Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 262 of 311
Found at i:87065484 original size:91 final size:92
Alignment explanation
Indices: 87065328--87065595 Score: 387
Period size: 91 Copynumber: 2.9 Consensus size: 92
87065318 TTCGACATGA
* * *
87065328 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* *
87065393 CATGGTCTTGTTCATTTCATGTTACAT
66 CATGGTCTTATTCATTTCATGTCACAT
*
87065420 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-GTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
* * *
87065484 CATTGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCATTTCATGTCACAT
* * *
87065511 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATATTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
**
87065575 CCATGGTCTTACACATTTCAT
65 CCATGGTCTTATTCATTTCAT
87065596 TTTAGAAGCA
Statistics
Matches: 157, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
90 4 0.03
91 79 0.50
92 74 0.47
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTCACAT
Found at i:87065559 original size:137 final size:137
Alignment explanation
Indices: 87065306--87065585 Score: 400
Period size: 137 Copynumber: 2.0 Consensus size: 137
87065296 TCCATCCACA
* * *
87065306 GTCTTATTTATCTTCGACATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCA
1 GTCTTATTCATCTTCGACATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCA
* *** * *
87065371 TGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGTTACATTGCCATGGTATCTTTC
66 CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTC
87065436 AACCATG
131 AACCATG
* * * * * *
87065443 GTCTTATTCATTTTCGTCATGTTGCCATGGTATCTTTCAACCATTGTCTTATTC-TTTTCATGTC
1 GTCTTATTCATCTTCGACATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTC
*
87065507 ACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATATTGCCATGGTATCTTT
65 ACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTT
87065572 CAACCATG
130 CAACCATG
87065580 GTCTTA
1 GTCTTA
87065586 CACATTTCAT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
136 5 0.04
137 121 0.96
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (137 bp):
GTCTTATTCATCTTCGACATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCA
CGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATGGTATCTTTC
AACCATG
Found at i:87065593 original size:46 final size:46
Alignment explanation
Indices: 87065323--87065595 Score: 345
Period size: 46 Copynumber: 6.0 Consensus size: 46
87065313 TTATCTTCGA
* * * *
87065323 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
**
87065369 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* ** *
87065415 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTT--TCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT-GT
* * *
87065460 CATGTTGCCATGGTATCTTTCAACCATTGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
87065506 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
87065552 CATATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
87065596 TTTAGAAGCA
Statistics
Matches: 200, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.00
45 42 0.21
46 156 0.78
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:87066692 original size:3 final size:3
Alignment explanation
Indices: 87066684--87066834 Score: 50
Period size: 3 Copynumber: 51.0 Consensus size: 3
87066674 AAGAAAAGCT
* *
87066684 ATA ATA ATA ATT ATA ATA A-A AGTA ATA ATA ATA A-A TATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA
* * * * *
87066729 GTA ATA TTA GTG ATA A-A A-A ATA ATA GCTA A-A A-A ATA A-A CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA
** * * * *
87066771 ATA ACC ATG ACA ATAA AGA ATA ATA GTA ATA ATA ATA ATGA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
*
87066817 A-A ACTA ATA TTA ATA ATA
1 ATA A-TA ATA ATA ATA ATA
87066835 CATTATATTA
Statistics
Matches: 108, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
2 16 0.15
3 80 0.74
4 12 0.11
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:87066704 original size:24 final size:24
Alignment explanation
Indices: 87066684--87066734 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
87066674 AAGAAAAGCT
*
87066684 ATAATAATAATTATAATAAAAGTA
1 ATAATAATAAATATAATAAAAGTA
* *
87066708 ATAATAATAAATATAACAATAGTA
1 ATAATAATAAATATAATAAAAGTA
87066732 ATA
1 ATA
87066735 TTAGTGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATAATAAATATAATAAAAGTA
Found at i:87067181 original size:21 final size:20
Alignment explanation
Indices: 87067149--87067187 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
87067139 ATACATATAC
87067149 ATACACATATA-TAATAAAA
1 ATACACATATATTAATAAAA
87067168 ATACACACTAATATTAATAA
1 ATACACA-T-ATATTAATAA
87067188 TAAAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 1 0.06
21 3 0.18
22 6 0.35
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (20 bp):
ATACACATATATTAATAAAA
Found at i:87067189 original size:19 final size:19
Alignment explanation
Indices: 87067135--87067174 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87067125 TTATATATAA
* *
87067135 ATATATACATATACATACAC
1 ATATATA-ATAAAAATACAC
87067155 ATATATAATAAAAATACAC
1 ATATATAATAAAAATACAC
87067174 A
1 A
87067175 CTAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (19 bp):
ATATATAATAAAAATACAC
Found at i:87067249 original size:150 final size:149
Alignment explanation
Indices: 87066951--87067486 Score: 655
Period size: 152 Copynumber: 3.7 Consensus size: 149
87066941 AAGTGTATAA
* * * * *
87066951 TATAATAATAATGTTAAAATAAGGTAAT--TAAA-AATATTACTATAT--A-A-ATACATATATA
1 TATAATAAAAATATTAAAATAAAGTAATAAAAAATAATATTA-TATATAAATATATACATATACA
* * * * * *
87067009 TATGCTTATATAATAAAAATATACACTAATATTAATAAT--AATAATCATAGTAATAATATTGAA
65 TATACATATATAATAAAAATACACACTAATATTAATAATAAAATGATAATAGTAATAATATTAAA
*
87067072 AT-CCAAAAAGC-AA---A-
130 ATACAAAAAAGCAAATGTAG
* *
87067086 TATAATAAGAATATTAAAATAAAGTAATAAAGAATAATATTATATATAAATATATACATATACAT
1 TATAATAAAAATATTAAAATAAAGTAATAAAAAATAATATTATATATAAATATATACATATACAT
*
87067151 ACACATATATAATAAAAATACACACTAATATTAATAATAAAAATGATAATAGTAATAATATTAAA
66 ATACATATATAATAAAAATACACACTAATATTAATAAT-AAAATGATAATAGTAATAATATTAAA
87067216 ATACAAAAAAGCAAATGTAG
130 ATACAAAAAAGCAAATGTAG
* * *
87067236 TATAATAAAAATATTTAAATAAAGTAATAAAAAATAATACTATGTATAAAAATATATACATATAC
1 TATAATAAAAATATTAAAATAAAGTAATAAAAAATAATA-T-TATATATAAATATATACATATAC
87067301 ATATACATATATAATAAAAATACACACTAATATTAATAATAATAATGATAATAGTAATAATATTA
64 ATATACATATATAATAAAAATACACACTAATATTAATAATAA-AATGATAATAGTAATAATATTA
87067366 AAATA-AAAAAAGCAAATGTAG
128 AAATACAAAAAAGCAAATGTAG
* *
87067387 TATAATAAAAATATTAAAATAAAGTAATAATAAAAAATAATACTATGTATAAA-A-AT--ATATA
1 TATAATAAAAATATTAAAATAAAG---TAATAAAAAATAATATTATATATAAATATATACATATA
*
87067448 CATATACATATATAATAAAAA-ATACACTAATATATAATA
63 CATATACATATATAATAAAAATACACACTAATAT-TAATA
87067487 CTAATACTAA
Statistics
Matches: 352, Mismatches: 26, Indels: 33
0.86 0.06 0.08
Matches are distributed among these distances:
135 25 0.07
137 7 0.02
138 7 0.02
139 1 0.00
140 1 0.00
141 45 0.13
144 23 0.07
145 8 0.02
146 2 0.01
147 11 0.03
148 31 0.09
149 1 0.00
150 38 0.11
151 43 0.12
152 94 0.27
154 15 0.04
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (149 bp):
TATAATAAAAATATTAAAATAAAGTAATAAAAAATAATATTATATATAAATATATACATATACAT
ATACATATATAATAAAAATACACACTAATATTAATAATAAAATGATAATAGTAATAATATTAAAA
TACAAAAAAGCAAATGTAG
Found at i:87067342 original size:3 final size:3
Alignment explanation
Indices: 87067328--87067645 Score: 55
Period size: 3 Copynumber: 106.7 Consensus size: 3
87067318 AAATACACAC
* * * *
87067328 TAA TAT TAA TAA TAA TAA TGA TAA TAG TAA TAA TAT TAA -AA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * * *
87067374 AAA GCA -AA T-G TAG T-A TAA TAA AAA TAT TAA -AA TAA -AG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
87067417 TAA -AA -AA TAA TAC T-A TGTA TAA AAA TATA TACA T-A TACA TATA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A TAA TA-A TA-A
* *
87067460 TAA TAA -AA -AA TACA CTAA TATA TAA TAC TAA TAC TAA TACA TTAA
1 TAA TAA TAA TAA TA-A -TAA TA-A TAA TAA TAA TAA TAA TA-A -TAA
* * ** *
87067505 TAA AAA TAA TAA GAA T-A TGT TAA TAA TAA TAA -AT TAA TGAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TAA
* * * **
87067550 AAA TAA -AA TGAA TAAA TAAA TACA CAA AAA TAA -AA T-A TAA TTG TAA
1 TAA TAA TAA T-AA T-AA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
87067596 TAG TAA TAT TAA -CA TAA TAA TAA TAA TAA TAA GTTAA -AG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA
87067641 TAA TA
1 TAA TA
87067646 TATGTTAATT
Statistics
