Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000739.1 Hibiscus syriacus cultivar Beakdansim tig00001429_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: 225954
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:2515 original size:20 final size:20
Alignment explanation
Indices: 2483--2530 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
2473 AGTGTTCGTA
2483 CGTTAACACTGTTAAAAATCT
1 CGTTAA-ACTGTTAAAAATCT
*
2504 CGTTAAACTGTTAAAAATTT
1 CGTTAAACTGTTAAAAATCT
2524 CGTTAAA
1 CGTTAAA
2531 TGACACGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
CGTTAAACTGTTAAAAATCT
Found at i:8954 original size:42 final size:42
Alignment explanation
Indices: 8840--8959 Score: 179
Period size: 42 Copynumber: 2.9 Consensus size: 42
8830 TTTCCTCGAA
* * *
8840 TTCCTGTGTTTATTTCACGTAATTCGTTTTCCGGAAAATATT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
8882 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
* *
8924 TTCTCGTGTTTGTTTTACGTAATT-GATTTTTCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCG-TTTTTCGGAA
8960 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 71 0.99
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.49
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATATT
Found at i:9181 original size:22 final size:23
Alignment explanation
Indices: 9150--9193 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
9140 TTTATTTATT
9150 TATTAATATTTATAATAATATAA
1 TATTAATATTTATAATAATATAA
* *
9173 TATT-ATATTTTTAATATTATA
1 TATTAATATTTATAATAATATA
9194 TAAAATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTATAATAATATAA
Found at i:9190 original size:31 final size:30
Alignment explanation
Indices: 9133--9309 Score: 95
Period size: 29 Copynumber: 6.3 Consensus size: 30
9123 TTTTCATCAA
*
9133 AATAATAT-TTATT-TATTTATTAATATTTAT
1 AATAATATAATATTATATTT-TT-ATATTTAT
9163 AATAATATAATATTATATTTTTA-ATATTAT
1 AATAATATAATATTATATTTTTATAT-TTAT
* *
9193 -ATAAAAT-A-ATCA-A---TTATA-TTAT
1 AATAATATAATATTATATTTTTATATTTAT
9215 AATAATATAAGATATTATATTTTTAT-TTTAAT
1 AATAATAT-A-ATATTATATTTTTATATTT-AT
* *
9247 AAT-ATATAATA--ATTTTTTTATATAT-T
1 AATAATATAATATTATATTTTTATATTTAT
*
9273 AATAATGAATAATA-T-TATTTATATATTTA-
1 AATAAT--ATAATATTATATTTTTATATTTAT
9302 AATAATAT
1 AATAATAT
9310 TTTAATAAAG
Statistics
Matches: 116, Mismatches: 10, Indels: 45
0.68 0.06 0.26
Matches are distributed among these distances:
22 4 0.03
23 9 0.08
24 1 0.01
26 6 0.05
27 19 0.16
28 4 0.03
29 33 0.28
30 14 0.12
31 16 0.14
32 10 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
AATAATATAATATTATATTTTTATATTTAT
Found at i:9338 original size:23 final size:23
Alignment explanation
Indices: 9312--9356 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9302 AATAATATTT
9312 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
9335 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
9357 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:9465 original size:29 final size:32
Alignment explanation
Indices: 9395--9465 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
9385 TAATATATTT
*
9395 ATAATATTTTTATTTCACTAAAATATACACAA
1 ATAATATTTTTATTTCAATAAAATATACACAA
9427 ATTAATATTTTTA-TT-AATAAAATTATA-A-AA
1 A-TAATATTTTTATTTCAATAAAA-TATACACAA
9457 ATAATATTT
1 ATAATATTT
9466 AATAATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 8 0.22
30 3 0.08
31 7 0.19
32 7 0.19
33 11 0.31
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
ATAATATTTTTATTTCAATAAAATATACACAA
Found at i:9681 original size:14 final size:14
Alignment explanation
Indices: 9664--9697 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9654 ATTCATTCTA
9664 CGGAAAACATTTTC
1 CGGAAAACATTTTC
*
9678 CGGAAAACGTTTTC
1 CGGAAAACATTTTC
*
9692 CAGAAA
1 CGGAAA
9698 TGTAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (14 bp):
CGGAAAACATTTTC
Found at i:9741 original size:15 final size:15
Alignment explanation
Indices: 9699--9742 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
9689 TTCCAGAAAT
*
9699 GTAATTTATTTTCCA
1 GTAATTCATTTTCCA
**
9714 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
9728 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
9743 ATTCTAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:10323 original size:3 final size:3
Alignment explanation
Indices: 10315--10349 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
10305 GTCGTTGGTT
* *
10315 AAG AAG AAG GAT AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
10350 TGTGGTTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:11250 original size:20 final size:21
Alignment explanation
Indices: 11210--11251 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11200 TTAAAATGGA
11210 ATTTTATTATTTTCATTAAAT
1 ATTTTATTATTTTCATTAAAT
*
11231 ATTTTATTATTTT-TTTAAAT
1 ATTTTATTATTTTCATTAAAT
11251 A
1 A
11252 ATAAAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTTATTATTTTCATTAAAT
Found at i:17336 original size:35 final size:35
Alignment explanation
Indices: 17290--17362 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
17280 ACTTATTTTA
17290 TTCCTTACCTCGTGAAGCGTGCTACAATTCAAAAC
1 TTCCTTACCTCGTGAAGCGTGCTACAATTCAAAAC
17325 TTCCTTACCTCGTGAAGCGTGCTACAATTCAAAAC
1 TTCCTTACCTCGTGAAGCGTGCTACAATTCAAAAC
17360 TTC
1 TTC
17363 ATGAAGCCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (35 bp):
TTCCTTACCTCGTGAAGCGTGCTACAATTCAAAAC
Found at i:18238 original size:21 final size:21
Alignment explanation
Indices: 18204--18243 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18194 ATAAATATTG
* *
18204 TATTAATTTAATCAGTTTACT
1 TATTAAATTAATCAATTTACT
*
18225 TATTAAATTCATCAATTTA
1 TATTAAATTAATCAATTTA
18244 ATCTTTCTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (21 bp):
TATTAAATTAATCAATTTACT
Found at i:29653 original size:2 final size:2
Alignment explanation
Indices: 29646--29678 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
29636 TTTAATCTTA
29646 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29679 AATGTCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30106 original size:18 final size:18
Alignment explanation
Indices: 30083--30117 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30073 CCCAAGCCAC
*
30083 CGCAGCCATTTATGATGT
1 CGCAGCCATATATGATGT
30101 CGCAGCCATATATGATG
1 CGCAGCCATATATGATG
30118 CTGCCGCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (18 bp):
CGCAGCCATATATGATGT
Found at i:31120 original size:31 final size:31
Alignment explanation
Indices: 31082--31176 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
31072 GAACCTCGAC
* *
31082 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
31113 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
31144 TATTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
31175 AA
1 AA
31177 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:32463 original size:45 final size:44
Alignment explanation
Indices: 32369--32471 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 44
32359 GCACTACACC
* * *
32369 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCATAAATCCTATTCAATGTTTCTATTTAAT-GGA
* *
32414 ATGCATCGATGCATAAATCCTATTCAATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCATAAATCCTATTCAATG-TTTCTATTT-AATGGA
32459 ATGCATCGATGCA
1 ATGCATCGATGCA
32472 CTGCATGTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 41 0.80
46 7 0.14
47 3 0.06
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (44 bp):
ATGCATCGATGCATAAATCCTATTCAATGTTTCTATTTAATGGA
Found at i:35770 original size:30 final size:31
Alignment explanation
Indices: 35726--35797 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
35716 AGACCCCAAT
* * * * *
35726 AACTATCCAGAGGTCATAAAGAACCTCGG-C
1 AACTGTCCATAGGTCACAAAGAACCTAGGTA
*
35756 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCACAAAGAACCTAGGTA
35787 AACTGTCCATA
1 AACTGTCCATA
35798 TGTTCCTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 24 0.69
31 11 0.31
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.19
Consensus pattern (31 bp):
AACTGTCCATAGGTCACAAAGAACCTAGGTA
Found at i:35794 original size:31 final size:31
Alignment explanation
Indices: 35756--35850 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
35746 GAACCTCGGC
* *
35756 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* **
35787 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCAAAGAACATAGGTA
* * *
35818 TATTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGTC-CCAAAGAACATAGGTA
35849 AA
1 AA
35851 ACCCTCGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
31 48 0.94
32 3 0.06
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
AACTGTCCATATGTCCCAAAGAACATAGGTA
Found at i:37046 original size:20 final size:19
Alignment explanation
Indices: 37021--37072 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
37011 TAATGAAGGT
37021 ATGCATCGATGCACTACACC
1 ATGCATCGATGCACTAC-CC
**
37041 ATGCATCGATGCACTACTT
