Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006425.1 Hibiscus syriacus cultivar Beakdansim tig00015501_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: 88895
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4778 original size:39 final size:40
Alignment explanation
Indices: 4692--4778 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
4682 TATTAGTGAA
*
4692 AAATAATTTAAGAAATTAAGAATTTAGAATGTTATGGTAG
1 AAATAATTTAAGAAATTAAGAATTTAGAAAGTTATGGTAG
* * * *
4732 CAA-AATTTAATAAATTAGGAATTTTGAAAGTTA-GAGT-G
1 AAATAATTTAAGAAATTAAGAATTTAGAAAGTTATG-GTAG
4770 AAATAATTT
1 AAATAATTT
4779 GAAAAATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 4 0.10
39 33 0.85
40 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.16, T:0.36
Consensus pattern (40 bp):
AAATAATTTAAGAAATTAAGAATTTAGAAAGTTATGGTAG
Found at i:4819 original size:17 final size:17
Alignment explanation
Indices: 4784--4827 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4774 AATTTGAAAA
*
4784 ATAAATAAAAAATTAAT
1 ATAAATAAAAAAATAAT
4801 ATAAATAAAAATAATATAT
1 ATAAATAAAAA-AATA-AT
*
4820 ATATATAA
1 ATAAATAA
4828 TAAATTGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 3 0.13
19 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAATAAAAAAATAAT
Found at i:6008 original size:20 final size:20
Alignment explanation
Indices: 5983--6031 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
5973 AGAAACCTTT
5983 AGAAGATGTAAATTCCAAGG
1 AGAAGATGTAAATTCCAAGG
6003 AGAAGATGTAAATTCCAAGG
1 AGAAGATGTAAATTCCAAGG
*
6023 AGAGGATGT
1 AGAAGATGT
6032 GTGAAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.29, T:0.20
Consensus pattern (20 bp):
AGAAGATGTAAATTCCAAGG
Found at i:6860 original size:27 final size:27
Alignment explanation
Indices: 6818--6874 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
6808 AGCTAAGTTC
*
6818 AGGACTAAGGGAAGCTGGAGGTAGCTG
1 AGGACTAAGGGAAGCTAGAGGTAGCTG
*
6845 AGGACTAAGGGCAGCTAGAGGTAGCTG
1 AGGACTAAGGGAAGCTAGAGGTAGCTG
6872 AGG
1 AGG
6875 TGGAAGCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.44, T:0.14
Consensus pattern (27 bp):
AGGACTAAGGGAAGCTAGAGGTAGCTG
Found at i:6926 original size:23 final size:23
Alignment explanation
Indices: 6900--6952 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
6890 TGGAGTGTAA
6900 CTAGCTAGCTATCTTGTGTTTAC
1 CTAGCTAGCTATCTTGTGTTTAC
6923 CTAGCTAGCTATCTTGTGTTTAC
1 CTAGCTAGCTATCTTGTGTTTAC
6946 CTAGCTA
1 CTAGCTA
6953 ATACTCACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (23 bp):
CTAGCTAGCTATCTTGTGTTTAC
Found at i:8475 original size:24 final size:25
Alignment explanation
Indices: 8433--8496 Score: 103
Period size: 24 Copynumber: 2.6 Consensus size: 25
8423 AATTTGACTT
8433 GACTCGACTCAAAATTTATAAAACC
1 GACTCGACTCAAAATTTATAAAACC
*
8458 GACTCGACT-AAAATTTATAAAATC
1 GACTCGACTCAAAATTTATAAAACC
8482 GACTCGACTCGAAAA
1 GACTCGACTC-AAAA
8497 AAAATTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
24 23 0.64
25 9 0.25
26 4 0.11
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.23
Consensus pattern (25 bp):
GACTCGACTCAAAATTTATAAAACC
Found at i:10726 original size:62 final size:63
Alignment explanation
Indices: 10603--10734 Score: 144
Period size: 62 Copynumber: 2.1 Consensus size: 63
10593 CATTTTGTAT
* * *
10603 ATGCACAGCCATGCATCGATGCACTCTTGATTTTATTGAAACATCGAATGCATTTTATGTACCG
1 ATGCACAGCCATGCATCGATGCAC-CTGGATCTTATTGAAACATCGAATGCATATTATGTACCG
* * * * *
10667 ATGCATAGACCATGCATCGATGCA-CTGGCTCTT-TTGAAACATTGAATGTA-ATTAGTGTACTG
1 ATGCACAG-CCATGCATCGATGCACCTGGATCTTATTGAAACATCGAATGCATATTA-TGTACCG
10729 ATGCAC
1 ATGCAC
10735 CCCTAGTGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
61 3 0.05
62 26 0.46
63 6 0.11
64 7 0.12
65 15 0.26
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCACAGCCATGCATCGATGCACCTGGATCTTATTGAAACATCGAATGCATATTATGTACCG
Found at i:16573 original size:44 final size:44
Alignment explanation
Indices: 16491--16594 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 44
16481 TGTGCACTAT
* * *
16491 GCATCGATACACTATGAAAGTGTATCGATGCATTCCTTGAATAC
1 GCATCGATACACTATGAAAGTGCACCGATGCATACCTTGAATAC
* * * * **
16535 GCATTGATACACTTTGAAGGTGCACCGATTCATACCTTGAATGT
1 GCATCGATACACTATGAAAGTGCACCGATGCATACCTTGAATAC
*
16579 ACATCGATACACTATG
1 GCATCGATACACTATG
16595 CAGTGCATCG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
GCATCGATACACTATGAAAGTGCACCGATGCATACCTTGAATAC
Found at i:20370 original size:20 final size:20
Alignment explanation
Indices: 20345--20394 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
20335 TAAGCCATTC
20345 AGTATCAATATTGACCTC-T
1 AGTATCAATATTGACCTCAT
* *
20364 GAGTATCGATATTGGCCTCAT
1 -AGTATCAATATTGACCTCAT
20385 AGTATCAATA
1 AGTATCAATA
20395 CTAACTGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
AGTATCAATATTGACCTCAT
Found at i:30412 original size:14 final size:14
Alignment explanation
Indices: 30393--30427 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
30383 GCCTGATCTG
30393 AACCCGATCTGTTT
1 AACCCGATCTGTTT
30407 AACCCGATCTGTTT
1 AACCCGATCTGTTT
30421 AACCCGA
1 AACCCGA
30428 ATCGAGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (14 bp):
AACCCGATCTGTTT
Found at i:30499 original size:19 final size:19
Alignment explanation
Indices: 30477--30520 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
30467 GTCTGACCTA
30477 TTGACCTCA-ACCTGAACCG
1 TTGACCTCAGACCT-AACCG
*
30496 TTGA-CTTAGACCTAACCG
1 TTGACCTCAGACCTAACCG
30514 TTGACCT
1 TTGACCT
