Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003751.1 Hibiscus syriacus cultivar Beakdansim tig00008029_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: 95726
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:389 original size:29 final size:29
Alignment explanation
Indices: 347--408 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
337 AAATACACAC
*
347 AGGTCGCTCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
376 AGGTCGCCCGGATGCCATGGCGACCTCCA
1 AGGTCGCCCGGATGCCATGGCGACCTCCA
405 AGGT
1 AGGT
409 TACTGTAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.18, C:0.34, G:0.32, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGATGCCATGGCGACCTCCA
Found at i:7062 original size:14 final size:14
Alignment explanation
Indices: 7042--7075 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7032 TGGTAGTATG
7042 CATTTTAAATTATT
1 CATTTTAAATTATT
* *
7056 TATTTTAATTTATT
1 CATTTTAAATTATT
7070 CATTTT
1 CATTTT
7076 TTAGTAATGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (14 bp):
CATTTTAAATTATT
Found at i:7395 original size:21 final size:21
Alignment explanation
Indices: 7371--7444 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
7361 TATTTTAGGG
7371 TTTAGGGTTTAGTATTAATGA
1 TTTAGGGTTTAGTATTAATGA
*
7392 TTTAAGGTTTA-TGATTTAA-GA
1 TTTAGGGTTTAGT-A-TTAATGA
* * *
7413 TTTAGGATTTAGTGTTTAT-A
1 TTTAGGGTTTAGTATTAATGA
7433 GTTTAGGGTTTA
1 -TTTAGGGTTTA
7445 AGGTTCATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
20 5 0.12
21 32 0.76
22 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTAGTATTAATGA
Found at i:7405 original size:14 final size:14
Alignment explanation
Indices: 7388--7444 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
7378 TTTAGTATTA
7388 ATGATTTAAGGTTT
1 ATGATTTAAGGTTT
*
7402 ATGATTTAAGATTT
1 ATGATTTAAGGTTT
*
7416 AGGATTT-AGTGTTT
1 ATGATTTAAG-GTTT
*
7430 AT-AGTTTAGGGTTT
1 ATGA-TTTAAGGTTT
7444 A
1 A
7445 AGGTTCATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 31 0.89
15 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
ATGATTTAAGGTTT
Found at i:7640 original size:25 final size:26
Alignment explanation
Indices: 7595--7649 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
7585 AAAAATTAGT
7595 TATTAAAAATATTATCATTAGA-AATA
1 TATTAAAAATATTATCATTAGATAA-A
* *
7621 TATTAAATAT-TTGTCATTAGATAAA
1 TATTAAAAATATTATCATTAGATAAA
7646 TATT
1 TATT
7650 TTTTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (26 bp):
TATTAAAAATATTATCATTAGATAAA
Found at i:7757 original size:21 final size:22
Alignment explanation
Indices: 7712--7760 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
7702 ACAATTTTCA
*
7712 ATTTTT-TTATTTTTTGGTTGT
1 ATTTTTCTTATTTTTTGATTGT
*
7733 -TTTTTCTTATTTTTT-ATTTT
1 ATTTTTCTTATTTTTTGATTGT
7753 ATTTTTCT
1 ATTTTTCT
7761 AAGTTGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.80
Consensus pattern (22 bp):
ATTTTTCTTATTTTTTGATTGT
Found at i:12633 original size:25 final size:26
Alignment explanation
Indices: 12590--12640 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
12580 TTCAAAATTT
* *
12590 TATAATTATCAATAGTGTATTTTTAA
1 TATAATTATCAATAATGTAATTTTAA
*
12616 TATATTTAT-AATAATGTAATTTTAA
1 TATAATTATCAATAATGTAATTTTAA
12641 AAATCTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TATAATTATCAATAATGTAATTTTAA
Found at i:16817 original size:64 final size:64
Alignment explanation
Indices: 16744--16967 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
16734 TGTTTGAATG
* * **
16744 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCAATTC
16807 A
64 A
* * **
16808 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* ** ** * * ** *
16872 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCTAGCAATAATACTACATCAAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
*
16936 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
16968 ACCTTCATTA
Statistics
Matches: 133, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 126 0.95
65 6 0.05
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:17502 original size:16 final size:16
Alignment explanation
Indices: 17481--17565 Score: 56
Period size: 16 Copynumber: 5.4 Consensus size: 16
17471 TCGAGGGTTT
17481 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
17497 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
17512 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
**
17528 ACATATG---AACAGTTT
1 ACATATGTTTAA-AG-GC
17543 ACATATGTTTAAAGGC
1 ACATATGTTTAAAGGC
17559 ACATATG
1 ACATATG
17566 AACATTTTAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 14 0.27
16 21 0.41
17 4 0.08
18 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (16 bp):
ACATATGTTTAAAGGC
Found at i:17701 original size:31 final size:31
Alignment explanation
Indices: 17477--17698 Score: 408
Period size: 31 Copynumber: 7.2 Consensus size: 31
17467 AGAGTCGAGG
17477 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
17508 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
17539 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
17570 TTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
17601 GTTTACATATGTTTAAAGGTACATATAAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
17632 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
17663 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
17694 GTTTA
1 GTTTA
17699 TATTGTGACC
Statistics
Matches: 184, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 184 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:28760 original size:20 final size:19
Alignment explanation
Indices: 28735--28787 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
28725 GGCTGCTGGA
28735 AACCGGTTTGACCGGTTTTC
1 AACCGGTTTGACCGG-TTTC
28755 AACCGGTTCTGACCGGTTTC
1 AACCGGTT-TGACCGGTTTC
*
28775 AACCGGTCTGACC
1 AACCGGTTTGACC
28788 CAACCCGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 5 0.16
20 19 0.61
21 7 0.23
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTC
Found at i:28809 original size:22 final size:22
Alignment explanation
Indices: 28801--28864 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
28791 CCCGACCGTT
*
28801 GACCAGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
28823 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
28845 GACCCGACCCGACCGTTGAC
1 GACCCGACCCGACCGTTGAC
28865 TGTTGACCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.20, C:0.47, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:28826 original size:5 final size:5
Alignment explanation
Indices: 28818--28858 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
28808 CCCGACCGTT
*
28818 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC
28859 GTTGACTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.05
Consensus pattern (5 bp):
GACCC
Found at i:28853 original size:17 final size:17
Alignment explanation
Indices: 28783--28831 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
28773 TCAACCGGTC
*
28783 TGACCCAACCCGACCGT
1 TGACCCGACCCGACCGT
*
28800 TGACCAGACCCGACCGT
1 TGACCCGACCCGACCGT
