Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold84
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: 2025335
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 30794 characters in sequence are not A, C, G, or T
File 2 of 13
Found at i:169085 original size:83 final size:83
Alignment explanation
Indices: 168888--169131 Score: 167
Period size: 83 Copynumber: 2.9 Consensus size: 83
168878 TTGCTCGTAA
* * * * ** * *
168888 GCTTTGACTTGGAAGACTTCTTTATC-TTTATCTATCTATCGACTTTGACCTTGAA-A-ACTTCC
1 GCTTTGACCTGGGAGACTT-TTTTTCTTTTGTCTGCCTATCGACTTTGACC--CAAGAGACTTCT
* * *
168950 TTACCTTTTGCCTGCCTGTTG
63 TTACCTTTTGTCTGCCTATCG
** *** * * *
168971 GCTTTGACCCAGGAGACTTCTTCACCCTTTGTCTGCCCATCGACTTTGACCCAAGA-AATTCTTT
1 GCTTTGACCTGGGAGACTT-TTTTTCTTTTGTCTGCCTATCGACTTTGACCCAAGAGACTTCTTT
169035 ACCTTTTGTCTGCCTATCG
65 ACCTTTTGTCTGCCTATCG
* *** *
169054 GCTTTGACCTGGGAGACTTTTATTTCTTTTGTCTACCTATC-AGCTTTGACCTTGGAGACTACTT
1 GCTTTGACCTGGGAGACTTTT-TTTCTTTTGTCTGCCTATCGA-CTTTGACCCAAGAGACTTCTT
169118 TATCC-TTTGTCTGC
64 TA-CCTTTTGTCTGC
169132 TCATCATCTT
Statistics
Matches: 126, Mismatches: 29, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
82 5 0.04
83 83 0.66
84 36 0.29
85 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (83 bp):
GCTTTGACCTGGGAGACTTTTTTTCTTTTGTCTGCCTATCGACTTTGACCCAAGAGACTTCTTTA
CCTTTTGTCTGCCTATCG
Found at i:170257 original size:24 final size:23
Alignment explanation
Indices: 170213--170257 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
170203 AAAGAGAGAA
* *
170213 AAGAAAAAAAAAGTACTGAAAAG
1 AAGAAAAAAAAAGAACCGAAAAG
*
170236 AAGAATAAAAATAGAACCGAAA
1 AAGAA-AAAAAAAGAACCGAAA
170258 CAAAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.69, C:0.07, G:0.16, T:0.09
Consensus pattern (23 bp):
AAGAAAAAAAAAGAACCGAAAAG
Found at i:171521 original size:16 final size:16
Alignment explanation
Indices: 171471--171522 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
171461 AACACTCTAA
171471 TAATTAAAATAAATAT
1 TAATTAAAATAAATAT
* ***
171487 TAATCATTTTAAATA-
1 TAATTAAAATAAATAT
171502 TAATTAAAATAAATAT
1 TAATTAAAATAAATAT
171518 TAATT
1 TAATT
171523 GTTTTTAATC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
15 11 0.41
16 16 0.59
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATTAAAATAAATAT
Found at i:171806 original size:9 final size:9
Alignment explanation
Indices: 171792--171844 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
171782 TATTTTCAAA
171792 AAAATAAAT
1 AAAATAAAT
171801 AAAATAAAGT
1 AAAATAAA-T
171811 --AATAAAT
1 AAAATAAAT
171818 AAAATAAAGT
1 AAAATAAA-T
171828 --AATAAAT
1 AAAATAAAT
171835 AAAATAAAT
1 AAAATAAAT
171844 A
1 A
171845 CATAATAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 2 0.05
8 12 0.32
9 22 0.58
10 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAATAAAT
Found at i:171849 original size:17 final size:17
Alignment explanation
Indices: 171794--171842 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
171784 TTTTCAAAAA
171794 AATAAATAAAATAAAGT
1 AATAAATAAAATAAAGT
171811 AATAAATAAAATAAAGT
1 AATAAATAAAATAAAGT
171828 AATAAATAAAATAAA
1 AATAAATAAAATAAA
171843 TACATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AATAAATAAAATAAAGT
Found at i:175737 original size:51 final size:52
Alignment explanation
Indices: 175640--175741 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
175630 AATGATAAAT
* * *
175640 TGAAAAATGCATCGATACATTTTGGTCAAAAACCCAGAATGTATCGATACAA
1 TGAAAAATGCATCAATACATTTGGGTCAAAAACCCAAAATGTATCGATACAA
* *
175692 TGAAAAATGTATCAATACATTTGGGTC-AAACCCCAAAATGTATCGATACA
1 TGAAAAATGCATCAATACATTTGGGTCAAAAACCCAAAATGTATCGATACA
175742 TTTGGGTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 21 0.47
52 24 0.53
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (52 bp):
TGAAAAATGCATCAATACATTTGGGTCAAAAACCCAAAATGTATCGATACAA
Found at i:175759 original size:30 final size:31
Alignment explanation
Indices: 175695--175760 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
175685 GATACAATGA
175695 AAAATGTATCAATACATTTGGGTCAAACCCC
1 AAAATGTATCAATACATTTGGGTCAAACCCC
*
175726 AAAATGTATCGATACATTTGGGTCAAA-CCC
1 AAAATGTATCAATACATTTGGGTCAAACCCC
175756 AAAAT
1 AAAAT
175761 TTGCCTTAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.24
31 26 0.76
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.26
Consensus pattern (31 bp):
AAAATGTATCAATACATTTGGGTCAAACCCC
Found at i:175849 original size:21 final size:20
Alignment explanation
Indices: 175798--175851 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
175788 AATCTTAGAC
* *
175798 ATGTATCGATACATTCACTT
1 ATGTATCGATACATGCACCT
*
175818 ATGTATTGATACATGCACCT
1 ATGTATCGATACATGCACCT
175838 ATTGTATCGATACA
1 A-TGTATCGATACA
175852 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATGCACCT
Found at i:177510 original size:13 final size:13
Alignment explanation
Indices: 177492--177518 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
177482 CATTTCTTCC
177492 TGTATCGATACAA
1 TGTATCGATACAA
177505 TGTATCGATACAA
1 TGTATCGATACAA
177518 T
1 T
177519 TCATAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:177615 original size:13 final size:13
Alignment explanation
Indices: 177597--177627 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
177587 GCATTTCTTT
177597 ATGTATCGATACA
1 ATGTATCGATACA
177610 ATGTATCGATACA
1 ATGTATCGATACA
*
177623 TTGTA
1 ATGTA
177628 CCATGTATCG
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:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:177642 original size:106 final size:106
Alignment explanation
Indices: 177398--177622 Score: 414
Period size: 106 Copynumber: 2.1 Consensus size: 106
177388 TCCCGTAGCC
*
177398 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCGTTTTATAGCCGT
1 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTTATAGCCGT
* *
177463 TACATGCTATGTATTGATGCATTTCTTCCTGTATCGATACA
66 TACATGCTATGTATCGATGCATTTCTTCATGTATCGATACA
177504 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTTATAGCCGT
1 ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTTATAGCCGT
*
177569 TACATGCTATGTATCGATGCATTTCTTTATGTATCGATACA
66 TACATGCTATGTATCGATGCATTTCTTCATGTATCGATACA
177610 ATGTATCGATACA
1 ATGTATCGATACA
177623 TTGTACCATG
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 115 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (106 bp):
ATGTATCGATACAATTCATAATGTATCGATACATTGATTTGAAATTCTAGCCATTTTATAGCCGT
TACATGCTATGTATCGATGCATTTCTTCATGTATCGATACA
Found at i:177717 original size:19 final size:19
Alignment explanation
Indices: 177672--177728 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
177662 CTGCCAGTTT
**
177672 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
177693 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
177712 CATGTATCGATATAATG
1 CATGTATCGATACAATG
177729 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:177735 original size:32 final size:33
Alignment explanation
Indices: 177694--177756 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
177684 CAATTTGGCC
*
177694 ATGTATCGATACAATG-AACATGTATCGATATA
1 ATGTATCGATACAAAGCAACATGTATCGATATA
*
177726 ATGTATCGATACAAAGCAGCATGTATCGATA
1 ATGTATCGATACAAAGCAACATGTATCGATA
177757 CATCTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATATA
Found at i:182148 original size:158 final size:159
Alignment explanation
Indices: 181933--182486 Score: 541
Period size: 158 Copynumber: 3.6 Consensus size: 159
181923 TTCCACCATC
* * * * * * * **
181933 GGGGATACTCCCACCCCAGCCTTATTTCTAAAACATCGATTTTTCACAAT-TAGGGATACTTTAA
1 GGGGATACTCCAACCTCGGCTTTGTTTCTAAAACATCGATTTTTCATAATCGA-GGATACTCCAA
*
181997 CCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCCAAC-A
65 CCCCGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCCAACAA
182061 TCGGAGATACTCTAACCCCAATATTTTCGA
130 TCGGAGATACTCTAACCCCAATATTTTCGA
*
182091 GGGGATACTCCAACCTTGGCTTTGTTTCTAAAACATCGATTTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCTCGGCTTTGTTTCTAAAACATCGATTTTTCATAATCGAGGATACTCCAAC
* * * *
182156 CCCGTT-TTTCTGAGAGGATACTCTAA-CCCGGTTTGTA--TCCAAAACA-TCGATTTTCCACCA
66 CCCGTTATTTCTGAGAGGATACTCCAACCCCGATTT-TATTTTCAAAACACT-GATTTTCCAACA
* * * *
182216 AT-GGGGATACTCCAACCTC-GT-TTTT---
129 ATCGGAGATACTCTAACCCCAATATTTTCGA
** ** ** * * * * *
182241 ----AT-CTCCAAAATCGAG-GAT-ACTCCAACATCAAT--TTTTCCTAAT---CGAGGATACTC
1 GGGGATACTCCAACCTCG-GCTTTGTTTCTAA-AAC-ATCGATTT-TTCATAATCGAGGATACTC
*
182294 CAACCCCGTTATTTCTGA-AGGGATACTCCAACCCCAATTTTATTTTCAAAACACTGATTTTCC-
62 CAACCCCGTTATTTCTGAGA-GGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCCA
*
182357 ACTATCGGAGATACTCTAACCCCAATATTTTCGA
126 ACAATCGGAGATACTCTAACCCCAATATTTTCGA
*
182391 GGGGATACTCCAACCTCAGCTTTGTTTCTAAAACATCGATTTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCTCGGCTTTGTTTCTAAAACATCGATTTTTCATAATCGAGGATACTCCAAC
*
182456 CCTGTTATTTCTGAGAGGATACTCCAACCCC
66 CCCGTTATTTCTGAGAGGATACTCCAACCCC
182487 AGTTTGTATC
Statistics
Matches: 309, Mismatches: 54, Indels: 66
0.72 0.13 0.15
Matches are distributed among these distances:
142 22 0.07
143 19 0.06
144 16 0.05
145 44 0.14
146 7 0.02
147 4 0.01
153 4 0.01
154 7 0.02
155 46 0.15
156 16 0.05
157 20 0.06
158 102 0.33
159 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (159 bp):
GGGGATACTCCAACCTCGGCTTTGTTTCTAAAACATCGATTTTTCATAATCGAGGATACTCCAAC
CCCGTTATTTCTGAGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTGATTTTCCAACAAT
CGGAGATACTCTAACCCCAATATTTTCGA
Found at i:182209 original size:76 final size:75
Alignment explanation
Indices: 181962--182240 Score: 235
Period size: 79 Copynumber: 3.6 Consensus size: 75
181952 CCTTATTTCT
* * **
181962 AAAACATCGATTTTTCACAATTAGGGATACTTTAACCCCGTTATTTCTGAGGGGATACTCCAACC
1 AAAACATCGATTTTCCACAATGA-GGATACTCCAACCCCGTT-TTTCTGAGGGGATACTCCAA-C
* *
182027 CCGATTT-TATTTTC
63 CCGGTTTGTA--TCC
* *
182041 AAAACA-CTGATTTTCCA-ACATCG-GAGATACTCTAACCCCAATATTTTC-GAGGGGATACTCC
1 AAAACATC-GATTTTCCACA-AT-GAG-GATACTCCAACCCC-GT-TTTTCTGAGGGGATACTCC
* * *
182102 AACCTTGGCTTTGTTTCT
60 AACC-CGG-TTTGTATCC
* * * *
182120 AAAACATCGATTTTTCATAATCGAGGATACTCCAACCCCGTTTTTCTGAGAGGATACTCTAACCC
1 AAAACATCGATTTTCCACAAT-GAGGATACTCCAACCCCGTTTTTCTGAGGGGATACTCCAACCC
182185 GGTTTGTATCC
65 GGTTTGTATCC
* *
182196 AAAACATCGATTTTCCACCAATGGGGATACTCCAACCTCGTTTTT
1 AAAACATCGATTTTCCA-CAATGAGGATACTCCAACCCCGTTTTT
182241 ATCTCCAAAA
Statistics
Matches: 165, Mismatches: 21, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
76 44 0.27
77 10 0.06
78 21 0.13
79 77 0.47
80 11 0.07
81 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (75 bp):
AAAACATCGATTTTCCACAATGAGGATACTCCAACCCCGTTTTTCTGAGGGGATACTCCAACCCG
GTTTGTATCC
Found at i:182259 original size:35 final size:32
Alignment explanation
Indices: 182220--182303 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
182210 CCACCAATGG
182220 GGATACTCCAACCTCGTTTTTATCTCCAAAATCGA
1 GGATACTCCAACCTCGTTTTT-T-TCC-AAATCGA
* ** *
182255 GGATACTCCAACATC-AATTTTTCCTAATCGA
1 GGATACTCCAACCTCGTTTTTTTCCAAATCGA
*
182286 GGATACTCCAACCCCGTT
1 GGATACTCCAACCTCGTT
182304 ATTTCTGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
31 19 0.47
32 3 0.08
33 1 0.03
34 3 0.08
35 14 0.35
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.30
Consensus pattern (32 bp):
GGATACTCCAACCTCGTTTTTTTCCAAATCGA
Found at i:182530 original size:78 final size:78
Alignment explanation
Indices: 182280--182539 Score: 249
Period size: 79 Copynumber: 3.3 Consensus size: 78
182270 AATTTTTCCT
* * *
182280 AATCGAGGATACTCCAACCCCGTTATTTCTGA-AGGGATACTCCAACCCCAATTT-TATTTTCAA
1 AATCGGGGATACTCCAACCCCGTTATTTCTGAGA-GGATACTCCAACCCCAGTTTGTA--TCCAA
182343 AACA-CTGATTTTCCAC
63 AACATC-GATTTTCCAC
* * * ** * * * *
182359 TATCGGAGATACTCTAACCCCAATATTT-TCGAGGGGATACTCCAACCTCAGCTTTGTTTCTAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCT-GAGAGGATACTCCAACCCCAG-TTTGTATCCAAA
* *
182423 ACATCGATTTTTCAT
64 ACATCGATTTTCCAC
* *
182438 AATCGAGGATACTCCAACCCTGTTATTTCTGAGAGGATACTCCAACCCCAGTTTGTATCCAAAAC
1 AATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACCCCAGTTTGTATCCAAAAC
*
182503 ATCAATTTTCCAC
66 ATCGATTTTCCAC
* * * *
182516 CATTGGGGACACTCCAACCTCGTT
1 AATCGGGGATACTCCAACCCCGTT
182540 TTTATCTCCA
Statistics
Matches: 141, Mismatches: 34, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
78 41 0.29
79 94 0.67
80 5 0.04
81 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (78 bp):
AATCGGGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCAACCCCAGTTTGTATCCAAAAC
ATCGATTTTCCAC
Found at i:183449 original size:13 final size:13
Alignment explanation
Indices: 183431--183518 Score: 77
Period size: 13 Copynumber: 6.0 Consensus size: 13
183421 ACATAAGTGT
183431 TGTATCGATACAA
1 TGTATCGATACAA
183444 TGTATCGATACATAA
1 TGTATCGATAC--AA
183459 GTTTGTATCGATACAA
1 ---TGTATCGATACAA
183475 TGTATCGATACATAA
1 TGTATCGATAC--AA
183490 GTTTGTATCGATACAA
1 ---TGTATCGATACAA
*
183506 TGTATCGCTACAA
1 TGTATCGATACAA
183519 AGCTACTGCC
Statistics
Matches: 64, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
16 4 0.06
18 22 0.34