30521 GTCTGTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (19 bp):
TTGACCTCAGACCTAACCG
Found at i:30554 original size:18 final size:18
Alignment explanation
Indices: 30510--30559 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
30500 CTTAGACCTA
*
30510 ACCGTTGACCTGTCTGTTG
1 ACCGTTGACCTG-CCGTTG
* *
30529 GCCATTGACCTGCCGTTG
1 ACCGTTGACCTGCCGTTG
30547 ACCGTTGACCTGC
1 ACCGTTGACCTGC
30560 TCATTGACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.12, C:0.32, G:0.26, T:0.30
Consensus pattern (18 bp):
ACCGTTGACCTGCCGTTG
Found at i:30573 original size:18 final size:18
Alignment explanation
Indices: 30510--30567 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
30500 CTTAGACCTA
**
30510 ACCGTTGACCTGTCTGTTG
1 ACCGTTGACCTG-CCATTG
* * *
30529 GCCATTGACCTGCCGTTG
1 ACCGTTGACCTGCCATTG
30547 ACCGTTGACCTGCTCATTG
1 ACCGTTGACCTGC-CATTG
30566 AC
1 AC
30568 TTTGACTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.14, C:0.31, G:0.24, T:0.31
Consensus pattern (18 bp):
ACCGTTGACCTGCCATTG
Found at i:33097 original size:2 final size:2
Alignment explanation
Indices: 33090--33139 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
33080 CCTTATGCTT
33090 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
33132 TA TA TA TA
1 TA TA TA TA
33140 ATTTGTACAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37109 original size:18 final size:18
Alignment explanation
Indices: 37073--37111 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37063 TAATTAGAGG
*
37073 ATTTTTTTATTAATTTAA
1 ATTTTTTTATTAATATAA
37091 ATTTATTTTATTAA-ATAA
1 ATTT-TTTTATTAATATAA
37109 ATT
1 ATT
37112 CTTCTATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTTTATTAATATAA
Found at i:40809 original size:23 final size:23
Alignment explanation
Indices: 40774--40830 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
40764 ACATTATTTT
40774 TAATT-AAAAATTTATCAAATGA
1 TAATTAAAAAATTTATCAAATGA
40796 TAATTAAAAAATTTATCAAATGA
1 TAATTAAAAAATTTATCAAATGA
40819 TAATTAAAAAAT
1 TAATTAAAAAAT
40831 GTGTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATTAAAAAATTTATCAAATGA
Found at i:44923 original size:9 final size:9
Alignment explanation
Indices: 44912--45013 Score: 99
Period size: 8 Copynumber: 11.8 Consensus size: 9
44902 CCCTGATTTT
*
44912 ATAATATTT
1 ATAATATTA
44921 ATAATA-TA
1 ATAATATTA
*
44929 ACAATATTA
1 ATAATATTA
44938 AT-ATA-TA
1 ATAATATTA
*
44945 ATAATAATA
1 ATAATATTA
* *
44954 GT-ATAGTA
1 ATAATATTA
44962 AT-ATATTA
1 ATAATATTA
44970 ATAATA-TA
1 ATAATATTA
44978 ATAATATTA
1 ATAATATTA
44987 ATAATATTA
1 ATAATATTA
44996 ATAATAATATA
1 ATAAT-AT-TA
45007 ATAATAT
1 ATAATAT
45014 CAACTTGGAC
Statistics
Matches: 79, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
7 4 0.05
8 33 0.42
9 31 0.39
10 4 0.05
11 7 0.09
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (9 bp):
ATAATATTA
Found at i:44950 original size:3 final size:3
Alignment explanation
Indices: 44921--45012 Score: 77
Period size: 3 Copynumber: 32.0 Consensus size: 3
44911 TATAATATTT
* * * *
44921 ATA AT- ATA ACA ATA TTA ATA TATA ATA ATA ATA GT- ATA GTA AT-
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
44964 ATA TTA ATA AT- ATA ATA ATA TTA ATA ATA TTA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45010 ATA
1 ATA
45013 TCAACTTGGA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
2 9 0.13
3 57 0.83
4 3 0.04
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:46578 original size:96 final size:96
Alignment explanation
Indices: 46421--46609 Score: 378
Period size: 96 Copynumber: 2.0 Consensus size: 96
46411 GGTAATTATA
46421 ATATATATATATATATATACACACACACACACACAATAAAGTTGAATTCAGCTAGCCAAACAATG
1 ATATATATATATATATATACACACACACACACACAATAAAGTTGAATTCAGCTAGCCAAACAATG
46486 GCAAATTAAATCAAATTTATCTAAATAATAT
66 GCAAATTAAATCAAATTTATCTAAATAATAT
46517 ATATATATATATATATATACACACACACACACACAATAAAGTTGAATTCAGCTAGCCAAACAATG
1 ATATATATATATATATATACACACACACACACACAATAAAGTTGAATTCAGCTAGCCAAACAATG
46582 GCAAATTAAATCAAATTTATCTAAATAA
66 GCAAATTAAATCAAATTTATCTAAATAA
46610 GGAGTTTCGG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (96 bp):
ATATATATATATATATATACACACACACACACACAATAAAGTTGAATTCAGCTAGCCAAACAATG
GCAAATTAAATCAAATTTATCTAAATAATAT
Found at i:48780 original size:238 final size:237
Alignment explanation
Indices: 48361--49137 Score: 1153
Period size: 238 Copynumber: 3.3 Consensus size: 237
48351 ACAATTTCCA
*
48361 AAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
1 AAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
* ** * * * * * *
48426 GTCTTTTGGGCCAACCATAAGAGCTTCGAGCAGGACGTTTTTAGTGATTTTCAAAAAAAGAGAAA
66 GTCATTCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAGTGATTTTCAAAAAATGAGAAA
* *
48491 GCAATTTCCAAAGTTTCTCATTTAAATCTTTTTTGAAAATGAAATTTTTGAAAAGTAAGAAAGTG
131 GCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAATGAAATTTTTGAAAAGTAAGAAAGTG
48556 ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGCCCATCAGT
196 ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGG-CCATCAGT
*
48599 AAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATCTATAAGTCTTTCGAGCAAGATGATAA
1 AAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
*
48664 GTCCTTCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAGTGATTTTCAAAAAATGAGAAA
66 GTCATTCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAGTGATTTTCAAAAAATGAGAAA
* * * * * *
48729 GCGATTTTCAAAATTTCTCATTCAAATCTTTTCTGAAAATGAAAATTTTGAAAAGTAAGAAAGCG