28817 TGACCCGACCCGACC
1 TGACCCGACCCGACC
28832 CGACCGTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.22, C:0.47, G:0.20, T:0.10
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:28871 original size:7 final size:7
Alignment explanation
Indices: 28855--28885 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
28845 GACCCGACCC
28855 GACCGTT
1 GACCGTT
*
28862 GACTGTT
1 GACCGTT
28869 GACCGTT
1 GACCGTT
28876 GACCGTT
1 GACCGTT
28883 GAC
1 GAC
28886 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:29823 original size:63 final size:63
Alignment explanation
Indices: 29755--29878 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
29745 CTAATGTGAC
* ** * *
29755 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
29818 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
29879 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:36075 original size:9 final size:9
Alignment explanation
Indices: 36061--36130 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
36051 GCTGCTGGAA
36061 ACCGGTTTG
1 ACCGGTTTG
*
36070 ACCGGTTTTCA
1 ACCGG-TTT-G
36081 ACCGGTTCTG
1 ACCGGTT-TG
36091 ACCGGTTTG
1 ACCGGTTTG
*
36100 ACCGGTCTG
1 ACCGGTTTG
*
36109 AATCGGTTTG
1 -ACCGGTTTG
*
36119 ACCGGTCTG
1 ACCGGTTTG
36128 ACC
1 ACC
36131 CGACCCGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 25 0.50
10 19 0.38
11 6 0.12
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:36085 original size:20 final size:21
Alignment explanation
Indices: 36060--36098 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36050 GGCTGCTGGA
36060 AACCGGTT-TGACCGGTTTTC
1 AACCGGTTCTGACCGGTTTTC
36080 AACCGGTTCTGACCGGTTT
1 AACCGGTTCTGACCGGTTT
36099 GACCGGTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
AACCGGTTCTGACCGGTTTTC
Found at i:36097 original size:30 final size:28
Alignment explanation
Indices: 36061--36130 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 28
36051 GCTGCTGGAA
*
36061 ACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TCTCAACCGGTT-TG
* *
36091 ACCGGTTTGACCGGTCTGAATCGGTTTG
1 ACCGGTTTGACCGGTCTCAACCGGTTTG
*
36119 ACCGGTCTGACC
1 ACCGGTTTGACC
36131 CGACCCGACC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 13 0.36
29 9 0.25
30 14 0.39
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTCTCAACCGGTTTG
Found at i:36105 original size:19 final size:18
Alignment explanation
Indices: 36061--36130 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 18
36051 GCTGCTGGAA
* *
36061 ACCGGTTTGACCGGTTTTCA
1 ACCGGTCTGACCGG-TTT-G
36081 ACCGGTTCTGACCGGTTTG
1 ACCGG-TCTGACCGGTTTG
*
36100 ACCGGTCTGAATCGGTTTG
1 ACCGGTCTG-ACCGGTTTG
36119 ACCGGTCTGACC
1 ACCGGTCTGACC
36131 CGACCCGACC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.14
19 22 0.50
20 8 0.18
21 8 0.18
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (18 bp):
ACCGGTCTGACCGGTTTG
Found at i:36153 original size:22 final size:22
Alignment explanation
Indices: 36127--36169 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
36117 TGACCGGTCT
36127 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
36149 GACCCGACCCGACTGTTGACC
1 GACCCGACCCGACCGTTGACC
36170 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.12
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:36175 original size:7 final size:7
Alignment explanation
Indices: 36163--36200 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
36153 CGACCCGACT
36163 GTTGACC
1 GTTGACC
36170 GTTGACC
1 GTTGACC
36177 GTTGACC
1 GTTGACC
36184 GTTGACC
1 GTTGACC
36191 GTTGACC
1 GTTGACC
36198 GTT
1 GTT
36201 AACTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.26, G:0.29, T:0.32
Consensus pattern (7 bp):
GTTGACC
Found at i:37144 original size:63 final size:63
Alignment explanation
Indices: 37076--37199 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
37066 CTAATGTGAC
* ** * *
37076 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
37139 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
37200 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:38228 original size:17 final size:15
Alignment explanation
Indices: 38188--38219 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
38178 TTAATAAATA
38188 ATTAT-AAATATATT
1 ATTATAAAATATATT
38202 ATTATAAAATATATT
1 ATTATAAAATATATT
38217 ATT
1 ATT
38220 TAATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:38232 original size:50 final size:46
Alignment explanation
Indices: 38130--38233 Score: 111
Period size: 50 Copynumber: 2.2 Consensus size: 46
38120 CATATTATTT
* * * *
38130 AATTATTAAAAATATAAAAATTATTGTACAATATATTAATTTAATC
1 AATTAATAAAAATATAAAAATTATTATAAAATATATTAATTTAATA
*
38176 ATTTAATAAATAATTATAAATATATTATTATAAAATATATT-ATTTAATAA
1 AATTAATAAA-AA-TATAAA-A-ATTATTATAAAATATATTAATTTAAT-A
38226 AATTAATA
1 AATTAATA
38234 TATTCAGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
46 8 0.17
47 2 0.04
48 6 0.13
49 8 0.17
50 23 0.49
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (46 bp):
AATTAATAAAAATATAAAAATTATTATAAAATATATTAATTTAATA
Found at i:39644 original size:21 final size:21
Alignment explanation
Indices: 39614--39659 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
39604 TTCCAGATTC
*
39614 GCAACGCGAACATCGACTATA
1 GCAACACGAACATCGACTATA
* *
39635 GCAACACGAACTTCGACTATC
1 GCAACACGAACATCGACTATA
39656 GCAA
1 GCAA
39660 TGCGATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.15
Consensus pattern (21 bp):
GCAACACGAACATCGACTATA
Found at i:39717 original size:21 final size:21
Alignment explanation
Indices: 39693--39742 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
39683 ATAGTCTAAA
* *
39693 TTCGCGTTGCGATAGTCCATG
1 TTCGCGTTGCGATAATCCAAG
*
39714 TT--CGTTGCGATAATCGAAG
1 TTCGCGTTGCGATAATCCAAG
39733 TTCGCGTTGC
1 TTCGCGTTGC
39743 AATTTATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.16, C:0.22, G:0.28, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAATCCAAG
Found at i:42309 original size:3 final size:3
Alignment explanation
Indices: 42301--42402 Score: 141
Period size: 3 Copynumber: 33.0 Consensus size: 3
42291 TTCATTTAAA
** *
42301 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
42349 ATA ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT AATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT -ATT AT-T ATT ATT
42397 ATT ATT
1 ATT ATT
42403 TAAATATTAC
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
3 79 0.90
4 9 0.10
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:44481 original size:20 final size:21
Alignment explanation
Indices: 44458--44509 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
44448 AGAAATTAAA
44458 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
44478 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
44500 -ATT-ATTTATT
1 AATTCATTTATT
44510 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:46141 original size:14 final size:14
Alignment explanation
Indices: 46122--46174 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
46112 ATTTAAATAA
*
46122 TTTACATTTACATT
1 TTTACATTTGCATT
*
