Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009386.1 Hibiscus syriacus cultivar Beakdansim tig00113277_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: 77595
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Found at i:1702 original size:17 final size:17
Alignment explanation
Indices: 1680--1722 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
1670 TGAAGCTCCA
* *
1680 AAGAAAGAATGAATAAG
1 AAGAAAGAAAGAAAAAG
*
1697 AAGAAAAAAAGAAAAAG
1 AAGAAAGAAAGAAAAAG
1714 AA-AAAGAAA
1 AAGAAAGAAA
1723 AAGAAAGAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (17 bp):
AAGAAAGAAAGAAAAAG
Found at i:1713 original size:6 final size:6
Alignment explanation
Indices: 1679--1728 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
1669 GTGAAGCTCC
* *
1679 AAAGAA AGAATGAA TAAGAA GAA-AA AAAGAA AAAGAA AAAGAA AAAGAA
1 AAAGAA A-AA-GAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
1728 A
1 A
1729 GAGGTTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 4 0.11
6 27 0.71
7 4 0.11
8 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAGAA
Found at i:2235 original size:20 final size:20
Alignment explanation
Indices: 2195--2249 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2185 TTCAAAAATG
*
2195 ATTTGATTTTG-AAAGCAAA
1 ATTTGATTTTGAAAAACAAA
2214 ATTTGATTTTGAAAAACAAA
1 ATTTGATTTTGAAAAACAAA
***
2234 ATGAAATTTTGAAAAA
1 ATTTGATTTTGAAAAA
2250 TGATTTTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.35
Consensus pattern (20 bp):
ATTTGATTTTGAAAAACAAA
Found at i:6772 original size:2 final size:2
Alignment explanation
Indices: 6752--6807 Score: 63
Period size: 2 Copynumber: 31.5 Consensus size: 2
6742 TAATTTTATT
6752 TA TA T- TA TA -A TA TA T- TA TA TA TA TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6789 TA TA TA -A TA -A TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
6808 GTCAATGATA
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
1 7 0.15
2 40 0.85
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6782 original size:28 final size:28
Alignment explanation
Indices: 6751--6807 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
6741 TTAATTTTAT
*
6751 TTATATTATA-ATATATTATATATATATA
1 TTATATTATATATATAATA-ATATATATA
6779 TTATATTATATATATAATAATATATATA
1 TTATATTATATATATAATAATATATATA
6807 T
1 T
6808 GTCAATGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATATTATATATATAATAATATATATA
Found at i:7262 original size:17 final size:17
Alignment explanation
Indices: 7210--7262 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 17
7200 TATGATTGTC
7210 ATTTTAAGTTGCAACCT
1 ATTTTAAGTTGCAACCT
***
7227 A-TTT-A-TTGCTGTC-
1 ATTTTAAGTTGCAACCT
7240 ATTTTAAGTTGCAACCT
1 ATTTTAAGTTGCAACCT
7257 ATTTTA
1 ATTTTA
7263 TGGGTTGCAC
Statistics
Matches: 26, Mismatches: 6, Indels: 8
0.65 0.15 0.20
Matches are distributed among these distances:
13 1 0.04
14 8 0.31
15 2 0.08
16 8 0.31
17 7 0.27
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.47
Consensus pattern (17 bp):
ATTTTAAGTTGCAACCT
Found at i:8122 original size:13 final size:14
Alignment explanation
Indices: 8087--8122 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8077 ATATATATAT
8087 ATTATTTTTTGAAA
1 ATTATTTTTTGAAA
**
8101 AACATTTTTTGAAA
1 ATTATTTTTTGAAA
8115 ATTATTTT
1 ATTATTTT
8123 AAAGTGGTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (14 bp):
ATTATTTTTTGAAA
Found at i:8332 original size:29 final size:32
Alignment explanation
Indices: 8295--8377 Score: 86
Period size: 34 Copynumber: 2.7 Consensus size: 32
8285 TATTATTATT
8295 AAAATATTATATCTA-TA-ATTTTA-T-AAATA
1 AAAATATTATAT-TATTATATTTTATTAAAATA
8324 AAAATATTATGATTATTATATTTTATTAAAAATA
1 AAAATATTAT-ATTATTATATTTTATT-AAAATA
* *
8358 AAAGTATTATA-AATTATATT
1 AAAATATTATATTATTATATT
8378 AATTATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
29 12 0.26
30 4 0.09
31 6 0.13
32 9 0.20
33 1 0.02
34 14 0.30
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (32 bp):
AAAATATTATATTATTATATTTTATTAAAATA
Found at i:8384 original size:34 final size:36
Alignment explanation
Indices: 8310--8426 Score: 93
Period size: 34 Copynumber: 3.2 Consensus size: 36
8300 ATTATATCTA
* *
8310 TAATT-TTATAAATAAAAATATTATGATTATTATAT
1 TAATTATTAAAAATAAAAATATTATGATAATTATAT
*
8345 T--TTATTAAAAATAAAAGTATTAT-A-AATTATAT
1 TAATTATTAAAAATAAAAATATTATGATAATTATAT
*
8377 TAATTATTTATTAAAATTAGAATAATA-TATTACTAATTATAT
1 TAATTA-TTA--AAAA-TA-AA-AATATTATGA-TAATTATAT
8419 TAATTATT
1 TAATTATT
8427 TAATAAATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
32 8 0.12
33 3 0.05
34 20 0.30
35 4 0.06
37 4 0.06
38 2 0.03
39 5 0.08
40 4 0.06
41 2 0.03
42 14 0.21
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (36 bp):
TAATTATTAAAAATAAAAATATTATGATAATTATAT
Found at i:8387 original size:38 final size:41
Alignment explanation
Indices: 8345--8433 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
8335 ATTATTATAT
8345 TTTATTAAAAATAAAAGT-AT-TA-TA-AATTATATTAATTA
1 TTTATTAAAAATAAAA-TAATATATTACAATTATATTAATTA
* *
8383 TTTATTAAAATTAGAATAATATATTACTAATTATATTAATTA
1 TTTATTAAAAATAAAATAATATATTAC-AATTATATTAATTA
*
8425 TTTAATAAA
1 TTTATTAAA
8434 TTAATATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
37 1 0.02
38 16 0.37
39 2 0.05
40 2 0.05
42 22 0.51
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (41 bp):
TTTATTAAAAATAAAATAATATATTACAATTATATTAATTA
Found at i:8407 original size:23 final size:23
Alignment explanation
Indices: 8362--8407 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
8352 AAAATAAAAG
* *
8362 TATTATAAATTATATTAATTATT
1 TATTATAAATTAGAATAATTATT
8385 TATTA-AAATTAGAATAATATATT
1 TATTATAAATTAGAATAAT-TATT
8408 ACTAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTATAAATTAGAATAATTATT
Found at i:8460 original size:9 final size:8
Alignment explanation
