Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1339
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: 77321
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:5214 original size:15 final size:15
Alignment explanation
Indices: 5194--5224 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5184 CATCAACCTA
5194 ATTTCTACCACAACC
1 ATTTCTACCACAACC
5209 ATTTCTACCACAACC
1 ATTTCTACCACAACC
5224 A
1 A
5225 AAGCTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (15 bp):
ATTTCTACCACAACC
Found at i:6531 original size:31 final size:30
Alignment explanation
Indices: 6410--6532 Score: 102
Period size: 31 Copynumber: 4.0 Consensus size: 30
6400 GATTCGGACT
* * *
6410 TAGGTGCCAACAATTTGTGTGGGCTTTGAC
1 TAGGTGCCACCAACTTGTGCGGGCTTTGAC
* * *
6440 TCAGGTGCCGCCAACTTGTACGGGCTTAGAC
1 T-AGGTGCCACCAACTTGTGCGGGCTTTGAC
* * ** *
6471 TTGGGTACCACCAACTTGTGCAAGTTTTGAC
1 -TAGGTGCCACCAACTTGTGCGGGCTTTGAC
* *
6502 TAGAGTGCCACCAACTCGTGTGGGCTTTGAC
1 TAG-GTGCCACCAACTTGTGCGGGCTTTGAC
6533 ATTCTAAGGG
Statistics
Matches: 69, Mismatches: 21, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
30 3 0.04
31 65 0.94
32 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGTGCCACCAACTTGTGCGGGCTTTGAC
Found at i:6712 original size:149 final size:148
Alignment explanation
Indices: 6479--6825 Score: 435
Period size: 149 Copynumber: 2.3 Consensus size: 148
6469 ACTTGGGTAC
* * * * * * * * *
6479 CACCAACTTGTGCAAGTTTTGACTAGAGTGCCACCAACTCGTGTGGGCTTTGACATTCTAAGGGT
1 CACCAACTTATGCAGGCTTCGACTAGGGTGCCACCAATTCATGTGGGCTTCGACATTCTAAGGCT
* * * *
6544 TGACCTCTTTAGATAGGTGCCAACTAATTTGGACTTGTCTTGAACTTAGGTGCCACTAGTTTGTG
66 TGACCTCTTTAGACAGGTGCCAACTAATTTGGACTTGACTTGAACTTAGGTGCCACCAGCTTGTG
6609 TGGGCTTTAACTCGAGTG-
131 T-GGCTTTAACTCGAGTGT
* * * * *
6627 CTGCTAATTTATGCAGGCTTCGACTAGGGTGCCACCAATTTATGTGGGCTTCGATATTCTAAGGC
1 C-ACCAACTTATGCAGGCTTCGACTAGGGTGCCACCAATTCATGTGGGCTTCGACATTCTAAGGC
6692 TTGACCTCTTTAGACAGGTGCCAACTAATTTGGACTTGACTTGAACTTAGGTGCCACCAGCTTGT
65 TTGACCTCTTTAGACAGGTGCCAACTAATTTGGACTTGACTTGAACTTAGGTGCCACCAGCTTGT
* *
6757 GTGGCTTTGACTCGGGTGT
130 GTGGCTTTAACTCGAGTGT
* * * * * *
6776 CACCAGCTTGTGCAGGCTTTGACTAGGGTACCACCAATTCGTGTGAGCTT
1 CACCAACTTATGCAGGCTTCGACTAGGGTGCCACCAATTCATGTGGGCTT
6826 ATGAAAGAGG
Statistics
Matches: 167, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
148 54 0.32
149 113 0.68
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (148 bp):
CACCAACTTATGCAGGCTTCGACTAGGGTGCCACCAATTCATGTGGGCTTCGACATTCTAAGGCT
TGACCTCTTTAGACAGGTGCCAACTAATTTGGACTTGACTTGAACTTAGGTGCCACCAGCTTGTG
TGGCTTTAACTCGAGTGT
Found at i:6782 original size:30 final size:31
Alignment explanation
Indices: 6741--6811 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
6731 CTTGAACTTA
* *
6741 GGTGCCACCAGCTTGTG-TGGCTTTGACTCG
1 GGTGCCACCAGCTTGTGCAGGCTTTGACTAG
*
6771 GGTGTCACCAGCTTGTGCAGGCTTTGACTAG
1 GGTGCCACCAGCTTGTGCAGGCTTTGACTAG
*
6802 GGTACCACCA
1 GGTGCCACCA
6812 ATTCGTGTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 16 0.46
31 19 0.54
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (31 bp):
GGTGCCACCAGCTTGTGCAGGCTTTGACTAG
Found at i:7146 original size:34 final size:36
Alignment explanation
Indices: 7081--7161 Score: 94
Period size: 34 Copynumber: 2.3 Consensus size: 36
7071 TTGAGGATAA
* * *
7081 AGGAAAAAGGAAAAAAGGGATGTGTCTTGCTCCTTG
1 AGGATAAAGGGAAAAAGGGATGTGTCCTGCTCCTTG
*
7117 AGGATAAAGGGAAAAA-GG-TGTGTCCTGCTCTTTG
1 AGGATAAAGGGAAAAAGGGATGTGTCCTGCTCCTTG
* *
7151 AAGATGAAGGG
1 AGGATAAAGGG
7162 TGTTGAGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.59
35 2 0.05
36 14 0.36
ACGTcount: A:0.35, C:0.10, G:0.33, T:0.22
Consensus pattern (36 bp):
AGGATAAAGGGAAAAAGGGATGTGTCCTGCTCCTTG
Found at i:8308 original size:14 final size:13
Alignment explanation
Indices: 8263--8311 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
8253 TGAGCACTTA
8263 TTTTTTTTATTATT
1 TTTTTTTTATTA-T
*
8277 TTTTTGTTTAGTTTT
1 TTTTT-TTTA-TTAT
8292 TTTTGTTTTATTAT
1 TTTT-TTTTATTAT
8306 TTTTTT
1 TTTTTT
