Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000240.1 Hibiscus syriacus cultivar Beakdansim tig00000414_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: 177404
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3350 original size:17 final size:17
Alignment explanation
Indices: 3327--3377 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
3317 AAGTAAAATA
3327 AAATAATAAAACAAACG
1 AAATAATAAAACAAACG
* * *
3344 GAATAATAAAATAAATG
1 AAATAATAAAACAAACG
3361 AATATAAGTAAAACAAA
1 AA-ATAA-TAAAACAAA
3378 ATGAAGGGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 15 0.56
18 4 0.15
19 8 0.30
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.18
Consensus pattern (17 bp):
AAATAATAAAACAAACG
Found at i:3783 original size:23 final size:23
Alignment explanation
Indices: 3755--3884 Score: 115
Period size: 23 Copynumber: 5.7 Consensus size: 23
3745 CAAAACAACT
*
3755 AAATAATACCCCACTACCTATTA
1 AAATAATACACCACTACCTATTA
* * *
3778 AAATAATAAACTACTACCTATAA
1 AAATAATACACCACTACCTATTA
* *
3801 AAATAAT-CAACCACTATCTATAA
1 AAATAATAC-ACCACTACCTATTA
* * *
3824 AAATAAT-CAACACTACATGTTA
1 AAATAATACACCACTACCTATTA
* *
3846 AAATAATAAACC-CTACATATTA
1 AAATAATACACCACTACCTATTA
3868 AAATAAT-CAACCACTAC
1 AAATAATAC-ACCACTAC
3885 TTATCAAATC
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
22 35 0.40
23 52 0.60
ACGTcount: A:0.52, C:0.22, G:0.01, T:0.25
Consensus pattern (23 bp):
AAATAATACACCACTACCTATTA
Found at i:3807 original size:46 final size:45
Alignment explanation
Indices: 3755--3884 Score: 138
Period size: 46 Copynumber: 2.9 Consensus size: 45
3745 CAAAACAACT
* * *
3755 AAATAATACCCCACTACCTATTAAAATAATAAACTACTACCTATAA
1 AAATAATACACCACTACCTATTAAAATAATCAAC-ACTACATATAA
* * * *
3801 AAATAAT-CAACCACTATCTATAAAAATAATCAACACTACATGTTA
1 AAATAATAC-ACCACTACCTATTAAAATAATCAACACTACATATAA
* *
3846 AAATAATAAACC-CTACATATTAAAATAATCAACCACTAC
1 AAATAATACACCACTACCTATTAAAATAATCAA-CACTAC
3885 TTATCAAATC
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
44 17 0.24
45 25 0.36
46 28 0.40
ACGTcount: A:0.52, C:0.22, G:0.01, T:0.25
Consensus pattern (45 bp):
AAATAATACACCACTACCTATTAAAATAATCAACACTACATATAA
Found at i:3929 original size:15 final size:14
Alignment explanation
Indices: 3909--3950 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
3899 CTACCATCAA
3909 ATATATAATATATAT
1 ATATATAATATA-AT
3924 ATATATAATATAAT
1 ATATATAATATAAT
3938 ATA-ATAATA-AAT
1 ATATATAATATAAT
3950 A
1 A
3951 AAAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.15
13 6 0.22
14 5 0.19
15 12 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:3934 original size:5 final size:5
Alignment explanation
Indices: 3911--3943 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
3901 ACCATCAAAT
3911 ATATA ATAT- ATATA TATATA ATATA ATATA ATA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATA
3944 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:3951 original size:20 final size:20
Alignment explanation
Indices: 3907--3961 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
3897 ACCTACCATC
3907 AAAT-ATATAATATATATAT
1 AAATAATATAATATATATAT
*
3926 ATATAATATAATATA-ATAAT
1 AAATAATATAATATATAT-AT
* *
3946 AAATAAAAAAATATAT
1 AAATAATATAATATAT
3962 GTAACAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATAATATAATATATATAT
Found at i:5285 original size:2 final size:2
Alignment explanation
Indices: 5278--5312 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5268 TTCCTTGTGT
5278 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5313 TAAAATATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9852 original size:2 final size:2
Alignment explanation
Indices: 9847--9895 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9837 CCTTATATTC
9847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9889 TA TA TA T
1 TA TA TA T
9896 GTTTGAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13062 original size:45 final size:46
Alignment explanation
Indices: 13012--13114 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 46
13002 AATCCAAGAT
* *
13012 TTTTGATTATTGGT-TTGTCAAAAGTAAAATCAAAGGATTAGTTCC
1 TTTTGATTATTGGTGTTGCCAAAAGTAAAACCAAAGGATTAGTTCC
13057 TTTTGATTATT-GTGTTGCCAAAAGTAAAACCAAAGGATTAGTTCC
1 TTTTGATTATTGGTGTTGCCAAAAGTAAAACCAAAGGATTAGTTCC
*
13102 TTTCGATTATTGG
1 TTTTGATTATTGG
13115 GTTACGAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
44 2 0.04
45 50 0.94
46 1 0.02
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (46 bp):
TTTTGATTATTGGTGTTGCCAAAAGTAAAACCAAAGGATTAGTTCC
Found at i:13150 original size:39 final size:39
Alignment explanation
Indices: 13082--13156 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
13072 TGCCAAAAGT
*
13082 AAAACCAAAGGATTAGTTCCTTTCGATTATTGGGTTACG
1 AAAACCAAAGGATTAGTTCATTTCGATTATTGGGTTACG
* * **
13121 AAAATCAAATGATTAGTTCATTTTTATTATTGGGTT
1 AAAACCAAAGGATTAGTTCATTTCGATTATTGGGTT
13157 GCTAAACCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (39 bp):
AAAACCAAAGGATTAGTTCATTTCGATTATTGGGTTACG
Found at i:13468 original size:58 final size:58
Alignment explanation
Indices: 13330--13530 Score: 280
Period size: 58 Copynumber: 3.5 Consensus size: 58
13320 ATTCTTGCGT
* *
13330 TGATTCTAACTTTGTAAGGGAAATAAATTGTTGAATTT-TTTGCTTTAGAATCTTA-AA
1 TGATTCTAACTTTGTAAGGGAAATAAATTGTTGAATTTATTTCCTTGAGAATC-TAGAA
* * *
13387 TGATTCTAACTTTGTAAGGGAAATAAACTGTTGAATTTATTTTCTTGATAATCTAGAA
1 TGATTCTAACTTTGTAAGGGAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAA
* * *
13445 TGATTCTAACTTTGTTAGGGAAATAAATTGTTGAATTTATTTCCTTGAGAATTTTGAA
1 TGATTCTAACTTTGTAAGGGAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAA
* **
13503 TGATTTTAACTTTGTAAGAAAAATAAAT
1 TGATTCTAACTTTGTAAGGGAAATAAAT
13531 CCTTTAGAAT
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
57 39 0.30
58 89 0.70
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGGGAAATAAATTGTTGAATTTATTTCCTTGAGAATCTAGAA
Found at i:14495 original size:26 final size:25
Alignment explanation
Indices: 14466--14532 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 25
14456 TAAAATCATC
14466 TCATATTCTTTTCATTCATACATATT
1 TCATATTCTTTTCATTCATACAT-TT
*
14492 TCATA-AC-TTTCA-T-AT-CATTT
1 TCATATTCTTTTCATTCATACATTT
* *
14512 CCATATTCTTTTCTTTCATAC
1 TCATATTCTTTTCATTCATAC
14533 TCATCATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
20 6 0.19
21 4 0.12
22 6 0.19
23 2 0.06
24 7 0.22
25 2 0.06
26 5 0.16
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.52
Consensus pattern (25 bp):
TCATATTCTTTTCATTCATACATTT
Found at i:14547 original size:18 final size:18
Alignment explanation
Indices: 14524--14569 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
14514 ATATTCTTTT
14524 CTTTCATACTCATCATAA
1 CTTTCATACTCATCATAA
*
14542 CTTTCATACTCGTCATAA
1 CTTTCATACTCATCATAA
14560 CTTTCATACT
1 CTTTCATACT
14570 TACCTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.41
Consensus pattern (18 bp):
CTTTCATACTCATCATAA
Found at i:16600 original size:3 final size:3
Alignment explanation
Indices: 16592--16619 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16582 GCAACGGCTG
16592 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
16620 CTGAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:17455 original size:39 final size:39
Alignment explanation
Indices: 17401--17551 Score: 188
Period size: 38 Copynumber: 4.0 Consensus size: 39
17391 AATTCTGATA
*
17401 TGTAGAATGAAATAAATCGTTGGATTTATTTTCTTATTT
1 TGTAGAATGAAATAAATCGTTGGATTTATTTTCCTATTT
* *
17440 TGTAGAATGAAATAAATTGTTGGACTTATTTT-CTATTT
1 TGTAGAATGAAATAAATCGTTGGATTTATTTTCCTATTT
* * * *
17478 TGTAAAAAGAAATAACTTGTTGGATTTATTTTCCTA-TT
1 TGTAGAATGAAATAAATCGTTGGATTTATTTTCCTATTT
*
17516 T-TAG---GAAATAAATCGTTGAATTTATTTTCCTATTT
1 TGTAGAATGAAATAAATCGTTGGATTTATTTTCCTATTT
17551 T
1 T
17552 ATAAAAATCA
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
34 25 0.25
35 3 0.03
37 2 0.02
38 36 0.36
39 33 0.33
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.48
Consensus pattern (39 bp):
TGTAGAATGAAATAAATCGTTGGATTTATTTTCCTATTT
Found at i:17566 original size:31 final size:33
Alignment explanation
Indices: 17501--17574 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 33
17491 AACTTGTTGG
*
17501 ATTTATTTTCCTATTTTAGGAAATAAATCGTTGA
1 ATTTATTTTCCTATTTTA-GAAATAAATCATTGA
*
17535 ATTTATTTTCCTATTTTA-TAA-AAATCATTGA
1 ATTTATTTTCCTATTTTAGAAATAAATCATTGA
17566 ATTTATTTT
1 ATTTATTTT
17575 TTTAGAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 18 0.47
32 2 0.05
34 18 0.47
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (33 bp):
ATTTATTTTCCTATTTTAGAAATAAATCATTGA
Found at i:17667 original size:36 final size:37
Alignment explanation
Indices: 17598--17674 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
17588 ATGATTATTG
* *
17598 TTTGTAAAAGGAAATAAATCATTGGATTTATTTTTAT
1 TTTGTAAAAGGAAAAAAATCATTGGATTGATTTTTAT
* *
17635 TTTGTAAAA-GAAAAAAATCGA-TGGGTTGATTTTTTT
1 TTTGTAAAAGGAAAAAAATC-ATTGGATTGATTTTTAT
17671 TTTG
1 TTTG
17675 GGAATCAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 25 0.71
37 10 0.29
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (37 bp):
TTTGTAAAAGGAAAAAAATCATTGGATTGATTTTTAT
Found at i:17669 original size:37 final size:36
Alignment explanation
Indices: 17589--17672 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 36
17579 GAATCTTATA
* * *
17589 TGATTATTGTTTGTAAAAGGAAATAAATCATTGGAT
1 TGATTTTTTTTTGTAAAAGGAAAAAAATCATTGGAT
* *
17625 TTATTTTTATTTTGTAAAA-GAAAAAAATCGA-TGGGT
1 TGATTTTT-TTTTGTAAAAGGAAAAAAATC-ATTGGAT
17661 TGATTTTTTTTT
1 TGATTTTTTTTT
17673 TGGGAATCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
35 4 0.10
36 26 0.65
37 10 0.25
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (36 bp):
TGATTTTTTTTTGTAAAAGGAAAAAAATCATTGGAT
Found at i:19774 original size:54 final size:56
Alignment explanation
Indices: 19687--19837 Score: 146
Period size: 54 Copynumber: 2.7 Consensus size: 56
19677 AAGCTCGATA
* *
19687 TCTATCTTGAGCTTCCCTTTCGGACACTCGCACCAATGTCTTGGCAAGCCCAATAC
1 TCTATCTTGAGCTTCCCTTTCAGACACTCGCACCAATGTCTTGGCAAACCCAATAC
* * * *
19743 TCTATCTTGA-C-T-CCTTGTCAGACACTTGCACCGATGTCTTTGCAAACCCAATCC
1 TCTATCTTGAGCTTCCCTT-TCAGACACTCGCACCAATGTCTTGGCAAACCCAATAC
* * * * * * * *
19797 TCTGTCTTAAACTTTCCTATCGGACACTTGCACCAGTGTCT
1 TCTATCTTGAGCTTCCCTTTCAGACACTCGCACCAATGTCT
19838 CGGACCCAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.05
54 40 0.51
55 2 0.03
56 30 0.38
57 3 0.04
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (56 bp):
TCTATCTTGAGCTTCCCTTTCAGACACTCGCACCAATGTCTTGGCAAACCCAATAC
Found at i:35141 original size:128 final size:128
Alignment explanation
Indices: 34781--35385 Score: 563
Period size: 128 Copynumber: 4.7 Consensus size: 128
34771 GATCTGATCA
* ** * ** *
34781 GGTGATGACACGGTTCCTATGTGATGAGCACGGTTGGTTATCTGGGTTGACACAGCTCATACATA
1 GGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATA
* * * * * * * ** * *
34846 ATGAAGAGATCTGGTCGGGTGATGACATGGTTCCTACGTGGTGAAGACGACTGGTAATCCAAT
66 ATGAGGAGATCTAGTCGGGTGATGACATGGTTCCTACGCGATGAAGATGGCAGGCCATCTAAG
* * * * *
34909 GGTGATAACACGTTTCTTACGTGATGAGGACGACTGGTTATCTGGGGTTGACACAGTTCCTACGT
1 GGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCT-GGGTTGACACAGCTCCTACAT
* * * * *
34974 GATGAGGAAATC-AGGTCGGGTGATGACACGTTTCCTACGCGATGAGGATGGCAGGCCATCTAAG
65 AATGAGGAGATCTA-GTCGGGTGATGACATGGTTCCTACGCGATGAAGATGGCAGGCCATCTAAG
* ** * *
35038 GGTGATATCACGGTTCCTAGGTGATAAGGATGACTGGTTATCTGGGTTGACACAGCTCCTACATA
1 GGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATA
* * ** *
35103 ATGAGGAGATCTAGTTGGGTGATGACATGGCTT-ATACGCGATGAAGA-GTTATGGCCATCTAAA
