Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001868.1 Hibiscus syriacus cultivar Beakdansim tig00003783_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: 358561
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:6375 original size:18 final size:17
Alignment explanation
Indices: 6354--6392 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6344 AGAGAATTGA
6354 AATCTGTGAAGGAATTAG
1 AATCTGT-AAGGAATTAG
* *
6372 AATCTGTCAGGAATTGG
1 AATCTGTAAGGAATTAG
6389 AATC
1 AATC
6393 CAATTCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (17 bp):
AATCTGTAAGGAATTAG
Found at i:7251 original size:259 final size:254
Alignment explanation
Indices: 6743--7342 Score: 822
Period size: 259 Copynumber: 2.4 Consensus size: 254
6733 ATCCGAGACT
* *
6743 CGACCCGACCAAAATAAAGTTT----T-ACCCGACCCGAATATATGAATAAGAAACCCGACTCGA
1 CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAA-CCGAC-CGA
*
6803 CCT----GAAATAATAAAAAAATTATTTTTATTCAATAAAAACAATGATTTAATTGAAAAAATAT
64 CCTACCCGAAATAAT-AAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATAT
* * *
6864 ATAGAGATGGATATTATTGTAATTATTCCTAAATATATAAGGTAAAACTATATATTTTTAGGTCG
128 ATAGAGAGGGATATTATTGTAATTATCCCTAAATATATAAGGTAAAACTATATATATTT--GTCG
* *
6929 GGTCGGGTATTTTTCACCCTAAACCTGAACCCGACCCGAATATCACACTTTAAAAAAACCGACC
191 GGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAAACCGACC
*
6993 CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTATAAATCCGACCAGA
1 CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAA-CCGACC-GA
* *
7058 CCATACCCGAAATAATAAAACAATTATTTTTATTTAATAAAAACAGTGACTTAATTG-AAAAATA
64 CC-TACCCGAAATAATAAAA-AATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATA
* *
7122 TATAGAGAGGGGTATTATTGTAATTATCCCTAAATATATAAGGTAAAATTATATATATTT-TCGG
127 TATAGAGAGGGATATTATTGTAATTATCCCTAAATATATAAGGTAAAACTATATATATTTGTCGG
*
7186 GTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGAATATCACACTT-AAAAAAACCGA-C
192 GTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAAACCGACC
* * *
7247 CGACCCGACTAAAATAAAGTTTCAACC-GACCCGACCAGAATATATGAATTAGAAACCGA-C--C
1 CGACTCGACCAAAATAAAGTTTC-ACCTGACCCGACCCGAATATATGAATTAGAAACCGACCGAC
*
7308 CGACCCGAAATAATAAAAAA-TATTTTTATTCAATA
65 CTACCCGAAATAATAAAAAATTATTTTTATTCAATA
7343 TATGAATAAG
Statistics
Matches: 317, Mismatches: 20, Indels: 30
0.86 0.05 0.08
Matches are distributed among these distances:
246 14 0.04
247 2 0.01
248 16 0.05
249 2 0.01
250 21 0.07
252 1 0.00
253 4 0.01
254 50 0.16
255 48 0.15
256 52 0.16
259 66 0.21
260 41 0.13
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.27
Consensus pattern (254 bp):
CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCGACCGACC
TACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAATATATA
GAGAGGGATATTATTGTAATTATCCCTAAATATATAAGGTAAAACTATATATATTTGTCGGGTCG
GGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAAACCGACC
Found at i:15345 original size:15 final size:16
Alignment explanation
Indices: 15325--15354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15315 CGCCATAGTT
15325 TTTCC-TCTATTTTTC
1 TTTCCTTCTATTTTTC
15340 TTTCCTTCTATTTTT
1 TTTCCTTCTATTTTT
15355 ACAAATAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCCTTCTATTTTTC
Found at i:21896 original size:30 final size:31
Alignment explanation
Indices: 21860--21939 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 31
21850 ATATTGTCAA
*
21860 AAAAGTTTAGTGCCTAAAATTGAAT-C-TTTT
1 AAAAGTTTAGTGCCTAAAATT-AATACATTCT
*
21890 AAAAGTTTAGTG-GTAAAATTAATACAATTCT
1 AAAAGTTTAGTGCCTAAAATTAATAC-ATTCT
*
21921 -AAAGTTCAGTGCCTAAAAT
1 AAAAGTTTAGTGCCTAAAAT
21940 ATTGTTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.07
29 8 0.19
30 22 0.52
31 9 0.21
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (31 bp):
AAAAGTTTAGTGCCTAAAATTAATACATTCT
Found at i:23522 original size:2 final size:2
Alignment explanation
Indices: 23515--23543 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23505 TGTCTTATCT
23515 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23544 GGTGTGGGGG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:32431 original size:10 final size:10
Alignment explanation
Indices: 32411--32440 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
32401 TTTAAAATAA
32411 AAATATATTTT
1 AAAT-TATTTT
32422 AAATTATTTT
1 AAATTATTTT
32432 AAATTATTT
1 AAATTATTT
32441 AGGTTCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AAATTATTTT
Found at i:43691 original size:2 final size:2
Alignment explanation
Indices: 43684--43724 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
43674 AATTATCATT
*
43684 TA TA TA TA TA TA AA 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 TA TA TA TA TA TA T
43725 CATTTTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:54819 original size:30 final size:29
Alignment explanation
Indices: 54763--54819 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
54753 TAAAATAATG
*
54763 TAAATAAAAAATTAAAGTATTTAAAATCT
1 TAAATAAAAAATTAAAGTATTAAAAATCT
*
54792 TAAATAAAATAA-TATATGTATTAAAAAT
1 TAAATAAAA-AATTA-AAGTATTAAAAAT
54820 TGTCTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (29 bp):
TAAATAAAAAATTAAAGTATTAAAAATCT
Found at i:59099 original size:149 final size:149
Alignment explanation
Indices: 58829--59132 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
58819 CGAAGTGCCC
*
58829 CGTAGAATTGCACCTTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
58894 CATATACATATACTATGGATCAAATATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAATATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
58959 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
58978 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
59043 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAATATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
59108 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
59127 CGTAGA
1 CGTAGA
59133 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAATATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:59266 original size:30 final size:30
Alignment explanation
Indices: 59221--59279 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
59211 ATCGCGTAGT
* *
59221 CATATTATTTCCATACCTTTATCACATAGG
1 CATATCATTTACATACCTTTATCACATAGG
59251 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
59280 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGG
Found at i:59380 original size:34 final size:29
Alignment explanation
Indices: 59301--59372 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
59291 TTTTCTGCAT
* *
59301 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
59330 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
59359 ATTCATGTCATGTA
1 ATTCATGTCATGTA
59373 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:59711 original size:19 final size:20
Alignment explanation
Indices: 59673--59710 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59663 TTTTTTCTCA
*
59673 TGGGGGAATCGGTTCCCCCT
1 TGGGGGAATCGATTCCCCCT
*
59693 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
59711 TCAAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCT
Found at i:59785 original size:65 final size:66
Alignment explanation
Indices: 59674--59822 Score: 230
Period size: 65 Copynumber: 2.3 Consensus size: 66
59664 TTTTTCTCAT
* *
59674 GGGGGAATCGGTTCCCCCTTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCTTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCAT-TACGAT
59739 GA
65 GA
* * *
59741 GGGGGTATCGGTTCCCCC-TGGGGGTA-CGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 GGGGGTATCGGTTCCCCCTTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATTACGATG
59804 A
66 A
59805 GGGGGTATCGGTTCCCCC
1 GGGGGTATCGGTTCCCCC
59823 AACCCAGAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
64 24 0.31
65 28 0.36
66 8 0.10
67 17 0.22
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.29
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCTTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATTCATTACGATG
A
Found at i:66155 original size:149 final size:149
Alignment explanation
Indices: 65885--66188 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
65875 CGAAGTACCC
*
65885 CGTAGAATTGCACCTTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
*
65950 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66015 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
66034 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
66099 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66 CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
66164 CATATGTCCTAAAGAACCG
131 CATATGTCCTAAAGAACCG
66183 CGTAGA
1 CGTAGA
66189 CCCTCTACCC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAAT
CATATACATATACTATGGATCAAGTATGTGTCTTTCAAGACTTCACACAGGTTCCAAAGGATATA
CATATGTCCTAAAGAACCG
Found at i:66322 original size:30 final size:30
Alignment explanation
Indices: 66277--66335 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
66267 ATCGCGTAGT
* *
66277 CATATTATTTCCATACCTTTATCACATAGG
1 CATATCATTTACATACCTTTATCACATAGG
66307 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
66336 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGG
Found at i:66436 original size:34 final size:29
Alignment explanation
Indices: 66357--66428 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
66347 TTTTCTGCAT
* *
66357 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
66386 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
66415 ATTCATGTCATGTA
1 ATTCATGTCATGTA
66429 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:66765 original size:19 final size:20
Alignment explanation
Indices: 66728--66765 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66718 TTTTTTCTCA
*
66728 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
66748 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