8312 AGGCATAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 12 0.40
15 13 0.43
16 3 0.10
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTTTTATTAT
Found at i:10310 original size:340 final size:339
Alignment explanation
Indices: 9298--10315 Score: 1497
Period size: 340 Copynumber: 3.0 Consensus size: 339
9288 AATAATAACT
* *
9298 GACCCTCATGATTTGTTTGGCCATTTGATGTCCATTGGCATGTGTGCCATATAACCCTTCATGAA
1 GACCCTTATGATTTGTTTGGCCATTTGATGTCCATTGGCGTGTGTGCCATATAACCCTTCATGAA
* * *
9363 CTTCCTGTAAGATTTGTTTAGCTTCAGTGGCATCAACGCATCTGAGCAACACCTGATCCTGACTC
66 CTTCCTCTAAGATTCGTTTAGCTTCAGTGGCATCAACGCATCTGAGCAACACCTAATCCTGACTC
* * * * *
9428 TTCTTGTATAAGATCCTGCCATGTAAGAAGAATCCCATTGCTAGTCTTCTGGTTGTCTTTTTTTC
131 TTCTTGTATAAGATCCTACCATCTAGGAAGAATCCCATTGCTAGTCTTCTGATTGTCCTTTTTTC
* * *
9493 ATTTTCAATTAAGTTCTCAGGGTATTGTTGATCCCTGATGTAACAAAGGATGTCTTGATACCATG
196 ATTTTCAATTGAGTTCTTAGGGTATTGCTGATCCCTGATGTAACAAAGGATGTCTTGATACCATG
* * * *
9558 GCAGACCATCATGTTCCCCCTCAATATTGTGATAATGTACTGGAGTTGTATAAATGCTCATTTGA
261 GCAGACCATC-TTTTCCCCCTCAATATTGTGATAATGCACCGGAGTTGTATAAATGCTCATTTAA
* ** *
9623 ATGGAAGCAACATCT
325 ACGGAAGTGACATCC
*
9638 GACCATTATGATTTGTTTGGCCATTTGATGTCCATTGGCGTGTGTGCCATATAACCCTTCATGAA
1 GACCCTTATGATTTGTTTGGCCATTTGATGTCCATTGGCGTGTGTGCCATATAACCCTTCATGAA
* * *
9703 CTTCCTCTAAGATTCATTTAGCTTCAGTGGCATCTATGCAT-TAGAGCAACACCTAAT-CTCGAC
66 CTTCCTCTAAGATTCGTTTAGCTTCAGTGGCATCAACGCATCT-GAGCAACACCTAATCCT-GAC
*
9766 TCTTCTTGTATAAGATCCTACCATCTAGGAAGAATCCCATTGCTAGTCTTCTGATTATCCTTTTT
129 TCTTCTTGTATAAGATCCTACCATCTAGGAAGAATCCCATTGCTAGTCTTCTGATTGTCCTTTTT
** * * *
9831 TTGTTTTCAATTGAGTT-TTCGGGGTATTACTGATCCCTAATGTAACAAAGGATGTCTTGATACC
194 TCATTTTCAATTGAGTTCTT-AGGGTATTGCTGATCCCTGATGTAACAAAGGATGTCTTGATACC
* * * * * *
9895 ATGGCAGACCATCTTTTCCCCTCTCAATATTATGATGATGCATCAGAGCTATATAAATGCTCATT
258 ATGGCAGACCATCTTTTCCCC-CTCAATATTGTGATAATGCACCGGAGTTGTATAAATGCTCATT
9960 TAAACGGAAGTGACATCC
322 TAAACGGAAGTGACATCC
*
9978 GACCCTTATGATTTGTTTGGCCATTTGATGTCCATTGGCGTGTGTGCCATATAGCCCTTCATGAA
1 GACCCTTATGATTTGTTTGGCCATTTGATGTCCATTGGCGTGTGTGCCATATAACCCTTCATGAA
* * * *
10043 CTTCCTCTAAGATTCGTTTAGCTTTAGTGGCATGAACGCATCTGAGTAATACCTAATCCTGACTC
66 CTTCCTCTAAGATTCGTTTAGCTTCAGTGGCATCAACGCATCTGAGCAACACCTAATCCTGACTC
* * * * *
10108 TTCTTGTATAAGATCCTACTATCTAGGAAGAATCCTATTGTTAG-CTTTTTTATTGTCCTTTTTT
131 TTCTTGTATAAGATCCTACCATCTAGGAAGAATCCCATTGCTAGTC-TTCTGATTGTCCTTTTTT
*
10172 CATTTTCAATTGCA-TTCTTAGGGTATTGCTGATCCCTGATGTAAAAAAGGATGTCTTGATACCA
195 CATTTTCAATTG-AGTTCTTAGGGTATTGCTGATCCCTGATGTAACAAAGGATGTCTTGATACCA
10236 TGGCAGACCATCTTTTTCCCCCTCAATATTGTGATAATGCACCGGAGTTGTATAAATGCTCATTT
259 TGGCAGACCATC-TTTTCCCCCTCAATATTGTGATAATGCACCGGAGTTGTATAAATGCTCATTT
10301 AAACGGAAGTGACAT
323 AAACGGAAGTGACAT
10316 TCGATTCTTG
Statistics
Matches: 604, Mismatches: 64, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
339 12 0.02
340 578 0.96
341 14 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (339 bp):
GACCCTTATGATTTGTTTGGCCATTTGATGTCCATTGGCGTGTGTGCCATATAACCCTTCATGAA
CTTCCTCTAAGATTCGTTTAGCTTCAGTGGCATCAACGCATCTGAGCAACACCTAATCCTGACTC
TTCTTGTATAAGATCCTACCATCTAGGAAGAATCCCATTGCTAGTCTTCTGATTGTCCTTTTTTC
ATTTTCAATTGAGTTCTTAGGGTATTGCTGATCCCTGATGTAACAAAGGATGTCTTGATACCATG
GCAGACCATCTTTTCCCCCTCAATATTGTGATAATGCACCGGAGTTGTATAAATGCTCATTTAAA
CGGAAGTGACATCC
Found at i:16952 original size:13 final size:13
Alignment explanation
Indices: 16934--16959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16924 TACAGCAAGT
16934 ATGTATCGATACA
1 ATGTATCGATACA
16947 ATGTATCGATACA
1 ATGTATCGATACA
16960 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:21833 original size:20 final size:21
Alignment explanation
Indices: 21808--21863 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
21798 AAAAACCTAG
21808 AATGTATCGATACAA-TG-AGA
1 AATGTATCGATACAATTGCA-A
*
21828 AATGTATCGATGCAATTGCAA
1 AATGTATCGATACAATTGCAA
21849 ACATGTATCGATACA
1 A-ATGTATCGATACA
21864 TTTACTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.45
21 4 0.13
22 13 0.42