1 ATGCATCGATGCACTACCC
37060 ATGCATCGATGCA
1 ATGCATCGATGCA
37073 TAAATCCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (19 bp):
ATGCATCGATGCACTACCC
Found at i:38201 original size:35 final size:33
Alignment explanation
Indices: 38161--38245 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
38151 GTATTTCAGT
38161 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
38196 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
38231 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
38246 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:41586 original size:13 final size:12
Alignment explanation
Indices: 41553--41586 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
41543 AATAAGTATA
*
41553 ATAAAAAAATTT
1 ATAACAAAATTT
41565 ATAACAAAATTT
1 ATAACAAAATTT
41577 ATAACGAAAA
1 ATAAC-AAAA
41587 ATCGTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (12 bp):
ATAACAAAATTT
Found at i:43071 original size:30 final size:31
Alignment explanation
Indices: 43037--43098 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
43027 AAATAGTAAT
**
43037 AAAATGAGGATCATA-GTTCTAATTTATTTA
1 AAAATGAAAATCATATGTTCTAATTTATTTA
* **
43067 AAAATTAAAATGTTATGTTCTAATTTATTTA
1 AAAATGAAAATCATATGTTCTAATTTATTTA
43098 A
1 A
43099 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
AAAATGAAAATCATATGTTCTAATTTATTTA
Found at i:43646 original size:2 final size:2
Alignment explanation
Indices: 43639--43669 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43629 TAAAGTTTTA
43639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43670 CACACACAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47125 original size:27 final size:27
Alignment explanation
Indices: 47083--47150 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47073 ATGTAGGAAT
*
47083 TATAGAG--ATGATTTGTTATCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
47108 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
47135 TATAGAGATATGATTT
1 TATAGAGATATGATTT
47151 TGTAAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 7 0.17
27 33 0.82
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:50893 original size:27 final size:27
Alignment explanation
Indices: 50848--50915 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
50838 GTGTAGGAAT
*
50848 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTATTACCATTCC
50873 TATAGAGATATGATTTATTACCATTCC
1 TATAGAGATATGATTTATTACCATTCC
50900 TATAGAGATATGATTT
1 TATAGAGATATGATTT
50916 TGTAAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 7 0.17
27 33 0.82
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTATTACCATTCC
Found at i:54027 original size:31 final size:31
Alignment explanation
Indices: 53989--54089 Score: 105
Period size: 31 Copynumber: 3.2 Consensus size: 31
53979 AAATTTAAGG
53989 ATTATTTTATAACAATTTGATATGTTTAATA
1 ATTATTTTATAACAATTTGATATGTTTAATA
* * * * *
54020 ATCATTTTATGATAGTTTGATAATATTTAATA
1 ATTATTTTATAACAATTTGAT-ATGTTTAATA
* * *
54052 ATTATTTTGTAACTATTTGAGA-GATTTAATA
1 ATTATTTTATAACAATTTGATATG-TTTAATA
54083 ATTATTT
1 ATTATTT
54090 ATGTTGATAT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
31 32 0.58
32 23 0.42
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (31 bp):
ATTATTTTATAACAATTTGATATGTTTAATA
Found at i:54042 original size:22 final size:22
Alignment explanation
Indices: 54006--54047 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
53996 TATAACAATT
54006 TGATATGTTTAATAATCATTTTA
1 TGATATGTTTAATAAT-ATTTTA
*
54029 TGATA-GTTTGATAATATTT
1 TGATATGTTTAATAATATTT
54048 AATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (22 bp):
TGATATGTTTAATAATATTTTA
Found at i:54661 original size:11 final size:11
Alignment explanation
Indices: 54645--54669 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54635 AAATTATCTT
54645 TATTAAAAAAA
1 TATTAAAAAAA
54656 TATTAAAAAAA
1 TATTAAAAAAA
54667 TAT
1 TAT
54670 AATGACCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TATTAAAAAAA
Found at i:57102 original size:40 final size:40
Alignment explanation
Indices: 57072--57269 Score: 269
Period size: 40 Copynumber: 4.9 Consensus size: 40
57062 GATCTCCACT
57072 ATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
1 ATCGC-AATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
* *
57113 ATCGC-GTT-GCGATTTTCCATTTCGCGTTGCGATAGTTGAAA
1 ATCGCAATTCGCG---TTGCATTTCGCGTTGCGATAGTTGAAA
57154 ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
1 ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
57194 ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
1 ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
* *
57234 ATCGC-GTT-GCGATTTTCTATTTCGCGTTGCGATAGT
1 ATCGCAATTCGCG--TTGC-ATTTCGCGTTGCGATAGT
57270 CTACAGTCGC
Statistics
Matches: 143, Mismatches: 6, Indels: 16
0.87 0.04 0.10
Matches are distributed among these distances:
38 6 0.04
39 4 0.03
40 74 0.52
41 54 0.38
42 2 0.01
43 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (40 bp):
ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAA
Found at i:57163 original size:81 final size:80
Alignment explanation
Indices: 57072--57269 Score: 269
Period size: 81 Copynumber: 2.4 Consensus size: 80
57062 GATCTCCACT
*
57072 ATCGCAAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGC-GTT-GCGATTTTCCATTT
1 ATCGC-AATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCG---TTCCATTT
57135 CGCGTTGCGATAGTTGAAA
62 CGCGTTGCGATAGTTGAAA
*
57154 ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTGCATTTCGCG
1 ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTCCATTTCGCG
57219 TTGCGATAGTTGAAA
66 TTGCGATAGTTGAAA
* *
57234 ATCGC-GTT-GCGATTTTCTATTTCGCGTTGCGATAGT
1 ATCGCAATTCGCG--TTGC-ATTTCGCGTTGCGATAGT
57270 CTACAGTCGC
Statistics
Matches: 107, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
78 3 0.03
79 2 0.02
80 34 0.32
81 58 0.54
82 7 0.07
83 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (80 bp):
ATCGCAATTCGCGTTGCATTTCGCGTTGCGATAGTTGAAAATCGCAATTCGCGTTCCATTTCGCG
TTGCGATAGTTGAAA
Found at i:57281 original size:21 final size:21
Alignment explanation
Indices: 57214--57309 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
57204 GCGTTGCATT
* *
57214 TCGCGTTGCGATAGT-TGAAAA
1 TCGCGTTGCGATAGTCT-ACAG
** **
57235 TCGCGTTGCGATTTTCTA-TT
1 TCGCGTTGCGATAGTCTACAG
57255 TCGCGTTGCGATAGTCTACAG
1 TCGCGTTGCGATAGTCTACAG
*
57276 TCGCGTTGTGATAGTCTACAG
1 TCGCGTTGCGATAGTCTACAG
*
57297 TTGTCGTTGCGAT
1 TCG-CGTTGCGAT
57310 TTTCCAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
20 16 0.26
21 36 0.59
22 9 0.15
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCTACAG
Found at i:57431 original size:6 final size:6
Alignment explanation
Indices: 57422--57448 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
57412 CATTACCATT
57422 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
57449 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:58114 original size:20 final size:20
Alignment explanation
Indices: 58093--58161 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
58083 TAGACTATCG
* *
58093 CAACGCGAAATGGAAAATCG
1 CAACGCGAAATAGAAAATCA
** ** *
58113 CAACGCGATTTTCAACTATCA
1 CAACGCGAAATAGAA-AATCA
58134 CAACGCGAAATAGAAAATCA
1 CAACGCGAAATAGAAAATCA
58154 CAACGCGA
1 CAACGCGA
58162 TTTTCAACTA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.14
Consensus pattern (20 bp):
CAACGCGAAATAGAAAATCA
Found at i:58131 original size:41 final size:41
Alignment explanation
Indices: 58086--58186 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
58076 ACAACTGTAG
*
58086 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
* *
58127 ACTATCACAACGCGAAATAGAAAATCACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
58168 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
58187 CAACGCGAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
Found at i:58139 original size:21 final size:21
Alignment explanation
Indices: 58113--58182 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
58103 TGGAAAATCG
58113 CAACGCGATTTTCAACTATCA
1 CAACGCGATTTTCAACTATCA
** ** *
58134 CAACGCGAAATAGAA-AATCA
1 CAACGCGATTTTCAACTATCA
*
58154 CAACGCGATTTTCAACTATCG
1 CAACGCGATTTTCAACTATCA
58175 CAACGCGA
1 CAACGCGA
58183 AATGCAACGC
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (21 bp):
CAACGCGATTTTCAACTATCA
Found at i:58242 original size:20 final size:20
Alignment explanation
Indices: 58219--58324 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
58209 AGATCGCGTT
*
58219 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * *
58239 GCGAAATGGAA-AATCGCAAC
1 GCG-ATTGCAACTATCGCAAC
*
58259 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
58280 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
58300 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
58321 GCGA
1 GCGA
58325 AATGCAACGT
Statistics
Matches: 61, Mismatches: 19, Indels: 11
0.67 0.21 0.12