66 ATGAGGAGATCTAGTCGGGTGATGACATGG-TTCCTACGCGATGAAGATGGCA-GGCCATCTAAG
* * * ** * *
35166 GGTGATAACATGGTTCCTAAATGATGAGGATGGTTGGTTATCTAGGTTGACACAGCTCCTATATA
1 GGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATA
* * * * * * * * **
35231 ATGAAGAGATCTGGTCAGTTGATGACACGGTTCCTATGTGATGAGGATGGTC-GGTTATCTAAG
66 ATGAGGAGATCTAGTCGGGTGATGACATGGTTCCTACGCGATGAAGATGG-CAGGCCATCTAAG
* ** * * *
35294 GGTGATAACACGGTTCCTACATGATGAGGACGGCTGGTTAAATGGGTTGATACAACTCTTACATA
1 GGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATA
*
35359 ATGAGGAGATCTATTC-GGTGGATGACA
66 ATGAGGAGATCTAGTCGGGT-GATGACA
35386 CAGCTCATAC
Statistics
Matches: 385, Mismatches: 83, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
127 6 0.02
128 273 0.71
129 106 0.28
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (128 bp):
GGTGATAACACGGTTCCTACATGATGAGGACGACTGGTTATCTGGGTTGACACAGCTCCTACATA
ATGAGGAGATCTAGTCGGGTGATGACATGGTTCCTACGCGATGAAGATGGCAGGCCATCTAAG
Found at i:35359 original size:256 final size:257
Alignment explanation
Indices: 34746--35418 Score: 704
Period size: 256 Copynumber: 2.6 Consensus size: 257
34736 ATCAAAGGGG
* * * * *
34746 TGACACGGCTCCTATGTGATGAGGA-GATC--TGATC--A-GGTGATGACACGGTTCCTATGTGA
1 TGACACGGTTCCTATGTGATGAGGATGGTCGGTCATCTAAGGGTGATAACACGGTTCCTACGTGA
* * * * *
34805 TGAGCACGGTTGGTTATCTGGGTTGACACAGCTCATACATAATGAAGAGATCTGGTCGGGTGATG
66 TGAGGACGGCTGGTTATCTGGGTTGACACAGCTCATACATAATGAGGAGATCTAGTTGGGTGATG
* * ** * * * * **
34870 ACATGG-TTCCTACGTGGTGAAGACG--ACTGGTAATCCAATGGTGATAACACGTTTCTTACGTG
131 ACATGGCTT-ATACGTGATGAAGA-GTTA-TGGCCATCTAAAGGTGATAACACGGTTCCTAAATG
* * * * * *
34932 ATGAGGACGACTGGTTATCTGGGGTTGACACAGTTCCTACGTGATGAGGAAATCAGGTCGGGTGA
193 ATGAGGACGACTGGTTATCTGAGGTTGACACAGCTCCTACATAATGAAGAAATCAGGTCAGGTGA
* * * * * *
34997 TGACACGTTTCCTACGCGATGAGGATGG-CAGGCCATCTAAGGGTGATATCACGGTTCCTAGGTG
1 TGACACGGTTCCTATGTGATGAGGATGGTC-GGTCATCTAAGGGTGATAACACGGTTCCTACGTG
* * * *
35061 ATAAGGATGACTGGTTATCTGGGTTGACACAGCTCCTACATAATGAGGAGATCTAGTTGGGTGAT
65 ATGAGGACGGCTGGTTATCTGGGTTGACACAGCTCATACATAATGAGGAGATCTAGTTGGGTGAT
* *
35126 GACATGGCTTATACGCGATGAAGAGTTATGGCCATCTAAAGGTGATAACATGGTTCCTAAATGAT
130 GACATGGCTTATACGTGATGAAGAGTTATGGCCATCTAAAGGTGATAACACGGTTCCTAAATGAT
* ** * * * *
35191 GAGGATGGTTGGTTATCT-AGGTTGACACAGCTCCTATATAATGAAGAGATCTGGTCAGTTGA
195 GAGGACGACTGGTTATCTGAGGTTGACACAGCTCCTACATAATGAAGAAATCAGGTCAGGTGA
* *
35253 TGACACGGTTCCTATGTGATGAGGATGGTCGGTTATCTAAGGGTGATAACACGGTTCCTACATGA
1 TGACACGGTTCCTATGTGATGAGGATGGTCGGTCATCTAAGGGTGATAACACGGTTCCTACGTGA
** * * * *
35318 TGAGGACGGCTGGTTAAATGGGTTGATACAACTCTTACATAATGAGGAGATCTA-TTCGGTGGAT
66 TGAGGACGGCTGGTTATCTGGGTTGACACAGCTCATACATAATGAGGAGATCTAGTTGGGT-GAT
** * *
35382 GACACAGCTCATACGTGATGAAGAATTATGGCCATCT
130 GACATGGCTTATACGTGATGAAGAGTTATGGCCATCT
35419 TTAGGGAATT
Statistics
Matches: 344, Mismatches: 66, Indels: 19
0.80 0.15 0.04
Matches are distributed among these distances:
251 22 0.06
252 1 0.00
254 3 0.01
255 5 0.01
256 172 0.50
257 138 0.40
258 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (257 bp):
TGACACGGTTCCTATGTGATGAGGATGGTCGGTCATCTAAGGGTGATAACACGGTTCCTACGTGA
TGAGGACGGCTGGTTATCTGGGTTGACACAGCTCATACATAATGAGGAGATCTAGTTGGGTGATG
ACATGGCTTATACGTGATGAAGAGTTATGGCCATCTAAAGGTGATAACACGGTTCCTAAATGATG
AGGACGACTGGTTATCTGAGGTTGACACAGCTCCTACATAATGAAGAAATCAGGTCAGGTGA
Found at i:35910 original size:24 final size:22
Alignment explanation
Indices: 35883--35940 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
35873 TTTCAAGATA
*
35883 TGAAAATATTAATTAGAAGAGTTT
1 TGAAAATATTAATCA-AA-AGTTT
*
35907 TGAAAAATGTTTAATCAAAAGTTT
1 TG-AAAAT-ATTAATCAAAAGTTT
35931 TGAAAATATT
1 TGAAAATATT
35941 GCCCATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.07
23 5 0.17
24 9 0.31
25 7 0.24
26 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.38
Consensus pattern (22 bp):
TGAAAATATTAATCAAAAGTTT
Found at i:37930 original size:13 final size:13
Alignment explanation
Indices: 37885--37931 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
37875 CTTAAAAATG
* *
37885 AAATGCATATGAA
1 AAATGCAGATGCA
37898 AAATGCAAAGATGC-
1 AAATGC--AGATGCA
37912 AAATGCAGATGCA
1 AAATGCAGATGCA
37925 AAATGCA
1 AAATGCA
37932 AAGATGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 6 0.21
13 13 0.45
14 6 0.21
15 4 0.14
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (13 bp):
AAATGCAGATGCA
Found at i:37954 original size:27 final size:27
Alignment explanation
Indices: 37885--37948 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
37875 CTTAAAAATG
* *
37885 AAATGCATATGAAAAATGCAAAGATGC
1 AAATGCAGATGCAAAATGCAAAGATGC
*
37912 AAATGCAGATGCAAAATGCAAAGATGT
1 AAATGCAGATGCAAAATGCAAAGATGC
*
37939 TAATGCAGAT
1 AAATGCAGAT
37949 TTAAAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (27 bp):
AAATGCAGATGCAAAATGCAAAGATGC
Found at i:38730 original size:32 final size:32
Alignment explanation
Indices: 38682--38743 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
38672 TGATACAATC
*
38682 GAAAGAAATAAGTTAGTGTACATAAACAAAAG
1 GAAAGAAATAAGTTAGTGTACACAAACAAAAG
38714 GAAAGAAATTAA-TTAGTGTACACAAACAAA
1 GAAAGAAA-TAAGTTAGTGTACACAAACAAA
38744 TGAAAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.19
Consensus pattern (32 bp):
GAAAGAAATAAGTTAGTGTACACAAACAAAAG
Found at i:38755 original size:32 final size:32
Alignment explanation
Indices: 38683--38756 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
38673 GATACAATCG
* *
38683 AAAGAAA-TAAGTTAGTGTACATAAACAAAAGG
1 AAAGAAATTAA-TTAGTGTACACAAACAAAAGA
*
38715 AAAGAAATTAATTAGTGTACACAAACAAATGA
1 AAAGAAATTAATTAGTGTACACAAACAAAAGA
*
38747 AAATAAATTA
1 AAAGAAATTA
38757 GTTAATACAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 34 0.92
33 3 0.08
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.22
Consensus pattern (32 bp):
AAAGAAATTAATTAGTGTACACAAACAAAAGA
Found at i:41738 original size:20 final size:22
Alignment explanation
Indices: 41693--41744 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
41683 TAATTCAATC
41693 GGTATCGATACCGAAGGGGTAA
1 GGTATCGATACCGAAGGGGTAA
41715 --TATCGATACCGAA-GGG-AA
1 GGTATCGATACCGAAGGGGTAA
41733 GGTATCGATACC
1 GGTATCGATACC
41745 AATTCAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.07
19 3 0.11
20 23 0.82
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (22 bp):
GGTATCGATACCGAAGGGGTAA
Found at i:42482 original size:47 final size:46
Alignment explanation
Indices: 42245--42719 Score: 671
Period size: 46 Copynumber: 10.1 Consensus size: 46
42235 GAATAAAAGA
* * **
42245 AAAATACATGAAATGATGCATTTTGGCATGAAAGGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
* *
42291 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTCATAAAT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
* *
42337 AAAATGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATACCATAAAT
1 AAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATGCCATAAAT
*
42389 AAAATTCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
* * *
42435 AAAATGCATGAAATGATGCATTATTGGCATAAAAGGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTA-AGGCATGAAAGGATGCCATAAAT
* * *
42482 AAAATGCATGAAAGGATGCATTACTGGCATGCAAGGATGTCATAAAT
1 AAAATGCATGAAAGGATGCATTA-AGGCATGAAAGGATGCCATAAAT
* *
42529 AAAATGCATGAAAGGATGCGTTAAGGCATGAAAAGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
* *
42575 AAAATGCATGAAAGGATGAATTATTGGCATGAAAGGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTA-AGGCATGAAAGGATGCCATAAAT
*
42622 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
* *
42668 AAAATGCATCAAAGGATGCATTAAGGCATGAAAAGATGCCATAAAT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
42714 AAAATG
1 AAAATG
42720 AAATTTAACA
Statistics
Matches: 386, Mismatches: 35, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
46 213 0.55
47 130 0.34
48 1 0.00
50 1 0.00
51 3 0.01
52 38 0.10
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (46 bp):
AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAAT
Found at i:42557 original size:93 final size:92
Alignment explanation
Indices: 42245--42719 Score: 680
Period size: 93 Copynumber: 5.1 Consensus size: 92
42235 GAATAAAAGA
* ** *
42245 AAAATACATGAAATGATGCATTTTGGCATGAAAGGATGCCATAAATAAAATGCATGAAATGATGC
1 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGC
*
42310 ATTAAGGCATGAAAGGATGTCATAAAT
66 ATTAAGGCATGAAAGGATGCCATAAAT
* * * *
42337 AAAATGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATACCATAAATAAAATTCATGAAA
1 AAAATGCATGAAATGATG-CAT---T--AAGGCATGAAAGGATGCCATAAATAAAATGCATGAAA
42402 GGATGCATTAAGGCATGAAAGGATGCCATAAAT
60 GGATGCATTAAGGCATGAAAGGATGCCATAAAT
* *
42435 AAAATGCATGAAATGATGCATTATTGGCATAAAAGGATGCCATAAATAAAATGCATGAAAGGATG
1 AAAATGCATGAAATGATGCATTA-AGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATG
* * *
42500 CATTACTGGCATGCAAGGATGTCATAAAT
65 CATTA-AGGCATGAAAGGATGCCATAAAT
* * * *
42529 AAAATGCATGAAAGGATGCGTTAAGGCATGAAAAGATGCCATAAATAAAATGCATGAAAGGATGA
1 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGC
*
42594 ATTATTGGCATGAAAGGATGCCATAAAT
66 ATTA-AGGCATGAAAGGATGCCATAAAT
*
42622 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATCAAAGGATGC
1 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGC
*
42687 ATTAAGGCATGAAAAGATGCCATAAAT
66 ATTAAGGCATGAAAGGATGCCATAAAT
42714 AAAATG
1 AAAATG
42720 AAATTTAACA
Statistics
Matches: 341, Mismatches: 34, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
92 44 0.13
93 171 0.50
94 42 0.12
96 1 0.00
97 3 0.01
98 80 0.23
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (92 bp):
AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAAAGGATGC
ATTAAGGCATGAAAGGATGCCATAAAT
Found at i:42686 original size:26 final size:26
Alignment explanation
Indices: 42270--42453 Score: 221
Period size: 26 Copynumber: 7.5 Consensus size: 26
42260 ATGCATTTTG
42270 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
42296 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
*
42316 GCATGAAAGGATGTCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
42342 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
*
42368 GCATGAAAGGATACCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
* *
42394 TCATGAAAGGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAAATAAAAT
42414 GCATGAAAGGATGCCATAAATAAAAT
1 GCATGAAAGGATGCCATAAATAAAAT
*
42440 GCATGAAATGATGC
1 GCATGAAAGGATGC
42454 ATTATTGGCA
Statistics
Matches: 134, Mismatches: 12, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
20 28 0.21
21 6 0.04
22 2 0.01
24 2 0.01
25 6 0.04
26 90 0.67
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAAATAAAAT
Found at i:48338 original size:22 final size:22
Alignment explanation
Indices: 48310--48363 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
48300 TCCATTCGTT
48310 CTTCTAGAAGTGTTGACTGGAC
1 CTTCTAGAAGTGTTGACTGGAC
48332 CTTCTAGAAGTGTTGACTGGAC
1 CTTCTAGAAGTGTTGACTGGAC
48354 CTTCTAGAAG
1 CTTCTAGAAG
48364 ATGCTGACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (22 bp):
CTTCTAGAAGTGTTGACTGGAC
Found at i:63305 original size:19 final size:19
Alignment explanation
Indices: 63278--63351 Score: 58
Period size: 23 Copynumber: 3.6 Consensus size: 19
63268 ATGTATTTTA
*
63278 TGCACCGATGCACAGGTAG
1 TGCATCGATGCACAGGTAG
* *
63297 TGCATCGATGCACTGATAGGGAA
1 TGCATCGATGCAC----AGGTAG
* *
63320 TGCATCGATACACTGTGTAG
1 TGCATCGATGCACAG-GTAG
63340 TGCATCGATGCA
1 TGCATCGATGCA
63352 TACCTTCATT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
19 13 0.31
20 13 0.31
23 16 0.38
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (19 bp):