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACAATTGCAA
Found at i:21983 original size:21 final size:21
Alignment explanation
Indices: 21935--21989 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
21925 TGAGACATGT
* *
21935 ATTGTATCGATGCATTCACTT
1 ATTGTATCGATACATTCACTA
21956 A-TGTATCGATACATTCACTA
1 ATTGTATCGATACATTCACTA
21976 ATTGTATCGATACA
1 ATTGTATCGATACA
21990 AATCATAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (21 bp):
ATTGTATCGATACATTCACTA
Found at i:24137 original size:13 final size:13
Alignment explanation
Indices: 24119--24149 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24109 AAAATTCATC
*
24119 ATGTATTGATACA
1 ATGTATCGATACA
24132 ATGTATCGATACA
1 ATGTATCGATACA
24145 ATGTA
1 ATGTA
24150 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24137 original size:33 final size:33
Alignment explanation
Indices: 24097--24165 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
24087 CCGTTACAAG
*
24097 CAATGTATCGATAAAAT-TCATCATGTATTGATA
1 CAATGTATCGATAAAATGT-ACCATGTATTGATA
*
24130 CAATGTATCGATACAATGTACCATGTATTGATA
1 CAATGTATCGATAAAATGTACCATGTATTGATA
24163 CAA
1 CAA
24166 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATAAAATGTACCATGTATTGATA
Found at i:24219 original size:20 final size:20
Alignment explanation
Indices: 24193--24248 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
24183 ACTGCCAGTT
24193 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
24212 TCCATGTATCGATACAA-TGA
1 T-CATGTATCGATACAATTGA
*
24232 TCAAGTATCGATACAAT
1 TCATGTATCGATACAAT
24249 GTATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:24254 original size:13 final size:13
Alignment explanation
Indices: 24236--24260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24226 CAATGATCAA
24236 GTATCGATACAAT
1 GTATCGATACAAT
24249 GTATCGATACAA
1 GTATCGATACAA
24261 AGCATAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:24256 original size:32 final size:33
Alignment explanation
Indices: 24215--24279 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
24205 ACAATTGTCC
*
24215 ATGTATCGATACAATG-ATCAA-GTATCGATACA
1 ATGTATCGATACAAAGCAT-AATGTATCGATACA
24247 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
24280 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:27893 original size:13 final size:13
Alignment explanation
Indices: 27875--27905 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27865 AAAATTCATC
*
27875 ATGTATTGATACA
1 ATGTATCGATACA
27888 ATGTATCGATACA
1 ATGTATCGATACA
27901 ATGTA
1 ATGTA
27906 CCATGTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:27893 original size:33 final size:33
Alignment explanation
Indices: 27853--27921 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
27843 CCGTTACAAG
*
27853 CAATGTATCGATAAAAT-TCATCATGTATTGATA
1 CAATGTATCGATAAAATGT-ACCATGTATTGATA
*
27886 CAATGTATCGATACAATGTACCATGTATTGATA
1 CAATGTATCGATAAAATGTACCATGTATTGATA
27919 CAA
1 CAA
27922 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATAAAATGTACCATGTATTGATA
Found at i:27975 original size:20 final size:20
Alignment explanation
Indices: 27949--28004 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
27939 ACTGCCAGTT
27949 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
27968 TCCATGTATCGATACAA-TGA
1 T-CATGTATCGATACAATTGA
*
27988 TCAAGTATCGATACAAT
1 TCATGTATCGATACAAT
28005 GTATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:28010 original size:13 final size:13
Alignment explanation
Indices: 27992--28016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27982 CAATGATCAA
27992 GTATCGATACAAT
1 GTATCGATACAAT
28005 GTATCGATACAA
1 GTATCGATACAA
28017 AGCATAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:28012 original size:32 final size:33
Alignment explanation
Indices: 27971--28035 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
27961 ACAATTGTCC
*
27971 ATGTATCGATACAATG-ATCAA-GTATCGATACA
1 ATGTATCGATACAAAGCAT-AATGTATCGATACA
28003 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