131 GCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAATGAAATTTTTGAAAAGTAAGAAAGTG
* * *
48794 ATTTCTAAAGTTTCGTACTTAGTAAGTCCTTCGGGCCATCAAT
196 ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTC-GGCCATCAGT
* * * *
48837 AAGTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTATAAGCCTTTTGAGCAAGATGATAA
1 AAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
* **
48902 GTCATTCAGCCCATCCATAAGACCCTT-GGGCATAATGTTTTCAGTGATTTTCAAAAAATGAGAA
66 GTCATTCAGGCCATCCATAAGA-CCTTCGGGCAGGATGTTTTCAGTGATTTTCAAAAAATGAGAA
48966 AGCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAAATGAAATTTTTG-AAAGTAAGAAAG
130 AGCGATTTCCAAAGTTTCTCATTTAAATCTTTTATG-AAAATGAAATTTTTGAAAAGTAAGAAAG
* * **
49030 TGATTTTCAAGGTTTCTTACTTAGTAAGTCCTTTAAGCCATCAGT
194 TGATTTCCAAAGTTTCTTACTTAGTAAGTCC-TTCGGCCATCAGT
* * * *
49075 AAGCCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTGTAAGTCTTTCGAACAAGATGAT
1 AAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGAT
49138 TCGGGTATGA
Statistics
Matches: 484, Mismatches: 51, Indels: 8
0.89 0.09 0.01
Matches are distributed among these distances:
238 462 0.95
239 22 0.05
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (237 bp):
AAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAA
GTCATTCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAGTGATTTTCAAAAAATGAGAAA
GCGATTTCCAAAGTTTCTCATTTAAATCTTTTATGAAAATGAAATTTTTGAAAAGTAAGAAAGTG
ATTTCCAAAGTTTCTTACTTAGTAAGTCCTTCGGCCATCAGT
Found at i:48887 original size:42 final size:42
Alignment explanation
Indices: 48820--48899 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
48810 ACTTAGTAAG
* *
48820 TCCTTCGGGCCATCAATAAGTCTTTTGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAATAAGCCTTTTGAGCAAGATGATTAAA
* * *
48862 TCCTTTGGGTCATCTATAAGCCTTTTGAGCAAGATGAT
1 TCCTTCGGGCCATCAATAAGCCTTTTGAGCAAGATGAT
48900 AAGTCATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (42 bp):
TCCTTCGGGCCATCAATAAGCCTTTTGAGCAAGATGATTAAA
Found at i:49305 original size:213 final size:211
Alignment explanation
Indices: 48936--49350 Score: 647
Period size: 213 Copynumber: 2.0 Consensus size: 211
48926 CTTGGGCATA
*
48936 ATGTTTTCAGTGATTTTCAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAAATCTTTTAT
1 ATGTTTTCAGTGATTTTCAAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTAT
* * *
49001 GAAAAATGAAATTTTTGAAAGTAAGAAAGTGATTTTCAAGGTTTCTTACTTAGTAAGTCCTTTAA
66 GAAAAATGAAATTTTTGAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATTTAA
* * *
49066 GCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCAGGTCA-TCTGTAAGTCTTTCGAAC
131 GCCATCAGTAAGCCTTCCGAGCATGATGATTAAATCATTCAGGTCATTC-ATAAGTCTTTCGAAC
49130 AAGATGATTCGGGTATG
195 AAGATGATTCGGGTATG
49147 ATGTTTTCAGTGATTTTCAAAAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTT
1 ATGTTTTCAGTGATTTTC--AAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTT
*
49212 CTG-AAAATGAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATT
64 ATGAAAAATGAAATTTTTG-AAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATT
* * *
49276 T-GGACCATCAGTAAGCCTTCCGTGCATGATGATTAAATCATTCGGGTCATTCATAAGTCTTTCG
128 TAAG-CCATCAGTAAGCCTTCCGAGCATGATGATTAAATCATTCAGGTCATTCATAAGTCTTTCG
**
49340 AGTAAGATGAT
192 AACAAGATGAT
49351 AAGTCCTTCG
Statistics
Matches: 186, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
211 18 0.10
212 16 0.09
213 150 0.81
214 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (211 bp):
ATGTTTTCAGTGATTTTCAAAAAATGAGAAAGCAATTTCCAAAGTTTCTCATTTAAATCTTTTAT
GAAAAATGAAATTTTTGAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTTAGTAAGTCATTTAA
GCCATCAGTAAGCCTTCCGAGCATGATGATTAAATCATTCAGGTCATTCATAAGTCTTTCGAACA
AGATGATTCGGGTATG
Found at i:49722 original size:257 final size:257
Alignment explanation
Indices: 49299--49781 Score: 745
Period size: 257 Copynumber: 1.9 Consensus size: 257
49289 AGCCTTCCGT
*
49299 GCATGATGATTAAATCATTCGGGTCATTCATAAGTCTTTCGAGTAAGATGATAAGTCCTTCGGGC
1 GCATGATGATTAAATCATTCGGGTCATTCATAAGTCTTTCGAGTAAGATGATAAGTCATTCGGGC
* * * * **
49364 CATCCGTAAGACCTTCGGGTATGATGTTTTCACATGAATTTGAAAAATGGGATAGTGATTTTCAA
66 CATCCGTAAGACCTTCGGGTAGGAGGTTTTCACATAAATTTGAAAAATGGGAAAACGATTTTCAA
* *
49429 AGTTTCCCATTTAATATTTTCAGAAAATGAAATTTTTGAAGAGTAATAAAGTGATTTCCAAAGTT
131 AGTTTCCCATTTAATATTTTCAGAAAATGAAATTTTTGAAGAGTAAGAAAGCGATTTCCAAAGTT
* *
49494 TCTTACCCAGTAAACTAATTT-TAAAATTGGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAA
196 TCTTACCCAATAAACT-ATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAA
* * * *
49556 GCATGATGATTAAATCCTTCGGGTCA-TCTGTAAGTCTTTCGATTGAGATGATAAGTCATTCGGG
1 GCATGATGATTAAATCATTCGGGTCATTC-ATAAGTCTTTCGAGTAAGATGATAAGTCATTCGGG
* *
49620 TCATCCGTAAGACCTTCGGGTAGGAGGTTTTCACATAAATTTGAAAAATGGGAAAACGATTTTCT
65 CCATCCGTAAGACCTTCGGGTAGGAGGTTTTCACATAAATTTGAAAAATGGGAAAACGATTTTCA
** *
49685 AAGTTTTTCATTTAATATTTTCAGAAAATGAAATTTTTGAGGAGTAAGAAAGCGATTTCCAAAGT
130 AAGTTTCCCATTTAATATTTTCAGAAAATGAAATTTTTGAAGAGTAAGAAAGCGATTTCCAAAGT
*
49750 TTCTTACCTAATAAACTATTTCCAAAATTGGT
195 TTCTTACCCAATAAACTATTTCCAAAATTGGT
49782 CTGACATCTA
Statistics
Matches: 203, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
256 6 0.03
257 197 0.97
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (257 bp):
GCATGATGATTAAATCATTCGGGTCATTCATAAGTCTTTCGAGTAAGATGATAAGTCATTCGGGC
CATCCGTAAGACCTTCGGGTAGGAGGTTTTCACATAAATTTGAAAAATGGGAAAACGATTTTCAA
AGTTTCCCATTTAATATTTTCAGAAAATGAAATTTTTGAAGAGTAAGAAAGCGATTTCCAAAGTT
TCTTACCCAATAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAA
Found at i:51459 original size:227 final size:226
Alignment explanation
Indices: 51030--51476 Score: 747
Period size: 227 Copynumber: 2.0 Consensus size: 226
51020 GTAAATTATC
* * *
51030 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
* **
51095 TAATATTGTTAAATAATAAGTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATAATAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TAAT
51160 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTG
51225 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
51258 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
51323 TTAATATTGTTAAAT-TTAAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-AA
65 TTAATATTGTTAAATAATAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAA
*
51386 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-T
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATT
51450 TGAAACATAAATTACATAACTTTAAAA
193 TGAAACATAAATTACATAACTTTAAAA
51477 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
226 4 0.02
227 82 0.40
228 43 0.21
229 78 0.38
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATAATAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAATT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:51575 original size:20 final size:19
Alignment explanation
Indices: 51552--51597 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
51542 CGATATACCA
51552 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
51572 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
51592 GGTAAA
1 GGTAAA
51598 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:54092 original size:32 final size:32
Alignment explanation
Indices: 54051--54111 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
54041 AGATGGAGTG
*
54051 GTGAAAGAAGTAGAGGTGTTGAGGGGTGAAGT
1 GTGAAAGAAGTAGAGGTGTTAAGGGGTGAAGT
***
54083 GTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 GTGAAAGAAGTAGAGGTGTTAAGGGGTGA
54112 TATTAAGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.25
Consensus pattern (32 bp):
GTGAAAGAAGTAGAGGTGTTAAGGGGTGAAGT
Found at i:55925 original size:19 final size:19
Alignment explanation
Indices: 55881--55924 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
55871 AATGTCGAGT
55881 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
55900 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
55919 T-ATTTT
1 TAATTTT
55925 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:56371 original size:198 final size:199
Alignment explanation
Indices: 56007--57620 Score: 2926
Period size: 198 Copynumber: 8.1 Consensus size: 199
55997 TTAAGGGTCA
*
56007 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
56072 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
56137 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
56202 AATG
196 AATG
*
56206 TGTCGACACTAATATAGTTTGTGTGGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
56271 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCTCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
56335 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
56400 AATG
196 AATG
*
56404 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
56469 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
56533 TAATCTGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG-ATAAGTCTAAA
131 TAATATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
56597 TAATG
195 TAATG
*
56602 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
56667 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
56731 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
56796 AATG
196 AATG
*
56800 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
56864 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
56929 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
56994 AATG
196 AATG
* * *
56998 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACACGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
57063 CA-AAAGTGTCGATCCATATATAAAACAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATATAAAA-AGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
57126 GTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
57190 TAATG
195 TAATG
*
57195 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAA
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCAT
*
57260 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
57325 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
57390 TAATG
195 TAATG
*
57395 TGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCAT
57459 CAATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
57523 GTAATATGT-ATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
57587 TAATG
195 TAATG
*
57592 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
57621 CTAATTTAAA
Statistics
Matches: 1381, Mismatches: 24, Indels: 21
0.97 0.02 0.01
Matches are distributed among these distances:
197 241 0.17
198 785 0.57
199 284 0.21
200 71 0.05
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:59099 original size:18 final size:18
Alignment explanation
Indices: 59076--59143 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
59066 ATCAGTCGCA
59076 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
59094 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
59115 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
59136 GAAGATGA
1 GAAGATGA