TGCATCGATGCACAGGTAG
Found at i:64320 original size:103 final size:103
Alignment explanation
Indices: 64095--64312 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
64085 TTCGAGGGTC
* *
64095 TATGTGGTCCTTCGGGATATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGGGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
* *
64160 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
64198 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
* *
64263 TTGATCCCTAGTATATGTATATGATTCTTAAGGTATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
64301 TATGTGGTCCTT
1 TATGTGGTCCTT
64313 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGAAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:64395 original size:23 final size:23
Alignment explanation
Indices: 64319--64396 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
64309 CCTTATGGAC
* *
64319 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTTCGGTGCA
* * * *
64343 ATTCTACGCGGCAC-TCTGGTGTA
1 ATTATATGTGGCACTTC-GGTGCA
64366 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
64389 ATTATATG
1 ATTATATG
64397 AGTTGTGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
22 1 0.02
23 36 0.86
24 5 0.12
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:68800 original size:64 final size:65
Alignment explanation
Indices: 68727--68888 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 65
68717 ATTGTTTAAA
* *** *
68727 GGTGTATCGATGCACAGGTAGTGCATCGATGCACT-CTTTTAATCTAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCACTCCCAGTAAT-AAACAAACATCGAATGCAAT
68790 T
65 T
* * * *
68791 GGTGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCGAATGTATT
1 GGTGCATCGATGCA-CAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAAT
68854 T
65 T
** *
68855 TATGCACCGATGCACAGGTAGTGCATCGATGCAC
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCAC
68889 CGATAGGGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 7 0.09
64 68 0.86
65 4 0.05
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (65 bp):
GGTGCATCGATGCACAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAATT
Found at i:69897 original size:103 final size:103
Alignment explanation
Indices: 69672--69889 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
69662 GTCGAGGGTC
*
69672 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
** *
69737 TTGATCGTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
69775 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
69840 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
69878 TATGTGGTCCTT
1 TATGTGGTCCTT
69890 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:69940 original size:23 final size:23
Alignment explanation
Indices: 69906--69968 Score: 110
Period size: 23 Copynumber: 2.7 Consensus size: 23
69896 ATTATTATAT
69906 GGCACTAC-GGTGCAATTCTACGA
1 GGCACT-CTGGTGCAATTCTACGA
69929 GGCACTCTGGTGCAATTCTACGA
1 GGCACTCTGGTGCAATTCTACGA
69952 GGCACTCTGGTGCAATT
1 GGCACTCTGGTGCAATT
69969 ATATGAGCTG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.03
23 38 0.97
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTCTGGTGCAATTCTACGA
Found at i:87579 original size:49 final size:50
Alignment explanation
Indices: 87507--87807 Score: 213
Period size: 49 Copynumber: 6.1 Consensus size: 50
87497 ACATTAATAA
* * * *
87507 TGCTAGGCACACAAAGAACTTCCTTGAACATGATA-TTTAACAGAATTAG
1 TGCTAGGCACACAAAGTACCTCCTTGAACATGATATTTTAGCACAATTAG
* * * * * *
87556 TGCTAGGCACACAAAGTACTTCCTTGAACTTGGTATTTTAGCATAATCAA
1 TGCTAGGCACACAAAGTACCTCCTTGAACATGATATTTTAGCACAATTAG
* * *
87606 TACTA-G-ACACTTAAGATGCCTCCTTGAACATGATA-TTTAGCACAATTAG
1 TGCTAGGCACAC-AAAG-TACCTCCTTGAACATGATATTTTAGCACAATTAG
* * * * *
87655 T-TTAAGCACACAAAGTACCTCTTTGAACATGAGATTTTACCACAATTAG
1 TGCTAGGCACACAAAGTACCTCCTTGAACATGATATTTTAGCACAATTAG
* ** * * ** * *
87704 TGTTAGGCAC-TTAAGATACCTCGTCGAACACCATATTTT-GTACAACTAG
1 TGCTAGGCACACAAAG-TACCTCCTTGAACATGATATTTTAGCACAATTAG
* * * * ** *
87753 TGCTAGGAACGCAAAGTA-CTTCTTGAACAGGATATTTTAATACAATTAA
1 TGCTAGGCACACAAAGTACCTCCTTGAACATGATATTTTAGCACAATTAG
87802 TGCTAG
1 TGCTAG
87808 ACACTCAAGA
Statistics
Matches: 197, Mismatches: 45, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
48 37 0.19
49 99 0.50
50 61 0.31
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (50 bp):
TGCTAGGCACACAAAGTACCTCCTTGAACATGATATTTTAGCACAATTAG
Found at i:87715 original size:98 final size:99
Alignment explanation
Indices: 87527--87835 Score: 259
Period size: 98 Copynumber: 3.1 Consensus size: 99
87517 ACAAAGAACT
* * * *
87527 TCCTTGAACATGATATTTAACAGAATTAGTGCTAGGCACACAAAGTACTTCCTTGAACTTGGTAT
1 TCCTTGAACATGATATTTAACACAATTAGTGCTAAGCACACAAAGTACCTCCTTGAACATGGTAT
* * *
87592 TTTAGCATAATCAATACTAGACACTTAAGATGCC
66 TTTACCACAATCAATACTAGACACTTAAGATACC
* * *
87626 TCCTTGAACATGATATTTAGCACAATTAGT-TTAAGCACACAAAGTACCTCTTTGAACATGAG-A
1 TCCTTGAACATGATATTTAACACAATTAGTGCTAAGCACACAAAGTACCTCCTTGAACATG-GTA
* * ** *
87689 TTTTACCACAATTAGTGTTAGGCACTTAAGATACC
65 TTTTACCACAATCAATACTAGACACTTAAGATACC
* * ** *** * * * * *
87724 TCGTCGAACACCATATTTTGTACAACTAGTGCTAGGAACGCAAAGTA-CTTCTTGAACA-GGATA
1 TCCTTGAACATGATATTTAACACAATTAGTGCTAAGCACACAAAGTACCTCCTTGAACATGG-TA
** * * * *
87787 TTTTAATACAATTAATGCTAGACACTCAAGATATC
65 TTTTACCACAATCAATACTAGACACTTAAGATACC
87822 T-CTTCGAACATGAT
1 TCCTT-GAACATGAT
87836 GTATCCGAAC
Statistics
Matches: 166, Mismatches: 39, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
96 1 0.01
97 2 0.01
98 122 0.73
99 41 0.25
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (99 bp):
TCCTTGAACATGATATTTAACACAATTAGTGCTAAGCACACAAAGTACCTCCTTGAACATGGTAT
TTTACCACAATCAATACTAGACACTTAAGATACC
Found at i:87733 original size:50 final size:48
Alignment explanation
Indices: 87613--87725 Score: 129
Period size: 48 Copynumber: 2.3 Consensus size: 48
87603 CAATACTAGA
* * *
87613 CACTTAAGATGCCTCCTTGAACATGATATTTAGCACAATTAGTTTAAG
1 CACTTAAGATACCTCCTTGAACATGAGATTTACCACAATTAGTTTAAG
** * *
87661 CACACAA-AGTACCTCTTTGAACATGAGATTTTACCACAATTAGTGTTAGG
1 CACTTAAGA-TACCTCCTTGAACATGAGA-TTTACCACAATTAGT-TTAAG
87711 CACTTAAGATACCTC
1 CACTTAAGATACCTC
87726 GTCGAACACC
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.02
48 21 0.40
49 14 0.27
50 15 0.29
51 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (48 bp):
CACTTAAGATACCTCCTTGAACATGAGATTTACCACAATTAGTTTAAG
Found at i:91974 original size:180 final size:180
Alignment explanation
Indices: 91672--92037 Score: 635
Period size: 180 Copynumber: 2.0 Consensus size: 180
91662 GAATTCGATC
* * *
91672 TGTTTAAGCCTATAATGGGTGAGGATCGAGGGTCTGGCAGGCTCAAGGGGTACCAGCAAAGGATA
1 TGTTTAAGCCTATAATGGGTGAGGATCGAGGGTCTGGCAGGCTCAAGCGGCACCAACAAAGGATA
* *
91737 ATTCCAGGACCCTGTTAGTAATATCGAATTTCTACATGTTTCATATATAATTTATGTTCACGATT
66 ATTCCAGGACCCTATTAGTAATACCGAATTTCTACATGTTTCATATATAATTTATGTTCACGATT
* *
91802 CTTCAAAGTTCACAAAAAGGGGGAGCTTACTCTAACCTTTTTCTCGAATT
131 CTTCAAAGTTCAAAAAAAGGGGGAGCTCACTCTAACCTTTTTCTCGAATT
*
91852 TGTTTAAGCCTATAATGGGTGAGGATCGAGGGTCTGGTAGGCTCAAGCGGCACCAACAAAGGATA
1 TGTTTAAGCCTATAATGGGTGAGGATCGAGGGTCTGGCAGGCTCAAGCGGCACCAACAAAGGATA
*
91917 ATTCGAGGACCCTATTAGTAATACCGAATTTCTACATGTTTCATATGA-AATTTATGTTCACGAT
66 ATTCCAGGACCCTATTAGTAATACCGAATTTCTACATGTTTCATAT-ATAATTTATGTTCACGAT
91981 TCTTCAAAGTTCAAAAAAAGGGGGAGCTCACTCTAACCTTTTTCTCGAATT
130 TCTTCAAAGTTCAAAAAAAGGGGGAGCTCACTCTAACCTTTTTCTCGAATT
92032 TGTTTA
1 TGTTTA
92038 TTTATTTTGT
Statistics
Matches: 176, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
180 175 0.99
181 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (180 bp):
TGTTTAAGCCTATAATGGGTGAGGATCGAGGGTCTGGCAGGCTCAAGCGGCACCAACAAAGGATA
ATTCCAGGACCCTATTAGTAATACCGAATTTCTACATGTTTCATATATAATTTATGTTCACGATT
CTTCAAAGTTCAAAAAAAGGGGGAGCTCACTCTAACCTTTTTCTCGAATT
Found at i:94688 original size:28 final size:28
Alignment explanation
Indices: 94644--94700 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
94634 GAGAAACATG
94644 ATGGCACCAGTTGTCCCCTAATTAATCT
1 ATGGCACCAGTTGTCCCCTAATTAATCT
* * * *
94672 ATGGCACCATTTTTCCCTTAATTCATCT
1 ATGGCACCAGTTGTCCCCTAATTAATCT
94700 A
1 A
94701 AAAATGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (28 bp):
ATGGCACCAGTTGTCCCCTAATTAATCT
Found at i:96503 original size:43 final size:43
Alignment explanation
Indices: 96438--96544 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
96428 AGAAATGATG
* *
96438 AATGTTGGGGCACTTTTGAAGGTTCGTATCATCTAGAAGTATT
1 AATGTTGGGGCATTTTTGAAGGTCCGTATCATCTAGAAGTATT
*
96481 AATGTTGGGGCATTTTTTAAGGTCCGTATCATCTAGAAGTATT
1 AATGTTGGGGCATTTTTGAAGGTCCGTATCATCTAGAAGTATT
* *
96524 AATGTTAGGACA-TTTTGAAGG
1 AATGTTGGGGCATTTTTGAAGG
96545 CCTATATCAG
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 8 0.14
43 50 0.86
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.37
Consensus pattern (43 bp):
AATGTTGGGGCATTTTTGAAGGTCCGTATCATCTAGAAGTATT
Found at i:97797 original size:38 final size:38
Alignment explanation
Indices: 97741--98676 Score: 923
Period size: 38 Copynumber: 24.8 Consensus size: 38
97731 GAAACTTCAA
*
97741 CTTGACTTCCTCGTGAAGAGAAGAT-AGTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAG-TCAATCTTTGTTATT
* **
97779 CTTGACTTCCACACGAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * * * * *
97817 CTCGACTTCCTTGTGAATATG-AGTCAAACTTTCTAATT
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTGTTATT
* *
97855 CTTGACTTCCTCATTAAGAGAAGTCAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
97893 CTTGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
97931 CTTGACTTCCTCATGAAGAGAAGTTAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
97969 CTTGACTTCTTCATGAAGAGAAGTCAGTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
** * * *
98007 CTTGACTTCCTAATGAAGAGGAGTTAGTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * ** *
98045 CCTGACTCCCTCACGAAGA-AGAGTCATTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGA-AGTCAATCTTTGTTATT
*
98083 CTTGACTTCCTCGTGAAGAGAAGTTAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * * *
98121 CTTGACTTCCTCGAGAAAAGGAGTCAATCTCTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
98159 ATTGACTTCCTCGTGAAGAGAATTCAATCTTTGTCATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
98197 AC-TGACTTTCTCGTGAAGAGAAGTCAATCTTTGTTATT
1 -CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* *
98235 TTTGACTTCCTCGTGAAGAGAAGTAAATCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
98273 GTTGACTTCCTCGTGAAGGGAAGTCAATCTTTTTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
*
98311 CTTGACTTCCTCGTGAAGAGGAGT-AAGTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAA-TCTTTGTTATT
* * * * * * *
98349 CCTGGCTCCCTCATAAAGATG-AGTCAGTCTTTTTTATT
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTGTTATT
* * * * * *
98387 CCTGACTCCCTCGCGAAGAGGATTCATTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * *
98425 CTTGACTTCCTCGCGAAGAGAATTCAATCTTTGTTAGT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * * *
98463 CTTTACTTCCTCATGAAGAGGACT-AATTCTTTGTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAA-TCTTTGTTATT
* * * * *
98501 CTTGACTCCCTCG-CACAGAGGAGTCAGTCTTTGTTAAT
1 CTTGACTTCCTCGTGA-AGAGAAGTCAATCTTTGTTATT
* * ** *
98539 CCTGACTCCCTCGTGAAGATG-AGTCAGCCTTTGTTAAT
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTGTTATT
* * * * * *
98577 CCTGACTCCCTCGCGAAGAGGAGTCAATATTTTTTATT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
* * **
98615 CCTGACTCCCTCGCAAAGATG-AGTCAATC-----T-TT
1 CTTGACTTCCTCGTGAAGA-GAAGTCAATCTTTGTTATT
98647 CTTGACTTCCTCGTGAAGAGAAGTCAATCT
1 CTTGACTTCCTCGTGAAGAGAAGTCAATCT
98677 CTTAGGATTG
