Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 76 of 141
Found at i:21804097 original size:40 final size:40
Alignment explanation
Indices: 21804021--21804171 Score: 200
Period size: 40 Copynumber: 3.7 Consensus size: 40
21804011 ACCAAAAATT
*
21804021 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA-TATTTTAAAAA
1 TATTTT-AAAATT-AAAAAA--ATTTAAAAAAGTATTTTAAAAA
* *
21804064 TATTTGAAAATTAAAAAAATTTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
21804104 TATTTTAAAATTAGAAAATAA--TAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTA-AAAA-AATTTAAAAAAGTATTTTAAAAA
21804144 TATTTTAAAATTAAAAAAATTTAAAAAA
1 TATTTTAAAATTAAAAAAATTTAAAAAA
21804172 TAAATATATT
Statistics
Matches: 100, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
38 2 0.02
39 14 0.14
40 61 0.61
41 10 0.10
42 8 0.08
43 5 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAGTATTTTAAAAA
Found at i:21804183 original size:17 final size:17
Alignment explanation
Indices: 21804138--21804183 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
21804128 AAAAGTATTT
* *
21804138 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
21804155 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
21804172 TAAATATATTTA
1 TAAAAATATTTA
21804184 TTATATCGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:21828542 original size:1 final size:1
Alignment explanation
Indices: 21828536--21828569 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
21828526 AAGAGCGGTT
*
21828536 GGGGGGGGGGTGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
21828570 AGGAGGAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.97, T:0.03
Consensus pattern (1 bp):
G
Found at i:21844364 original size:6 final size:6
Alignment explanation
Indices: 21844355--21844379 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21844345 TTTAAATTTT
21844355 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
21844380 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:21845638 original size:31 final size:29
Alignment explanation
Indices: 21845600--21845676 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
21845590 CTAACGGCTC
* *
21845600 AGTGACTAAAATGTTACAACGTGATAACATA
1 AGTGACTAAAATGTAAC-ACGTCA-AACATA
* **
21845631 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACGTCAAACATA
21845660 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
21845677 CTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACGTCAAACATA
Found at i:21845799 original size:23 final size:23
Alignment explanation
Indices: 21845738--21845801 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
21845728 TAATATAAAA
*
21845738 TTTAAATTTATTATTATATATTT
1 TTTAAATTTATTATGATATATTT
*
21845761 TTTGAAA-ATATTTATGATATA-TT
1 TTT-AAATTTA-TTATGATATATTT
21845784 TTTAAATTTATATATGAT
1 TTTAAATTTAT-TATGAT
21845802 TTCATTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 4 0.12
23 18 0.53
24 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTTAAATTTATTATGATATATTT
Found at i:21848070 original size:21 final size:21
Alignment explanation
Indices: 21848008--21848098 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
21847998 CCAGCTTTAT
* * *
21848008 TGAGCTTCAGTTTAACCTTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * *
21848029 TGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTCAACCCTTA
*
21848050 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * *
21848071 CGAGTTTCTGTTTAACACTTA
1 TGAGCTTCTGTTCAACCCTTA
*
21848092 TGTGCTT
1 TGAGCTT
21848099 TCGATTAGCC
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (21 bp):
TGAGCTTCTGTTCAACCCTTA
Found at i:21848078 original size:42 final size:42
Alignment explanation
Indices: 21847947--21848082 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
21847937 AGCTCTCACA
* * ** * *
21847947 AGTTTCTGTTCAACTCATATGAATTTTCGTTCAACCCTAATG
1 AGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG
* * * * * *
21847989 GGTTTCTATCCAGCT-TTATTGAGCTTCAGTTTAACCTTTATG
1 AGTTTCTGTTCAGCTCTTA-TGAGCTTCCGTTCAACCCTTATG
* *
21848031 GGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTACG
1 AGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG
21848073 AGTTTCTGTT
1 AGTTTCTGTT
21848083 TAACACTTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 2 0.03
42 68 0.93
43 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (42 bp):
AGTTTCTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG
Found at i:21848092 original size:42 final size:42
Alignment explanation
Indices: 21848008--21848098 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
21847998 CCAGCTTTAT
* * * * * *
21848008 TGAGCTTCAGTTTAACCTTTATGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCAGTTCAACCCTTACGAGTTTCTGTTCAACACTTA
* *
21848050 TGAGCTTCCGTTCAACCCTTACGAGTTTCTGTTTAACACTTA
1 TGAGCTTCAGTTCAACCCTTACGAGTTTCTGTTCAACACTTA
*
21848092 TGTGCTT
1 TGAGCTT
21848099 TCGATTAGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGTTCAACCCTTACGAGTTTCTGTTCAACACTTA
Found at i:21852855 original size:14 final size:14
Alignment explanation
Indices: 21852815--21852848 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
21852805 AATATAATAG
21852815 TTAATTTT-AG-TT
1 TTAATTTTAAGTTT
21852827 TTAATTTTAAGTTT
1 TTAATTTTAAGTTT
21852841 TTAATTTT
1 TTAATTTT
21852849 TGGTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 2 0.10
14 10 0.50
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TTAATTTTAAGTTT
Found at i:21853169 original size:7 final size:7
Alignment explanation
Indices: 21853157--21853183 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21853147 TTCTCATTTT
21853157 CTTCCTG
1 CTTCCTG
21853164 CTTCCTG
1 CTTCCTG
21853171 CTTCCTG
1 CTTCCTG
21853178 CTTCCT
1 CTTCCT
21853184 AAAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.44, G:0.11, T:0.44
Consensus pattern (7 bp):
CTTCCTG
Found at i:21855215 original size:20 final size:19
Alignment explanation
Indices: 21855187--21855226 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
21855177 TAAAGTTTAC
21855187 TTTTAATA-TATAAATTATA
1 TTTTAATATTA-AAATTATA
21855206 TTTTAGATATTAAAATTATA
1 TTTTA-ATATTAAAATTATA
21855226 T
1 T
21855227 ATAAACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 12 0.63
21 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTAATATTAAAATTATA
Found at i:21855931 original size:6 final size:6
Alignment explanation
Indices: 21855920--21855971 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
21855910 AACCTCGAAC
* * * *
21855920 CTCAAA CTCAAA CTCAAA CTCAAAA TTTAAA CCCTAAA CTCAAA CCCAAA
1 CTCAAA CTCAAA CTCAAA CTC-AAA CTCAAA CTC-AAA CTCAAA CTCAAA
21855970 CT
1 CT
21855972 TAGGGTTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
6 27 0.75
7 9 0.25
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCAAA
Found at i:21856613 original size:11 final size:11
Alignment explanation
Indices: 21856597--21856627 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21856587 TATATATATT
21856597 TAAAAATTATA
1 TAAAAATTATA
*
21856608 TAAAAATAATA
1 TAAAAATTATA
21856619 TAAAAATTA
1 TAAAAATTA
21856628 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:21864164 original size:20 final size:20
Alignment explanation
Indices: 21864139--21864189 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
21864129 AATTAATAAG
*
21864139 CCTTAATTAATTAA-ACTAAA
1 CCTTAATTAACTAATACT-AA
21864159 CCTTAATTAACTAATACTAA
1 CCTTAATTAACTAATACTAA
*
21864179 GCTTAATTAAC
1 CCTTAATTAAC
21864190 AAAAAATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.45, C:0.18, G:0.02, T:0.35
Consensus pattern (20 bp):
CCTTAATTAACTAATACTAA
Found at i:21866110 original size:13 final size:13
Alignment explanation
Indices: 21866089--21866128 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
21866079 CTTAAATCAA
21866089 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
* **
21866102 ACTTCTCAAAAAC
1 ACTTTTCAAAAGT
21866115 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
21866128 A
1 A
21866129 TTGCTAAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:21867147 original size:17 final size:18
Alignment explanation
Indices: 21867127--21867160 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21867117 GGGAAACATT
21867127 TATTTTAATGT-TTTTAG
1 TATTTTAATGTATTTTAG
*
21867144 TATTTTTATGTATTTTA
1 TATTTTAATGTATTTTA
21867161 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (18 bp):
TATTTTAATGTATTTTAG
Found at i:21874520 original size:17 final size:16
Alignment explanation
Indices: 21874485--21874523 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
21874475 GATAAAAATG
21874485 AATTTTATTTTTATTA
1 AATTTTATTTTTATTA
21874501 AATTTATATGTTTT-TTA
1 AATTT-TAT-TTTTATTA
21874518 AATTTT
1 AATTTT
21874524 TATAATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
AATTTTATTTTTATTA
Found at i:21889856 original size:18 final size:18
Alignment explanation
Indices: 21889822--21889859 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
21889812 AAATCCTAAT
21889822 TTCTCATTTCTTTCTTTC
1 TTCTCATTTCTTTCTTTC
21889840 TTCTC-TTTCTTTCCTTTC
1 TTCTCATTTCTTT-CTTTC
21889858 TT
1 TT
21889860 TTCTCCCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTCATTTCTTTCTTTC
Found at i:21889934 original size:14 final size:14
Alignment explanation
Indices: 21889908--21889946 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
21889898 TTTTTCTTTT
21889908 CTTTATT-TATTTA
1 CTTTATTATATTTA
*
21889921 TTTTATTATATTTA
1 CTTTATTATATTTA
21889935 CTTTATTATATT
1 CTTTATTATATT
21889947 ATATATTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTATTATATTTA
Found at i:21889941 original size:19 final size:18
Alignment explanation
Indices: 21889911--21889950 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21889901 TTCTTTTCTT
*
21889911 TATTTATTTATTTTATTA
1 TATTTATTTATTATATTA
21889929 TATTTACTTTATTATATTA
1 TATTTA-TTTATTATATTA
21889948 TAT
1 TAT
21889951 ATTTACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTATTTATTATATTA
Found at i:21889964 original size:19 final size:21
Alignment explanation
Indices: 21889927--21889966 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21889917 TTTATTTTAT
*
21889927 TATATTTACTTTATTATATTA
1 TATATTTACTTTATAATATTA
21889948 TATATTTAC-TTA-AATATTA
1 TATATTTACTTTATAATATTA
21889967 AGTAATACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 3 0.17
21 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATTTACTTTATAATATTA
Found at i:21891048 original size:27 final size:27
Alignment explanation
Indices: 21890996--21891048 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
21890986 CTGAATCAAT
* * **
21890996 AAAATTAAACTCCAATACAATTTTTAA
1 AAAATTAAAATCCAAAACAAAATTTAA
