Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000549.1 Hibiscus syriacus cultivar Beakdansim tig00001063_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: 89722
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Found at i:3244 original size:3 final size:3
Alignment explanation
Indices: 3238--3289 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
3228 GAGTTTGTAA
3238 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
3286 AAT A
1 AAT A
3290 GGGCCAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:4525 original size:25 final size:25
Alignment explanation
Indices: 4496--4544 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
4486 CTAAACAGTT
4496 GACAGTTCCAAAATTGGACCAGACG
1 GACAGTTCCAAAATTGGACCAGACG
4521 GACAGTTCCAAAATTGGACCAGAC
1 GACAGTTCCAAAATTGGACCAGAC
4545 AAGAGAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (25 bp):
GACAGTTCCAAAATTGGACCAGACG
Found at i:8552 original size:18 final size:17
Alignment explanation
Indices: 8529--8574 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
8519 TAATTCGTAC
8529 ATATTTTTAAAATATATA
1 ATATTTTTAAAAT-TATA
*
8547 ATATTTTTATAAATTTTA
1 ATATTTTTA-AAATTATA
*
8565 ATATTATTAA
1 ATATTTTTAA
8575 TACATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 20 0.80
19 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTTTAAAATTATA
Found at i:8583 original size:19 final size:18
Alignment explanation
Indices: 8545--8583 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8535 TTAAAATATA
*
8545 TAATATTTTTATAAATTT
1 TAATATTTTAATAAATTT
*
8563 TAATATTATTAATACATTT
1 TAATATT-TTAATAAATTT
8582 TA
1 TA
8584 TTATATTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATATTTTAATAAATTT
Found at i:9278 original size:45 final size:45
Alignment explanation
Indices: 9207--9326 Score: 163
Period size: 45 Copynumber: 2.7 Consensus size: 45
9197 TTCGTATGTT
* *
9207 TAATCTAATATGACATCTTCAATTGTTTGCATTATCATGTGTACC
1 TAATCTGATATGACATCTTCAATTGTTTGCATTATCATATGTACC
* * * *
9252 TAATGTGATATGACATCTTCAATTGTTTGTACTATCATATGTATC
1 TAATCTGATATGACATCTTCAATTGTTTGCATTATCATATGTACC
*
9297 TAATCTG--ATGAGATCTTCAATTGTTTGCAT
1 TAATCTGATATGACATCTTCAATTGTTTGCAT
9327 GTGTGATAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 20 0.31
45 45 0.69
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (45 bp):
TAATCTGATATGACATCTTCAATTGTTTGCATTATCATATGTACC
Found at i:13522 original size:16 final size:17
Alignment explanation
Indices: 13501--13532 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13491 AATCGTTGGA
13501 TGAGG-AAATAGATGGG
1 TGAGGAAAATAGATGGG
13517 TGAGGAAAATAGATGG
1 TGAGGAAAATAGATGG
13533 CTTAGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (17 bp):
TGAGGAAAATAGATGGG
Found at i:13803 original size:19 final size:19
Alignment explanation
Indices: 13779--13815 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13769 ATGACCAACA
*
13779 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
13798 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
13816 CATTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:13935 original size:21 final size:21
Alignment explanation
Indices: 13909--13951 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
13899 AAATCGCAAT
13909 GCGATAACACTTGATCACAAC
1 GCGATAACACTTGATCACAAC
*
13930 GCGATAACACTTGATCGCAAC
1 GCGATAACACTTGATCACAAC
13951 G
1 G
13952 TGATTCTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
GCGATAACACTTGATCACAAC
Found at i:13968 original size:20 final size:20
Alignment explanation
Indices: 13943--14044 Score: 118
Period size: 20 Copynumber: 5.0 Consensus size: 20
13933 ATAACACTTG
*
13943 ATCGCAACGTGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
13963 ATCGCAACGCAATT-TAGACT
1 ATCGCAACGCGATTCT-GACT
**
13983 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
*
14003 GATCGCAATGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
14024 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
14044 A
1 A
14045 ACGTATCACT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
19 3 0.04
20 49 0.71
21 15 0.22
22 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:14009 original size:21 final size:20
Alignment explanation
Indices: 13901--14016 Score: 76
Period size: 21 Copynumber: 5.7 Consensus size: 20
13891 GAATATGTAA
*
13901 ATCGCAATGCGATAACACTTG
1 ATCGCAACGCGATAACAC-TG
*
13922 ATCACAACGCGATAACACTTG
1 ATCGCAACGCGATAACAC-TG
* *
13943 ATCGCAACGTGAT-TCTGACT-
1 ATCGCAACGCGATAAC--ACTG
* * *
13963 ATCGCAACGCAATTTAGACT-
1 ATCGCAACGCGA-TAACACTG
*
13983 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATAACAC-TG
*
14004 ATCGCAATGCGAT
1 ATCGCAACGCGAT
14017 TCTGACTATC
Statistics
Matches: 76, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
19 4 0.05
20 26 0.34
21 44 0.58
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATAACACTG
Found at i:17199 original size:18 final size:18
Alignment explanation
Indices: 17176--17215 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
17166 AGCAAAAGGC
*
17176 AATCAAAATCGTAATCAA
1 AATCAAAATCCTAATCAA
*
17194 AATCAAAATCCTAATCAC
1 AATCAAAATCCTAATCAA
17212 AATC
1 AATC
17216 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.23
Consensus pattern (18 bp):
AATCAAAATCCTAATCAA
Found at i:17413 original size:20 final size:20
Alignment explanation
Indices: 17388--17660 Score: 197
Period size: 20 Copynumber: 14.6 Consensus size: 20
17378 CACATTCATT
17388 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
17408 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* * * *
17428 TAACTATTGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
17448 TGAATATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
17465 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
17482 TGACTATCACAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
17502 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* *
17519 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
*
17536 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* *
17556 TAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
17576 TGACTATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
*
17593 T-A--ATCGCAATGCGAA-A
1 TGACTATCGCAACGCGAATA
* *
17609 TGATTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * * *
17629 TGATTATCGTAACGGGAATT
1 TGACTATCGCAACGCGAATA
17649 TGACTATCGCAA
1 TGACTATCGCAA
17661 TGAGAAAATC
Statistics
Matches: 201, Mismatches: 33, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
14 23 0.11
15 2 0.01
16 7 0.03
17 10 0.05
18 4 0.02
19 14 0.07
20 141 0.70
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:17495 original size:54 final size:54
Alignment explanation
Indices: 17413--17569 Score: 235
Period size: 54 Copynumber: 2.9 Consensus size: 54
17403 GAATATGACT
* * * * *
17413 ATCGCAACGCGAATATAACTATTGCAACGTGAATTTGAATATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATA
* *
17467 ATCGCAATGCGAAAATGACTATCACAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATA
17521 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTT-AACTATCGCAACG
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAA-TATCGCAACG
17570 CGAATTTGAC
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 92 0.99
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGAATATCGCAACGGGATA
Found at i:17545 original size:74 final size:73
Alignment explanation
Indices: 17388--17671 Score: 304
Period size: 74 Copynumber: 3.9 Consensus size: 73
17378 CACATTCATT
* * * * * * *
17388 TGACTATCGCAACGCGAATATGACTATCGCAACGCGAATATAACTATTGCAACGTGA-ATTTG-A
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
* *
17451 ATATCGCAACG
66 AT-GCG-AA-A
* * ** * *
17462 GGA-TAATCGCAATGCGAAAATGACTATCACAACGCGAATTTGACTATCGCAACGGGATAATCGC
1 TGACT-ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGC
17526 AATGCGAAAA
65 AATGCG-AAA
*
17536 TGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
17601 ATGCGAAA
66 ATGCGAAA
* * * * * *
17609 TGATTATCGCAACGCGAATTTGATTATCGTAACGGGAATTTGACTATCGCAATGAGAAAATCG
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCG
17672 TAAAGTGTAT
Statistics
Matches: 179, Mismatches: 27, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
73 60 0.34
74 108 0.60
75 8 0.04
76 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (73 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGATAATCGCA
ATGCGAAA
Found at i:17838 original size:36 final size:34
Alignment explanation
Indices: 17797--17876 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