Matches: 226, Mismatches: 57, Indels: 64
0.65 0.16 0.18
Matches are distributed among these distances:
2 32 0.14
3 150 0.66
4 36 0.16
5 8 0.04
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:87067348 original size:152 final size:152
Alignment explanation
Indices: 87066998--87067459 Score: 687
Period size: 152 Copynumber: 3.1 Consensus size: 152
87066988 TACTATATAA
* * * * *
87066998 ATACATATATATATGCTTATATAATAAAAATATACACTAATATTAATAATAAT-A--ATCATAGT
1 ATACATATACATATACATATATAATAAAAATACACACTAATATTAATAATAATAATGATAATAGT
* * * *
87067060 AATAATATTGAAAT-CCAAAAAGC-AA---A-TATAATAAGAATATTAAAATAAAGTAATAAAGA
66 AATAATATTAAAATACAAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTAATAAAAA
* *
87067119 ATAATA-T-TATATATAAATAT
131 ATAATACTATGTATAAAAATAT
* *
87067139 ATACATATACATACACATATATAATAAAAATACACACTAATATTAATAATAAAAATGATAATAGT
1 ATACATATACATATACATATATAATAAAAATACACACTAATATTAATAATAATAATGATAATAGT
*
87067204 AATAATATTAAAATACAAAAAAGCAAATGTAGTATAATAAAAATATTTAAATAAAGTAATAAAAA
66 AATAATATTAAAATACAAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTAATAAAAA
87067269 ATAATACTATGTATAAAAATAT
131 ATAATACTATGTATAAAAATAT
87067291 ATACATATACATATACATATATAATAAAAATACACACTAATATTAATAATAATAATGATAATAGT
1 ATACATATACATATACATATATAATAAAAATACACACTAATATTAATAATAATAATGATAATAGT
87067356 AATAATATTAAAATA-AAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTAATAATAA
66 AATAATATTAAAATACAAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAG---TAATAA
87067420 AAAATAATACTATGTATAAAAATAT
128 AAAATAATACTATGTATAAAAATAT
87067445 ATACATATACATATA
1 ATACATATACATATA
87067460 TAATAAAAAA
Statistics
Matches: 290, Mismatches: 17, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
141 47 0.16
142 1 0.00
144 20 0.07
145 8 0.03
146 2 0.01
149 1 0.00
150 36 0.12
151 40 0.14
152 89 0.31
154 46 0.16
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.31
Consensus pattern (152 bp):
ATACATATACATATACATATATAATAAAAATACACACTAATATTAATAATAATAATGATAATAGT
AATAATATTAAAATACAAAAAAGCAAATGTAGTATAATAAAAATATTAAAATAAAGTAATAAAAA
ATAATACTATGTATAAAAATAT
Found at i:87067668 original size:22 final size:21
Alignment explanation
Indices: 87067613--87067668 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
87067603 ATTAACATAA
87067613 TAATAATAATAATAAGTTAAAG
1 TAATAATAAT-ATAAGTTAAAG
* **
87067635 TAATAATAATATATGTTAATT
1 TAATAATAATATAAGTTAAAG
87067656 TAATACATAATAT
1 TAATA-ATAATAT
87067669 GGAAAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
TAATAATAATATAAGTTAAAG
Found at i:87069651 original size:77 final size:77
Alignment explanation
Indices: 87069520--87069685 Score: 224
Period size: 77 Copynumber: 2.2 Consensus size: 77
87069510 GCAGAAATTA
* * * *
87069520 AAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCGAGGGTCAACTCACCTCTCACAATATAAG
1 AAAAACAGAAATTGAAAATACCTCGGCACGTGACCCGAGGCTCAACTCACCTCTCACAATATAAG
*
87069585 TTGATTTTTTTG
66 TTAATTTTTTTG
* * * ** * *
87069597 AAAAACAAAAATTGAAAATACCTCGGCGCGTGACCCGAGGCTTAACTCGTCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGGCACGTGACCCGAGGCTCAACTCACCTCTCACAATATAAG
87069662 TTAATTTTTTTG
66 TTAATTTTTTTG
87069674 AAAAACAGAAAT
1 AAAAACAGAAAT
87069686 AAAAATATCA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (77 bp):
AAAAACAGAAATTGAAAATACCTCGGCACGTGACCCGAGGCTCAACTCACCTCTCACAATATAAG
TTAATTTTTTTG
Found at i:87081642 original size:24 final size:24
Alignment explanation
Indices: 87081622--87081672 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
87081612 AAGAAAAGCT
*
87081622 ATAATAATAATTATAATAAAAGTA
1 ATAATAATAAATATAATAAAAGTA
* *
87081646 ATAATAATAAATATAACAATAGTA
1 ATAATAATAAATATAATAAAAGTA
87081670 ATA
1 ATA
87081673 TTAGTGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATAATAAATATAATAAAAGTA
Found at i:87081653 original size:6 final size:6
Alignment explanation
Indices: 87081622--87081773 Score: 50
Period size: 6 Copynumber: 25.5 Consensus size: 6
87081612 AAGAAAAGCT
* * *
87081622 ATAATA ATAATT ATAATA A-AAGTA ATAATA ATAA-A TATAACA ATAGTA
1 ATAATA ATAATA ATAATA ATAA-TA ATAATA ATAATA -ATAATA ATAATA
* * * * * **
87081670 ATATTA GTGATA A-AA-A ATAATA GCT-ATA AAAATA A-ACATA ATAACC
1 ATAATA ATAATA ATAATA ATAATA -ATAATA ATAATA ATA-ATA ATAATA
* * * *
87081716 ATGACA ATAAAGA ATAATA GTAATA ATAATA ATGAA-A ATAA-A ACTAATA
1 ATAATA AT-AATA ATAATA ATAATA ATAATA AT-AATA ATAATA A-TAATA
*
87081765 TTAATA ATA
1 ATAATA ATA
87081774 CATTATATTA
Statistics
Matches: 108, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
4 2 0.02
5 11 0.10
6 83 0.77
7 12 0.11
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.28
Consensus pattern (6 bp):
ATAATA
Found at i:87082109 original size:18 final size:20
Alignment explanation
Indices: 87082074--87082112 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
87082064 CTATATATAA
*
87082074 ATATATACATATACATACAC
1 ATATATACATATAAATACAC
87082094 ATATATA-ATA-AAATACAC
1 ATATATACATATAAATACAC
87082112 A
1 A
87082113 CTAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (20 bp):
ATATATACATATAAATACAC
Found at i:87082119 original size:20 final size:19
Alignment explanation
Indices: 87082088--87082125 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 19
87082078 ATACATATAC
87082088 ATACACATATA-TAATAAA
1 ATACACATATATTAATAAA
87082106 ATACACACTAATATTAATAA
1 ATACACA-T-ATATTAATAA
87082126 TAAAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 3 0.18
21 6 0.35
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (19 bp):
ATACACATATATTAATAAA
Found at i:87082329 original size:3 final size:3
Alignment explanation
Indices: 87082323--87082594 Score: 79
Period size: 3 Copynumber: 90.0 Consensus size: 3
87082313 CAAATGTAGT
* * * *
87082323 ATA ATA AAA ATA TTA A-A ATA A-A GTA ATA ATA ATA A-A ATA ATA CT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
87082367 ATGT ATA AAA ATA TATA CAT- ATA CA-A AT- ATA ATA A-A AAA ATA CACTA
1 AT-A ATA ATA ATA -ATA -ATA ATA -ATA ATA ATA ATA ATA ATA ATA -A-TA
* * * * *
87082414 ATA TATA ATA CTA ATA CTA ATA CATTA ATA AAA ATA ATA AGA AT- ATG
1 ATA -ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA
* * *
87082461 TTA ATA ATA ATA A-A TTA ATGA ATTA AAA ATA A-A ATGA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA AT-A A-TA ATA ATA ATA AT-A AT-A AT-A
* * * * * * *
87082506 ATA CACA AAA ATA A-A AT- ATA ATT GTA ATA GTA ATA TTA ACA A-A
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
87082549 ATA ATA ATA ATA ATA ATA ATA ATA ATA AGTTA A-A GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA
87082595 TATGTTAATT
Statistics
Matches: 197, Mismatches: 43, Indels: 58
0.66 0.14 0.19
Matches are distributed among these distances:
2 25 0.13
3 133 0.68
4 31 0.16
5 8 0.04
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:87082435 original size:148 final size:146
Alignment explanation
Indices: 87081890--87082428 Score: 574
Period size: 148 Copynumber: 3.7 Consensus size: 146
87081880 AAGTGTATAA
* * * * * * *
87081890 TATAATAATAATGTTAAAATAAGGTAAT--T-AAAAATATTACTA--TATAAATACATATATATA
1 TATAATAAAAATATTAAAATAAAGTAATAATAAAAAATAATACTATGTATAAAAATATATACATA
* ** * * * * *
87081950 TGCTTATATAATAAAAATATACACTAATATTAATAATAATAATCATAGTAATAATATTGAAAT-C
66 TACAAATATAATAAAAAAACACACTAATATTAATAATAATGATAATAGTAATAATATTAAAATAC
*
87082014 CAAAAAGC-AA---A-
131 AAAAAAGCAAATGTAG
* * *
87082025 TATAATAAGAATATTAAAATAAAG---TAATAAAGAATAATACTA--TATATAAATATATACATA
1 TATAATAAAAATATTAAAATAAAGTAATAATAAAAAATAATACTATGTATAAAAATATATACATA
*
87082085 TACATACACATATATAATAAAATACACACTAATATTAATAATAAAAATGATAATAGTAATAATAT
66 TACA-A-ATATA-ATAA-AAAA-ACACACTAATATTAATAAT---AATGATAATAGTAATAATAT
87082150 TAAAATACAAAAAAGCAAATGTAG
123 TAAAATACAAAAAAGCAAATGTAG
*
87082174 TATAATAAAAATATTTAAATAAAGTAAT-A-AAAAAATAATACTATGTATAAAAATATACATATA
1 TATAATAAAAATATTAAAATAAAGTAATAATAAAAAATAATACTATGTAT-AAAA-AT--ATATA
* * * *
87082237 CATATACATATATAATAAAAATACACACTAATATTAACAATAATGATAATAGTAATAATACTAAA
62 CATATACAAATATAATAAAAAAACACACTAATATTAATAATAATGATAATAGTAATAATATTAAA
*
87082302 ATAAAAAAAAGCAAATGTAG
127 ATACAAAAAAGCAAATGTAG
87082322 TATAATAAAAATATTAAAATAAAGTAATAATAATAAAATAATACTATGTATAAAAATATATACAT
1 TATAATAAAAATATTAAAATAAAGTAATAATAA-AAAATAATACTATGTATAAAAATATATACAT
* *
87082387 ATACAAATATAATAAAAAAATACACTAATATATAATACTAAT
65 ATACAAATATAATAAAAAAACACACTAATAT-TAATAATAAT
87082429 ACTAATACAT
Statistics
Matches: 339, Mismatches: 35, Indels: 47
0.81 0.08 0.11
Matches are distributed among these distances:
132 1 0.00
134 1 0.00
135 48 0.14
137 4 0.01
138 4 0.01
139 3 0.01
140 18 0.05
143 23 0.07