21891023 AAAATTAAAATCCAAAACAAAATTTA
1 AAAATTAAAATCCAAAACAAAATTTA
21891049 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAATTAAAATCCAAAACAAAATTTAA
Found at i:21892486 original size:98 final size:98
Alignment explanation
Indices: 21892317--21892511 Score: 327
Period size: 98 Copynumber: 2.0 Consensus size: 98
21892307 ATACAATAAA
* *
21892317 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACGCCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
21892382 CCTTTAGAATCCCAAACTCGGAATACTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATACTTCCTTT
* *
21892415 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* * *
21892480 TCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATACTTCCTT
21892512 CATGATTTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATACTTCCTTT
Found at i:21893127 original size:19 final size:19
Alignment explanation
Indices: 21893103--21893202 Score: 173
Period size: 19 Copynumber: 5.3 Consensus size: 19
21893093 NNNNNNNNNN
21893103 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
**
21893122 ATATCATATCTAAGATTAT
1 ATATCATATCTAAGATTGC
21893141 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
*
21893160 ATATCATATCTAGGATTGC
1 ATATCATATCTAAGATTGC
21893179 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
21893198 ATATC
1 ATATC
21893203 CTCAAAAATT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 75 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:21893540 original size:44 final size:44
Alignment explanation
Indices: 21893491--21894086 Score: 216
Period size: 44 Copynumber: 13.6 Consensus size: 44
21893481 TAAAATCCAC
*
21893491 AATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGA
* * *
21893535 AATCTTCAATCTATTCCACTATTGCCTAGGGA-AGT-AGAAT-T-A
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA
* * ** * * *
21893577 CTAGT-TTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATC-CA
1 --AATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGA
*
21893622 CAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
1 -AATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGA
* ** *
21893667 AATCTTCAATCTATTCCACTGTTGCCTAGGGA-AGT-AGAAT-T-A
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA
* * ** * * * *
21893709 CTAGT-TTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCCGC
1 --AATCTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGA
*
21893755 AATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGA
* ** **
21893799 AATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T-A
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA
* * * * ** * * * * *
21893841 CTAGCTTCAATGTACTCCACTA-TAACCACATGGAGGTAAAATCCGC
1 -AATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGA
* * * *
21893887 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGA
* ** **
21893931 AATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT-AGAAT-T-A
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGA-TAAG-ATCTGA
* * * * ** * * * *
21893973 CTAGCTTCAATGTACTCCACTA-TACCACAGGGAGGTAAAATCCGC
1 -AATCTTCAATCTACTCCACTACT-GCTTAGGGAGATAAGATCTGA
* * *
21894018 TATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
1 AATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGA
* *
21894062 AATCTTCAATCTATTCCACTGCTGC
1 AATCTTCAATCTACTCCACTACTGC
21894087 CCAGAGAAGT
Statistics
Matches: 391, Mismatches: 113, Indels: 96
0.65 0.19 0.16
Matches are distributed among these distances:
42 9 0.02
43 86 0.22
44 244 0.62
45 50 0.13
46 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
AATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGA
Found at i:21893643 original size:132 final size:132
Alignment explanation
Indices: 21893406--21894437 Score: 1489
Period size: 132 Copynumber: 7.8 Consensus size: 132
21893396 GGAGCTAGTG
* * * *
21893406 CTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGTTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* *
21893471 CACAGGGAGGTAAAATCCACAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
21893536 AT
131 AT
* * * *
21893538 CTTCAATCTATTCCACTATTGCCTAGGGAAGTAGAATTACTAGTTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* *
21893603 CACAGGGAGGTAAAATCCACAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
21893668 AT
131 AT
* * *
21893670 CTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGTTTCAATGTACTCCACTGTAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
*
21893735 CACAGGGAGGTAAAATCCGCAATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
21893800 AT
131 AT
21893802 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* * *
21893867 CACATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
21893932 AT
131 AT
21893934 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTAT-AC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* *
21893998 CACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
21894063 AT
131 AT
* * * * *
21894065 CTTCAATCTATTCCACTGCTGCCCAGAGAAGTAGAATTATTGGCTTCAATGTACTCCTCTATAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* * ** * * **
21894130 CACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTTCGCTGTCAATGC--AGGAAGGCAAGATCT
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTG-CTC-CACT-ACTGCTTAGGGAGATAAGATCT
**
21894193 GCTAT
128 GAAAT
* * *
21894198 CTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* * ** * * **
21894263 CACATGGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTCAATGC--AGGAAGGCAAGATCT
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGC-TC-CACT-ACTGCTTAGGGAGATAAGATCT
**
21894326 GCTAT
128 GAAAT
* * *
21894331 CTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAAC
1 CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
* *
21894396 CACATGGAGGTAAAATCCGCCATCTTCAATCTGCTCGACTAC
66 CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTAC
21894438 AAACGAGGAA
Statistics
Matches: 857, Mismatches: 38, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
130 1 0.00
131 124 0.14
132 485 0.57
133 241 0.28
134 2 0.00
135 4 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
CTTCAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTATAAC
CACAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
AT
Found at i:21895702 original size:13 final size:12
Alignment explanation
Indices: 21895686--21895719 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
21895676 TTCACTTTCA
21895686 TTTTTTGTTTTTG
1 TTTTTT-TTTTTG
21895699 TTTTTATTTTTTG
1 TTTTT-TTTTTTG
21895712 TTTTTTTT
1 TTTTTTTT
21895720 AATCTGAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 16 0.80
14 1 0.05
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:21899148 original size:98 final size:98
Alignment explanation
Indices: 21898979--21899271 Score: 541
Period size: 98 Copynumber: 3.0 Consensus size: 98
21898969 ATATAATAAA
* * *
21898979 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
21899044 CCTTTAGAATCCCATACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
21899077 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
21899142 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
21899175 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
21899240 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
21899272 CATGATTTTT
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 190 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:21900035 original size:19 final size:19
Alignment explanation
Indices: 21900011--21900102 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
21900001 AATCATATAT
21900011 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
21900030 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
21900049 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
21900068 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21900087 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
21900103 CTCAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21900058 original size:38 final size:38
Alignment explanation
Indices: 21899988--21900102 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
21899978 AAATTAAATC
*
21899988 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
21900030 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
21900068 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
21900103 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:21902420 original size:23 final size:23
Alignment explanation
Indices: 21902394--21902523 Score: 192
Period size: 23 Copynumber: 5.7 Consensus size: 23
21902384 AATAGTGCCA
21902394 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21902417 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
21902440 CACTGAGATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
21902463 CACTG-TATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
* *
21902486 CACTGAGATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
21902509 CACT-ATATTGTAGCC
1 CACTGATA-TGTAGCC
21902524 CATAATTATT
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
22 3 0.03
23 93 0.96
24 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:21902464 original size:46 final size:47
Alignment explanation
Indices: 21902394--21902523 Score: 212
Period size: 46 Copynumber: 2.8 Consensus size: 47
21902384 AATAGTGCCA
*
21902394 CACTGATATGTAGCCGAAGCTACCACTGATA-TGTAGCCGAAGCTAC
1 CACTGAGATGTAGCCGAAGCTACCACTGATATTGTAGCCGAAGCTAC
*
21902440 CACTGAGATGTAGCCGAAGTTACCACTG-TATTGTAGCCGAAGCTAC
1 CACTGAGATGTAGCCGAAGCTACCACTGATATTGTAGCCGAAGCTAC
*
21902486 CACTGAGATGTAGCCAAAGCTACCACT-ATATTGTAGCC
1 CACTGAGATGTAGCCGAAGCTACCACTGATATTGTAGCC
21902524 CATAATTATT
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
45 2 0.03
46 76 0.97
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (47 bp):
CACTGAGATGTAGCCGAAGCTACCACTGATATTGTAGCCGAAGCTAC
Found at i:21903709 original size:21 final size:21
Alignment explanation
Indices: 21903684--21903723 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21903674 CCACCATGAG
* *
21903684 TAGTTAATTGGCCATGTCAGC
1 TAGTTAATGGGCCACGTCAGC
21903705 TAGTTAATGGGCCACGTCA
1 TAGTTAATGGGCCACGTCA
21903724 CTTGTCTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (21 bp):
TAGTTAATGGGCCACGTCAGC
Found at i:21918282 original size:18 final size:18
Alignment explanation
Indices: 21918259--21918297 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
21918249 ACGTTCTTCG
21918259 TCGGCAGAGTACTGGTTT
1 TCGGCAGAGTACTGGTTT
21918277 TCGGCAGAGTACTGGTTT
1 TCGGCAGAGTACTGGTTT
21918295 TCG
1 TCG
21918298 AGGGAAGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (18 bp):
TCGGCAGAGTACTGGTTT
Found at i:21918401 original size:26 final size:26
