Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007997.1 Hibiscus syriacus cultivar Beakdansim tig00110447_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: 207866
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:4900 original size:15 final size:15
Alignment explanation
Indices: 4882--4912 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4872 AAATTCTAAA
4882 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
4897 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
4912 T
1 T
4913 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:5035 original size:20 final size:22
Alignment explanation
Indices: 5004--5045 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
4994 ATTATGAAAA
5004 AATATATTAAAAT-TTTACATT
1 AATATATTAAAATGTTTACATT
5025 AATAT-TTAAAATGTTTACATT
1 AATATATTAAAATGTTTACATT
5046 GTGGAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (22 bp):
AATATATTAAAATGTTTACATT
Found at i:5646 original size:30 final size:30
Alignment explanation
Indices: 5610--5741 Score: 212
Period size: 30 Copynumber: 4.4 Consensus size: 30
5600 TCCGAAGGAC
5610 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
5640 CTATCCAGAGGCCAT-AAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
5669 CTATCCAGAGATCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
5699 CTATCCATAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
5729 CTGTCCATAGGTC
1 CTATCCAGAGGTC
5742 CCGAAGAAAC
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 27 0.28
30 68 0.72
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:5702 original size:59 final size:60
Alignment explanation
Indices: 5610--5735 Score: 209
Period size: 59 Copynumber: 2.1 Consensus size: 60
5600 TCCGAAGGAC
*
5610 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGCCAT-AAGATCCTCGGTAA
1 CTATCCAGAGATCATAAAGATCCTCGGTAACTATCCAGAGGCCATAAAGATCCTCGGTAA
* *
5669 CTATCCAGAGATCATAAAGATCCTCGGTAACTATCCATAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGATCATAAAGATCCTCGGTAACTATCCAGAGGCCATAAAGATCCTCGGTAA
*
5729 CTGTCCA
1 CTATCCA
5736 TAGGTCCCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 42 0.68
60 20 0.32
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (60 bp):
CTATCCAGAGATCATAAAGATCCTCGGTAACTATCCAGAGGCCATAAAGATCCTCGGTAA
Found at i:15260 original size:31 final size:31
Alignment explanation
Indices: 15225--15283 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
15215 AATAATAACA
15225 AGTGTAAACTACGTT-TAGTACATAAACTATC
1 AGTGTAAA-TACGTTATAGTACATAAACTATC
* * *
15256 AGTGTTAATCCGTTATAGTACTTAAACT
1 AGTGTAAATACGTTATAGTACATAAACT
15284 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGTAAATACGTTATAGTACATAAACTATC
Found at i:17755 original size:71 final size:71
Alignment explanation
Indices: 17557--17836 Score: 418
Period size: 71 Copynumber: 3.9 Consensus size: 71
17547 AAACCGAATA
* *
17557 ACTTCTTAAAAGATCATAAAAGCACATAAGCTTTACGACAACTTAGAAAA-ATCATCGTATGATC
1 ACTTCTTAAAAGATCATAAAAGCACATAAGCGTTACGACAACTTA-AAAAGATCATCATATGATC
***
17621 CTAACAG
65 CTAATTC
* * * *
17628 ACTTCTTAAAAGATCAATTAAAGCACACAAACGTTACGACAACTTAAACAGATCATCATATGATC
1 ACTTCTTAAAAGATC-ATAAAAGCACATAAGCGTTACGACAACTTAAAAAGATCATCATATGATC
17693 CTAATTC
65 CTAATTC
* *
17700 ACTTATTAAAAGATCATAAAAGCACATAAGCGTTACGACAACTTAAAAAGGTCATCATATGATCC
1 ACTTCTTAAAAGATCATAAAAGCACATAAGCGTTACGACAACTTAAAAAGATCATCATATGATCC
17765 TAATTC
66 TAATTC
* *
17771 ACTTCTTAAAAGGTCATAAAAGCACATATGCGTTACGACAACTTAAAAAGATCATCATATGATCC
1 ACTTCTTAAAAGATCATAAAAGCACATAAGCGTTACGACAACTTAAAAAGATCATCATATGATCC
17836 T
66 T
17837 CATTGAATGC
Statistics
Matches: 188, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
71 131 0.70
72 57 0.30
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (71 bp):
ACTTCTTAAAAGATCATAAAAGCACATAAGCGTTACGACAACTTAAAAAGATCATCATATGATCC
TAATTC
Found at i:21956 original size:263 final size:265
Alignment explanation
Indices: 21636--22797 Score: 1596
Period size: 263 Copynumber: 4.4 Consensus size: 265
21626 AAAAGCTCTC
* * * * * *
21636 TTTGTTACTGTGTGAAAACGTTAGATCATGTCACTATCTAGTCAAATTATAACGATCTTATTTAT
1 TTTGTTACTGAGTGAAAATGTTAGATCATGTTATTATCAAGTCAAACTATAACGATCTTATTTAT
*
21701 TGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATGTAACACGTGTTATGAAAATTGAAAT
66 TGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATCTAACACGTGTTATGAAAATTGAAAT
* *
21766 GTACATGAGAAACTATACTGATAAATATTGTTGTCGTTTACTATGACATCAATAATTTAATTTAT
131 GTACATGAGAAACTATACTGATAAATATTGTTGTCGTTTACTGTGACATCAATAATTTAATCTAT
* *
21831 CAATC-AAAAAATTCTAAAATGATTGGATCTGTTGTAATAAATGGAGTTCACGCGCTTGA-AAAG
196 CAATCGAAAGAATTCTAAAATGATTGGATCTGTTGTAATAAATGGAGTTCACACGCTTGAGAAAG
21894 TTATT
261 TTATT
* *
21899 TTTGTTATTGAGTGAAAATGTTAGATCATGTTATTATCAAATCAAACTATAACGATCTTA-TTAT
1 TTTGTTACTGAGTGAAAATGTTAGATCATGTTATTATCAAGTCAAACTATAACGATCTTATTTAT
* *
21963 TGTATTTATTCGA-CTCAATGATTGTTGTTTACATACATCTAACACGTGTTATGAAAATTGAAAT
66 TGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATCTAACACGTGTTATGAAAATTGAAAT
* *
22027 GTACATGTGAAACTATACTGATAAATATTGTTGTCGTTTAATGTGACATCAATAATTTAATCTAT
131 GTACATGAGAAACTATACTGATAAATATTGTTGTCGTTTACTGTGACATCAATAATTTAATCTAT
** *
22092 CAATCGAAAGAATTCTAAAATGATTGGATCTGTTGTAATAAATGGAGTTCACATACTTGACAAAG
196 CAATCGAAAGAATTCTAAAATGATTGGATCTGTTGTAATAAATGGAGTTCACACGCTTGAGAAAG
22157 TTATT
261 TTATT
* **
22162 TTTGTTACTGAGTGAAAACGTTAGATCATGTTATTATCAAGTCAAACTATAACGATAATATTTAT
1 TTTGTTACTGAGTGAAAATGTTAGATCATGTTATTATCAAGTCAAACTATAACGATCTTATTTAT
* **
22227 TGTATTTATTCGACCTCAATGATTGTTATTTATAGACATGAAACACGTGTTATG-AAATTGAAAT
66 TGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATCTAACACGTGTTATGAAAATTGAAAT
* * * * * *
22291 GTATATGTA-AAACTATA-TGATAAATATTGTTGTCGTTTATTGTGACGTCAATGATTTGATTTA
131 GTACATG-AGAAACTATACTGATAAATATTGTTGTCGTTTACTGTGACATCAATAATTTAATCTA
* *
22354 TCAATCGAAAGAATTCTAAAATGATTGGATCTATTGTAATAACTGGAGTTC-CTACGCTTGAGAA
195 TCAATCGAAAGAATTCTAAAATGATTGGATCTGTTGTAATAAATGGAGTTCAC-ACGCTTGAGAA
22418 AGTTATT
259 AGTTATT
* *
22425 TTTGTTACTGAGTGAAAATGTTAGATCACGTTATCATCAAGTCAAACTATAACGATCTTATTTAT
1 TTTGTTACTGAGTGAAAATGTTAGATCATGTTATTATCAAGTCAAACTATAACGATCTTATTTAT
*** * *
22490 TGTATTTATTCGACCTCAATGATTGTTGTTTACCTATATCTAACACGTGTTATGAAAATTAAAAT
66 TGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATCTAACACGTGTTATGAAAATTGAAAT
* * * * *
22555 GTACATGTGAAATTGTACTGATAAATATTGTTGTTGTTTACTGTAACATCAATAATTTAATCTAT
131 GTACATGAGAAACTATACTGATAAATATTGTTGTCGTTTACTGTGACATCAATAATTTAATCTAT
* * * ** *
22620 CAATCGAAAGAGTTCTAAAAATAAATGGATCTGTTGTAATAACCGGAGTT----CGCTTTAGAAA
196 CAATCGAAAGAATTCT-AAAATGATTGGATCTGTTGTAATAAATGGAGTTCACACGCTTGAGAAA
* *
22681 GTTCTC
260 GTTATT
* * * * * *
22687 TTTGTTACTGAGTGAAAATGTTAGATCATGTTATCACCAA-ACAAAATTATAATGATCTTATTTG
1 TTTGTTACTGAGTGAAAATGTTAGATCATGTTATTATCAAGTC-AAACTATAACGATCTTATTTA
* * * * * *
22751 TTTTATTTATTCAACTTAAATGATTGTT-TTTGTAGACATATAACACG
65 TTGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATCTAACACG
22798 GGATAGAGAA
Statistics
Matches: 799, Mismatches: 89, Indels: 24
0.88 0.10 0.03
Matches are distributed among these distances:
261 128 0.16
262 162 0.20
263 328 0.41
264 62 0.08
265 90 0.11