59144 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:59100 original size:6 final size:6
Alignment explanation
Indices: 59076--59173 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
59066 ATCAGTCGCA
* * * * * *
59076 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
59124 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
59172 GA
1 GA
59174 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:59111 original size:3 final size:3
Alignment explanation
Indices: 59091--59177 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
59081 TGAAGCTGAC
* * * * * ** *
59091 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
59139 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
59178 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:59126 original size:42 final size:42
Alignment explanation
Indices: 59079--59169 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
59069 AGTCGCAGAA
*
59079 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
59121 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
59163 GATGAAG
1 GATGAAG
59170 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:59177 original size:18 final size:18
Alignment explanation
Indices: 59076--59173 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
59066 ATCAGTCGCA
* *
59076 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
59094 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
59112 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
59130 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
59148 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
59166 GAAGATGA
1 GAAGATGA
59174 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:60992 original size:184 final size:184
Alignment explanation
Indices: 60643--61495 Score: 1586
Period size: 184 Copynumber: 4.7 Consensus size: 184
60633 CTTTCAACAT
**
60643 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
60708 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
60772 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* * * *
60826 ATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
60891 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
60956 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
61010 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTATTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
61075 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
61140 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
61194 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
61259 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
61323 AATGTGTCGATACGATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
61376 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
61441 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
61496 CCATTTAAAA
Statistics
Matches: 652, Mismatches: 16, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
182 120 0.18
183 172 0.26
184 360 0.55
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:64082 original size:23 final size:23
Alignment explanation
Indices: 64051--64114 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
64041 ATAGGTAAAC
*
64051 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
64074 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
64097 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
64115 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:64121 original size:23 final size:23
Alignment explanation
Indices: 64051--64123 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
64041 ATAGGTAAAC
* **
64051 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
64074 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
64097 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
64120 ATAT
1 ATAT
64124 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:64312 original size:29 final size:30
Alignment explanation
Indices: 64269--64335 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
64259 GTTACGGTAT
* *
64269 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATAAAATATAAAACAATC-AAATA
64299 ATATTTTATAAAATATAAAACAATCAAATA
1 ATATTTTATAAAATATAAAACAATCAAATA
*
64329 ATTTTTT
1 ATATTTT
64336 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATTTTATAAAATATAAAACAATCAAATA
Found at i:64512 original size:23 final size:23
Alignment explanation
Indices: 64481--64543 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
64471 ATAGGTAAAC
*
64481 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
64504 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
64527 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
64544 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:64551 original size:23 final size:23
Alignment explanation
Indices: 64481--64553 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
64471 ATAGGTAAAC
* * **
64481 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
64504 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
64527 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
64550 ATAT
1 ATAT
64554 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:65025 original size:22 final size:23
Alignment explanation
Indices: 64990--65032 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
64980 TATTGTACTT
**
64990 TATAATATTTCCGGT-TAAATAA
1 TATAATATAACCGGTCTAAATAA
65012 TATAATATAACCGGTCTAAAT
1 TATAATATAACCGGTCTAAAT
65033 TTTAACCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (23 bp):