Matches are distributed among these distances:
19 2 0.03
20 30 0.49
21 28 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:58276 original size:41 final size:41
Alignment explanation
Indices: 58226--58328 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
58216 GTTGCGATTT
*
58226 CAACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
* *
58267 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
*
58308 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
58329 CAACGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (41 bp):
CAACTATCGCAACGCGAAATGGAAAAACGCAACGCGATCTC
Found at i:58332 original size:21 final size:21
Alignment explanation
Indices: 58226--58332 Score: 92
Period size: 21 Copynumber: 5.2 Consensus size: 21
58216 GTTGCGATTT
58226 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * ** *
58247 GAA-AATCGCAACGCGATCTC
1 CAACTATCGCAACGCGAAATG
58267 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * * ** *
58288 GAA-AAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATG
*
58308 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
58329 CAAC
1 CAAC
58333 GTGAATTTGC
Statistics
Matches: 61, Mismatches: 23, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
20 29 0.48
21 32 0.52
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:58352 original size:142 final size:142
Alignment explanation
Indices: 58086--58356 Score: 445
Period size: 142 Copynumber: 1.9 Consensus size: 142
58076 ACAACTGTAG
* *
58086 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCACAACGCGAAATAGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCACAACGCGAAATAGAAAA
* *
58151 TCACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATTTGTGATGATGGAGATCGC
66 ACACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATTTGCGATGATGGAGATCGC
58216 GTTGCGATTTCA
131 GTTGCGATTTCA
* *
58228 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCACAACGCGAAATAGAAAA
* * *
58293 ACGCAACGCGATTTTCAACTATCGCAATGCGAAATGCAACGTGAATTTGCGAT-AGTGGAGATCG
66 ACACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATTTGCGATGA-TGGAGATCG
58357 TAATGCGAAT
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
141 1 0.01
142 118 0.99
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (142 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCACAACGCGAAATAGAAAA
ACACAACGCGATTTTCAACTATCGCAACGCGAAATGCAACGCGAATTTGCGATGATGGAGATCGC
GTTGCGATTTCA
Found at i:59147 original size:41 final size:39
Alignment explanation
Indices: 59039--59214 Score: 129
Period size: 41 Copynumber: 4.4 Consensus size: 39
59029 AATGACCAAC
* * ****
59039 AAAATCGCAACGCGAAATAAAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATATCAAAATCGCAACGCGATTTTG
* ** *
59078 AGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGA-TAT-CAAAATCGCAACGCGATT-TTG
* * ** *
59119 AAAATCGCAATGCGATAGTCAAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATA-TCAAAATCGCAACGCGATTTT-G
* * *
59160 AAAATCGCAACGCGAATATGAAAATCGCAACGCGAATATG
1 AAAATCGCAACGCG-ATATCAAAATCGCAACGCGATTTTG
59200 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
59215 ACACATAAAT
Statistics
Matches: 104, Mismatches: 26, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
38 1 0.01
39 12 0.12
40 32 0.31
41 54 0.52
42 5 0.05
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (39 bp):
AAAATCGCAACGCGATATCAAAATCGCAACGCGATTTTG
Found at i:59279 original size:20 final size:20
Alignment explanation
Indices: 59161--59390 Score: 205
Period size: 20 Copynumber: 11.5 Consensus size: 20
59151 CGATTTTCCA
* ** *
59161 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* ** *
59181 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
59201 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
59221 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
59241 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
59261 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTATCCGT
*
59281 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
59301 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
59321 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
59341 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
59361 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
59381 AAATCACAAC
1 AAATCGCAAC
59391 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 174 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:60111 original size:24 final size:24
Alignment explanation
Indices: 60072--60118 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
60062 AAATTTGGTC
60072 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
60096 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
60119 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:60310 original size:12 final size:12
Alignment explanation
Indices: 60293--60317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60283 ATATAATCCT
60293 GAAGAAGAAAAA
1 GAAGAAGAAAAA
60305 GAAGAAGAAAAA
1 GAAGAAGAAAAA
60317 G
1 G
60318 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:62620 original size:19 final size:19
Alignment explanation
Indices: 62598--62871 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
62588 CGGAAATTAC
*
62598 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
62617 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
62631 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
62651 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
62665 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62684 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
62703 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
62717 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
62736 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62755 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62774 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62793 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62812 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62831 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
62845 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
62864 AATCGCAA
1 AATCGCAA
62872 CGAGAGATTC
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 40 0.18
15 2 0.01
16 10 0.04
17 10 0.04
18 3 0.01
19 148 0.65
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:62713 original size:52 final size:52
Alignment explanation
Indices: 62626--62890 Score: 351
Period size: 52 Copynumber: 5.0 Consensus size: 52
62616 AAATCCCAAC
62626 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
62679 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
62731 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
62788 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
* *
62843 A-G--AATCGCAATGCGAAATGAAAATCGCAACGAGAGATTCGCATTGCGA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
62891 TTCTCTCGTT
Statistics
Matches: 199, Mismatches: 6, Indels: 18
0.89 0.03 0.08
Matches are distributed among these distances:
47 8 0.04
48 1 0.01
49 3 0.02
50 2 0.01
52 94 0.47
53 16 0.08
54 3 0.02
55 5 0.03
56 1 0.01
57 66 0.33
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:62943 original size:19 final size:19
Alignment explanation
Indices: 62899--62943 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
62889 GATTCTCTCG
*
62899 TTGCGAATTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
62918 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
62937 TTGCGAT
1 TTGCGAT
62944 AGTCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:62949 original size:19 final size:19
Alignment explanation
Indices: 62908--62951 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
62898 GTTGCGAATT
**
62908 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
62927 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
62946 TCATTT
1 TCATTT
62952 TTGCCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:63069 original size:14 final size:14
Alignment explanation
Indices: 63050--63086 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
63040 CATCAATTAC
63050 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
63064 ACAAATCATCTTTT
1 ACAAATCAACTTTT
63078 ACAAATCAA
1 ACAAATCAA
63087 TTAAATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:65073 original size:14 final size:14
Alignment explanation
Indices: 65054--65110 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
65044 GCGAAATGAA
*
65054 AATCGCAACGACAG
1 AATCGCAACGAAAG
65068 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
65085 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
65101 AATCGCAACG
1 AATCGCAACG
65111 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:65081 original size:33 final size:33
Alignment explanation
Indices: 65035--65127 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
65025 GCGAAACCAA
*
65035 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
