Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008112.1 Kokia drynarioides strain JFW-HI SEQ_122770, 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: 22426
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Found at i:7616 original size:14 final size:15
Alignment explanation
Indices: 7578--7626 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
7568 CACGAACAAT
*
7578 TATACGAATGAATAAA
1 TATACGAA-AAATAAA
7594 TATACG-AAAATAAA
1 TATACGAAAAATAAA
7608 TATGA-GAAAAATAAA
1 TAT-ACGAAAAATAAA
7623 -ATAC
1 TATAC
7627 AAATCATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 1 0.03
14 12 0.41
15 10 0.34
16 6 0.21
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.22
Consensus pattern (15 bp):
TATACGAAAAATAAA
Found at i:7953 original size:30 final size:30
Alignment explanation
Indices: 7775--8122 Score: 224
Period size: 29 Copynumber: 11.9 Consensus size: 30
7765 TAATTTTAAA
*
7775 AAGTTTAAGGGTAAAAATGTAATTTTAGGA-
1 AAGTTCAAGGGTAAAAATGTAATTTT-GGAG
* * *
7805 AAGTTC-GGGGTAAAAATGTGATTTTTG-G
1 AAGTTCAAGGGTAAAAATGTAATTTTGGAG
*
7833 AAGTTCAA-GG-AAAAATGTAATTTTTGAG
1 AAGTTCAAGGGTAAAAATGTAATTTTGGAG
* *
7861 AAGTTCAAGGGTAAAAAATGTGATTTTTTGA-
1 AAGTTCAAGGGT-AAAAATGT-AATTTTGGAG
**
7892 AAGTTC--GGGGCAAAATGTAAATTTT-GAG
1 AAGTTCAAGGGTAAAAATGT-AATTTTGGAG
*
7920 AAGTTCAAGGGT-AAAATCATAATTTTGGAG
1 AAGTTCAAGGGTAAAAAT-GTAATTTTGGAG
* * ** *
7950 AAGTT-TAGGGTCAAAATGGGATTTTTGAG
1 AAGTTCAAGGGTAAAAATGTAATTTTGGAG
* * **
7979 AAGTTTAAGGGTCAAAATGTAAATTTTACA-
1 AAGTTCAAGGGTAAAAATGT-AATTTTGGAG
** * *
8009 AAGTTTGAGGGTTAAAATATAATTTTGGA-
1 AAGTTCAAGGGTAAAAATGTAATTTTGGAG
* * *
8038 AATTTTAAGGGTTAAAATGTAATTTTGG-G
1 AAGTTCAAGGGTAAAAATGTAATTTTGGAG
* * *
8067 TAAGTT-TAGTGGTCAAAATGTAATTTTGGAA
1 -AAGTTCAAG-GGTAAAAATGTAATTTTGGAG
* * *
8098 AAGTTC-ATGGTCAAAATGTGATTTT
1 AAGTTCAAGGGTAAAAATGTAATTTT
8123 TGAAAGAAAA
Statistics
Matches: 261, Mismatches: 37, Indels: 41
0.77 0.11 0.12
Matches are distributed among these distances:
27 17 0.07
28 36 0.14
29 101 0.39
30 79 0.30
31 20 0.08
32 8 0.03
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (30 bp):
AAGTTCAAGGGTAAAAATGTAATTTTGGAG
Found at i:7965 original size:59 final size:58
Alignment explanation
Indices: 7774--8104 Score: 239
Period size: 59 Copynumber: 5.6 Consensus size: 58
7764 ATAATTTTAA
* * * *
7774 AAAGTTTAAGGGTAAAAATGTAATTTT-AGGAAAGTTC-GGGGTAAAAATGTGATTTTTGG
1 AAAGTTT-AGGGTCAAAATGTAATTTTGA-G-AAGTTCAAGGGTAAAAATGTAAATTTTGG
* * * * * *
7833 -AAGTTCAAGG-AAAAATGTAATTTTTGAGAAGTTCAAGGGTAAAAAATGTGATTTTTTG
1 AAAGTTTAGGGTCAAAATGTAA-TTTTGAGAAGTTCAAGGGT-AAAAATGTAAATTTTGG
* * *
7891 AAAG-TTCGGGGCAAAATGTAAATTTTGAGAAGTTCAAGGGT-AAAAT-CATAATTTTGG
1 AAAGTTTAGGGTCAAAATGT-AATTTTGAGAAGTTCAAGGGTAAAAATGTA-AATTTTGG
* * * * **
7948 AGAAGTTTAGGGTCAAAATGGGATTTTTGAGAAGTTTAAGGGTCAAAATGTAAATTTTAC
1 A-AAGTTTAGGGTCAAAAT-GTAATTTTGAGAAGTTCAAGGGTAAAAATGTAAATTTTGG
* * * * *
8008 AAAGTTTGAGGGTTAAAATATAATTTTG-GAAATTTTAAGGGTTAAAATGT-AATTTTGGG
1 AAAGTTT-AGGGTCAAAATGTAATTTTGAG-AAGTTCAAGGGTAAAAATGTAAATTTT-GG
* *
8067 TAAGTTTAGTGGTCAAAATGTAATTTTGGAAAAGTTCA
1 AAAGTTTAG-GGTCAAAATGTAATTTT-GAGAAGTTCA
8105 TGGTCAAAAT
Statistics
Matches: 219, Mismatches: 34, Indels: 37
0.76 0.12 0.13
Matches are distributed among these distances:
56 16 0.07
57 24 0.11
58 37 0.17
59 110 0.50
60 31 0.14
61 1 0.00
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (58 bp):
AAAGTTTAGGGTCAAAATGTAATTTTGAGAAGTTCAAGGGTAAAAATGTAAATTTTGG
Found at i:8004 original size:89 final size:87
Alignment explanation
Indices: 7775--8104 Score: 255
Period size: 89 Copynumber: 3.7 Consensus size: 87
7765 TAATTTTAAA
** * ** * * * *
7775 AAGTTTAAGGGTAAAAATGTAATTTTAG-GAAAGTTCGGGGTAAAAATGTGATTTTTG-GAAGTT
1 AAGTTT-AGGGTAAAAATGGGATTTTTGAG-AAGTTTAGGGTCAAAATGTAAATTTTGAAAAGTT
* * *
7838 CAA-GGAAAAATGTAATTTTTGAG
64 CAAGGGTAAAATATAATTTTGGAG
* * * * *
7861 AAGTTCAAGGGTAAAAAATGTGATTTTTTGA-AAG-TTCGGGGCAAAATGTAAATTTTGAGAAGT
1 AAGTT-TAGGGT-AAAAATGGGA-TTTTTGAGAAGTTTAGGGTCAAAATGTAAATTTTGAAAAGT
7924 TCAAGGGTAAAATCATAATTTTGGAG
63 TCAAGGGTAAAAT-ATAATTTTGGAG
*
7950 AAGTTTAGGGTCAAAATGGGATTTTTGAGAAGTTTAAGGGTCAAAATGTAAATTTT-ACAAAGTT
1 AAGTTTAGGGTAAAAATGGGATTTTTGAGAAGTTT-AGGGTCAAAATGTAAATTTTGA-AAAGTT
**
8014 TGAGGGTTAAAATATAATTTTGGA-
