAATTTACAGAATAG
Found at i:3539 original size:170 final size:170
Alignment explanation
Indices: 3296--3889 Score: 557
Period size: 170 Copynumber: 3.5 Consensus size: 170
3286 CCCAACCAAG
* * * * *
3296 TACAACATAACTCAAGGCGAGAAGGGTTATCTATCAATAAAGACATTTGAGTTCGATTACATTCA
1 TACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCA
* * *
3361 GCTCAAAGGCTCATCAAATTTACATAATAGCTCAAAGTGAGAAGGGCTATCTGTCAACCAAGACC
66 GCTCAAAGGCACATCAAATTTACAGAATAGCTCAAAGCGAGAAGGGCTATCTGTCAACCAAGACC
* * * *
3426 TTCGAGTTTGATTATACTTAGCTCAGAGGGGACATCAAATT
131 TTCGAGTTCGATTACACTTAGCTCA-AAGGCACATCAAATT
* * * *
3467 TACAGCATAGCTTAAGGCGAGAAGGGTTATCTGTTAACAAAGACCTTCGA-TTTGATTACATTCA
1 TACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCA
* * * *
3531 GCTCAAAGGCACATCAAATTTACAGCATTGCTCAAGGCGAGAAGGGCTATCTGTCAACCAATACC
66 GCTCAAAGGCACATCAAATTTACAGAATAGCTCAAAGCGAGAAGGGCTATCTGTCAACCAAGACC
*
3596 TTCGAGTTCGATTACACTTAGCTCAAAGGCATATCAAATT
131 TTCGAGTTCGATTACACTTAGCTCAAAGGCACATCAAATT
* * * * * * *
3636 TATAACATAGCTCAAGGTGAAAAGGGCTATCTGTCAACCAAGACCGTCGAGTTCAATTACATTCA
1 TACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCA
* * * * * * * ** * ** * *
3701 GCTC-TAGGACATATTAAATTTATAGCATAACCCAGGGCGAGAAGGGTTATCTGTCAATAAATAT
66 GCTCAAAGG-CACATCAAATTTACAGAATAGCTCAAAGCGAGAAGGGCTATCTGTCAACCAAGAC
* * * * ***
3765 CTTCGAGTTTGATTCCA-TTCAGCTCAAGGGTATGCCAAATT
130 CTTCGAGTTCGATTACACTT-AGCTCAAAGGCACATCAAATT
* * * **** * * *
3806 TAAAACATAGCTTAAGTCGAGAAAAACTATCTATCAAC-AAGAAACTGTCGAGTTCGATTCCATT
1 TACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAG-ACCT-TCGAGTTCGATTACATT
* * *
3870 CAGCTCGATGACACATCAAA
64 CAGCTCAAAGGCACATCAAA
3890 CACATGGTAG
Statistics
Matches: 349, Mismatches: 68, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
169 61 0.17
170 217 0.62
171 70 0.20
172 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (170 bp):
TACAACATAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCA
GCTCAAAGGCACATCAAATTTACAGAATAGCTCAAAGCGAGAAGGGCTATCTGTCAACCAAGACC
TTCGAGTTCGATTACACTTAGCTCAAAGGCACATCAAATT
Found at i:3778 original size:255 final size:255
Alignment explanation
Indices: 3306--3875 Score: 639
Period size: 255 Copynumber: 2.2 Consensus size: 255
3296 TACAACATAA
* * *
3306 CTCAAGGCGAGAAGGGTTATCTATCAATAAAGACATTTGAGTTCGATTACATTCAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGCTATCTATCAACAAAGACATTCGAGTTCGATTACATTCAGCTCAAAGGC
* * **
3371 TCATCAAATTTACATAATAGCTCAAAGTGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTTG
66 TCATCAAATTTACATAATAGCTCAAAGTGAAAAGGGCTATCTGTCAACCAAGACCGTCGAGTTCA
* ** * **
3436 ATTATACTTAGCTCAGAGGGGACATCAAATTTACAGCATAGCTTAAGGCGAGAAGGGTTATCTGT
131 ATTACACTTAGCTCAGAGGACACATCAAATTTACAGCATAACCCAAGGCGAGAAGGGTTATCTGT
*
3501 TAACAAAGACCTTCGATTTGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATTG
196 CAACAAAGACCTTCGATTTGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATTG
* * * *
3561 CTCAAGGCGAGAAGGGCTATCTGTCAACCAATACCTTCGAGTTCGATTACACTT-AGCTCAAAGG
1 CTCAAGGCGAGAAGGGCTATCTATCAACAAAGACATTCGAGTTCGATTACA-TTCAGCTCAAAGG
* *
3625 CAT-ATCAAATTTATA-ACATAGCTCAAGGTGAAAAGGGCTATCTGTCAACCAAGACCGTCGAGT
65 C-TCATCAAATTTACATA-ATAGCTCAAAGTGAAAAGGGCTATCTGTCAACCAAGACCGTCGAGT
* * * * *
3688 TCAATTACA-TTCAGCTC-TAGGACATATTAAATTTATAGCATAACCCAGGGCGAGAAGGGTTAT
128 TCAATTACACTT-AGCTCAGAGGACACATCAAATTTACAGCATAACCCAAGGCGAGAAGGGTTAT
* * * * * * *** * * *
3751 CTGTCAATAAATATCTTCGAGTTTGATTCCATTCAGCTCAAGGGTATGCCAAATTTAAAACATAG
192 CTGTCAACAAAGACCTTCGA-TTTGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATTG
* * *** * *
3816 CTTAAGTCGAGAAAAACTATCTATCAAC-AAGAAACTGTCGAGTTCGATTCCATTCAGCTC
1 CTCAAGGCGAGAAGGGCTATCTATCAACAAAGACA-T-TCGAGTTCGATTACATTCAGCTC
3876 GATGACACAT
Statistics
Matches: 260, Mismatches: 47, Indels: 15
0.81 0.15 0.05
Matches are distributed among these distances:
254 58 0.22
255 180 0.69
256 22 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (255 bp):
CTCAAGGCGAGAAGGGCTATCTATCAACAAAGACATTCGAGTTCGATTACATTCAGCTCAAAGGC
TCATCAAATTTACATAATAGCTCAAAGTGAAAAGGGCTATCTGTCAACCAAGACCGTCGAGTTCA
ATTACACTTAGCTCAGAGGACACATCAAATTTACAGCATAACCCAAGGCGAGAAGGGTTATCTGT
CAACAAAGACCTTCGATTTGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATTG
Found at i:5958 original size:16 final size:16
Alignment explanation
Indices: 5930--5970 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5920 ATTATTTAAA
*
5930 TATTATATTTTATTA-
1 TATTATTTTTTATTAG
5945 TATATATTTTTTATTAG
1 TAT-TATTTTTTATTAG
5962 TATTATTTT
1 TATTATTTT
5971 CCCTATTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTATTTTTTATTAG
Found at i:6009 original size:10 final size:10
Alignment explanation
Indices: 5994--6018 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5984 AATGTATATA
5994 TTTTTTTCTT
1 TTTTTTTCTT
6004 TTTTTTTCTT
1 TTTTTTTCTT
6014 TTTTT
1 TTTTT
6019 CCCTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:6094 original size:30 final size:30
Alignment explanation
Indices: 6024--6095 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
6014 TTTTTCCCTT
*
6024 TATTATTATTACTATCACTATATATTTTTA
1 TATTATTTTTACTATCACTATATATTTTTA
* * *
6054 T-TTTTATTTTACTTATTA-TATATATTTTTG
1 TATTAT-TTTTAC-TATCACTATATATTTTTA
6084 TATTATTTTTAC
1 TATTATTTTTAC
6096 CTAACATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
29 3 0.09
30 24 0.71
31 7 0.21
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTATTTTTACTATCACTATATATTTTTA
Found at i:6192 original size:20 final size:19
Alignment explanation
Indices: 6149--6214 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
6139 ATATTTACTA
*
6149 TTATTTTCTTTCTTTCCTT
1 TTATTTTCTTTATTTCCTT
6168 TTATTTTCTTTATCTTCAC-T
1 TTATTTTCTTTAT-TTC-CTT
6188 TTA--TT-TTTATTTCCTT
1 TTATTTTCTTTATTTCCTT
6204 TATATTATTCT
1 T-TATT-TTCT
6215 ATTTCGTTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
15 1 0.03
16 5 0.13
17 7 0.18
18 2 0.05
19 12 0.32
20 9 0.24
21 2 0.05
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTTCTTTATTTCCTT
Found at i:6330 original size:20 final size:19
Alignment explanation
Indices: 6301--6353 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
6291 TTTATGTATT
*
6301 TTTATATCTTTATCTTTATC
1 TTTATTTCTTTAT-TTTATC
*
6321 TTTATTTCTTTATTTTATG
1 TTTATTTCTTTATTTTATC
*
6340 TAT-TTTCTTTATTT
1 TTTATTTCTTTATTT
6354 ATTTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 11 0.37
19 7 0.23
20 12 0.40
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATTTCTTTATTTTATC
Found at i:6362 original size:43 final size:43
Alignment explanation
Indices: 6169--6363 Score: 122
Period size: 43 Copynumber: 4.6 Consensus size: 43
6159 TCTTTCCTTT
* * *
6169 TATTTTCTTTATCTTCACTTTAT-TTTTATTTCCTTTATATTAT-
1 TATTTTCTTTAT-TT-ATTTTTTATTTTATTTCCTTTATTTTATG
* * * *
6212 TCTATTTCGTTATTTA-TGTTTATTTTA-TT-CTTGT-TTTTATT
1 TAT-TTTCTTTATTTATTTTTTATTTTATTTCCTT-TATTTTATG
* * **
6253 TATTTATC-TTATATATTATTTTATTTTCTTTGTTTTATTTTATG
1 TATTT-TCTTTATTTATT-TTTTATTTTATTTCCTTTATTTTATG
* *
6297 TATTTT-TATATCTT-TATCTTTATCTTTATTT-CTTTATTTTATG
1 TATTTTCTTTAT-TTAT-TTTTTAT-TTTATTTCCTTTATTTTATG
6340 TATTTTCTTTATTTATTTTTTATT
1 TATTTTCTTTATTTATTTTTTATT
6364 ACTTTTTTCC