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:183467 original size:18 final size:18
Alignment explanation
Indices: 183412--183504 Score: 107
Period size: 18 Copynumber: 5.7 Consensus size: 18
183402 AACAAGTAAC
183412 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
183431 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
183444 TGTATCGATACATAAGTT
1 TGTATCGATACATAAGTT
183462 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
183475 TGTATCGATACATAAGTT
1 TGTATCGATACATAAGTT
183493 TGTATCGATACA
1 TGTATCGATACA
183505 ATGTATCGCT
Statistics
Matches: 64, Mismatches: 0, Indels: 21
0.75 0.00 0.25
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
16 2 0.03
17 2 0.03
18 23 0.36
19 11 0.17
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.35
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:183468 original size:31 final size:31
Alignment explanation
Indices: 183412--183517 Score: 194
Period size: 31 Copynumber: 3.4 Consensus size: 31
183402 AACAAGTAAC
183412 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGT-TTGTATCGATACAA
183444 TGTATCGATACATAAGTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTGTATCGATACAA
183475 TGTATCGATACATAAGTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTGTATCGATACAA
*
183506 TGTATCGCTACA
1 TGTATCGATACA
183518 AAGCTACTGC
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
31 56 0.77
32 17 0.23
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (31 bp):
TGTATCGATACATAAGTTTGTATCGATACAA
Found at i:183574 original size:13 final size:13
Alignment explanation
Indices: 183556--183583 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
183546 CATTACTCAA
183556 TGTATCGATACAT
1 TGTATCGATACAT
183569 TGTATCGATACAT
1 TGTATCGATACAT
183582 TG
1 TG
183584 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:183578 original size:33 final size:33
Alignment explanation
Indices: 183536--183602 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
183526 GCCAAGGAAA
183536 TGTATCGATACATT-ACTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
183569 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
183602 T
1 T
183603 TGGGAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:188040 original size:19 final size:20
Alignment explanation
Indices: 188003--188040 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
187993 TCCCATAGCT
188003 ATGTATCGATACAATGCATA
1 ATGTATCGATACAATGCATA
188023 ATGTATCGATAC-ATGCAT
1 ATGTATCGATACAATGCAT
188041 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGCATA
Found at i:188156 original size:20 final size:19
Alignment explanation
Indices: 188131--188182 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
188121 CAGTTTCATA
* *
188131 TATCGATAAAATTATCCATG
1 TATCGATAAAATGA-ACATG
*
188151 TATCGATACAATGAACATG
1 TATCGATAAAATGAACATG
*
188170 TATCGATACAATG
1 TATCGATAAAATG
188183 CATAATGTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
TATCGATAAAATGAACATG
Found at i:192097 original size:19 final size:19
Alignment explanation
Indices: 192073--192163 Score: 89
Period size: 19 Copynumber: 5.4 Consensus size: 19
192063 TGCGATACAT
*
192073 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
192092 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
192105 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
192124 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
192137 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
192156 TGTATCGA
1 TGTATCGA
192164 CATAGTTACT
Statistics
Matches: 59, Mismatches: 1, Indels: 24
0.70 0.01 0.29
Matches are distributed among these distances:
13 18 0.31
14 2 0.03
16 12 0.20
18 2 0.03
19 25 0.42
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:192106 original size:32 final size:32
Alignment explanation
Indices: 192065--192163 Score: 189
Period size: 32 Copynumber: 3.1 Consensus size: 32
192055 AGCTTCGTTG
*
192065 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
192097 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
192129 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
192161 CGA
1 CGA
192164 CATAGTTACT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:192110 original size:13 final size:13
Alignment explanation
Indices: 192092--192148 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
192082 ACAACACTTA
192092 TGTATCGATACAT
1 TGTATCGATACAT
192105 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
192123 ATGTATCGATACAT
1 -TGTATCGATACAT
192137 TGTATCGATACA
1 TGTATCGATACA
192149 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:193077 original size:49 final size:49
Alignment explanation
Indices: 193020--193230 Score: 201
Period size: 49 Copynumber: 4.5 Consensus size: 49
193010 GGAATGTGGG
*
193020 TGCCAATGTGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAACGATACCGGACTTAAAGATGAAGA
* * * ***
193069 TGCTAATGTGCTGATTCAAGGCCAGC-A-A-C--A-TT---G-GGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAACGATACCGGACTTAAAGATGAAGA
* * * ** *
193108 TGCTAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAG-
1 TGCCAATGTGCTGATTCAAGGCCAACGATACCGGACTTAAAGATGAAGA
* * *
193156 TGCCAATATGCTGATTCAAGGCCAACGATACCGAACTTAAAGATGAGGA
1 TGCCAATGTGCTGATTCAAGGCCAACGATACCGGACTTAAAGATGAAGA
193205 TGCCAATGTGCTGATTCAAGGCCAAC
1 TGCCAATGTGCTGATTCAAGGCCAAC
193231 AACATTGGGC
Statistics
Matches: 128, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
39 26 0.20
40 2 0.02
41 1 0.01
43 2 0.02
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 41 0.32
49 51 0.40
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAACGATACCGGACTTAAAGATGAAGA
Found at i:193123 original size:39 final size:39
Alignment explanation
Indices: 193068--193282 Score: 124
Period size: 39 Copynumber: 5.0 Consensus size: 39
193058 AAAGATGAAG
*
193068 ATGCTAATGTGCTGATTCAAGGCCAGCAACATTGGGCTT
1 ATGCTAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
* * *
193107 ATGCTAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGAT
1 ATGCTAATGTGCTGATTCAAGGCCAACAACATTGGGC-T-----T
* * * ***
193152 GAAGTGCCAATATGCTGATTCAAGGCCAACGATACCGAACTTAAAGATGAGG
1 --A-TGCTAATGTGCTGATTCAAGGCCAAC-A-A-C--A-TT---G-GGCTT
*
193204 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
1 ATGCTAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
* * * *
193243 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCTAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
193282 A
1 A
193283 AAGACAAAGA
Statistics
Matches: 136, Mismatches: 21, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
39 71 0.52
40 2 0.01
43 2 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 24 0.18
49 25 0.18
50 2 0.01
51 1 0.01
53 1 0.01
54 2 0.01
57 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (39 bp):
ATGCTAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
Found at i:193195 original size:48 final size:49
Alignment explanation
Indices: 193119--193230 Score: 154
Period size: 48 Copynumber: 2.3 Consensus size: 49
193109 GCTAATGTGT
** **
193119 TGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAG-TGCCAATATGC
1 TGATTCAAGGCCAACGACACCGAACTTAAAGATGAAGATGCCAATATGC
* * *
193167 TGATTCAAGGCCAACGATACCGAACTTAAAGATGAGGATGCCAATGTGC
1 TGATTCAAGGCCAACGACACCGAACTTAAAGATGAAGATGCCAATATGC
193216 TGATTCAAGGCCAAC
1 TGATTCAAGGCCAAC
193231 AACATTGGGC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 31 0.55
49 25 0.45
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (49 bp):
TGATTCAAGGCCAACGACACCGAACTTAAAGATGAAGATGCCAATATGC
Found at i:193220 original size:136 final size:136
Alignment explanation
Indices: 192970--193322 Score: 521
Period size: 136 Copynumber: 2.6 Consensus size: 136
192960 TTGAAGAAGA
* ** * * *
192970 ATGCCAATGTGCTGAGGCAAGGCCAACGACATTGGGCTTAGGAATG-TG-GGTGCCAATGTGCTG
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTA--AA-GATGAAGTGCCAATATGCTG
* * *
193033 ATTCAAGGCCAGCGATACCGGACTTAAAGATGAAGATGCTAATGTGCTGATTCAAGGCCAGCAAC
63 ATTCAAGGCCAGCGATACCGAACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACAAC
193098 ATTGGGCTT
128 ATTGGGCTT
*
193107 ATGCTAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
* *
193172 CAAGGCCAACGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCCAACAACATT
66 CAAGGCCAGCGATACCGAACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACAACATT
193237 GGGCTT
131 GGGCTT
** *
193243 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGATGCCAATATGCTAAT
1 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAG-TGCCAATATGCTGAT
193308 TCAAGGCCAGCGATA
65 TCAAGGCCAGCGATA
193323 TTGGACTGAG
Statistics
Matches: 196, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
134 1 0.01
135 4 0.02
136 128 0.65
137 63 0.32
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (136 bp):
ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATT
CAAGGCCAGCGATACCGAACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAACAACATT
GGGCTT
Found at i:193326 original size:88 final size:88
Alignment explanation
Indices: 193156--193316 Score: 214
Period size: 88 Copynumber: 1.8 Consensus size: 88
193146 AAAGATGAAG
* ** * * *
193156 TGCCAATATGCTGATTCAAGGCCAACGATACCGAACTTAAAGATGAGGATGCCAATGTGCTGATT
1 TGCCAATATGCTGATTCAAGGCCAACGACACCGAACTTAAAGACAAAGATGCCAATATGCTAATT
193221 CAAGGCCAACAACATTGGGCTTA
66 CAAGGCCAACAACATTGGGCTTA
* * ** **
193244 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAAGATGCCAATATGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAACGACACCGAACTTAAAGACAAAGATGCCAATATGCTAATT
193309 CAAGGCCA
66 CAAGGCCA
193317 GCGATATTGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 61 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (88 bp):
TGCCAATATGCTGATTCAAGGCCAACGACACCGAACTTAAAGACAAAGATGCCAATATGCTAATT
CAAGGCCAACAACATTGGGCTTA
Found at i:193371 original size:28 final size:29
Alignment explanation
Indices: 193340--193417 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
193330 GAGAAGAAGA
* * *
193340 TGCCACCAACTTGTGTGCTTTTG-AAGGT
1 TGCCACTAACTTGTGGGCTTTTGAAAGGG
* *
193368 TGCCACTGACTTCTGGGCTTTTGAAAAGGG
1 TGCCACTAACTTGTGGGCTTTTG-AAAGGG
*
193398 TGCCACTAACTTGTAGGCTT
1 TGCCACTAACTTGTGGGCTT
193418 AAAAGGAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 19 0.47
30 21 0.52
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (29 bp):
TGCCACTAACTTGTGGGCTTTTGAAAGGG
Found at i:193435 original size:34 final size:34
Alignment explanation
Indices: 193408--193524 Score: 189
Period size: 34 Copynumber: 3.4 Consensus size: 34
193398 TGCCACTAAC
*
193408 TTGTAGGCTTAAAAGGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
193442 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
* *
193476 TTATGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTA-AAAGGAAAAAGAGTGCCACGGAG
*
193511 TTGTGGACTTAAAA
1 TTGTGGGCTTAAAA
193525 AAGAAAAGGT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
34 46 0.60
35 31 0.40
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.20
Consensus pattern (34 bp):
TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
Found at i:193503 original size:35 final size:34
Alignment explanation
Indices: 193408--193538 Score: 185
Period size: 34 Copynumber: 3.9 Consensus size: 34
193398 TGCCACTAAC
* *
193408 TTGTAGGCTTAAAAGGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAG
*
193442 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAG
*
193476 TTATGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTA-AAAAGAAAAAGAGTGCCACGGAG
*
193511 TTGTGGACTTAAAAA-AGAAAAG-GTGCCA
1 TTGTGGGCTTAAAAAGA-AAAAGAGTGCCA
193539 ATATGCTGAC
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 7 0.08
34 52 0.58
35 31 0.34
ACGTcount: A:0.39, C:0.12, G:0.31, T:0.18
Consensus pattern (34 bp):
TTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAG
Found at i:193613 original size:32 final size:33
Alignment explanation
Indices: 193572--193661 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 33
193562 TATTGGGCTT
193572 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
193604 AAAGGTGCCATGGAGTTGTGGGCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
193637 AAAGATGCCACGGACTTGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
193662 TTGAAGGTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 28 0.56
33 22 0.44
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.21
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:193683 original size:28 final size:29
Alignment explanation
Indices: 193642--193791 Score: 137
Period size: 28 Copynumber: 5.2 Consensus size: 29
193632 AGGAAAAAGA
* *
193642 TGCCACGGACTTGTGGACTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAGGT
* *
193670 TGCCATTGATTTGTGGGC-TTTGAAAAAGAG-
1 TGCCACTGACTTGTGGGCTTTTG--AAAG-GT
* * * *
193700 TGCCATTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAGGT
*
193729 TGCCACTAACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAGGT
* * *
193757 TGCCACTGACTTGTGGGCTTTGGAAATGA
1 TGCCACTGACTTGTGGGCTTTTGAAAGGT
193786 TGCCAC
1 TGCCAC
193792 AACCAATGCA
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
27 4 0.04