66766 TCAAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:66822 original size:20 final size:20
Alignment explanation
Indices: 66797--66837 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
66787 ATACGATGAG
* *
66797 GGGGTATCGGTTCCCCCCTA
1 GGGGTACCGATTCCCCCCTA
*
66817 GGGGTACCGATTCCCCTCTA
1 GGGGTACCGATTCCCCCCTA
66837 G
1 G
66838 CATTCTGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.34, G:0.29, T:0.24
Consensus pattern (20 bp):
GGGGTACCGATTCCCCCCTA
Found at i:66875 original size:66 final size:67
Alignment explanation
Indices: 66729--66879 Score: 232
Period size: 67 Copynumber: 2.3 Consensus size: 67
66719 TTTTTCTCAT
* * * *
66729 GGGGGAATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCCTAGGGGTACCGATTCCCCTCAAGCATTCTGGAAATTCATATACGAT
66794 GA
66 GA
* * *
66796 GGGGGTATCGGTTCCCCCCTAGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTAGGGGTACCGATTCCCCTCAAGCATTCTGGAAATTCATATACGAT
66860 GA
66 GA
66862 GGGGGTATCGGTTCCCCC
1 GGGGGTATCGGTTCCCCC
66880 AACCCAGAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
66 24 0.31
67 53 0.69
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTAGGGGTACCGATTCCCCTCAAGCATTCTGGAAATTCATATACGAT
GA
Found at i:70881 original size:18 final size:18
Alignment explanation
Indices: 70855--70901 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
70845 TAATATATCA
*
70855 TCATATTGATTGAAAATG
1 TCATTTTGATTGAAAATG
70873 TCATTTTGATTGAAAATG
1 TCATTTTGATTGAAAATG
70891 TCATTTTGATT
1 TCATTTTGATT
70902 AATTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (18 bp):
TCATTTTGATTGAAAATG
Found at i:72486 original size:20 final size:19
Alignment explanation
Indices: 72454--72492 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
72444 ATAGAGACAA
*
72454 TTTAAAAATAAAATGATAT
1 TTTAAAAACAAAATGATAT
72473 TTTATAAAACAAAATGATAT
1 TTTA-AAAACAAAATGATAT
72493 AAATCTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (19 bp):
TTTAAAAACAAAATGATAT
Found at i:73143 original size:24 final size:24
Alignment explanation
Indices: 73111--73166 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
73101 CTATTCTTTC
73111 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
73135 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
73159 GCTTCAAT
1 GCTTCAAT
73167 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:73427 original size:30 final size:30
Alignment explanation
Indices: 73391--73456 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
73381 AGTGAACCGA
* * **
73391 CGGTTCAAATCGGTTTTGTCGGTTTTCAGC
1 CGGTTCAAACCAGTTTTCCCGGTTTTCAGC
**
73421 CGGTTCACCCCAGTTTTCCCGGTTTTCAGC
1 CGGTTCAAACCAGTTTTCCCGGTTTTCAGC
73451 CGGTTC
1 CGGTTC
73457 TTCCGGTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.11, C:0.29, G:0.24, T:0.36
Consensus pattern (30 bp):
CGGTTCAAACCAGTTTTCCCGGTTTTCAGC
Found at i:75147 original size:2 final size:2
Alignment explanation
Indices: 75140--75171 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
75130 TAAGATTCAT
75140 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75172 CCTCCTTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77222 original size:12 final size:12
Alignment explanation
Indices: 77205--77232 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
77195 GGTTTTTTTC
77205 AAACCGGATAAA
1 AAACCGGATAAA
77217 AAACCGGATAAA
1 AAACCGGATAAA
77229 AAAC
1 AAAC
77233 TGGTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.18, G:0.14, T:0.07
Consensus pattern (12 bp):
AAACCGGATAAA
Found at i:77247 original size:24 final size:23
Alignment explanation
Indices: 77220--77303 Score: 65
Period size: 22 Copynumber: 3.9 Consensus size: 23
77210 GGATAAAAAA
*
77220 CCGGATAAAAAACTGGTTTTTTAT
1 CCGGA-AAAAAACCGGTTTTTTAT
*
77244 CCGGAAAAAATCCGG-TTTTT-T
1 CCGGAAAAAAACCGGTTTTTTAT
* *
77265 ----AAAAAAACTGGATTTTTAT
1 CCGGAAAAAAACCGGTTTTTTAT
*
77284 CC-GAAAAAATCCGGTTTTTT
1 CCGGAAAAAAACCGGTTTTTT
77304 TTGCAAACCG
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
17 9 0.19
18 5 0.10
19 1 0.02
21 1 0.02
22 19 0.40
23 8 0.17
24 5 0.10
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (23 bp):
CCGGAAAAAAACCGGTTTTTTAT
Found at i:77304 original size:40 final size:40
Alignment explanation
Indices: 77226--77303 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
77216 AAAACCGGAT
*
77226 AAAAAACTGGTTTTTTATCCGGAAAAAATCCGGTTTTTTA
1 AAAAAACTGGATTTTTATCCGGAAAAAATCCGGTTTTTTA
77266 AAAAAACTGGATTTTTATCC-GAAAAAATCCGGTTTTTT
1 AAAAAACTGGATTTTTATCCGGAAAAAATCCGGTTTTTT
77304 TTGCAAACCG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 18 0.49
40 19 0.51
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (40 bp):
AAAAAACTGGATTTTTATCCGGAAAAAATCCGGTTTTTTA
Found at i:78282 original size:43 final size:42
Alignment explanation
Indices: 78169--78520 Score: 257
Period size: 43 Copynumber: 8.2 Consensus size: 42
78159 GAGAACAAAA
* * * *
78169 AAACGCCGCAATAGGTCAATATCTATTA-CGGCATTTTTTGAAC
1 AAACGCCGCAAAAAGTC-AGATCTA-TAGCGGCATTTTTAGAAC
* * *
78212 AAACGTCGC-ACAAGATCGATATCTATAGCGGCATTTTTAGAAC
1 AAACGCCGCAAAAAG-TC-AGATCTATAGCGGCATTTTTAGAAC
* * * *
78255 AAACGCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAGAA-
1 AAACGCCGCAAAAAGTCA-GATCTATAGCGGCATTTTTAGAAC
* * * * *
78297 AAAGCGACGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATAC
1 AAA-CGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTAGA-AC
*
78341 AAACGCCGCAAAAGAG-CAGACCTATA-CTGGCATTTTTAGAAC
1 AAACGCCGCAAAA-AGTCAGATCTATAGC-GGCATTTTTAGAAC
* * * * *
78383 AAACTCCGCAAAAGGTCAGACCTATAGCGGCATTTTTGGACAA
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTAGA-AC
* * * * * *
78426 AAACGCTGCAAAAGGTCAGACCTATAACGACGTTTTT-GAACAC
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTAG-A-AC
* * * *
78469 AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATAT
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTAGA-AC
78512 AAACGCCGC
1 AAACGCCGC
78521 TAATTACCTT
Statistics
Matches: 254, Mismatches: 41, Indels: 28
0.79 0.13 0.09
Matches are distributed among these distances:
41 1 0.00
42 65 0.26
43 179 0.70
44 9 0.04
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTAGAAC
Found at i:78381 original size:85 final size:85
Alignment explanation
Indices: 78169--78520 Score: 304
Period size: 86 Copynumber: 4.1 Consensus size: 85
78159 GAGAACAAAA
* * * * * * * * *
78169 AAACGCCGCAATAG-GTCAATATCTATTACGGCATTTTTTGAACAAACGTCGCACAAGATCGATA
1 AAACGCCGCAAAAGAGTC-AGACCTA-TACGGCGTTTTTAGAACAAACGCCGCAAAAGGTC-AGA
* *
78233 TCTATAGCGGCATTTTTAGA-AC
63 CCTATAGCGGCATTTTTGGATAC
* ** * * *
78255 AAACGCCGCAAAA-AGTTATGATATATAGCGGCGTTTCTAGAA-AAAGCGACGTAAAAGGTCAGA
1 AAACGCCGCAAAAGAGTCA-GACCTATA-CGGCGTTTTTAGAACAAA-CGCCGCAAAAGGTCAGA
* * *
78318 TCTATAGCGGCGTTTTTTGATAC
63 CCTATAGCGGCATTTTTGGATAC
* *
78341 AAACGCCGCAAAAGAG-CAGACCTATACTGGCATTTTTAGAACAAACTCCGCAAAAGGTCAGACC
1 AAACGCCGCAAAAGAGTCAGACCTATAC-GGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGACC
* *
78405 TATAGCGGCATTTTTGGACAA
65 TATAGCGGCATTTTTGGATAC
* * *
78426 AAACGCTGCAAAAG-GTCAGACCTATAACGACGTTTTT-GAACACAAACGCCGCAAAAAGTCAGA
1 AAACGCCGCAAAAGAGTCAGACCTAT-ACGGCGTTTTTAG-A-ACAAACGCCGCAAAAGGTCAGA
* *
78489 CCTATAGCGGCGTTTTTGGATAT
63 CCTATAGCGGCATTTTTGGATAC
78512 AAACGCCGC
1 AAACGCCGC
78521 TAATTACCTT
Statistics
Matches: 218, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
84 3 0.01
85 105 0.48
86 108 0.50
87 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (85 bp):
AAACGCCGCAAAAGAGTCAGACCTATACGGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGACCT
ATAGCGGCATTTTTGGATAC
Found at i:78439 original size:128 final size:125
Alignment explanation
Indices: 78166--78520 Score: 340
Period size: 128 Copynumber: 2.8 Consensus size: 125
78156 TTTGAGAACA
* * * * * *
78166 AAAAAACGCCGCAATAGGTCAATATCTATTACGGCATTTTTTGAACAAACGTCGCACAAGATCGA
1 AAAAAACG-CGCAAAAGGTC-AGATCTA-TACGGCGTTTTTTGAACAAACGCCGCAAAAGAGC-A
* * * * *
78231 TATCTATAGCGGCATTTTTAGAACAAACGCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAG
62 GACCTATAGCGGCATTTTTAGAACAAACGCCGCAAAAAGTCATGACATATAGCGGCATTTCTAG
* *
78295 AAAAAGCGACGTAAAAGGTCAGATCTATAGCGGCGTTTTTTGATACAAACGCCGCAAAAGAGCAG
1 AAAAAACG-CGCAAAAGGTCAGATCTATA-CGGCGTTTTTTGA-ACAAACGCCGCAAAAGAGCAG
* * * * *
78360 ACCTATA-CTGGCATTTTTAGAACAAACTCCGCAAAAGGTCA-GACCTATAGCGGCATTTTTGG
63 ACCTATAGC-GGCATTTTTAGAACAAACGCCGCAAAAAGTCATGACATATAGCGGCATTTCTAG
* *
78422 ACAAAAACGCTGCAAAAGGTCAGACCTATAACGACG-TTTTTGAACACAAACGCCGCAAAA-AGT
1 A-AAAAACGC-GCAAAAGGTCAGATCTAT-ACGGCGTTTTTTG-A-ACAAACGCCGCAAAAGAG-
* * *
78485 CAGACCTATAGCGGCGTTTTTGGATATAAACGCCGC
60 CAGACCTATAGCGGCATTTTTAGA-ACAAACGCCGC
78521 TAATTACCTT
Statistics
Matches: 188, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
127 29 0.15
128 116 0.62
129 43 0.23
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (125 bp):
AAAAAACGCGCAAAAGGTCAGATCTATACGGCGTTTTTTGAACAAACGCCGCAAAAGAGCAGACC
TATAGCGGCATTTTTAGAACAAACGCCGCAAAAAGTCATGACATATAGCGGCATTTCTAG
Found at i:79572 original size:21 final size:21
Alignment explanation
Indices: 79546--79585 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
79536 TTTGAAGTAT
79546 AAAAATGGGTTGATTAAATAA
1 AAAAATGGGTTGATTAAATAA
79567 AAAAATGGGTTGATTAAAT
1 AAAAATGGGTTGATTAAAT
79586 GTAATTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (21 bp):
AAAAATGGGTTGATTAAATAA
Found at i:81415 original size:42 final size:42
Alignment explanation
Indices: 81369--81477 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
81359 ACAATTGCGA
81369 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
1 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
* *
81411 CGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGG
1 CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
*
81453 CGTTTGTGTA--AAAAGGCCACTAAAG
1 CGTTTG-GTATTAAAACGCCACTAAAG
81478 AGCGTTTGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 13 0.21
42 46 0.74