17787 TCAACTTTTA
17797 ATCAATTAAACAAGCACAAATAAGAAATATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAAATATTTACAC
*
17833 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAAATATTTACAC
17863 ATCAATTAAACAAA
1 ATCAATTAAACAAA
17877 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.25
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAAATATTTACAC
Found at i:17846 original size:30 final size:30
Alignment explanation
Indices: 17812--17877 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
17802 TTAAACAAGC
17812 ACAAATAAGAAATATTTACACATCAATTAA
1 ACAAATAAGAAATATTTACACATCAATTAA
*
17842 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAAATATTTACACATCAATTAA
17872 ACAAAT
1 ACAAAT
17878 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (30 bp):
ACAAATAAGAAATATTTACACATCAATTAA
Found at i:19362 original size:42 final size:42
Alignment explanation
Indices: 19257--19362 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
19247 TAGAATGTTG
* * * * *
19257 GGAGGGACCTCTTCAACGATGATAGTGGCCTCTTTAACGGTG
1 GGAGGGACCTCTTGAACGATGATAGGGGCCTCTTAAACGATA
** **
19299 GGAGGGAAATCTTGAGGGATGATAGGGGCCTCTTAAACGATA
1 GGAGGGACCTCTTGAACGATGATAGGGGCCTCTTAAACGATA
19341 GGAGAGG-CCTCTTGAACGATGA
1 GGAG-GGACCTCTTGAACGATGA
19363 AAGGTGAGTC
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.34, T:0.23
Consensus pattern (42 bp):
GGAGGGACCTCTTGAACGATGATAGGGGCCTCTTAAACGATA
Found at i:19868 original size:20 final size:20
Alignment explanation
Indices: 19843--19886 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
19833 AATAGTTTCT
*
19843 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCGCAACAC
19863 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
19883 GAAA
1 GAAA
19887 AAGATTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:20051 original size:40 final size:39
Alignment explanation
Indices: 19991--20132 Score: 143
Period size: 40 Copynumber: 3.7 Consensus size: 39
19981 GCAATTATCC
19991 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCA-TTCCG
* ** *
20031 CGTTGTGATAGTCATTTTCGCATTGCGAT--T-A-TCC-
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTCCG
20065 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTC--ATTCCG
* ** *
20105 CGTTGCGATAATCATTTTCGTGTTGCGA
1 CGTTGCGATAGTCAAATTCGCGTTGCGA
20133 CTATTCTTCT
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
34 25 0.30
35 3 0.04
36 1 0.01
37 1 0.01
38 1 0.01
39 2 0.02
40 50 0.60
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (39 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTCCG
Found at i:20075 original size:34 final size:34
Alignment explanation
Indices: 19956--20093 Score: 141
Period size: 34 Copynumber: 3.9 Consensus size: 34
19946 ACTAAATTCG
** *
19956 CGTTGCGATAGTCATTTTTCGCATTGCAATTATCC
1 CGTTGCGATAGTCA-AATTCGCATTGCGATTATCC
*
19991 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTCC
1 CGTTGCGATAGTCAAATTCGCATTGCGAT--T-A--TCC
* **
20030 GCGTTGTGATAGTCATTTTCGCATTGCGATTATCC
1 -CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
*
20065 CGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCATTGCGAT
20094 AGTCAAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
34 36 0.42
35 17 0.20
36 1 0.01
37 2 0.02
38 1 0.01
39 3 0.04
40 25 0.29
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCGCATTGCGATTATCC
Found at i:20095 original size:54 final size:54
Alignment explanation
Indices: 20011--20113 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
20001 GTCAAATTCG
* * **
20011 CGTTGCGATAGTCATTTCCGCGTTGTGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCAATTCCGCGTTGCGATAGTCAAATTCGCATTGCGATTATCC
*
20065 CGTTGCGATAGTCAAATT-CGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAGTC-AATTCCGCGTTGCGATAGTCAAATTCGCATTGCGAT
20114 AATCATTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 40 0.93
55 3 0.07
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (54 bp):
CGTTGCGATAGTCAATTCCGCGTTGCGATAGTCAAATTCGCATTGCGATTATCC
Found at i:20132 original size:20 final size:20
Alignment explanation
Indices: 19991--20114 Score: 136
Period size: 20 Copynumber: 6.5 Consensus size: 20
19981 GCAATTATCC
19991 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
20011 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAAATT-CG
* **
20031 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
20051 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
20065 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
20085 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
20105 CGTTGCGATA
1 CGTTGCGATA
20115 ATCATTTTCG
Statistics
Matches: 87, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.11
16 1 0.01
18 1 0.01
19 4 0.05
20 68 0.78
21 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:20132 original size:74 final size:74
Alignment explanation
Indices: 19949--20124 Score: 291
Period size: 74 Copynumber: 2.4 Consensus size: 74
19939 ACGCGAAACT
*
19949 AAATTCGCGTTGCGATAGTCATTTTTCGCATTGCAATTATCCCGTTGCGATAGTCAAATTCGCGT
1 AAATTCGCGTTGCGATAGTCA-TTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGT
20014 TGCGATAGTC
65 TGCGATAGTC
* *
20024 -ATTTCCGCGTTGTGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGT
1 AAATT-CGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGT
20088 TGCGATAGTC
65 TGCGATAGTC
*
20098 AAATTCGCGTTGCGATAATCATTTTCG
1 AAATTCGCGTTGCGATAGTCATTTTCG
20125 TGTTGCGACT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
74 75 0.81
75 18 0.19
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (74 bp):
AAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTT
GCGATAGTC
Found at i:20310 original size:32 final size:31
Alignment explanation
Indices: 20251--20312 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
20241 CTACTACCGA
20251 ATGAATTTACTAAGCAATCCAAAAGACAAAT
1 ATGAATTTACTAAGCAATCCAAAAGACAAAT
*
20282 ATGAATTTACTAACTTCAA-CCAAAAGACAAA
1 ATGAATTTACTAA--GCAATCCAAAAGACAAA
20313 ACAAAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
ATGAATTTACTAAGCAATCCAAAAGACAAAT
Found at i:22138 original size:20 final size:20
Alignment explanation
Indices: 22115--22170 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
22105 TCTGAAACTT
22115 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
22135 AAAATCGCAGCACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
22155 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
22171 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:22180 original size:20 final size:20
Alignment explanation
Indices: 22157--22212 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
22147 CGAAAATGAT
22157 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
* *
22177 TATCGCAACGCGAA-ATGGC
1 TATCGCAACGCGAATTTGAC
* *
22196 TATCACAACGAGAATTT
1 TATCGCAACGCGAATTT
22213 TGTCGTTGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:22204 original size:19 final size:20
Alignment explanation
Indices: 22118--22210 Score: 71
Period size: 20 Copynumber: 4.7 Consensus size: 20
22108 GAAACTTAAA
* * **
22118 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAATATGACT
* * * *
22138 ATCGCAGCACGAAAATGATT
1 ATCGCAACGCGAATATGACT
*
22158 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATATGACT
*
22178 ATCGCAACGCGAA-ATGGCT
1 ATCGCAACGCGAATATGACT
* *
22197 ATCACAACGAGAAT
1 ATCGCAACGCGAAT
22211 TTTGTCGTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.25
20 45 0.75
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAATATGACT
Found at i:22559 original size:22 final size:22
Alignment explanation
Indices: 22532--22604 Score: 103
Period size: 22 Copynumber: 3.3 Consensus size: 22
22522 GATGGAGATA
22532 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
* *
22554 GACGGATTTCGCCGTA-AAGGAG
1 GACGGATTTCGCCGGAGATGG-G
*
22576 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
22598 GACGGAT
1 GACGGAT
22605 GTTTCCGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 3 0.07
22 38 0.86
23 3 0.07
ACGTcount: A:0.22, C:0.16, G:0.42, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:22819 original size:41 final size:41
Alignment explanation
Indices: 22774--22860 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
22764 TTATCGTAAC
* * * *
22774 GCGATAGTCAGAATCTCGTTGCGATCACGTATTATCGCGTT
1 GCGATAGTCAGAATCGCGCTGCGATCAAGCATTATCGCGTT
* * *
22815 GCGATAGTCCGGATCGCGCTGCGATCAAGCGTTATCGCGTT
1 GCGATAGTCAGAATCGCGCTGCGATCAAGCATTATCGCGTT
22856 GCGAT
1 GCGAT
22861 TTACATATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.28