144 8 0.02
145 2 0.01
147 36 0.11
148 78 0.23
149 25 0.07
150 19 0.06
151 36 0.11
152 7 0.02
153 7 0.02
154 6 0.02
156 13 0.04
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.30
Consensus pattern (146 bp):
TATAATAAAAATATTAAAATAAAGTAATAATAAAAAATAATACTATGTATAAAAATATATACATA
TACAAATATAATAAAAAAACACACTAATATTAATAATAATGATAATAGTAATAATATTAAAATAC
AAAAAAGCAAATGTAG
Found at i:87082508 original size:147 final size:144
Alignment explanation
Indices: 87081887--87082508 Score: 476
Period size: 148 Copynumber: 4.3 Consensus size: 144
87081877 GGAAAGTGTA
* * * * * *
87081887 TAATATAATAATAATGTTAAAATAAGGTAATTAA-AAATATTACTA--TAT--AAATA-CATATA
1 TAATATAATAAAAATATTAAAATAAAGTAATAAATAAATAATACTATGTATAAAAATATAATATA
* * ** * * * * * * **
87081946 TATATGCTTATATAATAAAAATATACACTAATATTAATAATAATAATCATAGTAATAATATTGAA
66 CATATACAAATATAATAAAAAAACACACTAATATTAACAATAATGATAATAGCAATAATA-CAAA
*
87082011 ATCCAAAAAGC--A--
130 AT-AAAAAAGCAAATG
* * * *
87082023 -AATATAATAAGAATATTAAAATAAAGTAATAAA-GAATAATACTATATATAAATATATACATAT
1 TAATATAATAAAAATATTAAAATAAAGTAATAAATAAATAATACTATGTATAAAAATATA-ATAT
* * * * *
87082086 ACATACACATATATAAT-AAAATACACACTAATATTAATAATAAAAATGATAATAGTAATAATAT
65 ACATATACAAATATAATAAAAAAACACACTAATATTAACAAT---AATGATAATAGCAATAATA-
*
87082150 TAAAATACAAAAAAGCAAATG
126 CAAAAT--AAAAAAGCAAATG
* * *
87082171 TAGTATAATAAAAATATTTAAATAAAGTAATAAAAAAATAATACTATGTATAAAAATATACATAT
1 TAATATAATAAAAATATTAAAATAAAGTAATAAATAAATAATACTATGTATAAAAATATA-ATAT
* * *
87082236 ACATATACATATATAATAAAAATACACACTAATATTAACAATAATGATAATAGTAATAATACTAA
65 ACATATACAAATATAATAAAAAAACACACTAATATTAACAATAATGATAATAGCAATAATAC-AA
87082301 AATAAAAAAAAGCAAATG
129 AAT--AAAAAAGCAAATG
*
87082319 TAGTATAATAAAAATATTAAAATAAAGTAATAATAATAAAATAATACTATGTAT-AAAA-AT-AT
1 TAATATAATAAAAATATTAAAATAAAGTAAT-A-AAT-AAATAATACTATGTATAAAAATATAAT
* * * *
87082381 ATACATATACAAATATAATAAAAAAATACACTAATATATAATACTAAT-ACTAATA-CATTAATA
63 ATACATATACAAATATAATAAAAAAACACACTAATAT-TAACAATAATGA-TAATAGCAATAATA
*
87082444 -AAAAT-AATAAG-AATATG
126 CAAAATAAAAAAGCAA-ATG
*
87082461 TTAATAATAATAAATTAATGAATTAAAAATAAAATGAATAAATAAATA
1 -TAAT-ATAATAAA--AAT--ATT-AAAATAAAGT-AATAAATAAATA
87082509 CACAAAAATA
Statistics
Matches: 415, Mismatches: 39, Indels: 53
0.82 0.08 0.10
Matches are distributed among these distances:
135 38 0.09
137 3 0.01
139 4 0.01
140 23 0.06
141 19 0.05
142 8 0.02
143 26 0.06
144 16 0.04
145 5 0.01
146 4 0.01
147 48 0.12
148 87 0.21
149 43 0.10
150 52 0.13
151 39 0.09
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (144 bp):
TAATATAATAAAAATATTAAAATAAAGTAATAAATAAATAATACTATGTATAAAAATATAATATA
CATATACAAATATAATAAAAAAACACACTAATATTAACAATAATGATAATAGCAATAATACAAAA
TAAAAAAGCAAATG
Found at i:87082617 original size:22 final size:21
Alignment explanation
Indices: 87082562--87082617 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
87082552 ATAATAATAA
87082562 TAATAATAATAATAAGTTAAAG
1 TAATAATAAT-ATAAGTTAAAG
* **
87082584 TAATAATAATATATGTTAATT
1 TAATAATAATATAAGTTAAAG
87082605 TAATAAATAATAT
1 TAAT-AATAATAT
87082618 GGAAAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
TAATAATAATATAAGTTAAAG
Found at i:87091497 original size:11 final size:11
Alignment explanation
Indices: 87091481--87091510 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
87091471 TGAAGGAAAA
87091481 GACCATGGTTG
1 GACCATGGTTG
87091492 GACCATGGTTG
1 GACCATGGTTG
87091503 GACCATGG
1 GACCATGG
87091511 CAACAAGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.37, T:0.23
Consensus pattern (11 bp):
GACCATGGTTG
Found at i:87091590 original size:50 final size:51
Alignment explanation
Indices: 87091513--87091641 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
87091503 GACCATGGCA
* *
87091513 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
*
87091564 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
87091614 ACAAGTGAAAAGTGGTAGCTTCGACTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
87091642 TTGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:87091655 original size:31 final size:31
Alignment explanation
Indices: 87091617--87091765 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
87091607 ACAAATGACA
*
87091617 AGTGAAAAGTGGTAGCTTCGACTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
87091648 AGTGAAAAGTGGTAGCTTCTG-CTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GACTACCTGATC
* * *
87091679 AGTGAAAAATGGTAGCTCCGACTACCTGATA
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* * *
87091710 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* *
87091741 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGACTAC
87091766 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 1 0.01
31 105 0.98
32 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGACTACCTGATC
Found at i:87091852 original size:47 final size:45
Alignment explanation
Indices: 87091783--87091906 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 45
87091773 AAGTGATTTC
* *
87091783 TGTATAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCTAT
1 TGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG--AT
* *
87091830 TGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGAT
1 TGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGAT
* * *
87091875 TCGTGTAAGACCATAGCTGGGCTATGGCATCG
1 T-GTATAAGACCATATCTGGGATATGGCATCG
87091907 ATATGTGATA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
45 3 0.04
46 26 0.38
47 39 0.57
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (45 bp):
TGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGAT
Found at i:87091938 original size:49 final size:48
Alignment explanation
Indices: 87091787--87091959 Score: 183
Period size: 49 Copynumber: 3.6 Consensus size: 48
87091777 GATTTCTGTA
** * * * * *
87091787 TAAGACCATATTTGGGATATGGCATCGGTGTGATATATGCT-ATT-GTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATG-TGATTCGTG
* * *
87091834 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
*
87091880 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATT-CGTG
* *
87091929 TAAGACCATAGCTAGGCTATGACATCGATAT
1 TAAGACCATAGCTGGGCTATGGCATCGATAT
87091960 ATGAAGATGT
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
44 1 0.01
45 12 0.11
46 26 0.23
47 26 0.23
48 13 0.12
49 33 0.30
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGAGATATGTGATTCGTG
Found at i:87094516 original size:10 final size:10
Alignment explanation
Indices: 87094501--87094526 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
87094491 ACCAATTCGA
87094501 TTAATTTTGG
1 TTAATTTTGG
87094511 TTAATTTTGG
1 TTAATTTTGG
87094521 TTAATT
1 TTAATT
87094527 CGGTTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (10 bp):
TTAATTTTGG
Found at i:87095513 original size:53 final size:53
Alignment explanation
Indices: 87095454--87095559 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
87095444 AGTGCTAATA
* * * *
87095454 AAAACATAATTAAATGATTTTATTCAAGATCGACAACATTATGTTTTACAAAT
1 AAAACATAATTAAATAATTTTATTCAAAACCGACAACATTATGTCTTACAAAT
* *
87095507 AAAACATAATTAAATAATTTTGTTCAAAACCGACAATATTATGTCTTACAAAT
1 AAAACATAATTAAATAATTTTATTCAAAACCGACAACATTATGTCTTACAAAT
87095560 TGAAAAATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (53 bp):
AAAACATAATTAAATAATTTTATTCAAAACCGACAACATTATGTCTTACAAAT
Found at i:87096068 original size:12 final size:11
Alignment explanation
Indices: 87096046--87096070 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
87096036 TTTTATATTT
87096046 AAATTAAAAAA
1 AAATTAAAAAA
87096057 AAATTAAAAAA
1 AAATTAAAAAA
87096068 AAA
1 AAA
87096071 CAGCATAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATTAAAAAA
Found at i:87099609 original size:81 final size:81
Alignment explanation
Indices: 87099474--87099636 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
87099464 TACATACTAA
*
87099474 AAAGCTGGTACTGCTACATTAAAAAAGACTCAAACTTAGGTACCAAATGATATATTAAGTCTAAA
1 AAAGCTGGTACTGCTACATTAAAAAAGACTCAAACTTAGGTACCAAATAATATATTAAGTCTAAA
87099539 ATTTATTTCCAAAACC
66 ATTTATTTCCAAAACC
87099555 AAAGCTGGTACTGCTACATTAAAAAAGACTCAAACTTAGGTACCAAATAATATATTAAGTCTAAA
1 AAAGCTGGTACTGCTACATTAAAAAAGACTCAAACTTAGGTACCAAATAATATATTAAGTCTAAA
87099620 ATTTATTTCCAAAACC
66 ATTTATTTCCAAAACC
87099636 A
1 A
87099637 GTTATGTAGT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.28
Consensus pattern (81 bp):
AAAGCTGGTACTGCTACATTAAAAAAGACTCAAACTTAGGTACCAAATAATATATTAAGTCTAAA
ATTTATTTCCAAAACC
Found at i:87100892 original size:23 final size:23
Alignment explanation
Indices: 87100849--87100892 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