46136 TTTACATTTGCATA
1 TTTACATTTGCATT
46150 TTTACATTTGGCATT
1 TTTACATTT-GCATT
*
46165 TTTGCATTTG
1 TTTACATTTG
46175 TATTGCACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:46243 original size:27 final size:26
Alignment explanation
Indices: 46213--46272 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
46203 CATTCACATA
*
46213 TTTACATTTGAATTTGCATTTGCATTT
1 TTTACATTTGAATTTACATTTGCA-TT
* * *
46240 TTTACGTTTGTATTTACATTTTCATT
1 TTTACATTTGAATTTACATTTGCATT
46266 TTTACAT
1 TTTACAT
46273 AATTACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTACATTTGAATTTACATTTGCATT
Found at i:48239 original size:6 final size:6
Alignment explanation
Indices: 48227--48270 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
48217 TCCAGCAAAG
* *
48227 AAAGAA GAAGAA GAA-AA AAAGAA AAAGAA AAAGAA AAAGGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AA
48271 TCGAATAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 4 0.12
6 25 0.74
7 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:50593 original size:83 final size:83
Alignment explanation
Indices: 50492--50756 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
50482 AATGGAACAA
50492 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
50557 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
50575 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
50640 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
50658 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
50722 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
50741 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
50757 TAGAAATAAG
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.02
83 170 0.98
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:50810 original size:105 final size:105
Alignment explanation
Indices: 50670--50913 Score: 488
Period size: 105 Copynumber: 2.3 Consensus size: 105
50660 GAATTTGTTC
50670 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
50735 TGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
50775 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
50840 TGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
50880 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
50914 GATATGATTC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 139 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (105 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
TGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
Found at i:53362 original size:22 final size:22
Alignment explanation
Indices: 53331--53385 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
53321 ATCTACACTC
**
53331 TTCAAAGATGGTAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
53353 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
53375 TTCAAAGATGA
1 TTCAAAGATGA
53386 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:54230 original size:76 final size:76
Alignment explanation
Indices: 54055--54342 Score: 542
Period size: 76 Copynumber: 3.8 Consensus size: 76
54045 CTATTTCCCA
*
54055 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATC-TTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
54119 AGCCTTCGGGT
66 AGCCTTCGGGT
54130 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
54195 AGCCTTCGGGT
66 AGCCTTCGGGT
*
54206 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
54271 AGCCTTCGGGT
66 AGCCTTCGGGT
*
54282 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTT
54343 CCAAAAAGCC
Statistics
Matches: 208, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
75 48 0.23
76 160 0.77
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
AGCCTTCGGGT
Found at i:54339 original size:31 final size:31
Alignment explanation
Indices: 54304--54373 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
54294 CTTCAGTGCA
54304 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
54335 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
54366 TGATGTTT
1 TGATGTTT
54374 TTAAAGCCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
Found at i:54344 original size:107 final size:107
Alignment explanation
Indices: 54228--54449 Score: 419
Period size: 107 Copynumber: 2.1 Consensus size: 107
54218 CTTCAGTGCA
54228 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54293 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GAGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAG-GAGCTTTT
*
54335 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54400 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
54442 TGATGTTT
1 TGATGTTT
54450 TTAAAGCCTT
Statistics
Matches: 113, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 112 0.99
108 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (107 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTT
Found at i:54460 original size:183 final size:183
Alignment explanation
Indices: 54152--54719 Score: 739
Period size: 183 Copynumber: 3.1 Consensus size: 183
54142 CTTCAGTGCA
54152 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54217 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGT
54282 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
131 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
54335 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54400 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGT
66 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGT
54465 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-AGGAGC-TTT
131 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGA-GAGCTTTT
** * * * * ** * * * * * ***
54517 TGATGTTT--TTAAAGCCTTCGGG-TC-ATCTGTAAGTCCTT-CAGTGCAT-GATGT-TTCCAAA
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTG-ATGTTTTTAAAG-CCTTCG-GGTCAT-CTGT
* *** ** *
54575 AAGCCTTCGAGAGCT-TTTGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTTAAAGCC
62 AAG--TCCTTCAG-TGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCC
* *
54638 TTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
124 TTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
54698 TGATGTTTTC--AAAGCCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
54720 TCATCTGTAA
Statistics
Matches: 348, Mismatches: 25, Indels: 26
0.87 0.06 0.07
Matches are distributed among these distances:
178 7 0.02
179 14 0.04
180 84 0.24
181 53 0.15
182 13 0.04
183 177 0.51
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (183 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGT
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
Found at i:54562 original size:75 final size:76
Alignment explanation
Indices: 54335--54599 Score: 491
Period size: 76 Copynumber: 3.5 Consensus size: 76
54325 GAGAGCTTTT
*
54335 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54400 CCTTCAGTGCA
66 CCTTCAGTGCA
54411 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54476 CCTTCAGTGCA
66 CCTTCAGTGCA
54487 TGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
54551 CCTTCAGTGCA
66 CCTTCAGTGCA
54562 TGATGTTTCCAAAAAGCCTTC-GAGAGC-TTTTGATGTTT