Consensus pattern (41 bp):
GCGATAGTCAGAATCGCGCTGCGATCAAGCATTATCGCGTT
Found at i:22877 original size:20 final size:20
Alignment explanation
Indices: 22849--22901 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
22839 TCAAGCGTTA
*
22849 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
22869 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
22889 TCGCATTGCGATT
1 TCGCATTGCGATT
22902 ATCTAAAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:22999 original size:20 final size:19
Alignment explanation
Indices: 22975--23021 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22965 TGAAAACTAA
*
22975 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
22995 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
23014 ATTGCGAT
1 ATTGCGAT
23022 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:23011 original size:19 final size:19
Alignment explanation
Indices: 22987--23023 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22977 TGCGATAATG
*
22987 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
23006 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
23024 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:23205 original size:21 final size:21
Alignment explanation
Indices: 23181--23226 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
23171 GATTAGTGAT
23181 ACTAAACAAAATTAAATTCCA
1 ACTAAACAAAATTAAATTCCA
*
23202 ACTAAAGAAAATTAAATTCCA
1 ACTAAACAAAATTAAATTCCA
23223 ACTA
1 ACTA
23227 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (21 bp):
ACTAAACAAAATTAAATTCCA
Found at i:23376 original size:28 final size:26
Alignment explanation
Indices: 23338--23392 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 26
23328 TTATTATAAT
23338 ATATAAATAAATAAG-TAAAATATTAA
1 ATATAAATAAATAAGATAAAAT-TTAA
*
23364 ATATAAATTTAAATTAGATAAAATTTAA
1 ATATAAA--TAAATAAGATAAAATTTAA
23392 A
1 A
23393 CTTAAGTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 7 0.28
28 12 0.48
29 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATAAATAAATAAGATAAAATTTAA
Found at i:25630 original size:10 final size:12
Alignment explanation
Indices: 25599--25630 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25589 AATGGTTTGA
25599 AGTGATTATAAG
1 AGTGATTATAAG
25611 AGTGATTATAAG
1 AGTGATTATAAG
25623 -GT-ATTATA
1 AGTGATTATA
25631 TGTTCAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.30
11 2 0.10
12 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (12 bp):
AGTGATTATAAG
Found at i:28264 original size:17 final size:17
Alignment explanation
Indices: 28215--28265 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
28205 TTTTTAAAAA
*
28215 TATAATTTTTAATTATT
1 TATAATTTTAAATTATT
**
28232 TA-ACA-TTTCGATTATT
1 TATA-ATTTTAAATTATT
28248 TATAATTTTAAATTATT
1 TATAATTTTAAATTATT
28265 T
1 T
28266 TACGTATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATAATTTTAAATTATT
Found at i:39680 original size:2 final size:2
Alignment explanation
Indices: 39673--39705 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
39663 CCTCTCAGAC
39673 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
39706 AGAATTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:41444 original size:32 final size:32
Alignment explanation
Indices: 41400--41464 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
41390 TATTAAATAA
*
41400 AAATGAAATAAAATATAATAAAA-ACAACATAC
1 AAATGAAATAAAAT-TAAAAAAACACAACATAC
*
41432 AAATGAACTAAAATTAAAAAAACACAACATAC
1 AAATGAAATAAAATTAAAAAAACACAACATAC
41464 A
1 A
41465 TTCATACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.68, C:0.12, G:0.03, T:0.17
Consensus pattern (32 bp):
AAATGAAATAAAATTAAAAAAACACAACATAC
Found at i:42179 original size:46 final size:46
Alignment explanation
Indices: 42129--42381 Score: 113
Period size: 46 Copynumber: 5.1 Consensus size: 46
42119 GTTGAATTCG
42129 AATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAA
1 AATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAA
* * * * * **
42175 AATATTTAA-AAATTTAATGTCCAAATTCAA-ACAT-TCACGTAAGTGGCTGAATTCG
1 AATA-TCAACAAA---AA--T--AAA--CAACACATGT-A-ATAAGTGACTAAAATAA
42230 AATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAA
1 AATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAA
* * * * * **
42276 AATATTTAA-AAATTTAATGTCCAAATTCAA-ACAT-TCACGTAAGTGGCTGAATTCG
1 AATA-TCAACAAA---AA--T--AAA--CAACACATGT-A-ATAAGTGACTAAAATAA
*
42331 AATATCAACAAAAATAAACAACACATGTAATAAGTGATTAAAATAA
1 AATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAA
42377 AATAT
1 AATAT
42382 TTAAAAATTT
Statistics
Matches: 148, Mismatches: 29, Indels: 60
0.62 0.12 0.25
Matches are distributed among these distances:
46 46 0.31
47 16 0.11
48 8 0.05
49 4 0.03
50 2 0.01
51 2 0.01
52 4 0.03
53 8 0.05
54 16 0.11
55 42 0.28
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (46 bp):
AATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAA
Found at i:42228 original size:101 final size:101
Alignment explanation
Indices: 42113--42415 Score: 588
Period size: 101 Copynumber: 3.0 Consensus size: 101
42103 ATTAGCAAAT
*
42113 TAAGTGGTTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAAAAT
1 TAAGTGGCTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAAAAT
42178 ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
66 ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
42214 TAAGTGGCTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAAAAT
1 TAAGTGGCTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAAAAT
42279 ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
66 ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
*
42315 TAAGTGGCTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGATTAAAATAAAAT
1 TAAGTGGCTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAAAAT
42380 ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
66 ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
42416 AAAATGATAA
Statistics
Matches: 200, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 200 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (101 bp):
TAAGTGGCTGAATTCGAATATCAACAAAAATAAACAACACATGTAATAAGTGACTAAAATAAAAT
ATTTAAAAATTTAATGTCCAAATTCAAACATTCACG
Found at i:44201 original size:133 final size:133
Alignment explanation
Indices: 43856--44215 Score: 490
Period size: 133 Copynumber: 2.7 Consensus size: 133
43846 AGTTCGGGTC
* * ** * * *
43856 ATCTAAGGGTGACACGGTTCGAACGTGATGAGGAAATCTGGTCGAGGGATGACACTGCTTATACG
1 ATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTC-AGGGATGACACGGCTCATACG
* * * *
43921 TGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCCTACTCGATGAGGACGGC
65 TGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACTCGATGAGAACAGC
43986 TGGTT
129 TGGTT
* * *
43991 ATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGACGACACGGCTCATACG
1 ATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTC-AGGGATGACACGGCTCATACG
*
44056 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACGT-GATGAGAACATC
65 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTAC-TCGATGAGAACAGC
44120 TGGTT
129 TGGTT
* * *
44125 ATCTA-GGGTTACGCGGCTCCTACGTGATGAAGAGATCTGGTCAGGAGATGACACGGCTCATACG
1 ATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGG-GATGACACGGCTCATACG
*
44189 TGATGAAGAGTTCTGACCATCTTTAGG
65 TGATGAAGAGTTCTGGCCATCTTTAGG
44216 GATAATGATT
Statistics
Matches: 201, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
132 2 0.01
133 76 0.38
134 54 0.27
135 69 0.34
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (133 bp):
ATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGGATGACACGGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACACGGTTCCTACTCGATGAGAACAGCTG
GTT
Found at i:44337 original size:64 final size:64
Alignment explanation
Indices: 44224--44344 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
44214 GGGATAATGA
* *
44224 TTTCAAAAGAAACCGACTCAAAGATGATGTTTCAAAGGAAACATACTCAAAGATTGTAAATTTTG
1 TTTCAAAAGAAACAGACTCAAAGAT-ATGTTTCAAAAGAAACATACTCAAAGATTGTAAATTTTG
* * * *
44289 TTTCCAAAGAAACAGACTCAAGGAT-TTTTCTCAAAAGAAACA-ATCTCAAAGGTTGT
1 TTTCAAAAGAAACAGACTCAAAGATATGTT-TCAAAAGAAACATA-CTCAAAGATTGT
44345 TTTTTTCATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
63 4 0.08
64 22 0.46
65 22 0.46
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (64 bp):
TTTCAAAAGAAACAGACTCAAAGATATGTTTCAAAAGAAACATACTCAAAGATTGTAAATTTTG
Found at i:44525 original size:91 final size:89
Alignment explanation
Indices: 44423--44649 Score: 289
Period size: 91 Copynumber: 2.5 Consensus size: 89