28036 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:30081 original size:13 final size:13
Alignment explanation
Indices: 30065--30095 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30055 ACAATTCATC
30065 ATGTATCGATACA
1 ATGTATCGATACA
*
30078 ATGTATTGATACA
1 ATGTATCGATACA
30091 ATGTA
1 ATGTA
30096 CCATATATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:30083 original size:33 final size:33
Alignment explanation
Indices: 30043--30111 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
30033 CCTTTACAAG
* *
30043 CAATGTATCAATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGT-ACCATATATCGATA
**
30076 CAATGTATTGATACAATGTACCATATATCGATA
1 CAATGTATCAATACAATGTACCATATATCGATA
30109 CAA
1 CAA
30112 ACAATGGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCATATATCGATA
Found at i:30215 original size:19 final size:20
Alignment explanation
Indices: 30140--30214 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
30130 CTGCCAGTTT
* *
30140 CATGTATTGATACAATTGCC
1 CATGTATCGATACAATTGAC
*
30160 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAC
*
30180 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAC
30199 CATGTATCGATACAAT
1 CATGTATCGATACAAT
30215 GTATCAATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.34
20 33 0.66
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAC
Found at i:30842 original size:22 final size:22
Alignment explanation
Indices: 30817--30858 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30807 AGATAAACAT
30817 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
30839 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
30859 TCTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:31500 original size:22 final size:22
Alignment explanation
Indices: 31472--31518 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
31462 AGGTCGAGAA
31472 ATGGGAATCCCGGCATCGCATG
1 ATGGGAATCCCGGCATCGCATG
31494 ATGGGAATCCCGGCATCGCATG
1 ATGGGAATCCCGGCATCGCATG
31516 ATG
1 ATG
31519 TGTCAATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.32, T:0.19
Consensus pattern (22 bp):
ATGGGAATCCCGGCATCGCATG
Found at i:36708 original size:21 final size:20
Alignment explanation
Indices: 36675--36717 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
36665 GAATCATGCA
* *
36675 AATTCTTGTTTTCCTTAGCT
1 AATTCTTATTTTCATTAGCT
36695 AATTCATTATTTTCATTAGCT
1 AATTC-TTATTTTCATTAGCT
36716 AA
1 AA
36718 CTTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.51
Consensus pattern (20 bp):
AATTCTTATTTTCATTAGCT
Found at i:38964 original size:20 final size:20
Alignment explanation
Indices: 38939--38992 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
38929 ATTACAAGCA
*
38939 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
38959 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
38979 ATGTATCGATACAA
1 ATGTATCGATACAA
38993 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:39065 original size:19 final size:19
Alignment explanation
Indices: 39021--39076 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
39011 CTGTCAGTTT
* **
39021 CATGTATCGATATAATTGTC
1 CATGTATCGATACAA-TGAA
39041 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
39060 CATGTATCGATACAATG
1 CATGTATCGATACAATG
39077 TATCCATACC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:39079 original size:13 final size:13
Alignment explanation
Indices: 39061--39109 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
39051 TACAATGAAC
39061 ATGTATCGATACA
1 ATGTATCGATACA
*
39074 ATGTATCCATACCATA
1 ATGTATCGATA-C--A
39090 ATGTATCGATACA
1 ATGTATCGATACA
39103 ATGTATC
1 ATGTATC
39110 AATAAAAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 18 0.58
14 1 0.03
15 1 0.03
16 11 0.35
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:47038 original size:21 final size:19
Alignment explanation
Indices: 46995--47041 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
46985 CAAGGTCCAA
* *
46995 TATCGATAATTCACTTATG
1 TATCGATAATTAAATTATG