Statistics
Matches: 757, Mismatches: 121, Indels: 45
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.00
32 25 0.03
33 1 0.00
37 9 0.01
38 713 0.94
39 8 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (38 bp):
CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT
Found at i:98800 original size:45 final size:45
Alignment explanation
Indices: 98727--98813 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 45
98717 AATATTTCTA
** *
98727 TGTTGTATTCCTTAACTTTCTCGTGAAGATG-AGTCAATCTTTTAG
1 TGTTGTATTCCTTAACTTTCTCACGAAGA-GAAGTCAAACTTTTAG
*
98772 TGTTGTCATT-CTTGACTTTCTCACGAAGAGAAGTCAAACTTT
1 TGTTGT-ATTCCTTAACTTTCTCACGAAGAGAAGTCAAACTTT
98814 CAAATTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 1 0.03
45 32 0.89
46 3 0.08
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (45 bp):
TGTTGTATTCCTTAACTTTCTCACGAAGAGAAGTCAAACTTTTAG
Found at i:99210 original size:3 final size:3
Alignment explanation
Indices: 99202--99282 Score: 144
Period size: 3 Copynumber: 27.0 Consensus size: 3
99192 CGATAATATC
* *
99202 ATT ATT ATT ATT GTT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
99250 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
99283 CTTAAAGAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:102800 original size:18 final size:18
Alignment explanation
Indices: 102758--102834 Score: 90
Period size: 18 Copynumber: 4.5 Consensus size: 18
102748 TTCTAAATTC
*
102758 TAGGGTATATGTTCATGT
1 TAGGGTTTATGTTCATGT
102776 TAGGGTTTATGTTCATGT
1 TAGGGTTTATGTTCATGT
*
102794 TAGGGTTTA-G--GAT-T
1 TAGGGTTTATGTTCATGT
* *
102808 TAGAGTTTATGTTCATAT
1 TAGGGTTTATGTTCATGT
102826 TAGGGTTTA
1 TAGGGTTTA
102835 AGAAGATGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
14 9 0.18
15 3 0.06
17 3 0.06
18 35 0.70
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (18 bp):
TAGGGTTTATGTTCATGT
Found at i:105387 original size:60 final size:59
Alignment explanation
Indices: 105276--105387 Score: 161
Period size: 60 Copynumber: 1.9 Consensus size: 59
105266 TATAGGACAC
** * * *
105276 TGCTTTGTTGAGTCTTTGACTATTAAAAGTTATAAAATGGTCCCCCAACTATAGGATTT
1 TGCTTTGTTGAGTCCCTAACTATTAAAAGTTATAAAATAGTCACCCAACTATAGGATTT
*
105335 TGCTTTGTTGAGTCCCCTAACTATTAAAAGTTATAAAATAGTCACCCGACTAT
1 TGCTTTGTTGAGT-CCCTAACTATTAAAAGTTATAAAATAGTCACCCAACTAT
105388 TTACATGTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 13 0.28
60 33 0.72
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (59 bp):
TGCTTTGTTGAGTCCCTAACTATTAAAAGTTATAAAATAGTCACCCAACTATAGGATTT
Found at i:110469 original size:2 final size:2
Alignment explanation
Indices: 110462--110525 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
110452 TATCCTTTAA
110462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110504 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
110526 TCTTTGTTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113070 original size:56 final size:55
Alignment explanation
Indices: 113001--113393 Score: 325
Period size: 56 Copynumber: 7.2 Consensus size: 55
112991 GAAACAAAAT
* *
113001 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTAAAAAAAACTAAGTC
1 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTT-AAAGAAACTAAGCC
* * ** * **
113057 TAATTTTCAGAAGTTTCTTAATGATTTTTAAATGAACTTTCAAGAGAAACTAAATC
1 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTAA-AGAAACTAAGCC
* * * * * **
113113 TGATTTTCAGAATTTTCTTAACGATTTTTAAATGAGCTTTTAAGGAAACTAAGTT
1 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTAAAGAAACTAAGCC
* *
113168 TGTTTTTTAGAAGTTTCTTGATGA--TTTAAATGAGTTTTT--AGAAACTAAGCC
1 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTAAAGAAACTAAGCC
* ** * * * **
113219 TGATTTTTAGGGGTTTCTTGATG-TTTTCAAATGAATTTTCAAAGAAGTTAAGCC
1 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTAAAGAAACTAAGCC
** * *
113273 TGATTTTCAGGGGTTTCTTGATG-TTTTCAAATGATTTTTTATAA-AAACTAAGCC
1 TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTA-AAGAAACTAAGCC
* * ** * * * *
113327 TAATTTTTAGGGGTTTCTTGATGATAACTATAAAAGAAAGTTTTT-AAGAAACTAAGCT
1 TGATTTTCAGAAGTTTCTTGATGAT--TTTTAAATG--AGTTTTTAAAGAAACTAAGCC
113385 TGATTTTCA
1 TGATTTTCA
113394 AGGGTTTCTT
Statistics
Matches: 278, Mismatches: 47, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
51 29 0.10
52 12 0.04
53 14 0.05
54 77 0.28
55 33 0.12
56 84 0.30
57 7 0.03
58 16 0.06
59 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (55 bp):
TGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGTTTTTAAAGAAACTAAGCC
Found at i:113194 original size:55 final size:55
Alignment explanation
Indices: 112964--113351 Score: 317
Period size: 54 Copynumber: 7.1 Consensus size: 55
112954 ACTAAGTCTG
* * * * * *
112964 TTGACGATTTTCAAATGACCTTTCAAAGAAACAAAAT-TGATTTTCAGAAGTTTC
1 TTGATGATTTTTAAATGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTC
* * *
113018 TTGATGATTTTTAAATGAGTTTTTAAAAAAAACTAAGTCTAATTTTCAGAAGTTTC
1 TTGATGATTTTTAAATGAGCTTTT-AAAGAAACTAAGTCTGATTTTCAGAAGTTTC
* * * * *
113074 TTAATGATTTTTAAATGAACTTTCAAGAGAAACTAAATCTGATTTTCAGAATTTTC
1 TTGATGATTTTTAAATGAGCTTTTAA-AGAAACTAAGTCTGATTTTCAGAAGTTTC
* * * * * *
113130 TTAACGATTTTTAAATGAGCTTTTAAGGAAACTAAGTTTGTTTTTTAGAAGTTTC
1 TTGATGATTTTTAAATGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTC
* * * **
113185 TTGATGA--TTTAAATGAG-TTTT-TAGAAACTAAGCCTGATTTTTAGGGGTTTC
1 TTGATGATTTTTAAATGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTC
* * ** * **
113236 TTGATG-TTTTCAAATGA-ATTTTCAAAGAAGTTAAGCCTGATTTTCAGGGGTTTC
1 TTGATGATTTTTAAATGAGCTTTT-AAAGAAACTAAGTCTGATTTTCAGAAGTTTC
* ** * * * **
113290 TTGATG-TTTTCAAATGATTTTTTATAA-AAACTAAGCCTAATTTTTAGGGGTTTC
1 TTGATGATTTTTAAATGAGCTTTTA-AAGAAACTAAGTCTGATTTTCAGAAGTTTC
113344 TTGATGAT
1 TTGATGAT
113352 AACTATAAAA
Statistics
Matches: 278, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
51 29 0.10
52 16 0.06
53 10 0.04
54 92 0.33
55 47 0.17
56 84 0.30
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (55 bp):
TTGATGATTTTTAAATGAGCTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTC
Found at i:113724 original size:42 final size:41
Alignment explanation
Indices: 113678--113758 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
113668 TCAGTAAGGC
* * *
113678 TTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGCT
1 TTTCGAGCAAGATG-ATAAATCCTTCGGGTCATCCATAAGCT
*
113720 TTTCGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAG
1 TTTCGAGCAAGATGATAAATCCTTCGGGTCATCCATAAG
113759 ACCTTCGGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
TTTCGAGCAAGATGATAAATCCTTCGGGTCATCCATAAGCT
Found at i:113726 original size:242 final size:239
Alignment explanation
Indices: 113397--113897 Score: 681
Period size: 242 Copynumber: 2.1 Consensus size: 239
113387 ATTTTCAAGG
* * *
113397 GTTTCTT-TATGAGTAACTCTTTCAGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTT
1 GTTTCTTATAT-AGTAAGTCCTTCAGGCCATCAATAAGGCTTTCGAGCATGATGCTTAAATCCTT
* *
113461 CGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGAACAGCTATAAGACCTTCAGG
65 CGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGAACAGCCATAAGACCTTCAGG
*
113526 CATGATGTTTTCATATGA-TTTAAAATAATGAGAAAGCT-ATTTCCAAAGTTTCTCATTTAAATC
130 CATGATGTTTTCACATGATTTTAAAA-AATGAGAAAG-TAATTTCCAAAG-TTCTCATTTAAATC
* * * * *
113589 TTTTTTGAAAGTTGATTT-TTCTTGAAAAAAGTAAGAAAACGATTTCCAAA
192 TTTTCTGAAAATTAATTTCTT-TTG--AAAAGTAAGAAAACAATTCCCAAA
* * *
113639 GTTTCTTATATAGTAAGTCCTTCGGGCGATCAGTAAGGCTTTCGAGCATGATGCTTAAATCCTTC
1 GTTTCTTATATAGTAAGTCCTTCAGGCCATCAATAAGGCTTTCGAGCATGATGCTTAAATCCTTC
** * *
113704 GGGTCATCTATAAG-CTTTTCGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGG
66 GGGTCATCTATAAGTC-TTTCGAGCAAGATGATAAGTCCTTCGGAACAGCCATAAGACCTTCAGG
* *
113768 CATGATGTTTTCACATGATTTTTAAAAAATGAGAAAGTAATTTTCAGAGTTCTCATTTAAATCTT
130 CATGATGTTTTCACATGA-TTTTAAAAAATGAGAAAGTAATTTCCAAAGTTCTCATTTAAATCTT
*
113833 TTCTGAAAATTAATTTCTTTTGAAAAGTAAGAAAATAATTCCCAAA
194 TTCTGAAAATTAATTTCTTTTGAAAAGTAAGAAAACAATTCCCAAA
113879 GTTTCTTACT-TAGTAAGTC
1 GTTTCTTA-TATAGTAAGTC
113898 TCTCGGGTCA
Statistics
Matches: 231, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
240 38 0.16
241 2 0.01
242 161 0.70
243 23 0.10
244 7 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (239 bp):
GTTTCTTATATAGTAAGTCCTTCAGGCCATCAATAAGGCTTTCGAGCATGATGCTTAAATCCTTC
GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGAACAGCCATAAGACCTTCAGGC
ATGATGTTTTCACATGATTTTAAAAAATGAGAAAGTAATTTCCAAAGTTCTCATTTAAATCTTTT
CTGAAAATTAATTTCTTTTGAAAAGTAAGAAAACAATTCCCAAA
Found at i:113743 original size:41 final size:40
Alignment explanation
Indices: 113652--113758 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 40
113642 TCTTATATAG
* *
113652 TAAGTCCTTCGGG-CGATCAGTAAGGCTTTCGAGCATGATGCT
1 TAAGTCCTTCGGGTC-ATCA-TAA-GCTTTCGAGCAAGATGCA
*
113694 TAAATCCTTCGGGTCATCTATAAGCTTTTCGAGCAAGATG-A
1 TAAGTCCTTCGGGTCATC-ATAAGC-TTTCGAGCAAGATGCA
113735 TAAGTCCTTCGGGTCATCCATAAG
1 TAAGTCCTTCGGGTCAT-CATAAG
113759 ACCTTCGGGC
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
41 23 0.40
42 32 0.56
43 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TAAGTCCTTCGGGTCATCATAAGCTTTCGAGCAAGATGCA
Found at i:114539 original size:139 final size:139
Alignment explanation
Indices: 114289--114959 Score: 979
Period size: 139 Copynumber: 4.8 Consensus size: 139
114279 GGTAAACCAT
* * *
114289 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAAAACTCATCCGATAAGGAAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
114354 ATGAGAAGAACTTGTTCAACCTTACCTCGATTCATCATATATGGAGTTGAATCAGTAACATCTCA
66 ATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCA
114419 CTCGAGGGA
131 CTCGAGGGA
* * *
114428 TCAACATTTCCAGTGGAGAGTTCAAAATGAGAAGAACTCATCTGATGAGGGAAAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
114493 ATGAGAAGAACTTGTTCAACCTTAACTTGATTCATCGCATATGGAGTTGAATTAACAACACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCA
*
114558 CTCAAGGGA
131 CTCGAGGGA
* * *
114567 TCAACATTTACAATGGAGAGTTCATAATGAGAAGAACTCACCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
114632 ATGAGAAGAACTTGTTCAAACTTAGCTCGATTCATCACATATGGAGTTGAATCAGCGATACCTCA
66 ATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCA
114697 CTCGAGGGA
131 CTCGAGGGA
** *
114706 TCAACATTTCCAGTGGTTAGTTCATAATGAGAAGAACTCACCCGATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
* * * *
114771 ATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCGCA-ATGGAGTCGAATCGGCAACACCTTA
66 ATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCA
114835 CTCGAGGGA
131 CTCGAGGGA
* * * *
114844 TCAACATCTCTAATGGGAGAGTTCATAATGAGAAGAACTCATCCGATGAAGGAGAAGAAGTTCAT
1 TCAACATTTCCAGT-GGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
*
114909 AATGAGAAGAACTTGTTCAACCTTAGCTC-ATTTTCATCACATA-GGAAGTTG
65 AATGAGAAGAACTTGTTCAACCTTAACTCGA--TTCATCACATATGG-AGTTG
114960 GAATAACAAC
Statistics
Matches: 475, Mismatches: 52, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
138 41 0.09
139 419 0.88
140 10 0.02
141 5 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (139 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTAACTCGATTCATCACATATGGAGTTGAATCAGCAACACCTCA
CTCGAGGGA
Found at i:114926 original size:20 final size:19
Alignment explanation
Indices: 114864--114927 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
114854 TAATGGGAGA
114864 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* * *
114883 CATCCGATGAAGGAGAAGAA--
1 -GTTC-AT-AATGAGAAGAACT
114903 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
114923 GTTCA
1 GTTCA
114928 ACCTTAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 10 0.30
