Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009117.1 Hibiscus syriacus cultivar Beakdansim tig00112604_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: 576650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:10921 original size:10 final size:10
Alignment explanation
Indices: 10905--10952 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
10895 GCTTGAAGAG
10905 AAAAGAAAAA
1 AAAAGAAAAA
*
10915 GAAAGAAAAA
1 AAAAGAAAAA
10925 AAAAGAGAAAA
1 AAAAGA-AAAA
*
10936 AAAAG-AGAA
1 AAAAGAAAAA
10945 AAAAGAAA
1 AAAAGAAA
10953 GGGGGTCAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 8 0.25
10 15 0.47
11 9 0.28
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:10924 original size:11 final size:11
Alignment explanation
Indices: 10906--10953 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
10896 CTTGAAGAGA
10906 AAAG-AAAAAG
1 AAAGAAAAAAG
10916 AAAGAAAAAA-
1 AAAGAAAAAAG
*
10926 AAAGAGAAAAAA
1 AAAGA-AAAAAG
10938 AAGAGAAAAAAG
1 AA-AGAAAAAAG
10950 AAAG
1 AAAG
10954 GGGGTCAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.27
11 12 0.36
12 9 0.27
13 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:11282 original size:16 final size:16
Alignment explanation
Indices: 11261--11300 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11251 ATACAATTCT
*
11261 ATTTATTTCAAG-TTCA
1 ATTTATTT-AAGAGTCA
11277 ATTTATTTAAGAGTCA
1 ATTTATTTAAGAGTCA
11293 ATTTATTT
1 ATTTATTT
11301 TGGAAATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTATTTAAGAGTCA
Found at i:12386 original size:84 final size:84
Alignment explanation
Indices: 12048--12470 Score: 701
Period size: 84 Copynumber: 5.2 Consensus size: 84
12038 ATATCTTAGT
12048 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA-
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
12111 -TGATCTGATTTGGCAGAA
66 CTGATCTGATTTGGCAGAA
12129 CCAATCATTGAATTTGGAAGATGAA-TTGC-CAATAGCATCTTCTGGAA--GTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
12190 CTGA--TGATTTGGCAGAA
66 CTGATCTGATTTGGCAGAA
*
12207 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATC--ATGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
12270 CTGATCTGATTTGGCAGAA
66 CTGATCTGATTTGGCAGAA
12289 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
12354 CTGATCTGATTTGGCAGAA
66 CTGATCTGATTTGGCAGAA
12373 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTT-TGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
12437 CTAATCT-AGTTGGACAGAA
66 CTGATCTGATTTGG-CAGAA
*
12456 CCAATCGTTGGAATT
1 CCAATCATT-GAATT
12471 AAAAGATGAA
Statistics
Matches: 325, Mismatches: 5, Indels: 21
0.93 0.01 0.06
Matches are distributed among these distances:
78 56 0.17
79 4 0.01
80 53 0.16
81 25 0.08
82 59 0.18
83 40 0.12
84 88 0.27
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (84 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGATTTGGCAGAA
Found at i:12407 original size:166 final size:161
Alignment explanation
Indices: 12048--12470 Score: 685
Period size: 166 Copynumber: 2.6 Consensus size: 161
12038 ATATCTTAGT
*
12048 CCAATCATTGAATTTGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA-
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATC-TATGGAAGTGTTCTTTGAGTTAT
12111 -TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTGCCAATAGCATCTTCTGGA
65 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTGCCAATAGCATCTTCTGGA
12175 AGTTCTTTGAGTTATCTGATGATTTGGCAGAA
130 AGTTCTTTGAGTTATCTGATGATTTGGCAGAA
12207 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATC-ATGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTATGGAAGTGTTCTTTGAGTTATC
12271 TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGG
66 TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAA-TTGC-CAATAGCATCTTCTGG
12336 AAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAA
129 AA--GTTCTTTGAGTTATCTGA--TGATTTGGCAGAA
*
12373 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTATGGAAGTGTTCTTTGAGTTATC
* * *
12438 TAATCT-AGTTGGACAGAACCAATCGTTGGAATT
66 TGATCTGATTTGG-CAGAACCAATCATT-GAATT
12471 AAAAGATGAA
Statistics
Matches: 247, Mismatches: 5, Indels: 15
0.93 0.02 0.06
Matches are distributed among these distances:
158 20 0.08
159 30 0.12
160 53 0.21
161 4 0.02
162 18 0.07
164 18 0.07
166 59 0.24
167 40 0.16
168 5 0.02
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (161 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTATGGAAGTGTTCTTTGAGTTATC
TGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTGCCAATAGCATCTTCTGGAA
GTTCTTTGAGTTATCTGATGATTTGGCAGAA
Found at i:13252 original size:23 final size:22
Alignment explanation
Indices: 13223--13267 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
13213 GTTCATAATG
*
13223 AGAAGAACTCATCTGAAGAAGAA
1 AGAAGAACTCATATG-AGAAGAA
*
13246 AGAAGAAGTCATATGAGAAGAA
1 AGAAGAACTCATATGAGAAGAA
13268 CTTGTTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.53, C:0.09, G:0.24, T:0.13
Consensus pattern (22 bp):
AGAAGAACTCATATGAGAAGAA
Found at i:13924 original size:225 final size:224
Alignment explanation
Indices: 13097--14160 Score: 1456
Period size: 225 Copynumber: 4.8 Consensus size: 224
13087 ATTATTTTGA
13097 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG-TCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
*
13161 TTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGA-T-TTTTTCCAGAGAAAGTTCATAATGA
66 TTGTTCAACCTTTTGCTGAAATC-ATCACTTGATGGATTATTTTTCCAGAGAAAGTTCATAATGA
* * *
13224 GAAGAACTCATCTGAAGAAGAAAGAAGAAG-TCAT-ATGAGAAGAACTTGTTCAATCTTT--TGC
130 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTAAT-C
13285 TTGAATTCATCATCT-GATGGATCAACATTG-C
194 -TGAATTCATCAT-TGGATGGATCAACATTGCC
* *
13316 AGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* *
13381 TTGTTCAACCTTTTGCTCAAATCTATCACTTGATGGATTATTTTTCCAGAGAAAGCTCATAATGA
66 TTGTTCAACCTTTTGCTGAAATC-ATCACTTGATGGATTATTTTTCCAGAGAAAGTTCATAATGA
* * ** *
13446 GAAGAAACTC-T-TGAAGAA-GAAGAAG-AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTT
130 GAAG-AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTAATC
13507 TGAATTCATCATTGGATGGATCAACATTGCC
194 TGAATTCATCATTGGATGGATCAACATTGCC
*
13538 AGAGAAAG-T--TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * *
13600 TTGTTCAA-CTTTTGTTTG--AT--T--CTTGATGGATTATTTTGCC--AGAAGGTTCATAATGA
66 TTGTTCAACCTTTTG-CTGAAATCATCACTTGATGGATTATTTTTCCAGAGAAAGTTCATAATGA
*
13656 GAAGAACTCATCT--AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTAATCT
130 GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTAATCT
*
13719 GAATTCATCATTTGATGGATCAACATTGCC
195 GAATTCATCATTGGATGGATCAACATTGCC
13749 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * * *
13814 TTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATTTTTGCCAGAGAAGGCTC-TAATG
66 TTGTTCAACCTTTTG-CTGAAATCATCACTTGATGGATTATTTTT-CCAGAGAAAGTTCATAATG
*
13878 AGAAGAACTCATCTGAAGAAGGAAAGAAGAAG-TCATAATAAGAAGAATTTGTTCAACCTTTAAT
129 AGAAGAACTCATCTGAAGAAGG-AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTAAT
* * *** *
13942 CTGAATTCATCACTGGATGGATTATTTTTTCC
193 CTGAATTCATCATTGGATGGATCAACATTGCC
13974 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * * * **
14039 TTGTTCAACCTTTTACCTGAATTCATCA-AT--TGGATCAGCCTTTCCAGAG-AAGTTCATAATG
66 TTGTTCAACCTTTT-GCTGAAATCATCACTTGATGGATTA-TTTTTCCAGAGAAAGTTCATAATG
*
14100 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGTTTGTTCAACCTTT
129 AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
14161 GTTTGATGCT
Statistics
Matches: 767, Mismatches: 43, Indels: 67
0.87 0.05 0.08
Matches are distributed among these distances:
209 9 0.01
210 26 0.03
211 69 0.09
212 19 0.02
214 61 0.08
215 10 0.01
217 3 0.00
218 6 0.01
219 110 0.14
220 64 0.08
221 87 0.11
222 104 0.14
223 28 0.04
224 9 0.01
225 153 0.20
226 9 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (224 bp):
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
TTGTTCAACCTTTTGCTGAAATCATCACTTGATGGATTATTTTTCCAGAGAAAGTTCATAATGAG
AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTAATCTG
AATTCATCATTGGATGGATCAACATTGCC
Found at i:14157 original size:109 final size:110
Alignment explanation
Indices: 13097--14160 Score: 1277
Period size: 109 Copynumber: 9.7 Consensus size: 110
13087 ATTATTTTGA
13097 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG-TCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* *
13161 TTGTTCAACCTTTTG-CTCAAATCTATCACTTGATGGAT--TTTTTCC
66 TTGTTCAACCTTTTGTCTGAATTC-ATCA-TTG-TGGATCATTTTTCC
* *
13206 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAG-TCAT-ATGAGAAGAAC
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* *** *
13269 TTGTTCAATCTTTTG-CTTGAATTCATCATCTGATGGATCAACATTGC
66 TTGTTCAACCTTTTGTC-TGAATTCATCAT-TG-TGGATCATTTTTCC
* *
13316 AGGGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * *
13381 TTGTTCAACCTTTTG-CTCAAATCTATCACTTGATGGATTATTTTTCC
66 TTGTTCAACCTTTTGTCTGAATTC-ATCA-TTG-TGGATCATTTTTCC
*
13428 AGAGAAAGCTCATAATGAGAAGAAACTC-T-TGAAGAA-GAAGAAG-AGTTCATAATGAGAAGAA
1 AGAGAAAGTTCATAATGAGAAG-AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
* * * ** *
13489 CTTGTTCAACTTTTTGTTTGAATTCATCATTGGATGGATCAACATTGCC
65 TTTGTTCAACCTTTTGTCTGAATTCATCATT-G-TGGATC-ATTTTTCC
*
13538 AGAGAAAG-T--TAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* * *
13600 TTGTTCAA-CTTTTGTTTG-A-T--TC-TTGATGGATTATTTTGCC
66 TTGTTCAACCTTTTGTCTGAATTCATCATTG-TGGATCATTTTTCC
* *
13640 --AGAAGGTTCATAATGAGAAGAACTCATCT--AGAAGGAAGAAGAAGTTCATAATAAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
** ** *
13701 TTGTTCAACCTTTAATCTGAATTCATCATTTGATGGATCAACATTGCC
66 TTGTTCAACCTTTTGTCTGAATTCATCA-TTG-TGGATC-ATTTTTCC
13749 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
* *
13814 TTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATTTTTGCC
66 TTGTTCAACCTTTTGTCTGAATTCATCA-TTG-TGGATCATTTTT-CC
* * *
13862 AGAGAAGGCTC-TAATGAGAAGAACTCATCTGAAGAAGGAAAGAAGAAG-TCATAATAAGAAGAA
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AAGAAGAAGTTCATAATGAGAAGAA
** * *
13925 TTTGTTCAACCTTTAATCTGAATTCATCACTGGATGGATTATTTTTTCC
65 TTTGTTCAACCTTTTGTCTGAATTCATCA-TTG-TGGATCA-TTTTTCC
13974 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
** * **
14039 TTGTTCAACCTTTTACCTGAATTCATCAAT-TGGATCAGCCTTTCC
66 TTGTTCAACCTTTTGTCTGAATTCATCATTGTGGATCA-TTTTTCC
*
14084 AGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
14148 TTGTTCAACCTTT
66 TTGTTCAACCTTT
14161 GTTTGATGCT
Statistics
Matches: 844, Mismatches: 75, Indels: 72
0.85 0.08 0.07
Matches are distributed among these distances:
100 5 0.01
101 39 0.05
102 13 0.02
103 27 0.03
104 3 0.00
105 2 0.00
106 7 0.01
107 13 0.02
108 56 0.07
109 194 0.23