65068 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
65101 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
65128 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:65092 original size:19 final size:19
Alignment explanation
Indices: 64998--65132 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
64988 TAGTTTACTT
* *
64998 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
65018 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
65037 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
65056 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
65070 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
65089 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
65103 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
65122 TCGCAATGCGA
1 TCGCAACGCGA
65133 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:65150 original size:19 final size:19
Alignment explanation
Indices: 65128--65240 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
65118 AAAATCGCAA
65128 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
65147 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
65161 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
65180 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
65194 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
65213 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
65232 TGCGATTTT
1 TGCGATTTT
65241 AACTTTCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:65170 original size:33 final size:33
Alignment explanation
Indices: 65128--65219 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
65118 AAAATCGCAA
65128 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
65161 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
65194 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
65220 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:65253 original size:20 final size:18
Alignment explanation
Indices: 65158--65256 Score: 80
Period size: 19 Copynumber: 5.4 Consensus size: 18
65148 GCGATCTTGT
*
65158 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
* *
65177 CGTTGCGA--TTCTGT--
1 CGTTGCGATTTTATTTCG
65191 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTT-ATTTCG
*
65210 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTT-ATTTCG
65229 CGTTGCGATTTTAACTTTCG
1 CGTTGCGATTTT-A-TTTCG
*
65249 TGTTGCGA
1 CGTTGCGA
65257 AAGTAAACTA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
14 8 0.12
16 4 0.06
17 4 0.06
19 37 0.57
20 12 0.18
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (18 bp):
CGTTGCGATTTTATTTCG
Found at i:65510 original size:93 final size:93
Alignment explanation
Indices: 65304--65677 Score: 702
Period size: 93 Copynumber: 4.1 Consensus size: 93
65294 ATGGATTGCA
65304 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACA-AGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
65367 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
65395 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
65460 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
65488 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
65553 TAGCAGAATTGGCAGCAAACCGAACAAA-
66 TAGCAGAATTGGCAGC-AACCGAACAAAT
65581 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
65645 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
65673 TTACT
1 TTACT
65678 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 1, Indels: 7
0.97 0.00 0.02
Matches are distributed among these distances:
91 14 0.05
92 102 0.37
93 151 0.54
94 11 0.04
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:65625 original size:185 final size:185
Alignment explanation
Indices: 65304--65677 Score: 700
Period size: 185 Copynumber: 2.0 Consensus size: 185
65294 ATGGATTGCA
65304 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAGTTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAGTTT
65368 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
66 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
65433 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
65488 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACA-AGTT
65553 TAGCAGAATTGGCAGCAAACCGAACAAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
65 TAGCAGAATTGGCAGC-AACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC
*
65617 TA-TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
129 TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
65673 TTACT
1 TTACT
65678 AAGCAATCTA
Statistics
Matches: 186, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
184 4 0.02
185 113 0.61
186 58 0.31
187 11 0.06
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAGTTT
AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA
TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:67399 original size:14 final size:14
Alignment explanation
Indices: 67380--67469 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
67370 TTGAAATGAA
67380 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
67394 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
67413 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
67427 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
67446 AATCGCAACGAGAG
1 AATCGCAACGAGAG
67460 AATCGCAACG
1 AATCGCAACG
67470 CGAAATAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:67417 original size:33 final size:33
Alignment explanation
Indices: 67372--67486 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
67362 TCTTTTGGTT
67372 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
67405 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
67438 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
67471 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
67487 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:67418 original size:19 final size:19
Alignment explanation
Indices: 67394--67491 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
67384 GCAACGAGAG
*
67394 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
67413 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
67427 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
67446 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
67460 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAA
*
67479 AATCGCAATGCGA
1 AATCGCAACGCGA
67492 TTTTGGTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:67522 original size:14 final size:14
Alignment explanation
Indices: 67503--67559 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
67493 TTTGGTTTCG
67503 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
67517 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
67536 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
67550 CGTTGCGATT
1 CGTTGCGATT
67560 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:67541 original size:19 final size:19
Alignment explanation
Indices: 67517--67605 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
67507 GCGATTCTCT
67517 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
67536 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
67550 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
67569 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
67589 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
67606 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:67597 original size:39 final size:33
Alignment explanation
Indices: 67487--67605 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
67477 AAAATCGCAA
**
67487 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
67520 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
67553 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
67592 TGCGATTTTCATTT
1 TGCGATTTTCATTT
67606 ATCTCGTTGC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 50 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.30
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:67739 original size:33 final size:33
Alignment explanation
Indices: 67697--67767 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
67687 AATACTAACT
67697 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
67730 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
67763 TGAAA
1 TGAAA
67768 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:68001 original size:22 final size:22
Alignment explanation
Indices: 67949--68003 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
67939 TGGTTGTGAG
**
67949 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
67971 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
67993 GGATTTCTTCG
1 GGATTTCTTCG
68004 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:68179 original size:20 final size:20
Alignment explanation
Indices: 68154--68343 Score: 195
Period size: 20 Copynumber: 9.4 Consensus size: 20
68144 AAATATCGCA
68154 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* * *