18 2 0.06
19 2 0.06
20 7 0.21
21 2 0.06
22 10 0.30
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.23
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:124663 original size:161 final size:166
Alignment explanation
Indices: 124395--124724 Score: 616
Period size: 162 Copynumber: 2.0 Consensus size: 166
124385 TTACCAAAGG
124395 ACCCAAACAAAATTCCCAATCACTAAACCTATTATTCAAAATCTCCCTTGATTTACCCTCCTTAA
1 ACCCAAACAAAATTCCCAATCACTAAACCTATTATTCAAAATCTCCCTTGATTTACCCTCCTTAA
124460 CCCTTGTTTCGAGAAGACACAAAACATTTATTTGACAACTAAC-AACCCAACTCAATACCTTACC
66 CCCTTGTTTCGAGAAGACACAAAACATTTATTTGACAACTAACAAACCCAACTCAATACCTTACC
124524 TGTTTGAGGGGATTGTTAAA-TCTTAACATTCAAAA
131 TGTTTGAGGGGATTGTTAAACTCTTAACATTCAAAA
124559 ACCCAAACAAAATT-CCAATCACTAAA-CTATTATTCAAAATCTCCCTTGA-TTACCCTCCTTAA
1 ACCCAAACAAAATTCCCAATCACTAAACCTATTATTCAAAATCTCCCTTGATTTACCCTCCTTAA
124621 CCCTTGTTTCGAGAAGACACAAAACATTTATTTGACAACTAACAAACCCAACTCAATACCTTACC
66 CCCTTGTTTCGAGAAGACACAAAACATTTATTTGACAACTAACAAACCCAACTCAATACCTTACC
124686 TGTTTGAGGGGATTGTTAAATCTCTTAACATTCAAAA
131 TGTTTGAGGGGATTGTTAAA-CTCTTAACATTCAAAA
124723 AC
1 AC
124725 AAACTAACAT
Statistics
Matches: 163, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
161 56 0.34
162 64 0.39
163 12 0.07
164 31 0.19
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (166 bp):
ACCCAAACAAAATTCCCAATCACTAAACCTATTATTCAAAATCTCCCTTGATTTACCCTCCTTAA
CCCTTGTTTCGAGAAGACACAAAACATTTATTTGACAACTAACAAACCCAACTCAATACCTTACC
TGTTTGAGGGGATTGTTAAACTCTTAACATTCAAAA
Found at i:124797 original size:26 final size:25
Alignment explanation
Indices: 124755--124804 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
124745 TATAGAAAAG
124755 CATGTCTTGACTAATTTTGCCACTT
1 CATGTCTTGACTAATTTTGCCACTT
124780 CATGTCTTGGACTAATTTTGCCACT
1 CATGTCTT-GACTAATTTTGCCACT
124805 CCAAGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (25 bp):
CATGTCTTGACTAATTTTGCCACTT
Found at i:126308 original size:7 final size:6
Alignment explanation
Indices: 126273--126306 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
126263 ATGGTGATAG
126273 TTTAGA TTTAGA TTTAGA TTTAGA TTTTAGA TTT
1 TTTAGA TTTAGA TTTAGA TTTAGA -TTTAGA TTT
126307 TATATGTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
TTTAGA
Found at i:132948 original size:22 final size:22
Alignment explanation
Indices: 132915--132971 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
132905 GCCAAGGCAC
* *
132915 TGATAC-AGAAGTTAATTTGCAT
1 TGATACTA-AAGTGAATTAGCAT
**
132937 TGATACTAAAGTGCCTTAGCAT
1 TGATACTAAAGTGAATTAGCAT
132959 TGATACTAAAGTG
1 TGATACTAAAGTG
132972 CCTTAGCACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (22 bp):
TGATACTAAAGTGAATTAGCAT
Found at i:132972 original size:22 final size:22
Alignment explanation
Indices: 132933--132979 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
132923 AAGTTAATTT
132933 GCATTGATACTAAAGTGCCTTA
1 GCATTGATACTAAAGTGCCTTA
132955 GCATTGATACTAAAGTGCCTTA
1 GCATTGATACTAAAGTGCCTTA
132977 GCA
1 GCA
132980 CTACTAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
GCATTGATACTAAAGTGCCTTA
Found at i:134262 original size:18 final size:21
Alignment explanation
Indices: 134239--134287 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
134229 TCTCCCCATA
134239 TATCGATACT-AAC-T-GCAG
1 TATCGATACTCAACGTGGCAG
*
134257 TATCGATACTCACCGTGGCAG
1 TATCGATACTCAACGTGGCAG
134278 TATCGATACT
1 TATCGATACT
134288 TGATAACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.37
19 2 0.07
20 1 0.04
21 14 0.52
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (21 bp):
TATCGATACTCAACGTGGCAG
Found at i:139917 original size:39 final size:39
Alignment explanation
Indices: 139313--139917 Score: 789
Period size: 39 Copynumber: 15.5 Consensus size: 39
139303 AGGTTGAATA
* ** * *
139313 AGTTCTTCAGACTATGAACT-TCTCATTCCTCTTTAGATG
1 AGTTCTTCAGATTATGAACTCT-TTTTTCCTCTTCAGACG
* * * * *
139352 AGTTCTTCAGATTATGAACTCCTTCTTCCTATTCATATG
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
* *
139391 AGTTCTTCAGATTGTGAACGTC-TTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAAC-TCTTTTTTCCTCTTCAGACG
139430 AGTTCTTCAGATTATGAACTTCTTTTTT-CTCTTCAGACG
1 AGTTCTTCAGATTATGAAC-TCTTTTTTCCTCTTCAGACG
* * *
139469 AGTTCTTCATATTATGAACTCCTTTTTCCTCTTTAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
*
139508 AGTTCTTCAGATTATGAACTCTTTTTT-CTCTTTAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
* *
139546 AGTTCTTCAAATTATGAACT-TTTTCTTCCTCTTCAGAAG
1 AGTTCTTCAGATTATGAACTCTTTT-TTCCTCTTCAGACG
*
139585 AGTTCTTCAGATTATGAACTCTGTTTCTT-CTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCT-TTT-TTCCTCTTCAGACG
*
139625 AGTTCTTCAGATTATGAACTCCTTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACT-CTTTTTTCCTCTTCAGACG
* *
139665 AGTTCTTCAGATTATGAACTCTTTTTTTCTCTTTAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
139704 AGTTCTTCAGATTATGAACTCATTTTTT-CTCTTCAGACG
1 AGTTCTTCAGATTATGAACTC-TTTTTTCCTCTTCAGACG
* *
139743 AATTCTTCAGATTCTGAACT-TTTTTT-CTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
* *
139780 AGTTCTTCAGATTATGAACTCATTTTTCCTCTTCAAAC-
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
**
139818 ACGTTCTTCAGATTATGAACTCTTTTTTTTTCTTCAGACG
1 A-GTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
* *
139858 AGTTCTTCAGACTATGAACTCTTTTTTCCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
139897 AGTTCTTCAGATTATGAACTC
1 AGTTCTTCAGATTATGAACTC
139918 CTTCTAGAAA
Statistics
Matches: 505, Mismatches: 46, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
37 39 0.08
38 45 0.09
39 338 0.67
40 75 0.15
41 8 0.02
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (39 bp):
AGTTCTTCAGATTATGAACTCTTTTTTCCTCTTCAGACG
Found at i:140078 original size:45 final size:45
Alignment explanation
Indices: 139971--140453 Score: 606
Period size: 45 Copynumber: 10.7 Consensus size: 45
139961 TTGTTATTTC
* * ** *
139971 AAAACATCCGGCACTGAAGGTCTTATGGATGGCCCGAAGGCTTTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGC--TTTG
* *
140018 AAAACATCCTGCACTGAAGGTCTTACAGATGACTCGAAGGCTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* * * *
140063 AAAACATCTTGCACTGTAGGTCTTACAGATGACTCAAAGGTTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* * * *
140108 AAAACATCATCCACTGTAGGTGTTACAGATGACTCGAAGGCTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* * * * *
140153 AAAACATCCTGTACTGTAGGTCCTACAGATGACCTGAATGTTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
*
140198 AAAACATCATGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* * * * *
140243 AAAACATCTTGCACTGTAAGTCTTACAGACGACCCGAAGGTTTTT
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
** * * *
140288 AAAACATTATGCACTGAAGGTCTTACAGATGACCCAAAGGCATTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* * *
140333 AAAACATCCTGCACTGTAGGTCCTACAGATAACCCGAAGGTTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* *
140378 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCAAAGGTTTTG
1 AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
* *
140423 AAAACATCATGCACTGAAGGTCTTACAGATG
1 AAAACATCCTGCACTGTAGGTCTTACAGATG
140454 TGGAAACTTT
Statistics
Matches: 380, Mismatches: 56, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
45 344 0.91
47 36 0.09
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
AAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTG
Found at i:141148 original size:22 final size:23
Alignment explanation
Indices: 141090--141148 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
141080 AATAGAGCTT
*
141090 TCATCTTTGAA-AAGAGAATCTA
1 TCATCTTTGAAGAATAGAATCTA
141112 TCATCTTTGAAGAATA-AATCTA
1 TCATCTTTGAAGAATAGAATCTA
141134 TCATCTTTGAAGAAT
1 TCATCTTTGAAGAAT
141149 GTAGATGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (23 bp):
TCATCTTTGAAGAATAGAATCTA
Found at i:146898 original size:8 final size:7
Alignment explanation
Indices: 146885--146956 Score: 69
Period size: 8 Copynumber: 10.0 Consensus size: 7
146875 AAATGTAACT
146885 ATGCAAA
1 ATGCAAA
146892 GATGC-AA
1 -ATGCAAA
146899 ATGCAAAA
1 ATGC-AAA
146907 ATGCAAA
1 ATGCAAA
146914 GATGC-AA
1 -ATGCAAA
146921 ATGCAAA
1 ATGCAAA
146928 ATG-AAA
1 ATGCAAA
*
146934 ATGCAAGG
1 ATGCAA-A
146942 ATGCAAA
1 ATGCAAA
146949 GATGCAAA
1 -ATGCAAA
146957 TGTAAATGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
6 14 0.25
7 14 0.25
8 27 0.49
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.14
Consensus pattern (7 bp):
ATGCAAA
Found at i:146910 original size:22 final size:22
Alignment explanation
Indices: 146885--146956 Score: 96
Period size: 22 Copynumber: 3.3 Consensus size: 22
146875 AAATGTAACT
146885 ATGCAAAGATGCAAATGCAAAA
1 ATGCAAAGATGCAAATGCAAAA
146907 ATGCAAAGATGCAAATGC-AAA
1 ATGCAAAGATGCAAATGCAAAA
*
146928 ATG-AAA-ATGCAAGGATGCAAAG
1 ATGCAAAGATGCAA--ATGCAAAA
146950 ATGCAAA
1 ATGCAAA
146957 TGTAAATGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
19 6 0.13
20 3 0.07
21 10 0.22
22 23 0.51
23 3 0.07
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.14
Consensus pattern (22 bp):
ATGCAAAGATGCAAATGCAAAA
Found at i:146938 original size:35 final size:36
Alignment explanation
Indices: 146885--146958 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
146875 AAATGTAACT
*
146885 ATGCAAAGATGCAAATGCAAAAATGCAAAGATGCAA
1 ATGCAAAGATGAAAATGCAAAAATGCAAAGATGCAA
**
146921 ATGCAAA-ATGAAAATGCAAGGATGCAAAGATGCAA
1 ATGCAAAGATGAAAATGCAAAAATGCAAAGATGCAA
146956 ATG
1 ATG
146959 TAAATGCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 28 0.80
36 7 0.20
ACGTcount: A:0.51, C:0.12, G:0.22, T:0.15
Consensus pattern (36 bp):
ATGCAAAGATGAAAATGCAAAAATGCAAAGATGCAA
Found at i:146944 original size:27 final size:28
Alignment explanation
Indices: 146885--146966 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
146875 AAATGTAACT
146885 ATGCAAAGATGCAAATGCAAAAATGCAAAG
1 ATGCAAAGATGCAAATG--AAAATGCAAAG
*
146915 ATGC-AA-ATGCAAAATGAAAATGCAAGG
1 ATGCAAAGATGC-AAATGAAAATGCAAAG
*
146942 ATGCAAAGATGCAAATGTAAATGCA
1 ATGCAAAGATGCAAATGAAAATGCA
146967 TGTATGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
27 14 0.30
28 18 0.38
29 11 0.23
30 4 0.09
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.16
Consensus pattern (28 bp):
ATGCAAAGATGCAAATGAAAATGCAAAG
Found at i:147602 original size:36 final size:36
Alignment explanation
Indices: 147555--147693 Score: 260
Period size: 36 Copynumber: 3.9 Consensus size: 36
147545 CCATAAAATG
*
147555 CTTTTGGTATCAATCTAACAGGATCTATGTGGAATA
1 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
147591 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
1 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
*
147627 CTTTTGGTATCAATCTAACAAGATCTTTGTGGAATA
1 CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
147663 CTTTTGGTATCAATCTAACAGGATCTTTGTG
1 CTTTTGGTATCAATCTAACAGGATCTTTGTG
147694 TGCATAGCTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (36 bp):
CTTTTGGTATCAATCTAACAGGATCTTTGTGGAATA
Found at i:151793 original size:8 final size:8
Alignment explanation
Indices: 151773--151849 Score: 61
Period size: 8 Copynumber: 9.9 Consensus size: 8
151763 CATTTGTACG
151773 TGTGTGTGA
1 TGTGTGT-A
151782 -GTGTGTA
1 TGTGTGTA
*
151789 TGTGTATA
1 TGTGTGTA
**
151797 CATGT--A
1 TGTGTGTA
151803 TGTGTGTA
1 TGTGTGTA
*
151811 TGTGTGTG
1 TGTGTGTA
*
151819 CGTGTGTA
1 TGTGTGTA
151827 TGTGTGTA
1 TGTGTGTA
* *
151835 TATGTGTG
1 TGTGTGTA
151843 TGTGTGT
1 TGTGTGT
151850 GTATATATGT
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
8 48 0.91
ACGTcount: A:0.13, C:0.03, G:0.38, T:0.47
Consensus pattern (8 bp):