44413 GTTAAGGGAC
*
44423 ACAATCTCAAAGA-TTTTTCAAAAGAAACAGACTCAAAGATTTTTCTCAAGAAAAACTGTCTCAA
1 ACAAACTCAAAGATTTTTTCAAAAGAAACAGACTCAAAGATTTTT-TCAAG--AAACTGTCTCAA
* *
44487 GAGAGACAAAACTTTGTTTCAAAAGAA
63 GAGAAACAAAACTTTGATTCAAAAGAA
* * * * *
44514 ACAAACTCAAAGATTTTGGTTTCAAAATAAA-TGACTCAAAGATTTTTTCACGAAATTGTCTTAA
1 ACAAACTCAAAGA-TTT--TTTCAAAAGAAACAGACTCAAAGATTTTTTCAAGAAACTGTCTCAA
44578 GAGAAACAAAACTTTGATTCAAAAGAA
63 GAGAAACAAAACTTTGATTCAAAAGAA
*
44605 ACAGACTCAAAGATTTTTTTCAAAAGAAACA-ACTCAAAGATTTTT
1 ACAAACTCAAAGA-TTTTTTCAAAAGAAACAGACTCAAAGATTTTT
44650 ATTTCAAAAG
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
89 25 0.21
91 63 0.52
93 6 0.05
94 15 0.12
95 11 0.09
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (89 bp):
ACAAACTCAAAGATTTTTTCAAAAGAAACAGACTCAAAGATTTTTTCAAGAAACTGTCTCAAGAG
AAACAAAACTTTGATTCAAAAGAA
Found at i:44536 original size:30 final size:29
Alignment explanation
Indices: 44502--44559 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
44492 ACAAAACTTT
44502 GTTTCAAAAGAAACAAACTCAAAGATTTTG
1 GTTTCAAAAGAAA-AAACTCAAAGATTTTG
* **
44532 GTTTCAAAATAAATGACTCAAAGATTTT
1 GTTTCAAAAGAAAAAACTCAAAGATTTT
44560 TTCACGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (29 bp):
GTTTCAAAAGAAAAAACTCAAAGATTTTG
Found at i:44664 original size:29 final size:28
Alignment explanation
Indices: 44595--44704 Score: 150
Period size: 29 Copynumber: 3.8 Consensus size: 28
44585 AAAACTTTGA
44595 TTCAAAAGAAACAGACTCAAAGA-TTTTT
1 TTCAAAAGAAACA-ACTCAAAGATTTTTT
44623 TTCAAAAGAAACAACTCAAAGATTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTT-T
* *
44652 TTCAAAAGAAACAACTCACAGACTTTTGT
1 TTCAAAAGAAACAACTCAAAGA-TTTTTT
*
44681 TTCAAGAGAAACAAACTCAAAGAT
1 TTCAAAAGAAAC-AACTCAAAGAT
44705 AGGTTTTGTT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
27 9 0.12
28 17 0.23
29 35 0.47
30 13 0.18
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.26
Consensus pattern (28 bp):
TTCAAAAGAAACAACTCAAAGATTTTTT
Found at i:44715 original size:33 final size:31
Alignment explanation
Indices: 44590--44745 Score: 139
Period size: 29 Copynumber: 5.2 Consensus size: 31
44580 GAAACAAAAC
* *
44590 TTTGATTCAAAAGAAACAGACTCAAAG--AT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATAT
44619 TTT-TTTCAAAAGAAAC-AACTCAAAGAT-T
1 TTTGTTTCAAAAGAAACAAACTCAAAGATAT
* * *
44647 TTTATTTCAAAAGAAAC-AACTCACAGA-CT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATAT
*
44676 TTTGTTTCAAGAGAAACAAACTCAAAGATAGGT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATA--T
** ** *
44709 TTTGTTTCAAGGGAAACAATTTCAAAGAT-G
1 TTTGTTTCAAAAGAAACAAACTCAAAGATAT
44739 TTTGTTT
1 TTTGTTT
44746 TAAGAGAATT
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
27 8 0.07
28 16 0.15
29 41 0.38
30 16 0.15
33 27 0.25
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (31 bp):
TTTGTTTCAAAAGAAACAAACTCAAAGATAT
Found at i:44846 original size:66 final size:64
Alignment explanation
Indices: 44756--44911 Score: 204
Period size: 66 Copynumber: 2.4 Consensus size: 64
44746 TAAGAGAATT
** * * * * *
44756 TGTCTTAAAAGAGACAAACCTTTGTTTTCATAAAAACAAACTTAAAGATTTTTCTTCAAAAGGAA
1 TGTCTTAAAAGAGACAAAATTTTGTTTCCAAAAAAACAAACTCAAAGA-TTAT-TTCAAAAGAAA
44821 C
64 C
*
44822 TGTCTTAAAAGAGACAAAATTTTGTTTCCAAAAAAACATACTCAAAGATTATTTCAAAAGAAAC
1 TGTCTTAAAAGAGACAAAATTTTGTTTCCAAAAAAACAAACTCAAAGATTATTTCAAAAGAAAC
* *
44886 TTTCTCAAAAGAGACAAAATTTTGTT
1 TGTCTTAAAAGAGACAAAATTTTGTT
44912 ATTAAAGAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 35 0.44
65 3 0.04
66 42 0.52
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (64 bp):
TGTCTTAAAAGAGACAAAATTTTGTTTCCAAAAAAACAAACTCAAAGATTATTTCAAAAGAAAC
Found at i:44899 original size:64 final size:63
Alignment explanation
Indices: 44756--44940 Score: 210
Period size: 64 Copynumber: 2.9 Consensus size: 63
44746 TAAGAGAATT
* ** * * * *
44756 TGTCTTAAAAGAGACAAACCTTTGTTTTCATAAAAACAAACTTAAAGATTTTTCTTCAAAAGGAA
1 TGTCTCAAAAGAGACAAAATTTTG-TTTCAAAAAAACATACTCAAAGA-TTTT-TTCAAAAGAAA
44821 C
63 C
* *
44822 TGTCTTAAAAGAGACAAAATTTTGTTTCCAAAAAAACATACTCAAAGATTATTTCAAAAGAAAC
1 TGTCTCAAAAGAGACAAAATTTTGTTT-CAAAAAAACATACTCAAAGATTTTTTCAAAAGAAAC
* * *
44886 TTTCTCAAAAGAGACAAAATTTTGTTATTAAAGAAA-ATACTCAAAGATTTTTTCA
1 TGTCTCAAAAGAGACAAAATTTTGTT-TCAAAAAAACATACTCAAAGATTTTTTCA
44941 TTTTGTTTTA
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
63 18 0.17
64 41 0.39
65 7 0.07
66 39 0.37
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (63 bp):
TGTCTCAAAAGAGACAAAATTTTGTTTCAAAAAAACATACTCAAAGATTTTTTCAAAAGAAAC
Found at i:44944 original size:36 final size:37
Alignment explanation
Indices: 44904--44974 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
44894 AAGAGACAAA
*
44904 ATTTTGTTATTAA-AGAAA-ATACTCAAAGATTTTTTC
1 ATTTTGTT-TTAAGAGAAACAGACTCAAAGATTTTTTC
*
44940 ATTTTGTTTTAAGTGAAACAGACTCAAAGATTTTT
1 ATTTTGTTTTAAGAGAAACAGACTCAAAGATTTTT
44975 CAAGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 4 0.13
36 12 0.39
37 15 0.48
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.44
Consensus pattern (37 bp):
ATTTTGTTTTAAGAGAAACAGACTCAAAGATTTTTTC
Found at i:45001 original size:99 final size:101
Alignment explanation
Indices: 44855--45038 Score: 250
Period size: 99 Copynumber: 1.8 Consensus size: 101
44845 GTTTCCAAAA
* * *
44855 AAACATACTCAAAGATTATTTCAAAAGAAACTTTCTCAAAAGAGACAAAATTTTG-TTATTAAAG
1 AAACAGACTCAAAGATTATTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTA-AAAAG
* *
44919 AAA-ATACTCAAAGATTTTTTCATTTTGTTTTAAGTG
65 AAATAGACTCAAAGATCTTTTCATTTTGTTTTAAGTG
* * *
44955 AAACAGACTCAAAGATT-TTTCAAGAA-AATCTGTCTCAAGAGAGACAAAGTTTTGTTTAAAAAG
1 AAACAGACTCAAAGATTATTTCAA-AAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTAAAAAG
45018 AAATAGACTCAAAGATCTTTT
65 AAATAGACTCAAAGATCTTTT
45039 GTTTCAAAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
99 37 0.51
100 36 0.49
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (101 bp):
AAACAGACTCAAAGATTATTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTAAAAAGA
AATAGACTCAAAGATCTTTTCATTTTGTTTTAAGTG
Found at i:45059 original size:30 final size:31
Alignment explanation
Indices: 45004--45063 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
44994 AGAGACAAAG
45004 TTTTGTTTAAAAAGAAATAGACTCAAAGATC
1 TTTTGTTTAAAAAGAAATAGACTCAAAGATC
*
45035 TTTTGTTTCAAAAGAAAT-GACTCAAAGAT
1 TTTTGTTTAAAAAGAAATAGACTCAAAGAT
45064 GATGTTTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (31 bp):
TTTTGTTTAAAAAGAAATAGACTCAAAGATC
Found at i:45141 original size:36 final size:36
Alignment explanation
Indices: 45101--45196 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
45091 ATAATTTGGA
*
45101 AAATTGTCTCAAGTGAGACAACATTTATTCTCAGAG
1 AAATTGTCTCAAGTGAGACAACAATTATTCTCAGAG
** * * * *
45137 AAATTGTCTCAAACGAGACAAAAATTGTTTTTAGAG
1 AAATTGTCTCAAGTGAGACAACAATTATTCTCAGAG
45173 AAATTGATCTCAAGTGAGATCAAC
1 AAATTG-TCTCAAGTGAGA-CAAC
45197 TTTGTTTAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 35 0.73
37 10 0.21
38 3 0.06
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (36 bp):
AAATTGTCTCAAGTGAGACAACAATTATTCTCAGAG
Found at i:45324 original size:107 final size:104
Alignment explanation
Indices: 45179--45470 Score: 329
Period size: 107 Copynumber: 2.8 Consensus size: 104
45169 AGAGAAATTG
*
45179 ATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGTATTCTCAAAGGAAAA
1 ATCTCAAGTGAGATTAACTTTGTTTAATGTGAAACAAATTCAAAATTTGTATTCTCAAAGGAAAA
*
45244 ATG-CTTCAAATGAGAAGAAATTTGTTTTGAAAAAAAAAACA
66 ATGTC-TCAAACGAGAAGAAATTTGTTTT--AAAAAAAAACA
* * * *
45285 ATCTCAAGTGAGATTAATTTTTGTTTCAA-GTGAATCAAATTCAAAATTTATA-TATCAAAGGAA
1 ATCTCAAGTGAGATTAA-CTTTGTTT-AATGTGAAACAAATTCAAAATTTGTATTCTCAAAGG-A
* * * * ** * * *
45348 AAAATGTCTCAAGCAAGACGAAGTTTGTTTTTTAAGAAAGCG
63 AAAATGTCTCAAACGAGAAGAAATTTGTTTTAAAAAAAAACA
* * * * *
45390 ATCTCAAATGAGATCAGCTTTGTTTAATGTGAAACAAATTCTAAATTTGTATTCTCAAAGAAAAA
1 ATCTCAAGTGAGATTAACTTTGTTTAATGTGAAACAAATTCAAAATTTGTATTCTCAAAGGAAAA
45455 ATGTCTCAAACGAGAA
66 ATGTCTCAAACGAGAA
45471 ATAATTTTGT
Statistics
Matches: 153, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
103 2 0.01
104 44 0.29
105 27 0.18
106 24 0.16
107 53 0.35
108 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (104 bp):
ATCTCAAGTGAGATTAACTTTGTTTAATGTGAAACAAATTCAAAATTTGTATTCTCAAAGGAAAA
ATGTCTCAAACGAGAAGAAATTTGTTTTAAAAAAAAACA
Found at i:45453 original size:104 final size:104
Alignment explanation
Indices: 45141--45470 Score: 337
Period size: 104 Copynumber: 3.1 Consensus size: 104
45131 TCAGAGAAAT
* * **