266 29 0.04
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (265 bp):
TTTGTTACTGAGTGAAAATGTTAGATCATGTTATTATCAAGTCAAACTATAACGATCTTATTTAT
TGTATTTATTCGACCTCAATGATTGTTGTTTATAGACATCTAACACGTGTTATGAAAATTGAAAT
GTACATGAGAAACTATACTGATAAATATTGTTGTCGTTTACTGTGACATCAATAATTTAATCTAT
CAATCGAAAGAATTCTAAAATGATTGGATCTGTTGTAATAAATGGAGTTCACACGCTTGAGAAAG
TTATT
Found at i:25259 original size:21 final size:21
Alignment explanation
Indices: 25235--25294 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
25225 AACTTTGAAA
25235 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
25256 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
25270 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
25291 AAAT
1 AAAT
25295 ATTTCTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:25341 original size:36 final size:36
Alignment explanation
Indices: 25227--25346 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
25217 TGGTAACCAA
25227 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
25264 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATATTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
25299 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
25336 -GTTGAAAAATG
1 CTTTGAAAAATG
25347 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 35 0.46
36 14 0.18
37 27 0.36
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:25346 original size:72 final size:69
Alignment explanation
Indices: 25200--25343 Score: 184
Period size: 72 Copynumber: 2.1 Consensus size: 69
25190 TGAAAGTATT
*
25200 AAAATGGTTTTCAAGTTTGGTAACCAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
*
25265 TTTG
66 GTTG
* * * *
25269 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTG-AAAAATAGTTTTTCAAAGTTTGGTAGATG
1 AAAATGGTTTTC-AAGTTTGGTAAACA--ACTTTGAAAAAAT-GGTTTTCAAAGTTTGGTAAATG
25333 TTT-GTTG
62 TTTCGTTG
25340 AAAA
1 AAAA
25344 ATGATAATGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
69 12 0.18
70 12 0.18
71 13 0.20
72 28 0.43
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (69 bp):
AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
GTTG
Found at i:29875 original size:21 final size:21
Alignment explanation
Indices: 29851--29911 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
29841 AACTTTGAAA
29851 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
29872 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
29886 AAATAGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
29907 AAATG
1 AAATG
29912 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:29957 original size:36 final size:36
Alignment explanation
Indices: 29843--29961 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
29833 TGGTAACCAA
*
29843 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATAGTTTTCAAAGTTTGGTAAATGTTT
29880 CTTTG-AAAATAGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
29915 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAG-TTTTCAAAGTTTGGTAAATGTTT
*
29952 -GTTGAAAAAT
1 CTTTGAAAAAT
29962 GATAATGGGA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
35 34 0.44
36 16 0.21
37 27 0.35
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:45208 original size:27 final size:27
Alignment explanation
Indices: 45175--45236 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
45165 TTTCGACCTT
45175 GCAACTGCATGGAATCCTGTCTTTGCA
1 GCAACTGCATGGAATCCTGTCTTTGCA
45202 GCAACTGCATGGAATCCTGTCTTTGCA
1 GCAACTGCATGGAATCCTGTCTTTGCA
45229 GCAACTGC
1 GCAACTGC
45237 TGCAGGATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (27 bp):
GCAACTGCATGGAATCCTGTCTTTGCA
Found at i:49151 original size:2 final size:2
Alignment explanation
Indices: 49133--49182 Score: 75
Period size: 2 Copynumber: 24.5 Consensus size: 2
49123 ATTTGTTAGG
49133 AT AT AT CAT AT -T CAT 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
49176 AT AT AT A
1 AT AT AT A
49183 AAGATATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.02
2 41 0.91
3 3 0.07
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50857 original size:54 final size:54
Alignment explanation
Indices: 50799--50938 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 54
50789 TCTCAGGGCT
* * * * * *
50799 AGCCCTCTCT-TTCCTGTACGGACTTCGACTGGAGCCACGAGTATGG-TCCAAGCC
1 AGCCCTCTCTCTTCCGGGA-GGACTACGACTGGACCCACAAGCATGGTTCCAA-CC
* *
50853 AGCCCTCTCTCTTCGGGGAGGACTACGACTGGACCCACAAGCATGGTTCGAACC
1 AGCCCTCTCTCTTCCGGGAGGACTACGACTGGACCCACAAGCATGGTTCCAACC
* *
50907 AGCCCTCTCTCTTCGGGGAGGACTACGGCTGG
1 AGCCCTCTCTCTTCCGGGAGGACTACGACTGG
50939 TGATATGGCC
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 66 0.88
55 9 0.12
ACGTcount: A:0.19, C:0.33, G:0.27, T:0.21
Consensus pattern (54 bp):
AGCCCTCTCTCTTCCGGGAGGACTACGACTGGACCCACAAGCATGGTTCCAACC
Found at i:54138 original size:2 final size:2
Alignment explanation
Indices: 54131--54189 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
54121 TTAAACTTAT
54131 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
54173 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
54190 CGAGTTAATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60666 original size:50 final size:51
Alignment explanation
Indices: 60557--60683 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
60547 ATTTTATTGG
* * *
60557 AACTCGTCACCTCT-ACGTGACAAGCTTGAATAAAAAAATATTATTTGGGAA
1 AACTCGTCACCT-TGACGTGACGAGTTTAAATAAAAAAATATTATTTGGGAA
* *
60608 AACTCGTCATCTTGACGTGACGAGTTTAAATAAAAATATATTATTTGGG-A
1 AACTCGTCACCTTGACGTGACGAGTTTAAATAAAAAAATATTATTTGGGAA
* *
60658 AACTCGTCACCTCGATGTGACGAGTT
1 AACTCGTCACCTTGACGTGACGAGTT
60684 CGTTGAACAC
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 25 0.37
51 42 0.63
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (51 bp):
AACTCGTCACCTTGACGTGACGAGTTTAAATAAAAAAATATTATTTGGGAA
Found at i:62033 original size:31 final size:31
Alignment explanation
Indices: 61998--62072 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
61988 ATCTGAATTG
61998 AACTATTAGTTTTAGTCCGTCTTAGTACATA
1 AACTATTAGTTTTAGTCCGTCTTAGTACATA
* * *
62029 AACTATTAGTTTTAGTCTGTTTTAGTACTTA
1 AACTATTAGTTTTAGTCCGTCTTAGTACATA
* *
62060 AACTTTTAATTTT
1 AACTATTAGTTTT
62073 TTCAAAATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (31 bp):
AACTATTAGTTTTAGTCCGTCTTAGTACATA
Found at i:62695 original size:30 final size:30
Alignment explanation
Indices: 62642--62698 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
62632 TTTAATCATA
** * *
62642 TTTTTAAATAAATTTTAACATAAAATATAT
1 TTTTTAAATAAAAATAAAAATAAAATATAT
62672 TTTTTAAATAAAAATAAAAATAAAATA
1 TTTTTAAATAAAAATAAAAATAAAATA
62699 CTTTTAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TTTTTAAATAAAAATAAAAATAAAATATAT
Found at i:69881 original size:24 final size:24
Alignment explanation
Indices: 69850--69925 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
69840 GAAAGTAAAA
69850 AATAAAATAT-T-TTTAAATTAAGTT
1 AATAAAATATATATTT-AA-TAAGTT
69874 AATAAAATATATATTTAATAAGTT
1 AATAAAATATATATTTAATAAGTT
* **
69898 AATATAAA-AAATATTTTTTAAGTT
1 AATA-AAATATATATTTAATAAGTT
69922 AATA
1 AATA
69926 TATATAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
24 37 0.80