Alignment explanation
Indices: 21918365--21918419 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
21918355 GGATGGGGCG
21918365 GTTCCTAGGCAAAAGGTGAGATACTT
1 GTTCCTAGGCAAAAGGTGAGATACTT
21918391 GTTCCTAGGCAAAAGGTGAGATACTT
1 GTTCCTAGGCAAAAGGTGAGATACTT
21918417 GTT
1 GTT
21918420 TAAGGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (26 bp):
GTTCCTAGGCAAAAGGTGAGATACTT
Found at i:21927385 original size:52 final size:48
Alignment explanation
Indices: 21927366--21927568 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
21927356 TGACAAGTGG
* *
21927366 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
21927412 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
21927464 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
21927510 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
21927556 AAAGTGATAAGTG
1 AAAGTGATAAGTG
21927569 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:21927420 original size:98 final size:98
Alignment explanation
Indices: 21927300--21927568 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
21927290 TTTGAGTACT
*
21927300 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
21927365 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
21927398 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
21927463 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
21927496 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
21927561 GATAAGTG
65 GAAAAGTG
21927569 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:21927576 original size:37 final size:37
Alignment explanation
Indices: 21927532--21927677 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
21927522 GATAGCTTTA
*
21927532 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21927569 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
21927606 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
21927643 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21927678 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:21932802 original size:16 final size:16
Alignment explanation
Indices: 21932781--21932848 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
21932771 TTTGGTTCGC
21932781 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
21932797 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
21932812 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
21932829 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
21932845 TGTA
1 TGTA
21932849 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:21932820 original size:32 final size:32
Alignment explanation
Indices: 21932781--21932848 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
21932771 TTTGGTTCGC
21932781 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
21932813 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
21932845 TGTA
1 TGTA
21932849 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:21942254 original size:16 final size:17
Alignment explanation
Indices: 21942233--21942282 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
21942223 TTAAAATTGA
21942233 TATAAATTTATAAAA-T
1 TATAAATTTATAAAACT
* *
21942249 TATAAAATAATAATAACT
1 TATAAATTTATAA-AACT
21942267 TATAAATATTATAAAA
1 TATAAAT-TTATAAAA
21942283 ATAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 11 0.41
17 2 0.07
18 9 0.33
19 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAATTTATAAAACT
Found at i:21942300 original size:28 final size:26
Alignment explanation
Indices: 21942240--21942331 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 26
21942230 TGATATAAAT
*
21942240 TTATAAAATTAT-AAAATAATAATAAC
1 TTATAAAATTATAAAAATAATAA-AAA
21942266 TTATAAATATTATAAAAATAATAAAAA
1 TTATAAA-ATTATAAAAATAATAAAAA
* *
21942293 TTAGT-AAATTTTAATAAATTATAAAAAA
1 TTA-TAAAATTATAA-AAATAAT-AAAAA
21942321 TTATAAAATTA
1 TTATAAAATTA
21942332 ATTTTATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
26 13 0.23
27 19 0.34
28 24 0.43
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (26 bp):
TTATAAAATTATAAAAATAATAAAAA
Found at i:21942356 original size:22 final size:23
Alignment explanation
Indices: 21942311--21942396 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 23
21942301 TTTTAATAAA
21942311 TTATAAAAAATTATAAAATTAATT
1 TTATAAAAAATTATAAAA-TAATT
21942335 TTATAAAAACA-TATAAAA-AATT
1 TTATAAAAA-ATTATAAAATAATT
*
21942357 TTA-AAAACGAATCATAAAA-AA--
1 TTATAAAA--AATTATAAAATAATT
**
21942378 TTATTGAAAATTATAAAAT
1 TTATAAAAAATTATAAAAT
21942397 GATTAAAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 10 0.19
23 9 0.17
24 16 0.31
25 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
TTATAAAAAATTATAAAATAATT
Found at i:21942426 original size:11 final size:10
Alignment explanation
Indices: 21942298--21942457 Score: 87
Period size: 10 Copynumber: 15.4 Consensus size: 10
21942288 AAAAATTAGT
* *
21942298 AAATTTTAAT
1 AAATTATAAA
21942308 AAATTATAAA
1 AAATTATAAA
21942318 AAATTATAAA
1 AAATTATAAA
21942328 ATTAATTTTATAAA
1 A--AA--TTATAAA
21942342 AACA-TATAAA
1 AA-ATTATAAA
*
21942352 AAATTTTAAAA
1 AAATTAT-AAA
*
21942363 ACGAATCATAAA
1 A--AATTATAAA
**
21942375 AAATTATTGA
1 AAATTATAAA
21942385 AAATTAT--A
1 AAATTATAAA
* *
21942393 AAATGAT-TA
1 AAATTATAAA
* *
21942402 AAAGTATTAA
1 AAATTATAAA
21942412 AAATTAATAAA
1 AAATT-ATAAA
21942423 AAATTAT-AA
1 AAATTATAAA
21942432 AAATTATAAACA
1 AAATTAT-AA-A
*
21942444 AAATCATAAA
1 AAATTATAAA
21942454 AAAT
1 AAAT
21942458 GAATTGGACC
Statistics
Matches: 120, Mismatches: 15, Indels: 30
0.73 0.09 0.18
Matches are distributed among these distances:
8 7 0.06
9 16 0.13
10 54 0.45
11 16 0.13
12 14 0.12
13 5 0.04
14 8 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
AAATTATAAA
Found at i:21942439 original size:9 final size:9
Alignment explanation
Indices: 21942209--21942441 Score: 89
Period size: 9 Copynumber: 24.0 Consensus size: 9
21942199 ATAAAAAATT
*
21942209 AATTATTAA
1 AATTATAAA
* *
21942218 AATTGTTAA
1 AATTATAAA
*
21942227 AATTGATATA
1 AATT-ATAAA
21942237 AATT-TATAA
1 AATTATA-AA
21942246 AATTAT-AA
1 AATTATAAA
*
21942254 AATAATAATA
1 AATTATAA-A
*
21942264 ACTTATAAA
1 AATTATAAA
*
21942273 TATTATAAA
1 AATTATAAA
*
21942282 AATAATAAA
1 AATTATAAA
21942291 AATTAGT--A
1 AATTA-TAAA
*
21942299 AATTTTAATA
1 AATTATAA-A
21942309 AATTATAAAA
1 AATTAT-AAA
21942319 AATTATAAAA
1 AATTAT-AAA
21942329 TTAATTTTATAAA
1 --AA--TTATAAA
*
21942342 AACATATAAAA
1 AA-TTAT-AAA
*
21942353 AATTTTAAAAA
1 AA--TTATAAA
*
21942364 CGAATCATAAAA
1 --AATTAT-AAA
*
21942376 AATTATTGAA
1 AATTA-TAAA
21942386 AATTAT-AA
1 AATTATAAA
* *
21942394 AATGATTAA
1 AATTATAAA
*
21942403 AAGTATTAAA
1 AATTA-TAAA
21942413 AATTAATAAAA
1 AATT-AT-AAA
21942424 AATTATAAA
1 AATTATAAA
21942433 AATTATAAA
1 AATTATAAA
21942442 CAAAATCATA
Statistics
Matches: 171, Mismatches: 29, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 21 0.12
9 55 0.32
10 55 0.32
11 23 0.13
12 7 0.04
13 5 0.03
14 4 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:21949081 original size:25 final size:23
Alignment explanation
Indices: 21949037--21949083 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21949027 ATTATATATT
*
21949037 AAATATATATTTTATTTTTAATC
1 AAATATATATTTTATATTTAATC
21949060 AAATATATATTATATATATTTAAT
1 AAATATATATT-T-TATATTTAAT
21949084 TTGGGCCGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 1 0.05
25 9 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATATATTTTATATTTAATC
Found at i:21949599 original size:22 final size:22
Alignment explanation
Indices: 21949573--21949621 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
21949563 ATATCTAAAC
21949573 AATAACAGTAAAATAGTAGCAA
1 AATAACAGTAAAATAGTAGCAA
* * *
21949595 CATAATAGTGAAATAGTAGCAA
1 AATAACAGTAAAATAGTAGCAA
21949617 AATAA
1 AATAA
21949622 GAAGAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.20
Consensus pattern (22 bp):
AATAACAGTAAAATAGTAGCAA
Found at i:21951039 original size:16 final size:16
Alignment explanation
Indices: 21951017--21951063 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
21951007 CACTGGAATA
21951017 GAATAGAGTTGTAATG
1 GAATAGAGTTGTAATG
* *
21951033 TAATAGAGATGTAATG
1 GAATAGAGTTGTAATG
21951049 GAATA-ACGTTGTAAT
1 GAATAGA-GTTGTAAT
21951064 CAGTAATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 1 0.04
16 25 0.96
ACGTcount: A:0.40, C:0.02, G:0.26, T:0.32
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:21951703 original size:3 final size:3
Alignment explanation
Indices: 21951695--21951723 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21951685 TCTGACTCCA
21951695 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21951724 AAATTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21955450 original size:6 final size:6
Alignment explanation
Indices: 21955439--21955466 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21955429 TGTCAAAGAT
21955439 ATATAC ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATAT
21955467 TTGGTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAC
Found at i:21957447 original size:7 final size:7
Alignment explanation
Indices: 21957435--21957461 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21957425 AACAAAATGC
21957435 ATTTTAT
1 ATTTTAT
21957442 ATTTTAT
1 ATTTTAT
21957449 ATTTTAT
1 ATTTTAT
21957456 ATTTTA
1 ATTTTA
21957462 AAAATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:21959758 original size:18 final size:18
Alignment explanation
Indices: 21959735--21959769 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21959725 ACTCTGTAAT
21959735 TAGTTTAAATTTAATTTC
1 TAGTTTAAATTTAATTTC
21959753 TAGTTTAAATTTAATTT
1 TAGTTTAAATTTAATTT
21959770 TTAAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TAGTTTAAATTTAATTTC
Found at i:21959800 original size:23 final size:23
Alignment explanation
Indices: 21959774--21959848 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
21959764 TAATTTTTAA
*
21959774 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* * *
21959797 ATTTAGGATTGTTTAGCGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
21959820 ATTTAGTATTTTTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
21959843 ATTTAG
1 ATTTAG
21959849 GAAAAATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:21959801 original size:13 final size:13
Alignment explanation
Indices: 21959783--21959848 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
21959773 AATTTTGAAT
21959783 TATTTAGTGATAA
1 TATTTAGTGATAA
21959796 TATTTAG-GAT--
1 TATTTAGTGATAA
* *
21959806 TGTTTAGCGATAA
1 TATTTAGTGATAA
21959819 TATTTAGT-AT--
1 TATTTAGTGATAA
*
21959829 TTTTTAGTGATAA
1 TATTTAGTGATAA
21959842 TATTTAG
1 TATTTAG
21959849 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 5 0.12