64 CAAGGG-TAAAATATAATTTTGGAG
* * * * *
8038 AATTTTAAGGGTTAAAAT-GTAATTTTGGGTAAGTTTAGTGGTCAAAATGT-AATTTTGGAAAAG
1 AAGTTT-AGGGTAAAAATGGGATTTTTGAG-AAGTTTAG-GGTCAAAATGTAAATTTT-GAAAAG
8101 TTCA
62 TTCA
8105 TGGTCAAAAT
Statistics
Matches: 200, Mismatches: 27, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
86 34 0.17
87 32 0.16
88 41 0.20
89 86 0.43
90 7 0.04
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.35
Consensus pattern (87 bp):
AAGTTTAGGGTAAAAATGGGATTTTTGAGAAGTTTAGGGTCAAAATGTAAATTTTGAAAAGTTCA
AGGGTAAAATATAATTTTGGAG
Found at i:9990 original size:30 final size:30
Alignment explanation
Indices: 9956--10366 Score: 373
Period size: 30 Copynumber: 13.4 Consensus size: 30
9946 ATTTAAGGTC
*
9956 AAAATATAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * *
9986 AAAATGTGATTTTGGGAAAGTTTAGGGATT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
** **
10016 AAAATGTGGTTTTGGAAAAGTTTATAGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
10046 AAAATGTAATTTTGGGAAAGTTTA-GGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
10075 AAAATGTAATTTTGGAAAAGTTTAGGGATT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* *
10105 AAAATGTAGTTTTAGG-AAAGTTT-GGGTTT
1 AAAATGTAATTTT-GGAAAAGTTTAGGGGTT
* * * * * *
10134 AAAATATGATTCTAGAAAAGTTTAAGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
*
10164 AAAATGTAATTATGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* *
10194 AAAAGGTAATTTTGGAAAATTTTAGAGAAGTTTAGGGGTC
1 AAAATGTAATTTTGG--------A-A-AAGTTTAGGGGTT
* * *
10234 AAAATGTAATTTTAGAAAAGTATAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* *
10264 AAAATGTAATTTTGGAAAAGTATAGGGGTC
1 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
* * * *
10294 AAAAGGAAATTTT-AAAGAAGTTTAAGGGTT
1 AAAATGTAATTTTGGAA-AAGTTTAGGGGTT
* *
10324 AAAATGTGATTTTGGAAAAGTAT-GAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAG-GGGTT
*
10354 AAAATATAATTTT
1 AAAATGTAATTTT
10367 TAAACAAAAT
Statistics
Matches: 312, Mismatches: 52, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
28 1 0.00
29 50 0.16
30 228 0.73
31 5 0.02
32 1 0.00
38 1 0.00
39 1 0.00
40 25 0.08
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGGTT
Found at i:10096 original size:89 final size:89
Alignment explanation
Indices: 9947--10366 Score: 357
Period size: 89 Copynumber: 4.6 Consensus size: 89
9937 TTTTGCAGAA
* * * *
9947 TTTA-AGGTCAAAATATAATTTTGGAAAAGTTTAGGGGTTAAAATGTGATTTTGGGAAAGTTTAG
1 TTTATAGGTTAAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATGTAATTTTGGAAAAGTTTAG
* **
10011 GGATTAAAATGTGGTTTTGGAAAAG
65 GGATTAAAAGGTAATTTTGGAAAAG
*
10036 TTTATAGGTTAAAATGTAATTTTGGGAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAGG
1 TTTATAGGTTAAAATGTAATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAGG
* *
10101 GATTAAAATGTAGTTTTAGG-AAAG
66 GATTAAAAGGTAATTTT-GGAAAAG
* * * * * * *
10125 -TT-TGGGTTTAAAATATGATTCTAGAAAAGTTTAAGGGTCAAAATGTAATTATGGAAAAGTTTA
1 TTTATAGG-TTAAAATGTAATTTTGGAAAAGTTT-AGGGTTAAAATGTAATTTTGGAAAAGTTTA
* *
10188 GGGGTTAAAAGGTAATTTTGGAAAAT
64 GGGATTAAAAGGTAATTTTGGAAAAG
* * * *
10214 TTTAGAGAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAGTATAGGGGTCAAAATGTAATTTTGG
1 TTT-----A---TA--GGTTAAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATGTAATTTTGG
* * * * *
10279 AAAAGTATAGGGGTCAAAAGGAAATTTT-AAAGAAG
55 AAAAGTTTAGGGATTAAAAGGTAATTTTGGAA-AAG
* * *
10314 TTTA-AGGGTTAAAATGTGATTTTGGAAAAGTATGAGGGTTAAAATATAATTTT
1 TTTATA-GGTTAAAATGTAATTTTGGAAAAGT-TTAGGGTTAAAATGTAATTTT
10367 TAAACAAAAT
Statistics
Matches: 274, Mismatches: 37, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
87 3 0.01
88 24 0.09
89 100 0.36
90 69 0.25
91 2 0.01
95 1 0.00
99 4 0.01
100 69 0.25
101 2 0.01
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.35
Consensus pattern (89 bp):
TTTATAGGTTAAAATGTAATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTTGGAAAAGTTTAGG
GATTAAAAGGTAATTTTGGAAAAG
Found at i:10233 original size:70 final size:70
Alignment explanation
Indices: 10146--10282 Score: 211
Period size: 70 Copynumber: 2.0 Consensus size: 70
10136 AATATGATTC
* * *
10146 TAGAAAAGTTTAAGGGTCAAAATGTAATTATGGAAAAGTTTAGGGGTTAAAAGGTAATTTTGGAA
1 TAGAAAAGTTTAAGGGTCAAAATGTAATTATAGAAAAGTATAGGGGTCAAAAGGTAATTTTGGAA
10211 AATTT