110 115 0.14
111 44 0.05
112 162 0.19
113 164 0.19
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (110 bp):
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
TTGTTCAACCTTTTGTCTGAATTCATCATTGTGGATCATTTTTCC
Found at i:14485 original size:3 final size:3
Alignment explanation
Indices: 14477--14542 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
14467 ACCCATATCA
*
14477 TAT TAT TAT TA- TAT TAT TAT TA- TAT T-T ATAT ACAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT
*
14521 TAT CAT TAT TA- TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
14543 AATATATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 7 0.13
3 43 0.80
4 4 0.07
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:14557 original size:47 final size:46
Alignment explanation
Indices: 14481--14572 Score: 125
Period size: 44 Copynumber: 2.0 Consensus size: 46
14471 ATATCATATT
*
14481 ATTATTATATTATTATTATATTTATATACAT-TAT-TATTATTATC
1 ATTATTATATTATTATTATATTTAAATACATATATATATTATTATC
14525 ATTATTATATTATTATTAAATATATTAAATACATATATAATATTATTA
1 ATTATTATATTATTATT--ATAT-TTAAATACATATAT-ATATTATTA
14573 AAAAAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
44 17 0.41
46 4 0.10
47 9 0.22
48 3 0.07
50 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (46 bp):
ATTATTATATTATTATTATATTTAAATACATATATATATTATTATC
Found at i:18906 original size:28 final size:28
Alignment explanation
Indices: 18823--18908 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 28
18813 CTAAAATATT
* * * *
18823 TTTTTGATCAAAATAAGTACGTAAACTT
1 TTTTTAATCAAAATAAGTACCTAAAGTA
* *
18851 TTTTTTATCAAAATAAATACCTAAAGTA
1 TTTTTAATCAAAATAAGTACCTAAAGTA
*
18879 TTTTTAATCAAAATAAGTACCTACAGTA
1 TTTTTAATCAAAATAAGTACCTAAAGTA
18907 TT
1 TT
18909 CAATTTTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.40
Consensus pattern (28 bp):
TTTTTAATCAAAATAAGTACCTAAAGTA
Found at i:19049 original size:29 final size:29
Alignment explanation
Indices: 19001--19080 Score: 124
Period size: 29 Copynumber: 2.7 Consensus size: 29
18991 AATACTTTGG
19001 GTACCTATTTTTTGACCAAAAAATATTTTAA
1 GTACCTA--TTTTGACCAAAAAATATTTTAA
19032 GTACCTATTTTGACCAAAAAATATTTTAA
1 GTACCTATTTTGACCAAAAAATATTTTAA
* *
19061 GTACATATTTTAACCAAAAA
1 GTACCTATTTTGACCAAAAA
19081 GATAAATTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 40 0.85
31 7 0.15
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (29 bp):
GTACCTATTTTGACCAAAAAATATTTTAA
Found at i:22771 original size:12 final size:14
Alignment explanation
Indices: 22754--22790 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
22744 AGAGATGGAT
22754 GCTGCTGCAAA-A-
1 GCTGCTGCAAAGAG
22766 GCTGCTGCACAAGAG
1 GCTGCTGCA-AAGAG
22781 GCTGCTGCAA
1 GCTGCTGCAA
22791 GAAGTGCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 2 0.09
15 9 0.41
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (14 bp):
GCTGCTGCAAAGAG
Found at i:23410 original size:21 final size:21
Alignment explanation
Indices: 23384--23428 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
23374 GGCCCCTCAA
23384 GTCTTTGCCAAAAATGAACCT
1 GTCTTTGCCAAAAATGAACCT
*
23405 GTCTTTGCCAAAAATGCACCT
1 GTCTTTGCCAAAAATGAACCT
23426 GTC
1 GTC
23429 CTCACCAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (21 bp):
GTCTTTGCCAAAAATGAACCT
Found at i:24309 original size:25 final size:26
Alignment explanation
Indices: 24254--24304 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
24244 GAATTTTTTG
*
24254 TAAAACTATTTTATGTATCATATATT
1 TAAAACTATTTTATGAATCATATATT
24280 TAAAA-TATTTTAT-AAT-ATATATT
1 TAAAACTATTTTATGAATCATATATT
24303 TA
1 TA
24305 CAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 2 0.08
25 8 0.33
26 5 0.21
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
TAAAACTATTTTATGAATCATATATT
Found at i:33413 original size:16 final size:17
Alignment explanation
Indices: 33379--33411 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33369 TGGTGGTTTG
*
33379 AAAAAAACCGGTTTTTT
1 AAAAAAACCAGTTTTTT
33396 AAAAAAACCAGTTTTT
1 AAAAAAACCAGTTTTT
33412 AATCCGGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
AAAAAAACCAGTTTTTT
Found at i:35859 original size:2 final size:2
Alignment explanation
Indices: 35824--35925 Score: 73
Period size: 2 Copynumber: 51.5 Consensus size: 2
35814 TAAAAGGTAA
* * * * * *
35824 AT AT AA AT AT GT AA AT AT A- AT AT AA AT GT AT AT AT AG A- AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
35865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AC AT AT AA AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
35907 AT AT AT GT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
35926 AAAGTATGTA
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
1 2 0.03
2 73 0.96
3 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (2 bp):
AT
Found at i:37172 original size:26 final size:27
Alignment explanation
Indices: 37123--37178 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
37113 TAAGTGCCCA
37123 AAATATTTCCTTATCTAAAGCTTTTGT
1 AAATATTTCCTTATCTAAAGCTTTTGT
37150 AAATATTTCCTT-TCTAAAGCTTTTGT
1 AAATATTTCCTTATCTAAAGCTTTTGT
37176 AAA
1 AAA
37179 GATATCCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (27 bp):
AAATATTTCCTTATCTAAAGCTTTTGT
Found at i:51468 original size:77 final size:78
Alignment explanation
Indices: 51321--51473 Score: 179
Period size: 77 Copynumber: 2.0 Consensus size: 78
51311 ATATAGTAAG
* *
51321 TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTTAATTGATATTTATTTCGGAATAATTA
1 TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATTTATTTC-GAATAAATA
51386 AATAAGATTTTAAA
65 AATAAGATTTTAAA
* * * *
51400 TAAACATT-AAAGATTTTAATTTAGATTATAAGTC-TTTAA-TGTATATTTAATTT-GAATTAAA
1 TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTG-ATATTT-ATTTCGAA-TAAA
*
51461 TAAATAAGTTTTT
63 TAAATAAGATTTT
51474 TTAAATTCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
76 5 0.08
77 26 0.41
78 25 0.39
79 8 0.12
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (78 bp):
TAAACATTAAAAGAATGTAATTTAGATTACAACTCTTTTAATTGATATTTATTTCGAATAAATAA
ATAAGATTTTAAA
Found at i:60536 original size:20 final size:21
Alignment explanation
Indices: 60499--60537 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60489 ATTTGAGAGA
*
60499 AAATAGAGGGAGAGAAGGAAG
1 AAATAAAGGGAGAGAAGGAAG
60520 AAATAAAGGGA-AGAAGGA
1 AAATAAAGGGAGAGAAGGA
60538 GATAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (21 bp):
AAATAAAGGGAGAGAAGGAAG
Found at i:62042 original size:15 final size:15
Alignment explanation
Indices: 62022--62053 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
62012 TCCATGGTGA
62022 TTTGTTGAAAACATT
1 TTTGTTGAAAACATT
62037 TTTGTTGAAAACATT
1 TTTGTTGAAAACATT
62052 TT
1 TT
62054 GATATTTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
TTTGTTGAAAACATT
Found at i:62310 original size:22 final size:22
Alignment explanation
Indices: 62284--62343 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
62274 ATTGCTCAGA
62284 GGGAACCGATTCCCCCCCAAGG
1 GGGAACCGATTCCCCCCCAAGG
62306 GGGAACCGATTCCCCCCCAAGG
1 GGGAACCGATTCCCCCCCAAGG
* *
62328 GGGTACCAATTCCCCC
1 GGGAACCGATTCCCCC
62344 TGAATGGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.22, C:0.42, G:0.25, T:0.12
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCCAAGG
Found at i:67735 original size:20 final size:20
Alignment explanation
Indices: 67710--67749 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
67700 TTTTGGTGCA
*
67710 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
67730 GAGGGAACCGATTCCCCCTT
1 GAGGGAACCGATCCCCCCTT
67750 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:69584 original size:15 final size:15
Alignment explanation
Indices: 69564--69594 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
69554 AAGGGGGAGA
69564 TTGTTGAAAACATTT
1 TTGTTGAAAACATTT
69579 TTGTTGAAAACATTT
1 TTGTTGAAAACATTT
69594 T
1 T
69595 GATATTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (15 bp):
TTGTTGAAAACATTT
Found at i:78705 original size:32 final size:32
Alignment explanation
Indices: 78669--78761 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 32
78659 TGTTGCATAG
* *
78669 TAGAGTCAATGTTGCATTTAGATAATTCACAA
1 TAGAGTCAATGTTGCATTTAAATAATGCACAA
* *
78701 TAGAGTCAATGTTGCATTCACATAATGCACAA
1 TAGAGTCAATGTTGCATTTAAATAATGCACAA
* **
78733 CA-AGATCTCTGTTGCATTTAAATAATGCA
1 TAGAG-TCAATGTTGCATTTAAATAATGCA
78762 TAAAAGTGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 2 0.04
32 50 0.96
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (32 bp):
TAGAGTCAATGTTGCATTTAAATAATGCACAA
Found at i:95854 original size:17 final size:16
Alignment explanation
Indices: 95830--95872 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
95820 AACAAAATAA
95830 AGAAAAAAAATTATTT
1 AGAAAAAAAATTATTT
95846 AGAAAAAAAATTATTT
1 AGAAAAAAAATTATTT
95862 AGAAAAAAAAT
1 AGAAAAAAAAT
95873 ATATCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (16 bp):
AGAAAAAAAATTATTT
Found at i:95905 original size:18 final size:18
Alignment explanation
Indices: 95878--95913 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95868 AAAATATATC
95878 TTTTTGGTATAAATTTAA
1 TTTTTGGTATAAATTTAA
* *
95896 TTTTTTGTATAGATTTAA
1 TTTTTGGTATAAATTTAA
95914 AACTATGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (18 bp):
TTTTTGGTATAAATTTAA
Found at i:96510 original size:33 final size:32
Alignment explanation
Indices: 96444--96513 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
96434 TAAAAAATAA
* **
96444 AAATATTTAAAATTATAAATAAAAAATTATTC
1 AAATATTCAAAATTATAAATAAAAAAACATTC
96476 AAATATTCAAAA-TATAAATATAAAAAACACTTC
1 AAATATTCAAAATTATAAATA-AAAAAACA-TTC
96509 AAATA
1 AAATA
96514 AAAATTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 8 0.24
32 17 0.52
33 8 0.24
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (32 bp):
AAATATTCAAAATTATAAATAAAAAAACATTC
Found at i:96691 original size:13 final size:13
Alignment explanation
Indices: 96652--96691 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
96642 TTTTAAAAAG
96652 ATATATTATACATA
1 ATATA-TATACATA
*
96666 ATATATACACATA
1 ATATATATACATA
*
96679 ATATATATGCATA
1 ATATATATACATA
96692 TCATCAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATATATACATA
Found at i:96777 original size:25 final size:25
Alignment explanation
Indices: 96720--96788 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
96710 AGTAATTTTA
*
96720 TTGGATTAATCGAAATTTACAAAAT
1 TTGGATTACTCGAAATTTACAAAAT
** * * *
96745 TTAAATTACTTGAGATTTACAAATT
1 TTGGATTACTCGAAATTTACAAAAT
*
96770 TTGGATTACTCTAAATTTA
1 TTGGATTACTCGAAATTTA
96789 TTATGTATTC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (25 bp):