47014 TATCGATACATTAAATTATTG
1 TATCGATA-ATTAAATTA-TG
47035 TATCGAT
1 TATCGAT
47042 TCAAATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 7 0.29
21 9 0.38
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (19 bp):
TATCGATAATTAAATTATG
Found at i:48190 original size:50 final size:51
Alignment explanation
Indices: 48129--48242 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 51
48119 TGAACAGTAC
* * *
48129 ATGTATCGATACATTCT-ATTTTTTACCCAGATGTATCGATACATTTTTTA
1 ATGTATCGATACAATCTGATTTTTTACCCAGATGTATCAATACATTTTTCA
* * *
48179 ATGTATTGATACAATCTGTTTTTTTACCTAGATGTATCAATACATTTTTCA
1 ATGTATCGATACAATCTGATTTTTTACCCAGATGTATCAATACATTTTTCA
*
48230 ATGTATCAATACA
1 ATGTATCGATACA
48243 TCTAGTTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 15 0.27
51 40 0.73
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.45
Consensus pattern (51 bp):
ATGTATCGATACAATCTGATTTTTTACCCAGATGTATCAATACATTTTTCA
Found at i:49133 original size:21 final size:21
Alignment explanation
Indices: 49100--49140 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49090 TCATCTAAAC
49100 AGCCTATGTCCATGCATTTTG
1 AGCCTATGTCCATGCATTTTG
49121 AGCC-ATGTACCATGCATTTT
1 AGCCTATGT-CCATGCATTTT
49141 AACATGCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (21 bp):
AGCCTATGTCCATGCATTTTG
Found at i:50583 original size:13 final size:13
Alignment explanation
Indices: 50565--50589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50555 AGAATGCACA
50565 GTATCGATACATT
1 GTATCGATACATT
50578 GTATCGATACAT
1 GTATCGATACAT
50590 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:50602 original size:20 final size:21
Alignment explanation
Indices: 50577--50629 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
50567 ATCGATACAT
*
50577 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AATAA
*
50597 TGTATCGATACTTGTAAATAA
1 TGTATCGATACATGTAAATAA
50618 TGTATCGATACA
1 TGTATCGATACA
50630 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (21 bp):
TGTATCGATACATGTAAATAA
Found at i:56818 original size:13 final size:13
Alignment explanation
Indices: 56800--56824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56790 CAGCATTCTC
56800 TGTATCGATACAT
1 TGTATCGATACAT
56813 TGTATCGATACA
1 TGTATCGATACA
56825 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:57299 original size:20 final size:22
Alignment explanation
Indices: 57266--57310 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
57256 GCAATACTCA
*
57266 CCAGGTCGCGACC-GGCA-CCC
1 CCAGGTCGCAACCGGGCAGCCC
*
57286 CCAGGTCGTAACCGGGCAGCCC
1 CCAGGTCGCAACCGGGCAGCCC
57308 CCA
1 CCA
57311 CACTAGCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.18, C:0.47, G:0.29, T:0.07
Consensus pattern (22 bp):
CCAGGTCGCAACCGGGCAGCCC
Found at i:59328 original size:20 final size:21
Alignment explanation
Indices: 59303--59355 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
59293 ATCGATACAT
*
59303 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
59323 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
59344 TGTATCGATACA
1 TGTATCGATACA
59356 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:59377 original size:11 final size:11
Alignment explanation
Indices: 59361--59393 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
59351 ATACAGGTGA
59361 TTGGCAGTAGC
1 TTGGCAGTAGC
59372 TTGGCAGTAGC
1 TTGGCAGTAGC
59383 TTGGCAGTAGC
1 TTGGCAGTAGC
59394 CACCCTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.27
Consensus pattern (11 bp):
TTGGCAGTAGC
Found at i:59444 original size:13 final size:13
Alignment explanation
Indices: 59426--59451 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59416 TACACATAAG
59426 ATGTATCGATACA
1 ATGTATCGATACA
59439 ATGTATCGATACA
1 ATGTATCGATACA
59452 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:59468 original size:33 final size:32
Alignment explanation
Indices: 59408--59471 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
59398 CTTAACTGTT
* *
59408 TGTATCGATACACATAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