66 AATTT
* * * *
10216 TAGAGAAGTTTAGGGGTCAAAATGTAATTTTAGAAAAGTATAGGGGTCAAAATGTAATTTTGGAA
1 TAGAAAAGTTTAAGGGTCAAAATGTAATTATAGAAAAGTATAGGGGTCAAAAGGTAATTTTGGAA
10281 AA
66 AA
10283 GTATAGGGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (70 bp):
TAGAAAAGTTTAAGGGTCAAAATGTAATTATAGAAAAGTATAGGGGTCAAAAGGTAATTTTGGAA
AATTT
Found at i:12437 original size:85 final size:86
Alignment explanation
Indices: 12296--12463 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 86
12286 CTCTTGGTCT
* * * * * * *
12296 ACTTCTCTGCATCTCATCAGGAAGATGATGGCTTCATTGTTTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTACATCTCATCAGGAAAATGATGACTTCATTGATTCAACCCACTCCTCTGTATCTCAT
*
12361 CAAGAAGA-TGGATTTGGTTC
66 CAAAAAGATTGGATTTGGTTC
* *
12381 ACTTCTCTACATCTCGTCAGGAAAATGAAT-ACTTTATTGATTCAACCCACTCCTCTGTATCTCA
1 ACTTCTCTACATCTCATCAGGAAAATG-ATGACTTCATTGATTCAACCCACTCCTCTGTATCTCA
*
12445 TCAAAAAGATTGGGTTTGG
65 TCAAAAAGATTGGATTTGG
12464 AAGTTTCACT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
85 60 0.86
86 10 0.14
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (86 bp):
ACTTCTCTACATCTCATCAGGAAAATGATGACTTCATTGATTCAACCCACTCCTCTGTATCTCAT
CAAAAAGATTGGATTTGGTTC
Found at i:12913 original size:207 final size:207
Alignment explanation
Indices: 12289--12992 Score: 861
Period size: 209 Copynumber: 3.4 Consensus size: 207
12279 GCTTCATCTC
* ** * * *
12289 TTGGTCTACTTCTCTGCATCTCATCAGGAAGATGATGGCTTCATTGTTTTAATCCACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGT
* * * * *
12354 ATCTCATCAAGAAGATGGATTTGGTTCACTTCTCTACATCTCGTCAGGAAAATGAATACTTTATT
66 ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTACATCTCGTTAGGAAGATGAACAC-TTATT
* * * ** * * * *
12419 GATTCAACCCACTCCTCTGTATCTCATCAAAAAGATTGGGTTTGGAAGTTTCACTTATATTGAGC
130 GATTCGACCCACTTCTCTATATCTCATCAGGAAGATAGGGTTT-GAAGTCTCATTTGTATTGAGC
* *
12484 TTCACTTCGTTGAA
194 TTCACTTCATTGAT
** * * *
12498 TTGGT-TCACTTCTCAATATCTCATCAGGAAGATGACCACTTCATTATTTTAATCCACTTCTCTG
1 TTGGTCT-ACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTG
* * * *
12562 TATCTCATCAGAAAGACGGATTTGGTTCATTTCTCTACATCTCGTTAGAAAGATGAACAGTTTAT
65 TATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTACATCTCGTTAGGAAGATGAACA-CTTAT
* ** * * * * *
12627 TGATTTGGTCCACTTCTCTTTATCTCATCAGGAAGATAGAGTTTGAAGTCTTATTCGTTTTGAGC
129 TGATTCGACCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGAAGTCTCATTTGTATTGAGC
*
12692 TTCGCTTCATTGAT
194 TTCACTTCATTGAT
* *
12706 TTGGTCTACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCTACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGT
* * * * * * *
12771 ATCTCATCAGGAAGCCAGATTTGATTCACTTCTTTGCATCTTGTTAGGAAGATGACCACTTATTG
66 ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTACATCTCGTTAGGAAGATGAACACTTATTG
* *
12836 GTTCGACCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTTGTATTGAGCTT
131 ATTCGACCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGAAGTCTCATTTGTATTGAGCTT
*
12901 CATTTCATTGAT
196 CACTTCATTGAT
* * *
12913 TTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAACGCCTCATTGTTTCAATCCACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGT
*
12978 ATCTCATTAGGAAGA
66 ATCTCATCAGGAAGA
12993 TGACTGCATC
Statistics
Matches: 420, Mismatches: 72, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
207 144 0.34
208 131 0.31
209 145 0.35
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.38
Consensus pattern (207 bp):
TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCCACTTCTCTGT
ATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTACATCTCGTTAGGAAGATGAACACTTATTG
ATTCGACCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGAAGTCTCATTTGTATTGAGCTT
CACTTCATTGAT
Found at i:13015 original size:48 final size:48
Alignment explanation
Indices: 12920--13039 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
12910 GATTTGGTCT
* *
12920 ACTTCTCTGTATCTCATCAAGAAGATGAACGCCTCATTGTTTCAATCC
1 ACTTCTCTGTATCTCATCAGGAAGATGAACGCATCATTGTTTCAATCC
* *
12968 ACTTCTCTGTATCTCATTAGGAAGATG-ACTGCATCACTT-TTTTAATCC
1 ACTTCTCTGTATCTCATCAGGAAGATGAAC-GCATCA-TTGTTTCAATCC
*
13016 ACTTCTTTGTATCTCATCAGGAAG
1 ACTTCTCTGTATCTCATCAGGAAG
13040 GCAGATTTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
47 2 0.03
48 60 0.94
49 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (48 bp):