43 3 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (42 bp):
CGTTTGGTATTAAAACGCCACTAAAGTACGAGTCTATAGCGG
Found at i:81521 original size:69 final size:69
Alignment explanation
Indices: 81410--81546 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 69
81400 GTCTATAGCG
*
81410 GCGTTTGGTATTAAAACGCCACAAAAGTACGTGTCTATAGCGGCGTTTGTGTAAAAAGGCCACTA
1 GCGTTTGGTATTAAAACGCCACAAAAGTACATGTCTATAGCGGCGTTTGTGTAAAAAGGCCACTA
81475 AAGA
66 AAGA
*
81479 GCGTTTGGTATTAAAACGCCACAAAAGTACATGTCTATAGCGGCGTTTGTGTAAAAATGCCACTA
1 GCGTTTGGTATTAAAACGCCACAAAAGTACATGTCTATAGCGGCGTTTGTGTAAAAAGGCCACTA
81544 AAG
66 AAG
81547 TACGAGTCTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (69 bp):
GCGTTTGGTATTAAAACGCCACAAAAGTACATGTCTATAGCGGCGTTTGTGTAAAAAGGCCACTA
AAGA
Found at i:81547 original size:41 final size:42
Alignment explanation
Indices: 81479--81671 Score: 214
Period size: 41 Copynumber: 4.7 Consensus size: 42
81469 CCACTAAAGA
* *
81479 GCGTTTGGTATTAAAACGCCACAAAAGTAC-ATGTCTATAGCG
1 GCGTTT-GTATAAAAACGCCACTAAAGTACGATGTCTATAGCG
* *
81521 GCGTTTGTGTAAAAATGCCACTAAAGTACGA-GTCTATAGCG
1 GCGTTTGTATAAAAACGCCACTAAAGTACGATGTCTATAGCG
* * * * * *
81562 GCGTTTATATAAAAACACCACTAAAATACTA-GTTTATAACG
1 GCGTTTGTATAAAAACGCCACTAAAGTACGATGTCTATAGCG
* * *
81603 GCGTTTGTATAAAAACGCCACTACATTACGAT-TCTTTAGCG
1 GCGTTTGTATAAAAACGCCACTAAAGTACGATGTCTATAGCG
* *
81644 GCGTTTTTATACAAACGCCACTAAAGTA
1 GCGTTTGTATAAAAACGCCACTAAAGTA
81672 TAGTATTTTG
Statistics
Matches: 125, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
41 118 0.94
42 7 0.06
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (42 bp):
GCGTTTGTATAAAAACGCCACTAAAGTACGATGTCTATAGCG
Found at i:82918 original size:12 final size:13
Alignment explanation
Indices: 82893--82921 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
82883 ATAAATACTT
82893 TTTTATTCTTTTA
1 TTTTATTCTTTTA
82906 TTTTATT-TTTTA
1 TTTTATTCTTTTA
82918 TTTT
1 TTTT
82922 TTGGTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTCTTTTA
Found at i:85634 original size:32 final size:32
Alignment explanation
Indices: 85598--85664 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
85588 CACTATTAAG
* *
85598 AGAATGAGTGATGCAGCTCGTGTGAAAGTTCT
1 AGAATGAATGAGGCAGCTCGTGTGAAAGTTCT
*
85630 AGAATGAATGAGGCAGCTCGTGTGGAAGTTCT
1 AGAATGAATGAGGCAGCTCGTGTGAAAGTTCT
85662 AGA
1 AGA
85665 TTAGAGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (32 bp):
AGAATGAATGAGGCAGCTCGTGTGAAAGTTCT
Found at i:91681 original size:22 final size:22
Alignment explanation
Indices: 91610--91672 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
91600 CACTTTAATA
91610 TTAAATTATGAAATTTAAATCT
1 TTAAATTATGAAATTTAAATCT
91632 TTAAATTATGAAATTTAAATCT
1 TTAAATTATGAAATTTAAATCT
* *
91654 TTAAATCATGAATTTTAAA
1 TTAAATTATGAAATTTAAA
91673 CTATAAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
TTAAATTATGAAATTTAAATCT
Found at i:92109 original size:17 final size:18
Alignment explanation
Indices: 92078--92111 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92068 AATAACCTTA
*
92078 TTTTTATCAATAAAATAG
1 TTTTTAACAATAAAATAG
92096 TTTTTAACAA-AAAATA
1 TTTTTAACAATAAAATA
92112 TTGTTAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (18 bp):
TTTTTAACAATAAAATAG
Found at i:92282 original size:11 final size:11
Alignment explanation
Indices: 92258--92290 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
92248 TATTATCTAG
92258 TTAAATTT--A
1 TTAAATTTAAA
92267 TTAAATTTAAA
1 TTAAATTTAAA
92278 TTAAATTTAAA
1 TTAAATTTAAA
92289 TT
1 TT
92291 GATAAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:92425 original size:23 final size:21
Alignment explanation
Indices: 92399--92441 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
92389 ATTTAATATA
92399 ATTGATAACAATGAAGTAATTTG
1 ATTGATAA-AATGAA-TAATTTG
*
92422 ATTGATAAAATTAATAATTT
1 ATTGATAAAATGAATAATTT
92442 AAATAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 5 0.26
23 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTGATAAAATGAATAATTTG
Found at i:110450 original size:3 final size:3
Alignment explanation
Indices: 110432--110478 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
110422 GGTTTTATAT
* *
110432 TTA TTA TTT TTT TTA TTA TTA TTTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA
110479 ATTACAAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:110451 original size:19 final size:19
Alignment explanation
Indices: 110424--110478 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
110414 TTACATTTGG
*
110424 TTTTA-TATTTATTATTTT
1 TTTTATTATTTATTATTAT
110442 TTTTATTA-TTATTTATTAT
1 TTTTATTATTTA-TTATTAT
*
110461 TATTATTATTTATTATTA
1 TTTTATTATTTATTATTA
110479 ATTACAAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 8 0.25
19 21 0.66
20 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTATTTATTATTAT
Found at i:110472 original size:16 final size:16
Alignment explanation
Indices: 110432--110478 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
110422 GGTTTTATAT
*
110432 TTATTATTT-TTTTTA
1 TTATTATTTATTATTA
110447 TTATTATTTATTATTA
1 TTATTATTTATTATTA
110463 TTATTATTTATTATTA
1 TTATTATTTATTATTA
110479 ATTACAAGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTATTATTTATTATTA
Found at i:117556 original size:20 final size:20
Alignment explanation
Indices: 117531--117596 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
117521 CACTGAAGTT
117531 CTTATGGATGGCCCGGAGGA
1 CTTATGGATGGCCCGGAGGA
* * * *
117551 CTTATGCATCATGCTCGGAAGA
1 CTTATGGAT--GGCCCGGAGGA
*
117573 CTTACT-GATGTCCCGGAGGA
1 CTTA-TGGATGGCCCGGAGGA
117593 CTTA
1 CTTA
117597 CAAATCAAGA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
20 19 0.56
22 14 0.41
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (20 bp):
CTTATGGATGGCCCGGAGGA
Found at i:117739 original size:90 final size:90
Alignment explanation
Indices: 117579--117896 Score: 512
Period size: 90 Copynumber: 3.5 Consensus size: 90
117569 AAGACTTACT
* * * * * * *
117579 GATGTCCCGGAGGACTTACAAATCAAGAAACCCCCGAAGGGTTAGTTT-TTAAAATATCATTTGA
1 GATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTT-AGATCTCATTTGA
117643 AAACATCCTGCACTGAAGGTCTTATG
65 AAACATCCTGCACTGAAGGTCTTATG
* * *
117669 GATGGCTCGGAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCAATTGAA
1 GATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAA
117734 AACATCCTGCACTGAAGGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
*
117759 GATGGCCCGAAGGACTTAAAAATCAAGAAACCCCAGAAGGCTCAGTTTCTTAGATCTCATTTGAA
1 GATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAA
117824 AACATCCTGCACTGAAGGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
*
117849 GATGGCCCAAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTT
1 GATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTT
117897 TTTAATTGTC
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
90 211 0.99
91 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (90 bp):
GATGGCCCGAAGGACTTAAAAATCAAGAAACCCCCGAAGGCTCAGTTTCTTAGATCTCATTTGAA
AACATCCTGCACTGAAGGTCTTATG
Found at i:117978 original size:43 final size:43
Alignment explanation
Indices: 117914--118200 Score: 264
Period size: 43 Copynumber: 6.5 Consensus size: 43
117904 GTCACCAAGG
*
117914 AACCCCTACATATCACTATGGTTCCTTAAGCTTTTCATCAAAA
1 AACCCCTACATATCACGATGGTTCCTTAAGCTTTTCATCAAAA
**
117957 AACCCCTACATATCACGATGGTT-CTTCAAGTATTCATCAAGTTTGTCATCAAGG
1 AACCCCTACATATCACGATGGTTCCTT-AAG-------C---TTT-TCATCAAAA
* *
118011 AACCCCTACATATCACGATGGTTCCTTAAGTTTTTCATC-AAG
1 AACCCCTACATATCACGATGGTTCCTTAAGCTTTTCATCAAAA
* * *
118053 AACCCCTAC-TA-CA--ATGGTTTCTTAAGCTTGTCATCAAGA
1 AACCCCTACATATCACGATGGTTCCTTAAGCTTTTCATCAAAA
* * * * *
118092 AACCCCTACATATCACGATGGTTTCTCAAACTTGTCATCAAAG
1 AACCCCTACATATCACGATGGTTCCTTAAGCTTTTCATCAAAA
*
118135 AACCCCTACATATCACGATGG-TCCTTCAAGCTTTTCATCAAGA
1 AACCCCTACATATCACGATGGTTCCTT-AAGCTTTTCATCAAAA
* *
118178 AACCCCTATATATCATGATGGTT
1 AACCCCTACATATCACGATGGTT
118201 TCTCAAGCGA
Statistics
Matches: 202, Mismatches: 22, Indels: 39
0.77 0.08 0.15
Matches are distributed among these distances:
38 19 0.09
39 10 0.05
40 4 0.02
41 4 0.02
42 17 0.08
43 104 0.51
44 4 0.02
50 1 0.00
53 3 0.01
54 33 0.16
55 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (43 bp):
AACCCCTACATATCACGATGGTTCCTTAAGCTTTTCATCAAAA
Found at i:118030 original size:54 final size:55
Alignment explanation
Indices: 117948--118052 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 55
117938 CTTAAGCTTT
117948 TCATCAAAAAACCCCTACATATCACGATGGTT-CTTCAAG-TATTCATCAAGTTTG
1 TCATCAAAAAACCCCTACATATCACGATGGTTCCTT-AAGTTATTCATCAAGTTTG
** *
118002 TCATCAAGGAACCCCTACATATCACGATGGTTCCTTAAGTTTTTCATCAAG
1 TCATCAAAAAACCCCTACATATCACGATGGTTCCTTAAGTTATTCATCAAG
118053 AACCCCTACT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 33 0.72
55 13 0.28
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (55 bp):
TCATCAAAAAACCCCTACATATCACGATGGTTCCTTAAGTTATTCATCAAGTTTG
Found at i:118624 original size:240 final size:240
Alignment explanation
Indices: 118202--118807 Score: 1045
Period size: 240 Copynumber: 2.5 Consensus size: 240
118192 ATGATGGTTT
* * *
118202 CTCAAGCGAGGCGTCACTGATTCAAAATG-TCGTGAGTCGAGTGATAGGTCGAACAAGCTCTTCT
1 CTCAAGCGAGGCGTCACTGATTCAAAATGCT-ATGAATCGAGTGATAAGTCGAACAAGCTCTTCT
* *
118266 CATTATGAACTTCTTCTCTCTCGTT-GGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATG
65 CATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATG
* *
118330 TTGATCCATCTTATTCTGTGATGGAATTGAAAGGAACAAGTTCTCCTCATTATGAACTTTTCCTT
130 TTGATCCATCTCATTCTCTGATGGAATTGAAAGGAACAAGTTCTCCTCATTATGAACTTTTCCTT
118395 TATGACGAGTTCTTCTCATTATGAACTCTTCTGAAAATGTCAATCC
195 TATGACGAGTTCTTCTCATTATGAACTCTTCTGAAAATGTCAATCC
* *
118441 CTCAAGCGAGGCGTCACTGATTCGAAATGCTATGAATCGAATGATAAGTCGAACAAGCTCTTCTC
1 CTCAAGCGAGGCGTCACTGATTCAAAATGCTATGAATCGAGTGATAAGTCGAACAAGCTCTTCTC
*
118506 ATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTAGAAATGT
66 ATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGT
*
118571 TGATCCATCTCATTCTCTGATGGAATTGAAAGGAACAAGTTCTTCTCATTATGAACTTTTCCTTT
131 TGATCCATCTCATTCTCTGATGGAATTGAAAGGAACAAGTTCTCCTCATTATGAACTTTTCCTTT
* *
118636 ATGACGAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTAATCC
196 ATGACGAGTTCTTCTCATTATGAACTCTTCTGAAAATGTCAATCC
* * *
118681 CTCAAACGAGGCGTCACTGATTCAAAATACCATGAATCGAGTGATAAGTCGAACAAGCTCTTCTC
1 CTCAAGCGAGGCGTCACTGATTCAAAATGCTATGAATCGAGTGATAAGTCGAACAAGCTCTTCTC
118746 ATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAA
66 ATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAA
118808 CACTGATGCG
Statistics
Matches: 346, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
239 80 0.23
240 266 0.77
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (240 bp):
CTCAAGCGAGGCGTCACTGATTCAAAATGCTATGAATCGAGTGATAAGTCGAACAAGCTCTTCTC
ATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGT
TGATCCATCTCATTCTCTGATGGAATTGAAAGGAACAAGTTCTCCTCATTATGAACTTTTCCTTT
ATGACGAGTTCTTCTCATTATGAACTCTTCTGAAAATGTCAATCC
Found at i:118658 original size:19 final size:17
Alignment explanation
Indices: 118607--118659 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
118597 TGAAAGGAAC
118607 AAGTTCTTCTCATTATG
1 AAGTTCTTCTCATTATG
* *
118624 AACTT-TTC-CTTTATG
1 AAGTTCTTCTCATTATG
118639 ACGAGTTCTTCTCATTATG
1 A--AGTTCTTCTCATTATG
118658 AA
1 AA
118660 CTCTTCTGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.25
16 3 0.11
17 8 0.29
18 3 0.11
19 7 0.25
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (17 bp):
AAGTTCTTCTCATTATG
Found at i:118666 original size:16 final size:16
Alignment explanation
Indices: 118611--118666 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
118601 AGGAACAAGT
118611 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* * *
118627 TTTTC-CTTTATGACGAGT
1 TCTTCTCATTATGA--A-C
118645 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
118661 TCTTCT
1 TCTTCT
118667 GGAAATGTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 7 0.23
16 10 0.33
17 2 0.07
18 4 0.13
19 7 0.23
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:118894 original size:91 final size:91
Alignment explanation
Indices: 118729--118989 Score: 441
Period size: 91 Copynumber: 2.9 Consensus size: 91
118719 GAGTGATAAG
* * * *
118729 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGATGAGTTCTTCTCATTATGAA
1 TCGAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTCGTT-GGATGAGTTCTTCTCATTATGAA
118794 CTCTCCATTGGAAACACTGATGCGAGA
65 CTCTCCATTGGAAACACTGATGCGAGA
*
118821 TCGAACAAGTTATTCTCATTATGAACTTCTTTTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TCGAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
*
118886 TCTTCATTGGAAACACTGATGCGAGA
66 TCTCCATTGGAAACACTGATGCGAGA
118912 TCGAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
1 TCGAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
* *
118977 TCTCTATTAGAAA
66 TCTCCATTGGAAA
118990 TGTTGATCTG
Statistics
Matches: 159, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
91 123 0.77
92 36 0.23
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (91 bp):
TCGAACAAGTTCTTCTCATTATGAACTTCTTTTCTCTCGTTGGATGAGTTCTTCTCATTATGAAC
TCTCCATTGGAAACACTGATGCGAGA
Found at i:119381 original size:77 final size:72
Alignment explanation
Indices: 119257--119526 Score: 236
Period size: 77 Copynumber: 3.6 Consensus size: 72
119247 AGAGAAGCTC
* * * *
119257 TCTCGAGTGAGATAAATTTTATTTCGAAGGAAAATTATCTCCAGTAAGACGAAGTAGGTTTTAAG
1 TCTCAAGTGAGATACATTTTGTTTC-AAGGAAAATTATCTCAAGTAAGACGAAGTAGGTTTTAAG
*
119322 AAAACCCA
65 AAAAACCA
* * *
119330 TCTCAAGTGAGATTCAATTTCTTTGTTTCAAGAGAAAACTATCTCAAGTAAGACGAAGCAGGTTT
1 TCTCAAGTGAGATAC-A--T-TTTGTTTCAAG-GAAAATTATCTCAAGTAAGACGAAGTAGG-TT
*
119395 TATGAAAAAAAAACCA
60 T-T--AAGAAAAACCA
* * * * *
119411 TCTCAAGTGAGATACATTTTGTTTCAAGGGAAAGTTGTCTCAAGTGAGACGAAGTTGATTTTAAG
1 TCTCAAGTGAGATACATTTTGTTTCAA-GGAAAATTATCTCAAGTAAGACGAAGTAGGTTTTAAG
119476 AAAAACCA
65 AAAAACCA
* * * * * *
119484 TCTTAAGGGAGACAAAACTTTGTTTCAA-GAAAATCTGTCTCAA
1 TCTCAAGTGAGA-TACATTTTGTTTCAAGGAAAAT-TATCTCAA
119527 AAACTTGTTT
Statistics
Matches: 161, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
72 5 0.03
73 40 0.25
74 13 0.08
75 1 0.01
76 7 0.04
77 65 0.40
78 5 0.03
79 1 0.01
80 1 0.01
81 23 0.14
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (72 bp):
TCTCAAGTGAGATACATTTTGTTTCAAGGAAAATTATCTCAAGTAAGACGAAGTAGGTTTTAAGA
AAAACCA
Found at i:119536 original size:28 final size:29
Alignment explanation
Indices: 119497--119554 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 29
119487 TAAGGGAGAC
119497 AAAACTTTGTTTCAAGA-AAATCTGTCTCA
1 AAAACTTTGTTTCAAGAGAAAT-TGTCTCA
119526 AAAAC-TTGTTTCAAGAGAAATTGTCTCA
1 AAAACTTTGTTTCAAGAGAAATTGTCTCA
119554 A
1 A
119555 GGGATACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (29 bp):
AAAACTTTGTTTCAAGAGAAATTGTCTCA
Found at i:119554 original size:15 final size:14
Alignment explanation
Indices: 119503--119555 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
119493 AGACAAAACT
*
119503 TTGTTTCAAGAAAA
1 TTGTCTCAAGAAAA
*
119517 TCTGTCTCAA-AAAC
1 T-TGTCTCAAGAAAA
*
119531 TTGTTTCAAGAGAAA
1 TTGTCTCAAGA-AAA
119546 TTGTCTCAAG
1 TTGTCTCAAG
119556 GGATACAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 6 0.19
15 18 0.58
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (14 bp):
TTGTCTCAAGAAAA
Found at i:119619 original size:66 final size:66
Alignment explanation
Indices: 119473--119656 Score: 187
Period size: 66 Copynumber: 2.8 Consensus size: 66
119463 AGTTGATTTT
* * * ** * **
119473 AAGAAAAACCATCTTAAGGGAGACAAAACTTTGTTTCAAGA-AAATCTGTCTCAAA-AACT-TGT
1 AAGAGAAACTATCTCAAGGGAGACAAAA-TTCATTTCAAGAGAAA-CTATCTCAAAGTTCTGTGT
119535 TTC
64 TTC
* * * * *
119538 AAGAGAAATTGTCTCAAGGGATACAAAATTCGTTTCAAGGGAAACGT-TCTCAAAGTTCTGTGTT
1 AAGAGAAACTATCTCAAGGGAGACAAAATTCATTTCAAGAGAAAC-TATCTCAAAGTTCTGTGTT
119602 TC
65 TC
*
119604 AAGAGAAACTATCTCAAGGGAGACAAAATTTATTTCAAGAGAAACTATCTCAA
1 AAGAGAAACTATCTCAAGGGAGACAAAATTCATTTCAAGAGAAACTATCTCAA
119657 GGGAGACAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
64 18 0.18
65 29 0.30
66 51 0.52
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (66 bp):
AAGAGAAACTATCTCAAGGGAGACAAAATTCATTTCAAGAGAAACTATCTCAAAGTTCTGTGTTT
C
Found at i:119647 original size:36 final size:36
Alignment explanation
Indices: 119600--119668 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
119590 AAGTTCTGTG
119600 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
119636 TTTCAAGAGAAACTATCTCAAGGGAGACAAAAT
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAAT
119669 CTTTTGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.23
Consensus pattern (36 bp):
TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTA
Found at i:119719 original size:40 final size:40
Alignment explanation
Indices: 119659--120153 Score: 778
Period size: 40 Copynumber: 12.4 Consensus size: 40
119649 TATCTCAAGG
* * *
119659 GAGACAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
119699 GAGATAAATTCTTCTGTTTCAAGGAAAAACAATCTTGAGCT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGA-AT
*
119740 -AGATAAAATCTTTTGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* *
119779 GAGTTAAAATCTTCCGTTTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
119819 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTAAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
119859 GAGATAAAATCTTCTGTTTCAATGG-AAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAA-GGAAAAACAATCTTGAAT
* * *
119899 GAGATAAAATCTTTTGTTTCAAGGAAAAATAATTTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
119939 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
119979 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATTTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
120019 GAGATAAAATCTTCTGTGTCAAGGAAAAACAATCTTGAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
* * *
120059 GAGATAAAATCTTCTATTTCAAGGAAAAACAATATTGAGT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
*
120099 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTTAAT
1 GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
120139 GAGATAAAATCTTCT
1 GAGATAAAATCTTCT
120154 TATTTCGAGT
Statistics
Matches: 416, Mismatches: 35, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
39 3 0.01
40 410 0.99
41 3 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (40 bp):
GAGATAAAATCTTCTGTTTCAAGGAAAAACAATCTTGAAT
Found at i:120290 original size:34 final size:34
Alignment explanation
Indices: 120247--120363 Score: 189
Period size: 34 Copynumber: 3.4 Consensus size: 34
120237 TAAATAAAAC
*
120247 TTGTCTCAAGCGAGATGAAATTTATTTTGAGAAA
1 TTGTCTCAAGCGAGATGAAATTTGTTTTGAGAAA
120281 TTGTCTCAAGCGAGATGAAATTTGTTTTGAGAAA
1 TTGTCTCAAGCGAGATGAAATTTGTTTTGAGAAA
* *
120315 TTGTCTCAAGCGAAACGAAATTTGTTTTGAGAAA
1 TTGTCTCAAGCGAGATGAAATTTGTTTTGAGAAA
* *
120349 TTATCTCAAGTGAGA
1 TTGTCTCAAGCGAGA
120364 CAAATTTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 77 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (34 bp):
TTGTCTCAAGCGAGATGAAATTTGTTTTGAGAAA
Found at i:120531 original size:32 final size:32
Alignment explanation
Indices: 120487--120668 Score: 222
Period size: 33 Copynumber: 5.6 Consensus size: 32
120477 CCCAAAATTC
* * **
120487 GAATCTCTAAAGATGTCATAACATTTGATGTT
1 GAATCTCCAAAGATGCCCCAACATTTGATGTT
120519 GAATCTCCAAAGATGCCCCAACATTTGATGTT
1 GAATCTCCAAAGATGCCCCAACATTTGATGTT
*
120551 GAATCTTCAAAGATGCCCTCAA-ATTTTTGATGTT
1 GAATCTCCAAAGATGCCC-CAACA--TTTGATGTT
*
120585 GAATCTTCAAAGATGCCCTCAACATTTGATGTT
1 GAATCTCCAAAGATGCCC-CAACATTTGATGTT
* * *
120618 GAATCTCTAAAGATGCCCCAAAATTTTGATATT
1 GAATCTCCAAAGATGCCCCAACA-TTTGATGTT
*
120651 GAATCTTCAAAGATGCCC
1 GAATCTCCAAAGATGCCC
120669 TCTATTGCTT
Statistics
Matches: 134, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