Statistics
Matches: 118, Mismatches: 18, Indels: 33
0.70 0.11 0.20
Matches are distributed among these distances:
40 16 0.14
41 11 0.09
42 15 0.13
43 42 0.36
44 34 0.29
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (43 bp):
TATTTTCTTTATTTATTTTTTATTTTATTTCCTTTATTTTATG
Found at i:9528 original size:17 final size:17
Alignment explanation
Indices: 9506--9541 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
9496 TAAAACAGCT
*
9506 CTAACAAACTTCATAAG
1 CTAACAAACTTCACAAG
9523 CTAACAAACTTCACAAG
1 CTAACAAACTTCACAAG
9540 CT
1 CT
9542 TCTAGCACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (17 bp):
CTAACAAACTTCACAAG
Found at i:16217 original size:15 final size:15
Alignment explanation
Indices: 16192--16225 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16182 ACATATAATT
16192 ACAAA-ATATGTAAA
1 ACAAATATATGTAAA
16206 ACAAATATATGTAAA
1 ACAAATATATGTAAA
16221 A-AAAT
1 ACAAAT
16226 TAATCATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (15 bp):
ACAAATATATGTAAA
Found at i:16761 original size:41 final size:41
Alignment explanation
Indices: 16716--16845 Score: 215
Period size: 41 Copynumber: 3.2 Consensus size: 41
16706 ATTCACGTTG
* *
16716 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
16757 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
16798 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
16839 CATTTCG
1 CATTTCG
16846 TGGTCGTGGT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:16787 original size:21 final size:21
Alignment explanation
Indices: 16761--16830 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
16751 TTTTTCCATT
* *
16761 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
16782 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
16802 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
16823 TCGCGTTG
1 TCGCGTTG
16831 TGATTTTCCA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.39
21 23 0.61
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:16812 original size:20 final size:20
Alignment explanation
Indices: 16741--16845 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
16731 TAGTTGAAAA
*
16741 TCGCGTTGCGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
16761 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
16782 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
16802 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
16823 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
16843 TCG
1 TCG
16846 TGGTCGTGGT
Statistics
Matches: 61, Mismatches: 22, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.14, C:0.20, G:0.26, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:16970 original size:19 final size:19
Alignment explanation
Indices: 16946--17011 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
16936 TTAACTATCA
16946 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
16965 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
16987 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
17006 CAACGA
1 CAACGA
17012 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:16996 original size:41 final size:40
Alignment explanation
Indices: 16955--17284 Score: 348
Period size: 41 Copynumber: 8.1 Consensus size: 40
16945 ACAACGAATT
* *
16955 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATT
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACCGAA-A
*
16996 TGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAAC-CGAAA
*
17038 CGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAAC-CGAAA
* * *
17079 TGGAAAAT-TCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
* * *
17119 TGGAAAATCGTAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
17160 TGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAAC-CGAAA
* * *
17201 TGGAAAATCGCAACGCGATTTTCA-ACTATTGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
* * *
17242 TGGAAAATCGCAACGTGATTTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAA
17283 TG
1 TG
17285 CAACGCGAAT
Statistics
Matches: 266, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
40 36 0.14
41 211 0.79
42 15 0.06
43 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (40 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACCGAAA
Found at i:17059 original size:82 final size:81
Alignment explanation
Indices: 16955--17284 Score: 384
Period size: 82 Copynumber: 4.0 Consensus size: 81
16945 ACAACGAATT
* * *
16955 TGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CGAATTTGGAAAATCGCAACGACAACTGT
1 TGGAAAATCGCAACG-CGACTGTAGACTATCGCAACCGAA-ATGGAAAATCGCAACG-CGACTGT
17019 AGACTATCGCAACGCGAAA
63 AGACTATCGCAACGCGAAA
* * * *
17038 CGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAAT-TCAACGCGATTTTCA
1 TGGAAAATCGCAACGCGACTGTAGACTATCGCAAC-CGAAATGGAAAATCGCAACGCGACTGT-A
17102 -ACTATCGCAACGCGAAA
64 GACTATCGCAACGCGAAA
* * *
17119 TGGAAAATCGTAACGCGATTTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTA
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAATGGAAAATCGCAACGCGACTGTA
17183 GACTATCGCAACGCGAAA
64 GACTATCGCAACGCGAAA
* * * * * *
17201 TGGAAAATCGCAACGCGATTTTCA-ACTATTGCAACGCGAAATGGAAAATCGCAACGTGATTTTC
1 TGGAAAATCGCAACGCGACTGT-AGACTATCGCAAC-CGAAATGGAAAATCGCAACGCGACTGT-
17265 A-ACTATCGCAACGCGAAA
63 AGACTATCGCAACGCGAAA
17283 TG
1 TG
17285 CAACGCGAAT
Statistics
Matches: 221, Mismatches: 19, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
81 65 0.29
82 129 0.58
83 23 0.10
84 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (81 bp):
TGGAAAATCGCAACGCGACTGTAGACTATCGCAACCGAAATGGAAAATCGCAACGCGACTGTAGA
CTATCGCAACGCGAAA
Found at i:17236 original size:21 final size:21
Alignment explanation
Indices: 17088--17280 Score: 117
Period size: 21 Copynumber: 9.4 Consensus size: 21
17078 ATGGAAAATT
17088 CAACGCGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCG
** ** *
17109 CAACGCGAAATGGAA-AATCG
1 CAACGCGATTTTCAACTATCG
*
17129 TAACGCGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCG
** ** *
17150 CAACGCGAAATGGAA-AATCG
1 CAACGCGATTTTCAACTATCG
* *
17170 CAACGCGACTGT-AGACTATCG
1 CAACGCGATTTTCA-ACTATCG
** ** *
17191 CAACGCGAAATGGAA-AATCG
1 CAACGCGATTTTCAACTATCG
*
17211 CAACGCGATTTTCAACTATTG
1 CAACGCGATTTTCAACTATCG
** ** *
17232 CAACGCGAAATGGAA-AATCG
1 CAACGCGATTTTCAACTATCG
*
17252 CAACGTGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCG
17273 CAACGCGA
1 CAACGCGA
17281 AATGCAACGC
Statistics
Matches: 120, Mismatches: 46, Indels: 12
0.67 0.26 0.07
Matches are distributed among these distances:
19 1 0.01
20 55 0.46
21 63 0.52
22 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
CAACGCGATTTTCAACTATCG
Found at i:17281 original size:123 final size:122
Alignment explanation
Indices: 17021--17284 Score: 474
Period size: 123 Copynumber: 2.2 Consensus size: 122
17011 ACAACTGTAG
*
17021 ACTATCGCAACGCGAAACGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
* *
17086 TTCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGTAACGCGATTTTCA
66 TGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
17143 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
* *