TATAATATAACCGGTCTAAATAA
Found at i:67639 original size:19 final size:20
Alignment explanation
Indices: 67607--67644 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
67597 TTTTCTCATC
67607 TCTTCTTCCTTCTT-TCTTA
1 TCTTCTTCCTTCTTCTCTTA
67626 TCTTCTTCAC-TCTTCTCTT
1 TCTTCTTC-CTTCTTCTCTT
67645 CTTCCAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (20 bp):
TCTTCTTCCTTCTTCTCTTA
Found at i:68673 original size:22 final size:21
Alignment explanation
Indices: 68619--68682 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
68609 AGTCGAGGGT
68619 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
*
68640 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCCTTCGGGACA-A
*
68662 TTCACAGGTCCTTCGGGACAA
1 TTCATAGGTCCTTCGGGACAA
68683 ATTTCATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TTCATAGGTCCTTCGGGACAA
Found at i:69192 original size:11 final size:11
Alignment explanation
Indices: 69178--69214 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
69168 CATTTTTACG
69178 GCAGTACTGTA
1 GCAGTACTGTA
69189 GCAGTACTGTA
1 GCAGTACTGTA
*
69200 ACAGTACTGTA
1 GCAGTACTGTA
69211 GCAG
1 GCAG
69215 GGGAATCGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (11 bp):
GCAGTACTGTA
Found at i:69231 original size:22 final size:22
Alignment explanation
Indices: 69206--69251 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
69196 TGTAACAGTA
*
69206 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
69228 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
69250 CT
1 CT
69252 ATTTGTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:69676 original size:25 final size:23
Alignment explanation
Indices: 69635--69683 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
69625 CTGATATGGT
*
69635 AATGAGTATGTTGTTTTGCTAATAG
1 AATGAGTATGTTATTTT--TAATAG
69660 AATG-GTATGTTTATTTTTAATAG
1 AATGAGTATG-TTATTTTTAATAG
69683 A
1 A
69684 TGTCCGGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 5 0.23
25 10 0.45
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (23 bp):
AATGAGTATGTTATTTTTAATAG
Found at i:75038 original size:20 final size:20
Alignment explanation
Indices: 75009--75046 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74999 ATTATGCAGA
75009 GGGAACCGATACCCCCTAGG
1 GGGAACCGATACCCCCTAGG
* *
75029 GGGAATCGATTCCCCCTA
1 GGGAACCGATACCCCCTA
75047 AGAGAAAATG
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:0.24, C:0.34, G:0.26, T:0.16
Consensus pattern (20 bp):
GGGAACCGATACCCCCTAGG
Found at i:75570 original size:22 final size:21
Alignment explanation
Indices: 75513--75576 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
75503 AGTCGAGGGT
75513 TTCATAGGTCTTTCGGGACAA
1 TTCATAGGTCTTTCGGGACAA
* *
75534 CTCATAGGTCCTTCGGGACATA
1 TTCATAGGTCTTTCGGGACA-A
*
75556 TTCACAGGTCTTTCGGGACAA
1 TTCATAGGTCTTTCGGGACAA
75577 ATTTCATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (21 bp):
TTCATAGGTCTTTCGGGACAA
Found at i:76115 original size:22 final size:22
Alignment explanation
Indices: 76090--76134 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
76080 GTAACAGTAT
*
76090 TGTAGCAGGGGAATCGGTTCCC
1 TGTAGCAGGGGAATCGATTCCC
76112 TGTAGCAGGGGAATCGATTCCC
1 TGTAGCAGGGGAATCGATTCCC
76134 T
1 T
76135 ATTTGTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.24
Consensus pattern (22 bp):
TGTAGCAGGGGAATCGATTCCC
Found at i:77304 original size:16 final size:16
Alignment explanation
Indices: 77272--77319 Score: 78
Period size: 16 Copynumber: 2.9 Consensus size: 16
77262 AAAAAAATAA
*
77272 TTCTATTTTATTTTTAC
1 TTCTATTTT-CTTTTAC
77289 TTCTATTTTCTTTTAC
1 TTCTATTTTCTTTTAC
77305 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
77320 TTATTATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 21 0.70
17 9 0.30
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTATTTTCTTTTAC
Found at i:79078 original size:185 final size:184
Alignment explanation
Indices: 78725--79113 Score: 638
Period size: 185 Copynumber: 2.1 Consensus size: 184
78715 TTTTCTAATT
* * * * *
78725 TATATAA-AAATTAAATGTTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
78789 TATAAAATAAAAATTTCAGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATT
66 TATAAAATAAAAATTTCAGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATT
*
78854 GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTTAGCCCATATATTA
131 GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATATTA
78908 TATATAATATATTTAATATTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAA
* * * *
78973 TTATAAAAATAAAAATTTTATAT-AATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
65 TTAT-AAAATAAAAATTTCAGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTA
* *
79037 TTGGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTA
129 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATATTA
79093 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
79114 AAAATTTAAT
Statistics
Matches: 191, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
183 7 0.04
184 23 0.12
185 145 0.76
186 16 0.08
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAAT
TATAAAATAAAAATTTCAGATAAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAATTATT
GGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATATTA
Found at i:80828 original size:19 final size:20
Alignment explanation
Indices: 80804--80846 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
80794 GCGATTTTGA
*