68174 TTGCGATTTTATGTATTA-TCG
1 TTGCGA-TTTACGGA-TACGCG
*
68195 TTGCGATTTACCGATACGCG
1 TTGCGATTTACGGATACGCG
* *
68215 TTGCGATATACGGATACGCA
1 TTGCGATTTACGGATACGCG
**
68235 TTGCGATTTACCCATACGCG
1 TTGCGATTTACGGATACGCG
*
68255 TTGCGATTTACGGATACACG
1 TTGCGATTTACGGATACGCG
*
68275 TTGCGATTTACGGATACGCA
1 TTGCGATTTACGGATACGCG
* *
68295 TTGCGATTTATGTG-TTCGCG
1 TTGCGATTTACG-GATACGCG
* ** *
68315 TTGCGATTTTCATATTCGCG
1 TTGCGATTTACGGATACGCG
68335 TTGCGATTT
1 TTGCGATTT
68344 TGGAAAATCG
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 120 0.86
21 15 0.11
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (20 bp):
TTGCGATTTACGGATACGCG
Found at i:68315 original size:60 final size:60
Alignment explanation
Indices: 68154--68323 Score: 232
Period size: 60 Copynumber: 2.8 Consensus size: 60
68144 AAATATCGCA
* ** *
68154 TTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATACGCG
1 TTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACACG
* *** * *
68215 TTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACACG
1 TTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACACG
*
68275 TTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 TTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
68324 TCATATTCGC
Statistics
Matches: 93, Mismatches: 16, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
60 69 0.74
61 24 0.26
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (60 bp):
TTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACACG
Found at i:68337 original size:60 final size:60
Alignment explanation
Indices: 68149--68464 Score: 223
Period size: 60 Copynumber: 5.2 Consensus size: 60
68139 GCTTTAAATA
* * ** * *
68149 TCGCATTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
68210 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
68270 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
68330 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * ** * * *
68392 TCGCGTTGCGATTT-TGGAAACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
68451 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
68465 TGTTGGTCAT
Statistics
Matches: 207, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.08
60 92 0.44
61 77 0.37
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:68360 original size:21 final size:20
Alignment explanation
Indices: 68310--68407 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
68300 ATTTATGTGT
* * * *
68310 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
68330 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
68351 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
68371 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
68392 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
68408 GAAACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:68383 original size:61 final size:60
Alignment explanation
Indices: 68310--68466 Score: 176
Period size: 61 Copynumber: 2.6 Consensus size: 60
68300 ATTTATGTGT
*
68310 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATCGCA-ATGCGAATT-TGACTA
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAAT-G-ATATGCG-ATTCTGACGA
* * * * * **
68371 TCGCATTGCGATTTTCAAGAATCGCGTTGCGATTTTGGAAACTGATTTGCGATTCTGGGGA
1 TCGCGTTGCGATTTTC-ATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
*
68432 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTG
68467 TTGGTCATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
59 16 0.20
60 5 0.06
61 37 0.46
62 23 0.28
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (60 bp):
TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAATGATATGCGATTCTGACGA
Found at i:68402 original size:41 final size:41
Alignment explanation
Indices: 68310--68466 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
68300 ATTTATGTGT
* * *
68310 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
68351 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
68392 TCGCGTTGCGATTTTGGAAACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
68432 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
68467 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:72768 original size:21 final size:21
Alignment explanation
Indices: 72739--72785 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
72729 ATTCTGACTA
72739 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
72760 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
72781 TCGCA
1 TCGCA
72786 ATGTGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:72806 original size:20 final size:20
Alignment explanation
Indices: 72781--72933 Score: 146
Period size: 21 Copynumber: 7.5 Consensus size: 20
72771 TTTTCCTAAT
*
72781 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
72801 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
72822 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
72842 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* * ** *
72863 TCGTAACGCGAATTTGGGAAA
1 TCGCAATGCGAA-TACGTAAA
* *
72884 TCGTAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
72904 TCGCAATGCGAATACGT-AA
1 TCGCAATGCGAATACGTAAA
*
72923 TCGCATTGCGA
1 TCGCAATGCGA
72934 TTTTCCTAAT
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.11
20 48 0.44
21 50 0.45
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:72811 original size:41 final size:40
Alignment explanation
Indices: 72760--73078 Score: 246
Period size: 41 Copynumber: 7.8 Consensus size: 40
72750 TTTCCCAAAT
* * *
72760 TCGCGTTGCGATTTTCCTAATTCGCAATGTGAATACGTAAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGATTACGT-AA
* * **** *
72801 TCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGATTACGT-AA
* * **** * * * ** *
72842 TCGCAATGCGAATTAGGAAAATCGTAACGCGAATTTGGGAAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCG-A-TTACGTAA
* * * * * *
72884 TCGTAATGCGA-TTACGTAAATCGCAATGCGAATACGTAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGATTACGTAA
*
72923 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGA-TTACGTAA
*
72964 TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGA-TTACGTAA
* *
73005 TCGCATTGTGATTTTCCTAATTCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGA-TTACGTAA
* * *
73046 TCGCATTGCGATTTACGTAA-TCGCATTGCGATT
1 TCGCATTGCGATTTTCCTAATTCGCAATGCGATT
73079 TAGTAAATCG
Statistics
Matches: 239, Mismatches: 35, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
39 15 0.06
40 28 0.12
41 180 0.75
42 13 0.05
43 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (40 bp):
TCGCATTGCGATTTTCCTAATTCGCAATGCGATTACGTAA
Found at i:72824 original size:21 final size:21
Alignment explanation
Indices: 72781--73091 Score: 219
Period size: 20 Copynumber: 15.3 Consensus size: 21
72771 TTTTCCTAAT
*
72781 TCGCAATGTGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
72801 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAA
72822 TCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
72842 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAA
* * ** *
72863 TCGTAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTACGTAAA
*
72884 TCGTAATGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGTAAA
72904 TCGCAATGCGAA-TACGT-AA
1 TCGCAATGCGAATTACGTAAA
* * * * *
72923 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGAATTACGTAAA
* *
72944 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGTAAA
* * * * *
72964 TCGCATTGCGATTTTCCTAAT
1 TCGCAATGCGAATTACGTAAA
* *
72985 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGTAAA
* * * * * *
73005 TCGCATTGTGATTTTCCTAAT
1 TCGCAATGCGAATTACGTAAA
* *
73026 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGTAAA
* *
73046 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGTAAA
* *
73066 TCGCATTGCGATTTA-GTAAA
1 TCGCAATGCGAATTACGTAAA
73086 TCGCAA
1 TCGCAA
73092 CGAGATTCTG
Statistics
Matches: 244, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
19 14 0.06
20 129 0.53
21 101 0.41
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (21 bp):
TCGCAATGCGAATTACGTAAA
Found at i:72832 original size:62 final size:61
Alignment explanation
Indices: 72781--72933 Score: 209
Period size: 62 Copynumber: 2.5 Consensus size: 61
72771 TTTTCCTAAT
*
72781 TCGCAATGTGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
* * * * * * *
72842 TCGCAATGCGAATTAGGAAAATCGTAACGCGAATTTGGGAAATCGTAATGCGATTACGTAAA
1 TCGCAATGCGAA-TACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
*
72904 TCGCAATGCGAATACGT-AATCGCATTGCGA
1 TCGCAATGCGAATACGTAAATCGCAATGCGA
72934 TTTTCCTAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 10 0.13
61 14 0.18
62 54 0.69
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (61 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAA
Found at i:72852 original size:82 final size:82
Alignment explanation
Indices: 72766--73091 Score: 277
Period size: 82 Copynumber: 4.0 Consensus size: 82