17208 TCGCAACGCGATTTTCAACTATTGCAACGCGAAATGGAAAATCGCAACGTGATTTTCA
66 T-GCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
17266 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
17285 CAACGCGAAT
Statistics
Matches: 136, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
122 65 0.48
123 71 0.52
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (122 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTGTAGACTATCGCAACGCGAAATGGAAAA
TGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:18123 original size:10 final size:11
Alignment explanation
Indices: 18102--18126 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18092 TTTATTTCGA
18102 TTTTATGTTTT
1 TTTTATGTTTT
18113 TTTTATGTTTT
1 TTTTATGTTTT
18124 TTT
1 TTT
18127 CTTTTTTGTT
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:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (11 bp):
TTTTATGTTTT
Found at i:27336 original size:20 final size:20
Alignment explanation
Indices: 27311--27348 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27301 ATAGCCTTAA
27311 ACATTAAGCGTAATATCAAT
1 ACATTAAGCGTAATATCAAT
*
27331 ACATTAAGCGTATTATCA
1 ACATTAAGCGTAATATCA
27349 CAACATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
ACATTAAGCGTAATATCAAT
Found at i:27354 original size:20 final size:19
Alignment explanation
Indices: 27309--27354 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
27299 ACATAGCCTT
27309 AAACATTAAGCGTAATATC
1 AAACATTAAGCGTAATATC
*
27328 AATACATTAAGCGTATTATC
1 AA-ACATTAAGCGTAATATC
27348 ACAACAT
1 A-AACAT
27355 AGTTGTGTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 21 0.88
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (19 bp):
AAACATTAAGCGTAATATC
Found at i:39131 original size:3 final size:3
Alignment explanation
Indices: 39116--39179 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
39106 AGTTAAAAAA
* *
39116 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
39163 TAG TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TA
39180 AGTGTGGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:52791 original size:14 final size:14
Alignment explanation
Indices: 52744--52839 Score: 88
Period size: 15 Copynumber: 6.6 Consensus size: 14
52734 GCTTGAAGAA
* *
52744 AAAAAAGGAACAAAT
1 AAAAAATGAA-AAAG
52759 AAAAAGATGAAAAATG
1 AAAAA-ATGAAAAA-G
52775 AAAAAATGAAAAAG
1 AAAAAATGAAAAAG
*
52789 AAAAAAATGAAAATG
1 -AAAAAATGAAAAAG
* *
52804 AAAAAAAG-AAATG
1 AAAAAATGAAAAAG
52817 AAAAAAT-AAAAAG
1 AAAAAATGAAAAAG
52830 AGAAAAATGA
1 A-AAAAATGA
52840 GGGTTTGAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
13 16 0.23
14 14 0.20
15 30 0.43
16 9 0.13
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (14 bp):
AAAAAATGAAAAAG
Found at i:52823 original size:8 final size:8
Alignment explanation
Indices: 52744--52814 Score: 55
Period size: 8 Copynumber: 9.4 Consensus size: 8
52734 GCTTGAAGAA
*
52744 AAAAAAGG
1 AAAAAATG
*
52752 AACAAAT-
1 AAAAAATG
52759 AAAAAGATG
1 AAAAA-ATG
52768 -AAAAATG
1 AAAAAATG
52775 AAAAAATG
1 AAAAAATG
52783 -AAAAA-G
1 AAAAAATG
52789 AAAAAAATG
1 -AAAAAATG
52798 --AAAATG
1 AAAAAATG
*
52804 AAAAAAAG
1 AAAAAATG
52812 AAA
1 AAA
52815 TGAAAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
6 7 0.14
7 12 0.24
8 31 0.61
9 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.14, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:54282 original size:105 final size:105
Alignment explanation
Indices: 54062--54316 Score: 332
Period size: 105 Copynumber: 2.4 Consensus size: 105
54052 CTCGCTTGAG
*
54062 GGATCGACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAA
1 GGATCAACATTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAA
* * * * *
54127 TGAGAAGAACTTGTTCCTTTCAAATTCACCACAGATGGAGGT
64 TGAGAAAAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
* * * *
54169 GAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATG
1 GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATG
* * **
54234 AGAAAAACATGTT-CTTTCTAAGTCCACCGCAAAAGGATTT
66 AGAAAAACATGTTCCTTTC-AAATCCACCACAAAAGGAGGT
* *
54274 GGATCAACATTTCCAAAAGAGTTTATAATGAGAAGAACTCATC
1 GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATC
54317 CACGAGAAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
104 5 0.04
105 111 0.87
106 1 0.01
107 11 0.09
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (105 bp):
GGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATG
AGAAAAACATGTTCCTTTCAAATCCACCACAAAAGGAGGT
Found at i:54496 original size:3 final size:3
Alignment explanation
Indices: 54481--54535 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
54471 AGTTAAAAAA
* * *
54481 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
54528 TAT TAT TA
1 TAT TAT TA
54536 AGTGTGTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 1 0.02
3 44 0.98
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:55096 original size:2 final size:2
Alignment explanation
Indices: 55089--55123 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55079 GAGTATGGAA
55089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55124 AAACCAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57951 original size:12 final size:12
Alignment explanation
Indices: 57934--57966 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
57924 TTTTCAGAAT
57934 CGAACCGGTTAA
1 CGAACCGGTTAA
57946 CGAACCGGTTAA
1 CGAACCGGTTAA
57958 CGAACCGGT
1 CGAACCGGT
57967 CATACTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.15
Consensus pattern (12 bp):
CGAACCGGTTAA
Found at i:59304 original size:10 final size:10
Alignment explanation
Indices: 59289--59317 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
59279 GATAACCACT
59289 AAAAAATATA
1 AAAAAATATA
59299 AAAAAATATA
1 AAAAAATATA
59309 AAAAAATAT
1 AAAAAATAT
59318 TAACGAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAATATA
Found at i:61123 original size:2 final size:2
Alignment explanation
Indices: 61116--61144 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61106 ATTTATAAAT
61116 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61145 GTCAATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70159 original size:41 final size:41
Alignment explanation
Indices: 70114--70222 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
70104 ATTATTATTT
70114 ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGCTTTAGTCG
1 ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGCTTTAGTCG
*
70155 ACTAGAGCCAATTTTGGGAACCTCTAGCAAAGCTTTAGTCG
1 ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGCTTTAGTCG
70196 ACTAGAG-C-ATGTTTCGGGCACCTCTAG
1 ACTAGAGCCAAT-TTT-GGGCACCTCTAG
70223 TGACTCTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
39 2 0.03
40 4 0.06
41 58 0.91
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (41 bp):
ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGCTTTAGTCG
Found at i:70305 original size:47 final size:47
Alignment explanation
Indices: 70196--70319 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 47
70186 GCTTTAGTCG
** *
70196 ACTAGAG-CATGTTTCGGGCACCTCTAGTGACTCTTGAATGTGTAACA