80804 AAAATGTGTTGCGATAG-TT
1 AAAATGTGTTGCGAGAGTTT
80823 AAAATGTGTTGCGAGAGTTT
1 AAAATGTGTTGCGAGAGTTT
80843 AAAA
1 AAAA
80847 AACGTATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.33
Consensus pattern (20 bp):
AAAATGTGTTGCGAGAGTTT
Found at i:80892 original size:2 final size:2
Alignment explanation
Indices: 80885--80917 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
80875 TCGTCTCACT
*
80885 TA TA TA TA TA GA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80918 GTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:81029 original size:36 final size:35
Alignment explanation
Indices: 80900--81352 Score: 252
Period size: 36 Copynumber: 12.6 Consensus size: 35
80890 ATATAGATAT
* *
80900 ATATATATATATATTATAGTTTTAAAATATTTTTAAA
1 ATATATATA-ATA-TATAGTTTTTAAATATTTTGAAA
* *
80937 ACCTATATATAATATATAGTTTTGAAAACATGTTTGAAA
1 A--TATATATAATATATAGTTTT-TAAATAT-TTTGAAA
*
80976 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAA-TATTTTGAAA
* *
81014 ATAAATATAATATATAGTTTTTACATATTTTCGAAA
1 ATATATATAATATATAGTTTTTAAATATTTT-GAAA
* *
81050 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAGTTTTTAAA-TATTTTGAAA
* * * * *
81086 ATAAATATACTATATAATTTTTAAAACATTTTTTTTAAA
1 ATATATATAATATATAGTTTTT--AA-A-TATTTTGAAA
* *
81125 A-ATATATATTATATAGTTTTTAAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAATATTTTGAAA
* ***
81159 ATATATATAGT-T-T--TTAAAAAATATTTTTGAAGAA
1 ATATATATAATATATAGTTTTTAAATA-TTTTG-A-AA
* *
81193 CATATATATATTATATAGTTTTTAAATCA-TTTCAAA
1 -ATATATATAATATATAGTTTTTAAAT-ATTTTGAAA
* * * *
81229 A-ACT-TATAATATATAATTTTAAAAAACATTTTTAAA
1 ATA-TATATAATATATAGTTTT--TAAATATTTTGAAA
* * *
81265 A-A-A-ACT-ATATA-A-TTTTGGAAATGTTTTTAAA
1 ATATATA-TAATATATAGTTTT-TAAATATTTTGAAA
* * * * *
81296 AAACATATAATATATAATTTTAAAATATTTTTAAA
1 ATATATATAATATATAGTTTTTAAATATTTTGAAA
*
81331 A-ATATATATTATATAGATTTTT
1 ATATATATAATATATAG-TTTTT
81353 GGAAAATGTT
Statistics
Matches: 331, Mismatches: 50, Indels: 72
0.73 0.11 0.16
Matches are distributed among these distances:
31 18 0.05
32 10 0.03
33 5 0.02
34 50 0.15
35 47 0.14
36 86 0.26
37 20 0.06
38 44 0.13
39 50 0.15
40 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (35 bp):
ATATATATAATATATAGTTTTTAAATATTTTGAAA
Found at i:81079 original size:72 final size:71
Alignment explanation
Indices: 80900--81167 Score: 281
Period size: 72 Copynumber: 3.6 Consensus size: 71
80890 ATATAGATAT
* * * * *
80900 ATATATATATATATTATAG-TTTTAAAATATTTTTAAAACCTATATATAATATATAGTTTTGAAA
1 ATATATATAT-TA-TATAGTTTTTAAAGTATTTTGAAAA--TAAATATAATATATAGTTTT-TAC
*
80964 ACATGTTTGAAA
61 ATAT-TTTGAAA
80976 ATATTTATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTACATA
1 ATA--TATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTACATA
81041 TTTTCGAAA
64 TTTT-GAAA
* * *
81050 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAAATAAATATACTATATAATTTTTAAAACAT
1 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTT---ACA-
* *
81115 TTTTTTTAAA
62 TATTTTGAAA
* *
81125 A-ATATATATTATATAGTTTTTAAA-CATTTTGAAAATATATATA
1 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATA
81168 GTTTTTAAAA
Statistics
Matches: 170, Mismatches: 14, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
72 52 0.31
73 20 0.12
74 33 0.19
75 26 0.15
76 13 0.08
77 19 0.11
78 7 0.04
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (71 bp):
ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTACATATT
TTGAAA
Found at i:81383 original size:11 final size:11
Alignment explanation
Indices: 81361--81446 Score: 75
Period size: 11 Copynumber: 7.4 Consensus size: 11
81351 TTGGAAAATG
81361 TTTTTTAGTTTA
1 TTTTTTA-TTTA
81373 TTTTTTATTTA
1 TTTTTTATTTA
**
81384 TTTATTTACCT-
1 TTT-TTTATTTA
81395 TTTTTTATTTA
1 TTTTTTATTTA
*
81406 TTTATTATTTA
1 TTTTTTATTTA
81417 TTTTACTTATTTTA
1 TTTT--TTA-TTTA
*
81431 TTTTTATTTTTA
1 TTTTT-TATTTA
81443 TTTT
1 TTTT
81447 GTTGCAGGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
10 5 0.08
11 23 0.38
12 21 0.34
13 4 0.07
14 8 0.13
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:81385 original size:4 final size:4
Alignment explanation
Indices: 81364--81433 Score: 63
Period size: 4 Copynumber: 16.8 Consensus size: 4
81354 GAAAATGTTT
*
81364 TTTA GTTTA TTT- TTTA TTTA TTTA TTTA CCTTTT TTTA TTTA TTTA -TTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA --TTTA TTTA TTTA TTTA TTTA
*
81413 TTTA TTTTA CTTA TTTTA TTT
1 TTTA -TTTA TTTA -TTTA TTT
81434 TTATTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
3 6 0.11
4 35 0.64
5 11 0.20
6 3 0.05
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:81402 original size:29 final size:29
Alignment explanation
Indices: 81369--81445 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 29
81359 TGTTTTTTAG
*
81369 TTTATTTTTTATTTATTTA-TTTACCTTTT
1 TTTATTTTTTATTTATTTATTTTA-CTTAT
81398 TTTATTTATTTA-TTATTTATTTTACTTAT
1 TTTATTT-TTTATTTATTTATTTTACTTAT
*
81427 TTTATTTTTATTTTTATTT
1 TTTATTTTT-TATTTATTT
81446 TGTTGCAGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.05
29 26 0.62
30 14 0.33
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTATTTTTTATTTATTTATTTTACTTAT
Found at i:81441 original size:21 final size:21
Alignment explanation
Indices: 81369--81442 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 21
81359 TGTTTTTTAG
*
81369 TTTATTTTTTATTTATTTATTTA
1 TTTA-TTTTTACTTATTTA-TTA
* *
81392 CCTT-TTTTTATTTATTTATTA
1 -TTTATTTTTACTTATTTATTA
81413 TTTA-TTTTACTTATTTTATT-