TTGGATTACTCGAAATTTACAAAAT
Found at i:96911 original size:25 final size:26
Alignment explanation
Indices: 96873--96921 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
96863 ATATAATTAG
* *
96873 AAAATATTATAAGTTTCGATTAATCC
1 AAAATATTATAAGTATCGACTAATCC
96899 AAAA-ATTATAAGTATCGACTAAT
1 AAAATATTATAAGTATCGACTAAT
96922 TTAATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (26 bp):
AAAATATTATAAGTATCGACTAATCC
Found at i:97189 original size:16 final size:18
Alignment explanation
Indices: 97131--97209 Score: 53
Period size: 16 Copynumber: 4.6 Consensus size: 18
97121 AATATTCAAA
97131 ATTTTTAA-TA-ATTTA-
1 ATTTTTAATTATATTTAT
* *
97146 ATTTTTATTTTTAGTATTAT
1 ATTTTTAATTATA-T-TTAT
97166 -TATTTTAATTAT-TTTA-
1 AT-TTTTAATTATATTTAT
*
97182 ATTTTTAAATATATTTAT
1 ATTTTTAATTATATTTAT
*
97200 ATTCTTAATT
1 ATTTTTAATT
97210 TAGAATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
15 7 0.15
16 10 0.21
17 9 0.19
18 10 0.21
19 4 0.08
20 8 0.17
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (18 bp):
ATTTTTAATTATATTTAT
Found at i:97220 original size:23 final size:21
Alignment explanation
Indices: 97174--97228 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 21
97164 ATTATTTTAA
97174 TTATTTTAATTTTTAAATATATT
1 TTATTTTAA--TTTAAATATATT
97197 TATATTCTTAATTTAGAATA-ATT
1 T-TATT-TTAATTTA-AATATATT
97220 TTATTTTAA
1 TTATTTTAA
97229 AAAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 9 0.31
24 8 0.28
25 4 0.14
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTTTAATTTAAATATATT
Found at i:100683 original size:12 final size:13
Alignment explanation
Indices: 100661--100699 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
100651 TTGGGATCAA
100661 TACATTTTGCATT
1 TACATTTTGCATT
100674 TACA-TTTGCATT
1 TACATTTTGCATT
*
100686 TTCATCTTTGCATT
1 TACAT-TTTGCATT
100700 CTGCATTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 4 0.17
14 8 0.35
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.54
Consensus pattern (13 bp):
TACATTTTGCATT
Found at i:101558 original size:17 final size:18
Alignment explanation
Indices: 101525--101558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101515 AACACAAAAG
*
101525 TAAATTAAACAATATTCA
1 TAAATAAAACAATATTCA
101543 TAAATAAAACAA-ATTC
1 TAAATAAAACAATATTC
101559 CAAACTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATAAAACAATATTCA
Found at i:102234 original size:66 final size:66
Alignment explanation
Indices: 102142--102270 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
102132 AGGTCCATAC
* *
102142 GGAATTACTAGTGTGTGTTGAACCTATACAAGGAATTACCAGAAACGACTGAACCTGCCAGAGAT
1 GGAATTACCAGTGTGTGCTGAACCTATACAAGGAATTACCAGAAACGACTGAACCTGCCAGAGAT
102207 A
66 A
* * **
102208 GGAATTACCAGT-TGGTGCTGAACCTATACAAGGAATTATCAGCATTGACTGAACCTGCCAGAG
1 GGAATTACCAGTGT-GTGCTGAACCTATACAAGGAATTACCAGAAACGACTGAACCTGCCAGAG
102271 TCTTCATACT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 1 0.02
66 55 0.98
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (66 bp):
GGAATTACCAGTGTGTGCTGAACCTATACAAGGAATTACCAGAAACGACTGAACCTGCCAGAGAT
A
Found at i:105656 original size:107 final size:107
Alignment explanation
Indices: 105470--105670 Score: 262
Period size: 107 Copynumber: 1.9 Consensus size: 107
105460 AATTTAATTA
* *
105470 TATATATACAATAAAAATGAGCTATTCCTCTAAAGCAATTGGTTAAAAGCCTTGACTTTATGTAT
1 TATATATAAAATAAAAATGAGCTATTCCTCTAAAGCAATTGGTTAAAAGCCTTGACTTTATGGAT
*
105535 AGATTCTTTCAGCTAGCCAAATAAAGGCAAATAATATATATG
66 AGATTCTTTCAGCTAACCAAATAAAGGCAAATAATATATATG
* * * * * * *
105577 TATATATAAAATAGAATTGAGTTGTTCCTTTAAAGTAATTGGTTAAAAG-CTATGGCTTTATGGA
1 TATATATAAAATAAAAATGAGCTATTCCTCTAAAGCAATTGGTTAAAAGCCT-TGACTTTATGGA
**
105641 TAGATTGC-TTCAGCTAACTGAATAAAGGCA
65 TAGATT-CTTTCAGCTAACCAAATAAAGGCA
105671 TATTAAATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
106 2 0.03
107 77 0.96
108 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (107 bp):
TATATATAAAATAAAAATGAGCTATTCCTCTAAAGCAATTGGTTAAAAGCCTTGACTTTATGGAT
AGATTCTTTCAGCTAACCAAATAAAGGCAAATAATATATATG
Found at i:106202 original size:25 final size:25
Alignment explanation
Indices: 106164--106299 Score: 145
Period size: 25 Copynumber: 5.4 Consensus size: 25
106154 TTAATAAAAA
106164 CTTT-ATCAAACATT-TCTCAAAATT
1 CTTTCATCAAACATTCT-TCAAAATT
*
106188 CTTTCATCAACCATTCTTCAAAAATT
1 CTTTCATCAAACATTCTTC-AAAATT
* *
106214 ATTTCATCTAACATT-TCTCAAAATT
1 CTTTCATCAAACATTCT-TCAAAATT
* *
106239 CTTTCATTAAACATTCTTCGAAATT
1 CTTTCATCAAACATTCTTCAAAATT
* *
106264 CTTTCATCAAATATTCTTTAAAATT
1 CTTTCATCAAACATTCTTCAAAATT
106289 GC-TTCATCAAA
1 -CTTTCATCAAA
106300 AAAATTTCAA
Statistics
Matches: 94, Mismatches: 12, Indels: 11
0.80 0.10 0.09
Matches are distributed among these distances:
24 4 0.04
25 67 0.71
26 23 0.24
ACGTcount: A:0.35, C:0.21, G:0.01, T:0.42
Consensus pattern (25 bp):
CTTTCATCAAACATTCTTCAAAATT
Found at i:106232 original size:51 final size:50
Alignment explanation
Indices: 106172--106271 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 50
106162 AACTTTATCA
*
106172 AACATTTCTCAAAATTCTTTCATCAACCATTCTTCAAAAATTATTTCATCT
1 AACATTTCTCAAAATTCTTTCATCAAACATTCTTC-AAAATTATTTCATCT
* * *
106223 AACATTTCTCAAAATTCTTTCATTAAACATTCTTCGAAATTCTTTCATC
1 AACATTTCTCAAAATTCTTTCATCAAACATTCTTCAAAATTATTTCATC
106272 AAATATTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 12 0.27
51 33 0.73
ACGTcount: A:0.34, C:0.23, G:0.01, T:0.42
Consensus pattern (50 bp):
AACATTTCTCAAAATTCTTTCATCAAACATTCTTCAAAATTATTTCATCT
Found at i:106730 original size:31 final size:31
Alignment explanation
Indices: 106692--106750 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
106682 GGCTAAGAAC
106692 TAAATAGTAAAAGGACCAAGGCCATCAATGT
1 TAAATAGTAAAAGGACCAAGGCCATCAATGT
* *
106723 TAAATAGTACATGGACCAAGGCCATCAA
1 TAAATAGTAAAAGGACCAAGGCCATCAA
106751 AGTAGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (31 bp):
TAAATAGTAAAAGGACCAAGGCCATCAATGT
Found at i:106924 original size:24 final size:24
Alignment explanation
Indices: 106894--106949 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
106884 GGACATATCA
106894 CATATGACACATATGGAATCATAT
1 CATATGACACATATGGAATCATAT
106918 CATATGACACATATGGAATCATAT
1 CATATGACACATATGGAATCATAT
106942 CATATGAC
1 CATATGAC
106950 TTTTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (24 bp):
CATATGACACATATGGAATCATAT
Found at i:107422 original size:231 final size:231
Alignment explanation
Indices: 107014--107487 Score: 617
Period size: 231 Copynumber: 2.1 Consensus size: 231
107004 TCATGACTAT
* * * *
107014 ACCTCCTTAACGTGAAGGAGCAATGTCATCATGAGATTTGACATCAAGAAAATCACCCAAAAGCG
1 ACCTCCTCAACGCGAAGAAGCAATGTCATCATCAGATTTGACATCAAGAAAATCACCCAAAAGCG
* * * * *
107079 ACCAGATCTCTTTAGCACGTAGGAGCGATGTCATTTTCAAAGTCAAATTAACTTTAGACAATCAA
66 ACCAGATCTCTTCAGCACATAAGAGCAATGTCATTTTCAAAGTCAAATTAACTCTAGACAATCAA
* * * * *
107144 ACTTCCTAAACGTGAAGGAACATTGTTGTCTCTGTAGGCACAATTATCCAAATATGACAAGACAT
131 ACTTCCTAAACATGAAGGAACATTGATGTCTCTATAGGCAAAATTATCCAAATACGACAAGACAT
*
107209 CCTCAACACGAAGGAACAATGTCATCTATAGGCTAG
196 CCTCAACACGAAGGAACAATGTCATCTACAGGCTAG
* * *
107245 ACCTCCTCAACGCGAATAAGCAATGTCATCATCAGATTTGACATCGAGTAAATCACCCAAAAGCG
1 ACCTCCTCAACGCGAAGAAGCAATGTCATCATCAGATTTGACATCAAGAAAATCACCCAAAAGCG
* * * * *
107310 ACTAGATCTCTTCAGCACATAAGAGCAATGTCGTTTATGAAA-TCAAATTATCTCTAGACAATTA
66 ACCAGATCTCTTCAGCACATAAGAGCAATGTCATTT-TCAAAGTCAAATTAACTCTAGACAATCA
* * * * * * *
107374 GACTTCTTCAACATGAAGGAATATTGATGTCTCTATAGGCAAAATTATCTAAATACGACTAGACG
130 AACTTCCTAAACATGAAGGAACATTGATGTCTCTATAGGCAAAATTATCCAAATACGACAAGACA
* * * **
107439 TCCTCAACAGGAAGGAATAATGTCGTCTACATTCTAG
195 TCCTCAACACGAAGGAACAATGTCATCTACAGGCTAG
107476 ACCTCCTCAACG
1 ACCTCCTCAACG
107488 TGAAATACTA
Statistics
Matches: 207, Mismatches: 35, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
231 203 0.98
232 4 0.02
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (231 bp):
ACCTCCTCAACGCGAAGAAGCAATGTCATCATCAGATTTGACATCAAGAAAATCACCCAAAAGCG
ACCAGATCTCTTCAGCACATAAGAGCAATGTCATTTTCAAAGTCAAATTAACTCTAGACAATCAA
ACTTCCTAAACATGAAGGAACATTGATGTCTCTATAGGCAAAATTATCCAAATACGACAAGACAT
CCTCAACACGAAGGAACAATGTCATCTACAGGCTAG
Found at i:108235 original size:3 final size:3
Alignment explanation
Indices: 108227--108287 Score: 113
Period size: 3 Copynumber: 20.0 Consensus size: 3
108217 TTGTGTTTGA
108227 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
108273 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
108288 AGGCTTAAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:111636 original size:26 final size:24
Alignment explanation
Indices: 111607--111667 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
111597 TCAAATATTA
* *
111607 TTAAACTTAACTCAAATTCTAAAATT
1 TTAAACTTAACTC-AACTCGAAAA-T
* *
111633 TTAAATGTTAACTCGACTCGAAAAT
1 TTAAA-CTTAACTCAACTCGAAAAT
111658 TTAAACTTAA
1 TTAAACTTAA
111668 AAACTCAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 4 0.14
25 6 0.21
26 12 0.41
27 7 0.24
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (24 bp):
TTAAACTTAACTCAACTCGAAAAT
Found at i:113150 original size:21 final size:21
Alignment explanation
Indices: 113126--113171 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
113116 TCACATAATC
*
113126 GGGTTAAGGATTTA-GTGTTTA
1 GGGTTAAGAATTTATG-GTTTA
*
113147 GGGTTTAGAATTTATGGTTTA
1 GGGTTAAGAATTTATGGTTTA
113168 GGGT
1 GGGT
113172 GTAATCTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (21 bp):
GGGTTAAGAATTTATGGTTTA
Found at i:113289 original size:7 final size:7
Alignment explanation
Indices: 113277--113438 Score: 119
Period size: 7 Copynumber: 23.3 Consensus size: 7
113267 GTGCATAACT
113277 TAAACCC
1 TAAACCC
113284 TAAACCC
1 TAAACCC
*
113291 TAAACAC
1 TAAACCC
*
113298 TAAATCC
1 TAAACCC
*
113305 TAAACCT
1 TAAACCC
**
113312 TAAACTT
1 TAAACCC
*
113319 TAAACTC
1 TAAACCC
*
113326 TAAACTC
1 TAAACCC
*
113333 TAAACCT
1 TAAACCC
*
113340 TAAACCA
1 TAAACCC
*
113347 TAATCCC
1 TAAACCC
*
113354 TAAACAC
1 TAAACCC
**
113361 TAAATAC
1 TAAACCC
*
113368 TAAACCA
1 TAAACCC
113375 TAAACCC
1 TAAACCC
**
113382 T-AACTA
1 TAAACCC
*
113388 TAAACCA
1 TAAACCC
113395 TAAACCC
1 TAAACCC
**
113402 TAAACTA
1 TAAACCC
113409 TAAACCC
1 TAAACCC
*
113416 TAAACAC
1 TAAACCC
*
113423 TAAACCA
1 TAAACCC
*
113430 TAAATCC
1 TAAACCC
113437 TA
1 TA
113439 TCACATAATT
Statistics
Matches: 122, Mismatches: 32, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
6 4 0.03
7 118 0.97
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:113535 original size:14 final size:14
Alignment explanation
Indices: 113516--113545 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113506 TATAATTATC
*
113516 AATAATGTATTTTT