87100839 TAATACGTTG
* *
87100849 TTTTATTTATTATCTATTTTAGA
1 TTTTATATATTATCTAATTTAGA
*
87100872 TTTTATATATTATTTAATTTA
1 TTTTATATATTATCTAATTTA
87100893 AATTATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTTATATATTATCTAATTTAGA
Found at i:87104087 original size:32 final size:32
Alignment explanation
Indices: 87104051--87104210 Score: 250
Period size: 32 Copynumber: 5.0 Consensus size: 32
87104041 TATAACTATG
87104051 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
87104083 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * *
87104115 CTACTTTTTTATATGTGAACCTAATATATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
87104147 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
87104179 CTACTTTTTTATATGT-AAACATAATGTATGAT
1 CTACTTTTTTATATGTAAAAC-TAATGTATGAT
87104211 ATTTTTTATG
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 4 0.03
32 111 0.97
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:87105701 original size:27 final size:28
Alignment explanation
Indices: 87105671--87105811 Score: 159
Period size: 27 Copynumber: 5.2 Consensus size: 28
87105661 GTGACGAAGT
*
87105671 CACCAAATACAGAT-ATTGTGGCAGAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
*
87105698 CACCAGA-ACAGATAAATGTGGCAGAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
*
87105725 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
* * *
87105752 CACCAG-GACTGAT-ATATGTGGCAAAGC
1 CACCAGATACAGATAAT-TGTGGCAGAGC
* *
87105779 CATCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGATAATTGTGGCAGAGC
87105806 CACCAG
1 CACCAG
87105812 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.08
27 86 0.90
28 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATAATTGTGGCAGAGC
Found at i:87105812 original size:54 final size:54
Alignment explanation
Indices: 87105671--87105814 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 54
87105661 GTGACGAAGT
* * * *
87105671 CACCAAATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATAAATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATAAATGTGGCAAAGC
* *
87105725 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACTGATATATGTGGCAAAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATAAATGTGGCAAAGC
*
87105779 CATCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
87105815 GCTTCCTCCA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATAAATGTGGCAAAGC
Found at i:87107460 original size:26 final size:26
Alignment explanation
Indices: 87107429--87107536 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87107419 TGAAATGCCC
*
87107429 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87107455 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87107481 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87107507 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87107533 ATCA
1 ATCA
87107537 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87109328 original size:21 final size:21
Alignment explanation
Indices: 87109284--87109336 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
87109274 CGCTGTTTTT
*
87109284 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTATCC
*
87109305 AATCTCACCGCTATAGTAAT-C
1 AATCTCACCGCTACAGT-ATCC
*
87109326 AATTTCACCGC
1 AATCTCACCGC
87109337 CACTGCTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.28
Consensus pattern (21 bp):
AATCTCACCGCTACAGTATCC
Found at i:87114126 original size:70 final size:71
Alignment explanation
Indices: 87114048--87114212 Score: 269
Period size: 73 Copynumber: 2.3 Consensus size: 71
87114038 CAGTCAAATC
* *
87114048 ACACGCCCGTGTGCTAGGCCGTATGG-ATTTAATTTTCATAAATTAGGTGCAATTTTCACACGGC
1 ACACGCCCGTGTCCTAGGCCGTATGGTATTTAATTTTCATAAATTAGGTACAATTTTCACACGGC
87114112 CATGTA
66 CATGTA
*
87114118 ACACGCCCGTGTCCTAGGCCGTATGGTTAATTTAATTTTCATAAATTAGGTACAGTTTTCACACG
1 ACACGCCCGTGTCCTAGGCCGTATGG-T-ATTTAATTTTCATAAATTAGGTACAATTTTCACACG
87114183 GCCATGTA
64 GCCATGTA
*
87114191 ACACGCCCGTGTCCAAGGCCGT
1 ACACGCCCGTGTCCTAGGCCGT
87114213 GTCACCCACA
Statistics
Matches: 88, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
70 25 0.28
73 63 0.72
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (71 bp):
ACACGCCCGTGTCCTAGGCCGTATGGTATTTAATTTTCATAAATTAGGTACAATTTTCACACGGC
CATGTA
Found at i:87117873 original size:7 final size:7
Alignment explanation
Indices: 87117852--87117887 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
87117842 TTATTTTATT
87117852 TTATTTA
1 TTATTTA
*
87117859 GT-TTTA
1 TTATTTA
87117865 TTATTTA
1 TTATTTA
87117872 TTATTTA
1 TTATTTA
87117879 TTATTTA
1 TTATTTA
87117886 TT
1 TT
87117888 TTATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:87117880 original size:14 final size:13
Alignment explanation
Indices: 87117842--87117898 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
87117832 ATAGAAGATA
*
87117842 TTATTTTATTTTAT
1 TTATTTT-TATTAT
*
87117856 TTAGTTTTATTAT
1 TTATTTTTATTAT
87117869 TTATTATTTATTAT
1 TTATT-TTTATTAT
87117883 TTA-TTTTATTAAT
1 TTATTTTTATT-AT
87117896 TTA
1 TTA
87117899 GCTTTAGCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 6 0.16
13 15 0.39
14 17 0.45
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:87124764 original size:17 final size:17
Alignment explanation
Indices: 87124742--87124787 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
87124732 AACTTATCAT
87124742 ACCCAATACCCAAATAA
1 ACCCAATACCCAAATAA
*
87124759 ACCCAA-ACCCAAAATCA
1 ACCCAATACCC-AAATAA
87124776 ACCCAATACCCA
1 ACCCAATACCCA
87124788 CCACCCAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.50, C:0.41, G:0.00, T:0.09
Consensus pattern (17 bp):
ACCCAATACCCAAATAA
Found at i:87128442 original size:7 final size:7
Alignment explanation
Indices: 87128421--87128456 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
87128411 TTATTTTATT
87128421 TTATTTA
1 TTATTTA
*
87128428 GT-TTTA
1 TTATTTA
87128434 TTATTTA
1 TTATTTA
87128441 TTATTTA
1 TTATTTA
87128448 TTATTTA
1 TTATTTA
87128455 TT
1 TT
87128457 TTATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:87128449 original size:14 final size:13
Alignment explanation
Indices: 87128411--87128467 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
87128401 ATAGAAGATA
*
87128411 TTATTTTATTTTAT
1 TTATTTT-TATTAT
*
87128425 TTAGTTTTATTAT
1 TTATTTTTATTAT
87128438 TTATTATTTATTAT
1 TTATT-TTTATTAT
87128452 TTA-TTTTATTAAT
1 TTATTTTTATT-AT
87128465 TTA
1 TTA
87128468 GCTTTAGCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
12 6 0.16
13 15 0.39
14 17 0.45
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:87129896 original size:16 final size:16
Alignment explanation
Indices: 87129877--87129907 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
87129867 AAACCGTATT
87129877 ACTCTCATTCCTTACC
1 ACTCTCATTCCTTACC
87129893 ACTCTCATTCCTTAC
1 ACTCTCATTCCTTAC
87129908 GCCTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.39
Consensus pattern (16 bp):
ACTCTCATTCCTTACC
Found at i:87131237 original size:19 final size:20
Alignment explanation
Indices: 87131213--87131251 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
87131203 GTCCCATTAT
87131213 TTATTTATTTTT-TGTTTTA
1 TTATTTATTTTTATGTTTTA
87131232 TTATTTATTTTTATGTTTTA
1 TTATTTATTTTTATGTTTTA
87131252 AATGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (20 bp):
TTATTTATTTTTATGTTTTA
Found at i:87131243 original size:20 final size:19
Alignment explanation
Indices: 87131213--87131251 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
87131203 GTCCCATTAT
*
87131213 TTATTTATTTTTTGTTTTA
1 TTATTTATTTTATGTTTTA
87131232 TTATTTATTTTTATGTTTTA
1 TTATTTA-TTTTATGTTTTA
87131252 AATGTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (19 bp):
TTATTTATTTTATGTTTTA
Found at i:87131270 original size:25 final size:23
Alignment explanation
Indices: 87131214--87131278 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
87131204 TCCCATTATT
*
87131214 TATTTATTTTT-TGTTTT--AT-
1 TATTTATTTTTATATTTTAAATG
*
87131233 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
87131256 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
87131279 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
22 2 0.05
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:87132528 original size:18 final size:19
Alignment explanation
Indices: 87132447--87132518 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 19
87132437 TTGATTGGAA
87132447 AAAAATTATAAAAAAGTT--
1 AAAAATTATAAAAAA-TTGC
* *
87132465 AAAAATTAT--AACATTGT
1 AAAAATTATAAAAAATTGC
*
87132482 AACAACTTATTAAAAAATTGC