Indices: 8444--8487 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
8434 TTAATATTAT
8444 TATTAAAA
1 TATTAAAA
8452 TATTAAAA
1 TATTAAAA
*
8460 -ATTATAA
1 TATTAAAA
8467 TATTAAAA
1 TATTAAAA
**
8475 TAAAAAAA
1 TATTAAAA
8483 TATTA
1 TATTA
8488 TATTTAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TATTAAAA
Found at i:8468 original size:15 final size:15
Alignment explanation
Indices: 8445--8474 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8435 TAATATTATT
8445 ATTAAAATATTAAAA
1 ATTAAAATATTAAAA
*
8460 ATTATAATATTAAAA
1 ATTAAAATATTAAAA
8475 TAAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAAATATTAAAA
Found at i:8482 original size:23 final size:23
Alignment explanation
Indices: 8436--8496 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
8426 TTAATAAATT
**
8436 AATATTAT-TATTAAAATATTAA
1 AATATTATATATTAAAATAAAAA
8458 AA-ATTATAATATTAAAATAAAAA
1 AATATTAT-ATATTAAAATAAAAA
8481 AATATTATAT-TTAAAA
1 AATATTATATATTAAAA
8497 ATATATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.15
22 8 0.24
23 16 0.47
24 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATATTATATATTAAAATAAAAA
Found at i:8497 original size:23 final size:23
Alignment explanation
Indices: 8436--8499 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
8426 TTAATAAATT
*
8436 AATATTAT-TATTAAAATATTAAAA
1 AATATTATAT-TTAAAA-ATAAAAA
* *
8460 ATTATAATA-TT-AAAATAAAAA
1 AATATTATATTTAAAAATAAAAA
8481 AATATTATATTTAAAAATA
1 AATATTATATTTAAAAATA
8500 TATATTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 13 0.41
22 5 0.16
23 8 0.25
24 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATATTATATTTAAAAATAAAAA
Found at i:8615 original size:14 final size:15
Alignment explanation
Indices: 8587--8626 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
8577 TATTATTAGC
8587 ATAATATATATTATA
1 ATAATATATATTATA
*
8602 TTAATATA-ATTATA
1 ATAATATATATTATA
*
8616 ATAATAAATAT
1 ATAATATATAT
8627 AAGCATTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATATATTATA
Found at i:9082 original size:64 final size:63
Alignment explanation
Indices: 8878--9085 Score: 217
Period size: 65 Copynumber: 3.2 Consensus size: 63
8868 TTTCAAAGTG
* **
8878 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCACCGATGCACC-ATACATGCATCGATGCACTC-TGG--TATTTTGAAACATCGAATGCATT
8941 TC
62 TC
* * *
8943 ATGCATCGATGCA-CATACTATGCCTCGATGCACTCAGAGT-TTTATGAAAACATCGAATGCATT
1 ATGCACCGATGCACCATAC-ATGCATCGATGCACTCTG-GTATTT-TG-AAACATCGAATGCATT
*
9006 TG
62 TC
**
9008 ATGCACCGATGCACCAGGCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTTC
1 ATGCACCGATGCACCATACATGCATCGATGCACTCTGG-TATTTTGAAACATCGAATGCATTTC
*
9072 ATGCATCGATGCAC
1 ATGCACCGATGCAC
9086 TCTTAGTGCA
Statistics
Matches: 120, Mismatches: 14, Indels: 19
0.78 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 46 0.38
65 61 0.51
66 6 0.05
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (63 bp):
ATGCACCGATGCACCATACATGCATCGATGCACTCTGGTATTTTGAAACATCGAATGCATTTC
Found at i:17449 original size:65 final size:64
Alignment explanation
Indices: 17332--17535 Score: 200
Period size: 65 Copynumber: 3.2 Consensus size: 64
17322 TTTCAAAGTG
* * * ** *
17332 ATGCACCGATGCACCAATCCATGTATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATC
1 ATGCATCGATGCACCAA-CCATGCATCGATGCACTCA--GATTATTTTGAAACATCGAATGCATT
17395 TC
63 TC
* *
17397 ATGCATCGATGCA-CATACTATGCATCGATGCACTCAGATT-TTTATGAAAACATCGAATGTATT
1 ATGCATCGATGCACCA-ACCATGCATCGATGCACTCAGATTATTT-TG-AAACATCGAATGCATT
*
17460 TG
63 TC
* * * * *
17462 ATGCATCGATGCACCAGCCATGTATCGATGCACTCTGGTTATTTTGAAACATCGAATGCCTTTC
1 ATGCATCGATGCACCAACCATGCATCGATGCACTCAGATTATTTTGAAACATCGAATGCATTTC
17526 ATGCATCGAT
1 ATGCATCGAT
17536 CCACTCTTAG
Statistics
Matches: 115, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 41 0.36
65 63 0.55
66 5 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (64 bp):
ATGCATCGATGCACCAACCATGCATCGATGCACTCAGATTATTTTGAAACATCGAATGCATTTC
Found at i:20468 original size:28 final size:28
Alignment explanation
Indices: 20423--20479 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
20413 TCGTCGTTAC
*
20423 TTTCAAACATTAGCTCAACGATATAATG
1 TTTCAAACACTAGCTCAACGATATAATG
*
20451 TTTCAAACACTAGTTCAACGATATAATG
1 TTTCAAACACTAGCTCAACGATATAATG
20479 T
1 T
20480 AAACAGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (28 bp):
TTTCAAACACTAGCTCAACGATATAATG
Found at i:21076 original size:15 final size:16
Alignment explanation
Indices: 21037--21080 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
21027 ACATGTAAAG
*
21037 ATTTTTTCAAAAAATT
1 ATTTTTTTAAAAAATT
* *
21053 ATATTTTTAAATAA-T
1 ATTTTTTTAAAAAATT
21068 ATTTTTTTAAAAA
1 ATTTTTTTAAAAA
21081 TCTAGATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTTTTAAAAAATT
Found at i:24036 original size:132 final size:132
Alignment explanation
Indices: 23799--24057 Score: 455
Period size: 132 Copynumber: 2.0 Consensus size: 132
23789 TTTAAGAGTG
23799 ATAATACAATTATGCAAATACATGCTTTGTTATCTTAGTAGTTTGATGCTGCTGTTAGCACACTG
1 ATAATACAATTATGCAAATACATGCTTTGTTATCTTAGTAGTTTGATGCTGCTGTTAGCACACTG
*
23864 ACAGAAGTTCTCTCTCCTTTTTCCTGTTTTTGGTGAAAGCGTTGAGCTTATTGTCATTTTTTTAG
66 ACAGAAGTTCTCTCTCCTTTTCCCTGTTTTTGGTGAAAGCGTTGAGCTTATTGTCATTTTTTTAG
23929 TA
131 TA
** * *
23931 ATAATACAATTATGCAAATATGTGCTTTGTTATCTTAGTAGTTTGATGCTTCTGTTAGCTCACTG
1 ATAATACAATTATGCAAATACATGCTTTGTTATCTTAGTAGTTTGATGCTGCTGTTAGCACACTG
* *
23996 GCAGAAGTTCTTTCTCCTTTTCCCTGTTTTTGGTGAAAGCGTTGAGCTTATTGTCATTTTTT
66 ACAGAAGTTCTCTCTCCTTTTCCCTGTTTTTGGTGAAAGCGTTGAGCTTATTGTCATTTTTT
24058 GAGGCTCTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (132 bp):
ATAATACAATTATGCAAATACATGCTTTGTTATCTTAGTAGTTTGATGCTGCTGTTAGCACACTG
ACAGAAGTTCTCTCTCCTTTTCCCTGTTTTTGGTGAAAGCGTTGAGCTTATTGTCATTTTTTTAG
TA
Found at i:32838 original size:14 final size:15
Alignment explanation