32 50 0.37
33 52 0.39
34 31 0.23
35 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (32 bp):
GAATCTCCAAAGATGCCCCAACATTTGATGTT
Found at i:120596 original size:66 final size:66
Alignment explanation
Indices: 120487--120670 Score: 266
Period size: 66 Copynumber: 2.8 Consensus size: 66
120477 CCCAAAATTC
* ** * *
120487 GAATCTCTAAAGATGTCATAACA-TTTGATGTTGAATCTCCAAAGATGCCC-CAACATTTGATGT
1 GAATCTCTAAAGATGCCCCAAAATTTTGATGTTGAATCTTCAAAGATGCCCTCAACATTTGATGT
120550 T
66 T
*
120551 GAATCT-TCAAAGATGCCCTCAAATTTTTGATGTTGAATCTTCAAAGATGCCCTCAACATTTGAT
1 GAATCTCT-AAAGATGCCC-CAAAATTTTGATGTTGAATCTTCAAAGATGCCCTCAACATTTGAT
120615 GTT
64 GTT
*
120618 GAATCTCTAAAGATGCCCCAAAATTTTGATATTGAATCTTCAAAGATGCCCTC
1 GAATCTCTAAAGATGCCCCAAAATTTTGATGTTGAATCTTCAAAGATGCCCTC
120671 TATTGCTTCA
Statistics
Matches: 107, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 14 0.13
65 2 0.02
66 59 0.55
67 30 0.28
68 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (66 bp):
GAATCTCTAAAGATGCCCCAAAATTTTGATGTTGAATCTTCAAAGATGCCCTCAACATTTGATGT
T
Found at i:120618 original size:33 final size:33
Alignment explanation
Indices: 120506--120670 Score: 239
Period size: 33 Copynumber: 5.0 Consensus size: 33
120496 AAGATGTCAT
*
120506 AACATTTGATGTTGAATCTCCAAAGATGCCC-C
1 AACATTTGATGTTGAATCTTCAAAGATGCCCTC
120538 AACATTTGATGTTGAATCTTCAAAGATGCCCTC
1 AACATTTGATGTTGAATCTTCAAAGATGCCCTC
120571 AA-ATTTTTGATGTTGAATCTTCAAAGATGCCCTC
1 AACA--TTTGATGTTGAATCTTCAAAGATGCCCTC
120605 AACATTTGATGTTGAATC-TCTAAAGATGCCC-C
1 AACATTTGATGTTGAATCTTC-AAAGATGCCCTC
* *
120637 AAAATTTTGATATTGAATCTTCAAAGATGCCCTC
1 AACA-TTTGATGTTGAATCTTCAAAGATGCCCTC
120671 TATTGCTTCA
Statistics
Matches: 122, Mismatches: 3, Indels: 14
0.88 0.02 0.10
Matches are distributed among these distances:
32 37 0.30
33 50 0.41
34 34 0.28
35 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (33 bp):
AACATTTGATGTTGAATCTTCAAAGATGCCCTC
Found at i:121673 original size:15 final size:14
Alignment explanation
Indices: 121653--121728 Score: 70
Period size: 12 Copynumber: 5.6 Consensus size: 14
121643 TTATCGTCCC
121653 TTTTTCTTTGCTTTT
1 TTTTTCTTTGC-TTT
121668 TTTTTCTTTG-TTT
1 TTTTTCTTTGCTTT
* *
121681 CTTTT-TTTGCTCT
1 TTTTTCTTTGCTTT
121694 TTTTTCTTTGCTTT
1 TTTTTCTTTGCTTT
**
121708 CATTTCTTT--TTT
1 TTTTTCTTTGCTTT
*
121720 CTTTTCTTT
1 TTTTTCTTT
121729 TTGCTCTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
12 15 0.29
13 13 0.25
14 14 0.27
15 10 0.19
ACGTcount: A:0.01, C:0.16, G:0.05, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTGCTTT
Found at i:121696 original size:27 final size:28
Alignment explanation
Indices: 121667--121733 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
121657 TCTTTGCTTT
121667 TTTTTTCTTTG-TTTC-TTTTTTTGCTC
1 TTTTTTCTTTGCTTTCATTTTTTTGCTC
*
121693 TTTTTTCTTTGCTTTCATTTCTTTT-TTC
1 TTTTTTCTTTGCTTTCATTT-TTTTGCTC
121721 TTTTCTT-TTTGCT
1 TTTT-TTCTTTGCT
121734 CTTTTTTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 11 0.31
27 4 0.11
28 15 0.42
29 6 0.17
ACGTcount: A:0.01, C:0.16, G:0.06, T:0.76
Consensus pattern (28 bp):
TTTTTTCTTTGCTTTCATTTTTTTGCTC
Found at i:121736 original size:21 final size:21
Alignment explanation
Indices: 121653--121740 Score: 78
Period size: 21 Copynumber: 4.2 Consensus size: 21
121643 TTATCGTCCC
**
121653 TTTTTCTTTGCTTTTTTTTTCT
1 TTTTTCTTTGC-TTTTTGCTCT
121675 TTGTTTC-TT--TTTTTGCTCT
1 TT-TTTCTTTGCTTTTTGCTCT
121694 TTTTTCTTTGCTTTCATT--TCT
1 TTTTTCTTTGCTTT--TTGCTCT
*
121715 TTTTTCTTTTCTTTTTGCTCT
1 TTTTTCTTTGCTTTTTGCTCT
121736 TTTTT
1 TTTTT
121741 GTTCTGATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
18 4 0.07
19 14 0.25
21 27 0.49
22 4 0.07
23 6 0.11
ACGTcount: A:0.01, C:0.16, G:0.06, T:0.77
Consensus pattern (21 bp):
TTTTTCTTTGCTTTTTGCTCT
Found at i:121739 original size:41 final size:40
Alignment explanation
Indices: 121652--121739 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 40
121642 ATTATCGTCC
* *
121652 CTTTTTCTTTGCTTTTTTTTTCTTTGTTTCTTTTTTTGCT
1 CTTTTTCTTTGCTTTTTTTTTCTTTCTTTCTCTTTTTGCT
121692 CTTTTTTCTTTGCTTTCATTTCTTT-TTTCTTT-TCTTTTTGCT
1 C-TTTTTCTTTGCTTT--TTT-TTTCTTTCTTTCTCTTTTTGCT
121734 CTTTTT
1 CTTTTT
121740 TGTTCTGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
40 1 0.02
41 19 0.45
42 10 0.24
43 9 0.21
44 3 0.07
ACGTcount: A:0.01, C:0.17, G:0.06, T:0.76
Consensus pattern (40 bp):
CTTTTTCTTTGCTTTTTTTTTCTTTCTTTCTCTTTTTGCT
Found at i:135145 original size:22 final size:22
Alignment explanation
Indices: 135092--135147 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
135082 AAATTATAAA
135092 ATATTTATAATATTAATTGTGT
1 ATATTTATAATATTAATTGTGT
135114 A-ATTTCATAATATT-ATTG-GAAT
1 ATATTT-ATAATATTAATTGTG--T
135136 ATATTTATAATA
1 ATATTTATAATA
135148 ATAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.03
21 8 0.27
22 17 0.57
23 4 0.13
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
ATATTTATAATATTAATTGTGT
Found at i:145680 original size:29 final size:29
Alignment explanation
Indices: 145630--145685 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
145620 CTTTTCAGAT
* * * * *
145630 ACTTGCATTTAAGTCTCTAAACTTTTAAA
1 ACTTGCAATAAAGTCACCAAACATTTAAA
145659 ACTTGCAATAAAGTCACCAAACATTTA
1 ACTTGCAATAAAGTCACCAAACATTTA
145686 GCTCATTTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (29 bp):
ACTTGCAATAAAGTCACCAAACATTTAAA
Found at i:145855 original size:34 final size:34
Alignment explanation
Indices: 145815--145908 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 34
145805 AACACAGTCA
*
145815 TCAATTACATTTTAAACC-CAAATTCCAAAATACT
1 TCAATTACATTCT-AACCTCAAATTCCAAAATACT
* *
145849 TCAATTACATTCTAACCTCAAATTCTAAAATATT
1 TCAATTACATTCTAACCTCAAATTCCAAAATACT
* *
145883 TCAATTACATGCTCAACCCCAAATTC
1 TCAATTACATTCT-AACCTCAAATTC
145909 ATAATTCATT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 4 0.08
34 38 0.72
35 11 0.21
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.33
Consensus pattern (34 bp):
TCAATTACATTCTAACCTCAAATTCCAAAATACT
Found at i:146568 original size:148 final size:146
Alignment explanation
Indices: 146390--146680 Score: 494
Period size: 148 Copynumber: 2.0 Consensus size: 146
146380 AAACTATTTA
* * *
146390 AATTAGAATAAAAATATTATAGTATTATAAATATTTATAATTAAATTTAAAC-TGAAACTCGAAA
1 AATTAGAATAAAAATATTATAATATGATAAATAGTTATAATTAAATTTAAACAT-AAACTCGAAA
* *
146454 ATTCAATTCAATTCGACTTGATTTAAATTTTATAAAATCAAATCGAAAAAATTTTGAGTTAACTA
65 ATTCAATTCAATTCGACTTGATTTAAATTTTATAAAATCAAATCAAAAAAATTTTGAGTCAACTA
146519 TTTTATAAACTGAACTG
130 TTTTATAAACTGAACTG
146536 AATTAGAATCAAATAATATTATAATATGATAAATAGTTATAATTAAATTTAAACATAAACTCGAA
1 AATTAGAAT-AAA-AATATTATAATATGATAAATAGTTATAATTAAATTTAAACATAAACTCGAA
*
146601 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCAAAAAAATTTTGAGTCAACT
64 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAAATCAAATCAAAAAAATTTTGAGTCAACT
146666 ATTTTATAAACTGAA
129 ATTTTATAAACTGAA
146681 TTGAGTATTT
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
146 9 0.07
147 3 0.02
148 123 0.90
149 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (146 bp):
AATTAGAATAAAAATATTATAATATGATAAATAGTTATAATTAAATTTAAACATAAACTCGAAAA
TTCAATTCAATTCGACTTGATTTAAATTTTATAAAATCAAATCAAAAAAATTTTGAGTCAACTAT
TTTATAAACTGAACTG
Found at i:146897 original size:35 final size:35
Alignment explanation
Indices: 146844--146937 Score: 102
Period size: 35 Copynumber: 2.7 Consensus size: 35
146834 TGGATTATGA
* * *
146844 ATTTGGGGTTGGACATGTAATT-AAAGTATTTAGGA-
1 ATTTGGGTTTAGA-ATGTAATTGAAA-CATTTAGGAT
*
146879 ATTTGAGGTTTAGAATGTAATTGAAACATTTTGGAT
1 ATTTG-GGTTTAGAATGTAATTGAAACATTTAGGAT
*
146915 TTTTGGGTTTAGAATGTAATTGA
1 ATTTGGGTTTAGAATGTAATTGA
146938 TGATTGTGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
35 38 0.75
36 13 0.25
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (35 bp):
ATTTGGGTTTAGAATGTAATTGAAACATTTAGGAT
Found at i:164281 original size:17 final size:18
Alignment explanation
Indices: 164248--164281 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
164238 CCGTTATTAG
164248 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
164266 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
164282 GATCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:170108 original size:27 final size:31
Alignment explanation
Indices: 170074--170136 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
170064 TTCAAAAATA
* *
170074 TAATATATAATTA-TTAT-TTTTTATTTAAT
1 TAATATATAGTCACTTATGTTTTTATTTAAT
*
170103 TAATATATAGTCACTTTTGTTTTTATTTAAT
1 TAATATATAGTCACTTATGTTTTTATTTAAT
170134 TAA
1 TAA
170137 GATTTAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.38
30 3 0.10
31 15 0.52
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TAATATATAGTCACTTATGTTTTTATTTAAT
Found at i:170481 original size:25 final size:25
Alignment explanation
Indices: 170422--170508 Score: 72
Period size: 25 Copynumber: 3.3 Consensus size: 25
170412 TTTAATTCAT
170422 AATATTTATATATATTAA-CT-TTAAGA
1 AATATTT-T-TATATTAACCTATTAA-A
170448 AATACTTTTTATATTAACCTATTAAA
1 AATA-TTTTTATATTAACCTATTAAA
* *
170474 TATA-TTTTATTATTAACTTAATTTAAA
1 AATATTTTTA-TATTAACCT-A-TTAAA
170501 AATATTTT
1 AATATTTT
170509 ATTTTGATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.10
25 16 0.31
26 12 0.24
27 15 0.29
28 3 0.06
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.51
Consensus pattern (25 bp):
AATATTTTTATATTAACCTATTAAA
Found at i:170486 original size:27 final size:27
Alignment explanation
Indices: 170422--170511 Score: 75
Period size: 27 Copynumber: 3.4 Consensus size: 27
170412 TTTAATTCAT
170422 AATA-TTTATATATATTAA-CT-TTAAGA
1 AATATTTTAT-TATATTAACCTATTAA-A
*
170448 AATACTTT-TTATATTAACCTATTAAA
1 AATATTTTATTATATTAACCTATTAAA
* *
170474 TATATTTTA-T-TATTAACTTAATTTAAA
1 AATATTTTATTATATTAACCT-A-TTAAA
170501 AATATTTTATT
1 AATATTTTATT
170512 TTGATTTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