1 AA-AAATTA-TAAAAAATTGC
87132503 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
87132519 GTAAATATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
15 2 0.05
16 3 0.07
17 2 0.05
18 14 0.33
19 9 0.21
20 5 0.12
21 8 0.19
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATTATAAAAAATTGC
Found at i:87134153 original size:15 final size:14
Alignment explanation
Indices: 87134126--87134152 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87134116 GAGTATAATA
87134126 AAATATTAAAAAAT
1 AAATATTAAAAAAT
87134140 AAATATTAAAAAA
1 AAATATTAAAAAA
87134153 AAAGAGATTC
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:87136864 original size:13 final size:14
Alignment explanation
Indices: 87136822--87136866 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
87136812 TAAAAATGAT
87136822 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
87136837 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
87136850 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
87136863 TAAA
1 TAAA
87136867 ACAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:87138461 original size:4 final size:4
Alignment explanation
Indices: 87138452--87138476 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
87138442 TAAGAGGTAT
87138452 TGAA TGAA TGAA TGAA TGAA TGAA T
1 TGAA TGAA TGAA TGAA TGAA TGAA T
87138477 ATTTGTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (4 bp):
TGAA
Found at i:87140493 original size:41 final size:40
Alignment explanation
Indices: 87140377--87140509 Score: 112
Period size: 41 Copynumber: 3.4 Consensus size: 40
87140367 ACTAGTTTGG
* * * * *
87140377 CACCCAATGCCTCATCGGATAATTCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
* * * * *
87140417 CACCCAGTGTCTTATC-AGCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGA-ATAATCCGAAGTAGTAAATTGA
87140454 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGTAGTAAATTGA
* *
87140495 TACCCAGTGTCTCAT
1 CACCCAGTGCCTCAT
87140510 TGACTCGAAG
Statistics
Matches: 70, Mismatches: 17, Indels: 11
0.71 0.17 0.11
Matches are distributed among these distances:
37 21 0.30
38 7 0.10
39 2 0.03
40 18 0.26
41 22 0.31
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
Found at i:87140666 original size:20 final size:20
Alignment explanation
Indices: 87140637--87140674 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
87140627 TCATTCAAAT
87140637 AATCAATATAAATTCAATTC
1 AATCAATATAAATTCAATTC
*
87140657 AATCAGTATAAATTCAAT
1 AATCAATATAAATTCAAT
87140675 AAATTCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (20 bp):
AATCAATATAAATTCAATTC
Found at i:87143099 original size:12 final size:12
Alignment explanation
Indices: 87143082--87143108 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87143072 GTGTTCTTTA
87143082 TTTTATTTTATT
1 TTTTATTTTATT
87143094 TTTTATTTTATT
1 TTTTATTTTATT
87143106 TTT
1 TTT
87143109 CAGAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:87146663 original size:12 final size:12
Alignment explanation
Indices: 87146646--87146672 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
87146636 TTGTTCTTTA
87146646 TTTTATTTTATT
1 TTTTATTTTATT
87146658 TTTTATTTTATT
1 TTTTATTTTATT
87146670 TTT
1 TTT
87146673 CGCAATTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:87149348 original size:27 final size:28
Alignment explanation
Indices: 87149313--87149365 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
87149303 TTTCTCCTTC
* *
87149313 CTTTCTTCCTGTTTCTTTTCT-TTCTTT
1 CTTTCTTCCTATTTCGTTTCTATTCTTT
*
87149340 CTTTTTTCCTATTTCGTTTCTATTCT
1 CTTTCTTCCTATTTCGTTTCTATTCT
87149366 GTTTCGTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.04, C:0.25, G:0.04, T:0.68
Consensus pattern (28 bp):
CTTTCTTCCTATTTCGTTTCTATTCTTT
Found at i:87149372 original size:16 final size:16
Alignment explanation
Indices: 87149351--87149392 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
87149341 TTTTTTCCTA
87149351 TTTCGTTTCTA-TTCT
1 TTTCGTTTCTATTTCT
87149366 GTTTCGTTTCTATTTCT
1 -TTTCGTTTCTATTTCT
*
87149383 TTTTGTTTCT
1 TTTCGTTTCT
87149393 TTGTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.05, C:0.17, G:0.10, T:0.69
Consensus pattern (16 bp):
TTTCGTTTCTATTTCT
Found at i:87152521 original size:12 final size:13
Alignment explanation
Indices: 87152498--87152526 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
87152488 GCCATTGATT
87152498 ATTTTCCATTTTC
1 ATTTTCCATTTTC
87152511 ATTTT-CATTTTC
1 ATTTTCCATTTTC
87152523 ATTT
1 ATTT
87152527 CTTTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTCCATTTTC
Found at i:87158284 original size:19 final size:18
Alignment explanation
Indices: 87158260--87158304 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
87158250 AGGGTTTCTT
87158260 GGTTTTTTGGGGGGGGTTA
1 GGTTTTTT-GGGGGGGTTA
***
87158279 GGTTTTTTTTTGGGGTTA
1 GGTTTTTTGGGGGGGTTA
87158297 GGTTTTTT
1 GGTTTTTT
87158305 TTTGGGGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.04, C:0.00, G:0.40, T:0.56
Consensus pattern (18 bp):
GGTTTTTTGGGGGGGTTA
Found at i:87158305 original size:19 final size:18
Alignment explanation
Indices: 87158272--87158311 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
87158262 TTTTTTGGGG
87158272 GGGGTTAGGTTTTTTTTT
1 GGGGTTAGGTTTTTTTTT
87158290 GGGGTTAGGTTTTTTTTT
1 GGGGTTAGGTTTTTTTTT
87158308 GGGG
1 GGGG
87158312 GGGGCTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.00, G:0.40, T:0.55
Consensus pattern (18 bp):
GGGGTTAGGTTTTTTTTT
Found at i:87159431 original size:79 final size:77
Alignment explanation
Indices: 87159302--87159936 Score: 667
Period size: 79 Copynumber: 8.3 Consensus size: 77
87159292 AAACAAAATC
** * * * * * * *
87159302 TGAAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTA
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
87159367 AGTTGATTTTTT
66 AGTTGATTTTTT
* * * *
87159379 TGAAAAATATAAATTGAAAAAATACCTCAATGTGTGATCTGAAGCTCAACTCACCTCTCGCAATA
1 TGAAAAACAGAAATTG--AAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATA
87159444 TGAGTTGATTTTTT
64 TGAGTTGATTTTTT
* * * * * **
87159458 TGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
87159523 AGTTGATTTTTTTT
66 AGTTGA--TTTTTT
** ** * * * *
87159537 TGAAAGGCAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACG
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
87159602 AGTTGATTTTTT
66 AGTTGATTTTTT
* * * *
87159614 TG-ACAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
87159676 AGTTGATTTTTT
66 AGTTGATTTTTT
* * * * ** *
87159688 TGAAAAATAGAAATTGAAAATACCTCAGCATGT--TTTGAGGCTCAACTCATTTCTCACAATATG
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
87159751 AGTTGATTTTTTTTT
66 AGTTGA---TTTTTT
** * * * * *
87159766 TGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATACG
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
87159831 AGTTGATTTTTT
66 AGTTGATTTTTT
* *
87159843 TG-ACAACAGAAATTGAAATTACCTC-A-GTGTG-TCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TGAAAAACAGAAATTGAAAATACCTCAACGTGTGAT-CTGAGGCTCAACTCACCTCTCGCAATAT
**
87159904 GAGTCAATTTTTT
65 GAGTTGATTTTTT
**
87159917 TGAAAGGCAGAAATTGAAAA
1 TGAAAAACAGAAATTGAAAA
87159937 ACTGAAATTG
Statistics
Matches: 469, Mismatches: 77, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
74 83 0.18
75 70 0.15
76 46 0.10
77 75 0.16
78 36 0.08
79 132 0.28
80 27 0.06
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (77 bp):
TGAAAAACAGAAATTGAAAATACCTCAACGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTT
Found at i:87159830 original size:229 final size:229
Alignment explanation
Indices: 87159174--87160100 Score: 929
Period size: 229 Copynumber: 3.9 Consensus size: 229
87159164 AAATTAAAAA
* *
87159174 GCTCAACTCACCTCTTGCAATATGAGTTGAATTTTTTTGAAAAAAAAAAGAAATTGAAAATAGCT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG---AAAAACAGAAATTGAAAATAGCT
* ** *
87159239 CAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTAATTTTTGAAAACAAAATCTG
62 CAGCACGTGAG-C-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT--------TTTTTG
** * * * * * ***
87159304 AAAAACAGATTTTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCACATCTCGCAATGTAAG
117 AAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAG
* * * * *
87159369 TTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCAATGTGTGAT-CTGAA
182 TTGATTTTTTTG-ACAACAGAAATTG--AAATTACCTC-A-GTGTG-TCCTGAG
*
87159422 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCAGC
* * **
87159487 GCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTGAAAGGCAGAAAT
66 ACGTGAG-C-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAAAT
*
87159551 TGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG
129 TGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTG
*
87159616 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAG
194 ACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAG
* *
87159652 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCAGC
* ** * *
87159717 ATGTTTTG-AGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATT
66 ACG-TGAGCAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATT
* *
87159781 GAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGA
130 GAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
87159846 CAACAGAAATTGAAATTACCTCAGTGTGTCCTGAG
195 CAACAGAAATTGAAATTACCTCAGTGTGTCCTGAG
** **
87159881 GCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAAGGCAGAAATTGAAAAACTGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAA-T---A--
* ** * * ** *
87159946 GAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGA---TTTTTTT
59 G------CTCAGCACGTGAGC--AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTT
* * * * *
87160008 G-ACAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGA
116 GAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGA
87160070 GTTGATTTTTTTTGA-AAGGCAGAAATTGAAA
181 GTTGA-TTTTTTTGACAA--CAGAAATTGAAA
87160101 AACGGAAATT
Statistics
Matches: 589, Mismatches: 68, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
228 29 0.05
229 165 0.28
230 75 0.13
231 4 0.01
232 9 0.02
234 11 0.02
235 67 0.11
238 34 0.06
239 9 0.02
240 39 0.07
241 9 0.02
242 7 0.01
243 4 0.01
244 90 0.15
247 9 0.02
248 28 0.05
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (229 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATAGCTCAGC
ACGTGAGCAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATTG
AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGTGTGTCCTGAG
Found at i:87159978 original size:164 final size:166
Alignment explanation
Indices: 87159765--87160343 Score: 712
Period size: 164 Copynumber: 3.5 Consensus size: 166
87159755 GATTTTTTTT
* *
87159765 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCGCTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
*
87159830 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
87159895 TCGCAATATGAG-TCAATTTTTTTGAAAGGCAGAAA
131 TCGCAATATGAGTTCAATTTTTTTGAAAGGCAGAAA
*
87159930 TTGAAAAACTGAAATTG-AAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
87159994 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
66 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
* *
87160059 TCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAA
131 TCGCAATATGAGTTCAATTTTTTTGAAAGGCAGAAA
* * **
87160095 TTGAAAAACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTTTCGCAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
* * *
87160160 GAGTTGATTCTTTCAAAAATATAATAATGAAAACAGAAATTGAAAATACCTC-GACGTGACCTGA
66 GAGTTGA---TTT------T-T--T--TGACAACAGAAATTGAAATTACCTCAG-CGTGTCCTGA
* * * * * **
87160224 GGCTTAACTCACCTCTCGCAATATGAGCT-GA-TTCTTTCAAAAACA-ATAA
116 GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTTTTGAAAGGCAGA-AA
* * * *
87160273 -TG-AAGACAGAAA-TGAAAATACCTCGGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
*
87160333 GAGCTGATTTT
66 GAGTTGATTTT
87160344 GAAAAAGTAG
Statistics
Matches: 368, Mismatches: 28, Indels: 37
0.85 0.06 0.09
Matches are distributed among these distances:
164 122 0.33
165 53 0.14
166 51 0.14
169 3 0.01
170 3 0.01
173 36 0.10
175 15 0.04
176 9 0.02
177 3 0.01
178 13 0.04
179 1 0.00
180 59 0.16
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (166 bp):
TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATAC
GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
TCGCAATATGAGTTCAATTTTTTTGAAAGGCAGAAA
Found at i:87160002 original size:393 final size:383
Alignment explanation
Indices: 87159340--87160101 Score: 1045
Period size: 393 Copynumber: 2.0 Consensus size: 383
87159330 CATGTGACCC
* * * *
87159340 GAGGCTCAACTCACATCTCGCAATGTAAGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACC
1 GAGGCTCAACTCACATCTCACAATATAAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAATACC
* * * *
87159405 TCAATGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAA
65 TCAACGTGTGACCTGAAGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTGAAAGACAGAA
* * *
87159470 ATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
130 ATTGAAAATACCTCA-CGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTCATATTTT
*
87159535 TTTGAAAGGCAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCACAATA
194 TTTGAAAGGCAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCACAATA
87159600 CGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
259 CGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT
*
87159665 CTCGCAATATGAGTTGA-TTTTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTTTT
324 CTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTTTT
** *
87159724 GAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTTGAAAAACAGAAATTG-AAAATA
1 GAGGCTCAACTCACATCTCACAATATAAGTTGA---TTTTTTTGAAAAACAGAAATTGAAAAATA
** * *
87159788 CCTCGGCGTGTGACCT-AAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTGACA-ACA
63 CCTCAACGTGTGACCTGAA-GCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTGAAAGACA
* * * *
87159851 GAAATTGAAATTACCTCA-GTGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG-TCA-AT
127 GAAATTGAAAATACCTCACGCGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGTTCATAT
87159912 TTTTTTGAAAGGCAGAAATTGAAAAACTGAAATTGAAATACCTCGGCGTGTGACCTGAGGCTCAA
191 TTTTTTGAAAGGCAGAAA-T-------TG--A---AAATACCTCGGCGTGTGACCTGAGGCTCAA
*
87159977 CTCGCCACTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCT
243 CTCGCCACTCACAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCT
**
87160042 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAA
308 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAA
87160102 ACGGAAATTG
Statistics
Matches: 332, Mismatches: 27, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
380 19 0.06
381 5 0.02
382 32 0.10
384 49 0.15
385 55 0.17
387 20 0.06
388 2 0.01
390 1 0.00
393 126 0.38
394 23 0.07
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (383 bp):
GAGGCTCAACTCACATCTCACAATATAAGTTGATTTTTTTGAAAAACAGAAATTGAAAAATACCT
CAACGTGTGACCTGAAGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTGAAAGACAGAAA
TTGAAAATACCTCACGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTCATATTTTTT
TGAAAGGCAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCACAATACG
AGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTTTT
Found at i:87160004 original size:90 final size:88
Alignment explanation
Indices: 87159851--87160024 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 88
87159841 TTTGACAACA
* * *
87159851 GAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTT
1 GAAATTGAAATTACCTCAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTCAATTTTT
87159916 TTGA-AAGGCAGAAATTGAAAAACT
66 TTGACAA--CAGAAATTGAAAAACT
* * **
87159940 GAAATTGAAA-TACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGATTT
1 GAAATTGAAATTACCTC--AGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTCAATTT
87160004 TTTTGACAACAGAAATTGAAA
64 TTTTGACAACAGAAATTGAAA
87160025 TTACCTCAGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 6 0.08
89 22 0.29
90 45 0.60
91 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (88 bp):
GAAATTGAAATTACCTCAGTGTGACCTGAGGCTCAACTCACCACTCGCAATACGAGTCAATTTTT
TTGACAACAGAAATTGAAAAACT
Found at i:87160062 original size:74 final size:75
Alignment explanation
Indices: 87159940--87160100 Score: 229
Period size: 74 Copynumber: 2.1 Consensus size: 75
87159930 TTGAAAAACT
* *
87159940 GAAATTGAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATACGAGTTGA-TTT
1 GAAATTGAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
87160004 TTTTGACAA-CA
65 TTTTGA-AAGCA
* *
87160015 GAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAA-TACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTT
87160079 TTTTGAAAGGCA
65 TTTTGAAA-GCA
87160091 GAAATTGAAA
1 GAAATTGAAA
87160101 AACGGAAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
74 35 0.45
75 19 0.24
76 24 0.31
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (75 bp):
GAAATTGAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCACTCGCAATACGAGTTGATTTTT
TTTGAAAGCA
Found at i:87160318 original size:85 final size:86
Alignment explanation
Indices: 87160011--87160341 Score: 405