1 ACTAGAGCCAT-TTTCGGGCACCTCTAGCAACTCTTGAATGTATAACA
** * *
70243 ACTAGATTCATTTTCGGGCACCTCTAGCAATTCTTTAATGTATAACA
1 ACTAGAGCCATTTTCGGGCACCTCTAGCAACTCTTGAATGTATAACA
* *
70290 ACTAGAGCCGA-TTTCGAGAACCTCTAGCAA
1 ACTAGAGCC-ATTTTCGGGCACCTCTAGCAA
70320 GGAATTATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
47 61 0.94
48 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (47 bp):
ACTAGAGCCATTTTCGGGCACCTCTAGCAACTCTTGAATGTATAACA
Found at i:70689 original size:84 final size:83
Alignment explanation
Indices: 70563--70716 Score: 254
Period size: 84 Copynumber: 1.8 Consensus size: 83
70553 TGGTAAGTAA
* * *
70563 TATATGCAATTATATTGAATGACTATATGAATGCAACTAATTATAAAACAACACCCCAAACTCAA
1 TATATGAAATTATATTGAATGACTAAATAAATGCAACTAATTATAAAACAAC-CCCCAAACTCAA
70628 GAGGAGTAATATATGTTGT
65 GAGGAGTAATATATGTTGT
* *
70647 TATATGAAATTATATTGGATGACTAAATAAATGCAACTAATTATAAAACAACCCCCAAACTCGAG
1 TATATGAAATTATATTGAATGACTAAATAAATGCAACTAATTATAAAACAACCCCCAAACTCAAG
70712 AGGAG
66 AGGAG
70717 CACTGTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 17 0.26
84 48 0.74
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (83 bp):
TATATGAAATTATATTGAATGACTAAATAAATGCAACTAATTATAAAACAACCCCCAAACTCAAG
AGGAGTAATATATGTTGT
Found at i:79192 original size:16 final size:16
Alignment explanation
Indices: 79171--79205 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
79161 GGTATTACCC
*
79171 GACCTGTTTTCAACCT
1 GACCTGTTATCAACCT
*
79187 GACCTGTTATGAACCT
1 GACCTGTTATCAACCT
79203 GAC
1 GAC
79206 ATGTAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (16 bp):
GACCTGTTATCAACCT
Found at i:79343 original size:17 final size:17
Alignment explanation
Indices: 79321--79361 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
79311 TATAATAAAC
79321 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
79338 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
79355 ATATGAT
1 TTATGAT
79362 TATTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:79364 original size:67 final size:68
Alignment explanation
Indices: 79283--79413 Score: 178
Period size: 67 Copynumber: 1.9 Consensus size: 68
79273 GTGAAGTTAC
* *
79283 AATTAATATAATTATGTTATTTT-AAA-TTTATAATAAA-CTTATGATAATTAAATTATTATGAT
1 AATTAATATAATTAT-TT-TTTTGAAATTTTATAATAAATATTATGATAATTAAATTAATATGAT
79345 AATTA
64 AATTA
* *
79350 AATTAATATGATTATTTTTTTGAAATTTTATCATAAATTATTATGATAATTAAATTAATATGAT
1 AATTAATATAATTATTTTTTTGAAATTTTATAATAAA-TATTATGATAATTAAATTAATATGAT
79414 TACTTTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
65 4 0.07
66 5 0.09
67 24 0.43
69 23 0.41
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (68 bp):
AATTAATATAATTATTTTTTTGAAATTTTATAATAAATATTATGATAATTAAATTAATATGATAA
TTA
Found at i:79390 original size:52 final size:52
Alignment explanation
Indices: 79331--79429 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
79321 TTATGATAAT
*
79331 TAAATTATTATGATAATTAAATTAATATGATTATTTTTTTGAAATTTTATCA
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTTTATCA
79383 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTT
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTT
79430 AGTTTTATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (52 bp):
TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTTTATCA
Found at i:81890 original size:13 final size:12
Alignment explanation
Indices: 81855--81932 Score: 54
Period size: 15 Copynumber: 6.1 Consensus size: 12
81845 AATAAACTAC
81855 TTATAATTAATA
1 TTATAATTAATA
81867 TTAAAATAATTATATA
1 TT---ATAATTA-ATA
81883 TTATAATTAATA
1 TTATAATTAATA
*
81895 TTAATATAATTAATT
1 -T--TATAATTAATA
81910 TTA-ATATTAA-A
1 TTATA-ATTAATA
81921 TTAT-ATTAATA
1 TTATAATTAATA
81932 T
1 T
81933 AATATAGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 21
0.70 0.03 0.27
Matches are distributed among these distances:
10 5 0.09
11 6 0.11
12 12 0.22
13 8 0.15
14 1 0.02
15 17 0.31
16 5 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:81897 original size:6 final size:6
Alignment explanation
Indices: 81860--81937 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
81850 ACTACTTATA
81860 ATTAAT ATTAAAAT AATTATAT ATT-AT AATTAAT ATTAAT A-T-A- ATTAAT
1 ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
*
81909 TTTAAT ATTAA- ATT-AT ATTAAT A-TAAT AT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT AT
81938 AGTTTATAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 15 0.26
6 25 0.43
7 6 0.10
8 5 0.09
9 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTAAT
Found at i:81935 original size:21 final size:19
Alignment explanation
Indices: 81858--81999 Score: 58
Period size: 22 Copynumber: 6.9 Consensus size: 19
81848 AAACTACTTA
*
81858 TAATTAATATTAAAATAAT
1 TAATTAATATTAATATAAT
*
81877 TATATATTATAATTAATATTAAT
1 TA-AT-TAAT-ATTAATA-TAAT
*
81900 ATAATTAATTTTAATATTAAAT
1 -TAATTAATATTAATA-T-AAT
*
81922 TATATTAATA-TAATATAGT
1 TA-ATTAATATTAATATAAT
* * *
81941 TTA-TAATTTGTAATTAAAAT
1 TAATTAATAT-TAA-TATAAT
*
81961 TAATATAAAATATAGTATATAA-
1 TAAT-TAATAT-TA--ATATAAT
81983 -AATTAATATTAATATAA
1 TAATTAATATTAATATAA
82000 ACTATATGTT
Statistics
Matches: 93, Mismatches: 16, Indels: 30
0.67 0.12 0.22
Matches are distributed among these distances:
17 10 0.11
18 1 0.01
19 10 0.11
20 14 0.15
21 21 0.23
22 24 0.26
23 10 0.11
24 3 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TAATTAATATTAATATAAT
Found at i:81994 original size:31 final size:31
Alignment explanation
Indices: 81859--82014 Score: 96
Period size: 31 Copynumber: 5.0 Consensus size: 31
81849 AACTACTTAT
* * *
81859 AATTAATATTAAAAT-AATTATA-TAT-TAT
1 AATTAATATTAATATAAAATATAGTATATAA
* *
81887 AATTAATATTAATATAATTAAT-T-TTAATATTA
1 AATTAATATTAATATAA--AATATAGT-ATATAA
*
81919 AATT-ATATTAATAT--AATATAGTTTATAA
1 AATTAATATTAATATAAAATATAGTATATAA
*
81947 TTTGTAATTAAAATTAATATAAAATATAGTATATAA
1 -----AATTAATATTAATATAAAATATAGTATATAA
*
81983 AATTAATATTAATATAAACTATATGT-TATAA
1 AATTAATATTAATATAAAATATA-GTATATAA
82014 A
1 A
82015 TTATATAGTA
Statistics
Matches: 100, Mismatches: 11, Indels: 31
0.70 0.08 0.22
Matches are distributed among these distances:
27 3 0.03
28 19 0.19
29 2 0.02
30 2 0.02
31 41 0.41
32 7 0.07
33 4 0.04
34 9 0.09
36 13 0.13
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.45
Consensus pattern (31 bp):
AATTAATATTAATATAAAATATAGTATATAA
Found at i:82032 original size:14 final size:14
Alignment explanation
Indices: 82017--82070 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
82007 GTTATAAATT
*
82017 ATATAGTATAGTTT
1 ATATAGTATAGTTA
* *
82031 ATAAACTATAGTTA
1 ATATAGTATAGTTA
*
82045 ATATA--ATACTTA
1 ATATAGTATAGTTA
82057 ATATAGTATAGTTA
1 ATATAGTATAGTTA
82071 TAAACATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 11 0.34
14 21 0.66
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (14 bp):
ATATAGTATAGTTA
Found at i:82196 original size:21 final size:21
Alignment explanation
Indices: 82122--82196 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
82112 TTAACATTAA
* *
82122 TATAAACTATATAGTACATTAAG
1 TATAAACTATAT-GT-TATAAAG
*
82145 -AT-AACTATAAT-TTATAAAT
1 TATAAACTAT-ATGTTATAAAG
*
82164 TATATACTATATGTTATAAAG
1 TATAAACTATATGTTATAAAG