1 TGATGTTTCCAAAAAGCCTTCAG-GAGCTTTTTGATGTTT
54600 CCAAAAAGCC
Statistics
Matches: 187, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
74 1 0.01
75 84 0.45
76 102 0.55
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCA
Found at i:54596 original size:30 final size:30
Alignment explanation
Indices: 54562--54629 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
54552 CTTCAGTGCA
54562 TGATGTTTCCAAAAAGCCTTCGAGAGCTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTT
*
54592 TGATGTTTCCAAAAAGCCTTCGGGAGCTTT
1 TGATGTTTCCAAAAAGCCTTCGAGAGCTTT
54622 TGATGTTT
1 TGATGTTT
54630 TTAAAGCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (30 bp):
TGATGTTTCCAAAAAGCCTTCGAGAGCTTT
Found at i:54603 original size:105 final size:106
Alignment explanation
Indices: 54487--54710 Score: 405
Period size: 105 Copynumber: 2.1 Consensus size: 106
54477 CTTCAGTGCA
54487 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTC
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTC
54552 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGC-TTT
66 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
54592 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTC
1 TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTC
* *
54657 CTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
66 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
*
54698 TGATGTTTTCAAA
1 TGATGTTTCCAAA
54711 GCCTTCGGGT
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 99 0.87
106 15 0.13
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (106 bp):
TGATGTTTCCAAAAAGCCTTCAGGAGCTTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGTC
CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTT
Found at i:54671 original size:75 final size:76
Alignment explanation
Indices: 54592--54750 Score: 293
Period size: 76 Copynumber: 2.1 Consensus size: 76
54582 CGAGAGCTTT
*
54592 TGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTTAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
54656 CCTTCAGTGCA
66 CCTTCAGTGCA
*
54667 TGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
54732 CCTTCAGTGCA
66 CCTTCAGTGCA
54743 TGATGTTT
1 TGATGTTT
54751 TCAACATTTC
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
75 26 0.32
76 55 0.68
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGT
CCTTCAGTGCA
Found at i:54889 original size:3 final size:3
Alignment explanation
Indices: 54881--54972 Score: 89
Period size: 3 Copynumber: 30.0 Consensus size: 3
54871 TTCATTTAAA
** * *
54881 ATT ATT ATT ATT AAA ATT A-T ATT ATT ATT AGT ATT ATT ATAT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
*
54926 ATT ATT A-T ATT ATT ATTT ATT ATT ATT AAT ATAT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT
54973 TAAATATTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
2 4 0.05
3 57 0.77
4 13 0.18
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:54938 original size:33 final size:30
Alignment explanation
Indices: 54883--54972 Score: 103
Period size: 33 Copynumber: 2.9 Consensus size: 30
54873 CATTTAAAAT
* *
54883 TATTATTATTA-AAATTATATTATTATTAG
1 TATTATTAATATATATTATATTATTATTAG
*
54912 TATTATTATATATAATTATTATATTATTATTTAT
1 TATTATTA-ATAT-A-TATTATATTATTA-TTAG
54946 TATTATTAATATATA-TATATTATTATT
1 TATTATTAATATATATTATATTATTATT
54973 TAAATATTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
29 10 0.19
30 12 0.23
31 2 0.04
32 2 0.04
33 16 0.30
34 11 0.21
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
TATTATTAATATATATTATATTATTATTAG
Found at i:58125 original size:17 final size:18
Alignment explanation
Indices: 58105--58142 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
58095 TTTAAATATT
58105 TTATATTACT-TTTTAAA
1 TTATATTACTGTTTTAAA
**
58122 TTATATTTTTGTTTTAAA
1 TTATATTACTGTTTTAAA
58140 TTA
1 TTA
58143 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATATTACTGTTTTAAA
Found at i:58138 original size:18 final size:17
Alignment explanation
Indices: 58115--58148 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
58105 TTATATTACT
58115 TTTTAAATTATATTTTTG
1 TTTTAAATTA-ATTTTTG
58133 TTTTAAATTAATTTTT
1 TTTTAAATTAATTTTT
58149 AAAATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAATTAATTTTTG
Found at i:62534 original size:30 final size:30
Alignment explanation
Indices: 62500--62560 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
62490 TGCTTGGTCG
*
62500 TTGGAGATTTGTTAAATTTTTCTTAACGTT
1 TTGGAGATTTGTTAAATTTTTCCTAACGTT
62530 TTGGAGATTTGTTAAATTTTTCCTAACGTT
1 TTGGAGATTTGTTAAATTTTTCCTAACGTT
62560 T
1 T
62561 CGTTAGCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.52
Consensus pattern (30 bp):
TTGGAGATTTGTTAAATTTTTCCTAACGTT
Found at i:62848 original size:21 final size:23
Alignment explanation
Indices: 62824--62881 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
62814 GTTGTCAAAT
*
62824 TTATTTAAATAT-T-ATAAATAA
1 TTATTTAAATATATAAAAAATAA
62845 TTA-TTAAATTATAATAAAAAATAA
1 TTATTTAAA-TAT-ATAAAAAATAA
*
62869 GTATTTAAATATA
1 TTATTTAAATATA
62882 ATTTAATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 5 0.17
21 6 0.20
23 2 0.07
24 12 0.40
25 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TTATTTAAATATATAAAAAATAA
Found at i:63469 original size:12 final size:12
Alignment explanation
Indices: 63440--63493 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
63430 AATGATTAAC
63440 ATATTTAA-AAT
1 ATATTTAATAAT
*
63451 ATATTTATTAAT
1 ATATTTAATAAT
*
63463 ATTTTTAATAAT
1 ATATTTAATAAT
*
63475 ATAATATAATAAT
1 AT-ATTTAATAAT
63488 AATATT
1 -ATATT
63494 ATTACAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 7 0.21
12 15 0.44
13 10 0.29
14 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:63704 original size:23 final size:21
Alignment explanation
Indices: 63677--63731 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
63667 TAGTCTAATA
63677 ATATTATAAAAATTCTTTAAAAT
1 ATATTATAAAAA-T-TTTAAAAT
*
63700 ATATTTATTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
63723 ATAATATAA
1 ATATTATAA
63732 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 14 0.50
24 4 0.14
25 5 0.18
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:63732 original size:21 final size:23
Alignment explanation
Indices: 63692--63739 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
63682 ATAAAAATTC
*
63692 TTTAAAATATATTTATTAATAAT
1 TTTAAAATATATATATTAATAAT
*
63715 TTTAAAATATA-ATA-TAATATT
1 TTTAAAATATATATATTAATAAT
63736 TTTA
1 TTTA
63740 TTTTTATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 2 0.09
23 11 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAAAATATATATATTAATAAT
Found at i:63831 original size:29 final size:33
Alignment explanation
Indices: 63768--63836 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 33
63758 ATAATTTATC
*
63768 ATATTTTTATTTTAATAGAATATACTAGAATTA
1 ATATTTTTATTTTAATAAAATATACTAGAATTA
63801 ATATTTTTA-TTT-ATAAAAT-TA-TAG-ATATA
1 ATATTTTTATTTTAATAAAATATACTAGAAT-TA
63830 ATATTTT
1 ATATTTT
63837 AATAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.06