72756 AAATTCGCGT
* * *
72766 TGCGATTTTCCTAATTCGCAATGTGA-ATACGTAAATCGCAATGCGAATTAGGAAAATCGCAATG
1 TGCGATTTTCCTAATTCGCAATGCGATATACGT-AATCGCAATGCGAATTACGTAAATCGCAATG
72830 CGA-TTACGTAAATCGCAA
65 CGATTTACGT-AATCGCAA
* **** * * * * ** * *
72848 TGCGAATTAGGAAAATCGTAACGCGAATTTGGGAAATCGTAATGCG-ATTACGTAAATCGCAATG
1 TGCGATTTTCCTAATTCGCAATGCG-ATATACGTAATCGCAATGCGAATTACGTAAATCGCAATG
* *
72912 CGA-ATACGTAATCGCAT
65 CGATTTACGTAATCGCAA
* * * * * * * *
72929 TGCGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCATTGC
1 TGCGATTTTCCTAATTCGCAATGCGATATACGTAATCGCAATGCGAATTACGTAAATCGCAATGC
*
72994 GATTTACGTAATCGCAT
66 GATTTACGTAATCGCAA
* * * * * *
73011 TGTGATTTTCCTAATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACGT-AATCGCATTGC
1 TGCGATTTTCCTAATTCGCAATGCGATATACGTAATCGCAATGCGAATTACGTAAATCGCAATGC
73075 GATTTA-GTAAATCGCAA
66 GATTTACGT-AATCGCAA
73092 CGAGATTCTG
Statistics
Matches: 196, Mismatches: 43, Indels: 11
0.78 0.17 0.04
Matches are distributed among these distances:
80 17 0.09
81 62 0.32
82 103 0.53
83 12 0.06
84 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (82 bp):
TGCGATTTTCCTAATTCGCAATGCGATATACGTAATCGCAATGCGAATTACGTAAATCGCAATGC
GATTTACGTAATCGCAA
Found at i:72969 original size:20 final size:20
Alignment explanation
Indices: 72890--73090 Score: 255
Period size: 20 Copynumber: 9.9 Consensus size: 20
72880 GAAATCGTAA
*
72890 TGCGA-TTACGTAAATCGCAA
1 TGCGATTTACGT-AATCGCAT
*
72910 TGCGA-ATACGTAATCGCAT
1 TGCGATTTACGTAATCGCAT
* *
72929 TGCGATTTTCCTAATTCGCAT
1 TGCGATTTACGTAA-TCGCAT
72950 TGCGATTTACGTAATCGCAT
1 TGCGATTTACGTAATCGCAT
* *
72970 TGCGATTTTCCTAATTCGCAT
1 TGCGATTTACGTAA-TCGCAT
72991 TGCGATTTACGTAATCGCAT
1 TGCGATTTACGTAATCGCAT
* * *
73011 TGTGATTTTCCTAATTCGCAT
1 TGCGATTTACGTAA-TCGCAT
73032 TGCGATTTACGTAATCGCAT
1 TGCGATTTACGTAATCGCAT
73052 TGCGATTTACGTAATCGCAT
1 TGCGATTTACGTAATCGCAT
73072 TGCGATTTA-GTAAATCGCA
1 TGCGATTTACGT-AATCGCA
73091 ACGAGATTCT
Statistics
Matches: 159, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
19 14 0.09
20 92 0.58
21 53 0.33
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (20 bp):
TGCGATTTACGTAATCGCAT
Found at i:76578 original size:14 final size:14
Alignment explanation
Indices: 76559--76593 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
76549 TGCGAAATGA
76559 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
76573 AAATCATCTTTTAC
1 AAATCAACTTTTAC
76587 AAATCAA
1 AAATCAA
76594 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:78492 original size:20 final size:20
Alignment explanation
Indices: 78433--78526 Score: 102
Period size: 19 Copynumber: 4.8 Consensus size: 20
78423 TCTGGAACTT
*
78433 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGAG-AAAATG
** *
78454 ATTATCGCAACG-CAAAATG
1 AAAATCGCAACGAGAAAATG
78473 AAAATCGCAACGAGAAAATG
1 AAAATCGCAACGAGAAAATG
* * *
78493 AAAATTGCAACGCG-AAATA
1 AAAATCGCAACGAGAAAATG
78512 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
78527 GAATCGCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
19 32 0.53
20 18 0.30
21 10 0.17
ACGTcount: A:0.51, C:0.17, G:0.18, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGAGAAAATG
Found at i:78503 original size:39 final size:39
Alignment explanation
Indices: 78433--78526 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
78423 TCTGGAACTT
* ** *
78433 AAAATCGCAACGTGAAAAATGATTATCGCAACGCAAAATG
1 AAAATCGCAACGAG-AAAATGAAAATCGCAACGCAAAATA
* *
78473 AAAATCGCAACGAGAAAATGAAAATTGCAACGCGAAATA
1 AAAATCGCAACGAGAAAATGAAAATCGCAACGCAAAATA
78512 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
78527 GAATCGCAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.73
40 13 0.27
ACGTcount: A:0.51, C:0.17, G:0.18, T:0.14
Consensus pattern (39 bp):
AAAATCGCAACGAGAAAATGAAAATCGCAACGCAAAATA
Found at i:78578 original size:19 final size:19
Alignment explanation
Indices: 78556--78599 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
78546 AAATCGCAAC
78556 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
78575 GCGATTTTCGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
78594 GCGATT
1 GCGATT
78600 TTCATTCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:78615 original size:20 final size:19
Alignment explanation
Indices: 78566--78627 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
78556 GCGATTATAG
*
78566 TTTCGCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCA
78585 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
78604 TTCTCTCGTTGCGATTTTCA
1 TT-TCGCGTTGCGATTTTCA
78624 TTTC
1 TTTC
78628 AACCAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 22 0.55
20 18 0.45
ACGTcount: A:0.08, C:0.23, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:78947 original size:187 final size:184
Alignment explanation
Indices: 78718--79092 Score: 596
Period size: 187 Copynumber: 2.0 Consensus size: 184
78708 ATGGATTGCA
*
78718 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAAGAATACACAGT
78782 TTAGCAGAATTGGCAGCAAACGAACAAATTTACTTTAAACCAAAAGACAAAAC-AAAGACAAATA
66 TTAGCAGAATTGGCAGCAAACGAACAAATTTAC-TTAAACCAAAAGACAAAACAAAAGACAAATA
* *
78846 CTAACTTCACAGTGTTAAAGAATACACAGTTTAGTAG-ATTTGGCAGCAACCGAACAAAT
130 CTAACTTCACAGTGTT----AATAAACAGTTTAGCAGTA-TTGGCAGCAACCGAACAAAT
*
78905 TTACTTTCAACCAAAA-ACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAAGAATACACAGT
* * *
78969 TTAGCAGAATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAAGACAAATAC
66 TTAGCAGAATTGGCAGCAAACGAACAAATTTACTTAAACCAAAAGACAAAACAAAAGACAAATAC
*
79034 TAACTTCACAGTGTTAATAAACAGTTTAGCAGTATTGGCAGCAACCGAATAAAT
131 TAACTTCACAGTGTTAATAAACAGTTTAGCAGTATTGGCAGCAACCGAACAAAT
79088 TTACT
1 TTACT
79093 AAGCAATCTA
Statistics
Matches: 177, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
183 39 0.22
184 1 0.01
186 18 0.10
187 108 0.61
188 11 0.06
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (184 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTATTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAAACGAACAAATTTACTTAAACCAAAAGACAAAACAAAAGACAAATAC
TAACTTCACAGTGTTAATAAACAGTTTAGCAGTATTGGCAGCAACCGAACAAAT
Found at i:78982 original size:93 final size:94
Alignment explanation
Indices: 78718--79092 Score: 602
Period size: 94 Copynumber: 4.1 Consensus size: 94
78708 ATGGATTGCA
* *
78718 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
78782 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
78811 TTACTTTAAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
78876 TTAGTAGATTTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
78905 TTACTTTCAACCAAAA-ACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
78969 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
78998 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
79058 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
79088 TTACT
1 TTACT
79093 AAGCAATCTA
Statistics
Matches: 266, Mismatches: 12, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
90 41 0.15
92 11 0.04
93 89 0.33
94 125 0.47
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:80865 original size:19 final size:19
Alignment explanation
Indices: 80779--80924 Score: 141
Period size: 19 Copynumber: 8.1 Consensus size: 19
80769 TCTTTTGGTT
*
80779 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
80798 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
80818 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
80836 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
80852 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
80869 G--A-GAGAATCTCAACGC
1 GAAATGAAAATCGCAACGC
80885 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
80904 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
80923 GA
1 GA
80925 TTTTGGTTTC
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
14 18 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 44 0.42
20 28 0.27
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:80865 original size:33 final size:33
Alignment explanation
Indices: 80779--80902 Score: 158
Period size: 33 Copynumber: 3.5 Consensus size: 33
80769 TCTTTTGGTT
80779 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
80818 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
80852 GAAATGAAAATCGCAACGAGAGAATCTCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
80885 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
80903 CGAAATGAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
33 48 0.61
34 11 0.14
36 1 0.01
37 1 0.01
38 3 0.04
40 15 0.19
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:80908 original size:52 final size:52
Alignment explanation
Indices: 80779--80919 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 52
80769 TCTTTTGGTT
* * *
80779 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATGACTATCGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGAGGAAAT-ACTAACGC
*
80833 -AACGA-GAGAATCGCAACGCGAAATGAAAATCGCAACGA-GAGAAT-CTCAACGC