59440 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
59472 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:61026 original size:17 final size:17
Alignment explanation
Indices: 61006--61041 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
60996 AAGGAAGATG
* *
61006 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
61023 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
61040 AA
1 AA
61042 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:67536 original size:36 final size:35
Alignment explanation
Indices: 67456--67536 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
67446 CAAAATGACA
* *
67456 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
67491 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
67526 AACAACAAAAA
1 AA-AACAAAAA
67537 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:67809 original size:14 final size:14
Alignment explanation
Indices: 67790--67817 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67780 TAATCCTAAA
67790 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
67804 AAAAAAAAAAAACC
1 AAAAAAAAAAAACC
67818 TTTTCACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACC
Found at i:68912 original size:27 final size:27
Alignment explanation
Indices: 68869--69660 Score: 1190
Period size: 27 Copynumber: 28.9 Consensus size: 27
68859 GTGGCATTTT
* *
68869 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
68897 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
68924 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
68952 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
68979 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
69007 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
69034 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69061 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69088 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
69115 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
69143 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69170 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
69197 CTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
69225 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
69252 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
69279 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
69306 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
69334 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
69361 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69388 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
69415 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
69443 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69470 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
69498 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69525 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
69553 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
69581 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
69608 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
69636 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
69661 ACCCATTCCA
Statistics
Matches: 703, Mismatches: 50, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
27 449 0.64
28 254 0.36
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:68937 original size:55 final size:54
Alignment explanation
Indices: 68869--69660 Score: 1190
Period size: 55 Copynumber: 14.5 Consensus size: 54
68859 GTGGCATTTT
* * *
68869 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
68924 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
68979 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
69034 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
69088 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
69143 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
69197 CTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACC
*