Indices: 32821--32852 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32811 AATTAATCGA
32821 ATTAAATT-AGTTCG
1 ATTAAATTCAGTTCG
32835 ATT-AATTCAGTTCG
1 ATTAAATTCAGTTCG
32849 ATTA
1 ATTA
32853 TCGAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (15 bp):
ATTAAATTCAGTTCG
Found at i:33119 original size:40 final size:37
Alignment explanation
Indices: 33074--33160 Score: 86
Period size: 40 Copynumber: 2.2 Consensus size: 37
33064 TTAATTAAAA
* *
33074 AAATTATATAAAATGTTTATTTTATAATTATATATTATTT
1 AAATTATATAAAATGTTT-TTTT-TAATTAAAAATTA-TT
* *
33114 AAATTAATTGTAAACTGTTTTTTTTAATTAAAAATTATT
1 AAATT-A-TATAAAATGTTTTTTTTAATTAAAAATTATT
33153 AAA-TATAT
1 AAATTATAT
33161 TATATATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 1 0.03
39 5 0.12
40 16 0.40
41 5 0.12
42 10 0.25
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (37 bp):
AAATTATATAAAATGTTTTTTTTAATTAAAAATTATT
Found at i:33281 original size:186 final size:185
Alignment explanation
Indices: 32963--33332 Score: 553
Period size: 186 Copynumber: 2.0 Consensus size: 185
32953 AAATTTTAAA
* * *
32963 TATTAAATATTTTATATATAACATATAGGTTCAGCCCAAACAATTTAAAACACAATTAATAATTT
1 TATTAAATATATTATATATAACATATAGGCTAAGCCCAAACAATTTAAAACACAATTAATAATTT
* * *
33028 AAGATCAAATAATTTTTAAACTTAAATTAATATTAATTAATTAAAAAAATTATATAAAATGTTTA
66 AAGATCAAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATGTTTA
* *
33093 TTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTTAATTAAAAAT
131 TTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTTGAATTAAAAAT
* * **
33149 TATTAAATATATTATATATAATATAT-GAGCTAAGCCCAAACCATTTAAAACTTAATTAATAATT
1 TATTAAATATATTATATATAACATATAG-GCTAAGCCCAAACAATTTAAAACACAATTAATAATT
* * * * * *
33213 TAAGGTCTAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTTTT
65 TAAGATCAAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATGTTT
33278 ATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAA
130 ATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAA
33333 ACATTTAATT
Statistics
Matches: 165, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
185 17 0.10
186 148 0.90
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (185 bp):
TATTAAATATATTATATATAACATATAGGCTAAGCCCAAACAATTTAAAACACAATTAATAATTT
AAGATCAAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAAATTATATAAAATGTTTA
TTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAAAAT
Found at i:35516 original size:114 final size:114
Alignment explanation
Indices: 35316--35544 Score: 431
Period size: 114 Copynumber: 2.0 Consensus size: 114
35306 ACTATTGCAG
*
35316 GTTGTTCCTTTGAACTACTTTCCCTTTAAAGGTCATTGAGGTGCCAAAAAATAGTTACAAACTCA
1 GTTGTTCCTTTGAACTACTTTCCCTTTAAAGGTCATTGAGGTGCCAAAAAATACTTACAAACTCA
35381 TAAGACGACCCTGAGCCACACGAACGGGAAGCAGATAAAGGATCAAAAA
66 TAAGACGACCCTGAGCCACACGAACGGGAAGCAGATAAAGGATCAAAAA
35430 GTTGTTCCTTTGAACTACTTTCCCTTTAAAGGTCATTGAGGTGCCAAAAAATACTTACAAACTCA
1 GTTGTTCCTTTGAACTACTTTCCCTTTAAAGGTCATTGAGGTGCCAAAAAATACTTACAAACTCA
* *
35495 TAAGACGACCCTGAGTCACACGAACTGGAAGCAGATAAAGGATCAAAAA
66 TAAGACGACCCTGAGCCACACGAACGGGAAGCAGATAAAGGATCAAAAA
35544 G
1 G
35545 CATTAACTAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (114 bp):
GTTGTTCCTTTGAACTACTTTCCCTTTAAAGGTCATTGAGGTGCCAAAAAATACTTACAAACTCA
TAAGACGACCCTGAGCCACACGAACGGGAAGCAGATAAAGGATCAAAAA
Found at i:37862 original size:22 final size:22
Alignment explanation
Indices: 37813--37865 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
37803 AAATTGAAAG
*
37813 AATGTATAAATATCGAGGATAA
1 AATGTGTAAATATCGAGGATAA
*
37835 AATGTGTAAATATTGAGGATAA
1 AATGTGTAAATATCGAGGATAA
37857 AATGTGTAA
1 AATGTGTAA
37866 TTATACCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.30
Consensus pattern (22 bp):
AATGTGTAAATATCGAGGATAA
Found at i:38993 original size:194 final size:192
Alignment explanation
Indices: 38554--39178 Score: 824
Period size: 194 Copynumber: 3.2 Consensus size: 192
38544 TTGAAATTTG
* * * *
38554 TATCGATACTTTTCTAAGTATATGCATCAAATTATCGATACTTTATGAATTTAAAAGAATTGCAA
1 TATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAAGAATTTAAAAGAATTGCAA
* * * * * *
38619 TAATAACTCCTATAAAGTATAGAGACATTAGAAACATGTATTAATACATAACAACATAA-ATGTT
66 TAATAGCACCTATAAAGTATCGATACTTTAGAAACATGTATCAATACATAACAACATAACATGTT
* * * * * *
38683 AAAATATAAGAAAATCGGTTTCCATATGACAAAACCAGTAAAGAACTATCGGATATGTTGAAAA
131 AAAATATGACAAAAT-GGTTTCAATATGAC-AAATCAGTAAAGAGCTACCGGATATGTTGAAAA
*
38747 TATTGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAAGAATTTAAAAGAATTGCAA
1 TATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAAGAATTTAAAAGAATTGCAA
* * * * * *
38812 TAATAGCGCTTATAAAGTATCGATATTTTATAAACATGTATCGATACATAACAACATAACAGGTT
66 TAATAGCACCTATAAAGTATCGATACTTTAGAAACATGTATCAATACATAACAACATAACATGTT
**
38877 AAAATATGACAAAATAGGTTTCAATATGACAAATCTAGTAAAGAGCTACCGGATATGTTGAAGG
131 AAAATATGACAAAAT-GGTTTCAATATGACAAATC-AGTAAAGAGCTACCGGATATGTTGAAAA
* * * *
38941 TATCGGTACTTTTATAAGTATATGTATCATATTATCAATACTCTAGGAATTTAAAAGAATTGCAA
1 TATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAAGAATTTAAAAGAATTGCAA
* * ** * *
39006 TAATAGCACCTATAAAATATCGATCCTTTAGAAACACATATCAATACATGAA-AATATATCATGT
66 TAATAGCACCTATAAAGTATCGATACTTTAGAAACATGTATCAATACAT-AACAACATAACATGT
*
39070 TAAAATATGACAAAACTGGTTTCAATATGACAAAATCGGTAAA-ACGCTACCGGATATGTTGAAA
130 TAAAATATGACAAAA-TGGTTTCAATATGAC-AAATCAGTAAAGA-GCTACCGGATATGTTGAAA
39134 A
192 A
*
39135 TATCAATACTTTTATAAGTATATGTATCATATTATCGATACTTT
1 TATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTT
39179 TAAAAGAAAA
Statistics
Matches: 377, Mismatches: 49, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
193 114 0.30
194 255 0.68
195 8 0.02
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (192 bp):
TATCGATACTTTTATAAGTATATGTATCATATTATCGATACTTTAAGAATTTAAAAGAATTGCAA
TAATAGCACCTATAAAGTATCGATACTTTAGAAACATGTATCAATACATAACAACATAACATGTT
AAAATATGACAAAATGGTTTCAATATGACAAATCAGTAAAGAGCTACCGGATATGTTGAAAA