25 6 0.13
26 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
AATAAAATATATATTTAATAAGTT
Found at i:69887 original size:28 final size:27
Alignment explanation
Indices: 69818--69889 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
69808 AATTTTAACA
*
69818 TAAAATATATATATTTTTAAATGAAAG
1 TAAAAAATATATATTTTTAAATGAAAG
* *
69845 TAAAAAATAAAATATTTTTAAAT-TAAG
1 TAAAAAAT-ATATATTTTTAAATGAAAG
69872 TTAATAAAATATATATTT
1 -TAA-AAAATATATATTT
69890 AATAAGTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 10 0.26
28 23 0.61
29 5 0.13
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
TAAAAAATATATATTTTTAAATGAAAG
Found at i:69926 original size:24 final size:25
Alignment explanation
Indices: 69866--69938 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 25
69856 ATATTTTTAA
*
69866 ATTAAGTTAATA-AAATATATATTT
1 ATTAAGTTAATATAAATAAATATTT
*
69890 AATAAGTTAATATAAA-AAATATTT
1 ATTAAGTTAATATAAATAAATATTT
* *
69914 TTTAAGTTAATATATATAACATATT
1 ATTAAGTTAATATAAATAA-ATATT
69939 ACGTATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 31 0.76
25 5 0.12
26 5 0.12
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.44
Consensus pattern (25 bp):
ATTAAGTTAATATAAATAAATATTT
Found at i:69928 original size:26 final size:26
Alignment explanation
Indices: 69853--69938 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
69843 AGTAAAAAAT
*
69853 AAAATA-TTTTTAAATTAAGT-TAATAA
1 AAAATATTTTTTAAGTTAA-TAT-ATAA
**
69879 AATATATATTTAATAAGTT-A-ATATAA
1 AA-A-ATATTTTTTAAGTTAATATATAA
*
69905 AAAATATTTTTTAAGTTAATATATAT
1 AAAATATTTTTTAAGTTAATATATAA
*
69931 AACATATT
1 AAAATATT
69939 ACGTATTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
24 12 0.26
25 2 0.04
26 20 0.43
27 2 0.04
28 4 0.09
29 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (26 bp):
AAAATATTTTTTAAGTTAATATATAA
Found at i:71495 original size:13 final size:13
Alignment explanation
Indices: 71477--71502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71467 TATATTTATA
71477 AATTATTAGAATT
1 AATTATTAGAATT
71490 AATTATTAGAATT
1 AATTATTAGAATT
71503 TTATCTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AATTATTAGAATT
Found at i:74235 original size:60 final size:61
Alignment explanation
Indices: 74129--74247 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
74119 ACCCAAATCA
* *
74129 TAATCCTATAACATCTAAATCTTAAACCCTAATTTGAGATTGATAATTTAGGATTTTAAAT
1 TAATCCTATAACATCTAAACCTTAAACCCTAACTTGAGATTGATAATTTAGGATTTTAAAT
* * * *
74190 TAATCCT-TAA-ATCTTAAACCTTGAACCCTAACTTGATATTTATAATTTAGGGTTTTAA
1 TAATCCTATAACATC-TAAACCTTAAACCCTAACTTGAGATTGATAATTTAGGATTTTAA
74248 GTTAGAGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 3 0.06
60 41 0.80
61 7 0.14
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (61 bp):
TAATCCTATAACATCTAAACCTTAAACCCTAACTTGAGATTGATAATTTAGGATTTTAAAT
Found at i:76674 original size:14 final size:14
Alignment explanation
Indices: 76655--76719 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
76645 TCGGTAATAT
76655 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
76669 GTTCGTTTA---T-
1 GTTCGTTTATGTTC
*
76679 GTTCATTTATGTTC
1 GTTCGTTTATGTTC
*
76693 GTTCGTTTATGTGC
1 GTTCGTTTATGTTC
*
76707 GTTCATTTATGTT
1 GTTCGTTTATGTT
76720 TAGCCTAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 8 0.19
11 1 0.02
13 1 0.02
14 32 0.76
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:76681 original size:24 final size:24
Alignment explanation
Indices: 76652--76709 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
76642 CATTCGGTAA
76652 TATGTTCGTTTATGTTCGTTCGTT
1 TATGTTCGTTTATGTTCGTTCGTT
*
76676 TATGTTCATTTATGTTCGTTCGTT
1 TATGTTCGTTTATGTTCGTTCGTT
*
76700 TATGTGCGTT
1 TATGTTCGTT
76710 CATTTATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.10, C:0.12, G:0.21, T:0.57
Consensus pattern (24 bp):
TATGTTCGTTTATGTTCGTTCGTT
Found at i:76954 original size:24 final size:24
Alignment explanation
Indices: 76925--77010 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 24
76915 TCATTTATTG
*
76925 TGTTCGTTTACATTCGTTCATTTG
1 TGTTCGTTTACATTCGTTCATTTA
*
76949 TGTTCGTTT--ATT-GTGTCTGTTTA
1 TGTTCGTTTACATTCGT-TC-ATTTA
*
76972 TGTTCATTTACATTCGTT-AGTTTA
1 TGTTCGTTTACATTCGTTCA-TTTA
76996 TGTTCGTTTATCATT
1 TGTTCGTTTA-CATT
77011 TAAATGAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.04
22 5 0.10
23 11 0.22
24 22 0.44
25 8 0.16
26 2 0.04
ACGTcount: A:0.14, C:0.13, G:0.16, T:0.57
Consensus pattern (24 bp):
TGTTCGTTTACATTCGTTCATTTA
Found at i:78654 original size:15 final size:15
Alignment explanation
Indices: 78634--78662 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
78624 ACACGGTTTA
78634 ATTAATAAAAAAAAT
1 ATTAATAAAAAAAAT
78649 ATTAATAAAAAAAA
1 ATTAATAAAAAAAA
78663 CACTCATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
ATTAATAAAAAAAAT
Found at i:79265 original size:25 final size:25
Alignment explanation
Indices: 79237--79285 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
79227 ATTATCTTGC
79237 ATTCATTTCAGATTTATAAAAAAAT
1 ATTCATTTCAGATTTATAAAAAAAT
79262 ATTCATTTCAGATTTATAAAAAAA
1 ATTCATTTCAGATTTATAAAAAAA
79286 AAGAATGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (25 bp):
ATTCATTTCAGATTTATAAAAAAAT
Found at i:79871 original size:17 final size:16
Alignment explanation
Indices: 79841--79873 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
79831 GAGAACCATG
79841 TTGATTTTTTAAAAAA
1 TTGATTTTTTAAAAAA
79857 TTGATTTTTTAAAAAA
1 TTGATTTTTTAAAAAA
79873 T
1 T
79874 GTATAGGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TTGATTTTTTAAAAAA
Found at i:82306 original size:14 final size:13
Alignment explanation
Indices: 82283--82321 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
82273 AATATTACTA
82283 ATTTTTTAATTTT
1 ATTTTTTAATTTT
82296 ATTTGTTTAATTTT
1 ATTT-TTTAATTTT
* *
82310 ATCTTATAATTT
1 ATTTTTTAATTT
82322 ATTAAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (13 bp):
ATTTTTTAATTTT
Found at i:88619 original size:3 final size:3
Alignment explanation
Indices: 88613--88639 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
88603 AAGTTCTTAA
88613 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
88640 TCAAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:88824 original size:17 final size:17
Alignment explanation
Indices: 88778--88824 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
88768 ACCGAAGTCA
* *
88778 TTTAATAAGTTTAAGAT
1 TTTAATATGTTTAAAAT
*
88795 TATAAATAT-TTTAAAAT
1 T-TTAATATGTTTAAAAT
88812 TTTAATATGTTTA
1 TTTAATATGTTTA
88825 GTTATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.25
17 13 0.54
18 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
TTTAATATGTTTAAAAT
Found at i:90498 original size:17 final size:18
Alignment explanation
Indices: 90476--90516 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
90466 AACTGTCTTT
90476 AAAAAT-AATTTTAAGAA
1 AAAAATCAATTTTAAGAA
* *
90493 AAAAATCATTTTTAAGAC
1 AAAAATCAATTTTAAGAA
90511 AAAAAT
1 AAAAAT
90517 TGGTATGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (18 bp):
AAAAATCAATTTTAAGAA
Found at i:92510 original size:64 final size:64
Alignment explanation