ACTTCTCTGTATCTCATCAGGAAGATGAACGCATCATTGTTTCAATCC
Found at i:13080 original size:255 final size:256
Alignment explanation
Indices: 12713--13204 Score: 772
Period size: 256 Copynumber: 1.9 Consensus size: 256
12703 GATTTGGTCT
* * *
12713 ACTTCTTTGTATCTCATCAGGAAGATGACCGCCTCATTATTTCAATCTACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCATCATTATTTCAATCCACTTCTCTGTATCTCAT
* * ** *
12778 CAGGAAGCCAGATTTGATTCACTTCTTTGCATCTTGTTAGGAAGATGACCAC-TTATTGGTTCGA
66 CAGGAAGCCAGATTTGATCCACTTCTCTGCATCTCATTAGGAAGATGACCACTTTATTGCTTCGA
* *
12842 CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTTGTATTGAGCTTCATTTC
131 CCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTTC
*
12907 ATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAACGCCTCATTGTTTCAATCC
196 ATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAACGCCTCATTGTTTCAATCC
* * * *
12968 ACTTCTCTGTATCTCATTAGGAAGATGACTGCATCACTT-TTTTAATCCACTTCTTTGTATCTCA
1 ACTTCTCTGTATCTCATCAGGAAGATGACCGCATCA-TTATTTCAATCCACTTCTCTGTATCTCA
* * * *
13032 TCAGGAAGGCAGATTTGGTCCACTTCTCTGTATCTCATTAGGAAGATGACCACTTTATTGCTTTG
65 TCAGGAAGCCAGATTTGATCCACTTCTCTGCATCTCATTAGGAAGATGACCACTTTATTGCTTCG
*
13097 ACCCACTTCTCTATATCTCATCAGGAATATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTT
130 ACCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTT
*
13162 CATCGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGAA
195 CATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAA
13205 TTTGGTCCAC
Statistics
Matches: 214, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
255 100 0.47
256 114 0.53
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (256 bp):
ACTTCTCTGTATCTCATCAGGAAGATGACCGCATCATTATTTCAATCCACTTCTCTGTATCTCAT
CAGGAAGCCAGATTTGATCCACTTCTCTGCATCTCATTAGGAAGATGACCACTTTATTGCTTCGA
CCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGAAGTCTCATTCGTATTGAGCTTCATTTC
ATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAACGCCTCATTGTTTCAATCC
Found at i:13114 original size:85 final size:85
Alignment explanation
Indices: 12965--13123 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 85
12955 ATTGTTTCAA
** * * * *
12965 TCCACTTCTCTGTATCTCATTAGGAAGATGACTGCATCACTTTTTTAATCCACTTCTTTGTATCT
1 TCCACTTCTCTGTATCTCATTAGGAAGATGACCACATCACTTCTTTAACCCACTTCTCTATATCT
13030 CATCAGGAAGGCAGATTTGG
66 CATCAGGAAGGCAGATTTGG
* * *
13050 TCCACTTCTCTGTATCTCATTAGGAAGATGACCACTTTA-TTGCTTTGACCCACTTCTCTATATC
1 TCCACTTCTCTGTATCTCATTAGGAAGATGACCACATCACTT-CTTTAACCCACTTCTCTATATC
13114 TCATCAGGAA
65 TCATCAGGAA
13124 TATAGGGTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 2 0.03
85 62 0.97
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (85 bp):
TCCACTTCTCTGTATCTCATTAGGAAGATGACCACATCACTTCTTTAACCCACTTCTCTATATCT
CATCAGGAAGGCAGATTTGG
Found at i:13217 original size:37 final size:37
Alignment explanation
Indices: 13167--13273 Score: 160
Period size: 37 Copynumber: 2.9 Consensus size: 37
13157 CATTTCATCG
*
13167 ATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGA
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
*
13204 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGG
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
* * * *
13241 ATTTTGTTCACTTCTCTGCATCTCGTCAGGAAG
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAG
13274 CTGACCACTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (37 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGA
Found at i:13350 original size:197 final size:199
Alignment explanation
Indices: 13012--13610 Score: 720
Period size: 197 Copynumber: 3.0 Consensus size: 199
13002 CACTTTTTTA
* * * *
13012 ATCCACTTCTTTGTATCTCATCAGGAAGGCAGATTTGGTCCACTTCTCTGTATCTCATTAGGAAG
1 ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAG
* * * *
13077 ATGACCACTTTATTGCTTTGACCCACTTCTCTA-TATCTCATCAGGAATATAGGGTTTGAAGTCT
66 ATGACCAC-TTATTGCTTTGACCCACTTCTC-AGTATCTCATCAGAAAGATGGGGTTTGAAGTTT
* * *
13141 CATTCGTATTGAGCTTCATTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGA-A
129 CATTCATATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGATA
13205 T-TTG-
194 TCTTGT
* * * * * *
13209 GTCCACTTCTCTGTATCTCATCAGGAAGATGGATTTTGTTCACTTCTCTGCATCTCGTCAGGAAG
1 ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAG
* * *
13274 CTGACCACTTATTGCTTTAACCCATTTCTCAGTATCTCATCAGAAAGATCGGGGTTTGAAGTTTC
66 ATGACCACTTATTGCTTTGACCCACTTCTCAGTATCTCATCAGAAAGAT-GGGGTTTGAAGTTTC
13339 ATTCATATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGATTG
130 ATTCATATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGA-T-
13404 CATCACTTGTTTT
193 -AT--CTTG---T
* * * * *
13417 AATCCGCTTCTCTGTATCTCATTAGAAAAACGGATTTGGTCCACTTCTCTGTATCTCATCATGAA
1 -ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAA
** * * *
13482 GATGACCGTTGTATTGCTTTGACCCACTTCTTAGTATCTCATCATAAAGATAGGGGTTCGAAGTT
65 GATGACCACT-TATTGCTTTGACCCACTTCTCAGTATCTCATCAGAAAGAT-GGGGTTTGAAGTT
* * * * * *
13547 TCACTCACATTGAGCTTCGCTTCATCAATTTGGTGTACTTCTTTGTATCTCATCAAGAAGATGA
128 TCATTCATATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGA
13611 CCGCATCACT
Statistics
Matches: 341, Mismatches: 46, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
195 1 0.00
196 35 0.10
197 134 0.39
201 2 0.01
204 3 0.01
209 60 0.18
210 106 0.31
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (199 bp):
ATCCACTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAG
ATGACCACTTATTGCTTTGACCCACTTCTCAGTATCTCATCAGAAAGATGGGGTTTGAAGTTTCA
TTCATATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGATATC
TTGT
Found at i:13580 original size:210 final size:209
Alignment explanation
Indices: 13214--13693 Score: 618
Period size: 210 Copynumber: 2.3 Consensus size: 209
13204 ATTTGGTCCA
* * * * * * *
13214 CTTCTCTGTATCTCATCAGGAAGATGGATTTTGTTCACTTCTCTGCATCTCGTCAGGAAGCTGAC
1 CTTCTCTGTATCTCATCAGAAAAACGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAGATGAC
* * * *
13279 CACTTATTGCTTTAACCCATTTCTCAGTATCTCATCAGAAAGATCGGGGTTTGAAGTTTCATTCA
66 CACTTATTGCTTTAACCCACTTCTCAGTATCTCATCAGAAAGATAGGGGTTCGAAGTTTCACTCA
* * * **
13344 TATTGAGCTTCGTTTCATCGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGATTGCATCA
131 CATTGAGCTTCGCTTCATCAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCATCA
*
13409 CTTGTTTTAATCCG
196 CTGGTTTTAATCCG
* * *
13423 CTTCTCTGTATCTCATTAGAAAAACGGATTTGGTCCACTTCTCTGTATCTCATCATGAAGATGAC
1 CTTCTCTGTATCTCATCAGAAAAACGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAGATGAC
** * * *
13488 CGTTGTATTGCTTTGACCCACTTCTTAGTATCTCATCATAAAGATAGGGGTTCGAAGTTTCACTC
66 CACT-TATTGCTTTAACCCACTTCTCAGTATCTCATCAGAAAGATAGGGGTTCGAAGTTTCACTC
* *
13553 ACATTGAGCTTCGCTTCATCAATTTGGTGTACTTCTTTGTATCTCATCAAGAAGATGACCGCATC
130 ACATTGAGCTTCGCTTCATCAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCATC
*
13618 ACTGGTTTTAATCTG
195 ACTGGTTTTAATCCG
* * * * * * * * *
13633 CTTCTCTATATCTCATCAGGAAGATGAATTTGGTTCGCTTCTCTGCATTTCGTCAGGAAGA
1 CTTCTCTGTATCTCATCAGAAAAACGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAGA
13694 CAACTTTATT
Statistics
Matches: 230, Mismatches: 40, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
209 57 0.25
210 173 0.75
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (209 bp):
CTTCTCTGTATCTCATCAGAAAAACGGATTTGGTCCACTTCTCTGCATCTCATCAGGAAGATGAC
CACTTATTGCTTTAACCCACTTCTCAGTATCTCATCAGAAAGATAGGGGTTCGAAGTTTCACTCA
CATTGAGCTTCGCTTCATCAATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGACCGCATCA
CTGGTTTTAATCCG
Found at i:13923 original size:99 final size:99
Alignment explanation
Indices: 13782--14467 Score: 311
Period size: 99 Copynumber: 7.0 Consensus size: 99
13772 TTTTCTTAAG
* * * * * *
13782 GTACTGGGTTTGCTGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTGCCAGATTCGCTAT
1 GTACTGGGTTTGCCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCAT
**
13847 TGTAGCCTCAATCCTTT-CCATCACATCTTCTAAA
66 TACAGCCTCAA-CCTTTCCCATCACATCTTCTAAA
* * * * * * *
13881 GTACTGGGTTCGCCGTTACAGCCTCAACCTTTCCTTTGATATCTTTATGGTACCGGGTTCACCGT
1 GTACTGGGTTTGCCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCAT
* * *
13946 TACGGCCTTAACCTTTCCCATCACATCTTCTAAG
66 TACAGCCTCAACCTTTCCCATCACATCTTCTAAA
* * * * ** * *
13980 GTACCGGGTTTGCCGTTATAGCCTCAACCTTTCCCTTCAAATATTCATGGTACTGGATTCATCGT
1 GTACTGGGTTTGCCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCAT
* * * * **
14045 TACGGCCTAAACCTTTCCTATCACA-ATTC-ATG
66 TACAGCCTCAACCTTTCCCATCACATCTTCTAAA
* * * * * * * * * **
14077 GTACTGGATTCGCCGTTGC-GACCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCATT
1 GTACTGGGTTTGCCGTTACAG-CCTCAACCTTTCCCTTCATATCTTC-ATGGTACCAGATTCACC
* * * * * *
14141 GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCGT--G
64 ATTACAGCCTCAACCTTTCCCATCACATCTTC-TAAA
* * * * * * * * *
14176 GTA-TCGGATT-CACTGTTGC-GACCTCAATCTTTTCCATCACATCTTC-TGAGGTACCGGGTTC
1 GTACTGGGTTTGC-C-GTTACAG-CCTCAACCTTTCCCTTCATATCTTCAT--GGTACCAGATTC
* * ** * * **
14237 GCCGTCGC-GACCTCAACCTTTCCCTTCAAATCTTC-ATG
61 ACCATTACAG-CCTCAACCTTTCCCATCACATCTTCTAAA
* * *** * * * * *
14275 GTACCGGGTTCGCCGTTGTGGCCTTAACCTTTCCCATCATAT-TTTATAGTACTAGATTCACCAT
1 GTACTGGGTTTGCCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCAT
* * * * * *
14339 TGCAACCTTAATCC-TTCCAATCACGTCTTCTAAG
66 TACAGCCTCAA-CCTTTCCCATCACATCTTCTAAA
* * * * * * * * * **
14373 GTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCACTGT
1 GTACTGGGTTTGCCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCAT
* * *
14438 TACAGCCTCAAACTTTCCCTTCAAATCTTC
66 TACAGCCTCAACCTTTCCCATCACATCTTC
14468 ATGTTTCCTT
Statistics
Matches: 458, Mismatches: 107, Indels: 44
0.75 0.18 0.07
Matches are distributed among these distances:
96 1 0.00
97 68 0.15
98 92 0.20
99 291 0.64
100 5 0.01
101 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (99 bp):
GTACTGGGTTTGCCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCACCAT
TACAGCCTCAACCTTTCCCATCACATCTTCTAAA
Found at i:14083 original size:48 final size:50
Alignment explanation
Indices: 13851--14456 Score: 354
Period size: 49 Copynumber: 12.3 Consensus size: 50
13841 CGCTATTGTA
* ** * * *
13851 GCCTCAATCCTTT-CCATCACATCTTCTAAAGTACTGGGTTCGCCGTTACA
1 GCCTCAA-CCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
** * * *
13901 GCCTCAACCTTTCCTTTGATATCTT-TATGGTACCGGGTTCACCGTTACG
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * ** **
13950 GCCTTAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTTGCCGTTATA
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * *
14000 GCCTCAACCTTTCCCTTCAAATATTC-ATGGTACTGGATTCATCGTTACG
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * * *
14049 GCCTAAACCTTTCCTATCACA-ATTC-ATGGTACTGGATTCGCCGTTGCG
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * ** *
14097 ACCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCATTGTTGCG
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * * * * *
14147 GCCTCAACCTTTCCCTTCAAATCTTC-GTGGTATCGGATTCACTGTTGCG
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * * **
14196 ACCTCAATCTTTTCCATCACATCTTCTGA-GGTACCGGGTTCGCCGTCGCG
1 GCCTCAACCTTTCCCATCACATATTCT-ATGGTACCGGGTTCACCGTTACG
* * * * * **
14246 ACCTCAACCTTTCCCTTCAAATCTTC-ATGGTACCGGGTTCGCCGTTGTG
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * ** * * * *
14295 GCCTTAACCTTTCCCAT--CATATTTTATAGTACTAGATTCACCATTGCA
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * * * * * *
14343 ACCTTAATCC-TTCCAATCACGTCTTCTAAGGTACCGGGTTCGCAGTTGCG
1 GCCTCAA-CCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
* * * * * *
14393 GCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATCGGGTTCACTGTTACA
1 GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
*
14442 GCCTCAAACTTTCCC
1 GCCTCAACCTTTCCC
14457 TTCAAATCTT
Statistics
Matches: 428, Mismatches: 116, Indels: 25
0.75 0.20 0.04
Matches are distributed among these distances:
47 4 0.01
48 69 0.16
49 186 0.43
50 169 0.39
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.33
Consensus pattern (50 bp):
GCCTCAACCTTTCCCATCACATATTCTATGGTACCGGGTTCACCGTTACG
Found at i:14127 original size:147 final size:144
Alignment explanation
Indices: 13927--14470 Score: 502
Period size: 147 Copynumber: 3.7 Consensus size: 144
13917 TGATATCTTT
* * * * * **
13927 ATGGTACCGGGTTCACCGTTACGGCCTTAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTTG
1 ATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTC-AAGGTACCGGGTTCA
* * * * *
13992 CCGTTATAGCCTCAACCTTTCCCTTCAAATATTCATGGTACTGGATTCATCGTTACGGCCTAAAC
65 CCGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGATTCA-CGTTGCGACCTAATC
*
14057 CTTTCCTATCACAATTC
129 CTTTCC-ATCACACTTC
* * * *
14074 ATGGTACTGGATTCGCCGTTGCGACCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCA
1 ATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTC-AAGGTACCGGGTTCA