1 TTTATTTTTACTTA-TTTATTA
81433 TTTATTTTTA
1 TTTATTTTTA
81443 TTTTGTTGCA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 14 0.32
21 14 0.32
22 14 0.32
24 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTTTTACTTATTTATTA
Found at i:81443 original size:33 final size:31
Alignment explanation
Indices: 81361--81444 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 31
81351 TTGGAAAATG
81361 TTTTTTAGTTTATTTTTTATTTATTTATTTACCT
1 TTTTTTA-TTTA-TTTTTA-TTATTTATTTACCT
81395 TTTTTTATTTA--TTTATTATTTATTTTA-CT
1 TTTTTTATTTATTTTTATTATTTA-TTTACCT
*
81424 TATTTTATTTTTATTTTTATT
1 T-TTTT-TATTTATTTTTATT
81445 TTGTTGCAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 11
0.79 0.02 0.20
Matches are distributed among these distances:
29 10 0.23
30 12 0.27
31 5 0.11
33 10 0.23
34 7 0.16
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (31 bp):
TTTTTTATTTATTTTTATTATTTATTTACCT
Found at i:82828 original size:12 final size:12
Alignment explanation
Indices: 82811--82835 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82801 TCGAATCGAG
82811 TAATTTAAATTT
1 TAATTTAAATTT
82823 TAATTTAAATTT
1 TAATTTAAATTT
82835 T
1 T
82836 TCGCAATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:83800 original size:17 final size:17
Alignment explanation
Indices: 83780--83812 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83770 CTAACTAACC
*
83780 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
83797 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
83813 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:84464 original size:19 final size:19
Alignment explanation
Indices: 84430--84474 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
84420 ATTTAGACAT
84430 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
84448 TTTGCATTTTTTTATTTTC
1 TTTGCATTTTCTTATTTTC
84467 TTTGCATT
1 TTTGCATT
84475 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:88288 original size:165 final size:164
Alignment explanation
Indices: 87876--88531 Score: 785
Period size: 165 Copynumber: 4.0 Consensus size: 164
87866 ACCTGCCACC
*
87876 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
** * * *
87941 AAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
* *
88006 CATAACTCAAGGCTAGAAGGGTTATCTGTTAGCA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
* *
88040 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAAGCACATCATTTGCAGAATAGCTTAAGTCAAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* *
88105 AAGGGCTATCTGCCAAAGACCCCCAAATTCGATTACACTCAGCTTCGAGGGCACATCATTTACAA
66 AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
*
88170 CATAACTCAAGGCTAGGAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACC-A
*
88205 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGA
*
88269 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
65 GAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
* * * * **
88334 GCATAACTTAAGTCGAGAATGGTTATCTGCCAACCA
130 GCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCA
*** * * * * * ** * * * *
88370 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACATCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGA
* ** * * * * *
88435 GAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
65 GAAGGGCTATC--TG-CC-AAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
* * * * * *
88499 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
126 TACAGCATAACTCAAGGCTAGAAGGGTTATCTG
88532 CCAAAGACCC
Statistics
Matches: 433, Mismatches: 50, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
164 153 0.35
165 168 0.39
166 39 0.09
167 1 0.00
168 2 0.00
169 45 0.10
170 25 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
Found at i:88404 original size:250 final size:246
Alignment explanation
Indices: 88074--88604 Score: 841
Period size: 250 Copynumber: 2.1 Consensus size: 246
88064 CAGCTCCAAA
* * *
88074 GCACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCAAATTCGATT
1 GCACATCATTTACAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCAAATTCGATT
*
88139 ACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGGAGGGTTATCTGTGACCA
66 ACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
*
88204 AAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCG
131 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCG
*
88268 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGG
195 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
* * * * *
88320 GCACATCATTTACAGCATAACTTAAGTCGAGAATGGTTATCTGCCAACCAAAGACCCCCGAGTTC
1 GCACATCATTTACAGCATAACTTAAGTCAAGAAGGGCTATCTG----CCAAAGACCCCCAAATTC
*
88385 GATTACACTCAGCTTCGAGGGCACATCATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTG
62 GATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTG
88450 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
127 ACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
88515 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
192 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
* * * * * *
88570 TCATATCGTTTACA-CATAGCTCAAGGCAAGAAGGG
1 GCACATCATTTACAGCATAACTTAAGTCAAGAAGGG
88605 TTATTTGTCA
Statistics
Matches: 260, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
246 37 0.14
249 16 0.06
250 204 0.78
251 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (246 bp):
GCACATCATTTACAGCATAACTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCAAATTCGATT
ACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGG
Done.