13 19 0.45
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:21961732 original size:113 final size:111
Alignment explanation
Indices: 21961586--21961969 Score: 289
Period size: 113 Copynumber: 3.4 Consensus size: 111
21961576 AAGTGGCATT
* * * *
21961586 TTTTTATAAAAACGCCGCT-AAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCACATATC
1 TTTTTAAAAAAACGCCG-TAAAAGAACAGTATTAGCGGCGTTTATCAAAAAGCGCCGCAAATATC
21961650 TTACGGAAAACGCACTGTTTTATCTTGAGGTAGATTAATATTAGTGGCG
65 TTAC-GAAAACGCACTGTTTT-TCTTGAGGTAGATTAATATTAGTGGCG
* **** * * *
21961699 TTTTTAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGGATGCGCCACAAAATAC
1 TTTTTAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTATCAAAAAGCGCCGC-AAATAT
* * ** * *
21961763 CTTAACCAAAACGCAAC-GTTTGGTTC-AGTTGTATATTAGACATT-GTGGCG
64 CTT-ACGAAAACGC-ACTGTTT--TTCTTGAGGTAGATTA-ATATTAGTGGCG
* * * * * ** *
21961813 TTTTCT-ATAAAACGCCGCAGAAGAATAGTATTCGCGGCGTTT-TCGGTAAAGCGCCGCAAATCT
1 TTTT-TAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGTTTATC-AAAAAGCGCCGCAAATAT
* * * *
21961876 CTTAATGCAAACGCACTGTTTCGTCTTGAGGTAGATTAGTATTAGTGGCG
64 CTT-ACGAAAACGCACTGTTT-TTCTTGAGGTAGATTAATATTAGTGGCG
* *
21961926 TTTTTAAAAAAACACCGTAAAAGAACA-TAATTAGTGGCGTTTAT
1 TTTTTAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTAT
21961970 TTTTATTCGC
Statistics
Matches: 204, Mismatches: 50, Indels: 33
0.71 0.17 0.11
Matches are distributed among these distances:
112 11 0.05
113 108 0.53
114 72 0.35
115 12 0.06
116 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (111 bp):
TTTTTAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGTTTATCAAAAAGCGCCGCAAATATCT
TACGAAAACGCACTGTTTTTCTTGAGGTAGATTAATATTAGTGGCG
Found at i:21961866 original size:227 final size:225
Alignment explanation
Indices: 21961464--21962060 Score: 831
Period size: 227 Copynumber: 2.6 Consensus size: 225
21961454 CCTGAAGAAC
* *
21961464 TAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
* * * *
21961528 AAAATACCTTAACCAAAACGCAGCG-TTGGTTCAATTGTATATTAGAATAAGTGGCATTTTTTTA
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAAT-TGTGGC-GTTTTCTA
* *
21961592 TAAAAACGCCGCTAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCACATATCTTACGGA
129 T-AAAACGCCGC-AAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGA
*
21961657 AAACGCACTGTTTTATCTTGAGGTAGATTAATAT
192 AAACGCACTGTTTCATCTTGAGGTAGATTAATAT
* * *
21961691 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATGCGCCAC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
*
21961756 AAAATACCTTAACCAAAACGCAACGTTTGGTTCAGTTGTATATTAGACATTGTGGCGTTTTCTAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGA-ATTGTGGCGTTTTCTAT
* * ** * * *
21961821 AAAACGCCGCAGAAGAATAGTATTCGCGGCGTTT-TCGGTAAAGCGCCGCAAATCTCTTAATGCA
130 AAAACGCCGCA-AAGAATAGTATTAGCGGCGTTTAAC-AAAAAGCGCCGCAAATATCTTAAGGAA
* *
21961885 AACGCACTGTTTCGTCTTGAGGTAGATTAGTAT
193 AACGCACTGTTTCATCTTGAGGTAGATTAATAT
* *
21961918 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTCGCCGC
1 TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
** ** * *
21961983 AAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAATT-GTGGCGTTTTCTAT
21962048 AAAACGCCGCAAA
130 AAAACGCCGCAAA
21962061 CATCTTAACG
Statistics
Matches: 330, Mismatches: 34, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
226 7 0.02
227 255 0.77
228 41 0.12
229 25 0.08
230 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (225 bp):
TAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGTATGCGCCGC
AAAATACCTTAACCAAAACGCAGCGTTTGGTTCAGTTGTATATTAGAATTGTGGCGTTTTCTATA
AAACGCCGCAAAGAATAGTATTAGCGGCGTTTAACAAAAAGCGCCGCAAATATCTTAAGGAAAAC
GCACTGTTTCATCTTGAGGTAGATTAATAT
Found at i:21962040 original size:114 final size:113
Alignment explanation
Indices: 21961459--21962042 Score: 469
Period size: 114 Copynumber: 5.1 Consensus size: 113
21961449 TAAAACCTGA
* * * *
21961459 AGAACTAGTGGCGTTTCTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTA-TTGTAAGC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
** *
21961523 GCCGCAAAATACCTTAACCAAAACGCAGCG-TTGG-TTCAATTGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCA-CGTTTGGTTTTGA-GGTATATT
* * * * * ****
21961571 AGAATAAGTGGCATTTTTTTATAAAAACGCCGCT-AAAGAATAGT-ATTAGCGGCGTTTAACAAA
1 AGAATTAGTGGC--GTTTTTAAAAAAACGCCG-TAAAAGAACA-TAATTAGTGGCGTTTATTTGA
* * * ** * *
21961634 AAGCGCCGC-ACATATCTT-ACGGAAAACGCACTGTTTTATCTTGAGGTAGATT
62 AAGCGCCGCAAAATACCTTAAC-CAAAACGCAC-GTTTGGTTTTGAGGTATATT
* *
21961686 A-ATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGATG
1 AGA-ATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAG
* ** **
21961750 CGCCACAAAATACCTTAACCAAAACGCAACGTTTGGTTCAGTTGTATATT
65 CGCCGCAAAATACCTTAACCAAAACGC-ACGTTTGGTTTTGAGGTATATT
* * * * * * **
21961800 AGACATT-GTGGCGTTTTCT-ATAAAACGCCGCAGAAGAATAGT-ATTCGCGGCGTTT-TCGGTA
1 AGA-ATTAGTGGCGTTTT-TAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTG-A
* * * *
21961861 AAGCGCCGC-AAAT-CTCTTAATGC-AAACGCACTGTTTCGTCTTGAGGTAGATT
62 AAGCGCCGCAAAATAC-CTTAA-CCAAAACGCAC-GTTTGGTTTTGAGGTATATT
* * ** **
21961913 AGTATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTC
1 AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
21961978 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATT
66 GCCGCAAAATACCTTAACCAAAACGCA-CGTTTGGTTTTGAGGTATATT
21962027 AGAATTAGTGGCGTTT
1 AGAATTAGTGGCGTTT
21962043 ACGATAAAAC
Statistics
Matches: 358, Mismatches: 84, Indels: 58
0.72 0.17 0.12
Matches are distributed among these distances:
112 20 0.06
113 123 0.34
114 173 0.48
115 40 0.11
116 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (113 bp):
AGAATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGAAAGC
GCCGCAAAATACCTTAACCAAAACGCACGTTTGGTTTTGAGGTATATT
Found at i:21962093 original size:74 final size:74
Alignment explanation
Indices: 21961977--21962116 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 74
21961967 TATTTTTATT
* * *
21961977 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA-ATTAGTGGCGT
1 CGCCGCAAAATA-CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
21962041 TTACGATAAAA
64 TTACGATAAAA
*
21962052 CGCCGCAAACAT-CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
1 CGCCGCAAA-ATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
21962116 T
65 T
21962117 TTAAAAAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
73 1 0.02
74 47 0.80
75 9 0.15
76 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (74 bp):
CGCCGCAAAATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
ACGATAAAA
Found at i:21962101 original size:188 final size:188
Alignment explanation
Indices: 21961848--21962242 Score: 621
Period size: 188 Copynumber: 2.1 Consensus size: 188
21961838 TAGTATTCGC
* * * * *
21961848 GGCGTTTTCGGTAAAGCGCCGCAAATCTCTTAATGCAAACGCACTGTTTCGTCTTGAGGTAGATT
1 GGCGTTTACGGTAAAACGCCGCAAATCTCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
* ** **
21961913 AGTATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTTTATTC
66 AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
21961978 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
131 GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
* *
21962036 GGCGTTTACGATAAAACGCCGCAAA-CATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGAT
1 GGCGTTTACGGTAAAACGCCGCAAATC-TCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGAT
*
21962100 TAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAG
65 TAATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAG
* * *
21962165 CGCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGAATTAGT
130 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
*
21962224 GGCGTTTATGGTAAAACGC
1 GGCGTTTACGGTAAAACGC
21962243 TGCTAAAGAA
Statistics
Matches: 188, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
187 1 0.01
188 187 0.99
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (188 bp):
GGCGTTTACGGTAAAACGCCGCAAATCTCTTAACGAAAACGCACCGTTTCGTCTTGAGGTAGATT
AATATTAGTGGCGTTTTTAAAAAAACACCGTAAAAGAACATAATTAGTGGCGTTTATTTGGAAGC
GCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGT
Found at i:21962126 original size:74 final size:74
Alignment explanation
Indices: 21961977--21962135 Score: 196
Period size: 74 Copynumber: 2.1 Consensus size: 74
21961967 TATTTTTATT
* * *
21961977 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATA-CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
* *
21962042 TACGATAAAA
65 TACAAAAAAA
*
21962052 CGCCGCAAACAT-CTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
1 CGCCGCAAA-ATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGT
**
21962115 TTTTAAAAAAA
64 TTACAAAAAAA
*
21962126 CGCCGTAAAA
1 CGCCGCAAAA
21962136 GAACATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
73 2 0.03
74 60 0.82
75 9 0.12
76 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (74 bp):
CGCCGCAAAATACTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTTT
ACAAAAAAA
Found at i:21962251 original size:114 final size:113
Alignment explanation
Indices: 21962052--21962269 Score: 246
Period size: 114 Copynumber: 1.9 Consensus size: 113
21962042 TACGATAAAA
*
21962052 CGCCGCAAACATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
1 CGCCGCAAACATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
* *
21962117 TTAAAAAAACGCCGTAAAAGAACA-TAATTAGTGGCGTTTATTTGGAAG
66 ATAAAAAAACGCCGTAAAAGAACAGT-ATTAGCGGCGTTTATTTGGAAG
** * * *
21962165 CGCCGCAAA-ATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA-ATTAGTGGCG
1 CGCCGCAAACAT--CTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCG
*** * *
21962228 TTTATGGTAAAACGCTGCT-AAAGAATAGTATTAGCGGCGTTT
63 TTTATAAAAAAACGCCG-TAAAAGAACAGTATTAGCGGCGTTT
21962270 TCGGTAAAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
112 2 0.02
113 9 0.10
114 73 0.84
115 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (113 bp):
CGCCGCAAACATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTTT
ATAAAAAAACGCCGTAAAAGAACAGTATTAGCGGCGTTTATTTGGAAG
Found at i:21962664 original size:7 final size:7
Alignment explanation
Indices: 21962654--21962692 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
21962644 GGTTTATGGA
21962654 TTAGGGG
1 TTAGGGG
21962661 TTAGGGG
1 TTAGGGG
*
21962668 TTATGGG
1 TTAGGGG
21962675 TTAGGGG
1 TTAGGGG
21962682 TTAGGGG
1 TTAGGGG
21962689 TTAG
1 TTAG
21962693 ATGTTAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:21962698 original size:21 final size:21
Alignment explanation
Indices: 21962647--21962691 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
21962637 GATTTAAGGT
*
21962647 TTATGGATTAGGGGTTAGGGG
1 TTATGGGTTAGGGGTTAGGGG
21962668 TTATGGGTTAGGGGTTAGGGG
1 TTATGGGTTAGGGGTTAGGGG