69252 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
69306 CTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
69361 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * ** *
69415 CTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
69470 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
69525 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CC
69581 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
69636 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
69661 ACCCATTCCA
Statistics
Matches: 681, Mismatches: 47, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
54 237 0.35
55 399 0.59
56 45 0.07
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:68969 original size:82 final size:81
Alignment explanation
Indices: 68869--69660 Score: 1192
Period size: 82 Copynumber: 9.6 Consensus size: 81
68859 GTGGCATTTT
*
68869 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
68934 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * * *
68952 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
69017 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
69034 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
69099 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
*
69115 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
69180 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
69197 CTTTTAAGTCCACAACTCTGTGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCA-TCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGT
69261 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * *
69279 CTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
69343 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * *
69361 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
69426 ATAACTCTGTGGCATCT
66 ACAACTCCGTGGCA-CC
* * *
69443 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
69508 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
69525 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
69590 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * * *
69608 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCTGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA
69661 ACCCATTCCA
Statistics
Matches: 658, Mismatches: 40, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.00
81 116 0.18
82 384 0.58
83 157 0.24
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:69688 original size:32 final size:32
Alignment explanation
Indices: 69646--70088 Score: 726
Period size: 32 Copynumber: 13.8 Consensus size: 32
69636 CTTTTAAATT
* *
69646 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
69678 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
69710 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
69742 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
69774 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
69806 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
69838 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
69870 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
69902 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
69934 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
69966 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
69998 CAGAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
70030 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
70062 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
70089 TCACCATTTT
Statistics
Matches: 390, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
31 3 0.01
32 384 0.98
33 3 0.01
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:71351 original size:17 final size:17
Alignment explanation
Indices: 71331--71366 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
71321 AAGGAAGATG
* *
71331 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
71348 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
71365 AA
1 AA
71367 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Done.