29 12 0.35
30 2 0.06
31 6 0.18
32 3 0.09
33 9 0.26
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (33 bp):
ATATTTTTATTTTAATAAAATATACTAGAATTA
Found at i:63906 original size:17 final size:19
Alignment explanation
Indices: 63857--63906 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
63847 TTGACATAAA
*
63857 TAATATTAAATAAATTATTC
1 TAATATT-AATAAAATATTC
**
63877 TAATATTTTTAAAATA-T-
1 TAATATTAATAAAATATTC
63894 TAATATTAATAAA
1 TAATATTAATAAA
63907 TAATATTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 11 0.44
18 1 0.04
19 6 0.24
20 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTAATAAAATATTC
Found at i:67866 original size:27 final size:27
Alignment explanation
Indices: 67825--67879 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
67815 ATCAACGGCT
*
67825 CGTGATTCTTCAATTATTGGTGCATGG
1 CGTGATTCTTAAATTATTGGTGCATGG
67852 CGTGATTCTTAAATTATTGGTGCATGG
1 CGTGATTCTTAAATTATTGGTGCATGG
67879 C
1 C
67880 AGCCGACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (27 bp):
CGTGATTCTTAAATTATTGGTGCATGG
Found at i:68092 original size:17 final size:17
Alignment explanation
Indices: 68070--68105 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
68060 TTACTAGTTT
68070 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
68087 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
68104 GT
1 GT
68106 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGGGTTAGG
Found at i:68312 original size:30 final size:30
Alignment explanation
Indices: 68243--68348 Score: 142
Period size: 30 Copynumber: 3.5 Consensus size: 30
68233 TTTAGTTAAT
* *
68243 TAGTTTTTTAGTAGTGAA-TTATAATTAAAAAA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAGAA
* *
68275 TATTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
68305 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
68335 TAGTTTATTAGTTG
1 TAGTTTATTAGTTG
68349 TTTAAAGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
30 53 0.79
31 4 0.06
32 10 0.15
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:68343 original size:15 final size:16
Alignment explanation
Indices: 68290--68344 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
68280 TATTAGTTTA
68290 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
68306 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
68320 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
68336 AGTT-TATTA
1 AGTTATATTA
68345 GTTGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:68429 original size:15 final size:16
Alignment explanation
Indices: 68401--68434 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
68391 GTTTGTTACT
68401 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
68417 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
68432 TTA
1 TTA
68435 ATTTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:70600 original size:25 final size:25
Alignment explanation
Indices: 70572--70620 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
70562 ATATTTATAA
70572 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTACTATCAAATCATTAT
70597 TAAATCATTACTATCAAATCATTA
1 TAAATCATTACTATCAAATCATTA
70621 AAAATTAATA
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:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATCATTACTATCAAATCATTAT
Found at i:70603 original size:11 final size:14
Alignment explanation
Indices: 70573--70620 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
70563 TATTTATAAT
70573 AAATCATTACTATC
1 AAATCATTACTATC
70587 AAATCATTA-T-T-
1 AAATCATTACTATC
70598 AAATCATTACTATC
1 AAATCATTACTATC
70612 AAATCATTA
1 AAATCATTA
70621 AAAATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.29
12 2 0.06
13 2 0.06
14 18 0.58
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:70652 original size:60 final size:60
Alignment explanation
Indices: 70588--70889 Score: 444
Period size: 60 Copynumber: 5.2 Consensus size: 60
70578 ATTACTATCA
* * *
70588 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
*
70648 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
*
70708 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
* *
70768 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
* *
70821 --T-ATTACTAAATCATTACTATCAAATCCTTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
70878 AAATCATTACTA
1 -AATCATTACTA
70890 TCAAATCATT
Statistics
Matches: 222, Mismatches: 9, Indels: 21
0.88 0.04 0.08
Matches are distributed among these distances:
50 45 0.20
51 1 0.00
53 1 0.00
54 1 0.00
56 1 0.00
57 1 0.00
60 165 0.74
61 7 0.03
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
Found at i:70666 original size:21 final size:22
Alignment explanation
Indices: 70642--70793 Score: 75
Period size: 21 Copynumber: 7.5 Consensus size: 22
70632 TAATTTAATT
70642 ATTACTAATC-ATTACTAAATC
1 ATTACTAATCAATTACTAAATC
* *
70663 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC-AATTACTAAATC
* * *
70684 ATTAATAA-CAATT--T-CATT
1 ATTACTAATCAATTACTAAATC
70702 ATTACTAATC-ATTACTAAATC
1 ATTACTAATCAATTACTAAATC
* *
70723 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC-AATTACTAAATC
* * *
70744 ATTAATAA-CAATT--T-CATT
1 ATTACTAATCAATTACTAAATC
*
70762 ATTACTAATC-ATTATTAAATC
1 ATTACTAATCAATTACTAAATC
70783 ATTACT-ATCAA
1 ATTACTAATCAA
70794 ATCATTAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
17 4 0.04
18 22 0.22
19 2 0.02
20 17 0.17
21 35 0.36
22 18 0.18
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTACTAATCAATTACTAAATC
Found at i:70726 original size:120 final size:120
Alignment explanation
Indices: 70588--71438 Score: 1056
Period size: 120 Copynumber: 7.6 Consensus size: 120
70578 ATTACTATCA
* *
70588 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
70653 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
* *
70708 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
* * *
70773 TTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
*
70821 --T-ATTACTAAATCATTACTATCAAATCCTTAAAAATTAATAATAATTTC------A-T--T-A
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
70873 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
* *
70928 AATCA-T--T--A-C--TA-T-T-AAATCATTAAATATTAATAACAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
*
70982 TTACTAAATAATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
* *
71037 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATATCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
* *
71102 TTATTAAATCATTACTATCAAATCATTAAAAATTAAT---AA--T-A--ATT--T
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
*
71147 CATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
* *
71211 TTACT--ATCA--A--AT----T-ATTAAAAATTAATAATAATTTC---ATT---
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
71249 ----ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
* *
71309 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
66 TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
* *
71364 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
71429 TTACTAAATC