** * * *
14139 TTGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCGTGGTA-TCGGATTCACTGTTGCGACCTCAA
65 CCGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACT-GGATTCAC-GTTGCGACCT-AA
*
14203 TCTTTTCCATCACATCTTC
127 TCCTTTCCATCACA-CTTC
* * *
14222 -TGAGGTACCGGGTTCGCCGTCGCGACCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTC
1 AT--GGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTCAAGGTACCGGGTTC
* *** * * * * * * * *
14286 GCCGTTGTGGCCTTAACCTTTCCCATCATAT-TTTATAGTACTAGATTCACCATTGCAACCTTAA
64 ACCGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGATTCA-CGTTGCGACC-TAA
*
14350 TCC-TTCCAATCACGTCTTC
127 TCCTTTCC-ATCAC-ACTTC
* * * * * *
14369 TAAGGTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCA
1 -ATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTCAAGGTACCGGGTTCA
* *
14434 CTGTTACAGCCTCAAACTTTCCCTTCAAATCTTCATG
65 CCGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATG
14471 TTTCCTTGGC
Statistics
Matches: 324, Mismatches: 59, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
146 6 0.02
147 222 0.69
148 55 0.17
149 41 0.13
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (144 bp):
ATGGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCATCAAATCTTCAAGGTACCGGGTTCAC
CGTTACAGCCTCAACCTTTCCCTTCAAATCTTCATGGTACTGGATTCACGTTGCGACCTAATCCT
TTCCATCACACTTC
Found at i:14259 original size:246 final size:246
Alignment explanation
Indices: 13852--14467 Score: 734
Period size: 246 Copynumber: 2.5 Consensus size: 246
13842 GCTATTGTAG
* * * * * *
13852 CCTCAATCCTTT-CCATCACATCTTCTAAAGTACTGGGTTCGCCGTTACAGCCTCAACCTTTCCT
1 CCTCAAT-CTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCC
* * * * * * *
13916 TTGATATCTTTATGGTACCGGGTTCACCGTTACGGCCTTAACCTTTCCCATCACATCTTCTAAGG
65 TTCAAATCTTCATGGTATCGGGTTCACTGTTACGACCTCAACCTTTCCCATCACATCTTCTAAGG
* * * * *
13981 TACCGGGTTTGCCGTTATAGCCTCAACCTTTCCCTTCAAATATTCATGGTACTGGATTCATCGTT
130 TACCGGGTTCGCCGTGAGAGCCTCAACCTTTCCCTTCAAATATTCATGGTACCGGATTCACCGTT
* * * * * *
14046 ACGGCCTAAACCTTTCCTATCACAATTCATGGTACTGGATTCGCCGTTGCGA
195 ACGGCCTAAACCTTTCCCATCACAATTCATAGTACTAGATTCACCATTGCAA
***
14098 CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCATTGTTGCGGCCTCAACCTTTCCCT
1 CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCCT
* * * * * *
14163 TCAAATCTTCGTGGTATCGGATTCACTGTTGCGACCTCAATCTTTTCCATCACATCTTCTGAGGT
66 TCAAATCTTCATGGTATCGGGTTCACTGTTACGACCTCAACCTTTCCCATCACATCTTCTAAGGT
* * * *
14228 ACCGGGTTCGCCGTCGCGA-CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGCCGTT
131 ACCGGGTTCGCCGT-GAGAGCCTCAACCTTTCCCTTCAAATATTCATGGTACCGGATTCACCGTT
** * * * *
14292 GTGGCCTTAACCTTTCCCATCATATTTTATAGTACTAGATTCACCATTGCAA
195 ACGGCCTAAACCTTTCCCATCACAATTCATAGTACTAGATTCACCATTGCAA
* * * *
14344 CCTTAATCCTTCCAATCACGTCTTCTAAGGTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCCT
1 CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCCT
* * *
14409 TCAAATCTTCATGGTATCGGGTTCACTGTTAC-AGCCTCAAACTTTCCCTTCAAATCTTC
66 TCAAATCTTCATGGTATCGGGTTCACTGTTACGA-CCTCAACCTTTCCCATCACATCTTC
14468 ATGTTTCCTT
Statistics
Matches: 311, Mismatches: 56, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
245 5 0.02
246 305 0.98
247 1 0.00
ACGTcount: A:0.20, C:0.31, G:0.16, T:0.34
Consensus pattern (246 bp):
CCTCAATCTTTCCCATCACATCTTCTAAGGTACCGGGTTCGCAGTTGCGGCCTCAACCTTTCCCT
TCAAATCTTCATGGTATCGGGTTCACTGTTACGACCTCAACCTTTCCCATCACATCTTCTAAGGT
ACCGGGTTCGCCGTGAGAGCCTCAACCTTTCCCTTCAAATATTCATGGTACCGGATTCACCGTTA
CGGCCTAAACCTTTCCCATCACAATTCATAGTACTAGATTCACCATTGCAA
Found at i:16263 original size:4 final size:4
Alignment explanation
Indices: 16254--16287 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
16244 CGTCTTGACT
*
16254 TTTC TTTC TTTTC TTTC TTTC TTTC TTTT TTTC T
1 TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC T
16288 CGTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:16266 original size:9 final size:9
Alignment explanation
Indices: 16252--16287 Score: 58
Period size: 8 Copynumber: 4.2 Consensus size: 9
16242 TTCGTCTTGA
16252 CTTTTCTTT
1 CTTTTCTTT
16261 CTTTTCTTT
1 CTTTTCTTT
16270 C-TTTCTTT
1 CTTTTCTTT
16278 CTTTT-TTT
1 CTTTTCTTT
16286 CT
1 CT
16288 CGTTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 13 0.50
9 13 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