Period size: 85 Copynumber: 3.8 Consensus size: 86
87160001 TTTTTTTGAC
* * * *
87160011 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-
* * **
87160076 TTTTTTTGAAAGGCAGA-AATTGAAA
65 -TTCTTTCAAAAACA-ATAA-TG-AA
* * * * * *
87160101 AACGGAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTTTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCG--GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
*
87160166 ATTCTTTCAAAAATATAATAATGAA
64 ATTCTTTC-AAAA-ACAATAATGAA
* *
87160191 AACAGAAATTGAAAATACCTCGACGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
87160256 TCTTTCAAAAACAATAATGAA
66 TCTTTCAAAAACAATAATGAA
*
87160277 GACAGAAA-TGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
87160341 T
66 T
87160342 TTGAAAAAGT
Statistics
Matches: 211, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
85 55 0.26
86 17 0.08
87 4 0.02
88 42 0.20
90 47 0.22
91 6 0.03
92 40 0.19
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (86 bp):
AACAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TCTTTCAAAAACAATAATGAA
Found at i:87160550 original size:69 final size:71
Alignment explanation
Indices: 87160361--87160550 Score: 233
Period size: 73 Copynumber: 2.7 Consensus size: 71
87160351 TAGAAATTAA
* * * * * *
87160361 AAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCAT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAACA-AAATTGAAAATACCTCAG
*
87160426 CGTGTCCT
64 CGTGTCCC
* **
87160434 GAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAATTGAAAATACCTCAGC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-ACAAAATTGAAAATACCTCAGC
87160498 GTG-CCC
65 GTGTCCC
*
87160504 AAGGCTCAACTCA-CTCTAGCAATATGAGTTGATTTTGAAAAACAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAA
87160551 ATTAAAAGGC
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
69 26 0.26
70 18 0.18
71 22 0.22
72 5 0.05
73 30 0.30
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (71 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTGAAAATACCTCAGCG
TGTCCC
Found at i:87161392 original size:19 final size:19
Alignment explanation
Indices: 87161370--87161427 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
87161360 TAATAATAAT
87161370 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATGTAC
* *
87161389 ATAAAATACATATATATATGC
1 ATAAAATA-ATA-ATATGTAC
*
87161410 ATATAATAA-AATTATGTA
1 ATAAAATAATAA-TATGTA
87161428 TAATAATATC
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 4 0.13
21 13 0.42
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAAAATAATAATATGTAC
Found at i:87161412 original size:21 final size:19
Alignment explanation
Indices: 87161370--87161418 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
87161360 TAATAATAAT
*
87161370 ATAAAATAATAATATGTAC
1 ATAAAATAATAATATATAC
*
87161389 ATAAAATACATATATATATGC
1 ATAAAATA-ATA-ATATATAC
*
87161410 ATATAATAA
1 ATAAAATAA
87161419 AATTATGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 13 0.52
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (19 bp):
ATAAAATAATAATATATAC
Found at i:87164061 original size:148 final size:147
Alignment explanation
Indices: 87163833--87164102 Score: 379
Period size: 148 Copynumber: 1.8 Consensus size: 147
87163823 AGTTGATTTT
*
87163833 TTGAAAGACAGAAATTGAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCTATATGAG
1 TTGAAAGACAGAAATTGAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCTATATGAG
*
87163898 TTGATTTTTTAAAAAAG-AGGAAATT-AAAAGG-TCCAACCACCTCTCGCAATATGAGAGTTGAT
66 CTGA-TTTTTAAAAAAGTA-GAAATTAAAAAGGCT-CAACCACCTCTCGCAATATGAGAGTTGAT
87163960 TCTTCGAACAACAAGTTAAA
128 TCTTCGAACAACAAGTTAAA
*
87163980 TTGAAA-ACAGAAATTGAAAATTACCTCAGCGTGACCTGGGGCTCAACATCACCTCTCGCATATA
1 TTGAAAGACAGAAATTG--AATTACCTCAGCGTGACCTGAGGCTCAAC-TCACCTCTCGC-TATA
* * *
87164044 TGAGCTGA-TTTTGAAAAAGTAGAAATTGAAAAAGGCTTAATCACCTCTCGCAATATGAG
62 TGAGCTGATTTTTAAAAAAGTAGAAATT-AAAAAGGCTCAACCACCTCTCGCAATATGAG
87164103 TCAATTTATA
Statistics
Matches: 109, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
146 10 0.09
147 6 0.06
148 43 0.39
149 12 0.11
150 37 0.34
151 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (147 bp):
TTGAAAGACAGAAATTGAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCTATATGAG
CTGATTTTTAAAAAAGTAGAAATTAAAAAGGCTCAACCACCTCTCGCAATATGAGAGTTGATTCT
TCGAACAACAAGTTAAA
Found at i:87224954 original size:17 final size:15
Alignment explanation
Indices: 87224932--87224968 Score: 56
Period size: 17 Copynumber: 2.3 Consensus size: 15
87224922 TACTTGTTTT
87224932 TTAAAATATTAAAAATA
1 TTAAAATA-TAAAAA-A
87224949 TTAAAATATAAAAAA
1 TTAAAATATAAAAAA
87224964 TTAAA
1 TTAAA
87224969 TTTGAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TTAAAATATAAAAAA
Found at i:87228145 original size:19 final size:19
Alignment explanation
Indices: 87228121--87228157 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
87228111 TTAATGTGCG
*
87228121 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
87228140 AATATATATATATGTGTG
1 AATATATATATATGTGTG
87228158 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:87228431 original size:41 final size:41
Alignment explanation
Indices: 87228369--87228707 Score: 518
Period size: 41 Copynumber: 8.3 Consensus size: 41
87228359 GTTTGGAATT
* *
87228369 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228410 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228451 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228492 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228533 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228574 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228615 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCG-C
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87228655 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
87228696 GGTGATCCGAAT
1 GGTGATCTGAAT
87228708 ATGATGAATT
Statistics
Matches: 268, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
40 36 0.13
41 232 0.87
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:87228506 original size:82 final size:82
Alignment explanation
Indices: 87228369--87228701 Score: 659
Period size: 82 Copynumber: 4.1 Consensus size: 82
87228359 GTTTGGAATT
87228369 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87228434 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87228451 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87228516 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87228533 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87228598 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87228615 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCG-CGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87228679 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87228696 GGTGAT
1 GGTGAT
87228702 CCGAATATGA
Statistics
Matches: 251, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
81 48 0.19
82 203 0.81
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:87229092 original size:101 final size:103
Alignment explanation
Indices: 87228953--87229161 Score: 397
Period size: 101 Copynumber: 2.1 Consensus size: 103
87228943 TTTATAGTTT
87228953 ATAA-GTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
87229017 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
87229055 ATAATGTAT-AAAATTATGCTTTT-GTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
87229118 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
87229156 ATAATG
1 ATAATG
87229162 ATTATGTTAG
Statistics
Matches: 106, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
101 84 0.79
102 18 0.17
103 4 0.04
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (103 bp):
ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
Found at i:87235133 original size:19 final size:19
Alignment explanation
Indices: 87235109--87235145 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
87235099 TTAATGTGCG
*
87235109 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
87235128 AATATATATATATGTGTG
1 AATATATATATATGTGTG
87235146 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:87235419 original size:41 final size:41
Alignment explanation
Indices: 87235357--87235695 Score: 518
Period size: 41 Copynumber: 8.3 Consensus size: 41
87235347 GTTTGGAATT
* *
87235357 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235398 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235439 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235480 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235521 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235562 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235603 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCG-C