66 TTACTAAATC
71439 TTATAAATAC
Statistics
Matches: 642, Mismatches: 30, Indels: 118
0.81 0.04 0.15
Matches are distributed among these distances:
98 78 0.12
99 25 0.04
100 49 0.08
101 4 0.01
102 3 0.00
103 7 0.01
104 4 0.01
105 3 0.00
106 2 0.00
107 6 0.01
108 2 0.00
109 140 0.22
110 55 0.09
111 1 0.00
112 7 0.01
113 1 0.00
114 3 0.00
115 2 0.00
117 4 0.01
118 1 0.00
119 7 0.01
120 238 0.37
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (120 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
TTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
Found at i:71005 original size:60 final size:60
Alignment explanation
Indices: 70922--71167 Score: 395
Period size: 60 Copynumber: 4.1 Consensus size: 60
70912 CAATTTCATT
* * *
70922 ATTACT-AATCATTACTATTAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* * *
70981 ATTACTAAATAATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
71041 ATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATATCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
* *
71101 ATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
71161 ATTACTA
1 ATTACTA
71168 TCAAATCATT
Statistics
Matches: 176, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
59 6 0.03
60 170 0.97
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:71016 original size:21 final size:20
Alignment explanation
Indices: 70877--71136 Score: 81
Period size: 21 Copynumber: 12.4 Consensus size: 20
70867 TCATTATTAC
70877 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
70899 TAAATATTAATAACAATTTCATTAT
1 TAAATATTACTATCAA--TC---AT
*
70924 TACTAATCATTACTATTAAATCAT
1 TA--AAT-ATTACTA-TCAATCAT
* *
70948 TAAATATTAATAACAAT--T
1 TAAATATTACTATCAATCAT
* * * *
70966 TCATTATTACTAATC-ATTAC
1 TAAATATTACT-ATCAATCAT
70986 TAAATAATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
71008 TAAATATTAATAACAAT--T
1 TAAATATTACTATCAATCAT
* * *
71026 TCATTATTACTAATC-ATTAT
1 TAAATATTACT-ATCAATCAT
71046 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
71068 TAAAAATTA--AT-AATAAT
1 TAAATATTACTATCAATCAT
* * *
71085 ATCATTATTACTAATC-ATTAT
1 -TAAATATTACT-ATCAATCAT
71106 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
*
71128 TAAAAATTA
1 TAAATATTA
71137 ATAATAATTT
Statistics
Matches: 173, Mismatches: 36, Indels: 59
0.65 0.13 0.22
Matches are distributed among these distances:
17 5 0.03
18 28 0.16
19 6 0.03
20 27 0.16
21 52 0.30
22 34 0.20
24 4 0.02
25 4 0.02
27 5 0.03
28 6 0.03
29 2 0.01
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATATTACTATCAATCAT
Found at i:71161 original size:49 final size:49
Alignment explanation
Indices: 71099--71314 Score: 400
Period size: 49 Copynumber: 4.4 Consensus size: 49
71089 TTATTACTAA
71099 TCATTATTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
*
71146 TCATCATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
*
71195 TCATTATTACTAATCATTACTATCAAATTATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
71244 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
71293 TCATTATTACTAATCATTACTA
1 TCATTATTACTAATCATTACTA
71315 AATCATTAAT
Statistics
Matches: 163, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
47 8 0.05
49 155 0.95
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
Found at i:71322 original size:21 final size:21
Alignment explanation
Indices: 71298--71438 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
71288 TAATTTCATT
71298 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
71319 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
71340 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
71358 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* *
71379 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * *
71400 ATTAATAATAATT--T-CATC
1 ATTACTAATCATTACTAAATC
71418 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
71439 TTATAAATAC
Statistics
Matches: 87, Mismatches: 19, Indels: 28
0.65 0.14 0.21
Matches are distributed among these distances:
17 4 0.05
18 24 0.28
20 12 0.14
21 27 0.31
22 20 0.23
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:71329 original size:60 final size:60
Alignment explanation
Indices: 71249--71438 Score: 346
Period size: 60 Copynumber: 3.2 Consensus size: 60
71239 TAATTTCATT
*
71249 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
71308 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
71368 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
71428 ATTACTAAATC
1 ATTACTAAATC
71439 TTATAAATAC
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
59 6 0.05
60 120 0.95
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:74341 original size:26 final size:24
Alignment explanation
Indices: 74281--74341 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
74271 TACTAATATT
*
74281 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
74305 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
74332 ATTTAATAAT
1 A-TTAATAAT
74342 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:75169 original size:21 final size:21
Alignment explanation
Indices: 75136--75184 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
75126 AATATAATAT
75136 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
75157 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
75178 ATTAACT
1 A-TAACT
75185 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:75707 original size:13 final size:13
Alignment explanation
Indices: 75689--75715 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75679 GGATGATGCA
75689 GACCTACCATGTC
1 GACCTACCATGTC
75702 GACCTACCATGTC
1 GACCTACCATGTC
75715 G
1 G
75716 TCGGGACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (13 bp):
GACCTACCATGTC
Found at i:75737 original size:29 final size:29
Alignment explanation
Indices: 75695--75777 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
75685 TGCAGACCTA
* *
75695 CCATGTCGACCTACCATGTCGTCGGGACT
1 CCATGGCGACCTACCATGTCGCCGGGACT
75724 CCATGGCGACCTACCATGTCGCCGGGACT
1 CCATGGCGACCTACCATGTCGCCGGGACT
75753 CCATGGCGACCTACCATGTCGCCGG
1 CCATGGCGACCTACCATGTCGCCGG
75778 TCATGGCAAC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.17, C:0.37, G:0.27, T:0.19
Consensus pattern (29 bp):
CCATGGCGACCTACCATGTCGCCGGGACT
Found at i:77431 original size:11 final size:11
Alignment explanation
Indices: 77415--77451 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
77405 GAAATCGTGA
77415 TCGATCGACTG
1 TCGATCGACTG
77426 TCGATCGACTG
1 TCGATCGACTG
*
77437 TCGATCGACCG
1 TCGATCGACTG
77448 TCGA
1 TCGA
77452 AATCGAGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (11 bp):
TCGATCGACTG
Found at i:77860 original size:29 final size:30
Alignment explanation
Indices: 77813--77871 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
77803 TTTGAGTTAC
* *
77813 GAAATGAAACGTTAGACACCAAACTTGAAT
1 GAAATGAAACGTTAAACACCAAACTGGAAT
*
77843 GAAAT-AAACGTTAAACACTAAACTGGAAT
1 GAAATGAAACGTTAAACACCAAACTGGAAT
77872 CAAAGGCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (30 bp):