28 39 0.39
29 32 0.32
30 20 0.20
31 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGGT
Found at i:195168 original size:11 final size:11
Alignment explanation
Indices: 195150--195231 Score: 105
Period size: 11 Copynumber: 7.5 Consensus size: 11
195140 ATCCGGACCC
*
195150 TTTTTGTTGTT
1 TTTTTTTTGTT
*
195161 TATTTGTTTGTT
1 T-TTTTTTTGTT
195173 TTTTTTTTGTT
1 TTTTTTTTGTT
195184 TTTTTTTTGTT
1 TTTTTTTTGTT
195195 TTTTTTTTG-T
1 TTTTTTTTGTT
*
195205 TTTGTTTTGTT
1 TTTTTTTTGTT
195216 TGTTTTTTT-TT
1 T-TTTTTTTGTT
195227 TTTTT
1 TTTTT
195232 GCGGAGGATG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
10 13 0.21
11 35 0.56
12 15 0.24
ACGTcount: A:0.01, C:0.00, G:0.12, T:0.87
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:195172 original size:4 final size:4
Alignment explanation
Indices: 195152--195220 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
195142 CCGGACCCTT
* * *
195152 TTTG -TTG TTTA TTTG TTTG TTT- TTTT TTTG TTT- TTTT TTTG TTT-
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG
*
195196 TTTT TTTG TTTTG TTTTG TTTG TTT
1 TTTG TTTG -TTTG -TTTG TTTG TTT
195221 TTTTTTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
3 12 0.22
4 34 0.62
5 9 0.16
ACGTcount: A:0.01, C:0.00, G:0.14, T:0.84
Consensus pattern (4 bp):
TTTG
Found at i:195177 original size:1 final size:1
Alignment explanation
Indices: 195171--195231 Score: 68
Period size: 1 Copynumber: 61.0 Consensus size: 1
195161 TATTTGTTTG
* * * * * *
195171 TTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTTGTTTTGTTTTGTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
195232 GCGGAGGATG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:195192 original size:26 final size:25
Alignment explanation
Indices: 195150--195230 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
195140 ATCCGGACCC
*
195150 TTTTTGTTGTTTATTTGTTTGTTTTT
1 TTTTTGTTTTTTATTTGTTT-TTTTT
*
195176 TTTTTGTTTTTTTTTTGTTTTTTTT
1 TTTTTGTTTTTTATTTGTTTTTTTT
* *
195201 TTGTTT-TGTTTTGTTTGTTTTTTTT
1 TT-TTTGTTTTTTATTTGTTTTTTTT
195226 TTTTT
1 TTTTT
195231 TGCGGAGGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.06
25 26 0.52
26 21 0.42
ACGTcount: A:0.01, C:0.00, G:0.12, T:0.86
Consensus pattern (25 bp):
TTTTTGTTTTTTATTTGTTTTTTTT
Found at i:208658 original size:13 final size:13
Alignment explanation
Indices: 208640--208667 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
208630 ATACAAAGAT
208640 CAATGTATCGATA
1 CAATGTATCGATA
208653 CAATGTATCGATA
1 CAATGTATCGATA
208666 CA
1 CA
208668 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:208744 original size:19 final size:19
Alignment explanation
Indices: 208720--208782 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
208710 AGCGATACAT
208720 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
208739 TGTATCGAT---ACA-TTA
1 TGTATCGATACAACACTTA
208754 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
208771 TGTATCGATACA
1 TGTATCGATACA
208783 GTTACTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 7 0.18
15 3 0.08
16 6 0.16
17 3 0.08
19 19 0.50
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:208758 original size:32 final size:32
Alignment explanation
Indices: 208712--208782 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
208702 AGCTTCGTAG
*
208712 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAACACTTATGTAT
208744 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAACACTTATGTAT
208776 CGATACA
1 CGATACA
208783 GTTACTTGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACATTATATCGATACAACACTTATGTAT
Found at i:209686 original size:49 final size:48
Alignment explanation
Indices: 209633--209901 Score: 188
Period size: 49 Copynumber: 5.7 Consensus size: 48
209623 TAGGAATGTG
* * * * *
209633 GGTGCCAATGTACTGATTCAAGGCCAACAACATTGATCTTAAATATGAC
1 GGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGA-CTTAAAGATGAA
*
209682 GGTGCCAATTTGCTGATTCAAGGCTAGCGATACCA--GACTTAAAGATGAA
1 GGTGCCAATGTGCTGATTCAAGGCTAGC-A-A-CATTGACTTAAAGATGAA
* *
209731 GATGCCAATGTGCTGATTCAAGGCTAGCAACATTGGGC-T-----T--A
1 GGTGCCAATGTGCTGATTCAAGGCTAGCAACATT-GACTTAAAGATGAA
* * * * *
209772 --TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAA
1 GGTGCCAATGTGCTGATTCAAGGCTAGCAACATT-GACTTAAAGATGAA
* * * * * **
209819 -GTGCCAATATGCTGATTTAAGGCCAGCGATACCGAACTTAAAGATG-A
1 GGTGCCAATGTGCTGATTCAAGGCTAGCAACATTG-ACTTAAAGATGAA
209866 GGATGCCAATGTGCTGATTCAAGGCTAGCAACATTG
1 GG-TGCCAATGTGCTGATTCAAGGCTAGCAACATTG
209902 GGCTTATGCC
Statistics
Matches: 173, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
39 31 0.18
40 1 0.01
41 1 0.01
43 1 0.01
45 1 0.01
46 2 0.01
47 4 0.02
48 38 0.22
49 88 0.51
50 3 0.02
51 1 0.01
52 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (48 bp):
GGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGACTTAAAGATGAA
Found at i:209803 original size:39 final size:39
Alignment explanation
Indices: 209732--209810 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
209722 AAAGATGAAG
* *
209732 ATGCCAATGTGCTGATTCAAGGCTAGCAACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
* * *
209771 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
209810 A
1 A
209811 AAGATGAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
Found at i:209880 original size:136 final size:136
Alignment explanation
Indices: 209635--209986 Score: 553
Period size: 136 Copynumber: 2.6 Consensus size: 136
209625 GGAATGTGGG
** * * * * *
209635 TGCCAATGTACTGATTCAAGGCCAACAACATTGATCTTAAATATGACGGTGCCAATTTGCTGATT
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGA-AGTGCCAATATGCTGATT
*
209700 CAAGGCTAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCAACATT
65 CAAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCAACATT
209765 GGGCTTA
130 GGGCTTA
*
209772 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTT
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
*
209837 AAGGCCAGCGATACC-GAACTTAAAGATGAGGATGCCAATGTGCTGATTCAAGGCTAGCAACATT
66 AAGGCCAGCGATACCAG-ACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCAACATT
209901 GGGCTTA
130 GGGCTTA
* * *
209908 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGTCAATATGCTAATT
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAA-GTGCCAATATGCTGATT
209973 CAAGGCCAGCGATA
65 CAAGGCCAGCGATA
209987 TTGGACTTAG
Statistics
Matches: 199, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
135 1 0.01
136 129 0.65
137 69 0.35
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (136 bp):
TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
AAGGCCAGCGATACCAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAGCAACATTG
GGCTTA
Found at i:209939 original size:39 final size:39
Alignment explanation
Indices: 209868--209946 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
209858 AAAGATGAGG
* *
209868 ATGCCAATGTGCTGATTCAAGGCTAGCAACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
* * *
209907 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
209946 A
1 A
209947 AAGATAAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
Found at i:210098 original size:34 final size:30
Alignment explanation
Indices: 210032--210115 Score: 80
Period size: 34 Copynumber: 2.7 Consensus size: 30
210022 TTTTGAAGCT
* *
210032 TGCCACTAACTTGTGGGCTT-TGAAAAGTG
1 TGCCACTAACTTGTGGGCTTAGGAAAAGAG
210061 TGCCACTAACTTGTGGGCTTAAAAGGAAAAAGAG
1 TGCCACTAACTTGTGGGCTT---AGG-AAAAGAG
** *
210095 TGCCACGGAGTTGTGGGCTTA
1 TGCCACTAACTTGTGGGCTTA
210116 CAAAAGAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
29 20 0.44
31 1 0.02
33 1 0.02
34 23 0.51
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (30 bp):
TGCCACTAACTTGTGGGCTTAGGAAAAGAG
Found at i:210129 original size:54 final size:54
Alignment explanation
Indices: 210068--210177 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
210058 GTGTGCCACT
210068 AACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTACAAAAG
1 AACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTACAAAAG
210122 AACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTACAAAAG
1 AACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTACAAAAG
210176 AA
1 AA
210178 AAAGAGTGCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (54 bp):
AACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTACAAAAG
Found at i:210185 original size:35 final size:34
Alignment explanation
Indices: 210125--210214 Score: 144
Period size: 35 Copynumber: 2.6 Consensus size: 34
210115 ACAAAAGAAC
*
210125 TTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAG
210159 TTGTGGGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTA-AAAAGAAAAAGAGTGCCACGGAG
*
210194 TTGTGGACTTAAAAAAGAAAA
1 TTGTGGGCTT-AAAAAGAAAA
210215 GGTGTTAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
34 11 0.21
35 40 0.77
36 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.30, T:0.19
Consensus pattern (34 bp):
TTGTGGGCTTAAAAAGAAAAAGAGTGCCACGGAG
Found at i:210296 original size:32 final size:33
Alignment explanation
Indices: 210255--210344 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 33
210245 TATTGGGCTT
210255 AAAGGTGCCACGGAGTTGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* *
210287 AAAGGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
* * *
210320 AAAGATGGCACGGACTTGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
210345 TTGAAGGTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 29 0.57
33 22 0.43
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAAGAA
Found at i:212145 original size:79 final size:77
Alignment explanation
Indices: 211886--212158 Score: 280
Period size: 79 Copynumber: 3.5 Consensus size: 77
211876 AACGGGGCTG
* * * * * * *
211886 GAGTATCCCCTGACTATGGAAAATCGATGTTCTGGAAATAAAA-CTAGGGTTGGAGTATCCCATC
1 GAGTATCCCC-GATTATGAAAAATTGATATTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTC
*
211950 GGAAATAACAGGGTT
64 GAAAATAAC-GGGTT
* ** *
211965 GAAGTATCCCTGATTAT-AGAAAATTGGCATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTC
1 G-AGTATCCCCGATTATGA-AAAATTGATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTC
**
212029 GAAAATGATGGGGTT
64 GAAAAT-AACGGGTT
* * * * *
212044 GGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCTCG
1 -GAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCG
212109 AAAATAACGGGATT
65 AAAATAACGGG-TT
212123 AGAGTATCCCCGATTATGAAAAATTGATATTTTGGA
1 -GAGTATCCCCGATTATGAAAAATTGATATTTTGGA
212159 GTATCTTCGA
Statistics
Matches: 158, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
78 4 0.03
79 142 0.90
80 12 0.08
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (77 bp):
GAGTATCCCCGATTATGAAAAATTGATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
AAATAACGGGTT
Found at i:229519 original size:19 final size:20
Alignment explanation
Indices: 229476--229527 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
229466 TGCCAGTTTT
*
229476 ATGTATCGATACAATTGCCC
1 ATGTATCGATACAATTGACC
*
229496 ATGTATCGATACAA-TGATC
1 ATGTATCGATACAATTGACC
229515 ATGTATCGATACA
1 ATGTATCGATACA
229528 TTGTATCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATTGACC
Found at i:229557 original size:33 final size:32
Alignment explanation
Indices: 229497--229561 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
229487 CAATTGCCCA
* * *
229497 TGTATCGATACAATGATCATGTATCGATACAT
1 TGTATCAATACAAAGATAATGTATCGATACAT
229529 TGTATCAATACAAAGCATAATGTATCGATACAT
1 TGTATCAATACAAAG-ATAATGTATCGATACAT
229562 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (32 bp):
TGTATCAATACAAAGATAATGTATCGATACAT
Found at i:229877 original size:14 final size:15
Alignment explanation
Indices: 229840--229884 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
229830 AATCAAATCA
229840 AAAT-TAAAAGTAAT
1 AAATATAAAAGTAAT
* *
229854 AATTACAAAA-TAAT
1 AAATATAAAAGTAAT
229868 AAATATAAAAGT-AT
1 AAATATAAAAGTAAT
229882 AAA
1 AAA
229885 AAAAATCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (15 bp):
AAATATAAAAGTAAT
Found at i:233157 original size:61 final size:59
Alignment explanation
Indices: 233041--233788 Score: 683
Period size: 61 Copynumber: 12.3 Consensus size: 59
233031 ACCTTTTAAC
* * * * *
233041 CTTTTAGTCATCAAATAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGA-CCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
233101 GCTTTCAGTCCTCAAAGAGCAGGACCTTTTTTCCTTTCAAAGCCCGCATAACTTGGTGGCGT
1 -CTTTCAGTCCTCAAAGAGCAGGACC-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC-A
* * * *
233163 CTTTCAGTCCTCCAAGAGCATGACGTCTTTTCCTTTTAAAGCCCGCACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGAC-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *** * * * *
233223 CCTTTCAGTCCTCAAAGAGTAGGGTGC-TTTCCTTTCAAAACCCACGCAATTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * **
233282 CCTTCTAGTCCTCAAAGAGCAAGACACCTTTTCCTTTTAAAGCTCACACAAGTTAATGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGAC-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
233343 CCTTTCAGTCCTCAAAAAGTAGGACACCTTTTCCTTTTAAAGTCCACAAAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGAC-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