CTTTTCTTT
Found at i:16274 original size:17 final size:16
Alignment explanation
Indices: 16254--16287 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
16244 CGTCTTGACT
16254 TTTCTTTCTTTTCTTTC
1 TTTCTTTCTTTT-TTTC
16271 TTTCTTTCTTTTTTTC
1 TTTCTTTCTTTTTTTC
16287 T
1 T
16288 CGTTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTCTTTTTTTC
Found at i:21233 original size:30 final size:29
Alignment explanation
Indices: 21172--21489 Score: 291
Period size: 30 Copynumber: 10.8 Consensus size: 29
21162 TTTCTGAGAA
* ** *
21172 TTTATGGTCAAAACATAATTTTGG-GAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
21200 TTTAAGGGTTAAAATGTAATTTTGGGAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
*
21230 TTTA-GGTCAAAATGTGATTTTGGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* * *
21258 TTTAAGGGTTAAAATGTGATTTT-AAGAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGA-AAAG
* **
21288 TTTAGGGTCAAAATGTTATTTCAGAAAAG
1 TTTAGGGTCAAAATGTAATTTTGGAAAAG
* *
21317 TTTAGGGGTCAAAGTATAATTTTGGAAAAG
1 TTTA-GGGTCAAAATGTAATTTTGGAAAAG
* *
21347 TTTAAGGGTTAAAATGTGATTTTGGAAAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
* * * * *
21377 TTTGGGTGTTAAAATGCAATTTTAGAGAAG
1 TTTAGG-GTCAAAATGTAATTTTGGAAAAG
* *
21407 TTTAGGTGTCAAAATATAATTTTAGAAAAG
1 TTTAGG-GTCAAAATGTAATTTTGGAAAAG
** *
21437 TTTGAGGGTCAAAATACAATTTTGGATAAG
1 TTT-AGGGTCAAAATGTAATTTTGGAAAAG
*
21467 TTTAGGGTCAAAATATAATTTTG
1 TTTAGGGTCAAAATGTAATTTTG
21490 TGAAGGTACG
Statistics
Matches: 243, Mismatches: 37, Indels: 19
0.81 0.12 0.06
Matches are distributed among these distances:
28 27 0.11
29 65 0.27
30 147 0.60
31 4 0.02
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:21508 original size:59 final size:60
Alignment explanation
Indices: 21387--21510 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 60
21377 TTTGGGTGTT
* ** *
21387 AAAATGCAATTTTAGAGAAGTTTAGGTGTCAAAATATAATTTTAGAAAAGTTTGAGGGTC
1 AAAATACAATTTTAGAGAAGTTTAGGTGTCAAAATATAATTTTAGAAAAGTACGAGGATC
* * * *
21447 AAAATACAATTTTGGATAAGTTTAGG-GTCAAAATATAATTTT-GTGAAGGTACGAGGATC
1 AAAATACAATTTTAGAGAAGTTTAGGTGTCAAAATATAATTTTAG-AAAAGTACGAGGATC
21506 AAAAT
1 AAAAT
21511 GTGATTTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 1 0.02
59 31 0.56
60 23 0.42
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (60 bp):
AAAATACAATTTTAGAGAAGTTTAGGTGTCAAAATATAATTTTAGAAAAGTACGAGGATC
Found at i:21518 original size:59 final size:59
Alignment explanation
Indices: 21284--21547 Score: 169
Period size: 60 Copynumber: 4.4 Consensus size: 59
21274 TGATTTTAAG
* * * * * *
21284 AAAGTTTAGGGTCAAAATGTTATTTCAGAAAAGTTTA-G-GGGTCAAAGTATAATTTTGGA
1 AAAGTTTAGGGTCAAAATATAATTTTAGAAAAG--TACGAGGATCAAAATACAATTTTGGA
* * * * ** * * * *
21343 AAAGTTTAAGGGTTAAAATGTGATTTTGGAAAAGTTTG-GGTGTTAAAATGCAATTTTAGA
1 AAAGTTT-AGGGTCAAAATATAATTTTAGAAAAGTACGAGG-ATCAAAATACAATTTTGGA
* ** *
21403 GAAGTTTAGGTGTCAAAATATAATTTTAGAAAAGTTTGAGGGTCAAAATACAATTTTGGA
1 AAAGTTTAGG-GTCAAAATATAATTTTAGAAAAGTACGAGGATCAAAATACAATTTTGGA
* * * *** *
21463 TAAGTTTAGGGTCAAAATATAATTTT-GTGAAGGTACGAGGATCAAAATGTGATTTTGAA
1 AAAGTTTAGGGTCAAAATATAATTTTAG-AAAAGTACGAGGATCAAAATACAATTTTGGA
* *
21522 AAAG-TTCGGGATCAAAATATAGTTTT
1 AAAGTTTAGGG-TCAAAATATAATTTT
21548 TAAACAAAAC
Statistics
Matches: 167, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
58 7 0.04
59 68 0.41
60 90 0.54
61 2 0.01
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (59 bp):
AAAGTTTAGGGTCAAAATATAATTTTAGAAAAGTACGAGGATCAAAATACAATTTTGGA
Found at i:21547 original size:29 final size:30
Alignment explanation
Indices: 21415--21547 Score: 110
Period size: 30 Copynumber: 4.5 Consensus size: 30
21405 AGTTTAGGTG
* *
21415 TCAAAATATAATTTT-AGAAAAGTTTGAGGG
1 TCAAAATATAATTTTGA-AAAAGTTCGAGGA
* * * * *
21445 TCAAAATACAATTTTGGATAAGTT-TAGGG
1 TCAAAATATAATTTTGAAAAAGTTCGAGGA
** * *
21474 TCAAAATATAATTTTGTGAAGGTACGAGGA
1 TCAAAATATAATTTTGAAAAAGTTCGAGGA
* *
21504 TCAAAATGTGATTTTGAAAAAGTTCG-GGA
1 TCAAAATATAATTTTGAAAAAGTTCGAGGA
*
21533 TCAAAATATAGTTTT
1 TCAAAATATAATTTT
21548 TAAACAAAAC
Statistics
Matches: 80, Mismatches: 21, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
29 37 0.46
30 43 0.54
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (30 bp):
TCAAAATATAATTTTGAAAAAGTTCGAGGA
Done.