GAAATGAAACGTTAAACACCAAACTGGAAT
Found at i:78766 original size:104 final size:103
Alignment explanation
Indices: 78657--78892 Score: 287
Period size: 102 Copynumber: 2.3 Consensus size: 103
78647 TTGTTATGAT
*
78657 CATGATAACGTAGTAGATAACACTTTTTTTTTTTAATGTCAACCATTTAAGTTATAAGTATGAAA
1 CATGATAACGTAGTAGATAACACTTTTTTTTTTT-ATGTCAAACATTTAAGTTATAAGTATGAAA
* * *
78722 CCATTTGTATGACGCAAAAGTAAGACAAAACATA-TTTCC
65 CCATTTATATGACACAAAAGTAAGACAAAACA-AGTTGCC
* * * * ** *
78761 CATGATAGCGTAGTAGAT-ATAGTCTTTTTTTTTATGTCAAATGTTTAAGTTATAAGTGTGAAAC
1 CATGATAACGTAGTAGATAACACTTTTTTTTTTTATGTCAAACATTTAAGTTATAAGTATGAAAC
* * * *
78825 CGTTTATATTATACAAAAGTAAGACAAAACAAGTTGCT
66 CATTTATATGACACAAAAGTAAGACAAAACAAGTTGCC
* *
78863 CATGATAACGTATTAGGTAACACTTTTTTT
1 CATGATAACGTAGTAGATAACACTTTTTTT
78893 ATGTTAACGA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
101 1 0.01
102 71 0.65
103 20 0.18
104 17 0.16
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (103 bp):
CATGATAACGTAGTAGATAACACTTTTTTTTTTTATGTCAAACATTTAAGTTATAAGTATGAAAC
CATTTATATGACACAAAAGTAAGACAAAACAAGTTGCC
Found at i:78967 original size:99 final size:100
Alignment explanation
Indices: 78827--79035 Score: 239
Period size: 99 Copynumber: 2.1 Consensus size: 100
78817 TGTGAAACCG
* * *
78827 TTTATATTATACAAAAGTAAGACAAAACAAGTTGCTCATGATAACGTATTAGGTAACAC-TTTTT
1 TTTATATTATACAAAAGTAAGACAAAACAAGTTACTCATGATAACGAACTAGGTAACACATTTTT
** * *
78891 TTATGTTAA-CGATTTAAGTTATATGTATAAAAT-A
66 TTATGCCAACCG-TTTAAGCTATAAGTATAAAATAA
* * * *
78925 TATTATATTATGA-AAAAGTAAGACAAAAC-AGATTATTTATGATAATGAACTAGGTAATACATT
1 T-TTATATTAT-ACAAAAGTAAGACAAAACAAG-TTACTCATGATAACGAACTAGGTAACACATT
*
78988 TTTTTATGCCAACCGTTTAAGCTATAAGTATGAAATAA
63 TTTTTATGCCAACCGTTTAAGCTATAAGTATAAAATAA
79026 TTTATATTAT
1 TTTATATTAT
79036 TAAATATTAA
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
98 3 0.03
99 46 0.49
100 40 0.43
101 4 0.04
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.38
Consensus pattern (100 bp):
TTTATATTATACAAAAGTAAGACAAAACAAGTTACTCATGATAACGAACTAGGTAACACATTTTT
TTATGCCAACCGTTTAAGCTATAAGTATAAAATAA
Found at i:79725 original size:182 final size:186
Alignment explanation
Indices: 79319--79743 Score: 461
Period size: 190 Copynumber: 2.3 Consensus size: 186
79309 ACACTTTCGA
* * *** * *
79319 ATTTTTTAAAAAAATATTAACATTCTAAATTTTAACCTACTTTCATAATGAACCATGACATGCTT
1 ATTTGTTAAAAAAATATTAACATTCCAAATCGCAACCTACTTTCTTAATGAACAATGACATGCTT
* ** *
79384 GGGCTCAACCATATTTATTATAGATATTCATAACATTTTCGGCTTTTTAACTTTTTTTTTTGTTA
66 GGGCGCAACCATATTTATTATAGATATTCATAACATTTTCGAATTTTTAACTTTTTTTATTG-T-
* * * ** * * *
79449 TCGTGTGAAAATTTAAGGTTGTATCAGCTTAAACTCTAGTGCATTTTAGGCGCAACTC
129 TCGTGTAAAAATCTAAGGCTCAATCAGCTTAAACTCTAGTACATTTTAGGCGAAACCC
* * *
79507 ATTTTGTTAAAAAAAATATTAACA-TCTCAAATCGCAACCTAATTTCTTAATGAACAATGGCATT
1 A-TTTGTT-AAAAAAATATTAACATTC-CAAATCGCAACCTACTTTCTTAATGAACAATGACATG
* * *
79571 CTTGGGCGCAACTATATTTATTATATATATTTATAACATTTTC-AATTTTTAAC-TTTTTTATTG
63 CTTGGGCGCAACCATATTTATTATAGATATTCATAACATTTTCGAATTTTTAACTTTTTTTATTG
*
79634 -T-G-G-AAAAATCTAAGGCTCAATCAGCTTAAACTCT-GATAATATTTTAGGCGAAACCC
128 TTCGTGTAAAAATCTAAGGCTCAATCAGCTTAAACTCTAG-T-ACATTTTAGGCGAAACCC
* * *
79690 ATTTGTTAATAAAAATATTAACATTCCATATCGCAACTTACTTTCTTAGTGAAC
1 ATTTGTTAA-AAAAATATTAACATTCCAAATCGCAACCTACTTTCTTAATGAAC
79744 TCACTACAGC
Statistics
Matches: 200, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
181 3 0.01
182 70 0.35
183 18 0.09
184 1 0.00
185 1 0.00
188 10 0.05
189 15 0.08
190 82 0.41
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (186 bp):
ATTTGTTAAAAAAATATTAACATTCCAAATCGCAACCTACTTTCTTAATGAACAATGACATGCTT
GGGCGCAACCATATTTATTATAGATATTCATAACATTTTCGAATTTTTAACTTTTTTTATTGTTC
GTGTAAAAATCTAAGGCTCAATCAGCTTAAACTCTAGTACATTTTAGGCGAAACCC
Found at i:79949 original size:43 final size:42
Alignment explanation
Indices: 79900--80246 Score: 324
Period size: 43 Copynumber: 8.1 Consensus size: 42
79890 AACAAAAAAT
* * *
79900 GCCGCAATAGGTCATTATCTATTA-CGGCGTTTTTTGAACAAAC
1 GCCGCAAAAGGTCA-GATCTA-TAGCGGCGTTTTTGGAACAAAC
* *
79943 GCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAATAAAC
1 GCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAAC
* * * * * * * *
79986 GCCACAAAAAGTTATGATATATAGCGGCGTGTCTAGAAAAAAC
1 GCCGCAAAAGGTCA-GATCTATAGCGGCGTTTTTGGAACAAAC
*
80029 GCC-CAAAAGGTCAGATCTATAGCGGCGTTTTTGGATGCAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
* * *
80071 GCCGCAAAAGAG-AAGACCTATA-CTGGCGTTTTTAGAACAAAC
1 GCCGCAAAAG-GTCAGATCTATAGC-GGCGTTTTTGGAACAAAC
* *
80113 GCCGCAAAAGGTCAGACCTATAGCGGCATTTTTGGACACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
* ** *
80156 GCCGCAAAAGGTCAGACCTATAATGGCGTTTTTGAACACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
** * * *
80199 GCCGCAAAAAATCAGACCTATAGCGGTGTTTTTTGATACAAAC
1 GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAAC
80242 GCCGC
1 GCCGC
80247 TAATTACCTT
Statistics
Matches: 255, Mismatches: 39, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
41 19 0.07
42 53 0.21
43 181 0.71
44 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
GCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:80070 original size:128 final size:125
Alignment explanation
Indices: 79893--80244 Score: 307
Period size: 128 Copynumber: 2.7 Consensus size: 125
79883 GTTTGAGAAC
* * * * *
79893 AAAAAATGCCGCAATAGGTCATTATCTATTACGGCGTTTTTTGAACAAACGCCGCAAAAG-GTCG
1 AAAAAACGCCGCAAAAGGTCA-GATCTA-TACGGCGTTTTTGGAACAAACGCCGCAAAAGAG--A
* * * * * * *
79957 ATATCTATAGC-GGCGTTTTTGGAATAAACGCCACAAAAAGTTATGATATATAGCGGCGTGTCTA
62 AGACCTATA-CTGGCGTTTTTAGAACAAACGCCACAAAAAGTCA-GACATATAGCGGCATGTCTA
80021 G
125 G
*
80022 AAAAAACGCC-CAAAAGGTCAGATCTATAGCGGCGTTTTTGGATGCAAACGCCGCAAAAGAGAAG
1 AAAAAACGCCGCAAAAGGTCAGATCTATA-CGGCGTTTTTGGA-ACAAACGCCGCAAAAGAGAAG
* * * * * *
80086 ACCTATACTGGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCATTTTTGG
64 ACCTATACTGGCGTTTTTAGAACAAACGCCACAAAAAGTCAGACATATAGCGGCATGTCTAG
* * * * * **
80148 ACACAAACGCCGCAAAAGGTCAGACCTATAATGGCGTTTTTGAACACAAACGCCGCAAAAAATCA
1 A-AAAAACGCCGCAAAAGGTCAGATCTAT-ACGGCGTTTTTGGA-ACAAACGCCGCAAAAGAGAA
* *
80213 GACCTATAGC-GGTGTTTTTTGATACAAACGCC
63 GACCTATA-CTGGCGTTTTTAGA-ACAAACGCC
80245 GCTAATTACC
Statistics
Matches: 184, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
126 19 0.10
127 59 0.32
128 85 0.46
129 21 0.11
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (125 bp):
AAAAAACGCCGCAAAAGGTCAGATCTATACGGCGTTTTTGGAACAAACGCCGCAAAAGAGAAGAC
CTATACTGGCGTTTTTAGAACAAACGCCACAAAAAGTCAGACATATAGCGGCATGTCTAG
Found at i:80079 original size:85 final size:84
Alignment explanation
Indices: 79939--80246 Score: 286
Period size: 85 Copynumber: 3.6 Consensus size: 84
79929 TTTTTTGAAC
* * *
79939 AAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAAT-AAACGCCACAAAA-AGTTATG
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGG-ATCAAACGCCGCAAAAGAG--AAG
*
80002 ATATATAGC-GGCGTGTCTAGAAA
62 ACATATA-CTGGCGTGTCTAGAAA
*
80025 AAACGCC-CAAAAGGTCAGATCTATAGCGGCGTTTTTGGATGCAAACGCCGCAAAAGAGAAGACC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAT-CAAACGCCGCAAAAGAGAAGACA