TGTGTGTA
Found at i:151816 original size:2 final size:2
Alignment explanation
Indices: 151803--151851 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
151793 TATACATGTA
* * * * *
151803 TG TG TG TA TG TG TG TG CG TG TG TA TG TG TG TA TA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
151845 TG TG TG T
1 TG TG TG T
151852 ATATATGTAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.08, C:0.02, G:0.41, T:0.49
Consensus pattern (2 bp):
TG
Found at i:151851 original size:8 final size:8
Alignment explanation
Indices: 151799--151849 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
151789 TGTGTATACA
151799 TGTATGTG
1 TGTATGTG
151807 TGTATGTG
1 TGTATGTG
**
151815 TGTGCGTG
1 TGTATGTG
151823 TGTATGTG
1 TGTATGTG
*
151831 TGTATATG
1 TGTATGTG
*
151839 TGTGTGTG
1 TGTATGTG
151847 TGT
1 TGT
151850 GTATATATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.10, C:0.02, G:0.39, T:0.49
Consensus pattern (8 bp):
TGTATGTG
Found at i:151852 original size:18 final size:18
Alignment explanation
Indices: 151801--151855 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
151791 TGTATACATG
151801 TATGTGTGTATGTGTG--
1 TATGTGTGTATGTGTGTA
**
151817 TGCGTGTGTATGTGTGTA
1 TATGTGTGTATGTGTGTA
*
151835 TATGTGTGTGTGTGTGTA
1 TATGTGTGTATGTGTGTA
151853 TAT
1 TAT
151856 ATGTACATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 14 0.44
18 18 0.56
ACGTcount: A:0.13, C:0.02, G:0.36, T:0.49
Consensus pattern (18 bp):
TATGTGTGTATGTGTGTA
Found at i:151915 original size:34 final size:35
Alignment explanation
Indices: 151877--152003 Score: 107
Period size: 36 Copynumber: 3.6 Consensus size: 35
151867 TATATTTATA
* *
151877 TATGTGTATGT-ATATGTATGTGTGAGTCTGTGTG
1 TATGTATATGTAATATGTATGTGTGAATCTGTGTG
* **
151911 TATGTATATGTAAATGTGTATGTGTGAATCTGTGCA
1 TATGTATATGT-AATATGTATGTGTGAATCTGTGTG
* * *
151947 TATGTATGTGTAA-ATGTGTGTGTGTAAGTGTGTGTG
1 TATGTATATGTAATATGTATGTGTG-AA-TCTGTGTG
* * *
151983 TGTGCATAT-TCATATGTATGT
1 TATGTATATGTAATATGTATGT
152004 ATAAGTGTAC
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
34 19 0.26
35 6 0.08
36 47 0.65
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (35 bp):
TATGTATATGTAATATGTATGTGTGAATCTGTGTG
Found at i:151943 original size:36 final size:36
Alignment explanation
Indices: 151891--151971 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
151881 TGTATGTATA
* **
151891 TGTATGTGTGAGTCTGTGTGTATGTATATGTAAATG
1 TGTATGTGTGAATCTGTGCATATGTATATGTAAATG
*
151927 TGTATGTGTGAATCTGTGCATATGTATGTGTAAATG
1 TGTATGTGTGAATCTGTGCATATGTATATGTAAATG
*
151963 TGTGTGTGT
1 TGTATGTGT
151972 AAGTGTGTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (36 bp):
TGTATGTGTGAATCTGTGCATATGTATATGTAAATG
Found at i:151972 original size:14 final size:14
Alignment explanation
Indices: 151953--151985 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
151943 TGCATATGTA
151953 TGTGTAAATGTGTG
1 TGTGTAAATGTGTG
*
151967 TGTGTAAGTGTGTG
1 TGTGTAAATGTGTG
151981 TGTGT
1 TGTGT
151986 GCATATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
TGTGTAAATGTGTG
Found at i:152039 original size:14 final size:16
Alignment explanation
Indices: 152029--152069 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
152019 TATGTGTGCT
152029 TGCATACGTGTGCATG
1 TGCATACGTGTGCATG
*
152045 TGCAT--GTGTGCTTG
1 TGCATACGTGTGCATG
152059 TGCATACGTGT
1 TGCATACGTGT
152070 ATGTGTGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.15, C:0.17, G:0.32, T:0.37
Consensus pattern (16 bp):
TGCATACGTGTGCATG
Found at i:152073 original size:28 final size:28
Alignment explanation
Indices: 152015--152086 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
152005 TAAGTGTACG
152015 TGTGTATGTGTGC-T-TGCATACGTGTGCA
1 TGTG-ATGTGTGCTTGTGCATACGTGT-CA
152043 TGTGCATGTGTGCTTGTGCATACGTGT-A
1 TGTG-ATGTGTGCTTGTGCATACGTGTCA
*
152071 TGTG-TGCGTGCTTGTG
1 TGTGATGTGTGCTTGTG
152087 TGTGTATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 11 0.28
28 17 0.43
29 1 0.03
30 11 0.28
ACGTcount: A:0.11, C:0.14, G:0.35, T:0.40
Consensus pattern (28 bp):
TGTGATGTGTGCTTGTGCATACGTGTCA
Found at i:152087 original size:34 final size:34
Alignment explanation
Indices: 152044--152113 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
152034 ACGTGTGCAT
*
152044 GTGCATGTGTGCT-TGTGCATACGTGTATGTGTGC
1 GTGCATGTGTG-TGTATGCATACGTGTATGTGTGC
* *
152078 GTGCTTGTGTGTGTATGCATATGTGTATGTGTGC
1 GTGCATGTGTGTGTATGCATACGTGTATGTGTGC
152112 GT
1 GT
152114 ATGTACGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.11, C:0.11, G:0.36, T:0.41
Consensus pattern (34 bp):
GTGCATGTGTGTGTATGCATACGTGTATGTGTGC
Found at i:152116 original size:16 final size:16
Alignment explanation
Indices: 152066--152117 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
152056 TTGTGCATAC
*
152066 GTGTATGTGTGCGTGCTT
1 GTGTATGTGTGCGT--AT
* * *
152084 GTGTGTGTATGCATAT
1 GTGTATGTGTGCGTAT
152100 GTGTATGTGTGCGTAT
1 GTGTATGTGTGCGTAT
152116 GT
1 GT
152118 ACGTGTGTGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 16 0.59
18 11 0.41
ACGTcount: A:0.12, C:0.08, G:0.37, T:0.44
Consensus pattern (16 bp):
GTGTATGTGTGCGTAT
Found at i:152221 original size:18 final size:18
Alignment explanation
Indices: 152198--152255 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
152188 ATATGTTTAC
*
152198 GTGTGTGTCAGTCTGTAT
1 GTGTGTGTCAGTATGTAT
152216 GTGTGTGTACA-TATGTAT
1 GTGTGTGT-CAGTATGTAT
** *
152234 GTGTGTGTGTGTTTGTAT
1 GTGTGTGTCAGTATGTAT
152252 GTGT
1 GTGT
152256 ATACATATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 32 0.94
19 2 0.06
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.48
Consensus pattern (18 bp):
GTGTGTGTCAGTATGTAT
Found at i:152437 original size:24 final size:24
Alignment explanation
Indices: 152409--152462 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
152399 ATTGTGCGTG
152409 TGTGTACATATGTTTATACGTGTA
1 TGTGTACATATGTTTATACGTGTA
152433 TGTGTACATATGTTTATACGTGTA
1 TGTGTACATATGTTTATACGTGTA
152457 TGTGTA
1 TGTGTA
152463 TGTGCATACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.46
Consensus pattern (24 bp):
TGTGTACATATGTTTATACGTGTA
Found at i:152610 original size:20 final size:20
Alignment explanation
Indices: 152566--152643 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
152556 GTGTCCGTGT
152566 ATATGTGTGTGTAT-TTATGTAC
1 ATATGTGTGTGTATGTT-TG--C
152588 ATATGTGTGTGTATGTTTGC
1 ATATGTGTGTGTATGTTTGC
* * **
152608 ATATATGCGTGTATGCGTGC
1 ATATGTGTGTGTATGTTTGC
* *
152628 GTACGTGTGTGTATGT
1 ATATGTGTGTGTATGT
152644 GTGCGCGTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 28 0.61
22 16 0.35
23 2 0.04
ACGTcount: A:0.18, C:0.08, G:0.29, T:0.45
Consensus pattern (20 bp):
ATATGTGTGTGTATGTTTGC
Found at i:152613 original size:22 final size:22
Alignment explanation
Indices: 152565--152619 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
152555 TGTGTCCGTG
*
152565 TATATGTGTGTGTATTTATGTA
1 TATATGTGTGTGTATTTATGCA
*
152587 CATATGTGTGTGTATGTT-TGCA
1 TATATGTGTGTGTAT-TTATGCA
*
152609 TATATGCGTGT
1 TATATGTGTGT
152620 ATGCGTGCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.49
Consensus pattern (22 bp):
TATATGTGTGTGTATTTATGCA
Found at i:152824 original size:18 final size:18
Alignment explanation
Indices: 152789--152850 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
152779 TGCGCATCTA
* * *
152789 TGTGTACGTACATGTGTG
1 TGTGTGCGTGCATTTGTG
152807 TGTGTGCGTGCATTTGTGTG
1 TGTGTGCGTGCA-TT-TGTG
152827 TGTGTGCGTGCATTTGTG
1 TGTGTGCGTGCATTTGTG
152845 TGTGTG
1 TGTGTG
152851 TGTGTGCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 20 0.51
19 3 0.08
20 16 0.41
ACGTcount: A:0.08, C:0.10, G:0.39, T:0.44
Consensus pattern (18 bp):
TGTGTGCGTGCATTTGTG
Found at i:152824 original size:20 final size:20
Alignment explanation
Indices: 152801--152859 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
152791 TGTACGTACA
152801 TGTGTGTGTGTGCGTGCATT
1 TGTGTGTGTGTGCGTGCATT
152821 TGTGTGTGTGTGCGTGCATT
1 TGTGTGTGTGTGCGTGCATT
*
152841 TGTGTGTGTGTGTGTGCAT
1 TGTGTGTGTGTGCGTGCAT
152860 ACATGTGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.05, C:0.08, G:0.41, T:0.46
Consensus pattern (20 bp):
TGTGTGTGTGTGCGTGCATT
Found at i:152866 original size:20 final size:20
Alignment explanation
Indices: 152797--152871 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
152787 TATGTGTACG
152797 TACATGTGTGTGTGTGCGTGCA
1 TACATGTGTGTGTGT--GTGCA
*** *
152819 TTTGTGTGTGTGTGCGTGCA
1 TACATGTGTGTGTGTGTGCA
***
152839 TTTGTGTGTGTGTGTGTGCA
1 TACATGTGTGTGTGTGTGCA
152859 TACATGTGTGTGT
1 TACATGTGTGTGT
152872 ACGCACGTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 34 0.76
22 11 0.24
ACGTcount: A:0.09, C:0.09, G:0.37, T:0.44
Consensus pattern (20 bp):
TACATGTGTGTGTGTGTGCA
Found at i:153704 original size:17 final size:17
Alignment explanation
Indices: 153678--153724 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
153668 TACCAACAAC
*
153678 CAGTTAGTCTAGTGAAA
1 CAGTTGGTCTAGTGAAA
* *
153695 CAGTTGGTCTATTGGAA
1 CAGTTGGTCTAGTGAAA
*
153712 CAGTTGATCTAGT
1 CAGTTGGTCTAGT
153725 AGAACGAGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (17 bp):
CAGTTGGTCTAGTGAAA
Found at i:158214 original size:2 final size:2
Alignment explanation
Indices: 158207--158235 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
158197 CCCTTAATTT
158207 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
158236 GATCACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:159121 original size:2 final size:2
Alignment explanation
Indices: 159114--159143 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
159104 AATTTAACTA
*
159114 AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
159144 TGTTTGTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:160498 original size:20 final size:20
Alignment explanation
Indices: 160473--160512 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
160463 CAATAGAAAA
*
160473 TATTTTTTAAAAAATATTTT
1 TATTTTTCAAAAAATATTTT
*
160493 TATTTTTCAGAAAATATTTT
1 TATTTTTCAAAAAATATTTT
160513 CAGTGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTTCAAAAAATATTTT
Found at i:161983 original size:15 final size:15
Alignment explanation
Indices: 161946--161984 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
161936 AATTTCATTT
*
161946 TCATTAAACCCTAAA
1 TCATAAAACCCTAAA
161961 TC-TAAAACCCTAAA
1 TCATAAAACCCTAAA
161975 TCATAAAACC
1 TCATAAAACC
161985 TTGAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (15 bp):
TCATAAAACCCTAAA
Found at i:162139 original size:7 final size:7
Alignment explanation
Indices: 162067--162182 Score: 81
Period size: 7 Copynumber: 16.6 Consensus size: 7
162057 TGTAAACTTA
*
162067 AAACACT
1 AAACCCT
162074 AAACCCT
1 AAACCCT
**
162081 AAACTAT
1 AAACCCT
*
162088 AAACCTT
1 AAACCCT
*
162095 AAATCCT
1 AAACCCT
162102 AAACCCT
1 AAACCCT
*
162109 AAATCCT
1 AAACCCT
162116 AAACCCT
1 AAACCCT
***
162123 AAATTAT
1 AAACCCT
162130 AAACCCT
1 AAACCCT
162137 AAACCCT
1 AAACCCT
***
162144 AAA-TGA
1 AAACCCT
**
162150 AAACTTT
1 AAACCCT
*
162157 AAATCCT
1 AAACCCT
162164 AAAACCCT
1 -AAACCCT
162172 AAACCCT
1 AAACCCT
162179 AAAC
1 AAAC
162183 TATAAACTAC
Statistics
Matches: 82, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
6 3 0.04
7 73 0.89
8 6 0.07
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:162144 original size:28 final size:28
Alignment explanation
Indices: 162073--162189 Score: 103
Period size: 28 Copynumber: 4.2 Consensus size: 28
162063 CTTAAAACAC
** * **
162073 TAAACCCTAAACTATAAACCTTAAATCC
1 TAAACCCTAAACCCTAAACCCTAAATTA