Indices: 92376--92523 Score: 165
Period size: 64 Copynumber: 2.3 Consensus size: 64
92366 CACATTCATA
* * * * *
92376 AGTGCATCGATGCATTCCTTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATAGAT
1 AGTGCATAGATGCATTCCTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCAAAGAT
* * * *
92440 AATGCATATATGCA-TCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACAAG-
1 AGTGCATAGATGCATTCC-TTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCA-AAGA
92503 T
64 T
* *
92504 AGTGCATCGATGCATACCTT
1 AGTGCATAGATGCATTCCTT
92524 CATTGAAAGA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
63 3 0.04
64 61 0.90
65 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (64 bp):
AGTGCATAGATGCATTCCTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCAAAGAT
Found at i:93015 original size:17 final size:19
Alignment explanation
Indices: 92993--93028 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
92983 GAATTACATG
92993 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
93010 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
93029 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:95342 original size:36 final size:36
Alignment explanation
Indices: 95292--95367 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
95282 TTATAGCAAA
*
95292 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
95328 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
95364 AAAA
1 AAAA
95368 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:100341 original size:36 final size:36
Alignment explanation
Indices: 100291--100366 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
100281 TTATAGCAAA
*
100291 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
100327 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
100363 AAAA
1 AAAA
100367 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:101145 original size:20 final size:20
Alignment explanation
Indices: 101107--101150 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
101097 GCAAAAATGT
* *
101107 AATAATATTAAAATAATAAC
1 AATAATAATAAAATAATAAA
* *
101127 AATAATAATAAGATGATAAA
1 AATAATAATAAAATAATAAA
101147 AATA
1 AATA
101151 GTACCGAGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AATAATAATAAAATAATAAA
Found at i:105679 original size:38 final size:38
Alignment explanation
Indices: 105627--105709 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
105617 GCGGGTGCTT
105627 CAACTAAGGGTTAAAGTGTATTTTAAGTTCATGTACTA
1 CAACTAAGGGTTAAAGTGTATTTTAAGTTCATGTACTA
*
105665 TAACTAAGGGTTAAAGTGTATTTTAAGTTCATGTACTA
1 CAACTAAGGGTTAAAGTGTATTTTAAGTTCATGTACTA
105703 CAACTAA
1 CAACTAA
105710 AAGTTCATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (38 bp):
CAACTAAGGGTTAAAGTGTATTTTAAGTTCATGTACTA
Found at i:115497 original size:61 final size:60
Alignment explanation
Indices: 115421--115550 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 60
115411 GATCAATTTG
* * * ** *
115421 GGGATGCAATCAGAATTTTTCTAAAGTTTTGGGATTAATTTAGAAAGAGATGT-ATAGTTTA
1 GGGATGAAATCAGAATGTTT-AAAAGTTTAAGGACTAATTTAGAAAGAGA-GTCATAGTTTA
* *
115482 GGGATGAAATTAGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTA
1 GGGATGAAATCAGAATGTTTAAAAGTTTAAGGACTAATTTAGAAAGAGAGTCATAGTTTA
* *
115542 AGAATGAAA
1 GGGATGAAA
115551 ATGAAACATT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 2 0.03
60 39 0.67
61 17 0.29
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (60 bp):
GGGATGAAATCAGAATGTTTAAAAGTTTAAGGACTAATTTAGAAAGAGAGTCATAGTTTA
Found at i:115563 original size:60 final size:60
Alignment explanation
Indices: 115456--115570 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
115446 GTTTTGGGAT
* * * **
115456 TAATTTAGAAAGAGATGTATAGTTTAGGGATGAAATTAGAATGTTTAAAAGTTTAAGGAC
1 TAATTTAGAAAGAGATGTATAGTTTAAGAATGAAATGAGAACATTTAAAAGTTTAAGGAC
*
115516 TAATTTAGAATGAGA-GTCATAGTTTAAGAATGAAAATGA-AACATTTAAAAGTTTA
1 TAATTTAGAAAGAGATGT-ATAGTTTAAGAATG-AAATGAGAACATTTAAAAGTTTA
115571 TAGATCAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 2 0.04
60 40 0.85
61 5 0.11
ACGTcount: A:0.44, C:0.03, G:0.20, T:0.33
Consensus pattern (60 bp):
TAATTTAGAAAGAGATGTATAGTTTAAGAATGAAATGAGAACATTTAAAAGTTTAAGGAC
Found at i:115798 original size:21 final size:21
Alignment explanation
Indices: 115772--115825 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
115762 GTTGACCGTT
*
115772 ACAGTGCTGATATGGCAGTTC
1 ACAGTGCTGATATGGCAGTCC
**
115793 ACAGTGCTGACGTGGCAGTCC
1 ACAGTGCTGATATGGCAGTCC
* *
115814 ATAGTGTTGATA
1 ACAGTGCTGATA
115826 GCCTGATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (21 bp):
ACAGTGCTGATATGGCAGTCC
Found at i:117201 original size:49 final size:51
Alignment explanation
Indices: 117113--117406 Score: 339
Period size: 50 Copynumber: 5.8 Consensus size: 51
117103 TTCATACTAG
* ** *
117113 AAAAAAATGTAGCACTTAACACATGCTTACACCAATGTAAGTGAGTAAAAT
1 AAAAAAATGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* * * * *
117164 AAAAAAGTATAGCACTT-A-ACATACTTACACCTGTGTAAGTTAATAAAACA
1 AAAAAAATGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAA-T
* * *
117214 AAAAAAATGTAGTACTTAACACATAC-AACACCGGTGTAAGTGAAAAAAAT
1 AAAAAAATGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* *
117264 AAAAAAGTGTAGCACTTAACACATAC-TACACAGGTGTAAGTGAAT-AAAT
1 AAAAAAATGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* * *
117313 AAAAAAGTGTAACACTTAACACATACTTACAACGGTGTAAGT-AATAAAAT
1 AAAAAAATGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
* * * *
117363 AAAAAATATATAGCACTTAACACATACTTATATCGATGTAAGTG
1 AAAAAA-ATGTAGCACTTAACACATACTTACACCGGTGTAAGTG
117407 TAATCTATAT
Statistics
Matches: 206, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
49 57 0.28
50 78 0.38
51 65 0.32
52 6 0.03
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (51 bp):
AAAAAAATGTAGCACTTAACACATACTTACACCGGTGTAAGTGAATAAAAT
Found at i:117558 original size:12 final size:12
Alignment explanation
Indices: 117537--117568 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
117527 GTAAAAATAT
117537 AATA-AATTACA
1 AATATAATTACA
117548 AATATAATTACA
1 AATATAATTACA
117560 AATATAATT
1 AATATAATT
117569 TATTAACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATAATTACA
Found at i:119029 original size:31 final size:31
Alignment explanation
Indices: 118994--119054 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
118984 CACTTAACGC
* *
118994 TTCTATTATATTGTAATGTAGGAGTTAATGT
1 TTCTAATATAATGTAATGTAGGAGTTAATGT
* *
119025 TTCTAATGTAATGTAATGTATGAGTTAATG
1 TTCTAATATAATGTAATGTAGGAGTTAATG
119055 CTTCGAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (31 bp):
TTCTAATATAATGTAATGTAGGAGTTAATGT
Found at i:119064 original size:31 final size:31
Alignment explanation
Indices: 119005--119066 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
118995 TCTATTATAT
* *
119005 TGTAATGTAGGAGTTAATGTTTCTAATGTAA
1 TGTAATGTAGGAGTTAATGCTTCGAATGTAA
*
119036 TGTAATGTATGAGTTAATGCTTCGAATGTAA
1 TGTAATGTAGGAGTTAATGCTTCGAATGTAA
119067 ATTTTAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (31 bp):
TGTAATGTAGGAGTTAATGCTTCGAATGTAA
Found at i:126219 original size:2 final size:2
Alignment explanation