1 AATAATGTAATTTT
113530 AATAATGTAATTTT
1 AATAATGTAATTTT
113544 AA
1 AA
113546 AAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:116531 original size:20 final size:21
Alignment explanation
Indices: 116499--116537 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
116489 CTGGATTTGA
116499 ATATAAATGAAAAG-ATAAAC
1 ATATAAATGAAAAGTATAAAC
116519 ATATATAAT-AAAAGTATAA
1 ATATA-AATGAAAAGTATAA
116538 TTCTGAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.26
Consensus pattern (21 bp):
ATATAAATGAAAAGTATAAAC
Found at i:117061 original size:2 final size:2
Alignment explanation
Indices: 117054--117084 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117044 TCTCAGTTTT
117054 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
117085 GGGGGAGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:118869 original size:20 final size:20
Alignment explanation
Indices: 118844--118896 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
118834 AATGTACTTA
*
118844 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGAT
*
118864 GTGCATCGATGCATCTTGAT
1 GTGCATCGATGCATCCTGAT
*
118884 GTGCATCCATGCA
1 GTGCATCGATGCA
118897 CGAAGGCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:118982 original size:21 final size:21
Alignment explanation
Indices: 118952--119005 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
118942 AAAGGGATAT
118952 CGATGCACCATGATAGTGCAC
1 CGATGCACCATGATAGTGCAC
*
118973 CGATGTACCATGATAGTGCAC
1 CGATGCACCATGATAGTGCAC
118994 CGATGCACCATG
1 CGATGCACCATG
119006 TTATGGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (21 bp):
CGATGCACCATGATAGTGCAC
Found at i:119068 original size:20 final size:22
Alignment explanation
Indices: 119030--119069 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
119020 TTTGAGTAGA
119030 AAAATCATCCCCAAACGGCTCT
1 AAAATCATCCCCAAACGGCTCT
119052 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
119070 ATATACAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCT
Found at i:122295 original size:22 final size:21
Alignment explanation
Indices: 122246--122365 Score: 117
Period size: 22 Copynumber: 5.7 Consensus size: 21
122236 AGGATGTCAA
122246 AGTGCATCCATGCACC--CCT
1 AGTGCATCCATGCACCTGCCT
122265 GCAGTGCATCCATGCACCTGCACT
1 --AGTGCATCCATGCACCTGC-CT
*
122289 AGTGCATCGATGCACCATG-C-
1 AGTGCATCCATGCACC-TGCCT
*
122309 AGTGCATCCATACACCTGCACT
1 AGTGCATCCATGCACCTGC-CT
*
122331 AGTGCATCGATGCACCATG-C-
1 AGTGCATCCATGCACC-TGCCT
122351 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
122366 TCCATTTCGA
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
19 2 0.02
20 28 0.33
21 19 0.22
22 29 0.34
23 5 0.06
24 2 0.02
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCTGCCT
Found at i:122325 original size:42 final size:42
Alignment explanation
Indices: 122246--122361 Score: 196
Period size: 42 Copynumber: 2.7 Consensus size: 42
122236 AGGATGTCAA
* * *
122246 AGTGCATCCATGCACCCCTGCAGTGCATCCATGCACCTGCACT
1 AGTGCATCGATGCA-CCATGCAGTGCATCCATACACCTGCACT
122289 AGTGCATCGATGCACCATGCAGTGCATCCATACACCTGCACT
1 AGTGCATCGATGCACCATGCAGTGCATCCATACACCTGCACT
122331 AGTGCATCGATGCACCATGCAGTGCATCCAT
1 AGTGCATCGATGCACCATGCAGTGCATCCAT
122362 GCACTCCATT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
42 57 0.81
43 13 0.19
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (42 bp):
AGTGCATCGATGCACCATGCAGTGCATCCATACACCTGCACT
Found at i:122408 original size:20 final size:20
Alignment explanation
Indices: 122385--122437 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
122375 AATGCACTTA
*
122385 GTGCATTGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
122405 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
*
122425 GTGCATCCATGCA
1 GTGCATCGATGCA
122438 CGAAGGATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:122411 original size:12 final size:12
Alignment explanation
Indices: 122394--122432 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
122384 AGTGCATTGA
122394 TGCATCCTGATG
1 TGCATCCTGATG
122406 TGCAT-C-GA--
1 TGCATCCTGATG
122414 TGCATCCTGATG
1 TGCATCCTGATG
122426 TGCATCC
1 TGCATCC
122433 ATGCACGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 5 0.22
9 1 0.04
10 4 0.17
11 1 0.04
12 12 0.52
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (12 bp):
TGCATCCTGATG
Found at i:122579 original size:21 final size:21
Alignment explanation
Indices: 122550--122589 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
122540 TTTGAGTAGA
122550 AAAATCATCCCCAAACGGCTCC
1 AAAATCAT-CCCAAACGGCTCC
*
122572 AAAA-CATCCCTAACGGCT
1 AAAATCATCCCAAACGGCT
122590 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 3 0.18
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:122840 original size:33 final size:32
Alignment explanation
Indices: 122802--122870 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
122792 TTTTGTAAAG
* * * *
122802 GGGAAAGGTTCTAGCTTATCCGTGTAAAAGCTA
1 GGGAAAGGTTATAGCTTAGCC-TGAAAAAACTA
*
122835 GGGAAAGGTTATAGTTTAGCCTGAAAAAACTA
1 GGGAAAGGTTATAGCTTAGCCTGAAAAAACTA
122867 GGGA
1 GGGA
122871 GTTGTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.25
Consensus pattern (32 bp):
GGGAAAGGTTATAGCTTAGCCTGAAAAAACTA
Found at i:123859 original size:20 final size:20
Alignment explanation
Indices: 123822--123859 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
123812 GGTAAGTTTG
*
123822 ATTTACTTATTGTATTAACA
1 ATTTACTTATGGTATTAACA
123842 ATTTACTT-TGGTAGTTAA
1 ATTTACTTATGGTA-TTAA
123860 GTTGACAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (20 bp):
ATTTACTTATGGTATTAACA
Found at i:126898 original size:15 final size:14
Alignment explanation
Indices: 126869--126895 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
126859 TTGTCACTAT
126869 ATGTTTTAAAAAAC
1 ATGTTTTAAAAAAC
126883 ATGTTTTAAAAAA
1 ATGTTTTAAAAAA
126896 ACACTGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
ATGTTTTAAAAAAC
Found at i:129732 original size:48 final size:45
Alignment explanation
Indices: 129657--129783 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 45
129647 TATAAAATCT
*
129657 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
129702 CTTACCATTTAAATTCCATAAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCAT-AAGCTCGTAAGCTTATTTTACCAAAATA
* * *
129750 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
129784 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
44 17 0.24
45 16 0.22
47 8 0.11
48 31 0.43
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:129928 original size:40 final size:40
Alignment explanation
Indices: 129884--130005 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
129874 ACCGTAGTGC
129884 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
129924 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
129964 TACGCATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
130004 TA
1 TA
130006 TAAACCTACA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:136770 original size:47 final size:45
Alignment explanation
Indices: 136700--136825 Score: 155
Period size: 47 Copynumber: 2.8 Consensus size: 45
136690 TATAAAATCT
*
136700 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAACAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAACAAAATA
** * *
136745 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCCTATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTAACAAAATA
* * *
136792 CTTGCCA-TTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
136826 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 23 0.32
45 10 0.14
46 2 0.03
47 36 0.51
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAACAAAATA
Found at i:136974 original size:40 final size:40
Alignment explanation
Indices: 136930--137051 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
136920 ACCGTAGTGC
136930 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
136970 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
137010 TACGCATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
137050 TA
1 TA
137052 TAAACCTGCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:138388 original size:29 final size:28
Alignment explanation
Indices: 138341--138397 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
138331 TCAATTTTCC
* * *
138341 AAAATTTACGAATTTATCCCAAACTTTTT
1 AAAACTTACGAAATGATCCCAAA-TTTTT
*
138370 AAAACTTACGAAATGATCCCCAATTTTT
1 AAAACTTACGAAATGATCCCAAATTTTT
138398 CTAAGGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (28 bp):
AAAACTTACGAAATGATCCCAAATTTTT
Found at i:149059 original size:37 final size:37
Alignment explanation
Indices: 149018--149091 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
149008 TTAATCATAA
149018 GTTATATTTAAAACACGAATTTCATGTACGAATTTTT
1 GTTATATTTAAAACACGAATTTCATGTACGAATTTTT
*
149055 GTTATATTTAAAACACGAATTTCATGTTCGAATTTTT
1 GTTATATTTAAAACACGAATTTCATGTACGAATTTTT
149092 ATCATTTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (37 bp):
GTTATATTTAAAACACGAATTTCATGTACGAATTTTT
Found at i:149202 original size:3 final size:3
Alignment explanation
Indices: 149194--149243 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
149184 GGCTATTCTT
149194 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
149242 TT
1 TT
149244 TTCTTAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:150280 original size:104 final size:99
Alignment explanation
Indices: 150081--150286 Score: 272
Period size: 104 Copynumber: 2.0 Consensus size: 99
150071 TTCTATGTTC
*
150081 TATATCATTGAAAAACAAGAAAAGAAAGAACATACATTAAAAGTTTCTGACTCTTGTTTCAACTA
1 TATATCATTGAAAAACAAGAAAAGAAAGAACATACATTAAAAGTTTCTGACGCTTGTTTCAACTA
* *
150146 CTTCCACCTTTGTTTGGTTGATAAAAGTTCATGT
66 CTTCCACCTTTGATTGGGTGATAAAAGTTCATGT
* *
150180 TATATCATTGGAAAACAAGAAAAGAAAGAACATACATT-AAATTTTAAGCTCCCG-CGGCTTGTT
1 TATATCATTGAAAAACAAGAAAAGAAAGAACATACATTAAAAGTTT---CT---GAC-GCTTGTT
* *
150243 TCAACTGCTTCCACCTTTGATTGGGTGTTAAAAGTTCATGT
59 TCAACTACTTCCACCTTTGATTGGGTGATAAAAGTTCATGT
150284 TAT
1 TAT
150287 TGGTCAAATT
Statistics
Matches: 93, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
98 6 0.06
99 37 0.40
101 2 0.02
103 1 0.01
104 47 0.51
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (99 bp):
TATATCATTGAAAAACAAGAAAAGAAAGAACATACATTAAAAGTTTCTGACGCTTGTTTCAACTA
CTTCCACCTTTGATTGGGTGATAAAAGTTCATGT
Found at i:152594 original size:65 final size:64
Alignment explanation
Indices: 152483--152607 Score: 162
Period size: 65 Copynumber: 1.9 Consensus size: 64
152473 GTCAAAATAG
* * *
152483 TTTCTCAAAATAACAAATTATGACAAATTTAAATAGTTATATTAATAATTTATAATAAATATTAA
1 TTTCTCAAAATAAAAAATTATGACAAA-TTAAATAGTTATAATAATAAATTATAATAAATATTAA
* **