1 GAA--ATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGGA-AATACT-AACGC
80885 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
80920 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
51 3 0.04
52 35 0.46
53 23 0.30
54 14 0.18
55 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (52 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGGAAATACTAACGC
Found at i:81533 original size:20 final size:20
Alignment explanation
Indices: 81508--81556 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
81498 TATGTAAATC
81508 GCATTGCGATAGTCAT-ATTT
1 GCATTGCGAT-GTCATAATTT
* *
81528 GCATTGCGATTTCCTAATTT
1 GCATTGCGATGTCATAATTT
81548 GCATTGCGA
1 GCATTGCGA
81557 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.39
Consensus pattern (20 bp):
GCATTGCGATGTCATAATTT
Found at i:81579 original size:21 final size:21
Alignment explanation
Indices: 81553--81598 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
81543 AATTTGCATT
81553 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
81574 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
81595 GCGA
1 GCGA
81599 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:82560 original size:35 final size:35
Alignment explanation
Indices: 82514--82589 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
82504 AAAACAGTCC
* *
82514 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
82549 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
82584 TCAATT
1 TCAATT
82590 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:83122 original size:130 final size:130
Alignment explanation
Indices: 82982--83229 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
82972 TTATTATATA
* **
82982 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
83047 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
83112 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGGCATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * * *
83177 TTAACACATGATCATGATATATGTTATTGGTGACATATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
83230 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:83260 original size:130 final size:129
Alignment explanation
Indices: 82996--83260 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
82986 ATTTGGTCCT
* ** *
82996 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
83061 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
*
83126 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGGCATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
83191 TGATATATGTTATTGGTGACATATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
83255 -A
128 CA
83256 AAATT
1 AAATT
83261 TGGGTCTTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:91186 original size:20 final size:20
Alignment explanation
Indices: 91163--91201 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
91153 GAGATATCTC
91163 TTTTTTT-G-AATTATCTTTT
1 TTTTTTTGGCAATT-TCTTTT
91182 TTTTTTTGGCAATTTCTTTT
1 TTTTTTTGGCAATTTCTTTT
91202 AACCGGTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 7 0.39
21 4 0.22
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTTTTGGCAATTTCTTTT
Found at i:94933 original size:11 final size:12
Alignment explanation
Indices: 94917--94946 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
94907 CACAAAAAAA
94917 TATAAATTAT-T
1 TATAAATTATCT
94928 TATAAATTATCT
1 TATAAATTATCT
94940 TATAAAT
1 TATAAAT
94947 ACTTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
TATAAATTATCT
Found at i:100277 original size:24 final size:23
Alignment explanation
Indices: 100236--100286 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
100226 TAGTAAGTAA
*
100236 AAAAAACAAATAATAAAATATATAT
1 AAAAAACAAATAAGAAAATA-A-AT
*
100261 AAAAAAGAAA-AAGAAAATAAAT
1 AAAAAACAAATAAGAAAATAAAT
100283 AAAA
1 AAAA
100287 CAAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 8 0.33
25 9 0.38
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAAAACAAATAAGAAAATAAAT
Found at i:100291 original size:20 final size:19
Alignment explanation
Indices: 100259--100310 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
100249 TAAAATATAT
* *
100259 ATAA-AAAAGAAAAAGAAA
1 ATAATAAAACAAAAACAAA
100277 ATAAATAAAACAAAAACAAA
1 AT-AATAAAACAAAAACAAA
100297 ATAATAATAACAAA
1 ATAATAA-AACAAA
100311 GTACGAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 2 0.07
19 7 0.24
20 20 0.69
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.12
Consensus pattern (19 bp):
ATAATAAAACAAAAACAAA
Found at i:100611 original size:2 final size:2
Alignment explanation
Indices: 100604--100630 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
100594 TTTGTGTAGA
100604 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
100631 ATAATGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:100933 original size:8 final size:7
Alignment explanation
Indices: 100912--100958 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
100902 AAGAGAAAGA
100912 AAAATAT
1 AAAATAT
100919 AATAATAAT
1 AA-AAT-AT
100928 AAAATAT
1 AAAATAT
100935 AAAA-AT
1 AAAATAT
100941 ATAAATAT
1 A-AAATAT
*
100949 ATAATAT
1 AAAATAT
100956 AAA
1 AAA
100959 TAAGTAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 3 0.09
7 18 0.53
8 9 0.26
9 4 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATAT
Found at i:100954 original size:13 final size:13
Alignment explanation
Indices: 100914--100960 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
100904 GAGAAAGAAA
100914 AATAT-AATA-AT
1 AATATAAATATAT
*
100925 AATA-AAATATAAA
1 AATATAAATAT-AT
100938 AATATAAATATAT
1 AATATAAATATAT
100951 AATATAAATA
1 AATATAAATA
100961 AGTAGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATATAAATATAT
Found at i:101119 original size:2 final size:2
Alignment explanation
Indices: 101112--101137 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101102 AGCAAGTATG
101112 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
101138 AAACTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101561 original size:37 final size:37
Alignment explanation
Indices: 101520--101617 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
101510 GTGCTTGTGG
* ** *
101520 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAACAAAACTCT
* * *
101557 ATCCTATTTTTAAGAGTTTAAATCCTAACAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAACAAAACTCT
* *
101594 ATCATATTTTTAGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTAAATC
101618 CTAATAGGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAACAAAACTCT
Found at i:107236 original size:2 final size:2
Alignment explanation
Indices: 107229--107255 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
107219 GGCCTTCCCC
107229 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
107256 ATTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:107781 original size:59 final size:59
Alignment explanation
Indices: 107704--107835 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 59
107694 GTCGGGTGAC
* * * * *
107704 CATTTTGTAACTTTTAATAGTCGGGA-GACTTAACAAAACAATATCC-TATATCGTGAGAT
1 CATTTTATAATTTTTAATAGTC-GAATGACTCAACAAAACAATA-CCTTATATCGAGAGAT
* *
107763 CATTTTATAATTTTTAATAGTCGAATTACTCAACAAAATAATACCTTATATCGAGAGAT
1 CATTTTATAATTTTTAATAGTCGAATGACTCAACAAAACAATACCTTATATCGAGAGAT
107822 CA-TTTATATATTTT
1 CATTTTATA-ATTTT
107836 ATCCATTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 10 0.16
59 53 0.84
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (59 bp):
CATTTTATAATTTTTAATAGTCGAATGACTCAACAAAACAATACCTTATATCGAGAGAT
Found at i:108024 original size:21 final size:21
Alignment explanation
Indices: 107998--108038 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
107988 TGTGCTCCAT
107998 AAATATTTTTGCTATAAATAA
1 AAATATTTTTGCTATAAATAA
108019 AAATATTTTTGCTATAAATA
1 AAATATTTTTGCTATAAATA
108039 TTTTTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
AAATATTTTTGCTATAAATAA
Found at i:108481 original size:28 final size:27
Alignment explanation
Indices: 108437--108495 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
108427 ACTTTTTAAT
* *
108437 TTAATTATCATTTGGTTAATTCATAACA
1 TTAATTATCATTAGGTTAATTAATAA-A
*
108465 TTAATTAAT-ATTAGGTTTATTAATAAA
1 TTAATT-ATCATTAGGTTAATTAATAAA
108492 TTAA
1 TTAA
108496 ATTTCATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 20 0.74
29 2 0.07
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (27 bp):
TTAATTATCATTAGGTTAATTAATAAA
Found at i:113103 original size:126 final size:125
Alignment explanation
Indices: 112941--113191 Score: 477
Period size: 126 Copynumber: 2.0 Consensus size: 125
112931 TGCAAAGATC
112941 TGTTGTGGGATAACTCTTTTAATTATTTTATTTCATTCATATTGTCAAGATTCGAAATTGAATTT
1 TGTTGTGGGATAACTCTTTTAATTATTTTATTTCATTCATATTGTCAAGATTCGAAATTGAATTT
113006 TTAAACTTCAATACTTATATCAAAATTTTTATAGTAATTGCACAAGC-ATGGTTCAAGTT
66 TTAAACTTCAATACTTATATCAAAATTTTTATAGTAATTGCACAAGCAATGGTTCAAGTT