Indices: 126212--126238 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
126202 TGAGACAGAA
126212 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
126239 TGGAGAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:132279 original size:14 final size:14
Alignment explanation
Indices: 132260--132295 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
132250 CGTTAAATTA
132260 TATGTTCGTTCATT
1 TATGTTCGTTCATT
132274 TATGTTCGTTCATT
1 TATGTTCGTTCATT
132288 TATGTTCG
1 TATGTTCG
132296 AATAGATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.56
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:132595 original size:10 final size:10
Alignment explanation
Indices: 132559--132622 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
132549 GTATTTGTGT
132559 TGTTCGTTTA
1 TGTTCGTTTA
**
132569 TGTTTTTTTA
1 TGTTCGTTTA
132579 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
**
132592 TGTTCGTTCG
1 TGTTCGTTTA
*
132602 TGTTTGTTTA
1 TGTTCGTTTA
132612 TGTTCGTTTA
1 TGTTCGTTTA
132622 T
1 T
132623 TTATTAAATG
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
10 33 0.80
13 8 0.20
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:132610 original size:20 final size:20
Alignment explanation
Indices: 132581--132619 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
132571 TTTTTTTATT
132581 GTGTTCGTTTATGTTCGTTC
1 GTGTTCGTTTATGTTCGTTC
*
132601 GTGTTTGTTTATGTTCGTT
1 GTGTTCGTTTATGTTCGTT
132620 TATTTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.10, G:0.26, T:0.59
Consensus pattern (20 bp):
GTGTTCGTTTATGTTCGTTC
Found at i:144257 original size:29 final size:29
Alignment explanation
Indices: 144222--144361 Score: 212
Period size: 29 Copynumber: 4.9 Consensus size: 29
144212 AGCCGAAGGG
144222 CCATTTTGTAACTTTTAATAATCGAAGAA
1 CCATTTTGTAACTTTTAATAATCGAAGAA
144251 CCATTTTGTAACTTTTAATAATCGAAGAA
1 CCATTTTGTAACTTTTAATAATCGAAGAA
144280 CCATTTTGTAACTTTTAATAATCGAAGAA
1 CCATTTTGTAACTTTTAATAATCGAAGAA
* * *
144309 CCATTTTATAATTTTTAATAGTCGAA-AGA
1 CCATTTTGTAACTTTTAATAATCGAAGA-A
* *
144338 TCATTTTGTAA-TTTTAATAGTCGA
1 CCATTTTGTAACTTTTAATAATCGA
144362 TGTACTTAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
28 14 0.13
29 91 0.87
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (29 bp):
CCATTTTGTAACTTTTAATAATCGAAGAA
Found at i:146622 original size:2 final size:2
Alignment explanation
Indices: 146615--146643 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
146605 CCCCATTATG
146615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
146644 AGAGAGATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:152128 original size:19 final size:19
Alignment explanation
Indices: 152100--152197 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
152090 GCGATTTTGA
*
152100 AAAATATGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
152119 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
152138 AAAATGTGTTGCGATAGTTT
1 AAAATGTGTTGCGATAG-TT
*
152158 GAAAAACGTGTTGTTGCGATAGTG
1 --AAAA--TG-TGTTGCGATAGTT
**
152182 AAAAAATGTTGCGATA
1 AAAATGTGTTGCGATA
152198 ATGAAAAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
19 45 0.65
20 2 0.03
22 8 0.12
24 3 0.04
25 11 0.16
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.34
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:152192 original size:44 final size:38
Alignment explanation
Indices: 152097--152197 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 38
152087 AACGCGATTT
152097 TGAAAAATATGTTGCGATAGTTAAAATGTGTTGCGATAG
1 TGAAAAA-ATGTTGCGATAGTTAAAATGTGTTGCGATAG
* **
152136 TTAAAATGTGTTGCGATAGTTTGAAAAACGTGTTGTTGCGATAG
1 TGAAAAAATGTTGCGATAG-TT--AAAA--TG-TGTTGCGATAG
152180 TGAAAAAATGTTGCGATA
1 TGAAAAAATGTTGCGATA
152198 ATGAAAAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
38 11 0.22
39 7 0.14
41 4 0.08
43 2 0.04
44 26 0.52
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.34
Consensus pattern (38 bp):
TGAAAAAATGTTGCGATAGTTAAAATGTGTTGCGATAG
Found at i:152206 original size:18 final size:19
Alignment explanation
Indices: 152169--152205 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
152159 AAAAACGTGT
*
152169 TGTTGCGATAGTGAAAAAA
1 TGTTGCGATAATGAAAAAA
152188 TGTTGCGATAATGAAAAA
1 TGTTGCGATAATGAAAAA
152206 TCCAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.27
Consensus pattern (19 bp):
TGTTGCGATAATGAAAAAA
Found at i:152630 original size:21 final size:21
Alignment explanation
Indices: 152606--152675 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
152596 ATTTTCAAAA
152606 ATCGCAACGCGAACTTAGACT
1 ATCGCAACGCGAACTTAGACT
* * * **
152627 ATCGTAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTAGACT
* *
152646 ATCGCAACGCGATCTTCGACT
1 ATCGCAACGCGAACTTAGACT
*
152667 ATTGCAACG
1 ATCGCAACG
152676 AATTTGAACT
Statistics
Matches: 35, Mismatches: 12, Indels: 4
0.69 0.24 0.08
Matches are distributed among these distances:
19 14 0.40
21 21 0.60
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGAACTTAGACT
Found at i:152667 original size:40 final size:40
Alignment explanation
Indices: 152603--152681 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
152593 GCGATTTTCA
*
152603 AAAATCGCAACGCGAACTTAGACTATCGTAACGAATTTGG
1 AAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGG
* * *
152643 AAAATCGCAACGCGATCTTCGACTATTGCAACGAATTTG
1 AAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTG
152682 AACTAATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGG
Found at i:152747 original size:31 final size:31
Alignment explanation
Indices: 152712--152772 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
152702 ATCGCATTAC
*
152712 GATTTTGTATTATCGCATTGTGATAGTCAGA
1 GATTTTGTATTATCGCATTGCGATAGTCAGA
*
152743 GATTTTGTATTATCGCGTTGCGATAGTCAG
1 GATTTTGTATTATCGCATTGCGATAGTCAG
152773 GATCACGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (31 bp):
GATTTTGTATTATCGCATTGCGATAGTCAGA
Found at i:158391 original size:26 final size:26
Alignment explanation
Indices: 158346--158400 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
158336 TTCTTCTTTC
* *
158346 TTTGTTTTTCGTTTTTTTGCACGAGTT
1 TTTGTTTTTCGTTTTGTTGCA-GAGGT
*
158373 TTTGTTTTTTG-TTTGTTGCAGAGGT
1 TTTGTTTTTCGTTTTGTTGCAGAGGT
158398 TTT
1 TTT
158401 ATGAATGCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 8 0.32
27 10 0.40
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.64
Consensus pattern (26 bp):
TTTGTTTTTCGTTTTGTTGCAGAGGT
Found at i:159819 original size:12 final size:12
Alignment explanation
Indices: 159802--159827 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
159792 GGTGCAAACT
159802 TTGACTTGATTG
1 TTGACTTGATTG
159814 TTGACTTGATTG
1 TTGACTTGATTG
159826 TT
1 TT
159828 TGTTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (12 bp):
TTGACTTGATTG
Found at i:160795 original size:120 final size:120
Alignment explanation
Indices: 160447--160763 Score: 618
Period size: 120 Copynumber: 2.6 Consensus size: 120
160437 AATTAAATAG
160447 ATAATATTTAG-TTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGCGTTTAGTACCTA
1 ATAATATTTAGTTTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGCGTTTAGTACCTA
160511 AACTATCAATTTTGATATATTTTAGTATTTAAACTTTCATTTTTTAAAATCATAC
66 AACTATCAATTTTGATATATTTTAGTATTTAAACTTTCATTTTTTAAAATCATAC
160566 ATAATATTTAGTTTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGCGTTTAGTACCTA
1 ATAATATTTAGTTTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGCGTTTAGTACCTA
160631 AACTATCAATTTTGATATATTTTAGTATTTAAACTTTCATTTTTTAAAATCATAC
66 AACTATCAATTTTGATATATTTTAGTATTTAAACTTTCATTTTTTAAAATCATAC
*
160686 ATAATATTTAGTTTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGTGTTTAGTACCTA
1 ATAATATTTAGTTTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGCGTTTAGTACCTA
160751 AACTATCAATTTT
66 AACTATCAATTTT
160764 AATCCGTTTT
Statistics
Matches: 196, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
119 11 0.06
120 185 0.94
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (120 bp):
ATAATATTTAGTTTTTGTTTCACTTTAGTACCTCATTGTTAAAAATTTAACGCGTTTAGTACCTA
AACTATCAATTTTGATATATTTTAGTATTTAAACTTTCATTTTTTAAAATCATAC
Found at i:161130 original size:66 final size:66
Alignment explanation
Indices: 161024--161148 Score: 250
Period size: 66 Copynumber: 1.9 Consensus size: 66
161014 TCCCAACAGT
161024 TTTATAGAACTTAAATTAGACCGATTCAAAGTGCCCATTTTCATCAGTTCATTATTTTTGTTTAG
1 TTTATAGAACTTAAATTAGACCGATTCAAAGTGCCCATTTTCATCAGTTCATTATTTTTGTTTAG
161089 C
66 C
161090 TTTATAGAACTTAAATTAGACCGATTCAAAGTGCCCATTTTCATCAGTTCATTATTTTT
1 TTTATAGAACTTAAATTAGACCGATTCAAAGTGCCCATTTTCATCAGTTCATTATTTTT
161149 AGGGTAAGGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (66 bp):
TTTATAGAACTTAAATTAGACCGATTCAAAGTGCCCATTTTCATCAGTTCATTATTTTTGTTTAG
C
Found at i:167154 original size:35 final size:34
Alignment explanation
Indices: 167069--167155 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
167059 AAAATAATTT
*
167069 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
167103 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
167141 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
167156 ACTAAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:169419 original size:33 final size:30
Alignment explanation
Indices: 169350--169425 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
169340 TCTGTAAAAA
* *
169350 AAAT-TAATTAAATAAAATATTAAACAATT
1 AAATATAATTAAATAAAATATAAAAAAATT
*
169379 AAA-ATAATTAAATAAATTACTAAAAAAATACT
1 AAATATAATTAAATAAAATA-TAAAAAAAT--T
*
169411 AAATATAATAAAATA
1 AAATATAATTAAATA
169426 TACCTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 17 0.45
30 7 0.18
32 4 0.11
33 10 0.26
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (30 bp):
AAATATAATTAAATAAAATATAAAAAAATT
Found at i:171363 original size:18 final size:17
Alignment explanation
Indices: 171314--171363 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
171304 TATGTAATTG
171314 GATTCCAATTCTT-ACA
1 GATTCCAATTCTTCACA
*
171330 GATTCCAATTTTTTCACA
1 GATTCCAA-TTCTTCACA
*
171348 GATTTCAATTCCTTCA
1 GATTCCAATT-CTTCA
171364 TAAACATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 14 0.50
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (17 bp):
GATTCCAATTCTTCACA
Found at i:173145 original size:2 final size:2
Alignment explanation
Indices: 173138--173165 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
173128 ACAAGTTGGA
173138 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
173166 TTAAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174651 original size:7 final size:7
Alignment explanation
Indices: 174639--174671 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
174629 ATCATAACTT
174639 CTAAACC
1 CTAAACC
174646 CTAAACC
1 CTAAACC
174653 CTAAACC
1 CTAAACC
174660 CTAAACC
1 CTAAACC
*
174667 TTAAA
1 CTAAA
174672 TCATGACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:175763 original size:182 final size:179
Alignment explanation
Indices: 175429--175789 Score: 598
Period size: 182 Copynumber: 2.0 Consensus size: 179
175419 TAACGTAACT
* * *
175429 CTCGTATTATTTTTTCATCTTGAGTGCTCTCTAACTCAGAAAATAAACCTAATGTGGCCCTTTGA
1 CTCGTATTATTTTTTCATCTTAAGTGCTCTCTAACTCAGAAAATAAACCCAATGTGACCCTTTGA
* **
175494 CCAAAGCTTTTATCGCTAACTGTTGCAATATTGACGTAGCAGACCACGGTGGTGATAAACGTGAT
66 CCAAAGCTTTTATCACTAACAATTGCAATATTGACGTAGCAGACCACGGTGGTGATAAACGTGAT
*
175559 AGATGAGCTAAATTAGTAACTCAAACATGATAGATGGATTATTATGTCA
131 AGATGAGCTAAATTAGTAACTCAAACATGATAGATAGATTATTATGTCA
175608 CTCGTATTATTTTTTTTCATCTTAAGTGCTCTCTAACTCAGAAAATAAACCCAATGTGACCCTTT
1 CTCGTATTA--TTTTTTCATCTTAAGTGCTCTCTAACTCAGAAAATAAACCCAATGTGACCCTTT
* *
175673 GACCAAAGCTTTTCATCATTAACAATTGCAATATTGACGTAGCAGACTACGGTGGTGATAAACGT
64 GACCAAAGCTTTT-ATCACTAACAATTGCAATATTGACGTAGCAGACCACGGTGGTGATAAACGT
175738 GATAGATGAGCTAAATT-GATAACTCAAACATGATAGATAGATTATTATGTCA
128 GATAGATGAGCTAAATTAG-TAACTCAAACATGATAGATAGATTATTATGTCA
175790 ACAGCATGAA
Statistics
Matches: 169, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
179 9 0.05
181 65 0.38
182 95 0.56
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (179 bp):
CTCGTATTATTTTTTCATCTTAAGTGCTCTCTAACTCAGAAAATAAACCCAATGTGACCCTTTGA
CCAAAGCTTTTATCACTAACAATTGCAATATTGACGTAGCAGACCACGGTGGTGATAAACGTGAT
AGATGAGCTAAATTAGTAACTCAAACATGATAGATAGATTATTATGTCA
Found at i:179455 original size:29 final size:29
Alignment explanation
Indices: 179422--179477 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
179412 TTTTATGTCA
*
179422 AAGGGATAAATTTGAATTTATAAAATTTT
1 AAGGGATAAATTTGAATTCATAAAATTTT
* *
179451 AAGGGGTGAATTTGAATTCATAAAATT
1 AAGGGATAAATTTGAATTCATAAAATT
179478 CTAGGTGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.38
Consensus pattern (29 bp):
AAGGGATAAATTTGAATTCATAAAATTTT
Found at i:186255 original size:3 final size:3
Alignment explanation
Indices: 186247--186352 Score: 194
Period size: 3 Copynumber: 35.3 Consensus size: 3
186237 GCGGGAGGGA
186247 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
186295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
186343 AGT AAT AAT A
1 AAT AAT AAT A
186353 TTGGGTAAAA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 99 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:187052 original size:21 final size:21
Alignment explanation
Indices: 187023--187069 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
187013 ATTCTTACTA
187023 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
187044 TCGCCTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
187065 TCGCA
1 TCGCA
187070 ATACGAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:187208 original size:20 final size:20
Alignment explanation
Indices: 187065--187199 Score: 148
Period size: 20 Copynumber: 6.7 Consensus size: 20
187055 TTTTCCTAAT
* *
187065 TCGCAATACGAATACGTAAT
1 TCGCAATGCGAATACGTAAA
* ** *
187085 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
187106 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
187126 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
187146 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
187166 TCGCAATGCGAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
187186 TCGCAATGCGAATA
1 TCGCAATGCGAATA
187200 TGTATATCGA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 81 0.83
21 14 0.14