45141 TGTCTCAAACGAGACA-AAAATTG-TTTTTAGAGAAATTGATCTCAAGTGAGATCAACTTTGTTT
1 TGTCTCAAACAAGA-AGAAATTTGTTTTTTA-AGAAAACGATCTCAAGTGAGATCAACTTTGTTT
*
45204 AATGTGAAACAAATTCAAAATTTGTATTCTCAAAGGAAAAA
64 AATGTGAAACAAATTCAAAATTTGTATTCTCAAAGAAAAAA
** ** * * * *
45245 TG-CTTCAAATGAGAAGAAATTTGTTTTGAAAAAAAAAACAATCTCAAGTGAGATTAATTTTTGT
1 TGTC-TCAAACAAGAAGAAATTTGTTTT--TTAAGAAAACGATCTCAAGTGAGATCAA-CTTTGT
* * *
45309 TTCAA-GTGAATCAAATTCAAAATTTATA-TATCAAAGGAAAAAA
62 TT-AATGTGAAACAAATTCAAAATTTGTATTCTCAAA-GAAAAAA
* * * * * *
45352 TGTCTCAAGCAAGACGAAGTTTGTTTTTTAAGAAAGCGATCTCAAATGAGATCAGCTTTGTTTAA
1 TGTCTCAAACAAGAAGAAATTTGTTTTTTAAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAA
*
45417 TGTGAAACAAATTCTAAATTTGTATTCTCAAAGAAAAAA
66 TGTGAAACAAATTCAAAATTTGTATTCTCAAAGAAAAAA
*
45456 TGTCTCAAACGAGAA
1 TGTCTCAAACAAGAA
45471 ATAATTTTGT
Statistics
Matches: 180, Mismatches: 35, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
103 4 0.02
104 63 0.35
105 29 0.16
106 26 0.14
107 55 0.31
108 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (104 bp):
TGTCTCAAACAAGAAGAAATTTGTTTTTTAAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAA
TGTGAAACAAATTCAAAATTTGTATTCTCAAAGAAAAAA
Found at i:45802 original size:20 final size:20
Alignment explanation
Indices: 45777--45820 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
45767 CTCATGTAAC
*
45777 ATGTATGTATGCGTTGATGT
1 ATGTATGTATGCATTGATGT
*
45797 ATGTATGTATGTATTGATGT
1 ATGTATGTATGCATTGATGT
45817 ATGT
1 ATGT
45821 TTGTCTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (20 bp):
ATGTATGTATGCATTGATGT
Found at i:49452 original size:33 final size:37
Alignment explanation
Indices: 49382--49452 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
49372 TATTAAATAA
49382 AAATGAAATAAAATATAATATAATAAAAACAACATAC
1 AAATGAAATAAAATATAATATAATAAAAACAACATAC
*
49419 AAATGAAATAAAATA-AA-A-AA-AAACACAACATAC
1 AAATGAAATAAAATATAATATAATAAAAACAACATAC
49452 A
1 A
49453 TTTATACAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 13 0.39
34 2 0.06
35 1 0.03
36 2 0.06
37 15 0.45
ACGTcount: A:0.70, C:0.10, G:0.03, T:0.17
Consensus pattern (37 bp):
AAATGAAATAAAATATAATATAATAAAAACAACATAC
Found at i:54256 original size:229 final size:229
Alignment explanation
Indices: 53855--54350 Score: 931
Period size: 229 Copynumber: 2.2 Consensus size: 229
53845 GTTATATTGT
* * * *
53855 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
53920 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
53985 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
54050 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
54084 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
*
54149 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
54213 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
54278 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
54313 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
54351 AAAAGTAGGT
Statistics
Matches: 261, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
229 190 0.73
230 71 0.27
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:54652 original size:20 final size:19
Alignment explanation
Indices: 54629--54675 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
54619 CGATATACCA
54629 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
54649 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
54669 GGTAAAA
1 GGTAAAA
54676 CGTTACCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:54753 original size:181 final size:182
Alignment explanation
Indices: 54417--54889 Score: 675
Period size: 181 Copynumber: 2.6 Consensus size: 182
54407 GATCCAAATT
* * * *
54417 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
54481 AAAACCAGTAAAGCGCTACCAGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
54546 CTTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CTTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCAATACTTTAA
*
54599 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
54664 AAACCGGTAAAACGTTACC-GAATATATTGAACGTGTCGATACTTT-ATATAAGGATCGACACTT
66 AAACCGGTAAAACGATACCAG-ATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
** *
54727 -TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCAATACTTTAA
130 CT-TGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCAATACTTTAA
* * * *
54780 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACAGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
*
54845 AAACCGGTAAAATGATACCAGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTT
54890 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
180 1 0.00
181 165 0.63
182 95 0.36
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCAGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
TTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCAATACTTTAA
Found at i:54829 original size:20 final size:19
Alignment explanation
Indices: 54801--54856 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
54791 GATCCACAAC
*
54801 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
*
54821 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
54841 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
54857 TGATACCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:57104 original size:21 final size:21
Alignment explanation
Indices: 57080--57123 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
57070 AAGACAATCA
57080 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
57101 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
57122 AG
1 AG
57124 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:57199 original size:33 final size:33
Alignment explanation
Indices: 57157--57222 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
57147 AAATAGATGG
*
57157 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
57190 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
57223 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:59031 original size:19 final size:19
Alignment explanation
Indices: 59007--59055 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
58997 AATGTAGGGT
59007 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
59026 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
59045 TATTTTTGTAT
1 TAATTTTGTAT
59056 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:59660 original size:199 final size:199
Alignment explanation
Indices: 59389--60324 Score: 1590
Period size: 199 Copynumber: 4.7 Consensus size: 199
59379 GTGCAACCAT
* *
59389 AAAGTGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATATAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATCG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
59454 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACATTTTTTTAGTT
65 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
*
59519 TGTGTCGATATTTTTGTTCCAGAATAAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
130 TGTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
59584 TATAA
195 TATAA
59589 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
59654 CGGTACAAGTATA-TGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTT
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTT
* * *
59718 GTGTCGATATTTTTAG-TCCAGAATTAATGGCAAACAGGGTGCAACCGTAAAGTGTCGATCCATA
131 GTGTCGATATTTTT-GTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATA
59782 TATAA
195 TATAA
* *
59787 AAAGTGTCGATCCCAAAAACATCAAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAAACATC-GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* * * *
59852 CCGGTACAATTATACCGGTTTTATGAGATAATAGGTCTAAATAATGTGTCGACACGTTTTTAGTT
65 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTT
* * * *
59917 TGTGTCGATATTTTT-TGTCCAGAATGAATGGCAAACAGGCTACAACCATAAAGTGTTGATCCAT
130 TGTGTCGATATTTTTGT-TCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCAT
59981 ATATAA
194 ATATAA
*
59987 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTTATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
* * *
60052 CGGTACAAGTATATCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTGTTTAGTTT
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTT
*
60117 GTGTCGATATTTTTGTTCCAGAATGAATGGAAAATAGGGTGCAACCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATAT
60182 ATAA
196 ATAA
* *
60186 AAAGTGTCTATCCGAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
60251 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTT
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTT
60316 GTGTCGATA
131 GTGTCGATA
60325 CTAATTTAAA