152548 TTTCTCAATATAAAAAATTATGACAAA-TAATATTTTTCATAATAATAAATTATAATAAAT
1 TTTCTCAAAATAAAAAATTATGACAAATTAA-ATAGTT-ATAATAATAAATTATAATAAAT
152608 TTATTTAGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.06
64 4 0.08
65 45 0.87
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (64 bp):
TTTCTCAAAATAAAAAATTATGACAAATTAAATAGTTATAATAATAAATTATAATAAATATTAA
Found at i:152743 original size:196 final size:196
Alignment explanation
Indices: 152405--153185 Score: 909
Period size: 196 Copynumber: 4.0 Consensus size: 196
152395 AAATTATGGT
** * * * *
152405 AATTTATTTAGACACAATAACAAATTAAATTTAGTTAAAATAAAAAATATATATGTTAAATTTCT
1 AATTTATTTAGTTACAATAACAAGTTAAATTTAGTCAAAAT--AAAA-AT-TATGTCAAATTTAT
* * * * * ** * * * *
152470 TTAGTCAAAATAGTTTCTCAAAATAACAAATTATGACAAATTTAAATAGTTATATTAATAATTTA
62 TTCGTCACAATATTTTCTCAAAATAACAACTTTTGACAAA-TTATTTAGTCAAAATAACAATTTA
* *
152535 TAATAAATATTAATTTCTCAATATAAAAAATTATGACAAATAATATT-TTTCATAATAATAAATT
126 TAACAAATATTAATTTCTCAATATAAAAAATTATGACAAATAATATTCTTTCATAATAACAAATT
*
152599 ATAATA
191 ATAACA
* * *
152605 AATTTATTTAGTCT-CAATAACATGTTAAAATTAGTCAAAATAAAAATTATGTTAAATTTATTTC
1 AATTTATTTAGT-TACAATAACAAGTTAAATTTAGTCAAAATAAAAATTATGTCAAATTTATTTC
152669 GTCACAAT-TTTATCTCAAAATAACAACTTTTGACAAATGTATTTAGTCAAAATAACAATTTATA
65 GTCACAATATTT-TCTCAAAATAACAACTTTTGACAAAT-TATTTAGTCAAAATAACAATTTATA
* * * *
152733 ACAAATATTAATTTATCAATATAAAAAATTATGGCAAACAATATTCTTTCACAATAACAAATTAT
128 ACAAATATTAATTTCTCAATATAAAAAATTATGACAAATAATATTCTTTCATAATAACAAATTAT
152798 AACA
193 AACA
*
152802 AATTTATTTAGTTACAATAACACAG-TAAATTTAGTCAAAATAAAAATTTATGTCAAATATATTT
1 AATTTATTTAGTTACAATAACA-AGTTAAATTTAGTCAAAATAAAAA-TTATGTCAAATTTATTT
* * * **
152866 CATCACAATATTTTCTCGAAATAACAACTTTTGAC-AATTTTTTAGTCTTAATAACAATTTATAA
64 CGTCACAATATTTTCTCAAAATAACAACTTTTGACAAATTATTTAGTCAAAATAACAATTTATAA
* * *
152930 CAACTATTAATTCCTCAATATAAAAAATTATGACGACAAATAACATTCTTTCACT-ATAACAAAT
129 CAAATATTAATTTCTCAATATAAAAAATTAT---GACAAATAATATTCTTTCA-TAATAACAAAT
*
152994 TGTAACA
190 TATAACA
* * * *
153001 ACTTTATTTAGTTACAAT-ACACGTTAAATTTAGTCAAAATAAAAGTTATGTCAAATTTATTTGG
1 AATTTATTTAGTTACAATAACAAGTTAAATTTAGTCAAAATAAAAATTATGTCAAATTTATTTCG
* * * * *
153065 TCACAATATTTTGTC-AAA-AA-AA-TTTGTGACAAATTTTTTAATTAAAATAACAATTTATAAT
66 TCACAATATTTTCTCAAAATAACAACTTT-TGACAAATTATTTAGTCAAAATAACAATTTATAAC
* * *
153126 AAATATTAATTTCTCAATATAAAAAATTATGACAAGTAATATTCTTTTACAATAACAAAT
130 AAATATTAATTTCTCAATATAAAAAATTATGACAAATAATATTCTTTCATAATAACAAAT
153186 CGTAACATAA
Statistics
Matches: 505, Mismatches: 60, Indels: 40
0.83 0.10 0.07
Matches are distributed among these distances:
192 25 0.05
193 3 0.01
194 6 0.01
195 58 0.11
196 160 0.32
197 96 0.19
198 72 0.14
199 51 0.10
200 34 0.07
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (196 bp):
AATTTATTTAGTTACAATAACAAGTTAAATTTAGTCAAAATAAAAATTATGTCAAATTTATTTCG
TCACAATATTTTCTCAAAATAACAACTTTTGACAAATTATTTAGTCAAAATAACAATTTATAACA
AATATTAATTTCTCAATATAAAAAATTATGACAAATAATATTCTTTCATAATAACAAATTATAAC
A
Found at i:153203 original size:391 final size:397
Alignment explanation
Indices: 152409--153204 Score: 987
Period size: 391 Copynumber: 2.0 Consensus size: 397
152399 TATGGTAATT
* * * * * *
152409 TATTTAGACACAATAACAAATTAAATTTAGTTAAAATAAAAAATATATATGTTAAATTTCTTTAG
1 TATTTAGTCACAATAACAAAGTAAATTTAGTCAAAATAAAAAATATATATGTCAAATATATTTAG
* * *
152474 TCAAAATAGTTTCTCAAAATAACAAATTATGACAAATTTAAATAGTTATATTAATAATTTATAAT
66 TCAAAATAGTTTCTCAAAATAACAAATTATGACAAATTTAAATAGTTATAATAACAATTTATAAC
* * * *
152539 AAATATTAATTTCTCAATATAAAAAATTATGACAAATAATATTTTTCATAATAATAAATTATAAT
131 AAATATTAATTCCTCAATATAAAAAATTATGACAAATAACATTTTTCATAATAACAAATTATAAC
* *
152604 AAATTTATTTAGTCTCAATAACATGTTAAAATTAGTCAAAATAAAAATTATGTTAAATTTATTTC
196 AAATTTATTTAGTCTCAATAACACGTTAAAATTAGTCAAAATAAAAATTATGTCAAATTTATTTC
*
152669 GTCACAATTTTATCTCAAAATAACAACTTTTGACAAATGTATTTAGTCAAAATAACAATTTATAA
261 GTCACAATTTTATCTCAAAATAACAACTTTTGACAAATGTATTTAATCAAAATAACAATTTATAA
* *
152734 CAAATATTAATTTATCAATATAAAAAATTATGGCAAACAATATTCTTTCACAATAACAAATTATA
326 CAAATATTAATTTATCAATATAAAAAATTATGACAAACAATATTCTTTCACAATAACAAATCATA
*
152799 ACAAATT
391 ACAAATC
* *
152806 TATTTAGTTACAATAACACAGTAAATTTAGTCAAAAT-AAAAAT-T-TATGTCAAATATATTTCA
1 TATTTAGTCACAATAACAAAGTAAATTTAGTCAAAATAAAAAATATATATGTCAAATATATTT-A
* * * * * **
152868 -TCACAATATTTTCTCGAAATAACAACTTTTGAC-AATTT-TTTAGTCT-TAATAACAATTTATA
65 GTCAAAATAGTTTCTCAAAATAACAAATTATGACAAATTTAAATAGT-TATAATAACAATTTATA
*
152929 ACAACTATTAATTCCTCAATATAAAAAATTATGACGACAAATAACATTCTTTCACT-ATAACAAA
129 ACAAATATTAATTCCTCAATATAAAAAATTAT---GACAAATAACATT-TTTCA-TAATAACAAA
* * * *
152993 TTGTAACAACTTTATTTAGT-TACAAT-ACACGTTAAATTTAGTCAAAATAAAAGTTATGTCAAA
189 TTATAACAAATTTATTTAGTCT-CAATAACACGTTAAAATTAGTCAAAATAAAAATTATGTCAAA
* * * *
153056 TTTATTTGGTCACAATATTT-TGTC-AAA-AA-AA-TTTGTGACAAAT-TTTTTAATTAAAATAA
253 TTTATTTCGTCACAAT-TTTATCTCAAAATAACAACTTT-TGACAAATGTATTTAATCAAAATAA
* * ** *
153115 CAATTTATAATAAATATTAATTTCTCAATATAAAAAATTATGACAAGTAATATTCTTTTACAATA
316 CAATTTATAACAAATATTAATTTATCAATATAAAAAATTATGACAAACAATATTCTTTCACAATA
*
153180 ACAAATCGTAACATAA-C
381 ACAAATCATAACA-AATC
153197 TATTTAGT
1 TATTTAGT
153205 AAAAAAAGTT
Statistics
Matches: 345, Mismatches: 43, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
391 94 0.27
392 58 0.17
393 8 0.02
394 44 0.13
395 66 0.19
396 42 0.12
397 33 0.10
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (397 bp):
TATTTAGTCACAATAACAAAGTAAATTTAGTCAAAATAAAAAATATATATGTCAAATATATTTAG
TCAAAATAGTTTCTCAAAATAACAAATTATGACAAATTTAAATAGTTATAATAACAATTTATAAC
AAATATTAATTCCTCAATATAAAAAATTATGACAAATAACATTTTTCATAATAACAAATTATAAC
AAATTTATTTAGTCTCAATAACACGTTAAAATTAGTCAAAATAAAAATTATGTCAAATTTATTTC
GTCACAATTTTATCTCAAAATAACAACTTTTGACAAATGTATTTAATCAAAATAACAATTTATAA
CAAATATTAATTTATCAATATAAAAAATTATGACAAACAATATTCTTTCACAATAACAAATCATA
ACAAATC
Found at i:167662 original size:24 final size:24
Alignment explanation
Indices: 167635--167684 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
167625 GATTCCAAAG
167635 GAAAGGCTTTAACTATGGAAAGAT
1 GAAAGGCTTTAACTATGGAAAGAT
167659 GAAAGGCTTTAACTATGGAAAGAT
1 GAAAGGCTTTAACTATGGAAAGAT
167683 GA
1 GA
167685 GGAACAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (24 bp):
GAAAGGCTTTAACTATGGAAAGAT
Found at i:177051 original size:24 final size:24
Alignment explanation
Indices: 177020--177072 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
177010 TTGCTACGGC
*
177020 ATTGCAAGAGCATCAGCAAGGGCA
1 ATTGCAAGAGCATCAACAAGGGCA
177044 ATTGCAAGAGCATCAACAAGGGCA
1 ATTGCAAGAGCATCAACAAGGGCA
177068 ATTGC
1 ATTGC
177073 CAAGTGATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (24 bp):
ATTGCAAGAGCATCAACAAGGGCA
Found at i:186849 original size:4 final size:4
Alignment explanation
Indices: 186842--186870 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
186832 TATATATAAT
186842 AATA AATA AATA AATA AATA AA-A AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
186871 CTTAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:189979 original size:3 final size:3
Alignment explanation
Indices: 189966--190061 Score: 183
Period size: 3 Copynumber: 31.7 Consensus size: 3
189956 CATCGTGGCA
189966 CCT CACT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT C-CT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
190012 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
190060 CC
1 CC
190062 ATCATTAAGT
Statistics
Matches: 92, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 89 0.97
4 3 0.03
ACGTcount: A:0.01, C:0.67, G:0.00, T:0.32
Consensus pattern (3 bp):
CCT
Found at i:190604 original size:151 final size:151
Alignment explanation
Indices: 190330--190630 Score: 557
Period size: 151 Copynumber: 2.0 Consensus size: 151
190320 TCCTTTCTTG
* *
190330 CTATTGCCTGCCACGTTCATACAATGTGCCCAAAATGAAGCCCCTATGCCTAATTCCAATCTACG
1 CTATTGCCAGCCACGTTCATACAATGTGCCCAAAATGAAGCCCCTAAGCCTAATTCCAATCTACG
*
190395 TGCCAGCTTACCACCATTATTTCATTTTTTTCAGCTTACTCGAAAAACAAGAAACATATAGCAGA
66 TGCCACCTTACCACCATTATTTCATTTTTTTCAGCTTACTCGAAAAACAAGAAACATATAGCAGA
190460 ACTTAAACATACAGTTACATA
131 ACTTAAACATACAGTTACATA
190481 CTATTGCCAGCCACGTTCATACAATGTGCCCAAAATGAAGCCCCTAAGCCTAATTCCAATCTACG
1 CTATTGCCAGCCACGTTCATACAATGTGCCCAAAATGAAGCCCCTAAGCCTAATTCCAATCTACG
* *
190546 TGCCACCTTACCACCATTATTTCATTTTTTTTAGCTTACTCGAAAGACAAGAAACATATAGCAGA
66 TGCCACCTTACCACCATTATTTCATTTTTTTCAGCTTACTCGAAAAACAAGAAACATATAGCAGA
190611 ACTTAAACATACAGTTACAT
131 ACTTAAACATACAGTTACAT
190631 GGAATATGAT
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 145 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (151 bp):
CTATTGCCAGCCACGTTCATACAATGTGCCCAAAATGAAGCCCCTAAGCCTAATTCCAATCTACG
TGCCACCTTACCACCATTATTTCATTTTTTTCAGCTTACTCGAAAAACAAGAAACATATAGCAGA
ACTTAAACATACAGTTACATA
Found at i:191817 original size:80 final size:81
Alignment explanation
Indices: 191687--191839 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 81
191677 CTATAGAAGA
* * * *
191687 AGAAGAAGCAGCAGCAGCTAAGGTGCCACGTCAGATACGGAAGGTAAGGTGTCATGT-AATTAAA
1 AGAAGAAGAAGCAGCAGCTAAGGTGCCAAGTCAGATACGGAAGGTAAGGTGTCACGTCAAATAAA
191751 ACTAACGGCAGGTTAT
66 ACTAACGGCAGGTTAT
* * * * *
191767 AGAAGAAGAAGGAGGAGGTAAGGTGCCAAGTCAGATACTGAAGTTAAGGTGTCACGTCAAATAAA
1 AGAAGAAGAAGCAGCAGCTAAGGTGCCAAGTCAGATACGGAAGGTAAGGTGTCACGTCAAATAAA
*
191832 ATTAACGG
66 ACTAACGG
191840 GAGACAACAT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 49 0.79
81 13 0.21
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.18
Consensus pattern (81 bp):
AGAAGAAGAAGCAGCAGCTAAGGTGCCAAGTCAGATACGGAAGGTAAGGTGTCACGTCAAATAAA
ACTAACGGCAGGTTAT
Found at i:192775 original size:10 final size:10
Alignment explanation
Indices: 192760--192838 Score: 65
Period size: 10 Copynumber: 7.9 Consensus size: 10
192750 ATGTTCGTTC
192760 GTTTATGTTA
1 GTTTATGTTA
192770 GTTTATGTTA
1 GTTTATGTTA
**
192780 GTTTACATTCA
1 GTTTATGTT-A
*
192791 -TTTATATTA
1 GTTTATGTTA
*
192800 GTTTACGTTCA
1 GTTTATGTT-A
192811 -TTTATGTTA
1 GTTTATGTTA
*
192820 GTTTACGTTCA
1 GTTTATGTT-A
192831 -TTTATGTT
1 GTTTATGTT
192839 CATTCGTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
9 2 0.04
10 51 0.91
11 3 0.05
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (10 bp):
GTTTATGTTA
Found at i:192794 original size:20 final size:20
Alignment explanation
Indices: 192771--192838 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
192761 TTTATGTTAG
*
192771 TTTATGTTAGTTTACATTCA
1 TTTATGTTAGTTTACGTTCA
*
192791 TTTATATTAGTTTACGTTCA
1 TTTATGTTAGTTTACGTTCA
192811 TTTATGTTAGTTTACGTTCA
1 TTTATGTTAGTTTACGTTCA
192831 TTTATGTT
1 TTTATGTT
192839 CATTCGTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (20 bp):