82185 TATAAACTATAT
1 TATAAACTATAT
82197 AGTACACTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 4 0.10
20 5 0.12
21 29 0.69
22 4 0.10
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
TATAAACTATATGTTATAAAG
Found at i:82244 original size:13 final size:13
Alignment explanation
Indices: 82228--82311 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
82218 GTACTATAAG
82228 TTACATATATAGT
1 TTACATATATAGT
* *
82241 TTACATTTATACAT
1 TTACATATATA-GT
*
82255 ATAC-TATA-AGT
1 TTACATATATAGT
* * *
82266 TTATACATACA-T
1 TTACATATATAGT
*
82278 GTAC-TATA-AG-
1 TTACATATATAGT
82288 TTACATATATAGT
1 TTACATATATAGT
82301 TTACATATATA
1 TTACATATATA
82312 CATATACTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
10 4 0.08
11 10 0.19
12 9 0.17
13 25 0.48
14 4 0.08
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (13 bp):
TTACATATATAGT
Found at i:82271 original size:60 final size:60
Alignment explanation
Indices: 82207--82322 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
82197 AGTACACTAA
*
82207 TATACATACATGTACTATAAGTTACATATATAGTTTACATTTATACATATACTATAAGTT
1 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATAAGTT
82267 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATA
1 TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATA
82323 GGTTACATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (60 bp):
TATACATACATGTACTATAAGTTACATATATAGTTTACATATATACATATACTATAAGTT
Found at i:82381 original size:21 final size:21
Alignment explanation
Indices: 82356--82409 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
82346 TATGCATAGT
82356 GTTTATGATTTAGGGTTAACA
1 GTTTATGATTTAGGGTTAACA
* *
82377 TTTTATGATTTAGGGTTAATA
1 GTTTATGATTTAGGGTTAACA
82398 GTTTATG-TTTAG
1 GTTTATGATTTAG
82410 AGTTTAGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (21 bp):
GTTTATGATTTAGGGTTAACA
Found at i:82522 original size:28 final size:28
Alignment explanation
Indices: 82480--82535 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
82470 ATATAAGTAA
* *
82480 TATATATATATATATATTACTTATATTAGT
1 TATACATAAATATATA-TAC-TATATTAGT
82510 TATACATAAATATATATACTATATTA
1 TATACATAAATATATATACTATATTA
82536 ATATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 3 0.12
30 14 0.58
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (28 bp):
TATACATAAATATATATACTATATTAGT
Found at i:82628 original size:21 final size:21
Alignment explanation
Indices: 82585--82628 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
82575 ATATATAAAC
* * *
82585 TATAGTTTAGGGTTTATGATT
1 TATAATTTAAGGTTTAGGATT
*
82606 TATAATTTAAGGTTTAGGGTT
1 TATAATTTAAGGTTTAGGATT
82627 TA
1 TA
82629 GGATTTCTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
TATAATTTAAGGTTTAGGATT
Found at i:83076 original size:20 final size:21
Alignment explanation
Indices: 83051--83102 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
83041 TTTTCCCAAT
*
83051 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
83071 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
83092 TCGCAATGCGA
1 TCGCAATGCGA
83103 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:83115 original size:41 final size:41
Alignment explanation
Indices: 83088--83165 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
83078 GCGAATTGGG
* * *
83088 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
83129 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
83166 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:83116 original size:20 final size:20
Alignment explanation
Indices: 83091--83185 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
83081 AATTGGGAAA
*
83091 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
83111 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
83132 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
83152 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
83172 TTCGCAACGCGATA
1 ATCGCAACGCGATA
83186 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:83401 original size:22 final size:22
Alignment explanation
Indices: 83373--83416 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
83363 CACTCTCTCA
83373 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
83395 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
83417 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:85066 original size:18 final size:18
Alignment explanation
Indices: 85045--85089 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
85035 TCCACTTCGG
*
85045 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
85063 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
85081 GAGCCATCA
1 GAGCCATCA
85090 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:85553 original size:20 final size:21
Alignment explanation
Indices: 85528--85656 Score: 106
Period size: 20 Copynumber: 6.3 Consensus size: 21
85518 TTTTCCCAAT
*
85528 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
85548 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
85569 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
85589 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
**
85610 TCGCAATGCGATATT--GACTA
1 TCGCAATGCGA-ATTAAGAAAA
*
85630 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCGA-ATTAAGAAAA
85651 TCGCAA
1 TCGCAA
85657 CGAGATACTT
Statistics
Matches: 86, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
20 44 0.51
21 39 0.45
22 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:85571 original size:21 final size:21
Alignment explanation
Indices: 85545--85625 Score: 101
Period size: 21 Copynumber: 3.9 Consensus size: 21
85535 GCGAATAAGT
85545 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
85566 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
85586 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
85607 AAATCGCAATGCGATATTG
1 AAATCGCAACGCGA-ATTG
85626 ACTATCGCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.33
21 29 0.59
22 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:85635 original size:41 final size:41
Alignment explanation
Indices: 85528--85620 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
85518 TTTTCCCAAT
85528 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
85569 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
85610 TCGCAATGCGA
1 TCGCAATGCGA
85621 TATTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:85651 original size:41 final size:41
Alignment explanation
Indices: 85606--85683 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
85596 GCGAATTGGG
* * *
85606 AAAATCGCAATGCGATA-TTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTT-ACTATCGCAACGCGATAATAA
*
85647 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTTACTATCGCAACGCGATA
85684 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 30 0.94
42 2 0.06
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTTACTATCGCAACGCGATAATAA
Found at i:85676 original size:20 final size:20
Alignment explanation
Indices: 85651--85703 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
85641 TAATAAAAAA
* *
85651 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