Found at i:39893 original size:230 final size:230
Alignment explanation
Indices: 39477--39893 Score: 624
Period size: 230 Copynumber: 1.8 Consensus size: 230
39467 AAATAGAGGT
* **
39477 TTTATGGGTTTGGGGTTTTCAAAGTAAAAAAGCATTTGAGACCGATGACATGTAGAAAGTAATAT
1 TTTATGGGTTTGGGATTTTCAAAACAAAAAAGCATTTGAGACCGATGACATGTAGAAAGTAATAT
* * *
39542 TCTGGGTAGAAAATAAATATCGATACTTTTATATAATATTATAGGTAGAAAATGATATTGTACAT
66 TATGGGTAGAAAATAAATATCGATACTTGTATATAATATTATAGGTAGAAAATGATATTATACAT
* *
39607 TGTATAAATGTACTGATACTTGTAGTAGAGAGTATTCCCATTCATTTGACGGAAACCCTAGTTTT
131 TGTATAAATGTACCGATACTTGTAGTAGAGAGTATTCCCATTCATTTGAAGGAAACCCTAGTTTT
39672 TTTAGTATTATAGTATTTAGAAATAGGGATTAGGG
196 TTTAGTATTATAGTATTTAGAAATAGGGATTAGGG
* * * * * *
39707 TTTATGGGTTTGAGGATTTT-AAAACAAAGAAGGATTTGGGACCGATTAGA-GTTAGAAAGTGAT
1 TTTATGGGTTTG-GGATTTTCAAAACAAAAAAGCATTTGAGACCGATGACATG-TAGAAAGTAAT
* *
39770 ATTATGGGTAGAAAATAAATATTGATACTTGTATATAATATTATAGGTAGAAAATGATATTATAG
64 ATTATGGGTAGAAAATAAATATCGATACTTGTATATAATATTATAGGTAGAAAATGATATTATAC
* *
39835 GTTGTATAAATGTACCGATACTTGTAGTAGAGAGTATTCCGATTCCA-TTGAAGGAAACC
129 ATTGTATAAATGTACCGATACTTGTAGTAGAGAGTATTCCCATT-CATTTGAAGGAAACC
39894 ATTTTACTAT
Statistics
Matches: 166, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
229 1 0.01
230 157 0.95
231 8 0.05
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (230 bp):
TTTATGGGTTTGGGATTTTCAAAACAAAAAAGCATTTGAGACCGATGACATGTAGAAAGTAATAT
TATGGGTAGAAAATAAATATCGATACTTGTATATAATATTATAGGTAGAAAATGATATTATACAT
TGTATAAATGTACCGATACTTGTAGTAGAGAGTATTCCCATTCATTTGAAGGAAACCCTAGTTTT
TTTAGTATTATAGTATTTAGAAATAGGGATTAGGG
Found at i:43994 original size:19 final size:20
Alignment explanation
Indices: 43965--44006 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
43955 TAGAATTTCT
*
43965 AAACAGGTTAAAATTTGACA
1 AAACAGGTTAAAATGTGACA
43985 AAAC-GGTTAAAATGTGACA
1 AAACAGGTTAAAATGTGACA
44004 AAA
1 AAA
44007 TTGATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.10, G:0.17, T:0.21
Consensus pattern (20 bp):
AAACAGGTTAAAATGTGACA
Found at i:44614 original size:19 final size:19
Alignment explanation
Indices: 44590--44628 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
44580 TCGAATGCAT
*
44590 TCCATGCACCGATGCACTC
1 TCCATGCACCGATACACTC
*
44609 TCCATGCATCGATACACTC
1 TCCATGCACCGATACACTC
44628 T
1 T
44629 GAATTTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATACACTC
Found at i:44727 original size:64 final size:63
Alignment explanation
Indices: 44527--44736 Score: 217
Period size: 65 Copynumber: 3.3 Consensus size: 63
44517 TATTCAAAGG
* *
44527 CATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAATTAATTGAACATCGAATGCATT
1 CATGCACCGATGCA-CAAG-CCATGCATCGATGCATC-ATGAATTTATTAAACATCGAATGCATT
*
44591 C
63 T
*** * *
44592 CATGCACCGATGCACTCTCCATGCATCGATACACTC-TGAATTTTTTCAAAACATCGAATGCATT
1 CATGCACCGATGCACAAGCCATGCATCGATGCA-TCATGAATTTATT--AAACATCGAATGCATT
44656 T
63 T
* * * * *
44657 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTTAAACATCGAATGCATTT
1 CATGCACCGATGCACAAGCCATGCATCGATGCATCATG-AATTTATTAAACATCGAATGCATTT
*
44721 CATGCATCGATGCACA
1 CATGCACCGATGCACA
44737 CTTGGTGCAC
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
63 8 0.07
64 49 0.40
65 59 0.48
66 6 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (63 bp):
CATGCACCGATGCACAAGCCATGCATCGATGCATCATGAATTTATTAAACATCGAATGCATTT
Found at i:50546 original size:20 final size:21
Alignment explanation
Indices: 50517--50572 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
50507 TTTGTGCTTC
*
50517 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
50537 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
50559 ATGCATCGATGCAT
1 ATGCATCGATGCAT
50573 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:52141 original size:21 final size:21
Alignment explanation
Indices: 52099--52142 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
52089 ACCCCGGGAG
*
52099 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
52120 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
52141 CT
1 CT
52143 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:52521 original size:8 final size:8
Alignment explanation
Indices: 52482--52519 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
52472 TGTTTATGTT
52482 TGTTTGGA
1 TGTTTGGA
52490 TGTTTGGA
1 TGTTTGGA
52498 TGTTTGGA
1 TGTTTGGA
* *
52506 TGCTTGAA
1 TGTTTGGA
52514 TGTTTG
1 TGTTTG
52520 AACTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.13, C:0.03, G:0.34, T:0.50
Consensus pattern (8 bp):
TGTTTGGA
Found at i:53204 original size:19 final size:19
Alignment explanation
Indices: 53180--53218 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
53170 TTGAATGCAT
53180 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
53199 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
53218 T
1 T
53219 GAATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:53317 original size:64 final size:63
Alignment explanation
Indices: 53117--53326 Score: 217
Period size: 65 Copynumber: 3.3 Consensus size: 63
53107 TATTCAAAGG
* * *
53117 CATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAATTAATTGAACATTGAATGCATT
1 CATGCACCGATGCA-CAAG-CCATGCATCGATGCATC-ATGAATTTATTAAACATCGAATGCATT
*
53181 C
63 T
*** *
53182 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGAATTTTTTCAAAACATCGAATGCATT
1 CATGCACCGATGCACAAGCCATGCATCGATGCA-TCATGAATTTATT--AAACATCGAATGCATT
53246 T
63 T
* * * * *
53247 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTTAAACATCGAATGCATTT
1 CATGCACCGATGCACAAGCCATGCATCGATGCATCATG-AATTTATTAAACATCGAATGCATTT
*
53311 CATGCATCGATGCACA
1 CATGCACCGATGCACA
53327 CTTGGTGTAC
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
63 8 0.07
64 50 0.41
65 59 0.48
66 6 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