* * *
80089 TATACTGGCGTTTTTAGAAC
65 TATACTGGCGTGTCTAGAAA
* * * *
80109 AAACGCCGCAAAAGGTCAGACCTATAGCGGCATTTTTGGACACAAACGCCGCAAAAG-GTCAGAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-TCAAACGCCGCAAAAGAG-AAGAC
* * * *
80173 CTATAATGGCGT-TTTTGAACA
64 ATATACTGGCGTGTCTAGAA-A
** * * *
80194 CAAACGCCGCAAAAAATCAGACCTATAGCGGTGTTTTTTGATACAAACGCCGC
1 -AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAT-CAAACGCCGC
80247 TAATTACCTT
Statistics
Matches: 191, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
83 3 0.02
84 53 0.28
85 81 0.42
86 54 0.28
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (84 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATCAAACGCCGCAAAAGAGAAGACAT
ATACTGGCGTGTCTAGAAA
Found at i:84646 original size:41 final size:41
Alignment explanation
Indices: 84496--84888 Score: 367
Period size: 41 Copynumber: 9.5 Consensus size: 41
84486 TTGTAAACTT
* * * * * *
84496 GCGGCGTTTGTAAACACAAACGCAACTATAGTACAAATGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTATA
* * * *
84539 GCGGCGTTTGAATAAAAACGTCACTAAATTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * * * *
84580 GCTGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTATA
* * * * *
84623 ACGGCGTTTGAATAAAAATGCCACTAAAGTACGTGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* *
84664 GCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * *
84705 GCGACGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * *
84746 GCGGCGTTTGTAAACACAAACGCCACTATAGTAC-ATGTGTATA
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGA-GTCTATA
* ** * *
84789 ACGGCGTTTGTATAAAAATACCACTAAAGTACAATTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * *
84830 GCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
84871 -CGGCGTTTGTATAAAAAC
1 GCGGCGTTTGTATAAAAAC
84889 TAAAGTTACT
Statistics
Matches: 285, Mismatches: 59, Indels: 15
0.79 0.16 0.04
Matches are distributed among these distances:
40 17 0.06
41 189 0.66
42 7 0.02
43 72 0.25
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
Found at i:84648 original size:84 final size:84
Alignment explanation
Indices: 84496--84888 Score: 436
Period size: 84 Copynumber: 4.7 Consensus size: 84
84486 TTGTAAACTT
* * * *
84496 GCGGCGTTTGTAAACACAAACGCAACTATAGTACAAATGTATAGCGGCGTTTGAATAAAAACGTC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
84561 ACTAAATTACGAGTCTTTA
66 ACTAAATTACGAGTCTTTA
* * *
84580 GCTGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
* *
84645 ACTAAAGTACGTGTCTTTA
66 ACTAAATTACGAGTCTTTA
* * ** * * * * *
84664 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTATGAGTCTTTAGCGACGTTTGTATAAAAACGCC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
*
84727 ACTAAATTATGAGTCTTTA
66 ACTAAATTACGAGTCTTTA
* * **
84746 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAACGGCGTTTGTATAAAAATACC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
* * * *
84811 ACTAAAGTACAATTCTATA
66 ACTAAATTACGAGTCTTTA
* * * * * * * *
84830 GCGGCGTTTGTATA-A-AAATGCCACTAAATTACGAGTCT-TTACGGCGTTTGTATAAAAAC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAAC
84889 TAAAGTTACT
Statistics
Matches: 258, Mismatches: 49, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
81 19 0.07
82 85 0.33
83 3 0.01
84 151 0.59
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (84 bp):
GCGGCGTTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAACGCC
ACTAAATTACGAGTCTTTA
Found at i:84771 original size:125 final size:124
Alignment explanation
Indices: 84496--84881 Score: 438
Period size: 125 Copynumber: 3.1 Consensus size: 124
84486 TTGTAAACTT
* ** * *
84496 GCGGCGTTTGTAAACACAAACGCAACTATAGTACAAATGTATAGCGGCGTTTGAATAAAAACGTC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAGCGGCGTTTGTATAAAAACGCC
* * * * * * * *
84561 ACTAAATTACGAGTCTTTAGCTGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATA
66 ACTAAAGTACGAGTCTTTAGC-GCGTTTGTATA-A-AAACGCCACTAAATTACGAGTCTTTA
* * * * * *
84623 ACGGCGTTTG-AATA-A-AAATGCCACTAAAGTACGTGTCTTTAGCGGCGTTTGTATAAAAACGC
1 GCGGCGTTTGTAA-ACACAAACGCCACTATAGTACATGTGTATAGCGGCGTTTGTATAAAAACGC
* *
84685 CACTAAAGTATGAGTCTTTAGCGACGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTA
65 CACTAAAGTACGAGTCTTTAGCG-CGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
* **
84746 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAACGGCGTTTGTATAAAAATACC
1 GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAGCGGCGTTTGTATAAAAACGCC
* * * *
84811 ACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTA
66 ACTAAAGTACGAGTCTTTAGC-GCGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
84871 -CGGCGTTTGTA
1 GCGGCGTTTGTA
84882 TAAAAACTAA
Statistics
Matches: 217, Mismatches: 36, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
123 30 0.14
124 16 0.07
125 157 0.72
126 4 0.02
127 10 0.05
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (124 bp):
GCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAGCGGCGTTTGTATAAAAACGCC
ACTAAAGTACGAGTCTTTAGCGCGTTTGTATAAAAACGCCACTAAATTACGAGTCTTTA
Found at i:84834 original size:166 final size:166
Alignment explanation
Indices: 84496--84888 Score: 556
Period size: 166 Copynumber: 2.4 Consensus size: 166
84486 TTGTAAACTT
* * * * * * * * *
84496 GCGGCGTTTGTAAACACAAACGCAACTATAGTACAAATGTATAGCGGCGTTTGAATAAAAACGTC
1 GCGGCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCC
*
84561 ACTAAATTACGAGTCTTTAGCTGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACG
64 ACTAAATTACGAGTCTTTAGCGGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACG
* * *
84626 GCGTTTGAATAAAAATGCCACTAAAGTACGTGTCTTTA
129 GCGTTTGAATAAAAATACCACTAAAGTACATGTCTATA
* *
84664 GCGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCGACGTTTGTATAAAAACGCCAC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCAC
* * *
84729 TAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACGCCACTATAGTACATGTGTATAACGGC
66 TAAATTACGAGTCTTTAGCGGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGC
*
84794 GTTTGTATAAAAATACCACTAAAGTACAAT-TCTATA
131 GTTTGAATAAAAATACCACTAAAGTAC-ATGTCTATA
* *
84830 GCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTTTA-CGGCGTTTGTATAAAAAC
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAAC
84889 TAAAGTTACT
Statistics
Matches: 201, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
165 17 0.08
166 169 0.84
167 2 0.01
168 13 0.06
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (166 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCAC
TAAATTACGAGTCTTTAGCGGCATTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGC
GTTTGAATAAAAATACCACTAAAGTACATGTCTATA
Found at i:91266 original size:17 final size:17
Alignment explanation
Indices: 91244--91282 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
91234 GTCATTTTAG
91244 CATCTTATTTTCTGAAA
1 CATCTTATTTTCTGAAA
*
91261 CATCTTATTTTCTGGAA
1 CATCTTATTTTCTGAAA
91278 CATCT
1 CATCT
91283 GTAATAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.46
Consensus pattern (17 bp):
CATCTTATTTTCTGAAA
Done.