21962689 TTA
1 TTA
21962692 GATGTTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.36
Consensus pattern (21 bp):
TTATGGGTTAGGGGTTAGGGG
Found at i:21962763 original size:7 final size:7
Alignment explanation
Indices: 21962751--21962847 Score: 88
Period size: 7 Copynumber: 13.9 Consensus size: 7
21962741 TAAATAAGTT
21962751 TTAGGGG
1 TTAGGGG
21962758 TTAGGGG
1 TTAGGGG
* *
21962765 TTAGAGA
1 TTAGGGG
* *
21962772 TCATGGG
1 TTAGGGG
*
21962779 TTAAGGGT
1 TT-AGGGG
21962787 TTA-GGG
1 TTAGGGG
*
21962793 TTAAGGG
1 TTAGGGG
*
21962800 TTAAGGG
1 TTAGGGG
*
21962807 TTAAGGG
1 TTAGGGG
*
21962814 TTAGGAG
1 TTAGGGG
*
21962821 TTAAGGG
1 TTAGGGG
21962828 TTAGGGG
1 TTAGGGG
21962835 TTAGGGG
1 TTAGGGG
21962842 TTAGGG
1 TTAGGG
21962848 ATTGGGTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
6 5 0.07
7 63 0.86
8 5 0.07
ACGTcount: A:0.23, C:0.01, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:21962793 original size:14 final size:13
Alignment explanation
Indices: 21962776--21962847 Score: 99
Period size: 14 Copynumber: 5.2 Consensus size: 13
21962766 TAGAGATCAT
21962776 GGGTTAAGGGTTTA
1 GGGTTAAGGG-TTA
21962790 GGGTTAAGGGTTAA
1 GGGTTAAGGGTT-A
21962804 GGGTTAAGGGTTA
1 GGGTTAAGGGTTA
21962817 GGAGTTAAGGGTTA
1 GG-GTTAAGGGTTA
*
21962831 GGGGTTAGGGGTTA
1 -GGGTTAAGGGTTA
21962845 GGG
1 GGG
21962848 ATTGGGTTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
13 8 0.15
14 44 0.81
15 2 0.04
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (13 bp):
GGGTTAAGGGTTA
Found at i:21962800 original size:21 final size:21
Alignment explanation
Indices: 21962776--21962871 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
21962766 TAGAGATCAT
21962776 GGGTTAAGGGTTTAGGGTTAA
1 GGGTTAAGGGTTTAGGGTTAA
*
21962797 GGGTTAAGGGTTAAGGGTT-A
1 GGGTTAAGGGTTTAGGGTTAA
*
21962817 GGAGTTAAGGG-TTAGGGGTTAG
1 GG-GTTAAGGGTTTA-GGGTTAA
* *
21962839 GGGTT-AGGGATT-GGGTTAT
1 GGGTTAAGGGTTTAGGGTTAA
*
21962858 GGTTTAA-GGTTTAG
1 GGGTTAAGGGTTTAG
21962872 ATTAATTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
19 14 0.22
20 11 0.17
21 36 0.57
22 2 0.03
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (21 bp):
GGGTTAAGGGTTTAGGGTTAA
Found at i:21963005 original size:95 final size:96
Alignment explanation
Indices: 21962814--21963002 Score: 220
Period size: 95 Copynumber: 2.0 Consensus size: 96
21962804 GGGTTAAGGG
* * * *
21962814 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATTGGGTTATGGTTTAAGGTTTAGATTAATT
1 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
* * * * *
21962879 AGTGTTTTTTATTTTATATATTAAATAAAGT
66 AGTCTTATTTAATTAACATATTAAATAAAGT
* * * * *
21962910 TTAGGGGTTAGGGGTTA-GGGTTATGGGTT-TGGAGTCGGGTTAGGGATTAAGATTTGGATTAAT
1 TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGA-TCGGGTTAGGGATTAAGATTTAGATTAAT
21962973 TAGTACTTATTTAATTAACATATTAAATAA
65 TAGT-CTTATTTAATTAACATATTAAATAA
21963003 GTTCTTTATA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 3 0.04
95 39 0.51
96 35 0.45
ACGTcount: A:0.28, C:0.02, G:0.29, T:0.41
Consensus pattern (96 bp):
TTAGGAGTTAAGGGTTAGGGGTTAGGGGTTAGGGATCGGGTTAGGGATTAAGATTTAGATTAATT
AGTCTTATTTAATTAACATATTAAATAAAGT
Found at i:21965070 original size:43 final size:43
Alignment explanation
Indices: 21965021--21965107 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
21965011 GTCGCCTTGG
21965021 GAAAGAGACTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
1 GAAAGAGACTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
*
21965064 GAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
1 GAAAGAGACTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
21965107 G
1 G
21965108 GTCCGGATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.31, T:0.15
Consensus pattern (43 bp):
GAAAGAGACTACTAGATTGCCAAGACGAGAAGACGGAGTTGAA
Found at i:21974354 original size:44 final size:44
Alignment explanation
Indices: 21974296--21974436 Score: 160
Period size: 44 Copynumber: 3.2 Consensus size: 44
21974286 AAGGAATTTC
*
21974296 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
* * *
21974340 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
** * * * * *
21974383 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATAAG
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGA-CAG
21974427 AGATCTTATC
1 AGATCTTATC
21974437 AGCGGAGCAG
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
42 3 0.04
43 29 0.37
44 46 0.59
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGACAG
Found at i:21974483 original size:74 final size:74
Alignment explanation
Indices: 21974362--21975309 Score: 1878
Period size: 74 Copynumber: 12.8 Consensus size: 74
21974352 CCTGAGATTA
21974362 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974427 AGATCTTAT
66 AGATCTTAT
21974436 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974501 AGATCTTAT
66 AGATCTTAT
21974510 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974575 AGATCTTAT
66 AGATCTTAT
21974584 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974649 AGATCTTAT
66 AGATCTTAT
21974658 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974723 AGATCTTAT
66 AGATCTTAT
21974732 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974797 AGATCTTAT
66 AGATCTTAT
21974806 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974871 AGATCTTAT
66 AGATCTTAT
21974880 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21974945 AGATCTTAT
66 AGATCTTAT
21974954 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21975019 AGATCTTAT
66 AGATCTTAT
21975028 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21975093 AGATCTTAT
66 AGATCTTAT
21975102 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21975167 AGATCTTAT
66 AGATCTTAT
21975176 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21975241 AGATCTTAT
66 AGATCTTAT
* *
21975250 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACGGTGGAGTGGATTAAA
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
21975310 GGATCTTATC
Statistics
Matches: 872, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 872 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (74 bp):
CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
AGATCTTAT
Found at i:21976861 original size:26 final size:23
Alignment explanation
Indices: 21976797--21976861 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
21976787 ATATTTCTTT
*
21976797 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
21976819 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
21976847 TATATATACATATAC
1 TATATATACATATAC
21976862 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:21977285 original size:5 final size:5
Alignment explanation
Indices: 21977271--21977301 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
21977261 ACATAAGTGC
21977271 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
21977302 GTTTCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:21980465 original size:43 final size:43
Alignment explanation
Indices: 21980416--21980504 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
21980406 GAAAGAGGCT
*
21980416 ACTAGATTGTCAAGACGAGAAGACGGAGTTGAAGGTCCGGATA
1 ACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATA
21980459 ACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATA
1 ACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATA
21980502 ACT
1 ACT
21980505 GAACTAGAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (43 bp):
ACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATA
Found at i:21989516 original size:46 final size:44
Alignment explanation
Indices: 21989449--21989777 Score: 211
Period size: 46 Copynumber: 7.6 Consensus size: 44
21989439 ATTATACAGG
*
21989449 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * *
21989495 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
21989539 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
21989578 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC-ACG--TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
21989619 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
21989665 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
21989709 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
21989752 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
21989778 GCGGATTAAA
Statistics
Matches: 224, Mismatches: 43, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
38 3 0.01
39 23 0.10
40 1 0.00
41 28 0.12
42 7 0.03
43 24 0.11
44 68 0.30
45 1 0.00
46 69 0.31
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:21989729 original size:44 final size:43
Alignment explanation
Indices: 21989449--21989802 Score: 199
Period size: 44 Copynumber: 8.2 Consensus size: 43
21989439 ATTATACAGG
* ** * *
21989449 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA---GAGA
* * * *
21989495 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAG--A
* * * *
21989539 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAGA
* * * * *
21989578 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACGTCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAG-CAGAGA
* ** * *
21989619 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCA---GAGA
* *
21989665 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* ** **
21989709 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG-CAGAGA
* * **
21989752 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-AAAGCAGAGA
21989796 TCTTATC
1 TCTTATC
21989803 AGCGGAGCAG
Statistics
Matches: 237, Mismatches: 52, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
38 2 0.01
39 24 0.10
41 27 0.11
42 10 0.04
43 29 0.12
44 77 0.32
45 6 0.03
46 61 0.26
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCAGAGA
Found at i:21989759 original size:87 final size:88
Alignment explanation
Indices: 21989449--21989802 Score: 239
Period size: 87 Copynumber: 4.1 Consensus size: 88
21989439 ATTATACAGG
* *
21989449 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTG-AGATT
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAA--TCAGATCCTATCTCCCTGAAG-TT
* * * *
21989513 ACAGCGGAGCAGATCAAGGA-TAGTA-A
63 ACAGTGGAGCAGATTAA-AACAAG-AGA
* * ** * * ** * *
21989539 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GATCTTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCAGATCCTATCTCCCTGAAGTTACA
* * * ***
21989599 GTAGAGAAGATCACGTC-AG-G-
66 GTGGAGCAGATTAAAACAAGAGA
* * *
21989619 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAA--TCAGATCCTATCTCCCTGAAGTTA
* * *
21989684 CAGTGGAGCAGATTGAAGCCAGAGA
64 CAGTGGAGCAGATTAAAACAAGAGA
* * * *
21989709 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCA-GATCCTATCTCCCTGAAGTTAC
* *
21989772 AGTGGAGCGGATTAAAATAAGAGA