CATGCACCGATGCACAAGCCATGCATCGATGCATCATGAATTTATTAAACATCGAATGCATTT
Found at i:57204 original size:262 final size:266
Alignment explanation
Indices: 56731--57214 Score: 708
Period size: 262 Copynumber: 1.8 Consensus size: 266
56721 TCTCGATACT
*
56731 TTAATTCCACATAAAGGCACAAACAATCTGCACGCAAAATATATCGATACACACACACATACATA
1 TTAATTCCACATAAAGGCACAAACAATATGCACGCAAAATATATC---ACACACACACA-ACATA
* * *
56796 TATTATTTTCATACTTATAATTTCAAAACCTATTACTTTTAAGTAATAGGTTAATTGACAATGAA
62 TATTATTTCCATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGATTAATTGACAATGAA
56861 AACGGTTAAAGTCAATCGGTATCATGATAATATGAGAAAACAATGTACACGATAATATGTTAATA
127 AACGGTTAAAGTCAATCGGTATCATGATAATATGAGAAAACAATGTACACGATAATATGTTAATA
56926 AAGCTTGATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCCGTTCTAAGGCTCCATCAGCT
192 AAGCTTGATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCCGTTCTAAGGCTCCATCAGCT
56991 TTAACATTTG
257 TTAACATTTG
* * * * *
57001 TTAATTCCACTTAAAGGCTCAAACAATATGGACGTAAAATGTATC-CACACACAC-ACATATA-T
1 TTAATTCCACATAAAGGCACAAACAATATGCACGCAAAATATATCACACACACACAACATATATT
* ** ** *
57063 A-TTCCATATTTATAATTTTGAAACCTATTACTTTAAAGTAATAGATTAATTTCCAATGAAAATG
66 ATTTCCATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGATTAATTGACAATGAAAACG
* * * * *
57127 GTTAAAGTTAATCGGTATCATGATAATATGCGTAAACAATGTACATTG-TAATATGTTGATAAAG
131 GTTAAAGTCAATCGGTATCATGATAATATGAGAAAACAATGTACA-CGATAATATGTTAATAAAG
57191 CTTGATAACAAATCAAGTAATTAA
195 CTTGATAACAAATCAAGTAATTAA
57215 CTAGTGATGT
Statistics
Matches: 193, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
262 135 0.70
263 3 0.02
264 7 0.04
266 9 0.05
270 39 0.20
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.32
Consensus pattern (266 bp):
TTAATTCCACATAAAGGCACAAACAATATGCACGCAAAATATATCACACACACACAACATATATT
ATTTCCATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGATTAATTGACAATGAAAACG
GTTAAAGTCAATCGGTATCATGATAATATGAGAAAACAATGTACACGATAATATGTTAATAAAGC
TTGATAACAAATCAAGTAATTAATCGGTTATGTTATCGTCCGTTCTAAGGCTCCATCAGCTTTAA
CATTTG
Found at i:57587 original size:108 final size:108
Alignment explanation
Indices: 57432--58041 Score: 417
Period size: 108 Copynumber: 5.5 Consensus size: 108
57422 TAATGTTTAC
** * * * *
57432 AGTAATTAACCGGTTATGTTATCGTCAGATTT-CTAAGGCTCCATCAGCTTAAACTTTGGTAACA
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCT-CATCAGCTTAAACTTTGGTAACA
57496 TTTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTA
65 TTTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTA
* * *** *
57540 AGTAATTAACCTATTTTGTTACCATCGGATTTCCAAAGCCTCATCAGCTTTAAA-AAGGCGCTAC
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCTCATCAGC-TTAAACTTTG-G-TAA
* * * ** * * * *
57604 CTATTACGTTACATAAGCGCTACCTAATATGTTG-TTATGTTTGATAA-TATTTCC
63 C-A-T---TT---TAGGCGTTACCTAATATGTTGATAAT-ACTAATAACAAATT-A
** * * * *
57658 AGTAATTAACCGGTTATGTTATCGTTGGATTT-CTAAGGCTCCATCAGCTTAAACTTTGGTAACA
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCT-CATCAGCTTAAACTTTGGTAACA
*
57722 TTTTAGGAGTTACCTAATATGTTGATAATACTAATAACAAATTA
65 TTTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTA
* * * *** * *
57766 AGTAATTAACCTATTTTTTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAAAGGTGCTACC
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCTCATCAGC-TT-AAACTTTGGTAAC
* * * * * **** *
57831 TATTACGTTACATAAGCGCTACCTAATATGTT-ATTATGCTTGATAATGTTTTC
64 -A-T---TT---TAGGCGTTACCTAATATGTTGATAATAC-TAATAACAAATTA
* * * ** *
57884 AGTAATTAACC-AGTTATGTTATCGTCAGA-TTCCTAAGGTTGCATCAGCTTAAATTTTGGTAAC
1 AGTAATTAACCTA-TTTTGTTATCGTCGGATTTCCAAAGCCT-CATCAGCTTAAACTTTGGTAAC
*
57947 ATTTTAGGCGTTACCTAATATGTTCATAATACTAATAACAAATTA
64 ATTTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTA
* *
57992 AGTAATTAACCTATTTTGTTATCGTCGGATTTCCATAGCCCCATCAGCTT
1 AGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCTCATCAGCTT
58042 TAAAAATGCG
Statistics
Matches: 369, Mismatches: 98, Indels: 70
0.69 0.18 0.13
Matches are distributed among these distances:
108 149 0.40
109 37 0.10
110 11 0.03
111 6 0.02
112 2 0.01
114 2 0.01
115 6 0.02
116 11 0.03
117 33 0.09
118 112 0.30
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (108 bp):
AGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCTCATCAGCTTAAACTTTGGTAACAT
TTTAGGCGTTACCTAATATGTTGATAATACTAATAACAAATTA
Found at i:57603 original size:226 final size:225
Alignment explanation
Indices: 57239--58135 Score: 1335
Period size: 226 Copynumber: 4.0 Consensus size: 225
57229 GTTGTATTCT
* * * * * *
57239 TAAGGCTCCATTAGCTTAAATTTTGTTAACATTTTAGGCATTACCTAATATGTTGATAATATTGA
1 TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAA
* * * * * * * * *
57304 TAACAAATTAAATAATTAACATATTTTGTTATCGTTGGATTTCTAAGGTCCTATCAACTTCAATA
66 TAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAA
* * * *
57369 ATGCGCTACCTATTACGTTACATAAGTGCTACCTAATATGTTATTATTCTTAATAATGTTTACAG
131 AGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTT-CAG
57434 TAATTAACCGGTTATGTTATCGTCAGATTTC
195 TAATTAACCGGTTATGTTATCGTCAGATTTC
57465 TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAA
1 TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAA
* * * *
57530 TAACAAATTAAGTAATTAACCTATTTTGTTACCATCGGATTTCCAAAGCCTCATCAGCTTTAAAA
66 TAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAA
* * *
57595 AGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTGTTATGTTTGATAATATTTCCAG
131 AGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTT-CAG
**
57660 TAATTAACCGGTTATGTTATCGTTGGATTTC
195 TAATTAACCGGTTATGTTATCGTCAGATTTC
*
57691 TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGAGTTACCTAATATGTTGATAATACTAA
1 TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAA
*
57756 TAACAAATTAAGTAATTAACCTATTTTTTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAA
66 TAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAA
*