Statistics
Matches: 690, Mismatches: 40, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
198 136 0.20
199 397 0.58
200 157 0.23
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (199 bp):
AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTT
GTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATAT
ATAA
Found at i:61799 original size:6 final size:6
Alignment explanation
Indices: 61788--61839 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
61778 CAAGCGGTCA
* * * * * *
61788 ATGAAG ATGAAG CTGACG ATGATG ATGATG ATGAAG CTGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
61836 ATGA
1 ATGA
61840 TGGTGATGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:61820 original size:24 final size:24
Alignment explanation
Indices: 61788--61841 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
61778 CAAGCGGTCA
* *
61788 ATGAAGATGAAGCTGACGATGATG
1 ATGATGATGAAGCTGACGATGAAG
61812 ATGATGATGAAGCTGACGATGAAG
1 ATGATGATGAAGCTGACGATGAAG
61836 ATGATG
1 ATGATG
61842 GTGATGAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (24 bp):
ATGATGATGAAGCTGACGATGAAG
Found at i:63084 original size:16 final size:16
Alignment explanation
Indices: 63052--63085 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63042 TATCCACAAC
* *
63052 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
63068 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
63084 AA
1 AA
63086 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:63478 original size:23 final size:23
Alignment explanation
Indices: 63447--63519 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
63437 ATAGGTAAAA
*
63447 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
63470 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
63493 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
63516 ATAT
1 ATAT
63520 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:63547 original size:21 final size:21
Alignment explanation
Indices: 63523--63582 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
63513 GTTATATTGT
*
63523 AAAGTATCTATCCTTTTTATA
1 AAAGTGTCTATCCTTTTTATA
63544 AAAGTGTCTATCCTTTTTATA
1 AAAGTGTCTATCCTTTTTATA
*
63565 AAAGTGTCTATACTTTTT
1 AAAGTGTCTATCCTTTTT
63583 TCACTGTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.48
Consensus pattern (21 bp):
AAAGTGTCTATCCTTTTTATA
Found at i:64192 original size:183 final size:183
Alignment explanation
Indices: 63917--64592 Score: 1201
Period size: 183 Copynumber: 3.7 Consensus size: 183
63907 GCAATGCTAT
* * * * *
63917 CGGTATAAATATATCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTACTATT
1 CGGTATAAATAGACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
* *
63982 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGGCGATA-CATTGTCAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
* *
64046 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
*
64100 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATAGACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
64165 GTGTCGGTACTTTATGTCCAAATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
64230 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
* *
64283 CGATATAAATAGACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCTACACTTTCTAATATT
1 CGGTATAAATAGACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
*
64348 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATATGTCGATACCATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
64413 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
*
64466 CGGTATAAATAGATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATAGACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
64531 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
64593 GTAATTTTAA
Statistics
Matches: 474, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
183 470 0.99
184 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
CGGTATAAATAGACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:67069 original size:25 final size:25
Alignment explanation
Indices: 67041--67105 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
67031 TTATCATTAA
*
67041 ATTTAGGTATGTACAATTACTACAT
1 ATTTAGGTATGTACAATAACTACAT
67066 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
67091 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
67106 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:67483 original size:23 final size:23
Alignment explanation
Indices: 67452--67524 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
67442 ATAGGTAAAA
*
67452 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
67475 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
67498 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
67521 ATAT
1 ATAT
67525 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:67908 original size:23 final size:23
Alignment explanation
Indices: 67882--67945 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
67872 ATAGGTAAAA
* *
67882 ATATGATGTTATAGGTAGCGCCT
1 ATATAATGTAATAGGTAGCGCCT
* **
67905 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
67928 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
67946 TTGTTATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:68046 original size:430 final size:430
Alignment explanation
Indices: 67249--69841 Score: 4811
Period size: 430 Copynumber: 6.0 Consensus size: 430
67239 GTTAATGTTG
* * *
67249 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
67313 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
67377 AATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAATATA
131 AATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATA
*
67442 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
194 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGT
* *
67507 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCATT
259 AATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
67572 GT-AGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
324 GTGA-AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA
*
67636 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTG
388 GGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
67679 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
67743 ATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAAAATATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAA-ATTGAAACAT
*
67808 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
* * *
67873 TAGGTAAAAATATGATGTTATAGGTAGCGCCTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
67938 ATAGGTAGTTG-TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
260 ATAGGTAG-TGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
68002 GTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
68067 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
68109 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
68174 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
68239 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
68304 AGGAAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
*
68369 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACAGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
*
68434 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
68499 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
68539 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAA-ACATCAAATAATTTTTTGTGCA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACA-ATCAAATAATTTTTTGTGCA
*
68603 AATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACA
65 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACA
68668 TAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
129 TAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
68733 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGT
194 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGT
68798 AATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
259 AATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
*
68863 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
68928 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
68970 TTAAATTAAAAATTCTAAATAATATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
69035 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
69100 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
69165 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
*
69230 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
* *
69295 GGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