65 AGTGGAGCAGATTAAAACAAGAGA
21989796 TCTTATC
1 TCTTATC
21989803 AGCGGAGCAG
Statistics
Matches: 209, Mismatches: 41, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
80 30 0.14
82 3 0.01
83 29 0.14
84 2 0.01
86 2 0.01
87 76 0.36
88 2 0.01
89 2 0.01
90 63 0.30
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATCAGATCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAACAAGAGA
Found at i:21989849 original size:74 final size:74
Alignment explanation
Indices: 21989728--21990601 Score: 1739
Period size: 74 Copynumber: 11.8 Consensus size: 74
21989718 CCTGAGATTA
21989728 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21989793 AGATCTTAT
66 AGATCTTAT
21989802 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21989867 AGATCTTAT
66 AGATCTTAT
21989876 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21989941 AGATCTTAT
66 AGATCTTAT
21989950 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990015 AGATCTTAT
66 AGATCTTAT
21990024 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990089 AGATCTTAT
66 AGATCTTAT
21990098 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990163 AGATCTTAT
66 AGATCTTAT
21990172 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990237 AGATCTTAT
66 AGATCTTAT
21990246 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990311 AGATCTTAT
66 AGATCTTAT
21990320 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990385 AGATCTTAT
66 AGATCTTAT
21990394 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990459 AGATCTTAT
66 AGATCTTAT
21990468 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
21990533 AGATCTTAT
66 AGATCTTAT
*
21990542 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACGGTGGAGCGGATTAAA
1 CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
21990602 GGATCTTATC
Statistics
Matches: 799, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 799 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (74 bp):
CAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAG
AGATCTTAT
Found at i:21996931 original size:17 final size:17
Alignment explanation
Indices: 21996909--21996942 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21996899 TTTATAATAC
*
21996909 TTTATATTATGTTATTT
1 TTTATATTATGTAATTT
21996926 TTTATATTATGTAATTT
1 TTTATATTATGTAATTT
21996943 ATAACACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTATATTATGTAATTT
Found at i:22002316 original size:9 final size:9
Alignment explanation
Indices: 22002302--22002344 Score: 68
Period size: 9 Copynumber: 4.6 Consensus size: 9
22002292 TATCTGAAGA
22002302 AAAAAATAT
1 AAAAAATAT
22002311 AAAAAATTAT
1 AAAAAA-TAT
22002321 AAAAAAATAT
1 -AAAAAATAT
22002331 AAAAAATAT
1 AAAAAATAT
22002340 AAAAA
1 AAAAA
22002345 GCGGAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 20 0.62
10 6 0.19
11 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:22002316 original size:10 final size:10
Alignment explanation
Indices: 22002301--22002344 Score: 72
Period size: 10 Copynumber: 4.5 Consensus size: 10
22002291 TTATCTGAAG
22002301 AAAAAAATAT
1 AAAAAAATAT
*
22002311 AAAAAATTAT
1 AAAAAAATAT
22002321 AAAAAAATAT
1 AAAAAAATAT
22002331 -AAAAAATAT
1 AAAAAAATAT
22002340 AAAAA
1 AAAAA
22002345 GCGGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:22012664 original size:22 final size:23
Alignment explanation
Indices: 22012638--22012761 Score: 101
Period size: 25 Copynumber: 5.2 Consensus size: 23
22012628 TAATGAACAT
* *
22012638 AGAGCACTAAAGTGCTATA-CAG
1 AGAGCACCAACGTGCTATATCAG
* *
22012660 AGAGCA-CATATGTGCTA-AACAG
1 AGAGCACCA-ACGTGCTATATCAG
** *
22012682 AGAGCACTGACGTGCTAAATATTAG
1 AGAGCACCAACGTGCT--ATATCAG
22012707 AGAGCACCAACGTGCTAATAATCAG
1 AGAGCACCAACGTGCT-AT-ATCAG
22012732 AGAGCACCAACGTGCTAATAATCAG
1 AGAGCACCAACGTGCT-AT-ATCAG
22012757 AGAGC
1 AGAGC
22012762 GCGCTAAAGT
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
21 2 0.02
22 28 0.33
24 4 0.05
25 51 0.60
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.18
Consensus pattern (23 bp):
AGAGCACCAACGTGCTATATCAG
Found at i:22012712 original size:25 final size:26
Alignment explanation
Indices: 22012679--22012761 Score: 118
Period size: 25 Copynumber: 3.3 Consensus size: 26
22012669 ATGTGCTAAA
**
22012679 CAGAGAGCACTGACGTGCTAAAT-AT
1 CAGAGAGCACCAACGTGCTAAATAAT
*
22012704 TAGAGAGCACCAACGTGCT-AATAAT
1 CAGAGAGCACCAACGTGCTAAATAAT
22012729 CAGAGAGCACCAACGTGCT-AATAAT
1 CAGAGAGCACCAACGTGCTAAATAAT
22012754 CAGAGAGC
1 CAGAGAGC
22012762 GCGCTAAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 3 0.06
25 50 0.94
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGAGAGCACCAACGTGCTAAATAAT
Found at i:22013134 original size:13 final size:14
Alignment explanation
Indices: 22013108--22013136 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22013098 TAATATAGGC
22013108 ATTTAAATAAAATA
1 ATTTAAATAAAATA
22013122 ATTTAAA-AAAATA
1 ATTTAAATAAAATA
22013135 AT
1 AT
22013137 CTTGTAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTAAATAAAATA
Found at i:22013808 original size:11 final size:11
Alignment explanation
Indices: 22013792--22013829 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
22013782 TCTTTCTTTC
*
22013792 TTTCTCCCCTG
1 TTTCTCCTCTG
22013803 TTTCTCCTCTG
1 TTTCTCCTCTG
22013814 TTTCTCCTCTG
1 TTTCTCCTCTG
22013825 TTTCT
1 TTTCT
22013830 TTATTCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.00, C:0.37, G:0.08, T:0.55
Consensus pattern (11 bp):
TTTCTCCTCTG
Found at i:22013885 original size:10 final size:10
Alignment explanation
Indices: 22013863--22013899 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
22013853 GTTTTTTTTA
22013863 TATATAATA-
1 TATATAATAT
22013872 -ATATAATAT
1 TATATAATAT
*
22013881 TATATTATAT
1 TATATAATAT
22013891 TATATAATA
1 TATATAATA
22013900 AAATAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATATAATAT
Found at i:22016249 original size:18 final size:17
Alignment explanation
Indices: 22016222--22016255 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22016212 AGTTGATGAA
22016222 TTGAATTAATGTGTATT
1 TTGAATTAATGTGTATT
*
22016239 TTGATATTAATTTGTAT
1 TTGA-ATTAATGTGTAT
22016256 ATAATTGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (17 bp):
TTGAATTAATGTGTATT
Found at i:22022372 original size:19 final size:17
Alignment explanation
Indices: 22022348--22022391 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
22022338 TTGAATTGTA
*
22022348 AATTTAAAGATTAAATATT
1 AATTTAAA-ATAAAATA-T
22022367 AATTTAAAATAAAATAT
1 AATTTAAAATAAAATAT
22022384 AA-TTAAAA
1 AATTTAAAA
22022392 CACATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 6 0.25
17 3 0.12
18 7 0.29
19 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AATTTAAAATAAAATAT
Found at i:22036096 original size:20 final size:21
Alignment explanation
Indices: 22036062--22036121 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
22036052 ATAATAATTC
*
22036062 TAAAAATTCT-TAAAAATAAA
1 TAAAAATTATGTAAAAATAAA
* *
22036082 TATAAATTATG-AAAAAT-AT
1 TAAAAATTATGTAAAAATAAA
*
22036101 TAAAAATTATGTTAAAATAAA
1 TAAAAATTATGTAAAAATAAA
22036122 ATCAAATCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
19 11 0.35
20 19 0.61
21 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (21 bp):
TAAAAATTATGTAAAAATAAA
Found at i:22037510 original size:12 final size:13
Alignment explanation
Indices: 22037491--22037528 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
22037481 CAATTTTATA
22037491 TATTTATATATTC
1 TATTTATATATTC
*
22037504 T-TTTATAAATTTC
1 TATTTATATA-TTC
22037517 TATTTATATATT
1 TATTTATATATT
22037529 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 7 0.33
13 7 0.33
14 7 0.33
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATATATTC
Found at i:22037524 original size:14 final size:14
Alignment explanation
Indices: 22037491--22037529 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
22037481 CAATTTTATA
22037491 TATTTATATA-TTC
1 TATTTATATATTTC
*
22037504 T-TTTATAAATTTC
1 TATTTATATATTTC
22037517 TATTTATATATTT
1 TATTTATATATTT
22037530 TTAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 5 0.23
14 10 0.45
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTATATATTTC
Found at i:22053329 original size:11 final size:11
Alignment explanation
Indices: 22053304--22053338 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
22053294 ACAAATCCTT
*
22053304 TCTCAAATTTTC
1 TCTC-AATTTCC
22053316 TCTCAATTTCC
1 TCTCAATTTCC
22053327 TCTCAATTTCC
1 TCTCAATTTCC
22053338 T
1 T
22053339 TCCAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.49
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:22053331 original size:23 final size:23
Alignment explanation
Indices: 22053304--22053357 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
22053294 ACAAATCCTT
*
22053304 TCTCAAATTTTC-TCTC-AATTTCC
1 TCTCAAATTTCCTTC-CAAATTT-C
22053327 TCTC-AATTTCCTTCCAAATTTC
1 TCTCAAATTTCCTTCCAAATTTC
22053349 TCTCAAATT
1 TCTCAAATT
22053358 CATATTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (23 bp):
TCTCAAATTTCCTTCCAAATTTC
Found at i:22053355 original size:11 final size:11
Alignment explanation
Indices: 22053304--22053357 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
22053294 ACAAATCCTT
22053304 TCTCAAATTTTC
1 TCTCAAA-TTTC
22053316 TCTC-AATTTCC
1 TCTCAAATTT-C
22053327 TCTC-AATTTC
1 TCTCAAATTTC
22053337 -CTTCCAAATTTC
1 TC-T-CAAATTTC
22053349 TCTCAAATT
1 TCTCAAATT
22053358 CATATTTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 19 0.51
12 11 0.30
13 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:22053372 original size:40 final size:40
Alignment explanation
Indices: 22053327--22053404 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
22053317 CTCAATTTCC
22053327 TCTCAATTTCCTTCCAAATTTCTCTCAAAT-TCATATTTAA
1 TCTCAATTTCCTTCCAAATTTCTCTCAAATCTC-TATTTAA
** *
22053367 TCTCAATTTCCTTTTAAATTTCTCTTAAATCTCTATTT
1 TCTCAATTTCCTTCCAAATTTCTCTCAAATCTCTATTT
22053405 TTAAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (40 bp):
TCTCAATTTCCTTCCAAATTTCTCTCAAATCTCTATTTAA
Found at i:22059577 original size:8 final size:8
Alignment explanation
Indices: 22059557--22059592 Score: 58
Period size: 7 Copynumber: 4.8 Consensus size: 8
22059547 ATGTATTTAA
22059557 TTATAAA-
1 TTATAAAT
22059564 TTATAAAT
1 TTATAAAT
22059572 TTATAAAT
1 TTATAAAT
22059580 TTAT-AAT
1 TTATAAAT
22059587 TTATAA
1 TTATAA
22059593 TTAAATGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTATAAAT
Found at i:22059577 original size:15 final size:15
Alignment explanation
Indices: 22059557--22059592 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
22059547 ATGTATTTAA
22059557 TTATAAA-TTATAAAT
1 TTATAAATTTAT-AAT