*
162101 TAAACCCTAAATCCTAAACCCTAAATTA
1 TAAACCCTAAACCCTAAACCCTAAATTA
***
162129 TAAACCCTAAACCCTAAA-TGAAAACTT-
1 TAAACCCTAAACCCTAAACCCTAAA-TTA
* *
162156 TAAATCCTAAAACCCTAAACCCTAAACTA
1 TAAACCCT-AAACCCTAAACCCTAAATTA
162185 TAAAC
1 TAAAC
162190 TACAAATACT
Statistics
Matches: 69, Mismatches: 16, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
27 10 0.14
28 52 0.75
29 7 0.10
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (28 bp):
TAAACCCTAAACCCTAAACCCTAAATTA
Found at i:162147 original size:21 final size:21
Alignment explanation
Indices: 162059--162147 Score: 90
Period size: 21 Copynumber: 4.2 Consensus size: 21
162049 AACCTAAATG
*
162059 TAAACTTA-AAACACTAAACCC
1 TAAA-TTATAAACCCTAAACCC
* * *
162080 TAAACTATAAACCTTAAATCC
1 TAAATTATAAACCCTAAACCC
*** *
162101 TAAACCCTAAATCCTAAACCC
1 TAAATTATAAACCCTAAACCC
162122 TAAATTATAAACCCTAAACCC
1 TAAATTATAAACCCTAAACCC
162143 TAAAT
1 TAAAT
162148 GAAAACTTTA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 2 0.04
21 52 0.96
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAATTATAAACCCTAAACCC
Found at i:162954 original size:3 final size:3
Alignment explanation
Indices: 162946--162999 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
162936 TGTGTTTTCC
162946 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
162994 TAT TAT
1 TAT TAT
163000 CAAAATGTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:164221 original size:17 final size:17
Alignment explanation
Indices: 164199--164317 Score: 112
Period size: 17 Copynumber: 6.3 Consensus size: 17
164189 AGGTTCAAAT
164199 TCGAGTTCGAGCTTGAA
1 TCGAGTTCGAGCTTGAA
*
164216 TCGAGTTCGAGTTTGAA
1 TCGAGTTCGAGCTTGAA
*
164233 TCGAGTTTGAGCTTGAA
1 TCGAGTTCGAGCTTGAA
164250 TCGAGCTCAAATTCGAGCTTGAA
1 TCGAG------TTCGAGCTTGAA
164273 TCGAGCTCAAATTCGAGCTTGAA
1 TCGAG------TTCGAGCTTGAA
164296 TCGAGTTCGAGCTTGAA
1 TCGAGTTCGAGCTTGAA
164313 TCGAG
1 TCGAG
164318 CTTCAATCGA
Statistics
Matches: 92, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 53 0.58
23 39 0.42
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (17 bp):
TCGAGTTCGAGCTTGAA
Found at i:164255 original size:11 final size:11
Alignment explanation
Indices: 164241--164402 Score: 91
Period size: 11 Copynumber: 14.5 Consensus size: 11
164231 AATCGAGTTT
164241 GAGCTTGAATC
1 GAGCTTGAATC
**
164252 GAGCTCAAATTC
1 GAGCTTGAA-TC
164264 GAGCTTGAATC
1 GAGCTTGAATC
**
164275 GAGCTCAAATTC
1 GAGCTTGAA-TC
164287 GAGCTTGAATC
1 GAGCTTGAATC
164298 GAG--T---TC
1 GAGCTTGAATC
164304 GAGCTTGAATC
1 GAGCTTGAATC
*
164315 GAGCTTCAATC
1 GAGCTTGAATC
* *
164326 GAGCTCGAGTCTC
1 GAGCTTGA--ATC
*
164339 GAGCTTCAATC
1 GAGCTTGAATC
* *
164350 GAGCTCGAGTCTC
1 GAGCTTGA--ATC
*
164363 GAGCTTCAATC
1 GAGCTTGAATC
* *
164374 GAGCTCGAGTCTC
1 GAGCTTGA--ATC
*
164387 GAGCTTCAATC
1 GAGCTTGAATC
164398 GAGCT
1 GAGCT
164403 CATGAATTTT
Statistics
Matches: 111, Mismatches: 27, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
6 5 0.05
8 1 0.01
9 1 0.01
11 62 0.56
12 18 0.16
13 24 0.22
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (11 bp):
GAGCTTGAATC
Found at i:164267 original size:12 final size:12
Alignment explanation
Indices: 164250--164291 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
164240 TGAGCTTGAA
164250 TCGAGCTCAAAT
1 TCGAGCTCAAAT
**
164262 TCGAGCTTGAA-
1 TCGAGCTCAAAT
164273 TCGAGCTCAAAT
1 TCGAGCTCAAAT
164285 TCGAGCT
1 TCGAGCT
164292 TGAATCGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (12 bp):
TCGAGCTCAAAT
Found at i:164271 original size:23 final size:23
Alignment explanation
Indices: 164241--164300 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
164231 AATCGAGTTT
164241 GAGCTTGAATCGAGCTCAAATTC
1 GAGCTTGAATCGAGCTCAAATTC
164264 GAGCTTGAATCGAGCTCAAATTC
1 GAGCTTGAATCGAGCTCAAATTC
164287 GAGCTTGAATCGAG
1 GAGCTTGAATCGAG
164301 TTCGAGCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (23 bp):
GAGCTTGAATCGAGCTCAAATTC
Found at i:164289 original size:35 final size:33
Alignment explanation
Indices: 164248--164355 Score: 99
Period size: 35 Copynumber: 3.0 Consensus size: 33
164238 TTTGAGCTTG
164248 AATCGAGCTCAAATTCGAGCTTGAATCGAGCTC
1 AATCGAGCTCAAATTCGAGCTTGAATCGAGCTC
*
164281 AAATTCGAGCTTGAATCGAGTTCGAGCTTGAATCGAGCTTC
1 -AA-TCGAGC-TCAA---A-TTCGAGCTTGAATCGAGC-TC
* * *
164322 AATCGAGCTCGAGTCTCGAGCTTCAATCGAGCTC
1 AATCGAGCTCAAAT-TCGAGCTTGAATCGAGCTC
164356 GAGTCTCGAG
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
34 5 0.08
35 22 0.36
36 3 0.05
38 2 0.03
39 7 0.11
40 20 0.33
41 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (33 bp):
AATCGAGCTCAAATTCGAGCTTGAATCGAGCTC
Found at i:164342 original size:13 final size:13
Alignment explanation
Indices: 164324--164391 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
164314 CGAGCTTCAA
164324 TCGAGCTCGAGTC
1 TCGAGCTCGAGTC
*
164337 TCGAGCTTC-A--A
1 TCGAGC-TCGAGTC
164348 TCGAGCTCGAGTC
1 TCGAGCTCGAGTC
*
164361 TCGAGCTTC-A--A
1 TCGAGC-TCGAGTC
164372 TCGAGCTCGAGTC
1 TCGAGCTCGAGTC
164385 TCGAGCT
1 TCGAGCT
164392 TCAATCGAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
10 4 0.09
11 14 0.33
13 21 0.49
14 4 0.09
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.25
Consensus pattern (13 bp):
TCGAGCTCGAGTC
Found at i:164343 original size:24 final size:24
Alignment explanation
Indices: 164343--164403 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
164333 AGTCTCGAGC
164343 TTCAATCGAGCTCGAGTCTCGAGC
1 TTCAATCGAGCTCGAGTCTCGAGC
164367 TTCAATCGAGCTCGAGTCTCGAGC
1 TTCAATCGAGCTCGAGTCTCGAGC
164391 TTCAATCGAGCTC
1 TTCAATCGAGCTC
164404 ATGAATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (24 bp):
TTCAATCGAGCTCGAGTCTCGAGC
Found at i:164380 original size:48 final size:47
Alignment explanation
Indices: 164233--164403 Score: 191
Period size: 48 Copynumber: 3.5 Consensus size: 47
164223 CGAGTTTGAA
* * * * *
164233 TCGAGTTTGAGCTTGAATCGAGCTCAAAT-TCGAGCTTGAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGCTCGAGTCTCGAGCTTCAATCGAGC
* * * * *
164279 TCAAATTCGAGCTTGAATCGAGTTCGAGCTTGAATCGAGCTTCAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGCTCGAG--T--CTCGAGCTTCAATCGAGC
164330 TCGAGTCTCGAGCTTCAATCGAGCTCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGT-TCGAGCTTCAATCGAGCTCGAGTCTCGAGCTTCAATCGAGC
164378 TCGAGTCTCGAGCTTCAATCGAGCTC
1 TCGAGT-TCGAGCTTCAATCGAGCTC
164404 ATGAATTTTT
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
46 22 0.21
48 44 0.41
50 1 0.01
51 20 0.19
52 20 0.19
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (47 bp):
TCGAGTTCGAGCTTCAATCGAGCTCGAGTCTCGAGCTTCAATCGAGC
Found at i:165719 original size:20 final size:20
Alignment explanation
Indices: 165617--165740 Score: 99
Period size: 20 Copynumber: 6.2 Consensus size: 20
165607 CAATATAACA
*
165617 GGTTGAAATTTGACAAATCC
1 GGTTGAAATTTGACAAAACC
* ** * *
165637 GATTTTAATTTGACAAATCA
1 GGTTGAAATTTGACAAAACC
*
165657 GG-TAACGAATTTGACAAAACC
1 GGTTGA--AATTTGACAAAACC
* *
165678 GATTGGAAA-ATGACAAAACC
1 GGTT-GAAATTTGACAAAACC
165698 GGTTGAAATTTGACAAAACC
1 GGTTGAAATTTGACAAAACC
** *
165718 GGTTTCAATTTGAGAAAACC
1 GGTTGAAATTTGACAAAACC
165738 GGT
1 GGT
165741 ATAAAGCTAC
Statistics
Matches: 82, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
19 5 0.06
20 60 0.73
21 15 0.18
22 1 0.01
23 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (20 bp):
GGTTGAAATTTGACAAAACC
Found at i:165736 original size:40 final size:40
Alignment explanation
Indices: 165617--165740 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
165607 CAATATAACA
* * * *
165617 GGTTGAAATTTGACAAATCCGATTTTAATTTGACAAATCA
1 GGTTGAAATTTGACAAAACCGATTTCAATTTGACAAAACC
* ** **
165657 GG-TAACGAATTTGACAAAACCGATTGGAAAATGACAAAACC
1 GGTTGA--AATTTGACAAAACCGATTTCAATTTGACAAAACC
* *
165698 GGTTGAAATTTGACAAAACCGGTTTCAATTTGAGAAAACC
1 GGTTGAAATTTGACAAAACCGATTTCAATTTGACAAAACC
165738 GGT
1 GGT
165741 ATAAAGCTAC
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
39 2 0.03
40 33 0.50
41 29 0.44
42 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (40 bp):
GGTTGAAATTTGACAAAACCGATTTCAATTTGACAAAACC
Found at i:168030 original size:21 final size:21
Alignment explanation
Indices: 167992--168035 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
167982 ATAGGCGTAA
167992 ATATAAAGTATCAATACTTATT
1 ATATAAAGTATCAATACTT-TT
**
168014 ATAT-AAGTATCGCTACTTTT
1 ATATAAAGTATCAATACTTTT
168034 AT
1 AT
168036 TCCAGTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATAAAGTATCAATACTTTT
Found at i:168628 original size:20 final size:21
Alignment explanation
Indices: 168590--168628 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
168580 AGACGTAAAC
168590 ATAGAGTATCGATACTTTTGT
1 ATAGAGTATCGATACTTTTGT
*
168611 ATAGA-TATCGATATTTTT
1 ATAGAGTATCGATACTTTT
168629 AGTCCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (21 bp):
ATAGAGTATCGATACTTTTGT
Found at i:168963 original size:199 final size:198
Alignment explanation
Indices: 167802--169399 Score: 1545
Period size: 199 Copynumber: 8.0 Consensus size: 198
167792 GTCCAATTTT
* * * * ** *
167802 GATACTTTTTATATATGCATCGATACTTGTTATTTTAATATGCTTATCAAACAATTTGGC-CGCA
1 GATAC-TTTTGTATAGGTATCGATACTT-TTAGTCCAATATGCTTCTCAAACAATTT-GCACGC-
* * * *
167866 ACAAAGTATCTATACCCATATATA-AAGTATCGATACTTGTAATTTCGAAACCTATTACTTTACA
62 ACAAAGTATCGATACACTTATA-ACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTA-A
* *** * *
167930 A-TAATAGGTAAATATATGTTCATAACCG-TAAAAATCTAATGGTTTAATGATAATAGGCGTAAA
125 AGTAATAGGTAAATTTACAAT-GTAAACGATAAAAATCT-ATGGTTTAATGATAATAGGCGTAAA
*
167993 TATAAAGTATC
188 CATAAAGTATC
* * * * * * * * * *
168004 AATACTTATTATATAAGTATCGCTACTTTTATTCC-A-GTGCATCTGAAACAATATGCACACA-A
1 GATACTT-TTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACA
* *
168066 AAGTATCGATACACATATAACAAGTATC-ACTACTTATAATTTTGAAACCTATTTA-TTTAAAGT
65 AAGTATCGATACACTTATAACAAGTATCGA-TACTTATAATTTCGAAACCTA-TTACTTTAAAGT
* ** *
168129 AATAGGTAATTTTACAATG-AAAAAATCAAAAATCTATCGGTTTAATGATAATAGGCATAAACAT
128 AATAGGTAAATTTACAATGTAAACGAT-AAAAATCTAT-GGTTTAATGATAATAGGCGTAAACAT
168193 AAAGTATC
191 AAAGTATC
* * * * * * * * * * *
168201 GATACATATTATATAAGTATCGCTACTTTTATTCCAGTGTG-TATCTGAATCAATTAGCACACAA
1 GATAC-TTTTGTATAGGTATCGATACTTTTAGTCCAATATGCT-TCTCAAACAATTTGCACGC-A
* * * * *
168265 AAAAGTATCGATACACGTAAAACAAGTATCGGTACTTATAATTTTGAAACCTATTACTTTAAAGT
63 CAAAGTATCGATACACTTATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGT
* * * *
168330 AATAGGTAATTTTACAATGAAAACCG-TAAAAATCTATCAGTTTAATGATAATAGGTGTAAACAT
128 AATAGGTAAATTTACAATGTAAA-CGATAAAAATCTAT-GGTTTAATGATAATAGGCGTAAACAT
*
168394 AAAATATC
191 AAAGTATC
* * *
168402 GATATTTTTTGTATAGGTATCAATACTTTTAGTCCAATATGCTTCTC-AACAATTTGCACGAACA
1 GATA-CTTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACA
* * * *
168466 AAGTATCGATACA-TGTATAACAAGTATCGATACTTATAATTTTGAAA-CGATTATTTTAAAGTT
65 AAGTATCGATACACT-TATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTA
* ** * * * * *
168529 TTAGGTAAATTTACAATGCCAACGGTAAAAGTCTACCGGTTTAATGATAATAGACGTAAACATAG
129 ATAGGTAAATTTACAATGTAAACGATAAAAATCTA-TGGTTTAATGATAATAGGCGTAAACATAA
168594 AGTATC
193 AGTATC
* * * * * *
168600 GATACTTTTGTATAGATATCGATATTTTTAGTCCAATATGCTTCT-TAACAATTTGAATGAACAA
1 GATACTTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACAA
* * * * * *
168664 AATATCGATACA-TGTATAACAAATATTGATACTTATAATTTCGAAAACAATTACTTTAAAGTTA
66 AGTATCGATACACT-TATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAA
* * * *
168728 TAGGTAAATTTACAATGTCAAA-GGTAAAAGTCTACTGGTTTAATGATAATAGGCATAAACATAG
130 TAGGTAAATTTACAATGT-AAACGATAAAAATCTA-TGGTTTAATGATAATAGGCGTAAACATAA