233404 CTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGCTGGTGGCA
1 C-TTTCAGTCCTCAAAGAGCAGGA-CCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *** * *
233465 CCTTTTAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTTAAAGGCCATACATACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGA-CCCTTTTCCTTTTAAA-GCC---CACACAAGTTGGTGGCA
** *
233530 CATTTCAGTCCTCAAAGAGCAGGATACTTTTCCTTTAAAAGCCCACACAAGTTGGTGGCA
1 C-TTTCAGTCCTCAAAGAGCAGGACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * **
233590 CCTTTCAGTCTTCAAAGAGCAAGATACCTTCTCCTTTTAAAGGCCACACAAGTTAATGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGA-CCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** *
233651 CCTTTCAGTCCTTAAAGAGCAAGACACCTTTTCCTTTTAAAGCTCGTATAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGAC-CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
233712 CTTTCCCGTCCTCAAAGAGC-GAGACGC-TTTCCTTTCAAAGCCCACGCAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAG-GACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
233771 CCTTCTAGTCCTCAAAGA
1 CTTTC-AGTCCTCAAAGA
233789 ACATGACGCA
Statistics
Matches: 560, Mismatches: 105, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
58 5 0.01
59 82 0.15
60 45 0.08
61 370 0.66
62 8 0.01
63 3 0.01
64 12 0.02
65 35 0.06
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (59 bp):
CTTTCAGTCCTCAAAGAGCAGGACCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:233868 original size:43 final size:43
Alignment explanation
Indices: 233778--233916 Score: 176
Period size: 42 Copynumber: 3.3 Consensus size: 43
233768 GCACCTTCTA
* * *
233778 GTCCTCAAAGAACATGACGCACTTTATTT-CTTTTTCTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTTCCTTT
* *
233820 GTCCTCAAAGAGCAGGA-GACACTTAATTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACG-CACTTTATTTCCTTTTTTTCCTTT
* *
233863 GTCCTCAAAGAGCAAGATGCATTTTATTTCC-TTTTTTCCTTT
1 GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTTCCTTT
*
233905 GTCCTTAAAGAG
1 GTCCTCAAAGAG
233917 TTGATGTACT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.01
42 46 0.53
43 38 0.44
44 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (43 bp):
GTCCTCAAAGAGCAAGACGCACTTTATTTCCTTTTTTTCCTTT
Found at i:233934 original size:42 final size:43
Alignment explanation
Indices: 233802--233916 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 43
233792 TGACGCACTT
* * *
233802 TATTT-CTTTTTCTCCTTTGTCCTCAAAGAGCAGGA-GACA-CT
1 TATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAAGATG-CATCC
**
233843 TAATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAAGATGCATTT
1 T-ATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAAGATGCATCC
*
233887 TATTTCC-TTTTTTCCTTTGTCCTTAAAGAG
1 TATTTCCTTTTTTTCCTTTGTCCTCAAAGAG
233917 TTGATGTACT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.39
43 36 0.55
44 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (43 bp):
TATTTCCTTTTTTTCCTTTGTCCTCAAAGAGCAAGATGCATCC
Found at i:234674 original size:50 final size:49
Alignment explanation
Indices: 234612--234739 Score: 157
Period size: 50 Copynumber: 2.6 Consensus size: 49
234602 AGTTGTATCA
*
234612 ATACATTCTTCATTGTATCAATACATTCTAGGTTTCACCTAGATGCATTG
1 ATACATT-TTCATTGTATCAATACATTCTAGGTTTCACCTAGATGCATCG
* * * * *
234662 ATACATTATTCATTATATCAATACATTATGGGTTTTACCTAGATGTATCG
1 ATACATT-TTCATTGTATCAATACATTCTAGGTTTCACCTAGATGCATCG
* *
234712 ATACATTTCTCAATGTATCGATACATTC
1 ATACATTT-TCATTGTATCAATACATTC
234740 AGGCATTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
49 1 0.02
50 65 0.98
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (49 bp):
ATACATTTTCATTGTATCAATACATTCTAGGTTTCACCTAGATGCATCG
Found at i:237501 original size:79 final size:79
Alignment explanation
Indices: 237076--237510 Score: 400
Period size: 79 Copynumber: 5.5 Consensus size: 79
237066 CATCGATATT
* * * * **
237076 TTTATTTCCAAAACACCGATTTTTCATAATCGGGGATACTCCAACCCTATTATTTCCG-AGAGGA
1 TTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCCGAAG-GGA
*
237140 TACTTCAA-CCCGGC
65 TACTCCAACCCCGGC
* ** * *
237154 CTTATTTTTAAAACA-TCGATTTTTCACAATC-AGGAATACTCCAACCCCGTTATTT-CTAAGGG
1 TTTATTTCCAAAACACT-GATTTTCCACAATCGAGG-ATACTCCAACCCCGTTATTTCCGAA-GG
**
237216 GATACTCCAACCCCGAT
63 GATACTCCAACCCCGGC
** * * * *
237233 TTTATTTCCAAAACACCT-ATTTTCCACCTTC-AGAGACACTCCAACCCTGTTATTTTCGACGGG
1 TTTATTTCCAAAACA-CTGATTTTCCACAATCGAG-GATACTCCAACCCCGTTATTTCCGAAGGG
*
237296 ATACTCCAACCTCGGC
64 ATACTCCAACCCCGGC
* * * * *** *
237312 TTTATTTCTAAAACA-TCGATTTTCCACAATTGAAGATACTCAAACCCCGTTATTTTTTAGGGGA
1 TTTATTTCCAAAACACT-GATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGA
*
237376 TACTCCAACCCCAGC
65 TACTCCAACCCCGGC
* * * *
237391 TTTATTTCTAAAACACCGATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGAT
1 TTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGAT
* * *
237456 ACTCCAGCCTCGGT
66 ACTCCAACCCCGGC
* *
237470 TTTATTTCCAAAATACTGATTTTCCACAATCGGGGATACTC
1 TTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTC
237511 TAACTCCGAT
Statistics
Matches: 286, Mismatches: 58, Indels: 25
0.78 0.16 0.07
Matches are distributed among these distances:
77 4 0.01
78 54 0.19
79 223 0.78
80 4 0.01
81 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (79 bp):
TTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGAT
ACTCCAACCCCGGC
Found at i:237508 original size:158 final size:158
Alignment explanation
Indices: 237076--237510 Score: 538
Period size: 158 Copynumber: 2.8 Consensus size: 158
237066 CATCGATATT
* *
237076 TTTATTTCCAAAACACCGATTTTTCATAATCGGGGATACTCCAACCCTATTATTTCCG-AGAGGA
1 TTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAACCCTGTTATTTCCGAAG-GGA
* * * * * * *
237140 TACTTCAACC-CGGCCTTATTTTTAAAACATCGATTTTTCACAATCAGGAATACTCCAACCCCGT
65 TACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCAAACCCCGT
*
237204 TATTTCTAAGGGGATACTCCAACCCCGAT
130 TATTTCTAAGGGGATACTCCAACCCCGAC
* * *** * * *
237233 TTTATTTCCAAAACACCTATTTTCCACCTTC-AGAGACACTCCAACCCTGTTATTTTCGACGGGA
1 TTTATTTCCAAAACACCGATTTTTCATAATCGAG-GATACTCCAACCCTGTTATTTCCGAAGGGA
* **
237297 TACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTCCACAATTGAAGATACTCAAACCCCGT
65 TACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCAAACCCCGT
* *
237362 TATTTTTTAGGGGATACTCCAACCCC-AGC
130 TATTTCTAAGGGGATACTCCAACCCCGA-C
* *
237391 TTTATTTCTAAAACACCGATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTCCGAAGGGAT
1 TTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAACCCTGTTATTTCCGAAGGGAT
* * * *
237456 ACTCCAGCCTCGGTTTTATTTCCAAAATA-CTGATTTTCCACAATCGGGGATACTC
66 ACTCCAACCTCGGCTTTATTTCTAAAACATC-GATTTTCCACAATCGGGGATACTC
237511 TAACTCCGAT
Statistics
Matches: 232, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
156 1 0.00
157 61 0.26
158 168 0.72
159 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (158 bp):
TTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAACCCTGTTATTTCCGAAGGGAT
ACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCAAACCCCGTT
ATTTCTAAGGGGATACTCCAACCCCGAC
Found at i:237524 original size:51 final size:51
Alignment explanation
Indices: 237469--237565 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
237459 CCAGCCTCGG
* * *
237469 TTTTATTTCCAAAATA-CTGATTTTCCACAATCGGGGATACTCTAACTCCGA
1 TTTTATTTCCAAAACATC-AATTTTCCACAATCGGAGATACTCTAACTCCGA
* * *
237520 TTTTATTTCTAAAACATCAATTTTCCATAATCGGAGATATTCTAAC
1 TTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCTAAC
237566 CCCGTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 38 0.97
52 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (51 bp):
TTTTATTTCCAAAACATCAATTTTCCACAATCGGAGATACTCTAACTCCGA
Found at i:237654 original size:51 final size:51
Alignment explanation
Indices: 237580--237694 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
237570 TTATTTTTAT
* * *
237580 AGGGATACT-TCA-CCCGGTTTTATTTTCAAAACATCGATTTTCCATAATC
1 AGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATC
237629 AGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATC
1 AGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATC
* *
237680 GGGGATACTCCAACC
1 AGGGATACTCTAACC
237695 TCGTTATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 9 0.15
50 2 0.03
51 48 0.81
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
AGGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATC
Found at i:237662 original size:128 final size:128
Alignment explanation
Indices: 237372--237773 Score: 488
Period size: 130 Copynumber: 3.1 Consensus size: 128
237362 TATTTTTTAG
* * * * *
237372 GGGATACTCCAACCCCAGCTTTATTTCTAAAACACCGATTTTTCATAATC-GAGGATACTCCAAC
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGA-GATACTCCAAC
** *
237436 CCCGTTATTTCCGAAGGGATACTCCAGCCTCGGTTTTATTTCCAAAATACTGATTTTCCACAATC
65 CCCGTTATTT-TTAAGGGATACTCCA-CCTCGGTTTTATTTCCAAAACACTGATTTTCCACAATC
*
237501 G
128 A
* * * * *
237502 GGGATACTCTAACTCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGAGATATTCTAACC
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGAGATACTCCAACC
* * *
237567 CCGTTATTTTTATAGGGATACTTCACC-CGGTTTTATTTTCAAAACA-TCGATTTTCCATAATCA
66 CCGTTATTTTTA-AGGGATACTCCACCTCGGTTTTATTTCCAAAACACT-GATTTTCCACAATCA
* * *
237630 GGGATACTCTAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCGGGGATACTCCAACC
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGAGATACTCCAACC
* * *
237695 TCGTTATTTTTAAGCGGATACTCCAACCTCGGTTTTATTTCCAAAATACTGATTTTTCACAATC-
66 CCGTTATTTTTAAG-GGATACTCC-ACCTCGGTTTTATTTCCAAAACACTGATTTTCCACAATCA
*
237759 GAGGATACTCCAACC
1 G-GGATACTCTAACC
237774 TCGTTATTTT
Statistics
Matches: 232, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
127 3 0.01
128 106 0.46
129 7 0.03
130 113 0.49
131 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (128 bp):
GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGAGATACTCCAACC
CCGTTATTTTTAAGGGATACTCCACCTCGGTTTTATTTCCAAAACACTGATTTTCCACAATCA
Found at i:237732 original size:79 final size:79
Alignment explanation
Indices: 237631--237820 Score: 283
Period size: 79 Copynumber: 2.4 Consensus size: 79
237621 CCATAATCAG
* * *
237631 GGATACTCTAACCCCGGTTTTATTTCCAAAACA-TCGATTTTCCACAATCGGGGATACTCCAACC
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACACT-GATTTTCCACAATCGAGGATACTCCAACC
*
237695 TCGTTATTTTTAAGC
65 TCGTTATTTTCAAGC
* *
237710 GGATACTCCAACCTCGGTTTTATTTCCAAAATACTGATTTTTCACAATCGAGGATACTCCAACCT
1 GGATACTCCAACCTCGGTTTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTCCAACCT
*
237775 CGTTATTTTCAAGG
66 CGTTATTTTCAAGC
*
237789 GGATACTCCAACCTCGGGTTTTATCTCCAAAA
1 GGATACTCCAACCTC-GGTTTTATTTCCAAAA
237821 TATTAAACTT
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 85 0.84
80 16 0.16
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCTCGGTTTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTCCAACCT
CGTTATTTTCAAGC
Found at i:240357 original size:10 final size:12
Alignment explanation
Indices: 240320--240358 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
240310 TGTTAAGATG
240320 ATATATGTACAT
1 ATATATGTACAT
* *
240332 ATATATATATAT
1 ATATATGTACAT
*
240344 ATATATGTAAAT
1 ATATATGTACAT
240356 ATA
1 ATA
240359 ATTAATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (12 bp):
ATATATGTACAT
Found at i:240711 original size:20 final size:20
Alignment explanation
Indices: 240688--240727 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
240678 ATAATTTAAT
240688 TTAAATAAATAATATTTTTA
1 TTAAATAAATAATATTTTTA
240708 TTAAATAAATAATATTTTTA
1 TTAAATAAATAATATTTTTA
240728 AATTTATCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATAAATAATATTTTTA
Found at i:244545 original size:22 final size:21
Alignment explanation
Indices: 244488--244545 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
244478 CTTATATAAT
*
244488 TCAAGTGTTAAACTCAATTAG
1 TCAAATGTTAAACTCAATTAG
** * *
244509 TTGAATCATTGAACTCAATTAAG
1 TCAAAT-GTTAAACTCAATT-AG
244532 TCAAATGTTAAACT
1 TCAAATGTTAAACT
244546 TGGTTGAATC
Statistics
Matches: 26, Mismatches: 9, Indels: 3
0.68 0.24 0.08
Matches are distributed among these distances:
21 3 0.12
22 17 0.65
23 6 0.23
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (21 bp):
TCAAATGTTAAACTCAATTAG
Found at i:244584 original size:16 final size:16
Alignment explanation
Indices: 244563--244665 Score: 118
Period size: 16 Copynumber: 6.4 Consensus size: 16
244553 ATCAAACTCG
* *
244563 AAATAATCTAAATTTA
1 AAATAATTTAAACTTA
*
244579 AAATAATTTAAACTCA
1 AAATAATTTAAACTTA
244595 AAATAATTTAAACTTA
1 AAATAATTTAAACTTA
*
244611 AAATGATTTGAAA-TTA
1 AAATAATTT-AAACTTA
*
244627 AAATAATTTAAACTCA
1 AAATAATTTAAACTTA
* *
244643 AAATAAATTAAATCTAA
1 AAATAATTTAAA-CTTA
244660 AAATAA
1 AAATAA
244666 CTAAAAAGTT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
15 3 0.04
16 60 0.80
17 12 0.16
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (16 bp):
AAATAATTTAAACTTA
Found at i:244686 original size:48 final size:48
Alignment explanation
Indices: 244563--244686 Score: 119