113065 TGTTGTGAGGATAACTCTTTTAATTAATTTTATTTCATTCATATTGTCAAGATTCGAAATTGAAT
1 TGTTGTG-GGATAACTCTTTTAATT-ATTTTATTTCATTCATATTGTCAAGATTCGAAATTGAAT
113130 TTTTAAACTTCAATACTTATATCAAAATTTTTATAGTAATTGCACAAGCAATGGTTCAAGTT
64 TTTTAAACTTCAATACTTATATCAAAATTTTTATAGTAATTGCACAAGCAATGGTTCAAGTT
113192 CTTAGTTAGT
Statistics
Matches: 124, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
124 7 0.06
125 17 0.14
126 88 0.71
127 12 0.10
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (125 bp):
TGTTGTGGGATAACTCTTTTAATTATTTTATTTCATTCATATTGTCAAGATTCGAAATTGAATTT
TTAAACTTCAATACTTATATCAAAATTTTTATAGTAATTGCACAAGCAATGGTTCAAGTT
Found at i:118108 original size:216 final size:218
Alignment explanation
Indices: 117794--118228 Score: 792
Period size: 217 Copynumber: 2.0 Consensus size: 218
117784 TAAAGTTTTT
117794 TTGGGTCCAATTTGTCCTGAACTTGACTTATTTTTGGTTCATCTGGTACCTGACTTCACTTTTTG
1 TTGGGTCCAATTTGTCCTGAACTTGACTTATTTTTGGTTCATCTGGTACCTGACTTCACTTTTTG
117859 GTCCAAATAGATAGTAATGGTAAATGGTTATTTGAATC-AATTGAACAATGAAGTCAAGTTCAGG
66 GTCCAAATAGATAGTAATGGTAAATGGTTATTTGAATCAAATTGAACAATGAAGTCAAGTTCAGG
117923 TACCAATTTGAACCTAAAAGCCAAGTT-CTGTACTAATTGGACCG-AAAAGG-TTAGAT-TCGAA
131 TACCAATTTGAACCTAAAAGCCAAGTTCCTGTACTAATTGGACCGAAAAAGGTTTAGATATCGAA
117984 TTAAACCTTGAAGCAAGTTTAGG
196 TTAAACCTTGAAGCAAGTTTAGG
118007 TTGGGTCCAATTTGTTCCTGAACTTGACTTATTTTTGGTTCAATCTGGTACCTGAACTTCACTTT
1 TTGGGTCCAATTTG-TCCTGAACTTGACTTATTTTTGGTTC-ATCTGGTACCTG-ACTTCACTTT
118072 TTGGTCCAAATAGATAGTAATGG-AAATGGCTTATTTGAATCAAATTGAACAATGAAGTCAAGTT
63 TTGGTCCAAATAGATAGTAATGGTAAATGG-TTATTTGAATCAAATTGAACAATGAAGTCAAGTT
118136 CAGGTACCAATTTGAACCTAAAAGCCAAGTTCCTGTACTAATTGGACCGAAAAAGGTTTAGATAT
127 CAGGTACCAATTTGAACCTAAAAGCCAAGTTCCTGTACTAATTGGACCGAAAAAGGTTTAGATAT
118201 CGAATTAAACCTTGAAGCAAGTTTAGG
192 CGAATTAAACCTTGAAGCAAGTTTAGG
118228 T
1 T
118229 ATTTAATTGG
Statistics
Matches: 213, Mismatches: 0, Indels: 10
0.96 0.00 0.04
Matches are distributed among these distances:
213 14 0.07
214 26 0.12
215 18 0.08
216 44 0.21
217 53 0.25
218 17 0.08
219 6 0.03
220 6 0.03
221 29 0.14
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (218 bp):
TTGGGTCCAATTTGTCCTGAACTTGACTTATTTTTGGTTCATCTGGTACCTGACTTCACTTTTTG
GTCCAAATAGATAGTAATGGTAAATGGTTATTTGAATCAAATTGAACAATGAAGTCAAGTTCAGG
TACCAATTTGAACCTAAAAGCCAAGTTCCTGTACTAATTGGACCGAAAAAGGTTTAGATATCGAA
TTAAACCTTGAAGCAAGTTTAGG
Found at i:121334 original size:2 final size:2
Alignment explanation
Indices: 121329--121378 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
121319 TCAAATAATA
121329 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
121371 CT CT CT CT
1 CT CT CT CT
121379 ATATATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:130451 original size:65 final size:66
Alignment explanation
Indices: 130333--130464 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 66
130323 AAACCCAATT
130333 TTTCACATGATAATAAGAAGTTTACGCCACGTATGACAACAGCAGCTCATATATAGGTTGCATTC
1 TTTCACATGATAATAAGAAGTTTACGCCACGTATGACAACAGCAGCTCATATATAGGTTGCATTC
130398 G
66 G
130399 TTTCACATGATAATAAGAAGTTTACG-CACGTATGACAACAGCAGCTCATATATAGGTTGCATTC
1 TTTCACATGATAATAAGAAGTTTACGCCACGTATGACAACAGCAGCTCATATATAGGTTGCATTC
130463 G
66 G
130464 T
1 T
130465 ATCGGAAAGA
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 40 0.61
66 26 0.39
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (66 bp):
TTTCACATGATAATAAGAAGTTTACGCCACGTATGACAACAGCAGCTCATATATAGGTTGCATTC
G
Found at i:133687 original size:13 final size:14
Alignment explanation
Indices: 133669--133699 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
133659 AACTCATCCA
133669 TCTCCATCTA-CAC
1 TCTCCATCTATCAC
133682 TCTCCATCTATCAC
1 TCTCCATCTATCAC
133696 TCTC
1 TCTC
133700 TCCGGCGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.19, C:0.45, G:0.00, T:0.35
Consensus pattern (14 bp):
TCTCCATCTATCAC
Found at i:134363 original size:24 final size:24
Alignment explanation
Indices: 134336--134389 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
134326 GTATTCGAAA
134336 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
134360 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
134384 TTTGAT
1 TTTGAT
134390 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:136665 original size:6 final size:6
Alignment explanation
Indices: 136656--136689 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
136646 AAGCAAATGG
* *
136656 AAATCA AAATCG CAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
136690 TTCAATCACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:138550 original size:21 final size:21
Alignment explanation
Indices: 138526--138596 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
138516 GTGAATCGGG
*
138526 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGATGGGC
*
138547 CTCTTGAACGATGGGATGGGC
1 CTCTTGAACGGTGGGATGGGC
*
138568 CTCTTGAACGGTGGGATGAGC
1 CTCTTGAACGGTGGGATGGGC
138589 CTCTTGAA
1 CTCTTGAA
138597 ATATAGGGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.18, C:0.20, G:0.38, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGATGGGC
Found at i:138591 original size:42 final size:40
Alignment explanation
Indices: 138526--138617 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 40
138516 GTGAATCGGG
* * *
138526 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGGGATGGGC
1 CTCTTGAACGGTGGGAGGAGCCTCTTGAAAGATAGG--GGGC
* *
138568 CTCTTGAACGGTGGGATGAGCCTCTTGAAATATAGGGGGC
1 CTCTTGAACGGTGGGAGGAGCCTCTTGAAAGATAGGGGGC
138608 CTCTTGAACG
1 CTCTTGAACG
138618 ATGACAGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
40 14 0.31
42 31 0.69
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.24
Consensus pattern (40 bp):
CTCTTGAACGGTGGGAGGAGCCTCTTGAAAGATAGGGGGC
Found at i:139265 original size:42 final size:42
Alignment explanation
Indices: 139190--139286 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
139180 GTGATGGAAT
* * * * *
139190 AGGTGATGGCTCTCGTTGTGGAGGTGTATAATCGGCTCGATC
1 AGGTGATGGCTCTAGGTGTCGAGCTGTAGAATCGGCTCGATC
* *
139232 AGGTGATGACTCTAGGTGTCGAGCTGTAGAATCGGCTTGATC
1 AGGTGATGGCTCTAGGTGTCGAGCTGTAGAATCGGCTCGATC
139274 AGGTGATGGCTCT
1 AGGTGATGGCTCT
139287 CGAAGTGGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (42 bp):
AGGTGATGGCTCTAGGTGTCGAGCTGTAGAATCGGCTCGATC
Found at i:148101 original size:20 final size:20
Alignment explanation
Indices: 148076--148249 Score: 260
Period size: 20 Copynumber: 8.7 Consensus size: 20
148066 TTTTCCTAAT
148076 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
148096 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
148117 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
148137 TCGCAATGCGAATTCAG-AAA
1 TCGCAATGCGAATAC-GTAAA
148157 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
148177 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
148197 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
148217 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
148237 TCGCAACGCGAAT
1 TCGCAATGCGAAT
148250 CTGACTATCG
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.01
20 121 0.88
21 16 0.12
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:148259 original size:20 final size:20
Alignment explanation
Indices: 148236--148282 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
148226 GAATACGTAA
*
148236 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
148256 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
148276 ATCGCAA
1 ATCGCAA
148283 TACTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:149153 original size:24 final size:24
Alignment explanation
Indices: 149102--149155 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
149092 GTATTCGAAA
* *
149102 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCAGAC
* *
149126 TTTGATCTTGATCAATACTCAGAT
1 TTTGATCTTGATCAATACCCAGAC
149150 TTTGAT
1 TTTGAT
149156 GATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCAGAC
Found at i:151601 original size:20 final size:21
Alignment explanation
Indices: 151576--151644 Score: 108
Period size: 20 Copynumber: 3.4 Consensus size: 21
151566 CAACGCGGAA
151576 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
*
151596 ATCGCAACACGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
151616 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
151636 ATCGCAACG
1 ATCGCAACG
151645 AGAGAATCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 42 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:151736 original size:34 final size:34
Alignment explanation
Indices: 151693--151788 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
151683 ATTAGTTTCG
151693 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
151727 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
151760 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
151789 AGTCTGTTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Done.