85671 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
85691 TCGCAACGCGATA
1 TCGCAACGCGATA
85704 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:85919 original size:22 final size:22
Alignment explanation
Indices: 85891--85934 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
85881 CACTCTCTCA
85891 CCCATCTCCGACAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
* *
85913 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
85935 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:86236 original size:20 final size:20
Alignment explanation
Indices: 86213--86255 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
86203 GATAGTCGAA
86213 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
86233 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
86253 TTC
1 TTC
86256 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:86498 original size:2 final size:2
Alignment explanation
Indices: 86491--86653 Score: 87
Period size: 2 Copynumber: 84.5 Consensus size: 2
86481 ACCTTGAGAA
86491 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
86532 TT AT AG AT -T ACT -T AT AT -T AGT -T AT AC AT AC AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * *
86572 AT -T AT AT -T A- AT AT AA AT -T AT A- AT TT AT AA ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * * *
86610 -T TT AT AT AGT TT AT AC AT AT AT AGT TT AT AT AC AT AC AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
86653 A
1 A
86654 CATACATACA
Statistics
Matches: 120, Mismatches: 25, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
1 11 0.09
2 104 0.87
3 5 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86658 original size:4 final size:4
Alignment explanation
Indices: 86639--86757 Score: 202
Period size: 4 Copynumber: 29.8 Consensus size: 4
86629 TATAGTTTAT
*
86639 ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
86687 ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
86735 AGAC ATAC ATAC AGAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATA
86758 TAGAAAATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 107 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:87052 original size:2 final size:2
Alignment explanation
Indices: 87045--87232 Score: 51
Period size: 2 Copynumber: 95.0 Consensus size: 2
87035 CTCACTTTGA
* *
87045 AT AT AT AT AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT AGT TT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * * * *
87086 AT AA ACT AT AT ACT TT TT AT AGT TT AT AC AT AT AT A- AT TT AC
1 AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * *
87128 AT AT AT AGT TT AT AT AT AT AGT -T CAT AT AA AC AT A- AT TT AT
1 AT AT AT A-T AT AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT AT
* *
87169 AT AT AT A- ACT -T AT A- AT A- AT -T AT AT AGT TT AT AT AT AA ACT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T
87209 -T AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
87233 TTTTTTCAAT
Statistics
Matches: 135, Mismatches: 27, Indels: 48
0.64 0.13 0.23
Matches are distributed among these distances:
1 13 0.10
2 112 0.83
3 10 0.07
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87148 original size:13 final size:13
Alignment explanation
Indices: 87103--87220 Score: 74
Period size: 13 Copynumber: 8.3 Consensus size: 13
87093 ATATACTTTT
87103 TATAGTTTATACATA
1 TATAGTTTAT--ATA
* *
87118 TATAATTTACATA
1 TATAGTTTATATA
87131 TATAGTTTATATA
1 TATAGTTTATATA
*
87144 TATAGTTCATATAAA
1 TATAGTT--TATATA
* *
87159 CATAATTTATATA
1 TATAGTTTATATA
*
87172 TATAACTTATAATAATTA
1 TAT-AGTT-T-AT-A-TA
87190 TATAGTTTATATA
1 TATAGTTTATATA
* *
87203 TAAACTTATATATA
1 TATAGTT-TATATA
87217 TATA
1 TATA
87221 TATATATTAT
Statistics
Matches: 81, Mismatches: 14, Indels: 17
0.72 0.12 0.15
Matches are distributed among these distances:
13 35 0.43
14 13 0.16
15 21 0.26
16 3 0.04
17 4 0.05
18 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:87231 original size:29 final size:31
Alignment explanation
Indices: 87166--87232 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
87156 AAACATAATT
*
87166 TATATATATAACTTATAATAATTATATAGTT
1 TATATATATAACTTATAATAATTATATAGTA
*
87197 TATATATA-AACTTATATATATATATATATATTA
1 TATATATATAACTTATA-ATA-AT-TATATAGTA
87230 TAT
1 TAT
87233 TTTTTTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 8 0.26
31 11 0.35
32 2 0.06
33 10 0.32
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TATATATATAACTTATAATAATTATATAGTA
Found at i:87231 original size:31 final size:30
Alignment explanation
Indices: 87165--87232 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
87155 TAAACATAAT
87165 TTATATATATAACTTATAATAATTATATAG
1 TTATATATATAACTTATAATAATTATATAG
87195 TT-TATATATAAACTTATATATATATATATATA-
1 TTATATATAT-AACTTATA-ATA-AT-TATATAG
87227 TTATAT
1 TTATAT
87233 TTTTTTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
29 7 0.21
30 10 0.30
31 3 0.09
32 4 0.12
33 9 0.27
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (30 bp):
TTATATATATAACTTATAATAATTATATAG
Found at i:88880 original size:18 final size:20
Alignment explanation
Indices: 88854--88894 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
88844 TTGGGTCTCC
*
88854 AAAATTAAAAT-ATAA-AAT
1 AAAAATAAAATAATAATAAT
88872 AAAAATAAAATAATAATAAT
1 AAAAATAAAATAATAATAAT
88892 AAA
1 AAA
88895 GGTCTGGACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATAAAATAATAATAAT
Found at i:91684 original size:21 final size:21
Alignment explanation
Indices: 91660--91950 Score: 183
Period size: 21 Copynumber: 14.0 Consensus size: 21
91650 GATTTACATA
*
91660 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
91681 TTCGTGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
91702 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
91723 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
91742 TTCGCGTTGCGATTTATTCGAAA
1 TTCGCGTTGCGA--TAGTCCAAG
91765 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
91784 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
91807 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
91826 TTCGCGTTGCGATTTATTCTAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
91849 TT--CGTTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
91868 TTCGCGTTGTGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* **
91891 TT--CGTTGTGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
91910 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
91933 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
91951 AATCGCAACA
Statistics
Matches: 208, Mismatches: 42, Indels: 42
0.71 0.14 0.14
Matches are distributed among these distances:
19 54 0.26
21 112 0.54
23 42 0.20
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:91721 original size:42 final size:42
Alignment explanation
Indices: 91686--91947 Score: 438
Period size: 42 Copynumber: 6.3 Consensus size: 42
91676 CCAAGTTCGT
91686 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
*
91726 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCGAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
* *