*
168792 AGTATT
193 AGTATC
* * * *
168798 GATACTTTTGTATTGTTATCGATACTTTTAGTCCAATATGATTCTCAAACAATTTGCACGCAGAA
1 GATACTTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACAA
* * *
168863 AGTATCGATACACTTATCACAAGTATCGATA-TTGTTAATTTCGAAACGTATTACTTTAAAGTAA
66 AGTATCGATACACTTATAACAAGTATCGATACTT-ATAATTTCGAAACCTATTACTTTAAAGTAA
* * *
168927 TAGGTAAAATTACAATGTAAACGATAAAACTCTACTGGTTTAATGATAATAGGTGTAAACATAAA
130 TAGGTAAATTTACAATGTAAACGATAAAAATCTA-TGGTTTAATGATAATAGGCGTAAACATAAA
*
168992 ATATC
194 GTATC
* * *
168997 GATACTTTTTGTATAGGTATCGATACTTTTTGTCCAATATGTTTCTCAAACAATTTGCACGCAGA
1 GATAC-TTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACA
* * * *
169062 AAGTATCGATACACGTATCACAAGTATCGATAC-TATTAATTCCGTAACCTATTACTTTAAAGTA
65 AAGTATCGATACACTTATAACAAGTATCGATACTTA-TAATTTCGAAACCTATTACTTTAAAGTA
* * *
169126 ATAGGTAAATTTACAATGTAAATGATCAAAATCTATCGGTTTCATGATAATAGGCGTAAACATAA
129 ATAGGTAAATTTACAATGTAAACGATAAAAATCTAT-GGTTTAATGATAATAGGCGTAAACATAA
169191 AGTATC
193 AGTATC
* * * * *
169197 GATACTTTTAATATAGGTATCGATACTTTT-TTCTAGTATGCTTCTCAAACAATCTGCACGC-CA
1 GATACTTTT-GTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACA
* * * * * *
169260 AATGTATCGATACACATATGTA-AATTTTCGATACTTATAATTTTGAAACCTATTACTTTAAGGT
65 AA-GTATCGATACACTTAT-AACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGT
** * ** * * * * *
169324 AATAGGTTGATTTACAAT-CAAAATAGTGAAAGTCAATCAGTATAATGATAATAGGCGTAAACAT
128 AATAGGTAAATTTACAATGTAAACGA-TAAAAATCTAT-GGTTTAATGATAATAGGCGTAAACAT
*
169388 CAA-TATC
191 AAAGTATC
169395 GATAC
1 GATAC
169400 ACATATATAA
Statistics
Matches: 1193, Mismatches: 163, Indels: 84
0.83 0.11 0.06
Matches are distributed among these distances:
195 2 0.00
196 7 0.01
197 230 0.19
198 217 0.18
199 337 0.28
200 217 0.18
201 157 0.13
202 26 0.02
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (198 bp):
GATACTTTTGTATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAATTTGCACGCACAA
AGTATCGATACACTTATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAAT
AGGTAAATTTACAATGTAAACGATAAAAATCTATGGTTTAATGATAATAGGCGTAAACATAAAGT
ATC
Found at i:169179 original size:399 final size:397
Alignment explanation
Indices: 167802--169399 Score: 1626
Period size: 399 Copynumber: 4.0 Consensus size: 397
167792 GTCCAATTTT
* * ** *
167802 GATACTTTTTATATATGCATCGATACTTGTTATTTTAATATGCTTATCAAACAATTTGGC-CGCA
1 GATACTTTTTATATAGGTATCGATACTT-TTATTCCAATATGCTTCTCAAACAATTT-GCACGCA
* * * *
167866 ACAAAGTATCTATACCCATATATA-AAGTATCGATACTTGTAATTTCGAAACCTATTACTTTACA
64 ACAAAGTATCGATACACGTATA-ACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTA-A
* *** * *
167930 A-TAATAGGTAAATATATGTTCATAACCGTAAAAATCTAAT-GGTTTAATGATAATAGGCGTAAA
127 AGTAATAGGTAAATTTACAAT-GTAAACGTAAAAATCT-ATCGGTTTAATGATAATAGGCGTAAA
* * * * * * *
167993 TATAAAGTATCAATACTTATTATATAAGTATCGCTACTTTTATTCC-A-GTGCA-TCTGAAACAA
190 CATAAAGTATCGATACTT-TTATATAGGTATCGATACTTTTAGTCCAATATG-ATTCTCAAACAA
* *
168055 TATGCACACAAAAGTATCGATACACATATAACAAGTATC-ACTACTTATAATTTTGAAACCTATT
253 TTTGCACGCAAAAGTATCGATACACATATAACAAGTATCGA-TACTTATAATTTTGAAACCTA-T
* **
168119 TA-TTTAAAGTAATAGGTAATTTTACAATGAAAAAATCAAAAATCTA-TCGGTTTAATGATAATA
316 TACTTTAAAGTAATAGGTAAATTTACAATGAAACGAT-AAAAATCTACT-GGTTTAATGATAATA
*
168182 GGCATAAACATAAAGTATC
379 GGCGTAAACATAAAGTATC
* * * * * * * * * *
168201 GATACATATTATATAAGTATCGCTACTTTTATTCCAGTGTG-TATCTGAATCAATTAGCACACAA
1 GATACTTTTTATATAGGTATCGATACTTTTATTCCAATATGCT-TCTCAAACAATTTGCACGCAA
* * * *
168265 AAAAGTATCGATACACGTAAAACAAGTATCGGTACTTATAATTTTGAAACCTATTACTTTAAAGT
65 CAAAGTATCGATACACGTATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGT
* * * *
168330 AATAGGTAATTTTACAATGAAAACCGTAAAAATCTATCAGTTTAATGATAATAGGTGTAAACATA
130 AATAGGTAAATTTACAATGTAAA-CGTAAAAATCTATCGGTTTAATGATAATAGGCGTAAACATA
* * * * *
168395 AAATATCGATATTTTTTGTATAGGTATCAATACTTTTAGTCCAATATGCTTCTC-AACAATTTGC
194 AAGTATCGATA-CTTTTATATAGGTATCGATACTTTTAGTCCAATATGATTCTCAAACAATTTGC
* ** * *
168459 ACGAACAAAGTATCGATACATGTATAACAAGTATCGATACTTATAATTTTGAAA-CGATTATTTT
258 ACGCA-AAAGTATCGATACACATATAACAAGTATCGATACTTATAATTTTGAAACCTATTACTTT
** * * * * *
168523 AAAGTTTTAGGTAAATTTACAATGCCAACGGTAAAAGTCTACCGGTTTAATGATAATAGACGTAA
322 AAAGTAATAGGTAAATTTACAATG-AAACGATAAAAATCTACTGGTTTAATGATAATAGGCGTAA
*
168588 ACATAGAGTATC
386 ACATAAAGTATC
* * * * * * *
168600 GATAC-TTTTGTATAGATATCGATATTTTTAGTCCAATATGCTTCT-TAACAATTTGAATG-AAC
1 GATACTTTTTATATAGGTATCGATACTTTTATTCCAATATGCTTCTCAAACAATTTGCACGCAAC
* * * * * * *
168662 AAAATATCGATACATGTATAACAAATATTGATACTTATAATTTCGAAAACAATTACTTTAAAGTT
66 AAAGTATCGATACACGTATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTA
* * *
168727 ATAGGTAAATTTACAATGTCAAAGGTAAAAGTCTA-CTGGTTTAATGATAATAGGCATAAACATA
131 ATAGGTAAATTTACAATGT-AAACGTAAAAATCTATC-GGTTTAATGATAATAGGCGTAAACATA
* * * * *
168791 GAGTATTGATACTTTTGTATTGTTATCGATACTTTTAGTCCAATATGATTCTCAAACAATTTGCA
194 AAGTATCGATACTTTTATATAGGTATCGATACTTTTAGTCCAATATGATTCTCAAACAATTTGCA
* * * * *
168856 CGCAGAAAGTATCGATACACTTATCACAAGTATCGATA-TTGTTAATTTCGAAACGTATTACTTT
259 CGCA-AAAGTATCGATACACATATAACAAGTATCGATACTT-ATAATTTTGAAACCTATTACTTT
* * *
168920 AAAGTAATAGGTAAAATTACAATGTAAACGATAAAACTCTACTGGTTTAATGATAATAGGTGTAA
322 AAAGTAATAGGTAAATTTACAATG-AAACGATAAAAATCTACTGGTTTAATGATAATAGGCGTAA
*
168985 ACATAAAATATC
386 ACATAAAGTATC
* *
168997 GATACTTTTTGTATAGGTATCGATACTTTT-TGTCCAATATGTTTCTCAAACAATTTGCACGC-A
1 GATACTTTTTATATAGGTATCGATACTTTTAT-TCCAATATGCTTCTCAAACAATTTGCACGCAA
* * * *
169060 GAAAGTATCGATACACGTATCACAAGTATCGATAC-TATTAATTCCGTAACCTATTACTTTAAAG
65 CAAAGTATCGATACACGTATAACAAGTATCGATACTTA-TAATTTCGAAACCTATTACTTTAAAG
* * *
169124 TAATAGGTAAATTTACAATGTAAATGATCAAAATCTATCGGTTTCATGATAATAGGCGTAAACAT
129 TAATAGGTAAATTTACAATGTAAACG-TAAAAATCTATCGGTTTAATGATAATAGGCGTAAACAT
* * * * *
169189 AAAGTATCGATACTTTTAATATAGGTATCGATACTTTT-TTCTAGTATGCTTCTCAAACAATCTG
193 AAAGTATCGATACTTTT-ATATAGGTATCGATACTTTTAGTCCAATATGATTCTCAAACAATTTG
* * * *
169253 CACGCCAAATGTATCGATACACATATGTA-AATTTTCGATACTTATAATTTTGAAACCTATTACT
257 CACG-CAAAAGTATCGATACACATAT-AACAAGTATCGATACTTATAATTTTGAAACCTATTACT
* ** * ** * * * * *
169317 TTAAGGTAATAGGTTGATTTACAATCAAAATAGTGAAAGTC-AATCAGTATAATGATAATAGGCG
320 TTAAAGTAATAGGTAAATTTACAATGAAACGA-TAAAAATCTACT-GGTTTAATGATAATAGGCG
*
169381 TAAACATCAA-TATC
383 TAAACATAAAGTATC
169395 GATAC
1 GATAC
169400 ACATATATAA
Statistics
Matches: 985, Mismatches: 180, Indels: 69
0.80 0.15 0.06
Matches are distributed among these distances:
395 40 0.04
396 170 0.17
397 98 0.10
398 241 0.24
399 360 0.37
400 75 0.08
401 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (397 bp):
GATACTTTTTATATAGGTATCGATACTTTTATTCCAATATGCTTCTCAAACAATTTGCACGCAAC
AAAGTATCGATACACGTATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTA
ATAGGTAAATTTACAATGTAAACGTAAAAATCTATCGGTTTAATGATAATAGGCGTAAACATAAA
GTATCGATACTTTTATATAGGTATCGATACTTTTAGTCCAATATGATTCTCAAACAATTTGCACG
CAAAAGTATCGATACACATATAACAAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAG
TAATAGGTAAATTTACAATGAAACGATAAAAATCTACTGGTTTAATGATAATAGGCGTAAACATA
AAGTATC
Found at i:169911 original size:226 final size:226
Alignment explanation
Indices: 169609--170195 Score: 740
Period size: 226 Copynumber: 2.6 Consensus size: 226
169599 CGATAATACA
* * *
169609 TTGATAATACTACTAACAAATCAAATAATTAACATA-TTTGTTATCG-TCAGATTTCTAAGGCCC
1 TTGATAATACTAATAACAAATCAAATAATTAACCTATTTTGTTATCGTTGA-ATTTCTAAGGCCC
* *
169672 TATCAGCTTTAAACAATCGCTACATATTACATTAAGTAAGCTATACTTGTTATGTTATTATGGTT
65 CATCAGCTTTAAACAATCGCTACATATTACATTAAATAAGCTATACTTGTTATGTTATTATGGTT
* *
169737 GATAATGTGTCCAATAATTAACTTATTTTGTTATCGTCAGATTTCTAAGGTTTCATCAGCTTAAA
130 GATAATGTGTCCAATAATTAACTTATTTTGTTATCATCAGATTTCTAAGGCTTCATCAGCTTAAA
* *
169802 CTTTTGTAACATTTTAGGCGCTACCTAATATG
195 CTTTGGTAACATTTTAAGCGCTACCTAATATG
* *
169834 TTGATAATACTAATAATAAATTAAATAATTAACCTATTTTGTTATCGTTGAATTTCTAAGGCCCC
1 TTGATAATACTAATAACAAATCAAATAATTAACCTATTTTGTTATCGTTGAATTTCTAAGGCCCC
* * * *
169899 ATCAGCTTTAAAC-AGCTGCTACTTGTTACATTAAATAAG-TGCTACTTGTTATGTTATTATGGT
66 ATCAGCTTTAAACAATC-GCTACATATTACATTAAATAAGCT-ATACTTGTTATGTTATTATGGT
* * * ** *
169962 TGATAATGTTTCCAGTAATTAATTTATTTTGTTATCATTGGATTTCTAAGGCTTCATTAGCTTAA
129 TGATAATGTGTCCAATAATTAACTTATTTTGTTATCATCAGATTTCTAAGGCTTCATCAGCTTAA
170027 ACTTTGGTAACATTTTAAGCGCTACCTAATATG
194 ACTTTGGTAACATTTTAAGCGCTACCTAATATG
** * * * * * * * *
170060 TTGATTGTATTGATAACAAATCAAGTAATTAATCTATTTTGTTATCGTCGGATTTATAAGACCCC
1 TTGATAATACTAATAACAAATCAAATAATTAACCTATTTTGTTATCGTTGAATTTCTAAGGCCCC
* * * * *
170125 ATTAACTTTAAA-AATACGCTACATATTACGTTAAATCAGCGCTAT-C-T-ATATGTTATTATGG
66 ATCAGCTTTAAACAAT-CGCTACATATTACATTAAAT-A-AGCTATACTTGTTATGTTATTATGG
170186 TTGATAATGT
128 TTGATAATGT
170196 TTGAGTAATT
Statistics
Matches: 311, Mismatches: 42, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
225 58 0.19
226 245 0.79
227 5 0.02
228 2 0.01
229 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (226 bp):
TTGATAATACTAATAACAAATCAAATAATTAACCTATTTTGTTATCGTTGAATTTCTAAGGCCCC
ATCAGCTTTAAACAATCGCTACATATTACATTAAATAAGCTATACTTGTTATGTTATTATGGTTG
ATAATGTGTCCAATAATTAACTTATTTTGTTATCATCAGATTTCTAAGGCTTCATCAGCTTAAAC
TTTGGTAACATTTTAAGCGCTACCTAATATG
Found at i:173701 original size:32 final size:31
Alignment explanation
Indices: 173659--173785 Score: 116
Period size: 32 Copynumber: 4.1 Consensus size: 31
173649 AGAGTCGAGG
173659 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* *
173690 GTTTTACCTATG-TCTTTC-GAGACATATGGGCA
1 G-TTTACCTATGTTC-TACGGA-ACATATGGACA
* * *
173722 GTATACCTATGTTCTAAGGAATATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
* ** * *
173753 G-TTACCTAGGTTCTTTGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGGACA
173783 GTT
1 GTT
173786 GCCGAGGTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
30 23 0.30
31 26 0.34
32 27 0.36
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGGACA
Found at i:173748 original size:31 final size:30
Alignment explanation
Indices: 173661--173785 Score: 108
Period size: 30 Copynumber: 4.1 Consensus size: 30
173651 AGTCGAGGGT
*
173661 TTACCTATGTTCTACGGAACATATGGACAG
1 TTACCTATGTTCTAAGGAACATATGGACAG
*** *
173691 TTTTACCTATG-TCTTTCGAGACATATGGGCAG
1 --TTACCTATGTTCTAAGGA-ACATATGGACAG
*
173723 TATACCTATGTTCTAAGGAATATATGGACAG
1 T-TACCTATGTTCTAAGGAACATATGGACAG
* ** * *
173754 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTAAGGAACATATGGACAG
173784 TT
1 TT
173786 GCCGAGGTTC
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
30 26 0.35
31 24 0.32
32 25 0.33
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (30 bp):
TTACCTATGTTCTAAGGAACATATGGACAG
Found at i:173832 original size:29 final size:30
Alignment explanation
Indices: 173747--173842 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
173737 AAGGAATATA
* * * * *
173747 TGGACAGTTACCTAGGTTCTTTGGGACCTA
1 TGGATAGTTACCGAGGGTCTTTGTGACCTC
* * * *
173777 TGGACAGTTGCCGAGGTTCTTTATGACCTC
1 TGGATAGTTACCGAGGGTCTTTGTGACCTC
173807 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGATAGTTACCGAGGGTCTTTGTGACCTC
173836 TGGATAG
1 TGGATAG
173843 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 21 0.37
30 36 0.63
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (30 bp):
TGGATAGTTACCGAGGGTCTTTGTGACCTC
Found at i:175817 original size:14 final size:14
Alignment explanation
Indices: 175798--175833 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
175788 AATAAATAGA
*
175798 AAATTAAAGTAATG
1 AAATTAAAGGAATG
*
175812 AAATTAAAGGATTG
1 AAATTAAAGGAATG
175826 AAATTAAA
1 AAATTAAA
175834 AAATAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (14 bp):
AAATTAAAGGAATG
Done.