25 16 0.30
26 16 0.30
27 20 0.38
28 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (27 bp):
AATATTTTATTATATTAACCTATTAAA
Found at i:170521 original size:27 final size:27
Alignment explanation
Indices: 170436--170550 Score: 89
Period size: 27 Copynumber: 4.3 Consensus size: 27
170426 TTTATATATA
170436 TTAACTTTAAGAAATACTTTT-TATATTAAC
1 TTAA-TTTAA-AAATA-TTTTAT-TATTAAC
* *
170466 CT-A-TTAAATATATTTTATTATTAAC
1 TTAATTTAAAAATATTTTATTATTAAC
**
170491 TTAATTTAAAAATATTTTATT-TTGATT
1 TTAATTTAAAAATATTTTATTATT-AAC
* *
170518 TTAATTTAAAAATA-TATATCATT-AC
1 TTAATTTAAAAATATTTTATTATTAAC
170543 TTAATTTA
1 TTAATTTA
170551 TAATAGAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
25 20 0.29
26 12 0.17
27 36 0.51
29 1 0.01
30 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (27 bp):
TTAATTTAAAAATATTTTATTATTAAC
Found at i:170706 original size:20 final size:20
Alignment explanation
Indices: 170674--170733 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 20
170664 CTTCAAAATA
170674 TTTTAACAT-AAAATATATAT
1 TTTTAA-ATAAAAATATATAT
170694 TTTTAAATAAAAATAAAATATATAT
1 TTTTAAAT----A-AAAATATATAT
170719 TTTTAAATAAAAATA
1 TTTTAAATAAAAATA
170734 AAAATAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
19 2 0.06
20 12 0.35
21 1 0.03
25 19 0.56
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAATAAAAATATATAT
Found at i:170715 original size:25 final size:25
Alignment explanation
Indices: 170681--170753 Score: 119
Period size: 25 Copynumber: 2.8 Consensus size: 25
170671 ATATTTTAAC
170681 ATAAAATATATATTTTTAAATAAAA
1 ATAAAATATATATTTTTAAATAAAA
170706 ATAAAATATATATTTTTAAATAAAA
1 ATAAAATATATATTTTTAAATAAAA
*
170731 ATAAAAATAAAATATTTTTAAAT
1 AT-AAAAT-ATATATTTTTAAAT
170754 TATGTTAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 27 0.60
26 5 0.11
27 13 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAAATATATATTTTTAAATAAAA
Found at i:170768 original size:26 final size:25
Alignment explanation
Indices: 170704--170800 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 25
170694 TTTTAAATAA
**
170704 AAATAAAATATATATTTTTAAATAAAAAT
1 AAATAAAA-A-ATATTTTT-AAT-AAGTT
*
170733 AAA-AATAAAATATTTTTAAATTATGTT
1 AAATAA-AAAATATTTTT-AA-TAAGTT
*
170760 -AATAAAAAATATATTTAATAAGTT
1 AAATAAAAAATATTTTTAATAAGTT
170784 AAATAAAAAATATTTTT
1 AAATAAAAAATATTTTT
170801 TTAAAAATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
24 5 0.09
25 17 0.29
26 12 0.21
27 15 0.26
28 4 0.07
29 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATAAAAAATATTTTTAATAAGTT
Found at i:170813 original size:25 final size:24
Alignment explanation
Indices: 170758--170813 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
170748 TTAAATTATG
*
170758 TTAATAAAAAATATATTTAATAAG
1 TTAATAAAAAATATATTTAATAAA
*
170782 TTAAATAAAAAATATTTTTTTAA-AAA
1 TT-AATAAAAAATA--TATTTAATAAA
170808 TTAATA
1 TTAATA
170814 TATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 2 0.07
25 15 0.56
26 4 0.15
27 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TTAATAAAAAATATATTTAATAAA
Found at i:175151 original size:2 final size:2
Alignment explanation
Indices: 175144--175168 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
175134 TTGTTAAAAT
175144 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 T
175169 TCTTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:180549 original size:68 final size:68
Alignment explanation
Indices: 180452--180656 Score: 410
Period size: 68 Copynumber: 3.0 Consensus size: 68
180442 TGATTGAGGT
180452 ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
1 ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
180517 GGA
66 GGA
180520 ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
1 ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
180585 GGA
66 GGA
180588 ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
1 ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
180653 GGA
66 GGA
180656 A
1 A
180657 GGAGTAGTTG
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 137 1.00
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (68 bp):
ATTAAATGAGTAGTTTACCTTAGAAATAAATATTATTTTAGTTGAATAAAGAATGAATTGATAGG
GGA
Found at i:188007 original size:104 final size:103
Alignment explanation
Indices: 187824--188042 Score: 384
Period size: 104 Copynumber: 2.1 Consensus size: 103
187814 GTCGAGGGTC
*
187824 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
187889 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
*
187927 TATGTGGTCCTTCGGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATA
1 TATGTGGTCCTTC-GGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATA
187992 CTTGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
65 CTTGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
188031 TATGTGGTCCTT
1 TATGTGGTCCTT
188043 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 12 0.11
104 98 0.89
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAAGAATGA
Found at i:188125 original size:23 final size:23
Alignment explanation
Indices: 188049--188126 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
188039 CCTTATGGAC
* *
188049 ATTATTATATGGCACTACAGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
188073 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
188096 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
188119 ATTATATG
1 ATTATATG
188127 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:189795 original size:2 final size:2
Alignment explanation
Indices: 189788--189848 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
189778 TGCATACTAC
189788 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
189830 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
189849 TGTTTTTTGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:190027 original size:15 final size:15
Alignment explanation
Indices: 190006--190059 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
189996 TATATTTCAT
190006 ACTATGTGATAT-TG
1 ACTATGTGATATATG
190020 ATCTATGTGATTATATG
1 A-CTATGTGA-TATATG
* *
190037 AATATGTGATATAAG
1 ACTATGTGATATATG
190052 -CTATGTGA
1 ACTATGTGA
190060 AATGTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.24
15 13 0.38
16 10 0.29
17 3 0.09
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (15 bp):
ACTATGTGATATATG
Found at i:190179 original size:23 final size:23
Alignment explanation
Indices: 190135--190257 Score: 108
Period size: 23 Copynumber: 5.3 Consensus size: 23
190125 GAGTCTAGGG
* *
190135 TTCTACGTGGTCCTTTGTGACAA
1 TTCTACGTGGTCCTTCGGGACAA
*
190158 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
* * *
190181 TTCTATGCGGTCTTTCGGGAC-A
1 TTCTACGTGGTCCTTCGGGACAA
* *
190203 TATCTATGTGGTCCTTCGGGACAT
1 T-TCTACGTGGTCCTTCGGGACAA
*
190227 TTCTATGTGG-CACTTCGGTG-CATA
1 TTCTACGTGGTC-CTTCGG-GACA-A
190251 TTCTACG
1 TTCTACG
190258 CGGCACTTCG
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
22 2 0.02
23 73 0.88
24 8 0.10
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.37
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:190291 original size:24 final size:24
Alignment explanation
Indices: 190201--190285 Score: 90
Period size: 23 Copynumber: 3.7 Consensus size: 24
190191 TCTTTCGGGA
190201 CATA-TCTATGTGGTC-CTTCGG-G
1 CATATTCTATGTGG-CACTTCGGTG
190223 ACAT-TTCTATGTGGCACTTCGGTG
1 -CATATTCTATGTGGCACTTCGGTG
* *
190247 CATATTCTACGCGGCACTTCGGTG
1 CATATTCTATGTGGCACTTCGGTG
*
190271 TA-ATTCTATGTGGCA
1 CATATTCTATGTGGCA
190286 GTTTCGACTA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 1 0.02
23 32 0.60
24 20 0.38
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (24 bp):
CATATTCTATGTGGCACTTCGGTG
Found at i:191435 original size:2 final size:2
Alignment explanation
Indices: 191428--191470 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
191418 GGACAACATG
191428 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
191470 T
1 T
191471 TTAAAGGAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:193484 original size:23 final size:23
Alignment explanation
Indices: 193457--193541 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
193447 GATTTATTAT
193457 TTATTAATTAGGATTTTAGTTTG
1 TTATTAATTAGGATTTTAGTTTG
193480 TTATTAATTAGGATTTTAGTTTG
1 TTATTAATTAGGATTTTAGTTTG
* * *
193503 TTATTATTTAAGATTCTAGTTTG
1 TTATTAATTAGGATTTTAGTTTG
* *
193526 CTATTAATTAGAATTT
1 TTATTAATTAGGATTT
193542 GTATTTGAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.55
Consensus pattern (23 bp):
TTATTAATTAGGATTTTAGTTTG
Found at i:194818 original size:23 final size:23
Alignment explanation
Indices: 194792--194860 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
194782 CACCACAGCT
* *
194792 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
194815 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
194838 CGTAGAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
194861 TATAATAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:195047 original size:103 final size:103
Alignment explanation
Indices: 194876--195088 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
194866 TAATGTCCAT
* * *
194876 AAGGACCACATATCATTCCTTAAGGATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
194941 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
194979 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
195044 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
195082 AAGGACC
1 AAGGACC
195089 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:198111 original size:23 final size:23
Alignment explanation
Indices: 198085--198148 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
198075 CGAAGAAAAA
*
198085 CGTGCTATAAAGGTATAAGAAAT
1 CGTGTTATAAAGGTATAAGAAAT
198108 CGTGTTATAAAGGTATAAGAAAT
1 CGTGTTATAAAGGTATAAGAAAT
* *
198131 CGTGTTATGAAGATATAA
1 CGTGTTATAAAGGTATAA
198149 TTATTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.30