91768 GTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
*
91810 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
* *
91852 GTTACGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
* *
91894 GTTGTGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
91936 GTTGCGATAGTC
1 GTTGCGATAGTC
91948 CAAAATCGCA
Statistics
Matches: 204, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 28 0.14
41 2 0.01
42 174 0.85
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (42 bp):
GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
Found at i:92782 original size:40 final size:42
Alignment explanation
Indices: 92662--92880 Score: 329
Period size: 42 Copynumber: 5.3 Consensus size: 42
92652 TGCGATTTTG
* * *
92662 GACTATCGTAACGAATTTGGAATAAATCGCAACGTGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
92704 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
92746 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
92786 GACTATCGCAACAAATTTGGAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* **
92828 GACTATCGCAACGAATTTGG-A-AAATCACAACATGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
92868 GACTATCGCAACG
1 GACTATCGCAACG
92881 CGAACTTCGA
Statistics
Matches: 165, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
40 67 0.41
41 3 0.02
42 95 0.58
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:92803 original size:82 final size:82
Alignment explanation
Indices: 92662--92879 Score: 346
Period size: 82 Copynumber: 2.6 Consensus size: 82
92652 TGCGATTTTG
* * *
92662 GACTATCGTAACGAATTTGGAATAAATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGG-A-AAATCGCAACGTGAACTTCGACTATCGCAACAAATTTGGAAT
*
92727 AAATCGCAACGCGAACTTC
64 AAATCACAACGCGAACTTC
* *
92746 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTTGACTATCGCAACAAATTTGGAATAA
1 GACTATCGCAACGAATTTGGAAAATCGCAACGTGAACTTCGACTATCGCAACAAATTTGGAATAA
92811 ATCACAACGCGAACTTC
66 ATCACAACGCGAACTTC
* *
92828 GACTATCGCAACGAATTTGGAAAATCACAACATGAACTTCGACTATCGCAAC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGTGAACTTCGACTATCGCAAC
92880 GCGAACTTCG
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
82 105 0.84
83 1 0.01
84 19 0.15
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (82 bp):
GACTATCGCAACGAATTTGGAAAATCGCAACGTGAACTTCGACTATCGCAACAAATTTGGAATAA
ATCACAACGCGAACTTC
Found at i:92942 original size:61 final size:61
Alignment explanation
Indices: 92687--92944 Score: 238
Period size: 61 Copynumber: 4.2 Consensus size: 61
92677 TTTGGAATAA
* * *
92687 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACAAATTT-GAA-AAATCGCAACGCGAACTTCGACT
* * ** * ** * * * *
92750 ATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTTG-ACTATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTCGACTATCGCAA--C-AAATTTGAAAAATCGCAACGCGAACTTCGACT
* * * * **
92809 AAATCACAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCACAACATGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGAAAAATCGCAACGCGAACTTCGACT
92872 ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGAAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGAAAAATCGCAACGCGAACTTCGACT
92933 ATCGCAACGCGA
1 ATCGCAACGCGA
92945 TTAATCGCAT
Statistics
Matches: 152, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
59 8 0.05
60 5 0.03
61 103 0.68
62 1 0.01
63 31 0.20
64 4 0.03
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (61 bp):
ATCGCAACGCGAACTTCGACTATCGCAACAAATTTGAAAAATCGCAACGCGAACTTCGACT
Found at i:92978 original size:21 final size:21
Alignment explanation
Indices: 92949--93001 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
92939 ACGCGATTAA
*
92949 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
92970 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
92991 TCGCGTCGCGA
1 TCGCGTTGCGA
93002 ATTTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.26
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:93698 original size:20 final size:20
Alignment explanation
Indices: 93673--93711 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
93663 AAAATTCAAA
*
93673 AAATAAATCTAATTGAATCC
1 AAATAAATCAAATTGAATCC
93693 AAATAAATCAAATTGAATC
1 AAATAAATCAAATTGAATC
93712 TCTTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (20 bp):
AAATAAATCAAATTGAATCC
Found at i:95727 original size:31 final size:30
Alignment explanation
Indices: 95684--95797 Score: 95
Period size: 31 Copynumber: 3.7 Consensus size: 30
95674 GGTAATACAA
*
95684 AACCTCGG-AAACTGTCCATAGGTCCTGAGG
1 AACCTAGGTAAACTGTCCATAGGTCCTGA-G
* *
95714 AACCTAGGTAAACTGTCCATATGTTCCTTAG
1 AACCTAGGTAAACTGTCCATA-GGTCCTGAG
* * * * *
95745 AACATAGGTATACTGTCCATATGTCCCGAA
1 AACCTAGGTAAACTGTCCATAGGTCCTGAG
* *
95775 AGACATAGGTAATTCTGTCCATA
1 A-ACCTAGGTAA-ACTGTCCATA
95798 TGTTTCGTAG
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
30 12 0.18
31 41 0.60
32 15 0.22
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (30 bp):
AACCTAGGTAAACTGTCCATAGGTCCTGAG
Found at i:95813 original size:32 final size:32
Alignment explanation
Indices: 95713--95818 Score: 128
Period size: 31 Copynumber: 3.4 Consensus size: 32
95703 AGGTCCTGAG
* *
95713 GAACCTAGGTAA-ACTGTCCATATGTTCCTTA
1 GAACATAGGTAATACTGTCCATATGTTCCGTA
*
95744 GAACATAGGT-ATACTGTCCATATGTCCCG-A
1 GAACATAGGTAATACTGTCCATATGTTCCGTA
* * *
95774 AAGACATAGGTAATTCTGTCCATATGTTTCGTA
1 GA-ACATAGGTAATACTGTCCATATGTTCCGTA
95807 GAACATAGGTAA
1 GAACATAGGTAA
95819 ACCCTCGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
30 3 0.05
31 32 0.51
32 26 0.41
33 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (32 bp):
GAACATAGGTAATACTGTCCATATGTTCCGTA
Found at i:96179 original size:20 final size:18
Alignment explanation
Indices: 96154--96196 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
96144 TATCACTCTG
*
96154 TATCATATTCTACATATTCA
1 TATCAT-TTC-ACATATACA
*
96174 TATCATTTCACATGTACA
1 TATCATTTCACATATACA
96192 TATCA
1 TATCA
96197 CTGTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (18 bp):
TATCATTTCACATATACA
Found at i:103141 original size:22 final size:22
Alignment explanation
Indices: 103115--103161 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
103105 GTCAATGGTT
103115 AACGGTCAGACCGGTCAAAGTC
1 AACGGTCAGACCGGTCAAAGTC
*
103137 AACGGTCAGATCGGTCAAAGTC
1 AACGGTCAGACCGGTCAAAGTC
103159 AAC
1 AAC
103162 AGTCGGGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.15
Consensus pattern (22 bp):
AACGGTCAGACCGGTCAAAGTC
Found at i:112186 original size:23 final size:23
Alignment explanation
Indices: 112160--112205 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
112150 CACCACAGCT
*
112160 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
112183 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
112206 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:112422 original size:149 final size:149
Alignment explanation
Indices: 112183--112487 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
112173 CGAAGTGCCA
*
112183 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCTCATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
112248 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCACAGAATATA
112313 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
112332 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCTATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
112397 CATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCATACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCACAGAATATA
112462 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
112481 CGTAGAA
1 CGTAGAA
112488 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:113965 original size:64 final size:62
Alignment explanation
Indices: 113828--113988 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 62
113818 TAATGAAGGT
* * * * *
113828 ATGCATCGATGCACTACACCATGCATCGATGTATAAATTCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGC
* *
113893 ATGGATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAAT-TC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATG-TTTCTATTT-AATGGC
* *
113957 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
113989 CCTTAAACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 55 0.67
65 23 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGC
Found at i:117867 original size:3 final size:3
Alignment explanation
Indices: 117859--117888 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
117849 GCAAAATATG
117859 TAA TAA TAA TAA GTAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
117889 TTTATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:117874 original size:13 final size:13
Alignment explanation
Indices: 117853--117888 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
117843 GGTGCTGCAA
*
117853 AATATGTAATAAT
1 AATAAGTAATAAT
117866 AATAAGTAATAAT
1 AATAAGTAATAAT
117879 AATAA-TAATA
1 AATAAGTAATA
117889 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
AATAAGTAATAAT
Found at i:118281 original size:113 final size:112
Alignment explanation
Indices: 118083--118603 Score: 772
Period size: 113 Copynumber: 4.6 Consensus size: 112
118073 ATCTATTCCA
* * * * * *
118083 TCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTATTCCGCTTACTCTGAAGGGACTATCAG
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
* *
118148 ATCTGGGGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATC-AAGCAGACTTGTTCCACTTAC
**
118196 TCTGAAGGGAATATCAAATCTCGGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
118261 ATCTGGGGGAGTTAATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATC-AAGCAGACTTGTTCCACTTAC
* *
118309 TCTGAAGGGAATATCAAATCTTAGAAAAAAGAGATATGTTCCGCTTACTCTGAAGGGAATATCAT
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
* * * * * *
118374 GTATGGGGGAGTTGATCCATTGAATCAGGATAGACTTATTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATCAAG-CAGACTTGTTCCACTTAC
*
118422 TCTGAAGGGAATATCAAATCTTAGAAAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
* * *
118487 ATATGGGGGAGTTAATCCATTGAATCAGGGTAGACTTGTTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATCA-AGCAGACTTGTTCCACTTAC
* * * *
118535 TCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTTCGCTTACTCTGAAGGGAATATCAA
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
118600 ATCT
66 ATCT
118604 TGGATAAGAG
Statistics
Matches: 377, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 2 0.01
113 373 0.99
114 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (112 bp):
TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
ATCTGGGGGAGTTAATCCATTGAATCAAGCAGACTTGTTCCACTTAC
Found at i:118601 original size:48 final size:48
Alignment explanation
Indices: 118530--118646 Score: 218
Period size: 48 Copynumber: 2.4 Consensus size: 48
118520 ACTTGTTCCA
118530 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTT-TCG
1 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCT-G
118578 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCTG
1 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCTG
118626 CTTACTCTGAAGGGAATATCA
1 CTTACTCTGAAGGGAATATCA
118647 GATCAGGAGG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
48 67 0.99
49 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (48 bp):
CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCTG
Found at i:119817 original size:15 final size:15
Alignment explanation
Indices: 119799--119859 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
119789 TCTTTTCTTT
119799 TTTCTCATTTTTTTC
1 TTTCTCATTTTTTTC
* * **
119814 TTTCCTTATTCTTTAA
1 TTT-CTCATTTTTTTC
* *
119830 TTTTTCATTTTTGTC
1 TTTCTCATTTTTTTC
*
119845 TTTTTCATTTTTTTC
1 TTTCTCATTTTTTTC
119860 AGGCGAAATA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
15 23 0.68
16 11 0.32
ACGTcount: A:0.10, C:0.16, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTCTCATTTTTTTC
Found at i:119825 original size:22 final size:23
Alignment explanation
Indices: 119782--119825 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
119772 CCCTCCTTTT
* *
119782 ATTTTTTTCTTTTCTTTTTTCTC
1 ATTTTTTTCTTTTCCTTATTCTC
119805 ATTTTTTTC-TTTCCTTATTCT
1 ATTTTTTTCTTTTCCTTATTCT
119826 TTAATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTTTTTCTTTTCCTTATTCTC
Found at i:123411 original size:24 final size:24
Alignment explanation
Indices: 123374--123438 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
123364 AATCTATCCC
*
123374 ATATCAAAATAGAATGAAA-TAATAA
1 ATAT-AAAA-AGAATGAAAGAAATAA
*
123399 TATATAAAAAGAAAGAAAGAAATAA
1 -ATATAAAAAGAATGAAAGAAATAA
*
123424 ATAAATAAAAGAATG
1 ATATA-AAAAGAATG
123439 GAAGGGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 12 0.36
25 17 0.52
26 4 0.12
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.20
Consensus pattern (24 bp):
ATATAAAAAGAATGAAAGAAATAA
Found at i:133057 original size:10 final size:10
Alignment explanation
Indices: 133039--133071 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
133029 GGTGCTGCAA
*
133039 AATATGTAAT
1 AATAAGTAAT
133049 AATAAGTAAT
1 AATAAGTAAT
133059 AATAA-TAAT
1 AATAAGTAAT
133068 AATA
1 AATA
133072 TTTATATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
AATAAGTAAT
Found at i:134938 original size:69 final size:69
Alignment explanation
Indices: 134831--134960 Score: 235
Period size: 69 Copynumber: 1.9 Consensus size: 69
134821 TATCATAAGT
134831 CTCCCTCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGTCTCC
1 CTCCCTCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGTCTCC
134896 CTCC
66 CTCC
*
134900 CTCCCTTCC-TAGTAGGCTATGGCATGTCATTTATCATATGCGGTCCACTTGGACCCCAAGT
1 CTCCC-TCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGT
134961 AGTATGAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
69 56 0.95
70 3 0.05
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.30
Consensus pattern (69 bp):
CTCCCTCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGTCTCC
CTCC
Found at i:137994 original size:21 final size:21
Alignment explanation
Indices: 137964--138003 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
137954 GCTAAAGTAT
*
137964 AAATTGGGAAACATTTAGGAA
1 AAATTAGGAAACATTTAGGAA
*
137985 AAATTAGGAAACGTTTAGG
1 AAATTAGGAAACATTTAGG
138004 GACCTAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (21 bp):
AAATTAGGAAACATTTAGGAA
Done.