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:187703 original size:20 final size:21
Alignment explanation
Indices: 187678--187766 Score: 105
Period size: 20 Copynumber: 4.4 Consensus size: 21
187668 CAATGTGGAA
*
187678 ATCGCAACGC-GAATATGGCT
1 ATCGCAACGCGGAATATGACT
* **
187698 ATCGCAACACATAA-ATGACT
1 ATCGCAACGCGGAATATGACT
187718 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
187738 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
187758 GTCGCAACG
1 ATCGCAACG
187767 AGAGAATCGC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:187740 original size:40 final size:40
Alignment explanation
Indices: 187678--187766 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
187668 CAATGTGGAA
* *
187678 ATCGCAACGCGAATATGGCTATCGCAACACATAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACAGAAATGACT
* *
187718 ATCGCAACGCGGAAT-TGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACACAGAAATGACT
*
187758 GTCGCAACG
1 ATCGCAACG
187767 AGAGAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 39 0.91
41 4 0.09
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACAGAAATGACT
Found at i:187831 original size:34 final size:33
Alignment explanation
Indices: 187759--187833 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 33
187749 GAAATGACTG
* *
187759 TCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAACGAGAGAATCACAATGCGAAATAAAAA
*
187792 TCGCAACGAGTGAATCACAATGCGAAAATAAAAA
1 TCGCAACGAGAGAATCACAATGCG-AAATAAAAA
187826 TCGCAACG
1 TCGCAACG
187834 CGAATTTAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 22 0.58
34 16 0.42
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (33 bp):
TCGCAACGAGAGAATCACAATGCGAAATAAAAA
Found at i:189485 original size:42 final size:43
Alignment explanation
Indices: 189420--189503 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
189410 TCTAGAATGT
* *
189420 TGGGAGGGACCTCTTCAACGATGACA-GTGGCCTCTTGAACGG
1 TGGGAGGGAACTCTTCAACGATGACAGGGGGCCTCTTGAACGG
* ** *
189462 TGGGAGGGAACTCTTGAGGGATGATAGGGGGCCTCTTGAACG
1 TGGGAGGGAACTCTTCAACGATGACAGGGGGCCTCTTGAACG
189504 ATAGGTGAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
42 21 0.60
43 14 0.40
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (43 bp):
TGGGAGGGAACTCTTCAACGATGACAGGGGGCCTCTTGAACGG
Found at i:189508 original size:19 final size:21
Alignment explanation
Indices: 189484--189526 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
189474 CTTGAGGGAT
189484 GATAGG-G-GGCCTCTTGAAC
1 GATAGGTGAGGCCTCTTGAAC
189503 GATAGGTGAGGCCTCTTGAAC
1 GATAGGTGAGGCCTCTTGAAC
189524 GAT
1 GAT
189527 GACAGGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
21 15 0.68
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (21 bp):
GATAGGTGAGGCCTCTTGAAC
Found at i:189528 original size:43 final size:42
Alignment explanation
Indices: 189420--189532 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
189410 TCTAGAATGT
* * *
189420 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGGACCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** *
189462 TGGGAGGGAACTCTTGAGGGATGATAGGGGGCCTCTTGAACGA
1 TGGGAGGGACCTCTTGAACGATGACA-GGGGCCTCTTGAACGA
189505 TAGGTGA-GG-CCTCTTGAACGATGACAGG
1 T-GG-GAGGGACCTCTTGAACGATGACAGG
189533 TGAGTCAGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 23 0.40
43 28 0.49
44 4 0.07
45 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (42 bp):
TGGGAGGGACCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:190039 original size:20 final size:20
Alignment explanation
Indices: 190016--190118 Score: 143
Period size: 20 Copynumber: 5.2 Consensus size: 20
190006 CTTAAAATCA
190016 CAACGCGAAAATGATTATCG
1 CAACGCGAAAATGATTATCG
*
190036 CAACGCAAAAATGATTATCG
1 CAACGCGAAAATGATTATCG
*
190056 CAACGCAAAAATGATTATCG
1 CAACGCGAAAATGATTATCG
*
190076 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGATTATCG
* ** *
190096 CAATGCGAATTTGACTATCG
1 CAACGCGAAAATGATTATCG
190116 CAA
1 CAA
190119 TACGAATTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.20
Consensus pattern (20 bp):
CAACGCGAAAATGATTATCG
Found at i:190119 original size:20 final size:20
Alignment explanation
Indices: 190071--190138 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
190061 CAAAAATGAT
* **
190071 TATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAATTTGAC
190091 TATCGCAATGCGAATTTGAC
1 TATCGCAATGCGAATTTGAC
* *
190111 TATCGCAATACGAATTTAAC
1 TATCGCAATGCGAATTTGAC
190131 TATCGCAA
1 TATCGCAA
190139 CGAGAGAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (20 bp):
TATCGCAATGCGAATTTGAC
Found at i:190255 original size:87 final size:87
Alignment explanation
Indices: 190157--190318 Score: 234
Period size: 87 Copynumber: 1.9 Consensus size: 87
190147 TCGCAATGCG
* * *
190157 ATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATAATAAAATTCGCATTGCGATAGTCATTTTC
1 ATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATAATAAAATTCGCATTACGATAGTCATTTTC
*
190222 GCGTTGCGATTTTGTTGTTGCA
66 GCATTGCGATTTTGTTGTTGCA
* * ** *
190244 ATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATAGTCATTTTCGCGTTACGATAGTCATTTTC
1 ATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATAATAAAATTCGCATTACGATAGTCATTTTC
*
190309 GTATTGCGAT
66 GCATTGCGAT
190319 AATAAACTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (87 bp):
ATTTTCATTTCGCATTGCAATTCTCTCGTTGCGATAATAAAATTCGCATTACGATAGTCATTTTC
GCATTGCGATTTTGTTGTTGCA
Found at i:190285 original size:33 final size:33
Alignment explanation
Indices: 190205--190286 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 33
190195 AAAATTCGCA
* * * * *
190205 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCA-TTTCGCATTGCAATTCTCTCG
* **
190239 TTGCAATTTTCATTTCGCATTGCAATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCAATTCTCTCG
190272 TTGCGATAGTCATTT
1 TTGCGATAGTCATTT
190287 TCGCGTTACG
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
33 28 0.76
34 9 0.24
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCATTGCAATTCTCTCG
Found at i:190298 original size:20 final size:20
Alignment explanation
Indices: 190270--190309 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
190260 GCAATTCTCT
*
190270 CGTTGCGATAGTCATTTTCG
1 CGTTACGATAGTCATTTTCG
190290 CGTTACGATAGTCATTTTCG
1 CGTTACGATAGTCATTTTCG
190310 TATTGCGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
CGTTACGATAGTCATTTTCG
Found at i:190318 original size:20 final size:20
Alignment explanation
Indices: 190272--190319 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
190262 AATTCTCTCG
*
190272 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
* *
190292 TTACGATAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
190312 TTGCGATA
1 TTGCGATA
190320 ATAAACTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:192197 original size:20 final size:20
Alignment explanation
Indices: 192174--192262 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
192164 CTGAAACTTT
192174 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
192194 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** * **
192214 CTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAAAATGA
**
192234 CTATCGCAACACG-AAATGA
1 AAATCGCAACACGAAAATGA
192253 AAATCGCAAC
1 AAATCGCAAC
192263 GACAGAATCG
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 47 0.80
ACGTcount: A:0.46, C:0.24, G:0.16, T:0.15
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:192661 original size:22 final size:22
Alignment explanation
Indices: 192599--192664 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
192589 TGACCGTGAA
*
192599 TGATTTCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
192621 TGATATCGTCGGATATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
192643 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
192665 GGATGTCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:192884 original size:20 final size:20
Alignment explanation
Indices: 192861--192974 Score: 156
Period size: 20 Copynumber: 5.7 Consensus size: 20
192851 CGATAGTCAG
192861 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
192881 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
192901 ATTCGCATTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
192921 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
* *
192942 ATTCGCGTTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
192962 ATTCGCATTGCGA
1 ATTCGCATTGCGA
192975 ATTAGGAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 65 0.82
21 14 0.18
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:192905 original size:40 final size:41
Alignment explanation
Indices: 192843--192974 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 41
192833 GCTATGTAAA
** *
192843 TCGCATTGCGATAGT-CAGATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGTAT
** * *
192883 TCGCATTGCGA-TTTACGTATTCGCATTGCAATTTACGTAA
1 TCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGTAT
* * *
192923 TCGCATTGCGATTTTCCAAATTCGCGTTGTGATTTACGTAT
1 TCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGTAT
192964 TCGCATTGCGA
1 TCGCATTGCGA
192975 ATTAGGAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 43 0.56
41 33 0.43
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TCGCATTGCGATTTTACAAATTCGCATTGCGATTTACGTAT
Found at i:192969 original size:61 final size:61
Alignment explanation
Indices: 192863--192977 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
192853 ATAGTCAGAT
**
192863 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGC-AATTTACGTAA
1 TCGCATTGCGATTTACAAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTTACGTAA
* * *
192923 TCGCATTGCGATTTTCCAAATTCGCGTTGTGATTTACGTATTCGCATTGCGAATT
1 TCGCATTGCGA-TTTACAAATTCGCATTGCGATTTACGTATTCGCATTGCGAATT
192978 AGGAAAATCG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 11 0.23
61 33 0.69
62 4 0.08
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (61 bp):
TCGCATTGCGATTTACAAATTCGCATTGCGATTTACGTATTCGCATTGCGAATTTACGTAA
Found at i:192995 original size:21 final size:21
Alignment explanation
Indices: 192971--193016 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
192961 TATTCGCATT
192971 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
192992 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
193013 GCGA
1 GCGA
193017 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:194350 original size:37 final size:36
Alignment explanation
Indices: 194291--194410 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
194281 ATCCCATTAT
* *
194291 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
194327 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
194363 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
194398 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
194411 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:194366 original size:21 final size:21
Alignment explanation
Indices: 194342--194402 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
194332 TTCAAAGAAA
194342 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
194363 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
194377 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
194398 CATTT
1 CATTT
194403 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:194419 original size:35 final size:36
Alignment explanation
Indices: 194293--194437 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
194283 CCCATTATCA
*
194293 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
194328 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
194365 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
194401 TTTTTCAAAG-TTGGTTACCAAA-TTTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
194435 TTT
1 TTT
194438 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 15 0.15
35 44 0.45
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:198945 original size:37 final size:37
Alignment explanation
Indices: 198887--199005 Score: 147
Period size: 37 Copynumber: 3.3 Consensus size: 37
198877 TCCCATTATC
* *
198887 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAAAT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAAT
**
198923 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAAT
* *
198959 A-TTTTCAAATAAACATTTACCAAACTTTGAAAACCAT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAA-AAT
198996 -TTTTTCAAAG
1 ATTTTTCAAAG
199006 TTGGTTACCA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
35 27 0.39
36 15 0.21
37 28 0.40
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (37 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAAT
Found at i:198961 original size:21 final size:21
Alignment explanation
Indices: 198937--198997 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
198927 TTCAAAGAAA
198937 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
198958 CATTT-TCAAA---T--AAA-
1 CATTTACCAAACTTTGAAAAC
198972 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
198993 CATTT
1 CATTT
198998 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
17 1 0.03
18 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:198973 original size:35 final size:35
Alignment explanation
Indices: 198889--198998 Score: 150
Period size: 35 Copynumber: 3.1 Consensus size: 35
198879 CCATTATCAT
* **
198889 TTTTC-AACAAACATCTACCAAACTTTGAAAAAATA
1 TTTTCAAACAAACATTTACCAAACTTTG-AAAACCA
*
198924 TTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAACAAACATTTACCAAACTTTGAAAACCA
*
198960 TTTTCAAATAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAACAAACATTTACCAAACTTTGAAAACCA
198995 TTTT
1 TTTT
198999 TTCAAAGTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 38 0.56
36 10 0.15
37 20 0.29
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.33
Consensus pattern (35 bp):
TTTTCAAACAAACATTTACCAAACTTTGAAAACCA
Found at i:200001 original size:26 final size:26
Alignment explanation
Indices: 199965--200018 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
199955 ACTAGTGAAA
199965 TATTATTTTAGTAGTGTTCGAGGAGG
1 TATTATTTTAGTAGTGTTCGAGGAGG
*
199991 TATTATTTTAGTAGTGTTTGAGGAGG
1 TATTATTTTAGTAGTGTTCGAGGAGG
200017 TA
1 TA
200019 GGCAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.44
Consensus pattern (26 bp):
TATTATTTTAGTAGTGTTCGAGGAGG
Done.