57821 AGGTGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTTCAG
131 AGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATG-TTTCAG
* *
57886 TAATTAACCAGTTATGTTATCGTCAGATTCC
195 TAATTAACCGGTTATGTTATCGTCAGATTTC
* * * *
57917 TAAGGTTGCATCAGCTTAAATTTTGGTAACATTTTAGGCGTTACCTAATATGTTCATAATACTAA
1 TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAA
* *
57982 TAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCCATAGCCCCATCAGCTTTAAAA
66 TAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAA
* * * * * * *
58047 ATGCGTTACCTATTACATTATATAAGCGCTACCGAATATATTATTATGCTTGATAATGTTTCTAA
131 AGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTC-AG
*
58112 TAATTAACTGGTTATGTTATCGTC
195 TAATTAACCGGTTATGTTATCGTC
58136 TATATTTTTT
Statistics
Matches: 608, Mismatches: 61, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
225 4 0.01
226 601 0.99
227 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (225 bp):
TAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAATATGTTGATAATACTAA
TAACAAATTAAGTAATTAACCTATTTTGTTATCGTCGGATTTCCAAAGCCCCATCAACTTTAAAA
AGGCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCAGT
AATTAACCGGTTATGTTATCGTCAGATTTC
Found at i:60120 original size:30 final size:30
Alignment explanation
Indices: 60084--60152 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
60074 ATCATATTCG
60084 ATTTAAAGGACCAAAACAG-CAAAAATAGAA
1 ATTTAAAGGACCAAAA-AGTCAAAAATAGAA
* * *
60114 ATTTAAAGGACTAAAATGTTAAAAATAGAA
1 ATTTAAAGGACCAAAAAGTCAAAAATAGAA
*
60144 ACTTAAAGG
1 ATTTAAAGG
60153 GTTAAAACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (30 bp):
ATTTAAAGGACCAAAAAGTCAAAAATAGAA
Found at i:61774 original size:23 final size:23
Alignment explanation
Indices: 61735--61801 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 23
61725 TTGGCCTACA
*
61735 AAAT-ATAA-AATGTAAATTAAT
1 AAATAATAATAATATAAATTAAT
61756 AAATAATAATAATATAAA-T-A-
1 AAATAATAATAATATAAATTAAT
61776 AAATAATAAT-A-ATAAATTAAT
1 AAATAATAATAATATAAATTAAT
61797 AAATA
1 AAATA
61802 TTTTTTGTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.12
19 2 0.05
20 11 0.28
21 10 0.25
22 5 0.12
23 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (23 bp):
AAATAATAATAATATAAATTAAT
Found at i:61798 original size:14 final size:14
Alignment explanation
Indices: 61747--61798 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
61737 ATATAAAATG
61747 TAAATTAATAAATAA
1 TAAATTAAT-AATAA
61762 T-AA-TAAT-ATAAA
1 TAAATTAATAAT-AA
*
61774 TAAAATAATAATAA
1 TAAATTAATAATAA
61788 TAAATTAATAA
1 TAAATTAATAA
61799 ATATTTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
11 2 0.06
12 3 0.09
13 6 0.19
14 18 0.56
15 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATTAATAATAA
Found at i:62151 original size:83 final size:83
Alignment explanation
Indices: 62003--62223 Score: 255
Period size: 83 Copynumber: 2.7 Consensus size: 83
61993 TAACATGGCT
62003 CCTACGTGATGAGGAGATCTGGTCAGTGGATGACACAGTTCCTACGTGATGAGGAAGACTAGTTA
1 CCTACGTGATGAGGAGATCTGGTCAGTGGATGACACAGTTCCTACGTGATGAGGAAGACTAGTTA
62068 TCTACAGGTGACAGGGCC
66 TCTACAGGTGACAGGGCC
* * ** * * * *
62086 CCTACGTGTTGAGGAGGTCTGGTC-GATGGATGACATGGTTCCTACGTGATGAGTACGGCTGGTT
1 CCTACGTGATGAGGAGATCTGGTCAG-TGGATGACACAGTTCCTACGTGATGAGGAAGACTAGTT
** * *
62150 ATCTAGGGGTGACACGGCT
65 ATCTACAGGTGACAGGGCC
* * * * * **
62169 CTTATGTAATGAGGAGATCTGGTCAGGGGATAACACAGTTCCTACACGATGAGGA
1 CCTACGTGATGAGGAGATCTGGTCAGTGGATGACACAGTTCCTACGTGATGAGGA
62224 TAGCAGTAAT
Statistics
Matches: 112, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
82 1 0.01
83 110 0.98
84 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (83 bp):
CCTACGTGATGAGGAGATCTGGTCAGTGGATGACACAGTTCCTACGTGATGAGGAAGACTAGTTA
TCTACAGGTGACAGGGCC
Found at i:62484 original size:132 final size:131
Alignment explanation
Indices: 62248--62536 Score: 354
Period size: 132 Copynumber: 2.2 Consensus size: 131
62238 AGGGATTTTG
* *
62248 GTTTCAAGAGAAACCAACTCAAAGA-TGATTTTCCCAAAGAAACTGTCTCAATGGAGACAAAACT
1 GTTTCAAGAGAAA-CAACTCAAAGATTGATGTTCCAAAAGAAACTGTCTCAATGGAGACAAAACT
*
62312 TTGTTTCAAGGGAAACAAATCAAATATAAGAGTTTCAAGAGAAACTGTCTCAATAGAGACAAAAC
65 TTGTTTCAAGGGAAACAAATCAAATATAAGAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
62377 TT
130 TT
*
62379 GTTTCACGAGAAACAGACTCAAAGATTTG-TGTTCCAAAAGAAACTGTCTCAA-GAGAGACAAAA
1 GTTTCAAGAGAAACA-ACTCAAAGA-TTGATGTTCCAAAAGAAACTGTCTCAATG-GAGACAAAA
* * * ** * *
62442 C-TTGTTTTAAGTGAAACATACTCAAAGT-TTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
63 CTTTGTTTCAAGGGAAACA-AATCAAA-TATAAGAGTTTCAAGAGAAACTGTCTCAAGAGAGACA
*
62505 AAATTT
126 AAACTT
* *
62511 GTTCCAATAGAAACAAACTCAAAGAT
1 GTTTCAAGAGAAAC-AACTCAAAGAT
62537 GATTTTTGTT
Statistics
Matches: 136, Mismatches: 15, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
130 2 0.01
131 38 0.28
132 92 0.68
133 4 0.03
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (131 bp):
GTTTCAAGAGAAACAACTCAAAGATTGATGTTCCAAAAGAAACTGTCTCAATGGAGACAAAACTT
TGTTTCAAGGGAAACAAATCAAATATAAGAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
T
Found at i:62534 original size:66 final size:66
Alignment explanation
Indices: 62248--62534 Score: 300
Period size: 66 Copynumber: 4.4 Consensus size: 66
62238 AGGGATTTTG
* *
62248 GTTTCAAGAGAAACCAACTCAAAG--ATGAT-TTTCCCAA-AGAAACTGTCTCAATG-GAGACAA
1 GTTTCAAGAGAAACAAACTCAAAGTTTTG-TGTTT--CAAGAGAAACTGTCTCAA-GAGAGACAA
62308 AACTTT
62 AAC-TT
* ** * *
62314 GTTTCAAGGGAAACAAA-TCAAA-TATAAGAGTTTCAAGAGAAACTGTCTCAATAGAGACAAAAC
1 GTTTCAAGAGAAACAAACTCAAAGT-TTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
62377 TT
65 TT
* * * * *
62379 GTTTCACGAGAAACAGACTCAAAGATTTGTGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAACT
1 GTTTCAAGAGAAACAAACTCAAAGTTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
62444 T
66 T
* * * * *