TTTATGTTAGTTTACGTTCA
Found at i:192858 original size:24 final size:24
Alignment explanation
Indices: 192831--192876 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
192821 TTTACGTTCA
* *
192831 TTTATGTTCATTCGTTTGTGTTTG
1 TTTACGTTCATTCATTTGTGTTTG
*
192855 TTTACGTTCGTTCATTTGTGTT
1 TTTACGTTCATTCATTTGTGTT
192877 CGTGTTCGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.11, G:0.20, T:0.61
Consensus pattern (24 bp):
TTTACGTTCATTCATTTGTGTTTG
Found at i:192886 original size:24 final size:24
Alignment explanation
Indices: 192826--192879 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
192816 GTTAGTTTAC
* * *
192826 GTTCATTTATGTTCATTCGTTTGT
1 GTTCGTTTACGTTCATTCATTTGT
* *
192850 GTTTGTTTACGTTCGTTCATTTGT
1 GTTCGTTTACGTTCATTCATTTGT
192874 GTTCGT
1 GTTCGT
192880 GTTCGTTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.09, C:0.13, G:0.20, T:0.57
Consensus pattern (24 bp):
GTTCGTTTACGTTCATTCATTTGT
Found at i:193334 original size:20 final size:20
Alignment explanation
Indices: 193309--193348 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
193299 ATGTTACACT
193309 AAAAT-GTTATACAAAGTAAG
1 AAAATAGTTATA-AAAGTAAG
193329 AAAATGAGTTATAAAAGTAA
1 AAAAT-AGTTATAAAAGTAA
193349 ATTTTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (20 bp):
AAAATAGTTATAAAAGTAAG
Found at i:193846 original size:256 final size:256
Alignment explanation
Indices: 193375--193852 Score: 717
Period size: 256 Copynumber: 1.9 Consensus size: 256
193365 TAATATTTTA
* *
193375 GGTTGCGCCTAAAATGTTATCAGAGTTTAAACTAATGGATCCTTAAATTTTCCCATGATAAGAAA
1 GGTTGCACCTAAAATGTTATCAGAGTTTAAACTAATGGAGCCTTAAATTTTCCCATGATAAGAAA
* * *
193440 ATAAGTTAAAAGATGAAAATGTTATGAATATATATAAGAAATACGGTTGCACCCAATAATTTCAT
66 ATAAGTAAAAAGATGAAAATGTTATGAATATATATAAGAAAGACGATTGCACCCAATAATTTCAT
* * * *
193505 GGTTTACTAAGAAATAGGTTGTGATATTTAATGTTAAAATTATTATTAATAAAATAGGTTGCGCC
131 GGTTCACTAAGAAACAAGTTGTGATATGTAATGTTAAAATTATTATTAATAAAATAGGTTGCGCC
**
193570 CAAGAATGTCATGGTTCACTAAAAAAGCAAGTTGCAACCTGAAATCTTAATATTCTTAACG
196 CAAGAATGTCATAATTCACTAAAAAAGCAAGTTGCAACCTGAAATCTTAATATTCTTAACG
* * *
193631 GGTTGCACCTAAAATGTTATCAGAGTTTAAGCTGATGGAGCTTTAAATTTTCCCATGATAAGAAA
1 GGTTGCACCTAAAATGTTATCAGAGTTTAAACTAATGGAGCCTTAAATTTTCCCATGATAAGAAA
* ** *
193696 ATAAGTAAAAAGCTGAAAATGTTATGAATATATATAAGAAAGACGATTGCGTCTAATAATGTT-A
66 ATAAGTAAAAAGATGAAAATGTTATGAATATATATAAGAAAGACGATTGCACCCAATAAT-TTCA
* * *
193760 TGGTTCACTAAGAAACAAGTTGTGA-ACTGTAATGTTAATATTTTTATTAATAAAATATGTTGCG
130 TGGTTCACTAAGAAACAAGTTGTGATA-TGTAATGTTAAAATTATTATTAATAAAATAGGTTGCG
* *
193824 CCCAAGAATGTTATAATTCACTAAGAAAG
194 CCCAAGAATGTCATAATTCACTAAAAAAG
193853 TAGATTCTAT
Statistics
Matches: 197, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
255 1 0.01
256 194 0.98
257 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (256 bp):
GGTTGCACCTAAAATGTTATCAGAGTTTAAACTAATGGAGCCTTAAATTTTCCCATGATAAGAAA
ATAAGTAAAAAGATGAAAATGTTATGAATATATATAAGAAAGACGATTGCACCCAATAATTTCAT
GGTTCACTAAGAAACAAGTTGTGATATGTAATGTTAAAATTATTATTAATAAAATAGGTTGCGCC
CAAGAATGTCATAATTCACTAAAAAAGCAAGTTGCAACCTGAAATCTTAATATTCTTAACG
Found at i:193930 original size:19 final size:19
Alignment explanation
Indices: 193906--193948 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
193896 ATGTTGCACC
193906 AAGAATGTCATGATTCACT
1 AAGAATGTCATGATTCACT
* * *
193925 AAGAATTTCATGGTTCAGT
1 AAGAATGTCATGATTCACT
193944 AAGAA
1 AAGAA
193949 ATAGGTTGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (19 bp):
AAGAATGTCATGATTCACT
Found at i:194218 original size:73 final size:72
Alignment explanation
Indices: 194011--194219 Score: 224
Period size: 73 Copynumber: 2.9 Consensus size: 72
194001 AAAAAATAAA
* * * * * * *
194011 AAAAG-TTCAAAAATTTAAATATCTATACTTAATATATTATTATTGATACTTTTAAATATTAAAA
1 AAAAGATT-AAAATTTTAAATATCGATACTT-ATGTATAATAATCGATACTTTTAAATATTGAAA
194075 AAGTTGAAG
64 AAGTTGAAG
* * * * *
194084 ATAAGATTAAAATTTAAAATATCGATACTTATGCAGTAATGATCGATACTTTTAAAAATTGAAAA
1 AAAAGATTAAAATTTTAAATATCGATACTTATGTA-TAATAATCGATACTTTTAAATATTGAAAA
194149 AGTTGATA-
65 AGTTGA-AG
* * *
194157 AAAAGATTGAAATTTTAAATATCGATACTTATGTGATGATAATCGATACTTTTAGATATTGAA
1 AAAAGATTAAAATTTTAAATATCGATACTTATGT-ATAATAATCGATACTTTTAAATATTGAA
194220 CGCGTTGATA
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
72 3 0.03
73 106 0.94
74 4 0.04
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (72 bp):
AAAAGATTAAAATTTTAAATATCGATACTTATGTATAATAATCGATACTTTTAAATATTGAAAAA
GTTGAAG
Found at i:194625 original size:100 final size:100
Alignment explanation
Indices: 194489--194791 Score: 446
Period size: 100 Copynumber: 3.0 Consensus size: 100
194479 ACTTTTGCAT
* * * *
194489 AAAAAGGTGCTACCTATTACGTTATCACGAGCAACATGTTTTATCTTACATTTGAATAATATAAA
1 AAAAAGGTGCTACCTAGTACGTTAT-ATGAGCAACATGTTTTGTCTTACTTTTGAATAATATAAA
*
194554 AGGTTTCATACTTATAACTTAAACGGTTGACATTAA
65 TGGTTTCATACTTATAACTTAAACGGTTGACATTAA
* *
194590 AAAAAGGCGCTACCTAGTACGTTATATGAGCAACATGTTTTGTCTTACTTTTGCATAATATAAAT
1 AAAAAGGTGCTACCTAGTACGTTATATGAGCAACATGTTTTGTCTTACTTTTGAATAATATAAAT
*
194655 GGTTTCATACTTATAATTTAAACGGTTGACATTAA
66 GGTTTCATACTTATAACTTAAACGGTTGACATTAA
* * * *
194690 AAAAATGTGCTACCTAGTACGTTATTATGAGTAACATGTTTTGTCTTACTTTTGTATAATATAGA
1 AAAAAGGTGCTACCTAGTACGTTA-TATGAGCAACATGTTTTGTCTTACTTTTGAATAATATAAA
* * *
194755 TGATTTCATACTTATAACTTAAACAGATGACA-TAA
65 TGGTTTCATACTTATAACTTAAACGGTTGACATTAA
194790 AA
1 AA
194792 TAGGTGATAC
Statistics
Matches: 184, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
100 96 0.52
101 88 0.48
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (100 bp):
AAAAAGGTGCTACCTAGTACGTTATATGAGCAACATGTTTTGTCTTACTTTTGAATAATATAAAT
GGTTTCATACTTATAACTTAAACGGTTGACATTAA
Found at i:199175 original size:20 final size:20
Alignment explanation
Indices: 199146--199188 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
199136 ATTTCACCAC
*
199146 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
199166 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
199186 ATG
1 ATG
199189 GGCTTTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:207432 original size:76 final size:75
Alignment explanation
Indices: 207246--207502 Score: 339
Period size: 73 Copynumber: 3.5 Consensus size: 75
207236 AGGGATCATA
* *
207246 ACATTCTTGGGCGCAA-CCATTTTATTAATAAAATATTAACATTCTAGATCTCAACATATTTCTT
1 ACATTCTTGGGCACAACCCATTTTATTAATAAAATATTAACATTCTAGATCACAAC-TATTTCTT
* *
207310 AGTGAA-CATA
65 AGTGAACCGTG
* * *
207320 ACATTCTTGGGTGA-AACCCATTTT-TTAATAAAAATATTATCAGTAC-AGATCACAACCTATTT
1 ACATTCTTGGG-CACAACCCATTTTATTAAT-AAAATATTAACA-TTCTAGATCACAA-CTATTT
*
207382 CTTAATGAACCGTG
62 CTTAGTGAACCGTG
*
207396 ACATTCTTGGGCACAACCCATTTTATTAATAAAATATTAACATTCTAGATCAC-A-TATTACTTA
1 ACATTCTTGGGCACAACCCATTTTATTAATAAAATATTAACATTCTAGATCACAACTATTTCTTA
207459 GTGAACCGTG
66 GTGAACCGTG
207469 ACATTCTTGGGCACAACCCATTTTATTAATAAAA
1 ACATTCTTGGGCACAACCCATTTTATTAATAAAA
207503 ATATATTCAT
Statistics
Matches: 161, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
73 51 0.32
74 18 0.11
75 43 0.27
76 44 0.27
77 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (75 bp):
ACATTCTTGGGCACAACCCATTTTATTAATAAAATATTAACATTCTAGATCACAACTATTTCTTA
GTGAACCGTG
Found at i:219404 original size:13 final size:13
Alignment explanation
Indices: 219386--219411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
219376 ATGCGTTACA
219386 ATCACTTTGACAT
1 ATCACTTTGACAT
219399 ATCACTTTGACAT
1 ATCACTTTGACAT
219412 TATATATAAG
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:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
ATCACTTTGACAT
Found at i:221511 original size:49 final size:49
Alignment explanation
Indices: 221245--221512 Score: 281
Period size: 49 Copynumber: 5.5 Consensus size: 49
221235 GAATACCATG
*
221245 AGTGG-ACCTTTTATGCCGAAAATG-TCCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCG-AAATGAACCGTTATGCATTTAACTTTCATT
* * *
221293 AGTGGAACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCCTT
1 AGTGGCACCTTTTATGCCGAAATGAACCGTTATGCATTTAACTTTCATT
* ** * *
221342 AGCGGCACCTTTTATGTAGAAAT-ACATCGTTATGCATCTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGA-ACCGTTATGCATTTAACTTTCATT
* * ** * * * *
221391 AGTCGCACCTTTTATACCGACGTGCACTGTTATGCTTTTAACTTTTATT
1 AGTGGCACCTTTTATGCCGAAATGAACCGTTATGCATTTAACTTTCATT
* * * *
221440 AGTGGCGCCTATTATGCGGAAATGAACCGTTATGCATTTAAATTTCATT
1 AGTGGCACCTTTTATGCCGAAATGAACCGTTATGCATTTAACTTTCATT
* * *
221489 GGAGGCACCTTTTATGTCGAAATG
1 AGTGGCACCTTTTATGCCGAAATG
221513 TACCTATGAC
Statistics
Matches: 175, Mismatches: 41, Indels: 7
0.78 0.18 0.03
Matches are distributed among these distances:
48 10 0.06
49 165 0.94
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (49 bp):
AGTGGCACCTTTTATGCCGAAATGAACCGTTATGCATTTAACTTTCATT
Found at i:223906 original size:23 final size:24
Alignment explanation
Indices: 223874--224068 Score: 84
Period size: 26 Copynumber: 7.9 Consensus size: 24
223864 ACATAAAATC
*
223874 AAAATAATAAATAA-ATAATTATAA
1 AAAATAAT-AATAATATAAATATAA
223898 AAAAT-ATAATAATATAAATAT-A
1 AAAATAATAATAATATAAATATAA
* *
223920 AATATAA-ATATATATATATACTATAA
1 AAAATAATA-ATA-ATATA-AATATAA
* * *
223946 GATATAATATATATTATATAATACT--
1 AAAATAATA-ATAATATA-AATA-TAA
*
223971 ATAATAATAAT-ATAT-AATATAA
1 AAAATAATAATAATATAAATATAA
* *
223993 TAAAATAATATATATATATATATATAT
1 -AAAATAATA-ATA-ATATAAATATAA
*
224020 AATATAAT-ATAATATACTATATATAA
1 AAAATAATAATAATATA--A-ATATAA
* *
224046 TATATAATATATAATATATAATA
1 AAAATAATA-ATAATATA-AATA
224069 CTATAATATA
Statistics
Matches: 134, Mismatches: 17, Indels: 38
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.01
21 4 0.03
22 11 0.08
23 29 0.22
24 17 0.13
25 10 0.07
26 41 0.31
27 13 0.10
28 8 0.06
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (24 bp):
AAAATAATAATAATATAAATATAA
Found at i:223934 original size:2 final size:2
Alignment explanation
Indices: 223901--224091 Score: 138
Period size: 2 Copynumber: 104.0 Consensus size: 2
223891 ATTATAAAAA
* * *
223901 AT AT A- AT A- AT AT AA AT AT AA AT AT AA AT AT AT AT AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
223942 AT A- AG AT AT A- AT AT AT AT -T AT AT A- AT ACT AT A- AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
*
223979 A- AT AT AT A- AT AT A- AT A- AA AT A- 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
224016 AT AT A- AT AT A- AT AT A- AT AT ACT AT AT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
224054 AT AT A- AT AT AT A- AT ACT AT A- AT AT AT ACT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT
224092 GTAATGACCC
Statistics
Matches: 154, Mismatches: 8, Indels: 54
0.71 0.04 0.25
Matches are distributed among these distances:
1 22 0.14
2 122 0.79
3 10 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:224031 original size:79 final size:81
Alignment explanation
Indices: 223917--224080 Score: 214
Period size: 79 Copynumber: 2.0 Consensus size: 81
223907 TAATATAAAT
*
223917 ATAAATATAAATATATATATATACTATAAGATATAATATA-TATTATATAATACTATAATA-ATA
1 ATAAATATAAATATATATATATAATATAAGATATAATATACTA-TATATAATA-TATAATATATA
223980 ATATATAAT-ATAATAAA-
64 ATATATAATAAT-ATAAAT
*
223997 ATAATATATATATATATATATATAATAT-A-ATATAATATACTATATATAATATATAATATATAA
1 ATAA-ATATAAATATATATATATAATATAAGATATAATATACTATATATAATATATAATATATAA
*
224060 TATATAATACTATAATAT
65 TATATAATAATATAA-AT
224078 ATA
1 ATA
224081 CTATATAATA
Statistics
Matches: 75, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
78 7 0.09
79 35 0.47
80 9 0.12
81 24 0.32
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (81 bp):
ATAAATATAAATATATATATATAATATAAGATATAATATACTATATATAATATATAATATATAAT
ATATAATAATATAAAT
Found at i:224602 original size:58 final size:58
Alignment explanation
Indices: 224506--224908 Score: 553
Period size: 58 Copynumber: 6.9 Consensus size: 58
224496 ACCAAATGGT
* * *
224506 ACTTAGTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTACGGATTTCTGTATTGGGC
1 ACTTTGTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
* *
224565 ACTTTGTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGC
1 ACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
* * * *
224623 ACTTTGTGTG-AAAAGGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGAC
1 ACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
* * *
224680 ACTTTGTGCGCAAAAATATTATGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
1 ACTTTGTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
** *
224739 ACTTTGTGTGCAAATATCTTAAGAAATTCATA-GAAGTGTATGAATTT-TCGTATTGGGC
1 ACTTTGTGTGCAAA-AAGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGC
*
224797 ACTCTGTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT-TCGTATTGGGC
1 ACTTTGTGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGC
* * *
224856 ACTTTATGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 ACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTAT
224909 AGGAAATATA
Statistics
Matches: 308, Mismatches: 29, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
57 54 0.18
58 136 0.44
59 117 0.38
60 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (58 bp):
ACTTTGTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
Found at i:224836 original size:117 final size:117
Alignment explanation
Indices: 224506--224908 Score: 580
Period size: 117 Copynumber: 3.5 Consensus size: 117
224496 ACCAAATGGT
* * * *
224506 ACTTAGTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTACGGATTTCTGTATTGGGCACTTTG
1 ACTTTGTGTGC-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTG
* *
224571 TGTGCAAAAA-GATAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGC
65 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
* * *
224623 ACTTTGTGTG-AAAAGGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGACACTTTGT
1 ACTTTGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
* * *
224687 GCGCAAAAATATTATGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
66 GTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
* * * *
224739 ACTTTGTGTGCAAATATCTTAAGAAATTCATA-GAAGTGTATGAATTTTCGTATTGGGCACTCTG
1 ACTTTGTGTGCAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTG
224803 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTT-TCGTATTGGGC
65 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCT-GTATTGGGC
* * *
224856 ACTTTATGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 ACTTTGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
224909 AGGAAATATA
Statistics
Matches: 253, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
115 56 0.22
116 63 0.25
117 119 0.47
118 15 0.06
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (117 bp):
ACTTTGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGT
GTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGC
Found at i:227260 original size:40 final size:40
Alignment explanation
Indices: 227137--227276 Score: 130
Period size: 39 Copynumber: 3.6 Consensus size: 40
227127 CACCCTTTGT
*
227137 AGGTTTTCA-TCTTAAAC-CTTTTTTAGAGTG-CTC-TTTTC
1 AGGTTTTCACTC-TAAACACTTTTTTAGAGCGAC-CATTTTC
* * * *
227175 AGATTTTCACTCTAAACACTTTTTTAGAGCGTCCTTTTTG
1 AGGTTTTCACTCTAAACACTTTTTTAGAGCGACCATTTTC
**
227215 A-GTTTTCACTCTAAATGCTTTTTTTAGAGC-ACCATTTTC
1 AGGTTTTCACTCTAAACAC-TTTTTTAGAGCGACCATTTTC
* *
227254 AGGTTTTCTCTCTAACCACTTTT
1 AGGTTTTCACTCTAAACACTTTT
227277 CAAAAAACTT
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
38 13 0.16
39 40 0.48
40 30 0.36
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (40 bp):
AGGTTTTCACTCTAAACACTTTTTTAGAGCGACCATTTTC
Found at i:239278 original size:2 final size:2
Alignment explanation
Indices: 239253--239543 Score: 164
Period size: 2 Copynumber: 157.5 Consensus size: 2
239243 TAAATAAGTA
* *
239253 AT AT A- AT AT AT A- AT AT -T AT A- AT AT AT A- AT AT A- AC AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
239289 AT AT AT AT A- AT ACT AA AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
239330 AT AT AT ACT AT A- AT AT AT A- AT AT AT AGT AT AT A- AT ACT AT
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT
239370 AT -T A- AT A- AT AT A- AT AT AT A- AT AT AT A- AT ACT AT AGT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT
* *
239407 AT AT A- AT AT AT A- AT AA AT A- AC ACT AT AT A- AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
*
239445 -T AT AT AT AT AT A- AT AT AT -T AT AT A- AT AT ACT AC AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * *
239483 AT AT A- AC AT AT AT -T AT AT A- AT AG GT AT AT -T AT AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
239522 A- AT AT AT GT ACT AT A- AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT A
239544 CTATCCTAGA
Statistics
Matches: 229, Mismatches: 16, Indels: 88
0.69 0.05 0.26
Matches are distributed among these distances:
1 34 0.15
2 176 0.77
3 19 0.08
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:239300 original size:33 final size:32
Alignment explanation
Indices: 239235--239504 Score: 181
Period size: 33 Copynumber: 8.4 Consensus size: 32
239225 TAAAATCAAA
*
239235 ATAATAAATAA-ATAAGTAATATAATATATAATATT
1 ATAATATATAATATAA-TAA-AT-ATATATAATA-T
*
239270 ATAATATATAATATAACAAATATATATAATA-
1 ATAATATATAATATAATAAATATATATAATAT
* *
239301 CTAA-ATATAATATATATATATATATATATATAT
1 ATAATATATAATATA-ATAAATATATATA-ATAT
* *
239334 ATACTATA-ATATATAATATATAGTATATAATACT
1 ATAATATATA-ATATAATAAATA-TATATAATA-T
* *
239368 ATATTA-ATAATATAATATATAATATATAATACT
1 ATAATATATAATATAATAAAT-ATATATAATA-T
* *
239401 ATAGTAATATAATAT-AT-AATAAATA-ACACTAT
1 ATAAT-ATATAATATAATAAATATATATA-A-TAT
239433 ATAATATATAAT-T-AT--ATATATATAATAT
1 ATAATATATAATATAATAAATATATATAATAT
* * *
239461 AT--TATATAATATACTACATATTATATAACAT
1 ATAATATATAATATAATAAATA-TATATAATAT
*
239492 ATATTATATAATA
1 ATAATATATAATA
239505 GGTATATTAT
Statistics
Matches: 198, Mismatches: 15, Indels: 46
0.76 0.06 0.18
Matches are distributed among these distances:
26 8 0.04
27 1 0.01
28 6 0.03
29 7 0.04
30 17 0.09
31 33 0.17
32 13 0.07
33 63 0.32
34 27 0.14
35 19 0.10
36 4 0.02
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (32 bp):
ATAATATATAATATAATAAATATATATAATAT
Found at i:239440 original size:7 final size:7
Alignment explanation
Indices: 239253--239543 Score: 207
Period size: 7 Copynumber: 40.7 Consensus size: 7
239243 TAAATAAGTA
239253 ATATAAT
1 ATATAAT
239260 ATATAAT
1 ATATAAT
239267 ATTATAAT
1 A-TATAAT
239275 ATATAAT
1 ATATAAT
*
239282 ATA-ACAA
1 ATATA-AT
239289 ATATATAT
1 ATATA-AT
239297 AATACTAA-
1 -ATA-TAAT
239305 ATATAAT
1 ATATAAT
239312 ATATATAT
1 ATATA-AT
239320 ATATATAT
1 ATATA-AT
239328 ATATATAT
1 ATATA-AT
239336 ACTATAAT
1 A-TATAAT
239344 ATATAAT
1 ATATAAT
*
239351 ATATAGT
1 ATATAAT
239358 ATATAAT
1 ATATAAT
*
239365 A-CT-AT
1 ATATAAT
239370 AT-TAAT
1 ATATAAT
239376 AATATAAT
1 -ATATAAT
239384 ATATAAT
1 ATATAAT
239391 ATATAAT
1 ATATAAT
*
239398 ACTATAGT
1 A-TATAAT
239406 AATATAAT
1 -ATATAAT
239414 ATATAAT
1 ATATAAT
*
239421 AAATAACACT
1 ATAT-A-A-T
239431 ATATAAT
1 ATATAAT
239438 ATATAAT
1 ATATAAT
239445 -TATATAT
1 ATATA-AT
239452 ATATAAT
1 ATATAAT
239459 ATAT--T
1 ATATAAT
239464 ATATAAT
1 ATATAAT
*
239471 ATACT-AC
1 ATA-TAAT
239478 ATAT--T
1 ATATAAT
*
239483 ATATAAC
1 ATATAAT
*
239490 ATATATT
1 ATATAAT
239497 ATATAAT
1 ATATAAT
239504 AGGTAT-AT
1 A--TATAAT
239512 -TAT-AT
1 ATATAAT
239517 ACTATAAT
1 A-TATAAT
*
239525 ATAT-GT
1 ATATAAT
239531 ACTATAAT
1 A-TATAAT
239539 ATATA
1 ATATA
239544 CTATCCTAGA
Statistics
Matches: 235, Mismatches: 18, Indels: 62
0.75 0.06 0.20
Matches are distributed among these distances:
5 18 0.08
6 14 0.06
7 124 0.53
8 59 0.25
9 14 0.06
10 6 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:239547 original size:12 final size:11
Alignment explanation
Indices: 239251--239543 Score: 193
Period size: 12 Copynumber: 25.8 Consensus size: 11
239241 AATAAATAAG
239251 TAATATA-ATA
1 TAATATATATA
239261 T-ATA-ATATTA
1 TAATATATA-TA
239271 TAATATATAATA
1 TAATATAT-ATA
*
239283 TAACAAATATATA
1 T-A-ATATATATA
*
239296 TAATACTAAATA
1 TAATA-TATATA
239308 TAATATATATA
1 TAATATATATA
239319 T-ATATATATA
1 TAATATATATA
239329 T-ATATATACTA
1 TAATATATA-TA
239340 TAATATATA-A
1 TAATATATATA
239350 T-ATATAGTATA
1 TAATATA-TATA
239361 TAATACTATATTAA
1 TAATA-TATA-T-A
239375 TAATATAATATA
1 TAATAT-ATATA
239387 TAATATATA-A
1 TAATATATATA
*
239397 TACTATAGTAATA
1 TAATATA-T-ATA
239410 TAATATATA-A
1 TAATATATATA
*
239420 TAAATAACACTATA
1 T-AAT-ATA-TATA
239434 TAATATATA-A
1 TAATATATATA
*
239444 TTATATATATA
1 TAATATATATA
239455 TAATATATTATA
1 TAATATA-TATA
*
239467 TAATATACTACA
1 TAATATA-TATA
239479 T-AT-TATATA
1 TAATATATATA
239488 -ACATATATTATA
1 TA-ATATA-TATA
**
239500 TAATAGGTATA
1 TAATATATATA
239511 T--TATATACTA
1 TAATATATA-TA
239521 TAATATATGTACTA
1 TAATATA--TA-TA
239535 TAATATATA
1 TAATATATA
239544 CTATCCTAGA
Statistics
Matches: 230, Mismatches: 17, Indels: 70
0.73 0.05 0.22
Matches are distributed among these distances:
8 1 0.00
9 16 0.07
10 50 0.22
11 42 0.18
12 69 0.30
13 24 0.10
14 28 0.12
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (11 bp):
TAATATATATA
Found at i:240108 original size:19 final size:20
Alignment explanation
Indices: 240084--240129 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
240074 CAAAATGGCC
*
240084 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
240103 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