69360 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
69400 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
69465 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATAGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
69530 AATTACATAACTTTAAAAGAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
69595 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* * *
69660 TAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
69725 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
69790 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
69830 TTAAATTAAAAA
1 TTAAATTAAAAA
69842 CAATAAACAT
Statistics
Matches: 2119, Mismatches: 35, Indels: 18
0.98 0.02 0.01
Matches are distributed among these distances:
429 3 0.00
430 1527 0.72
431 566 0.27
432 23 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GAAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:68343 original size:23 final size:23
Alignment explanation
Indices: 68312--68384 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
68302 ATAGGAAAAA
*
68312 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
68335 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
68358 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
68381 ATAT
1 ATAT
68385 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:68774 original size:23 final size:23
Alignment explanation
Indices: 68743--68815 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
68733 ATAGGTAAAA
*
68743 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
68766 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
68789 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
68812 ATAT
1 ATAT
68816 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:68909 original size:861 final size:861
Alignment explanation
Indices: 67249--69841 Score: 4838
Period size: 861 Copynumber: 3.0 Consensus size: 861
67239 GTTAATGTTG
* * *
67249 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
67313 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
*
67377 AATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAATATA
131 AATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATA
*
67442 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
194 ATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGT
* *
67507 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCATT
259 AATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACT
*
67572 GTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
* *
67637 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTGTTAAATT-TAAATTCTAAATAAT
389 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAAT
67701 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTG
454 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTG
* *
67766 TAGGTGGAAAATATGAAACACTATTAAAAAATATTGAAACATAAATTACATAACTTTAAAAGAAG
519 TAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
* *
67831 TATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTTATAG
584 TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
* *
67896 GTAGCGCCTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTG-TTATATTGTAA
649 GTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAG-TGCTTATATTGTAA
67960 AGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
713 AGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
68025 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
778 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
68090 GTTACGATATATATTATTA
843 GTTACGATATATATTATTA
68109 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
68174 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
68239 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
68304 AGGAAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
*
68369 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACAGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
68434 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
68499 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
68564 TTTATAAAATATCAAAA-ACATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
456 TTTATAAAATATCAAAACA-ATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
*
68628 AGGTAGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
520 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
68693 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
585 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
68758 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAG
650 TAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAG
*
68823 TATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
715 TATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTAT
68888 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
780 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
68953 TACGATATATATTATTA
845 TACGATATATATTATTA
*
68970 TTAAATTAAAAATTCTAAATAATATTTTGTAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
69035 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
69100 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
69165 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
*
69230 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
*
69295 GGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
69360 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
69425 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
456 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
*
69490 GGTGGAAAACATGAAACACTATT-AAAAAAATAGAAACATAAATTACATAACTTTAAAAGAAGTA
521 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
*
69554 TCAATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
586 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
*
69619 AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAATGCTTATATTGTAAAGT
651 AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGT
* *
69684 ATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATC
716 ATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATC
69749 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
781 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
69814 ACGATATATATTATTA
846 ACGATATATATTATTA
69830 TTAAATTAAAAA
1 TTAAATTAAAAA
69842 CAATAAACAT
Statistics
Matches: 1693, Mismatches: 34, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
860 595 0.35
861 1070 0.63
862 28 0.02
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (861 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGT
ATCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTTATC
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTA
Found at i:69207 original size:23 final size:23
Alignment explanation
Indices: 69181--69245 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
69171 AAATATGATG
69181 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* *
69204 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
*
69227 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
69246 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:69249 original size:21 final size:22
Alignment explanation
Indices: 69173--69250 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
69163 ATAGGTAAAA
69173 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
69196 ATATAATATAATAGGTAGCGTTT
1 ATAT-ATGTAATAGGTAGCGCTT
*
69219 ATATAATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
69242 ATAT-TGTAA
1 ATATATGTAA
69251 AGTATCTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.10
23 44 0.90
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:69634 original size:23 final size:23
Alignment explanation
Indices: 69603--69675 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
69593 ATAGGTAAAA
*
69603 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
69626 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
69649 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAGCGCTT
69672 ATAT
1 ATAT
69676 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:73721 original size:21 final size:22
Alignment explanation
Indices: 73697--73741 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
73687 AAAAAATATT
*
73697 TTTTTAGAATTTT-AGTTTTAA
1 TTTTTACAATTTTAAGTTTTAA
* *
73718 TTTTTTCAATTTTAATTTTTAA
1 TTTTTACAATTTTAAGTTTTAA
73740 TT
1 TT
73742 AAAAATATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTTACAATTTTAAGTTTTAA
Found at i:74491 original size:18 final size:18
Alignment explanation