62445 GTTTTAAGTGAAACATACTCAAAGTTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 GTTTCAAGAGAAACAAACTCAAAGTTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
62510 T
66 T
* *
62511 GTTCCAATAGAAACAAACTCAAAG
1 GTTTCAAGAGAAACAAACTCAAAG
62535 ATGATTTTTG
Statistics
Matches: 184, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
65 24 0.13
66 155 0.84
67 5 0.03
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (66 bp):
GTTTCAAGAGAAACAAACTCAAAGTTTTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACT
T
Found at i:62673 original size:35 final size:36
Alignment explanation
Indices: 62577--62681 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 36
62567 TTCGAATTTG
* *
62577 TGTTTTAAAGAAAAAATGTCTCAAGCAAGACAAAATT
1 TGTTTTAGAG-AAAAATGTCTCAAGCGAGACAAAATT
* * *
62614 TGTTTTGAGAGAAAAATATTTCAAGTGAGACAAAATT
1 TGTTTT-AGAGAAAAATGTCTCAAGCGAGACAAAATT
* *
62651 TGTTTT-TAGAAAATTGTCTCAAGCGAGACAA
1 TGTTTTAGAGAAAAATGTCTCAAGCGAGACAA
62682 CACTTTGTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 20 0.35
37 34 0.60
38 3 0.05
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (36 bp):
TGTTTTAGAGAAAAATGTCTCAAGCGAGACAAAATT
Found at i:65853 original size:16 final size:18
Alignment explanation
Indices: 65814--65854 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
65804 GTAAAAACCC
65814 TTTC-CTCTTTGTTATGT
1 TTTCTCTCTTTGTTATGT
65831 TTT-TCTCTTT-TTAT-T
1 TTTCTCTCTTTGTTATGT
65846 TTTCTCTCT
1 TTTCTCTCT
65855 CAAGCCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTCTCTCTTTGTTATGT
Found at i:68071 original size:16 final size:17
Alignment explanation
Indices: 68050--68083 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
68040 TTTTTTTATT
*
68050 ATTTAATATA-AAAATA
1 ATTTAAAATATAAAATA
68066 ATTTAAAATATAAAATA
1 ATTTAAAATATAAAATA
68083 A
1 A
68084 AACAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAAAATATAAAATA
Found at i:69691 original size:29 final size:28
Alignment explanation
Indices: 69650--69712 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 28
69640 TTTATTTGAA
69650 AAATTTAGTATTTCCTCTAACTTCTATT
1 AAATTTAGTATTTCCTCTAACTTCTATT
69678 AAATGTTAGTATTTCCTCTAACTTCTATT
1 AAAT-TTAGTATTTCCTCTAACTTCTATT
*
69707 CAATTT
1 AAATTT
69713 TACCATTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (28 bp):
AAATTTAGTATTTCCTCTAACTTCTATT
Found at i:70256 original size:27 final size:27
Alignment explanation
Indices: 70235--70297 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
70225 TAGGGAAAGA
70235 CGCATGGTGATCCGGGGAAGGGGGAGT
1 CGCATGGTGATCCGGGGAAGGGGGAGT
70262 CGCATGGTGATCCGGGGAAGGGGGAGT
1 CGCATGGTGATCCGGGGAAGGGGGAGT
70289 CGCATGGTG
1 CGCATGGTG
70298 TTCCATGCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.17, C:0.16, G:0.51, T:0.16
Consensus pattern (27 bp):
CGCATGGTGATCCGGGGAAGGGGGAGT
Found at i:71948 original size:35 final size:35
Alignment explanation
Indices: 71902--71971 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
71892 TAGTAGTTAC
*
71902 ACATACATTTGCATCCACTTCTCTACACTCTGATG
1 ACATACATTTGCATCCACTTCTCTACACTCCGATG
*
71937 ACATACATTTGCATCCCCTTCTCTACACTCCGATG
1 ACATACATTTGCATCCACTTCTCTACACTCCGATG
71972 TCTGCATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.34, G:0.09, T:0.33
Consensus pattern (35 bp):
ACATACATTTGCATCCACTTCTCTACACTCCGATG
Found at i:73564 original size:20 final size:20
Alignment explanation
Indices: 73539--73581 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
73529 GGTTATCGGT
73539 AGTATCGATAAATATATATA
1 AGTATCGATAAATATATATA
73559 AGTATCGATAAATATATATA
1 AGTATCGATAAATATATATA
73579 AGT
1 AGT
73582 GTCCATACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
AGTATCGATAAATATATATA
Found at i:74346 original size:23 final size:23
Alignment explanation
Indices: 74297--74340 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
74287 ATCTATTTTA
* *
74297 TTATATAAGTGCTACCTATTACT
1 TTATATAAGCGCTACCTAATACT
*
74320 TTATATAAGCGCTACTTAATA
1 TTATATAAGCGCTACCTAATA
74341 TGTTATTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACT
Found at i:74427 original size:87 final size:87
Alignment explanation
Indices: 74279--74479 Score: 314
Period size: 87 Copynumber: 2.3 Consensus size: 87
74269 TAACAAATTA
* * *
74279 AATAATTAATCTATTTTATTATATAAGTGCTACCTATTACTTTATATAAGCGCTACTTAATATGT
1 AATAATTAATCTATTTTATTATATAAGTACTACCTATTACATTATATAAGCGCTACCTAATATGT
*
74344 TATTCTGTTTGATAATGTTTCC
66 TATTCTGCTTGATAATGTTTCC
* * *
74366 AGTAATTAACCTATTTTATTATATAAGTACTACCTATTACATTATATAA-CTGGTACCTAATATG
1 AATAATTAATCTATTTTATTATATAAGTACTACCTATTACATTATATAAGC-GCTACCTAATATG
*
74430 TTATTGTGCTTGATAATGTTTCC
65 TTATTCTGCTTGATAATGTTTCC
74453 AATAATTAATCTATTTTATTATATAAG
1 AATAATTAATCTATTTTATTATATAAG
74480 CGCTACTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 102 0.99
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (87 bp):
AATAATTAATCTATTTTATTATATAAGTACTACCTATTACATTATATAAGCGCTACCTAATATGT
TATTCTGCTTGATAATGTTTCC
Found at i:75032 original size:92 final size:92
Alignment explanation
Indices: 74875--75146 Score: 413
Period size: 92 Copynumber: 3.0 Consensus size: 92
74865 ATGAAACTGA
* * * * *
74875 TTTTGTCATATTTTTACATGTTATATTGTAAACTATCGATCTTTTTTATAAAAAAGATCGATACT
1 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGGATTGATACT
* *
74940 TTCAACATATTAGGTAAATTTTATCGG
66 TTCAACATATCAGGTAAATTTTACCGG
* *
74967 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTACCGATCCTTTTTATAAAAAGGATTTATACT
1 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGGATTGATACT
*
75032 TTCAACATATCATGTAAATTTTACCGG
66 TTCAACATATCAGGTAAATTTTACCGG
*
75059 TTTTGTCATATTTTTA-CTCGTTATATTGTAAAGTATCGATACTTTTTATAAAAAGG-TTCGATA
1 TTTTGTCATATTTTTACCT-GTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGGATT-GATA
75122 CTTTCAACATATCAGGTAAATTTTA
64 CTTTCAACATATCAGGTAAATTTTA
75147 AAGGATCGAT
Statistics
Matches: 164, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