22059572 TTATAAATTTATAAT
1 TTATAAATTTATAAT
22059587 TTATAA
1 TTATAA
22059593 TTAAATGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAAATTTATAAT
Found at i:22059729 original size:44 final size:44
Alignment explanation
Indices: 22059656--22059970 Score: 221
Period size: 44 Copynumber: 7.2 Consensus size: 44
22059646 CCCTAATCCT
* * *
22059656 AACCCTTAACTTAAAAACTC-T-AACCCTTAAATTAAAAACGCTA
1 AACCCTAAACCTAAAAAC-CATAAACCCTTAAATTAAAAACACTA
* * **
22059699 AATCATAAACCTAAAAACCATAAACCCTTAAGCTAAAAACCCTAACCCTA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAATTAAAAA--C--A--CTA
* * * * *
22059749 AACCATTAACCTAAAAATCTTAAACCC-TAAACTTAAAAACAATA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAA-TTAAAAACACTA
*
22059793 AACCCTAAACCTAAAAACCTTAAACCC-TAAACTTAAAAA-ACTCA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAA-TTAAAAACACT-A
* * *
22059837 AACCCTTAACCTAAAAATCATAAACCCTTAACTTAAAAACACTA
1 AACCCTAAACCTAAAAACCATAAACCCTTAAATTAAAAACACTA
22059881 AACCCTAAACCCTAAAAACTC-TAAA--C-T--A-T--AAACACTA
1 AACCCTAAA-CCTAAAAAC-CATAAACCCTTAAATTAAAAACACTA
** *
22059918 AACCCTAAACCTAAAAACTC-TAAACTTTTAACTTAAAAAC-CTTA
1 AACCCTAAACCTAAAAAC-CATAAACCCTTAAATTAAAAACAC-TA
22059962 AACCCTAAA
1 AACCCTAAA
22059971 AACCCTAACC
Statistics
Matches: 222, Mismatches: 27, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
36 15 0.07
37 17 0.08
39 2 0.01
42 3 0.01
43 19 0.09
44 109 0.49
45 18 0.08
46 3 0.01
48 1 0.00
49 3 0.01
50 32 0.14
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (44 bp):
AACCCTAAACCTAAAAACCATAAACCCTTAAATTAAAAACACTA
Found at i:22059773 original size:22 final size:22
Alignment explanation
Indices: 22059747--22059906 Score: 146
Period size: 22 Copynumber: 7.2 Consensus size: 22
22059737 ACCCTAACCC
* *
22059747 TAAACCATTAACCTAAAAATCT
1 TAAACCCTAAACCTAAAAATCT
* *
22059769 TAAACCCTAAACTTAAAAA-CAA
1 TAAACCCTAAACCTAAAAATC-T
*
22059791 TAAACCCTAAACCTAAAAACCT
1 TAAACCCTAAACCTAAAAATCT
* *
22059813 TAAACCCTAAACTTAAAAAACT
1 TAAACCCTAAACCTAAAAATCT
* * *
22059835 CAAACCCTTAACCTAAAAATCA
1 TAAACCCTAAACCTAAAAATCT
* * *
22059857 TAAACCCTTAACTTAAAAA-CAC
1 TAAACCCTAAACCTAAAAATC-T
22059879 TAAACCCTAAACCCTAAAAA-CT
1 TAAACCCTAAA-CCTAAAAATCT
22059901 CTAAAC
1 -TAAAC
22059907 TATAAACACT
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
21 2 0.02
22 98 0.86
23 14 0.12
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCCTAAACCTAAAAATCT
Found at i:22059861 original size:37 final size:38
Alignment explanation
Indices: 22059814--22059944 Score: 126
Period size: 37 Copynumber: 3.3 Consensus size: 38
22059804 TAAAAACCTT
* *
22059814 AAACCCTAAACTTA-AAAAACTCAAACCCTTAACCTAA
1 AAACTCTAAACTTATAAAAACTCAAACCCTAAACCTAA
*
22059851 AAA-TCATAAACCCTTAACTTAAAAACACTAAACCCTAAACCCTAA
1 AAACTC-TAAA--CTT-A--TAAAAACTC-AAACCCTAAA-CCTAA
*
22059896 AAACTCTAAAC-TATAAACACT-AAACCCTAAACCTAA
1 AAACTCTAAACTTATAAAAACTCAAACCCTAAACCTAA
22059932 AAACTCTAAACTT
1 AAACTCTAAACTT
22059945 TTAACTTAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
36 17 0.22
37 18 0.23
39 9 0.12
40 1 0.01
41 1 0.01
42 1 0.01
43 8 0.10
44 9 0.12
45 12 0.15
46 2 0.03
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (38 bp):
AAACTCTAAACTTATAAAAACTCAAACCCTAAACCTAA
Found at i:22059888 original size:7 final size:7
Alignment explanation
Indices: 22059873--22059932 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
22059863 CTTAACTTAA
*
22059873 AAACACT
1 AAACCCT
22059880 AAACCCT
1 AAACCCT
22059887 AAACCCT
1 AAACCCT
*
22059894 AAAAACTCT
1 --AAACCCT
**
22059903 AAACTAT
1 AAACCCT
*
22059910 AAACACT
1 AAACCCT
22059917 AAACCCT
1 AAACCCT
22059924 AAA-CCT
1 AAACCCT
22059930 AAA
1 AAA
22059933 AACTCTAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
6 6 0.13
7 33 0.73
9 6 0.13
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:22059940 original size:22 final size:22
Alignment explanation
Indices: 22059916--22059970 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
22059906 CTATAAACAC
22059916 TAAACCCTAAACCTAAAAA-CT
1 TAAACCCTAAACCTAAAAACCT
** * *
22059937 CTAAACTTTTAACTTAAAAACCT
1 -TAAACCCTAAACCTAAAAACCT
22059960 TAAACCCTAAA
1 TAAACCCTAAA
22059971 AACCCTAACC
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAACCTAAAAACCT
Found at i:22059958 original size:37 final size:38
Alignment explanation
Indices: 22059880--22060003 Score: 139
Period size: 37 Copynumber: 3.3 Consensus size: 38
22059870 TAAAAACACT
* *
22059880 AAACCCTAAACCCTAAAAACTCTAAACTATAAAC--ACT
1 AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTA-A
*
22059917 AAACCCTAAA-CCTAAAAACTCTAAACTTTTAACTTAA
1 AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTAA
* * *
22059954 AAACCTTAAACCCTAAAAACCCT-AACCTTAAACTTAA
1 AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTAA
*
22059991 CAAACCTTAAACC
1 -AAACCCTAAACC
22060004 ATTAAATTAA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
36 21 0.28
37 31 0.41
38 24 0.32
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (38 bp):
AAACCCTAAACCCTAAAAACTCTAAACTTTAAACTTAA
Found at i:22060074 original size:43 final size:42
Alignment explanation
Indices: 22059967--22060088 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 42
22059957 CCTTAAACCC
*
22059967 TAAAAACCCT-AACCTTAAACTTAACAAACCTTAAACCATTAAAT
1 TAAAAACCCTAAACCTT-AACTTAA-AAACCCT-AACCATTAAAT
* * *
22060011 TAAAAAACCCCAAACCCTTAACTTAAAAACCCTAATCATTAACT
1 T-AAAAACCCTAAA-CCTTAACTTAAAAACCCTAACCATTAAAT
22060055 TAAAAACCCTAAACTCTTAACTCT-AAAACCCTAA
1 TAAAAACCCTAAAC-CTTAACT-TAAAAACCCTAA
22060089 ACCCTAAAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
42 1 0.01
43 28 0.41
44 12 0.18
45 14 0.21
46 9 0.13
47 4 0.06
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (42 bp):
TAAAAACCCTAAACCTTAACTTAAAAACCCTAACCATTAAAT
Found at i:22060089 original size:22 final size:22
Alignment explanation
Indices: 22059967--22060090 Score: 116
Period size: 22 Copynumber: 5.6 Consensus size: 22
22059957 CCTTAAACCC
22059967 TAAAAACCCT-AAC-CTTAAACT
1 TAAAAACCCTAAACTCTT-AACT
* *
22059988 TAACAAACCTTAAAC-CATTAAAT
1 TAA-AAACCCTAAACTC-TTAACT
* *
22060011 TAAAAAACCCCAAACCCTTAACT
1 T-AAAAACCCTAAACTCTTAACT
22060034 TAAAAACCCT-AA-TCATTAACT
1 TAAAAACCCTAAACTC-TTAACT
22060055 TAAAAACCCTAAACTCTTAACT
1 TAAAAACCCTAAACTCTTAACT
22060077 CT-AAAACCCTAAAC
1 -TAAAAACCCTAAAC
22060091 CCTAAAACCT
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
20 1 0.01
21 21 0.24
22 34 0.39
23 26 0.30
24 5 0.06
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAAAACCCTAAACTCTTAACT
Found at i:22060091 original size:29 final size:29
Alignment explanation
Indices: 22060058--22060121 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
22060048 ATTAACTTAA
22060058 AAACCCT-AAACTCTTAACTCTAAAACCCT
1 AAACCCTAAAAC-CTTAACTCTAAAACCCT
* *
22060087 AAACCCTAAAACCTTAATTTTAAAACCCT
1 AAACCCTAAAACCTTAACTCTAAAACCCT
22060116 -AACCCT
1 AAACCCT
22060122 TAAGTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 6 0.19
29 22 0.69
30 4 0.12
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (29 bp):
AAACCCTAAAACCTTAACTCTAAAACCCT
Found at i:22060649 original size:14 final size:14
Alignment explanation
Indices: 22060630--22060656 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22060620 GATTGACAAA
22060630 CGAATATTACATAC
1 CGAATATTACATAC
22060644 CGAATATTACATA
1 CGAATATTACATA
22060657 TCACTTCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (14 bp):
CGAATATTACATAC
Found at i:22063218 original size:251 final size:250
Alignment explanation
Indices: 22062775--22063304 Score: 844
Period size: 251 Copynumber: 2.1 Consensus size: 250
22062765 GCCAAACATG
*
22062775 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATGTCACAAATTCTTCTCAAAAAGCATCCTGC
* * * * *
22062840 TATAAGCTATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTTCAGGACCAACT
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
* * *
22062905 GTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAA
131 ATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCACAAATAGCATCCTGCTTGAA
* *
22062970 GCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTCAAGAC
196 GCG-TTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAAGAC
* * * *
22063026 CTACTGTAGCAAAAGCGCGGCCACGTGGGCGTGATGTCACAAATTCTTCTCATAAAGTATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATGTCACAAATTCTTCTCAAAAAGCATCCTGC
*
22063091 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGATCAACT
66 TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
** *
22063156 ATAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCACATATAGCATCCTGCTTGAA
131 ATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCACAAATAGCATCCTGCTTGAA
* *
22063221 GCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
196 GCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAAGAC
* *
22063276 CTACTGTAGCAAAAACGCGTACACGTGGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGG
22063305 TGCGACTGCA
Statistics
Matches: 255, Mismatches: 24, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
250 74 0.29
251 181 0.71
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATGTCACAAATTCTTCTCAAAAAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
ATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCACAAATAGCATCCTGCTTGAA
GCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATAATTTTTCCAAGAC
Found at i:22063338 original size:125 final size:126
Alignment explanation
Indices: 22062775--22063342 Score: 725
Period size: 125 Copynumber: 4.5 Consensus size: 126
22062765 GCCAAACATG
* *
22062775 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGTGATTTCACAAATTCTTCTCAAAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
22062840 TAT-AAGC-TATTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTCTTTCAGGAC
66 T-TGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* ** *
22062900 CAACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * *
22062964 CTTGAAGCGTTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTT-TTTCAAGAC
65 CTTGAAGCG-TATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * *
22063026 CTACTGTAGCAAAAGCGCGGCCACGTGGGCGTGATGTCACAAATTCTTCTCATAAAGTATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
22063091 TAGAAGCG-ATTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGAT
66 TTGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * *
22063151 CAACTATAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTCACATATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* *
22063216 TTGAAGCGTTTTTTATACTATCTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
66 TTGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
* * * * * * * * * *