Consensus pattern (23 bp):
CGTGTTATAAAGGTATAAGAAAT
Found at i:198607 original size:23 final size:23
Alignment explanation
Indices: 198572--198619 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
198562 ATCAAGTACA
*
198572 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
198595 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
198618 AT
1 AT
198620 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:199277 original size:162 final size:164
Alignment explanation
Indices: 199075--199412 Score: 551
Period size: 162 Copynumber: 2.1 Consensus size: 164
199065 CATTTCGAGA
** *
199075 CTGATTTTGTCATATTTTTTTTCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAA
1 CTGATTTTGTCATATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGCATCAA
*
199140 CACTTTATT-GACGCTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAG
66 CACTTTATTAG-CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAG
* *
199204 TATCGACACT-TCCAACATATCTGGTAGCTCTTTAT
130 TATCGACACTAT-CAACATATCTGGTAGCGCTTTAC
*
199239 C-GATTTTGTCATA-TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGCATCGA
1 CTGATTTTGTCATATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGCATCAA
*
199302 CACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTTCAAAAGTGTCGATACTTATAATAAAGT
66 CACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGT
199367 ATCGACACTATCAACATATCTGGTAGCGCTTTAC
131 ATCGACACTATCAACATATCTGGTAGCGCTTTAC
199401 CTG-TTTTGTCAT
1 CTGATTTTGTCAT
199413 TTATAGACCG
Statistics
Matches: 163, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
162 147 0.90
163 15 0.09
164 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (164 bp):
CTGATTTTGTCATATTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGCATCAA
CACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAGT
ATCGACACTATCAACATATCTGGTAGCGCTTTAC
Found at i:199608 original size:112 final size:112
Alignment explanation
Indices: 199360--199821 Score: 721
Period size: 112 Copynumber: 4.1 Consensus size: 112
199350 GATACTTATA
* *
199360 ATAAAGTATCGACACTATCAACATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* *
199425 TTTGTCA-TTTTTTACATGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATAGATAGATACATTTTT
* * * * *
199471 ATAAAATATCAACACTTTCAATATATCAGATAGCGCTTTACCTGTTTTGTCATTTATAGATCGAT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
*
199536 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATAGATACATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATAGATAGATACATTTTT
* * *
199583 ATAAAGTATCGTCACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * *
199648 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATATATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATAGATAGATACATTTTT
*
199695 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * *
199760 TTTGTTATTTTTTTACATGTTATATTGTTATGGATCA-ATATATTTTT
66 TTTGTCATTTTTTTACATGTTATATTGTTATAGAT-AGATACATTTTT
199807 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
199822 AAACCGATAA
Statistics
Matches: 324, Mismatches: 25, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
111 65 0.20
112 259 0.80
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTACATGTTATATTGTTATAGATAGATACATTTTT
Found at i:202506 original size:43 final size:43
Alignment explanation
Indices: 202458--202539 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
202448 ATCTGTGAAG
*
202458 GAATTGGAATCCAATTCCATATTCTGTTTGGTTGGCAGAAATT
1 GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGAAATT
* *
202501 GAATTGGAATTCAATTCCATATTTTGTTTGGTTCGCAGA
1 GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGA
202540 CATGTCAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (43 bp):
GAATTGGAATCCAATTCCATATTCTGTTTGGTTCGCAGAAATT
Found at i:203373 original size:266 final size:255
Alignment explanation
Indices: 202845--203402 Score: 714
Period size: 266 Copynumber: 2.1 Consensus size: 255
202835 GACCCGACTT
* * * *
202845 GACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGACCAGGC
1 GACCCAACCAAAATAAAGTTTCACCCGAACCGACCCGAATAAATGAATTAGAAACCCGACCAGAC
* *
202910 CCGAAATAATAAAAAAATATTTTTATTCAATAAAAACATTGACTTAATTGAAATATATATATATA
66 CCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAATATATATATA
*
202975 GAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGGTC
131 GAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTT--GTCGGGT-
*
203040 GAGCCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAAATAGACC
193 ---CCGGGTATTTTTCACCCTAAACCCGAACCCGACCAGAATATCACACTTAAAAAAAATAGACC
203105 C
255 C
* *
203106 GACCCAACCAAAATAAAGTTTCA-TCGAACTGACCCGAATAAATGAATTAGAAATCTGACCCGAC
1 GACCCAACCAAAATAAAGTTTCACCCGAACCGACCCGAATAAATGAATTAG-AA----ACCCGAC
* *
203170 CCGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAGCAGTGACTTAATTGGAAAAAT-T
61 CAGACCCGAAATAATAAAAAAA-TATTTTTATTCAATAAAAACAGTGACTTAATT-GAAAAATAT
* * *
203234 ATATATATAGGGGTATTATTGTAATTATTCCTAAATATATAAGTTAAAATTATATA-TATTT-TC
124 ATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTC
203297 GGGT-CGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCAGAATATCACACTT-AAAAAAA
189 GGGTCCGGGTATTTTTCACCCTAAACCCG-A----ACCCGACCAGAATATCACACTTAAAAAAAA
** *
203360 CCGACCT
249 TAGACCC
* * * *
203367 GACCCGATCAAAATAAAGTTTCACTCGACCCGACCC
1 GACCCAACCAAAATAAAGTTTCACCCGAACCGACCC
203403 AAAATAATAA
Statistics
Matches: 262, Mismatches: 22, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
257 24 0.09
258 1 0.00
260 23 0.09
261 56 0.21
262 37 0.14
265 31 0.12
266 84 0.32
267 6 0.02
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.27
Consensus pattern (255 bp):
GACCCAACCAAAATAAAGTTTCACCCGAACCGACCCGAATAAATGAATTAGAAACCCGACCAGAC
CCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAATATATATATA
GAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTCGGGTCCG
GGTATTTTTCACCCTAAACCCGAACCCGACCAGAATATCACACTTAAAAAAAATAGACCC
Found at i:205597 original size:3 final size:3
Alignment explanation
Indices: 205549--205589 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
205539 ATATATAATA
* *
205549 TAT TAT TAT TAC TAT TAT TAC TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
205590 AATTATTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:205689 original size:19 final size:19
Alignment explanation
Indices: 205661--205705 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
205651 AACCCAATCC
*
205661 ACAACTCGGTTCAGGCCCA
1 ACAACCCGGTTCAGGCCCA
205680 ACAACCCGGTTCAGGCCCA
1 ACAACCCGGTTCAGGCCCA
*
205699 ATAACCC
1 ACAACCC
205706 AGCAGGCCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.29, C:0.40, G:0.18, T:0.13
Consensus pattern (19 bp):
ACAACCCGGTTCAGGCCCA
Found at i:205713 original size:17 final size:18
Alignment explanation
Indices: 205671--205714 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
205661 ACAACTCGGT
*
205671 TCAGGCCCAACAACCCGG
1 TCAGGCCCAACAACCCAG
*
205689 TTCAGGCCCAATAACCCAG
1 -TCAGGCCCAACAACCCAG
205708 -CAGGCCC
1 TCAGGCCC
205715 GAGAAGGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
19 16 0.70
ACGTcount: A:0.27, C:0.43, G:0.20, T:0.09
Consensus pattern (18 bp):
TCAGGCCCAACAACCCAG
Found at i:207880 original size:21 final size:20
Alignment explanation
Indices: 207794--207950 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
207784 AAATGACCAA
**
207794 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
207813 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
207833 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
207853 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
207874 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
207894 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
207914 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
207935 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
207951 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:207903 original size:41 final size:41
Alignment explanation
Indices: 207794--207950 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
207784 AAATGACCAA
* **
207794 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
207833 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
207874 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
207915 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
207951 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:207960 original size:20 final size:20
Alignment explanation
Indices: 207937--208110 Score: 109
Period size: 20 Copynumber: 8.7 Consensus size: 20
207927 GCGAATATGA
207937 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
207957 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
207977 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
207997 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
208017 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * * **
208037 ATATCGCAACGTGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
208057 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
208077 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
208098 AAATCGCAACGCG
1 AAATCGCAACGCG
208111 ATATTTAAAG
Statistics
Matches: 125, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
19 2 0.02
20 106 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:207981 original size:40 final size:39
Alignment explanation
Indices: 207917--208111 Score: 174
Period size: 40 Copynumber: 4.9 Consensus size: 39
207907 CGATTTTCCA
* ** *
207917 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
207957 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
207997 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * * ** *
208037 ATATCGCAACGTGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
208077 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
208112 TATTTAAAGC
Statistics
Matches: 125, Mismatches: 27, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 93 0.74