91 4 0.02
92 160 0.98
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (92 bp):
TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAAGGATTGATACT
TTCAACATATCAGGTAAATTTTACCGG
Found at i:75156 original size:36 final size:36
Alignment explanation
Indices: 75110--75182 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
75100 CTTTTTATAA
* *
75110 AAAGGTTCGATACTTTCAACATATCAGGTAAATTTT
1 AAAGGATCGATACTTTCAACAGATCAGGTAAATTTT
75146 AAAGGATCGATACTTTCAACAGATCAGGTAAATTTT
1 AAAGGATCGATACTTTCAACAGATCAGGTAAATTTT
75182 A
1 A
75183 CCGGTTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (36 bp):
AAAGGATCGATACTTTCAACAGATCAGGTAAATTTT
Found at i:75566 original size:23 final size:23
Alignment explanation
Indices: 75517--75560 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
75507 ATCTATTTTA
* *
75517 TTATATAAGTGCTACCTATTACT
1 TTATATAAGCGCTACCTAATACT
*
75540 TTATATAAGCGCTACTTAATA
1 TTATATAAGCGCTACCTAATA
75561 TGTTATTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACT
Found at i:75647 original size:87 final size:87
Alignment explanation
Indices: 75499--75699 Score: 314
Period size: 87 Copynumber: 2.3 Consensus size: 87
75489 TAACAAATTA
* * *
75499 AATAATTAATCTATTTTATTATATAAGTGCTACCTATTACTTTATATAAGCGCTACTTAATATGT
1 AATAATTAATCTATTTTATTATATAAGTACTACCTATTACATTATATAAGCGCTACCTAATATGT
*
75564 TATTCTGTTTGATAATGTTTCC
66 TATTCTGCTTGATAATGTTTCC
* * *
75586 AGTAATTAACCTATTTTATTATATAAGTACTACCTATTACATTATATAA-CTGGTACCTAATATG
1 AATAATTAATCTATTTTATTATATAAGTACTACCTATTACATTATATAAGC-GCTACCTAATATG
*
75650 TTATTGTGCTTGATAATGTTTCC
65 TTATTCTGCTTGATAATGTTTCC
75673 AATAATTAATCTATTTTATTATATAAG
1 AATAATTAATCTATTTTATTATATAAG
75700 CGCTACTTTT
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 102 0.99
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (87 bp):
AATAATTAATCTATTTTATTATATAAGTACTACCTATTACATTATATAAGCGCTACCTAATATGT
TATTCTGCTTGATAATGTTTCC
Found at i:76298 original size:88 final size:87
Alignment explanation
Indices: 76096--76361 Score: 313
Period size: 88 Copynumber: 3.0 Consensus size: 87
76086 ATGAAACTGA
* * *
76096 TTTTGTCATATTTTTACAT-GTTATATTGTAAACTATCGATCTTTTTTATAAAAAAGATCGATAC
1 TTTTGTCATATTTTTAC-TCGTTATATTGTAAAGTATCGATC-TTTTTATAAAAAGGATTGATAC
* *
76160 TTTCAACATATTAGGTAATTTTATCGG
64 TTT---CATATCAGGTAATTTTACCGG
* * *
76187 TTTTGTCATATTTTTAC-CTGTTATATTGTAAAGTACCGATCCTTTTATAAAAAGGATTTATACT
1 TTTTGTCATATTTTTACTC-GTTATATTGTAAAGTATCGATCTTTTTATAAAAAGGATTGATACT
*
76251 TTCATATCATGTAAATTTTACCGG
65 TTCATATCAGGT-AATTTTACCGG
76275 TTTTGTCATATTTTTACTCGTTATATTGTAAAGTATCGATACTTTTTATAAAAAGG-TTCGATAC
1 TTTTGTCATATTTTTACTCGTTATATTGTAAAGTATCGAT-CTTTTTATAAAAAGGATT-GATAC
*
76339 TTTCAACATATCAGGTAAATTTA
64 TTT---CATATCAGGTAATTTTA
76362 AAGGATCATA
Statistics
Matches: 152, Mismatches: 14, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
87 8 0.05
88 49 0.32
89 22 0.14
90 21 0.14
91 43 0.28
92 9 0.06
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (87 bp):
TTTTGTCATATTTTTACTCGTTATATTGTAAAGTATCGATCTTTTTATAAAAAGGATTGATACTT
TCATATCAGGTAATTTTACCGG
Found at i:76373 original size:34 final size:35
Alignment explanation
Indices: 76326--76394 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
76316 CTTTTTATAA
* *
76326 AAAGGTTCGATACTTTCAACATATCAGGTAAATTT
1 AAAGGATCGATACTTTCAACAGATCAGGTAAATTT
76361 AAAGGATC-ATACTTTCAACAGATCAGGTAAATTT
1 AAAGGATCGATACTTTCAACAGATCAGGTAAATTT
76395 TACCGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (35 bp):
AAAGGATCGATACTTTCAACAGATCAGGTAAATTT
Found at i:76816 original size:87 final size:87
Alignment explanation
Indices: 76713--76921 Score: 319
Period size: 87 Copynumber: 2.4 Consensus size: 87
76703 TAACAAATTA
* * * * *
76713 AATAATTAACCTATTTTATTATATAAGCGTTACTTATTACTTTTTATAAGCGCTACTTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGT
*
76778 TATTGTGCTTGATAATGTTTTC
66 TATTGTGCTTGATAATGTTTCC
* * * *
76800 AGTAATTAACCTATTTTATTATATAAGCACTACCTATTACATTATATAATCGGTACCTAATATGT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGT
76865 TATTGTGCTTGATAATGTTTCC
66 TATTGTGCTTGATAATGTTTCC
*
76887 AAAAATTAACCTATTTTATTATATAAGCGCTACCT
1 AATAATTAACCTATTTTATTATATAAGCGCTACCT
76922 CTGTGGAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 109 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.44
Consensus pattern (87 bp):
AATAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGT
TATTGTGCTTGATAATGTTTCC
Found at i:77434 original size:109 final size:111
Alignment explanation
Indices: 77229--77595 Score: 486
Period size: 109 Copynumber: 3.4 Consensus size: 111
77219 AATTTTCAAC
* **
77229 AAAGTATCGATACATTTTTATAAAAAGTATTTATACTTTCAATATATCAGGTAAATTTTACC-GT
1 AAAGTATCGATCCA-TTTTATAAAAAG-ATCGATACTTTCAATATATCAGGTAAATTTTACCGGT
* *
77293 TTTGTCATAATGAAAC-GATTTTTGTCATATTTTTACCTGTTATTATTAT
64 TTTGTCATAATGAAACTG-GTTTTGTCATATTTTTACCTGTTA-TATTGT
77342 AAA-TATCGAT-CATTTTATAAAAA-ATCGATACTTTCAATATATCAGGTAAATTTTACCGGTTT
1 AAAGTATCGATCCATTTTATAAAAAGATCGATACTTTCAATATATCAGGTAAATTTTACCGGTTT
77404 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * *
77450 AAAGTACCGATCCCTTTTATAAAAA-AT-TATAC-TTC-ACATATCAGGTAAA-TTTACCGGGTT
1 AAAGTATCGATCCATTTTATAAAAAGATCGATACTTTCAATATATCAGGTAAATTTTACC-GGTT
* *
77510 TTGTCATAATGAAATTGGTTTTGTCATA-TTTTACATGTTATATTGT
65 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* *
77556 AAAGTATCGATCCTTTTTATAAAAAGGATCGATACATTCA
1 AAAGTATCGATCCATTTTATAAAAA-GATCGATACTTTCA
Statistics
Matches: 231, Mismatches: 13, Indels: 22
0.87 0.05 0.08
Matches are distributed among these distances:
106 46 0.20
107 44 0.19
108 45 0.19
109 55 0.24
110 29 0.13
111 2 0.01
112 7 0.03
113 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (111 bp):
AAAGTATCGATCCATTTTATAAAAAGATCGATACTTTCAATATATCAGGTAAATTTTACCGGTTT
TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Done.