22063276 CTACTGTAGCAAAAACGCGTACACGTGGGTGCGACTGCAAAAATCCTTTTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
22063341 TT
66 TT
22063343 TGATTTTATC
Statistics
Matches: 379, Mismatches: 57, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
124 42 0.11
125 188 0.50
126 107 0.28
127 42 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGTATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
Found at i:22066856 original size:12 final size:11
Alignment explanation
Indices: 22066806--22066859 Score: 56
Period size: 12 Copynumber: 4.7 Consensus size: 11
22066796 AATTTTTATT
22066806 TTTTAAAAAAA
1 TTTTAAAAAAA
*
22066817 TTCTTAACAATAA
1 TT-TTAA-AAAAA
*
22066830 TTCT-AAAAAA
1 TTTTAAAAAAA
22066840 TTTTAAAAAAA
1 TTTTAAAAAAA
22066851 TCTTTAAAA
1 T-TTTAAAA
22066860 TAAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 7 0.20
11 10 0.29
12 12 0.34
13 6 0.17
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
TTTTAAAAAAA
Found at i:22069370 original size:42 final size:42
Alignment explanation
Indices: 22069311--22069394 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
22069301 AATGGACTAA
22069311 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
1 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
22069353 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
1 GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
22069395 AAGGTAAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (42 bp):
GAGTATTACACCACTTCATTGTATGGTCCATTCTTTAAATCC
Found at i:22072504 original size:19 final size:19
Alignment explanation
Indices: 22072468--22072505 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22072458 TTATGCTTGT
*
22072468 TTTTATTCTTTTATAATTA
1 TTTTATTCTATTATAATTA
22072487 TTTTATT-TATTATCAATTA
1 TTTTATTCTATTAT-AATTA
22072506 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATTCTATTATAATTA
Found at i:22075565 original size:18 final size:18
Alignment explanation
Indices: 22075538--22075577 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
22075528 CAGATTTGTT
* *
22075538 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
22075556 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
22075574 TCCT
1 TCCT
22075578 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:22075845 original size:21 final size:21
Alignment explanation
Indices: 22075819--22075865 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22075809 CAACTCCGAC
22075819 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCTACCGGAAG
* *
22075840 AACCAGAATCCCTGCCGGAGG
1 AACCAGAATCCCTACCGGAAG
22075861 AACCA
1 AACCA
22075866 CAACCGCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.34, C:0.34, G:0.23, T:0.09
Consensus pattern (21 bp):
AACCAGAATCCCTACCGGAAG
Found at i:22076144 original size:22 final size:22
Alignment explanation
Indices: 22076118--22076789 Score: 398
Period size: 22 Copynumber: 28.4 Consensus size: 22
22076108 AATTTAATTG
22076118 AAAAACCCTAACTCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* * *
22076140 TAAAACTCTAAAC-CCATAACCT
1 AAAAACCCT-AACTCCTTAACCT
*
22076162 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076184 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
22076211 AAAAACCCTAACCCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* *
22076233 AAAAA-CCTAAAACCTTAAACTCTAAACTT
1 AAAAACCCT--AA-C-T--CCT-TAA-CCT
* *
22076262 AAAAACCCTAACACTTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076284 AAAAACTCC-AACCCTAACCCTTAACTT
1 AAAAAC-CCTAA--CT---CCTTAACCT
*
22076311 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076333 AAAAATCCC-AACCCTAACCCTTAACTT
1 AAAAA-CCCTAA--CT---CCTTAACCT
* *
22076360 AAAAACCCTAACACCTTCACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076382 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
22076409 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* *
22076431 AAAAACCCCAACCCTAACCGTTAACTT
1 AAAAACCCTAA--CT--CC-TTAACCT
* *
22076458 AAAAACCTTAACCCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076480 AAAAACCCTAACTCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
22076507 AAAAACCCTAAC-CCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076528 AAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
22076555 AAAAACCCTAACACCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
* * *
22076577 AAAAACCCCAACCCTAACTGTTAACTT
1 AAAAACCCTAA--CT--C-CTTAACCT
22076604 AAAAACCCTAA-TCCATTAACCT
1 AAAAACCCTAACTCC-TTAACCT
*
22076626 -AAAACCCTAAAC-CCTTAACTT
1 AAAAACCCT-AACTCCTTAACCT
*
22076647 AAAAACACTAA-TCCCTTAACCT
1 AAAAACCCTAACT-CCTTAACCT
*
22076669 GAAAACCCTAAC-CCTTTAACCT
1 AAAAACCCTAACTCC-TTAACCT
*
22076691 AAAAACCCTAAC-CCTTAACTT
1 AAAAACCCTAACTCCTTAACCT
*
22076712 AAAAACCCTAACCCCTTAACCT
1 AAAAACCCTAACTCCTTAACCT
*
22076734 -AAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAA--CT---CCTTAACCT
*
22076760 AAAAACCCTAAC-CCTTAACTT
1 AAAAACCCTAACTCCTTAACCT
*
22076781 TAAAACCCT
1 AAAAACCCT
22076790 CACTGGTTGA
Statistics
Matches: 515, Mismatches: 64, Indels: 143
0.71 0.09 0.20
Matches are distributed among these distances:
21 88 0.17
22 212 0.41
23 17 0.03
24 10 0.02
25 8 0.02
26 16 0.03
27 149 0.29
28 5 0.01
29 7 0.01
30 3 0.01
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAACCCTAACTCCTTAACCT
Found at i:22076158 original size:49 final size:48
Alignment explanation
Indices: 22076118--22076783 Score: 734
Period size: 49 Copynumber: 13.9 Consensus size: 48
22076108 AATTTAATTG
* * * *
22076118 AAAAACCCTAACTCCTTAACCTTAAAACTCTAAACCC--A---TAACCT
1 AAAAACCCTAACACCTTAACCTAAAAACCCT-AACCCTAACCTTAACTT
22076162 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
* * *
22076211 AAAAACCCTAACCCCTTAACCTAAAAA-CCTAAAACCTTAAACTCTAAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCT--AACCCT-AAC-CTTAACTT
*
22076262 AAAAACCCTAACACTTTAACCTAAAAACTCC-AACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAAC-CCTAACCCTAA-CCTTAACTT
22076311 AAAAACCCTAACACCTTAACCTAAAAATCCC-AACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAA-CCCTAACCCTAA-CCTTAACTT
*
22076360 AAAAACCCTAACACCTTCACCTAAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
*
22076409 AAAAACCCTAACACCTTAACCTAAAAACCCCAACCCTAACCGTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAACC-TTAACTT
* * *
22076458 AAAAACCTTAACCCCTTAACCTAAAAACCCTAACTCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
22076507 AAAAACCCTAAC-CCTTAACCTAAAAACCCTAACCCTAACCCTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAA-CCTTAACTT
* *
22076555 AAAAACCCTAACACCTTAACCTAAAAACCCCAACCCTAACTGTTAACTT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAAC-CTTAACTT
* *
22076604 AAAAACCCTAATC-CATTAACCT-AAAACCCTAA----ACCCTTAACTT
1 AAAAACCCTAA-CACCTTAACCTAAAAACCCTAACCCTAACCTTAACTT
* * *
22076647 AAAAACACTAATC-CCTTAACCTGAAAACCCTAACCCT----TTAACCT
1 AAAAACCCTAA-CACCTTAACCTAAAAACCCTAACCCTAACCTTAACTT
* * *
22076691 AAAAACCCTAAC-CCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAA-CCC-TAACCT-TAA-CTT
* *
22076742 ---AACCCTAAC-CCTTAACTTAAAAACCCTAACCCTTAACTTTAA
1 AAAAACCCTAACACCTTAACCTAAAAACCCTAACCC-TAACCTTAA
22076784 AACCCTCACT
Statistics
Matches: 553, Mismatches: 36, Indels: 64
0.85 0.06 0.10
Matches are distributed among these distances:
43 51 0.09
44 59 0.11
45 2 0.00
46 2 0.00
47 9 0.02
48 94 0.17
49 279 0.50
50 18 0.03
51 37 0.07
53 2 0.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (48 bp):
AAAAACCCTAACACCTTAACCTAAAAACCCTAACCCTAACCTTAACTT
Found at i:22076534 original size:15 final size:15
Alignment explanation
Indices: 22076516--22076563 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
22076506 TAAAAACCCT
22076516 AACCCTTAACCTAAA
1 AACCCTTAACCTAAA
22076531 AACCC-TAACCCT---
1 AACCCTTAA-CCTAAA
*
22076543 AACCCTTAACTTAAA
1 AACCCTTAACCTAAA
22076558 AACCCT
1 AACCCT
22076564 AACACCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
14 3 0.11
15 14 0.52
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.21
Consensus pattern (15 bp):
AACCCTTAACCTAAA
Found at i:22076785 original size:48 final size:48
Alignment explanation
Indices: 22076694--22076789 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
22076684 TTAACCTAAA
22076694 AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
*
22076742 AACCCTAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTTAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAAC-CTAAAACCCT
22076790 CACTGGTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 8 0.17
48 38 0.83
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (48 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCCCTTAACCTAAAACCCT
Found at i:22077792 original size:127 final size:126
Alignment explanation
Indices: 22077517--22078034 Score: 704
Period size: 127 Copynumber: 4.1 Consensus size: 126
22077507 CAAACATGCT
* * ** * *
22077517 ACTGTAGAAAAAGCGCATCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* * * * * * *
22077582 GAAGCG--ATTTTATACTGTTTGCTTAGAAACGCCAAGTCAAAATTATTTTTCCAAGACCT
66 GAAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
* * *
22077641 ATTATAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTTA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * *
22077705 TGCAGCGTTGTTTTATATTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
65 TGAAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGACCA
*
22077768 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTTA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCT
* * *
22077832 TGCAGCGTTGTTTTATATTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
65 TGAAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGACCA
** * *
22077895 ACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTTCTT
1 ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
* *
22077960 GAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCT
66 GAAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
22078020 ACTGTAGCAAAAGCG
1 ACTGTAGCAAAAGCG
22078035 AGTACATGTG
Statistics
Matches: 358, Mismatches: 31, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
123 2 0.01
124 58 0.16
125 24 0.07
126 74 0.21
127 198 0.55
128 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (126 bp):
ACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
GAAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCA
Found at i:22099591 original size:17 final size:18
Alignment explanation
Indices: 22099559--22099592 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22099549 TGAAATCATG
22099559 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
22099577 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
22099593 CAATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Done.