Indices: 74451--74491 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
74441 TTATCGACGG
74451 GAATAGGATTACCGGTGGA
1 GAATAGGATTACC-GTGGA
74470 -AATAGGATTACC-TGCGA
1 GAATAGGATTACCGTG-GA
74487 GAATA
1 GAATA
74492 AAATTACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 2 0.10
18 16 0.80
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (18 bp):
GAATAGGATTACCGTGGA
Found at i:74700 original size:41 final size:42
Alignment explanation
Indices: 74609--74717 Score: 116
Period size: 41 Copynumber: 2.6 Consensus size: 42
74599 ATTGTCCTTA
* * * *
74609 TTATATATTTATTTTTTTAACAA-TTTGAATTCTACTATAAT
1 TTATATATATATTTTTTTAAAAATTTTAAATTCTACTAAAAT
* *
74650 TAATTTATATATTTTCTTTAAAAATTTTAAATTC-A-TAAAAT
1 TTATATATATATTTT-TTTAAAAATTTTAAATTCTACTAAAAT
74691 TTATATATATATTTTTTTTACAAAATT
1 TTATATATATA-TTTTTTTA-AAAATT
74718 GAAAAGATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
41 30 0.54
42 18 0.32
43 8 0.14
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.55
Consensus pattern (42 bp):
TTATATATATATTTTTTTAAAAATTTTAAATTCTACTAAAAT
Found at i:79084 original size:13 final size:13
Alignment explanation
Indices: 79066--79097 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
79056 AGCTGAGTTA
79066 TATGAATATTGAT
1 TATGAATATTGAT
79079 TATGAATATTGAT
1 TATGAATATTGAT
79092 TATGAA
1 TATGAA
79098 ACTAATGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TATGAATATTGAT
Found at i:83638 original size:20 final size:19
Alignment explanation
Indices: 83613--83700 Score: 88
Period size: 20 Copynumber: 4.4 Consensus size: 19
83603 CTGAATTTCA
83613 AATTCGCAACTCGATTTCTG
1 AATTCGCAACTCGATTT-TG
*
83633 AATTCGCAACGCGAATTTTG
1 AATTCGCAACTCG-ATTTTG
**
83653 TTTTCGCAACTCGATTTTCG
1 AATTCGCAACTCGATTTT-G
*
83673 AATTCGCAACACGAATTTT-
1 AATTCGCAACTCG-ATTTTG
83692 AATTTCGCA
1 AA-TTCGCA
83701 CCATGTTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
19 7 0.12
20 41 0.72
21 9 0.16
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (19 bp):
AATTCGCAACTCGATTTTG
Found at i:83660 original size:40 final size:40
Alignment explanation
Indices: 83552--83700 Score: 158
Period size: 40 Copynumber: 3.7 Consensus size: 40
83542 ATGACCAACA
* * ** * *
83552 AATTCGCAACGCGAACTCCAATTTCGCAACAC-ATTTTCCA
1 AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTT-CG
* *
83592 AATTCGCAACACTGAATTTCAAATTCGCAACTCGA-TTTCTG
1 AATTCGCAACAC-GAATTTTAATTTCGCAACTCGATTTTC-G
* **
83633 AATTCGCAACGCGAATTTTGTTTTCGCAACTCGATTTTCG
1 AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTTCG
83673 AATTCGCAACACGAATTTTAATTTCGCA
1 AATTCGCAACACGAATTTTAATTTCGCA
83701 CCATGTTTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 56 0.62
41 34 0.37
42 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (40 bp):
AATTCGCAACACGAATTTTAATTTCGCAACTCGATTTTCG
Found at i:83833 original size:22 final size:21
Alignment explanation
Indices: 83808--83851 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
83798 TCATCTATCA
* *
83808 CTATCTCCGACGACATCCGTTC
1 CTATATCCAACGACATCC-TTC
83830 CTATATCCAACGACATCCTTC
1 CTATATCCAACGACATCCTTC
83851 C
1 C
83852 CCATCTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.23, C:0.41, G:0.09, T:0.27
Consensus pattern (21 bp):
CTATATCCAACGACATCCTTC
Found at i:83878 original size:14 final size:15
Alignment explanation
Indices: 83859--83896 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
83849 TCCCCATCTC
83859 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
83873 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
83889 TAATTTTT
1 TAATTTTT
83897 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:84665 original size:24 final size:24
Alignment explanation
Indices: 84638--84683 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
84628 TATTCGAAAT
84638 TTGATCTTGGTCAATACCCGGACA
1 TTGATCTTGGTCAATACCCGGACA
*
84662 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
84684 TTTTGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACA
Found at i:84689 original size:24 final size:24
Alignment explanation
Indices: 84637--84690 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
84627 GTATTCGAAA
84637 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
84661 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
84685 TTTGAT
1 TTTGAT
84691 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:87822 original size:208 final size:205
Alignment explanation
Indices: 87426--87823 Score: 649
Period size: 208 Copynumber: 1.9 Consensus size: 205
87416 TCCAAATGCA
* *
87426 TTCACGCAGCTCACTTCATGATTAACCTGCAGAAACCAAACATTTGCTCAAATAACACTTTCTAC
1 TTCACGCAGCTCACTTCAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAACACTTTCTAC
*
87491 ACATCTAAAACCAACAAACAAAATTATTGAATTTTAGGTACTTAAACCAAACATTTTCAAACCAA
66 ACATCTAAAACCAACAAACAAAATTATTGAATTCTAGGTACTTAAACCAAACATTTTCAAACCAA
*
87556 CAAGTATATAACAGTTAACAACACTTGCACAAACTTACAAATAACAACTGGTTGTTTATGCACAA
131 CAAGTATATAACAGTTAACAACACTTGCACAAACTTACAAATAACAAATGGTTGTTTATGCACAA
87621 ATACATCAAT
196 ATACATCAAT
*
87631 TTCACGCAGCATCACTTCAGGATTAACCTGCAGAAACCAAACATTTTCTCAAACAACACTTTCTA
1 TTCACGCAGC-TCACTTCAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAACACTTTCTA
87696 CACATCTAAAACCAACAAACAACAAATTATTGAATTCTAGGTACTT-AACCAAACATTTTCAAAC
65 CACATCTAAAACCAACAAAC-A-AAATTATTGAATTCTAGGTACTTAAACCAAACATTTTCAAAC
* * *
87760 CAACAAAG-AGTATATA-TGTTAACAACACTTGCTCAAACTTACCAATAACAAATGGTTGTTTAT
128 CAAC-AAGTA-TATA-ACAGTTAACAACACTTGCACAAACTTACAAATAACAAATGGTTGTTTAT
87823 G
190 G
87824 TACACTTTCA
Statistics
Matches: 179, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
205 10 0.06
206 71 0.40
207 24 0.13
208 73 0.41
209 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (205 bp):
TTCACGCAGCTCACTTCAGGATTAACCTGCAGAAACCAAACATTTGCTCAAACAACACTTTCTAC
ACATCTAAAACCAACAAACAAAATTATTGAATTCTAGGTACTTAAACCAAACATTTTCAAACCAA
CAAGTATATAACAGTTAACAACACTTGCACAAACTTACAAATAACAAATGGTTGTTTATGCACAA
ATACATCAAT
Found at i:88971 original size:21 final size:21
Alignment explanation
Indices: 88928--89045 Score: 150
Period size: 21 Copynumber: 5.7 Consensus size: 21
88918 GTGAATCGGG
* *
88928 CTCTTGAACGGTG-GAGGGAC
1 CTCTTGAACGATGAGAGGGGC
*
88948 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
88969 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
88990 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
89011 CTCTTGAACGAT-AGGAGGGGC
1 CTCTTGAACGATGA-GAGGGGC
*
89032 CTCTTGAATGATGA
1 CTCTTGAACGATGA
89046 CATGTGAATC
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.15
21 70 0.83
22 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:88995 original size:42 final size:41
Alignment explanation
Indices: 88928--89047 Score: 186
Period size: 42 Copynumber: 2.9 Consensus size: 41
88918 GTGAATCGGG
88928 CTCTTGAACGGTGGAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGAGGGACCTCTTGAACGATGACAGGGGC
*
88969 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGT-GGAGGGACCTCTTGAACGATGACAGGGGC
* * *
89011 CTCTTGAACGATAGGAGGGGCCTCTTGAATGATGACA
1 CTCTTGAACGGT-GGAGGGACCTCTTGAACGATGACA
89048 TGTGAATCTG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 12 0.17
42 60 0.83
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:89474 original size:21 final size:21
Alignment explanation
Indices: 89402--89497 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 21
89392 TAAAACATCT
*
89402 ACCTCACCACGTAAAG-ACCG
1 ACCTCATCACGTAAAGCACCG
** *
89422 TACCTCATCACGCCATGCACC-
1 -ACCTCATCACGTAAAGCACCG
** * *
89443 ATTGTCGTCACGTAAAGTACCG
1 A-CCTCATCACGTAAAGCACCG
* *
89465 ACCTCATCACGCAAAGCACTG
1 ACCTCATCACGTAAAGCACCG
89486 ACCTCATCACGT
1 ACCTCATCACGT
89498 GACTCCCTTA
Statistics
Matches: 54, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
20 1 0.02
21 49 0.91
22 4 0.07
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.19
Consensus pattern (21 bp):
ACCTCATCACGTAAAGCACCG
Found at i:89496 original size:42 final size:41
Alignment explanation
Indices: 89402--89497 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 41
89392 TAAAACATCT
* * *
89402 ACCTCACCACGTAAAGACCGTACCTCATCACGCCATGCACC
1 ACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCACC
** * *
89443 ATTGTCGTCACGTAAAGTACCG-ACCTCATCACGCAAAGCACTG
1 A-CCTCATCACGTAAAG-ACCGTACCTCATCACGCAAAGCAC-C
89486 ACCTCATCACGT
1 ACCTCATCACGT
89498 GACTCCCTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
41 1 0.02
42 36 0.86
43 5 0.12
ACGTcount: A:0.29, C:0.38, G:0.15, T:0.19
Consensus pattern (41 bp):
ACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCACC
Done.