41 31 0.25
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:208002 original size:60 final size:60
Alignment explanation
Indices: 207937--208108 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
207927 GCGAATATGA
*
207937 AAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
* *** * *
207997 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGTGTATCGGT
1 AAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
** *
208057 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACG
1 AAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGTAAATCGCAACG
208109 CGATATTTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 67 0.70
61 29 0.30
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:208532 original size:33 final size:33
Alignment explanation
Indices: 208493--208563 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
208483 TTCACTTAGA
208493 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
208526 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
208559 TTTCA
1 TTTCA
208564 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:208687 original size:20 final size:19
Alignment explanation
Indices: 208645--208746 Score: 88
Period size: 19 Copynumber: 5.5 Consensus size: 19
208635 CAAAAGAGTT
*
208645 GCAACGAGATAAATGAAAATC
1 GCAACGAG--AAATGACAATC
**
208666 GCAACGAGAGAATGACTGTC
1 GCAACGAGA-AATGACAATC
*
208686 GCAACGCGAAATGACAATC
1 GCAACGAGAAATGACAATC
208705 GCAACGAG--AT---AATC
1 GCAACGAGAAATGACAATC
* *
208719 GCAACGCGAAATGAAAATC
1 GCAACGAGAAATGACAATC
208738 GCAACGAGA
1 GCAACGAGA
208747 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
14 11 0.17
16 2 0.03
17 2 0.03
19 28 0.42
20 15 0.23
21 8 0.12
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
GCAACGAGAAATGACAATC
Found at i:208720 original size:14 final size:14
Alignment explanation
Indices: 208701--208762 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
208691 GCGAAATGAC
*
208701 AATCGCAACGAGAT
1 AATCGCAACGAGAA
208715 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAA
*
208734 AATCGCAACGAGAG
1 AATCGCAACGAGAA
*
208748 AATCGCAACGCGAA
1 AATCGCAACGAGAA
208762 A
1 A
208763 CCAAAATCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 23 0.59
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAA
Found at i:208726 original size:33 final size:33
Alignment explanation
Indices: 208655--208773 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
208645 GCAACGAGAT
208655 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
* *
208694 AAATGACAATCGCAACGAGATAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
208727 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
208760 AAACCAAAATCGCA
1 AAATGAAAATCGCA
208774 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
33 53 0.72
36 1 0.01
38 1 0.01
39 19 0.26
ACGTcount: A:0.45, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:208810 original size:14 final size:14
Alignment explanation
Indices: 208791--208880 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
208781 TTTTATTTCG
208791 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
208805 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
208824 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
208838 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
208857 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
208871 CGTTGCGATT
1 CGTTGCGATT
208881 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:208816 original size:33 final size:33
Alignment explanation
Indices: 208774--208888 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
208764 CAAAATCGCA
*
208774 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
208807 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
208840 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
208873 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
208889 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:208829 original size:19 final size:19
Alignment explanation
Indices: 208769--208866 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
208759 GAAACCAAAA
* *
208769 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
208788 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
208802 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
208821 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
208835 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
208854 TCGCGTTGCGATT
1 TCGCGTTGCGATT
208867 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:210743 original size:93 final size:93
Alignment explanation
Indices: 210584--211052 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
210574 TAGATTGCTT
*
210584 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
210649 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
210677 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
210742 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
210770 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
210835 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
210863 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
210928 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
210956 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
211021 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
211048 AGTAA
1 AGTAA
211053 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:211125 original size:20 final size:19
Alignment explanation
Indices: 211100--211227 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
211090 TAGTTTACTT
* *
211100 TCGCAACACGAAAGTTAAAA
1 TCGCAACGCGAAA-TCAAAA
*
211120 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATCAAAA
*
211138 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
211157 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
*
211171 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
*
211190 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAATCAAAA
*
211204 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
211223 TCGCA
1 TCGCA
211228 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
14 19 0.22
15 2 0.02
16 4 0.05
17 4 0.05
18 18 0.21
19 28 0.32
20 12 0.14
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:211159 original size:19 final size:18
Alignment explanation
Indices: 211116--211227 Score: 105
Period size: 19 Copynumber: 6.5 Consensus size: 18
211106 CACGAAAGTT
211116 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
* *
211134 CAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAA-C
211153 AAAATCGCAA--CG--AC
1 AAAATCGCAACGCGAAAC
*
211167 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
211186 AAAATCGCAA--CG--AC
1 AAAATCGCAACGCGAAAC
*
211200 AAGATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAA-C
211219 AAAATCGCA
1 AAAATCGCA
211228 TTGCGATTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 4 0.05
18 18 0.24
19 28 0.37
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAATCGCAACGCGAAAC
Found at i:211178 original size:33 final size:32
Alignment explanation
Indices: 211134--211227 Score: 152
Period size: 33 Copynumber: 2.9 Consensus size: 32
211124 AACGCGAAAC
**
211134 CAAATCGCAACGCGAAATGAAAATCGCAACGA
1 CAAATCGCAACGCGAAACCAAAATCGCAACGA
211166 CAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 CA-AATCGCAACGCGAAACCAAAATCGCAACGA
211199 CAAGATCGCAACGCGAAACCAAAATCGCA
1 CAA-ATCGCAACGCGAAACCAAAATCGCA
211228 TTGCGATTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.05
33 55 0.95
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.07
Consensus pattern (32 bp):
CAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:211245 original size:19 final size:19
Alignment explanation
Indices: 211223--211341 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
211213 GAAACCAAAA
211223 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
211242 TCGCGTTGCGA--TTC-TT
1 TCGCATTGCGATTTTCATT
211258 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
211275 TCGCATTGCGA--TTC-TG
1 TCGCATTGCGATTTTCATT
211291 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
**
211308 TCGCATTGCGATTTTGGTT
1 TCGCATTGCGATTTTCATT
*
211327 TCGCGTTGCGATTTT
1 TCGCATTGCGATTTT
211342 AAGTTTCGTG
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
14 12 0.14
16 15 0.18
17 15 0.18
19 42 0.50
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:211264 original size:14 final size:14
Alignment explanation
Indices: 211245--211301 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
211235 TTTCATTTCG
211245 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
211259 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
211276 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
211292 CGTTGCGATT
1 CGTTGCGATT
211302 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:211270 original size:33 final size:33
Alignment explanation
Indices: 211228--211320 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
211218 CAAAATCGCA
* *
211228 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
211261 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
211294 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
211321 TTGGTTTCGC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.20, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
Found at i:211349 original size:20 final size:19
Alignment explanation
Indices: 211292--211357 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
211282 GCGATTCTGT
211292 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
* *
211311 CATTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
211330 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
211350 TGTTGCGA
1 CGTTGCGA
211358 AAGTAAACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.12, C:0.17, G:0.26, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Done.