Period size: 48 Copynumber: 2.6 Consensus size: 48
244553 ATCAAACTCG
* * * *
244563 AAATAATCT-AAATTTAAAATAATTTAAACTCAAAATAATTTAAACTTA
1 AAATAA-CTAAAAATTAAAATAACTTAAACTCAAAATAAATTAAACTAA
* * ** *
244611 AAATGATTTGAAATTAAAATAATTTAAACTCAAAATAAATTAAATCTAA
1 AAATAACTAAAAATTAAAATAACTTAAACTCAAAATAAATTAAA-CTAA
244660 AAATAACTAAAAAGTT-AAA-AACTTAAA
1 AAATAACTAAAAA-TTAAAATAACTTAAA
244687 TTGAACTAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.02
48 44 0.71
49 15 0.24
50 2 0.03
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (48 bp):
AAATAACTAAAAATTAAAATAACTTAAACTCAAAATAAATTAAACTAA
Found at i:247075 original size:19 final size:20
Alignment explanation
Indices: 247053--247092 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
247043 TTATATTTAT
247053 TTTTAATAA-TTATTAAATA
1 TTTTAATAATTTATTAAATA
247072 TTTTAATAATTTTATTAAATA
1 TTTTAATAA-TTTATTAAATA
247093 AATTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATAATTTATTAAATA
Found at i:247563 original size:15 final size:14
Alignment explanation
Indices: 247546--247599 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
247536 TAGTTACTTA
247546 TATTATTTATTTTT
1 TATTATTTATTTTT
247560 ATATTACTTATATTATTT
1 -TATTA-TT-TATT-TTT
247578 T-TTATTTATTTTT
1 TATTATTTATTTTT
247591 TATTTATTT
1 TA-TTATTT
247600 TTTGATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.12
14 4 0.12
15 13 0.38
16 5 0.15
17 5 0.15
18 3 0.09
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTATTTTT
Found at i:247567 original size:24 final size:25
Alignment explanation
Indices: 247539--247586 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
247529 ATAATTTTAG
247539 TTACTTATATTATTTATT-TTTATA
1 TTACTTATATTATTTATTATTTATA
*
247563 TTACTTATATTATTTTTTATTTAT
1 TTACTTATATTATTTATTATTTAT
247587 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (25 bp):
TTACTTATATTATTTATTATTTATA
Found at i:247588 original size:11 final size:11
Alignment explanation
Indices: 247567--247607 Score: 64
Period size: 11 Copynumber: 3.5 Consensus size: 11
247557 TTTATATTAC
247567 TTATATTATTTT
1 TTAT-TTATTTT
247579 TTATTTATTTT
1 TTATTTATTTT
247590 TTATTTATTTT
1 TTATTTATTTT
247601 TTGATTT
1 TT-ATTT
247608 TTGATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 20 0.71
12 8 0.29
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (11 bp):
TTATTTATTTT
Found at i:247647 original size:19 final size:19
Alignment explanation
Indices: 247606--247647 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
247596 ATTTTTTGAT
*
247606 TTTTGATTTTTCTTAATTT
1 TTTTGATTTTTCTTAATTA
*
247625 TTTTGAATTTTT-TTCATTA
1 TTTTG-ATTTTTCTTAATTA
247644 TTTT
1 TTTT
247648 ATTATGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTGATTTTTCTTAATTA
Found at i:249304 original size:2 final size:2
Alignment explanation
Indices: 249299--249398 Score: 155
Period size: 2 Copynumber: 49.5 Consensus size: 2
249289 ACACACACAC
* * *
249299 AT AT AT AC AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
249341 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
249384 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
249399 GTTTTTAATT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
2 87 0.98
3 2 0.02
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:249893 original size:23 final size:24
Alignment explanation
Indices: 249845--249893 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
249835 TATAAAATTT
* **
249845 AAATTTATAAATATTTAATATCTA
1 AAATTTATAAATATTAAATAAATA
249869 AAATTT-TAAATATTAAATAAATA
1 AAATTTATAAATATTAAATAAATA
249892 AA
1 AA
249894 TATAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATTTATAAATATTAAATAAATA
Found at i:249909 original size:20 final size:22
Alignment explanation
Indices: 249875--249940 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 22
249865 TCTAAAATTT
**
249875 TAAATATTAAATAAATAA-ATA-
1 TAAATATTATTTAAA-AATATAG
249896 TAAA-ATTATTTAAAAATATAG
1 TAAATATTATTTAAAAATATAG
*
249917 TAAATTATTATTTAATAAGTATAG
1 TAAA-TATTATTTAA-AAATATAG
249941 AGAGATGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.05
20 11 0.30
21 8 0.22
23 9 0.24
24 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
TAAATATTATTTAAAAATATAG
Found at i:251423 original size:2 final size:2
Alignment explanation
Indices: 251416--251452 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
251406 ACTACTTTTA
*
251416 AT AT AT AT AT AT AT AT AT GCT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
251453 GCTATACGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 31 0.97
3 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:251441 original size:19 final size:19
Alignment explanation
Indices: 251417--251458 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
251407 CTACTTTTAA
251417 TATATATATATATATATGC
1 TATATATATATATATATGC
251436 TATATATATATATATATGC
1 TATATATATATATATATGC
251455 TATA
1 TATA
251459 CGTACTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (19 bp):
TATATATATATATATATGC
Found at i:252901 original size:21 final size:21
Alignment explanation
Indices: 252868--252908 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
252858 CTAAGTAAAA
252868 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
252889 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
252909 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:252973 original size:20 final size:21
Alignment explanation
Indices: 252942--253000 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
252932 GTCAAAACCC
* *
252942 TGAAAAGTATCGATACACATT
1 TGAATAGTATCGATACACAAT
252963 TGAAT-GTATCGATACA-AAT
1 TGAATAGTATCGATACACAAT
*
252982 TGCATAGTATCGATACACA
1 TGAATAGTATCGATACACA
253001 CAAATATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.18
20 22 0.67
21 5 0.15
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (21 bp):
TGAATAGTATCGATACACAAT
Found at i:253071 original size:53 final size:53
Alignment explanation
Indices: 252988--253124 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
252978 AAATTGCATA
252988 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
253042 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
253095 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
253125 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:253177 original size:10 final size:10
Alignment explanation
Indices: 253148--253233 Score: 50
Period size: 10 Copynumber: 8.1 Consensus size: 10
253138 AATCTCATTT
253148 TCACTGTTCA
1 TCACTGTTCA
* *
253158 TTACTATTCA
1 TCACTGTTCA
253168 TCACTGTTCA
1 TCACTGTTCA
* *
253178 T-ATATAGATACA
1 TCA-CT-G-TTCA
253190 TCACTGTTCATA
1 TCACTGTTC--A
253202 GGTCACTGTTCA
1 --TCACTGTTCA
253214 -CACTGTTCA
1 TCACTGTTCA
*
253223 TCACTATTCA
1 TCACTGTTCA
253233 T
1 T
253234 GTATCGTTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
9 10 0.17
10 29 0.50
11 2 0.03
12 7 0.12
13 1 0.02
14 9 0.16
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:253304 original size:13 final size:13
Alignment explanation
Indices: 253286--253311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
253276 ACATATTTGT
253286 GTGTATCGATACA
1 GTGTATCGATACA
253299 GTGTATCGATACA
1 GTGTATCGATACA
253312 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:256616 original size:19 final size:19
Alignment explanation
Indices: 256592--256654 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
256582 CGATACATTA
256592 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
256611 TATCGATAC---A--T-TG
1 TATCGATACAAAACTTATG
* *
256624 TATTGATACAACACTTATG
1 TATCGATACAAAACTTATG
256643 TATCGATACAAA
1 TATCGATACAAA
256655 TCGTTGAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.60
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:256632 original size:32 final size:32
Alignment explanation
Indices: 256582--256652 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
256572 AGCTTCGTAG
256582 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* * *
256614 CGATACATTGTATTGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
256646 CGATACA
1 CGATACA
256653 AATCGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:258309 original size:17 final size:17
Alignment explanation
Indices: 258274--258313 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
258264 GGTTCTCAAC
*
258274 AAAAAAAAAAAAACCAG
1 AAAAAAAAAAAAACAAG
* *
258291 AAAAGAAAAAAAGCAAG
1 AAAAAAAAAAAAACAAG
258308 AAAAAA
1 AAAAAA
258314 GAGAAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.82, C:0.07, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAACAAG
Found at i:261119 original size:79 final size:79
Alignment explanation
Indices: 260952--261154 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
260942 GAGATAATAA
* * ** * *
260952 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATG
*
261016 ATCAGAAAAAAAAAT
65 ATCAGAAAAAAAAAC
*
261031 CGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
** ** * *
261095 TTTTGGGAATAAAGC
66 -TCAGAAAAAAAAAC
* * *
261110 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCC
261155 TGATGAGATA
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 7 0.07
79 97 0.93
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
TCAGAAAAAAAAAC
Found at i:261232 original size:51 final size:49
Alignment explanation
Indices: 261174--261337 Score: 143
Period size: 51 Copynumber: 3.2 Consensus size: 49
261164 AACGAGGTTA
* * *
261174 GAGTATCCTCGATTGTGAAAAATGGTATTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCC-CGATTGTGAAAAATGGT-GTTTTGAAAATAAAACCGGAGTTG
*
261225 GAGTATCCCCGATTAAAG-GAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTG
1 GAGTAT-CCCGATT---GTGAAAAA-TGGTGTTTTGAAAATAAAACCGGAGTTG
* * * * *
261278 GAGTATCCCGACTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGGGGTTA
1 GAGTATCCCGATTGT-GAAAAA-TGGTGTTTTGA-AAATAAAACCGGAGTTG
261329 GAGTATCCC
1 GAGTATCCC
261338 CTCGAAAATG
Statistics
Matches: 97, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 50 0.52
52 8 0.08
53 32 0.33
54 5 0.05
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (49 bp):
GAGTATCCCGATTGTGAAAAATGGTGTTTTGAAAATAAAACCGGAGTTG
Found at i:261265 original size:53 final size:52
Alignment explanation
Indices: 261202--261338 Score: 161
Period size: 51 Copynumber: 2.6 Consensus size: 52
261192 AAAATGGTAT
* * * * *
261202 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTG
1 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGACT-AAGGAAAAATTAGTG
**
261255 TTTTGAAAATAAAACCGGGGTTGGAGTAT-CCCGACTGTGGAAAAATTAGTG
1 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGACTAAGGAAAAATTAGTG
* *
261306 TTTT-AGCAATAAAACCGGGGTTAGAGTATCCCC
1 TTTTGA-AAATAAAACCGGGGTTGGAGTATCCCC
261339 TCGAAAATGA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.01
51 37 0.51
52 9 0.12
53 26 0.36
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (52 bp):
TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGACTAAGGAAAAATTAGTG
Found at i:261443 original size:54 final size:50
Alignment explanation
Indices: 261380--261505 Score: 144
Period size: 51 Copynumber: 2.4 Consensus size: 50
261370 GATTAACAGG
* * * *
261380 GTTGGAGTATCCCCAATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTAGTG---TCTTGAAAATAAAATCGGA
*
261434 GTTGGAGTATCCCCGATTATAGAAAATTAGTGTCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAATTAGTGTCTTGAAAATAAAATCGGA
* *
261485 GTTAGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
261506 GAGAATTGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 34 0.54
54 23 0.37
55 5 0.08
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGTGAAAATTAGTGTCTTGAAAATAAAATCGGA
Found at i:261474 original size:211 final size:212
Alignment explanation
Indices: 261102--261507 Score: 561
Period size: 211 Copynumber: 1.9 Consensus size: 212
261092 ATATTTTGGG
* * * * *
261102 AATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGATGAGATAAC
1 AATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAGATAAC
* *
261167 GAGGTTAGAGTATCCTCGATTGTGAAAAATGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 GAGGTTAGAGTATCCCCAATTGTGAAAAATGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
* * * * *
261232 CCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTAT-CCCGACTGTGGA
131 CCCGATTAAAGGAAAAATTAGTGTCTTGAAAATAAAACCGGAGTTAGAATATCCCCGACTGTGGA
261296 AAAATTAGTGTTTTAGC
196 AAAATTAGTGTTTTAGC
* *
261313 AATAAAACCGGGGTTAGAGTATCCCCTCGAAAATGACGGGGTTGGAGTATCCCCGATGA-TTAAC
1 AATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAGATAAC
* * *
261377 -AGGGTTGGAGTATCCCCAATTGTGAAAATTTGGTGTTTTTTTGGAAATAAAATCGGAGTTGGAG
66 GA-GGTTAGAGTATCCCCAATTGTGAAAA-AT-G-GTATTTTTGGAAATAAAATCGGAGTTGGAG
* * *
261441 TATCCCCGATTATA-G-AAAATTAGTGTCTTGAAAATAAAATCGGAGTTAGAATATCCCCGATTG
127 TATCCCCGATTAAAGGAAAAATTAGTGTCTTGAAAATAAAACCGGAGTTAGAATATCCCCGACTG
261504 TGGA
192 TGGA
261508 GAATTGAGAA
Statistics
Matches: 170, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
209 1 0.01
210 27 0.16
211 87 0.51
212 13 0.08
213 42 0.25
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
AATAAAACCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAGATAAC
GAGGTTAGAGTATCCCCAATTGTGAAAAATGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
CCCGATTAAAGGAAAAATTAGTGTCTTGAAAATAAAACCGGAGTTAGAATATCCCCGACTGTGGA
AAAATTAGTGTTTTAGC
Found at i:263846 original size:20 final size:20
Alignment explanation
Indices: 263819--263873 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
263809 TAAAATTTCC
*
263819 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
263839 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
263859 AAATGTATCGATACA
1 AAATGTATCGATACA
263874 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:263917 original size:19 final size:19
Alignment explanation
Indices: 263893--263947 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
263883 CAGTAGCTAA
*
263893 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
263912 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
263931 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
263948 TTGTTGAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:264305 original size:13 final size:13
Alignment explanation
Indices: 264287--264311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
264277 CAAAGATCAG
264287 TGTATCGATACAA
1 TGTATCGATACAA
264300 TGTATCGATACA
1 TGTATCGATACA
264312 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:265408 original size:101 final size:101
Alignment explanation
Indices: 265163--268378 Score: 4426
Period size: 101 Copynumber: 32.9 Consensus size: 101
265153 ATGAGAAGAA
* * * *
265163 TGCCAATGTGCTGATTCAAAGCC-GACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGC
1 TGCCAATGTGCTGATTCAAGGCCAG-CGACATT-GGTCTTAAAGATGACAAAGGCGCCAATATGC
*
265227 TGATTTAAGGCCAGCGATATTGGACTT----A--AAGG
64 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
265259 TGCCAATGTGCTGATTCAAGGCTAGCGGCATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
265324 ATTTAAGGCCAGCGATGTTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
265360 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
265425 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
265461 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
265526 ATTCAAGGCCAGCGATATTAGACTTAAAGATGAAAG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
265562 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AA-A-GACAAAAGTGACAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
265624 ATTTAAGGCCAGCGATACTGGGCTT-AA-A-G-A--
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
265654 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGGA-AAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-GACAAAGGCGCCAATATGCT
**
265718 GATTCAAGGCCAGCGATATTGGACTGGAAGATGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
265755 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
265820 ATTCAAGCCCAGTGATATTGGACTTAAAGGTGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
265856 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
265918 ATTCAAGGCCAACGATATTAGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
265948 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
266013 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* **
266049 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
266114 ATTCAAGGTCAGCAATATTGGACTTAAAGGTGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
266150 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTGAAGATG---AAGGCGCCAATATACTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
266212 ATTCAAGGCCAGCGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
266242 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266307 ATTTAAGGCCAGCGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
266337 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAACAAAGGCGCTAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
266402 ATTCAAGACCAACGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
266438 TGTCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266503 ATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
266539 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG---AAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266601 ATTCAAGGCCAGCGATATTAGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
266631 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266696 ATTCAAGGCCAGTGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
266726 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
266791 ATTCAAGGCCAGCGATGTTGGACTTAAAGATAAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
266827 TGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266892 ATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
266928 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266993 ATTCAAGGCCAGTGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
267023 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
267088 ATTCAAGGCCAGCGATGTTGGACTTAAAGATAAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
267124 TGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
267189 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
267225 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAT-TTAAAGATG---AAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TCTTAAAGATGACAAAGGCGCCAATATGCT
*
267286 GATTCAAGGCCAGCGATATTGGACTT----A--AAGC
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
267317 TGCAAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATACGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
267382 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* **
267418 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
267483 ATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
267519 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATG---AAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
267581 ATTCAAGTCCAGCGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* ** * *
267611 TGCCAATGTGCTGATTCAAGGCTAGTAACATTGGTCTTAAGGATGACAAAGGCGCCAATATACTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
267676 ATTCAAGGCCAGCGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
267706 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCTAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
267771 ATTCTAGGCCTGCAATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
267807 TGCCAATGTGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
267872 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
267908 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGCGCCAATATGTTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
267970 ATTCAAGGCCAGTGATATTGGACTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
268000 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGGGT-TTTAAGATGACAAAGGTGCCAATATGCA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGACAAAGGCGCCAATATGCT
*
268064 GATTCAAGGCCAGCGATATTAGACTT----A--AAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
268095 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
268160 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
268196 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AA-A-GACAAAAGTGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
268258 ATTTAAGGCCAGCGATATTGGGCTT----A--AAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
268288 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGATGGA-AAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-GACAAAGGCGCCAATATGCT
* *
268352 GATTCAAGGCCAGCAATATTGGGCTTA
65 GATTCAAGGCCAGCGATATTGGACTTA
268379 GAAGGGTTGC
Statistics
Matches: 2823, Mismatches: 210, Indels: 174
0.88 0.07 0.05
Matches are distributed among these distances:
91 1 0.00
92 346 0.12
93 6 0.00
94 9 0.00
95 808 0.29
96 33 0.01
97 5 0.00
98 314 0.11
99 11 0.00
100 6 0.00
101 1283 0.45
102 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:265713 original size:294 final size:293
Alignment explanation
Indices: 265163--268378 Score: 4285
Period size: 294 Copynumber: 11.0 Consensus size: 293
265153 ATGAGAAGAA
* * ** *
265163 TGCCAATGTGCTGATTCAAAGCC-GACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGC
1 TGCCAATGTGCTGATTCAAGGCCAG-CGACATT-GGACTTAAAGATGACAAAGGCGCCAATATGC
* * *
265227 TGATTTAAGGCCAGCGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCTAGCGG
64 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGA
* *
265287 CATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGATGTTGGACTTAAA
129 CATTGGTCTT-AA-A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA
* *
265352 GATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCA
190 -A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCA
265417 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
250 ATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
265461 TGCCAAAGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* *
265526 ATTCAAGGCCAGCGATATTAGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGCCAACGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATG-AAGTGCCAATGTGCTGATTCAAGGCCAGCGAC
* * * * * *
265591 ATTGGTCTTAAAGACAAAAGTGACAATATGCTGATTTAAGGCCAGCGATACTGGGCTTAAAGATG
130 ATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
265656 CCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGGA-AAAGGTGCCAATATGCTGA
195 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-GACAAAGGCGCCAATATGCTGA
**
265720 TTCAAGGCCAGCGATATTGGACTGGAAGATGAAGG
259 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
265755 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
265820 ATTCAAGCCCAGTGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCGAC
* ** * * * *
265885 ATTGGACTTAAAGATGAAGGCACCAATATGCTGATTCAAGGCCAACGATATTAGACTTAAAGGTG
130 ATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
265950 CCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGTTAAT
195 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGAT
266015 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
260 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
**
266049 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* * * *
266114 ATTCAAGGTCAGCAATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCGAC
* * ** * *
266179 ATTGGACTTGAAGATGAAGGCGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG
130 ATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
266244 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGAT
195 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGAT
*
266309 TTAAGGCCAGCGATATTGGACTT----A--AAGG
260 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
266337 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAACAAAGGCGCTAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* * * *
266402 ATTCAAGACCAACGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCTAGCGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCGAC
* * *
266467 ATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
130 ATTGGTCTT-AA-A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-
* *
266532 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG---AAGGCGCCAA
190 A-G-A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAA
*
266594 TATGCTGATTCAAGGCCAGCGATATTAGACTT----A--AAGG
251 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
266631 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
266696 ATTCAAGGCCAGTGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCGACA
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACA
*
266756 TTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTAAAGA
131 TTGGTCTT-AA-A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-
* * *
266821 TAAAGGTGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGACAAAGGTGCCAAT
192 ---A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAAT
*
266886 ATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
252 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
266928 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
266993 ATTCAAGGCCAGTGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCCAGCGACA
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACA
*
267053 TTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTAAAGA
131 TTGGTCTT-AA-A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG-
* *
267118 TAAAGGTGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGACAAAGGCGCCAAT
192 ---A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAAT
*
267183 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
252 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
*
267225 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGATTTAAAGATG---AAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
267287 ATTCAAGGCCAGCGATATTGGACTT-AA-A-G--CTGCAAATGTGTTGATTCAAGGCCAGCGACA
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACA
*
267347 TTGGTCTTAAAGATGACAAAGGCGCCAATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
131 TTGGTCTT-AA-A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A
* **
267412 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTACCAAT
191 -G-A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAAT
* *
267477 ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGAAGG
252 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
267519 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATG---AAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
* * **
267581 ATTCAAGTCCAGCGATATTGGACTT-AA-A-G--GTGCCAATGTGCTGATTCAAGGCTAGTAACA
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACA
* *
267641 TTGGTCTTAAGGATGACAAAGGCGCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGG
131 TTGGTCTTAA--A-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
*
267706 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCTAATATGCTG
193 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
267771 ATTCTAGGCCTGCAATATTGGACTTAAAGATGAAGG
258 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
267807 TGCCAATGTGCTAATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
267872 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAA-GTGCCAATGTGCTGATTCAAGGCCAGCGAC
* ** * * *
267937 ATTGGACTTAAAGATGAAGGCGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGGTG
130 ATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
268002 CCAATGTGCTGATTCAAGGCTAGCGACATTGGGT-TTTAAGATGACAAAGGTGCCAATATGCAGA
195 CCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGACAAAGGCGCCAATATGCTGA
*
268066 TTCAAGGCCAGCGATATTAGACTT----A--AAGG
259 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
268095 TGCCAATGTGCTGATTCAGGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
*
268160 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGCCAACGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATG-AAGTGCCAATGTGCTGATTCAAGGCCAGCGAC
* * * * * *
268225 ATTGGTCTTAAAGACAAAAGTGCCAATATGCTAATTTAAGGCCAGCGATATTGGGCTTAAAGGTG
130 ATTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
268290 CCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGATGGA-AAAGGTGCCAATATGCTGA
195 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-GACAAAGGCGCCAATATGCTGA
* *
268354 TTCAAGGCCAGCAATATTGGGCTTA
259 TTCAAGGCCAGCGATATTGGACTTA
268379 GAAGGGTTGC
Statistics
Matches: 2668, Mismatches: 201, Indels: 107
0.90 0.07 0.04
Matches are distributed among these distances:
285 1 0.00
286 1 0.00
287 4 0.00
288 649 0.24
289 5 0.00
290 3 0.00
291 121 0.05
292 6 0.00
293 12 0.00
294 1268 0.48
295 9 0.00
296 2 0.00
297 473 0.18
298 30 0.01
299 4 0.00
300 41 0.02
301 1 0.00
302 2 0.00
303 36 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (293 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGTGCCAATGTGCTGATTCAAGGCCAGCGACA
TTGGTCTTAAAGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGC
CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:266429 original size:389 final size:390
Alignment explanation
Indices: 265163--268378 Score: 4240
Period size: 389 Copynumber: 8.2 Consensus size: 390
265153 ATGAGAAGAA
* * * *
265163 TGCCAATGTGCTGATTCAAAGCC-GACAACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGC
1 TGCCAATGTGCTGATTCAAGGCCAG-CGACATT-GGTCTTAAAGATGACAAAGGCGCCAATATGC
* *
265227 TGATTTAAGGCCAGCGATATTGGACTT---A-AAGGTGCCAATGTGCTGATTCAAGGCTAGCGGC
64 TGATTCAAGGCCAGCGATATTGGACTTAAAAGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
* *
265288 ATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGATGTTGGACTTAAAG
129 ATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
*
265353 ATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAA
194 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAA
*
265418 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAAGTGCTGATTCAAGGC
257 TATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-GAAGGTGCCAATGTGCTGATTCAAGGC
* * *
265483 CAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTTATTCAAGGCCAGCGATATTAGA
318 CAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
265548 CTTAAAGATGAAAG
383 CTT-AA-A-G---G
* * * *
265562 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT-AA-A-GACAAAAGTGACAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
265624 ATTTAAGGCCAGCGATACTGGGCTT-AAAG-A--TGCCAATGTGCTGATTCAAGGCTAGCGACAT
66 ATTCAAGGCCAGCGATATTGGACTTAAAAGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
* **
265685 TGGTCTTAAAGATGGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTGGAAGA
131 TGGTCTTAAAGAT-GACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* *
265749 TGAAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAAT
195 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAAT
* *
265814 ATGCTGATTCAAGCCCAGTGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAGGCC
258 ATGCTGATTCAAGGCCAGCGATATTGGACTT-AA---GAAGGTGCCAATGTGCTGATTCAAGGCC
* * *
265879 AGCGACATTGGACTTAAAGATG---AAGGCACCAATATGCTGATTCAAGGCCAACGATATTAGAC
319 AGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
265941 TTAAAGG
384 TTAAAGG
* * *
265948 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
266013 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAA-A-GAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
* ** * *
266078 ATTGGACTTAAAGATGACAAAGGTACCAATATGCTGATTCAAGGTCAGCAATATTGGACTTAAAG
129 ATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
* * *
266143 GTGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTGAAGATG-AAGGCGCCAATA
194 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATA
*
266207 TACTGATTCAAGGCCAGCGATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
259 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
* *
266270 CATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAA
324 CATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
266335 GG
389 GG
* * *
266337 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAACAAAGGCGCTAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * *
266402 ATTCAAGACCAACGATATTGGACTTAAAGATGAAGGTGTCAATGTGCTGATTCAAGGCTAGCGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAA-A-GAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
* * *
266467 ATTGGACTTAAAGATGACAAAGGCACCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
129 ATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
*
266532 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG-AAGGCGCCAATA
194 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATA
*
266596 TGCTGATTCAAGGCCAGCGATATTAGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
259 TGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGA
* * *
266659 CATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTAATTCAAGGCCAGTGATATTGGACTTAAA
324 CATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
266724 GG
389 GG
266726 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* * * * *
266791 ATTCAAGGCCAGCGATGTTGGACTTAAAGATAAAGGTGCTAATGTGCTGATTCAAGGCCAGTGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAA-A-GAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
* *
266856 ATTGGTCTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
129 ATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
*
266921 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAA
194 ATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAA
* *
266986 TATGCTAATTCAAGGCCAGTGATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGC
257 TATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
* *
267049 GACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATGTTGGACTTA
322 GACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-
267114 AAGATAAAGG
385 ----TAAAGG
* *
267124 TGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* *
267189 ATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
66 ATTCAAGGCCAGCGATATTGGACTTAAA--AGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
267254 ATTGGAT-TTAAAGATG---AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---
129 ATTGG-TCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * *
267312 -A--AAGCTGCAAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCA
193 GATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCA
*
267374 ATACGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGG
256 ATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-GAAGGTGCCAATGTGCTGATTCAAGG
** *
267439 CCAGCGACATTGGACTTAAAGATGACAAAGGTACCAATATGCTGATTCAAGGCCAGCAATATTGG
317 CCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGG
267504 ACTTAAAGGTGAAGG
382 ACTT--A----AAGG
* * *
267519 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATG---AAGGCACCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
* **
267581 ATTCAAGTCCAGCGATATTGGACTT---A-AAGGTGCCAATGTGCTGATTCAAGGCTAGTAACAT
66 ATTCAAGGCCAGCGATATTGGACTTAAAAGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
* *
267642 TGGTCTTAAGGATGACAAAGGCGCCAATATACTGATTCAAGGCCAGCGATATTGGACTT----A-
131 TGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
267702 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCTAATA
196 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAATA
* * * *
267766 TGCTGATTCTAGGCCTGCAATATTGGACTTAAAGATGAAGGTGCCAATGTGCTAATTCAAGGCCA
259 TGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-GAAGGTGCCAATGTGCTGATTCAAGGCCA
* *
267831 GCGACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
320 GCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
267896 TAAAGATGAAGG
385 T----A--AAGG
* * *
267908 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGCGCCAATATGTTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
*
267970 ATTCAAGGCCAGTGATATTGGACTT---A-AAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
66 ATTCAAGGCCAGCGATATTGGACTTAAAAGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
* * * *
268031 TGGGT-TTTAAGATGACAAAGGTGCCAATATGCAGATTCAAGGCCAGCGATATTAGACTT----A
131 T-GGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
268091 --AAGGTGCCAATGTGCTGATTCAGGGCCAGCGACATTGGTCTTAAAGATGACAAAGGTGCCAAT
195 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAAT
* *
268154 ATGCTTATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGCC
258 ATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A-GAAGGTGCCAATGTGCTGATTCAAGGCC
* * * * * * *
268219 AACGACATTGGTCTT-AA-A-GACAAAAGTGCCAATATGCTAATTTAAGGCCAGCGATATTGGGC
319 AGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
268281 TTAAAGG
384 TTAAAGG
* *
268288 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGATGGA-AAAGGTGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-GACAAAGGCGCCAATATGCT
* *
268352 GATTCAAGGCCAGCAATATTGGGCTTA
65 GATTCAAGGCCAGCGATATTGGACTTA
268379 GAAGGGTTGC
Statistics
Matches: 2581, Mismatches: 182, Indels: 123
0.89 0.06 0.04
Matches are distributed among these distances:
380 45 0.02
381 1 0.00
382 1 0.00
383 37 0.01
385 1 0.00
386 170 0.07
387 3 0.00
388 3 0.00
389 1295 0.50
390 7 0.00
391 7 0.00
392 246 0.10
393 4 0.00
394 5 0.00
395 573 0.22
396 3 0.00
397 4 0.00
398 146 0.06
399 30 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (390 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAAGAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACAT
TGGTCTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTTAAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACA
TTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGG
Found at i:268405 original size:30 final size:32
Alignment explanation
Indices: 268371--268448 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
268361 CCAGCAATAT
*
268371 TGGGC-TT-AGAAGGGTTGCCACTGACTTGTG
1 TGGGCTTTAAGAAGGGTTGCCACCGACTTGTG
*
268401 TGGGCTTTAGAGAATGGTTGCCACCGACTTGTG
1 TGGGCTTTA-AGAAGGGTTGCCACCGACTTGTG
*
268434 TGGGTTTTAA-AAGGG
1 TGGGCTTTAAGAAGGG
268449 GGTGCCATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.12
31 6 0.15
32 1 0.02
33 29 0.71
ACGTcount: A:0.19, C:0.14, G:0.36, T:0.31
Consensus pattern (32 bp):
TGGGCTTTAAGAAGGGTTGCCACCGACTTGTG
Found at i:268422 original size:33 final size:33
Alignment explanation
Indices: 268378--268442 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
268368 TATTGGGCTT
*
268378 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
268411 AGAATGGTTGCCACCGACTTGTGTGGGTTTTA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA
268443 AAAGGGGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.18, C:0.15, G:0.34, T:0.32
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:268521 original size:34 final size:34
Alignment explanation
Indices: 268483--268614 Score: 162
Period size: 37 Copynumber: 3.9 Consensus size: 34
268473 AAGGGAAACT
*
268483 GGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
268517 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTT---GAAAAGAAAAA
268554 GGTGCCACGGAGTTGTGGGCTTTG--AAG-AAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
* * * * *
268585 GATGCCACTGAGTCGTGGACTTTGGAAAGA
1 GGTGCCACGGAGTTGTGGGCTTTGAAAAGA
268615 GATGCCACTG
Statistics
Matches: 87, Mismatches: 5, Indels: 12
0.84 0.05 0.12
Matches are distributed among these distances:
31 24 0.28
32 3 0.03
33 3 0.03
34 23 0.26
37 34 0.39
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.20