240123 TAATTTC
1 CAATTTC
240130 CAGTATAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:244439 original size:21 final size:21
Alignment explanation
Indices: 244396--244439 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
244386 ATCGTATTGC
* ***
244396 GATTTTCCAAATTTGCGTTGT
1 GATTTTCCAAATTCGCAACGT
244417 GATTTTCCAAATTCGCAACGT
1 GATTTTCCAAATTCGCAACGT
244438 GA
1 GA
244440 ATCTATAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
GATTTTCCAAATTCGCAACGT
Found at i:244468 original size:20 final size:20
Alignment explanation
Indices: 244445--244495 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
244435 CGTGAATCTA
*
244445 TAAATCACAACGCAAATTTG
1 TAAATCGCAACGCAAATTTG
*
244465 TAAATCGCAACGCGAATTTG
1 TAAATCGCAACGCAAATTTG
244485 TAAATCGCAAC
1 TAAATCGCAAC
244496 ACAGAAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.24
Consensus pattern (20 bp):
TAAATCGCAACGCAAATTTG
Found at i:244513 original size:40 final size:40
Alignment explanation
Indices: 244425--244615 Score: 112
Period size: 40 Copynumber: 4.8 Consensus size: 40
244415 GTGATTTTCC
* * * * * *
244425 AAATTCGCAACGTGAATCTATAAA-TCACAACGCAAATTTGT
1 AAATTCGCAACGCGAATTTGTAAATTCGCAACACAAA-GT-T
244466 AAA-TCGCAACGCGAATTTGTAAA-TCGCAACACAGAAGTT
1 AAATTCGCAACGCGAATTTGTAAATTCGCAACACA-AAGTT
* * *
244505 AAATTCGCAATGCGAA--AGTCAAATTCGCAACACAAAAGTC
1 AAATTCGCAACGCGAATTTGT-AAATTCGCAACAC-AAAGTT
* * * **
244545 AAATTCACAACGTGGAATTT-CAAATTCGCAACTA-AATTTT
1 AAATTCGCAACG-CGAATTTGTAAATTCGCAAC-ACAAAGTT
* *
244585 AAATTCGCAACACGAA-TT-TAATTTCGCAACA
1 AAATTCGCAACGCGAATTTGTAAATTCGCAACA
244616 GGTTTTAGTT
Statistics
Matches: 119, Mismatches: 22, Indels: 22
0.73 0.13 0.13
Matches are distributed among these distances:
37 1 0.01
38 14 0.12
39 10 0.08
40 73 0.61
41 20 0.17
42 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (40 bp):
AAATTCGCAACGCGAATTTGTAAATTCGCAACACAAAGTT
Found at i:244604 original size:19 final size:19
Alignment explanation
Indices: 244465--244615 Score: 76
Period size: 20 Copynumber: 7.7 Consensus size: 19
244455 CGCAAATTTG
*
244465 TAAA-TCGCAACGCGAATTT
1 TAAATTCGCAACACGAA-TT
*
244484 GTAAA-TCGCAACACAGAAGT
1 -TAAATTCGCAACAC-GAATT
** *
244504 TAAATTCGCAATGCGAAAGT
1 TAAATTCGCAACACG-AATT
* * *
244524 CAAATTCGCAACACAAAAGT
1 TAAATTCGCAACAC-GAATT
* * **
244544 CAAATTCACAACGTGGAATT
1 TAAATTCGCAAC-ACGAATT
244564 TCAAATTCGCAACTA--AATTT
1 T-AAATTCGCAAC-ACGAA-TT
244584 TAAATTCGCAACACGAATT
1 TAAATTCGCAACACGAATT
*
244603 TAATTTCGCAACA
1 TAAATTCGCAACA
244616 GGTTTTAGTT
Statistics
Matches: 104, Mismatches: 18, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.01
19 32 0.31
20 58 0.56
21 13 0.12
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.25
Consensus pattern (19 bp):
TAAATTCGCAACACGAATT
Found at i:244622 original size:18 final size:19
Alignment explanation
Indices: 244580--244634 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
244570 TCGCAACTAA
*
244580 ATTTTAAATTCGCAACACG
1 ATTTTAATTTCGCAACACG
*
244599 AATTTAATTTCGCAACA-G
1 ATTTTAATTTCGCAACACG
* *
244617 GTTTTAGTTTCGCAACAC
1 ATTTTAATTTCGCAACAC
244635 AAATGTTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (19 bp):
ATTTTAATTTCGCAACACG
Found at i:244792 original size:16 final size:16
Alignment explanation
Indices: 244771--244809 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
244761 TCCCCATCTC
* *
244771 TAATTTTTTTTTTACA
1 TAATTTTATTTCTACA
*
244787 TAATTTTATTTCTATA
1 TAATTTTATTTCTACA
244803 TAATTTT
1 TAATTTT
244810 GCAATGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTTTATTTCTACA
Found at i:247814 original size:18 final size:18
Alignment explanation
Indices: 247791--247826 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
247781 AAGCAAAAGG
*
247791 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
247809 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
247827 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:248233 original size:20 final size:22
Alignment explanation
Indices: 248208--248251 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
248198 ACAACGCTTA
248208 TTTCGCGTTGCG-AA-TTTACC
1 TTTCGCGTTGCGAAAGTTTACC
248228 TTTCGCGTTGCGAAAGTTTACC
1 TTTCGCGTTGCGAAAGTTTACC
248250 TT
1 TT
248252 CAACAGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 2 0.09
22 8 0.36
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (22 bp):
TTTCGCGTTGCGAAAGTTTACC
Found at i:248332 original size:14 final size:13
Alignment explanation
Indices: 248313--248362 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
248303 AATCAATTAA
248313 ACATTATTGTGGGT
1 ACATTATT-TGGGT
*
248327 ACATTATTT--GA
1 ACATTATTTGGGT
248338 ACATTATTATGGGT
1 ACATTATT-TGGGT
248352 ACATTATTTGG
1 ACATTATTTGG
248363 AAAATAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 9 0.29
12 1 0.03
13 4 0.13
14 17 0.55
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (13 bp):
ACATTATTTGGGT
Found at i:248340 original size:25 final size:25
Alignment explanation
Indices: 248312--248361 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
248302 AAATCAATTA
*
248312 AACATTATTGTGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
248337 AACATTATTATGGGTACATTATTTG
1 AACATTATTATGGGTACATTATTTG
248362 GAAAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (25 bp):
AACATTATTATGGGTACATTATTTG
Found at i:248766 original size:18 final size:18
Alignment explanation
Indices: 248745--248781 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
248735 ATGTAATTGG
*
248745 AGTTTGAATTTTAATTTC
1 AGTTTGAATTTGAATTTC
*
248763 AGTTTGAGTTTGAATTTC
1 AGTTTGAATTTGAATTTC
248781 A
1 A
248782 ATATAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.51
Consensus pattern (18 bp):
AGTTTGAATTTGAATTTC
Found at i:249944 original size:66 final size:64
Alignment explanation
Indices: 249873--250016 Score: 243
Period size: 66 Copynumber: 2.2 Consensus size: 64
249863 AATTTAAAAC
249873 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTACACATC-AATT
249938 A
64 A
* * *
249939 AACAAATCAACTTTTACAAATCAATTAAATAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
250003 AACAAATCAACTTT
1 AACAAATCAACTTT
250017 CAATGTAAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
64 19 0.25
65 23 0.31
66 33 0.44
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:251478 original size:42 final size:42
Alignment explanation
Indices: 251397--251495 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
251387 GCGGGCGGAA
* * * *
251397 CCTCTTGAACGATGACAGGGGCCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAAAGGGGCCTCTTGAACGATAGGAGGGG
* * *
251439 CTTCTTCG-ATGATGAAAGGGGCCTCTTGAATGATAGGAGGTG
1 CCTCTT-GAATGATGAAAGGGGCCTCTTGAACGATAGGAGGGG
251481 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
251496 TAGGTGCATC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 45 0.96
43 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGAAAGGGGCCTCTTGAACGATAGGAGGGG
Found at i:251502 original size:21 final size:21
Alignment explanation
Indices: 251397--251495 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
251387 GCGGGCGGAA
* *
251397 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAATGATGAGAGGGG
* * *
251418 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAGAGGGG
* *
251439 CTTCTTCG-ATGATGAAAGGGG
1 CCTCTT-GAATGATGAGAGGGG
*
251460 CCTCTTGAATGAT-AGGAGGTG
1 CCTCTTGAATGATGA-GAGGGG
251481 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
251496 TAGGTGCATC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
20 2 0.03
21 59 0.94
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Found at i:253167 original size:14 final size:14
Alignment explanation
Indices: 253150--253190 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
253140 AACTAAAATC
*
253150 GCGTTGCGATTTTT
1 GCGTTGCGATTTTG
253164 GCGTTGCGATTTTG
1 GCGTTGCGATTTTG
*
253178 GTGTTGCGATTTT
1 GCGTTGCGATTTT
253191 CATTTTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.07, C:0.12, G:0.32, T:0.49
Consensus pattern (14 bp):
GCGTTGCGATTTTG
Found at i:253217 original size:20 final size:20
Alignment explanation
Indices: 253178--253217 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
253168 TGCGATTTTG
* * *
253178 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
253198 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
253218 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:253589 original size:22 final size:22
Alignment explanation
Indices: 253547--253604 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
253537 GATGGAGATA
* *
253547 GACGGATTTCGCCCGTGATGGG
1 GACGGATTTCGTCGGTGATGGG
253569 GACGGATTTCGTCGGAT-ATGGG
1 GACGGATTTCGTCGG-TGATGGG
* *
253591 GTCGGATGTCGTCG
1 GACGGATTTCGTCG
253605 TAGAGAGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.14, C:0.19, G:0.41, T:0.26
Consensus pattern (22 bp):
GACGGATTTCGTCGGTGATGGG
Found at i:253732 original size:20 final size:20
Alignment explanation
Indices: 253707--253865 Score: 180
Period size: 20 Copynumber: 8.0 Consensus size: 20
253697 TAATATTGTG
*
253707 TTTCGCGTTGAGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
253727 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
253747 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
253767 TTTCGTGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
253787 TATCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
*
253807 TTAT-GTGTTGCG-ATTT-AC
1 TT-TCGCGTTGCGAATTTGAC
* * * *
253825 AAATTCGAGTTGTGAATTTCAC
1 --TTTCGCGTTGCGAATTTGAC
* *
253847 TATCGCATTGCGAATTTGA
1 TTTCGCGTTGCGAATTTGA
253866 GTTATGTGTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
18 2 0.02
19 5 0.04
20 104 0.88
21 5 0.04
22 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:253886 original size:60 final size:60
Alignment explanation
Indices: 253708--253889 Score: 226
Period size: 60 Copynumber: 3.0 Consensus size: 60
253698 AATATTGTGT
* * * *
253708 TTCGCGTTGAGAATTTGACTTTCGCGTTGCGAATTTGACTT-TCGCGTTGCGAATTTGAC--T
1 TTCGAGTTGAGAATTTGACTATCGCGTTGCGAATTTGACTTAT-GTGTTGCG-ATTT-ACAAA
* *
253768 TTCGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAA
1 TTCGAGTTGAGAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAA
* * * *
253828 TTCGAGTTGTGAATTTCACTATCGCATTGCGAATTTGAGTTATGTGTTGCGATTTACAAA
1 TTCGAGTTGAGAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAA
253888 TT
1 TT
253890 TGCGTTGCGA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
58 2 0.02
59 4 0.04
60 102 0.94
61 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (60 bp):
TTCGAGTTGAGAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAA
Done.