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
Found at i:268532 original size:68 final size:67
Alignment explanation
Indices: 268449--268606 Score: 167
Period size: 68 Copynumber: 2.3 Consensus size: 67
268439 TTTAAAAGGG
* * ** **
268449 GGTGCCATGGTGTTGTGGACTT-AA-AAGGGAAACTGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 GGTGCCACGGAGTTGTGGACTTGAAGAAAAGAAAAAGGTGCCACGGAGTGGTGGGCTTTG--AAG
268512 AAAAA
64 -AAAA
* *
268517 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 GGTGCCACGGAGTTGTGGAC-TTGAAGAAAAGAAAAAGGTGCCACGGAGTGGTGGGCTTTGAAGA
268582 AAA
65 AAA
* * *
268585 GATGCCACTGAGTCGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
268607 TGGAAAGAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
67 2 0.03
68 37 0.49
69 5 0.07
70 2 0.03
71 29 0.39
ACGTcount: A:0.28, C:0.13, G:0.36, T:0.22
Consensus pattern (67 bp):
GGTGCCACGGAGTTGTGGACTTGAAGAAAAGAAAAAGGTGCCACGGAGTGGTGGGCTTTGAAGAA
AA
Found at i:268556 original size:37 final size:37
Alignment explanation
Indices: 268483--268586 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
268473 AAGGGAAACT
*
268483 GGTGCCACGGAGTGGTGGGCTTT---GAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
268517 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
268554 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGA
1 GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGA
268587 TGCCACTGAG
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
34 22 0.33
37 44 0.67
ACGTcount: A:0.32, C:0.12, G:0.38, T:0.19
Consensus pattern (37 bp):
GGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAA
Found at i:268647 original size:61 final size:60
Alignment explanation
Indices: 268556--268729 Score: 199
Period size: 61 Copynumber: 2.9 Consensus size: 60
268546 AAGAAAAAGG
* *
268556 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT-GGA-AAGAGA
1 TGCCACTGAGTTGTGGGCTTT-AAGAAAAGATGCCACTGAGTCGTAGACTTTGGGACAA-A-A
* * *** *
268617 TGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCTGTTGAGTCCTAGACTTTGGGACAAAA
1 TGCCACTGAGTTGTGGGCTTT-AAGAAAAGATGCCACTGAGTCGTAGACTTTGGGACAAAA
* *
268678 TGCCACTGAGTTGTGGGCTTTGAGAAGAGATTGCCACTGAGTCGTAGACTTT
1 TGCCACTGAGTTGTGGGCTTTAAGAAAAGA-TGCCACTGAGTCGTAGACTTT
268730 AAGAAGGTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
60 7 0.08
61 80 0.86
62 4 0.04
63 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (60 bp):
TGCCACTGAGTTGTGGGCTTTAAGAAAAGATGCCACTGAGTCGTAGACTTTGGGACAAAA
Found at i:268658 original size:31 final size:30
Alignment explanation
Indices: 268550--268734 Score: 158
Period size: 31 Copynumber: 6.1 Consensus size: 30
268540 GAAGAAAAGA
* * * *
268550 AAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT-AAG
*
268581 AAAAGATGCCACTGAGTCGTGGACTTT-GG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAG
268610 AAAGAGATGCCACTGAGTCGTGGACTTTAAAG
1 AAA-AGATGCCACTGAGTCGTGGACTTT-AAG
*** * * **
268642 AAAAGATGCTGTTGAGTCCTAGACTTTGGG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAG
* * *
268672 ACAAA-ATGCCACTGAGTTGTGGGCTTTGAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAAG
* *
268702 AAGAGATTGCCACTGAGTCGTAGACTTTAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTAAG
268733 AA
1 AA
268735 GGTATTTAAA
Statistics
Matches: 122, Mismatches: 26, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
29 6 0.05
30 45 0.37
31 67 0.55
32 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (30 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAAG
Found at i:270036 original size:20 final size:17
Alignment explanation
Indices: 270013--270054 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
270003 CCTTTGCATC
* *
270013 TTTTTTTTGTGTGTGTT
1 TTTTTTTTTTTTGTGTT
270030 TTGTTTTTTTTTTGTGTT
1 TT-TTTTTTTTTTGTGTT
270048 TTTTTTT
1 TTTTTTT
270055 ACTTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTTTGTGTT
Found at i:270041 original size:22 final size:20
Alignment explanation
Indices: 270013--270072 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
270003 CCTTTGCATC
* *
270013 TTTTTTTTGTGTGTGTTTTG
1 TTTTTTTTTTGTGTGTTTTT
270033 TTTTTTTTTTGTGT-TTTTT
1 TTTTTTTTTTGTGTGTTTTT
270052 TTTACTTTTGTTTGTGTGTTT
1 TTT--TTTT-TTTGTGTGTTT
270073 ACTTTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.21
20 13 0.38
21 4 0.12
22 7 0.21
23 3 0.09
ACGTcount: A:0.02, C:0.02, G:0.18, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTTGTGTGTTTTT
Found at i:270060 original size:18 final size:18
Alignment explanation
Indices: 270024--270062 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
270014 TTTTTTTGTG
*
270024 TGTGTTTTGTTTTTTTTT
1 TGTGTTTTGTTTTTCTTT
270042 TGTGTTTT-TTTTTACTTT
1 TGTGTTTTGTTTTT-CTTT
270060 TGT
1 TGT
270063 TTGTGTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.79
Consensus pattern (18 bp):
TGTGTTTTGTTTTTCTTT
Found at i:270060 original size:24 final size:25
Alignment explanation
Indices: 270035--270086 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 25
270025 GTGTTTTGTT
*
270035 TTTTTTTTGTGT-TTT--TTTTTAC
1 TTTTTTTTGTGTGTTTACTTTTGAC
*
270057 TTTTGTTTGTGTGTTTACTTTTGAC
1 TTTTTTTTGTGTGTTTACTTTTGAC
270082 TTTTT
1 TTTTT
270087 CATCATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 11 0.46
23 3 0.12
25 10 0.42
ACGTcount: A:0.06, C:0.06, G:0.13, T:0.75
Consensus pattern (25 bp):
TTTTTTTTGTGTGTTTACTTTTGAC
Found at i:270899 original size:55 final size:55
Alignment explanation
Indices: 270815--271641 Score: 742
Period size: 59 Copynumber: 14.4 Consensus size: 55
270805 AAGCGTATCT
* * *
270815 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT-GAAAGGTGTCC
1 TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCC
*
270870 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-GAAAGGAGTCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCC
* * * *
270925 TGCTCATTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTA-AGAGGTGTCC
1 TGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCC
* *
270980 TACTCTTTGA-G---G---ATGCCACCAACTTGTGTGGGCTTT-GAAAGGGGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCC
* * *
271027 TGCTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGC-TTCGAAAGGGGTCC
1 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCC
* * * * *
271082 TGCTCTTTGGGGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 TGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT----AG-AAAGGCGTCC
** * *
271143 TGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTAGGCTTTAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AG-AAAGGCGTCC
* ** *
271202 CGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AG-AAAGGCGTCC
* ** * *
271261 CGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGTTTTAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AG-AAAGGCGTCC
* ** *
271320 CGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCC
1 TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT---AG-AAAGGCGTCC
*
271379 CGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCGTCC
*
271440 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCGTCC
* * *
271501 TGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT---AG-AAAGGCGTCC
* *
271561 CGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT---A-G-AAAGGCGTCC
*
271622 TGCTCTTTGAGGACTAAAAA
1 TGCTCTTTGAGGACTGAAAA
271642 ACGGAAGGAG
Statistics
Matches: 691, Mismatches: 53, Indels: 51
0.87 0.07 0.06
Matches are distributed among these distances:
47 39 0.06
48 2 0.00
51 2 0.00
54 11 0.02
55 165 0.24
56 6 0.01
59 197 0.29
60 109 0.16
61 159 0.23
62 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAGAAAGGCGTCC
Found at i:271015 original size:47 final size:47
Alignment explanation
Indices: 270946--271090 Score: 157
Period size: 55 Copynumber: 2.9 Consensus size: 47
270936 GACTGAAAAG
*
270946 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTACTCTTTGAGGA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGGGTCCTACTCTTTGAGGA
* *
270993 TGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTGCTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTACTCTTT---GA--G---GA
* *
271048 TGCCACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTACTCTTTG
271091 GGGACTTAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
47 37 0.44
48 2 0.02
50 2 0.02
52 2 0.02
55 42 0.49
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (47 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGGGTCCTACTCTTTGAGGA
Found at i:271475 original size:61 final size:59
Alignment explanation
Indices: 270993--271636 Score: 840
Period size: 59 Copynumber: 10.9 Consensus size: 59
270983 TCTTTGAGGA
* * *
270993 TGCCACCAACTTGTGTGGGCTTT----G-AAAGGGGTCCTGCTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAAG
* * * *
271048 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTTAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA-G
* * *
271103 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
* * * *
271163 TGCCACCAACTTGGGTAGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
* * *
271222 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
* * * *
271281 TGCCACCAACTTGGGTGGGTTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
* * *
271340 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGTGTCCCGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAAG
*
271400 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGAAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAG
* * *
271461 TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGGGGACGGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGAAA-G
* * *
271522 TGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAG
*
271582 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT
271637 AAAAAACGGA
Statistics
Matches: 535, Mismatches: 40, Indels: 22
0.90 0.07 0.04
Matches are distributed among these distances:
54 5 0.01
55 66 0.12
56 2 0.00
59 197 0.37
60 105 0.20
61 159 0.30
62 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (59 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAG
Found at i:272666 original size:13 final size:12
Alignment explanation
Indices: 272622--272667 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
272612 TTTTCTCTCC
*
272622 TTTTTCTTTGTT
1 TTTTTTTTTGTT
272634 TTGTTTCTTTTGTT
1 TT-TTT-TTTTGTT
272648 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
272661 TTTTTTT
1 TTTTTTT
272668 GAAGAGATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.23
13 15 0.50
14 8 0.27
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:283843 original size:52 final size:51
Alignment explanation
Indices: 283765--283881 Score: 182
Period size: 52 Copynumber: 2.3 Consensus size: 51
283755 AAGTTGCTTG
*
283765 CATGTATCGATACATTTAATAGTGTATCGATACATCTCGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAA-TTGCCTA
* *
283817 CATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAATTGCCTG
1 CATGTATCGATACA-TTTAATAATGTATCGATACATCTCGGCAAATTGCCTA
283868 CATGTATCGATACA
1 CATGTATCGATACA
283882 AAGATCAGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 20 0.33
52 36 0.59
53 5 0.08
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (51 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTCGGCAAATTGCCTA
Found at i:283908 original size:13 final size:13
Alignment explanation
Indices: 283890--283914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
283880 CAAAGATCAG
283890 TGTATCGATACAA
1 TGTATCGATACAA
283903 TGTATCGATACA
1 TGTATCGATACA
283915 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:283992 original size:33 final size:33
Alignment explanation
Indices: 283955--284021 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
283945 AGTAGCTTAA
283955 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
283988 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
284021 A
1 A
284022 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:283995 original size:13 final size:13
Alignment explanation
Indices: 283977--284001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
283967 CAAAAAAATA
283977 TGTATCGATACAT
1 TGTATCGATACAT
283990 TGTATCGATACA
1 TGTATCGATACA
284002 ACATTTTATG
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:288867 original size:78 final size:78
Alignment explanation
Indices: 288735--288934 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 78
288725 ATAATAACGG
* * * * ** * * *
288735 GGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAAT-ATTT
*
288799 AGAAAAAAAATCG-
65 AGAAAAAAAACCGA
**
288812 GGATTGGAGTATCCTTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTT
1 GG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAATA-TT
* * *
288877 TGGGAATAAAACCGA
64 TAGAAAAAAAACCGA
* *
288892 GGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
288935 GATGAGATAA
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
77 3 0.03
78 47 0.47
79 48 0.48
80 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (78 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAATATTTA
GAAAAAAAACCGA
Done.