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
87235643 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
87235684 GGTGATCCGAAT
1 GGTGATCTGAAT
87235696 ATGATGAATT
Statistics
Matches: 268, Mismatches: 29, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
40 36 0.13
41 232 0.87
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:87235494 original size:82 final size:82
Alignment explanation
Indices: 87235357--87235689 Score: 659
Period size: 82 Copynumber: 4.1 Consensus size: 82
87235347 GTTTGGAATT
87235357 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87235422 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87235439 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87235504 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87235521 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87235586 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87235603 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCG-CGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
87235667 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
87235684 GGTGAT
1 GGTGAT
87235690 CCGAATATGA
Statistics
Matches: 251, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
81 48 0.19
82 203 0.81
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:87236124 original size:103 final size:103
Alignment explanation
Indices: 87235941--87236151 Score: 415
Period size: 103 Copynumber: 2.1 Consensus size: 103
87235931 TTTATAGTTT
87235941 ATAA-GTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
87236005 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
87236043 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
1 ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
87236108 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
66 GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
87236146 ATAATG
1 ATAATG
87236152 ATTATGTTAG
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 4 0.04
103 104 0.96
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (103 bp):
ATAATGTATAAAAATTATGCTTTTGGTATACGTAATTGAACAAATATATAAATGGATCCGATGAA
GTATGGATAACAAGTACTCTAAAAATCTGTATATGCAG
Found at i:87240975 original size:25 final size:24
Alignment explanation
Indices: 87240933--87240979 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
87240923 ATTCAAGAAA
87240933 TTTTAAAATATTAGTTTATTTTAC
1 TTTTAAAATATTAGTTTATTTTAC
*
87240957 TTTTAAATATATTATTTTATTTT
1 TTTTAAA-ATATTAGTTTATTTT
87240980 TATTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTAAAATATTAGTTTATTTTAC
Found at i:87251451 original size:23 final size:22
Alignment explanation
Indices: 87251421--87251514 Score: 90
Period size: 20 Copynumber: 4.4 Consensus size: 22
87251411 TATAGTTCAA
* * *
87251421 AAAATAAAAATTAAAAGTACAAG
1 AAAATAAAAA-TAAAAATAAAAC
87251444 AAAATAAAAATAAAAATAAAAC
1 AAAATAAAAATAAAAATAAAAC
*
87251466 AAAAT--AATTAAAAATAACAA-
1 AAAATAAAAATAAAAATAA-AAC
*
87251486 AAAAT-AAAATAAAAAGAAAAC
1 AAAATAAAAATAAAAATAAAAC
87251507 -AAATAAAA
1 AAAATAAAA
87251515 TCTATGATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
20 22 0.36
21 15 0.25
22 14 0.23
23 10 0.16
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAAC
Found at i:87251457 original size:22 final size:21
Alignment explanation
Indices: 87251404--87251499 Score: 74
Period size: 20 Copynumber: 4.6 Consensus size: 21
87251394 AGAAACAGCC
* *
87251404 ATAAAAAT-ATAGTTCAAAAA
1 ATAAAAATAAAAGTACAAAAA
87251424 ATAAAAATTAAAAGTACAAGAAA
1 ATAAAAA-TAAAAGTACAA-AAA
*
87251447 ATAAAAATAAAAATA-AAACAA
1 ATAAAAATAAAAGTACAAA-AA
* * *
87251468 A-ATAATTAAAAATAACAAAAA
1 ATAAAAATAAAAGT-ACAAAAA
87251489 AT-AAAATAAAA
1 ATAAAAATAAAA
87251500 AGAAAACAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
20 18 0.29
21 17 0.27
22 17 0.27
23 10 0.16
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (21 bp):
ATAAAAATAAAAGTACAAAAA
Found at i:87251471 original size:10 final size:9
Alignment explanation
Indices: 87251455--87251514 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 9
87251445 AAATAAAAAT
87251455 AAAAATAAA
1 AAAAATAAA
*
87251464 ACAAAATAATT
1 A-AAAATAA-A
87251475 AAAAATAACA
1 AAAAATAA-A
87251485 AAAAATAAA
1 AAAAATAAA
87251494 ATAAAA-AGAA
1 A-AAAATA-AA
87251504 AACAAATAAA
1 AA-AAATAAA
87251514 A
1 A
87251515 TCTATGATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
9 5 0.12
10 35 0.83
11 2 0.05
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (9 bp):
AAAAATAAA
Found at i:87251490 original size:42 final size:41
Alignment explanation
Indices: 87251429--87251509 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
87251419 AAAAAATAAA
* *
87251429 AATTAAAAGTACAAGAAAATAAAAATAAAAATAAAACAAAAT
1 AATTAAAAATACAAGAAAAT-AAAATAAAAAGAAAACAAAAT
87251471 AATTAAAAATAACAA-AAAATAAAATAAAAAGAAAACAAA
1 AATTAAAAAT-ACAAGAAAATAAAATAAAAAGAAAACAAA
87251510 TAAAATCTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 18 0.50
42 14 0.39
43 4 0.11
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.15
Consensus pattern (41 bp):
AATTAAAAATACAAGAAAATAAAATAAAAAGAAAACAAAAT
Found at i:87259445 original size:34 final size:34
Alignment explanation
Indices: 87259399--87259468 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
87259389 ATCAATGACT
87259399 TGGTTTTAGGAATCTTGGAGCTTCTAAAGTATCA
1 TGGTTTTAGGAATCTTGGAGCTTCTAAAGTATCA
*
87259433 TGGTTTTGGGAATCTTGGAGCTTCTAAAGTATCA
1 TGGTTTTAGGAATCTTGGAGCTTCTAAAGTATCA
87259467 TG
1 TG
87259469 CCCGTGTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (34 bp):
TGGTTTTAGGAATCTTGGAGCTTCTAAAGTATCA
Found at i:87261574 original size:12 final size:12
Alignment explanation
Indices: 87261541--87261575 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
87261531 TGAGACAAAA
87261541 TATTCTTTAAAT
1 TATTCTTTAAAT
*
87261553 TACTCTTTTAAAT
1 TATTC-TTTAAAT
87261566 TATTCTTTAA
1 TATTCTTTAA
87261576 GTAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTCTTTAAAT
Found at i:87261694 original size:23 final size:22
Alignment explanation
Indices: 87261647--87261700 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
87261637 AAGTAGGTTG
*
87261647 TATATTATTTTTTGTAATATTA
1 TATATTATTTTTTGTAATATCA
*
87261669 TATATATATTTTTTATTAAT-TCA
1 TATAT-TATTTTTT-GTAATATCA
*
87261692 TATTTTATT
1 TATATTATT
87261701 AATTGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.33
23 14 0.52
24 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTATTTTTTGTAATATCA
Found at i:87262010 original size:16 final size:16
Alignment explanation
Indices: 87261993--87262062 Score: 77
Period size: 16 Copynumber: 4.4 Consensus size: 16
87261983 TTGAATTTCT
* *
87261993 ATTACAGTTATATTCT
1 ATTACAATTATATTCC
* * *
87262009 ATTATAACTCTATTCC
1 ATTACAATTATATTCC
*
87262025 ATTACAATTCTATTCC
1 ATTACAATTATATTCC
*
87262041 ATTACAGTTATATTCC
1 ATTACAATTATATTCC
87262057 ATTACA
1 ATTACA
87262063 CTAAACCAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTACAATTATATTCC
Found at i:87266083 original size:15 final size:16
Alignment explanation
Indices: 87266043--87266088 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
87266033 TGCGAACTCA
* *
87266043 ACAAAAGTGCAAGTTG
1 ACAAAAGTGCGAGCTG
*
87266059 ACAAATGTGCGAGCT-
1 ACAAAAGTGCGAGCTG
87266074 ACAAAAGTGCGAGCT
1 ACAAAAGTGCGAGCT
87266089 CCCCAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (16 bp):
ACAAAAGTGCGAGCTG
Found at i:87266111 original size:16 final size:16
Alignment explanation
Indices: 87266033--87266111 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 16
87266023 AAATGCAAGT
*
87266033 TGCGAACTCAACAAAAG
1 TGCGAGCTC-ACAAAAG
* * * *
87266050 TGCAAGTTGACAAATG
1 TGCGAGCTCACAAAAG
87266066 TGCGAGCT-ACAAAAG
1 TGCGAGCTCACAAAAG
*
87266081 TGCGAGCTCCCCAAAA-
1 TGCGAGCT-CACAAAAG
87266097 TGCGAGCTCATCAAA
1 TGCGAGCTCA-CAAA
87266112 CTACAATCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
15 15 0.31
16 24 0.49
17 10 0.20
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (16 bp):
TGCGAGCTCACAAAAG
Found at i:87267499 original size:50 final size:50
Alignment explanation
Indices: 87267424--87267523 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
87267414 CTCTCTATGC
87267424 ACAAGAGCAAAGAAGAGCAAACAGAATGGAAGAGCACTCTGAAGGAGCTT
1 ACAAGAGCAAAGAAGAGCAAACAGAATGGAAGAGCACTCTGAAGGAGCTT
87267474 ACAAGAGCAAAGAAGAGCAAACAGAATGGAAGAGCACTCTGAAGGAGCTT
1 ACAAGAGCAAAGAAGAGCAAACAGAATGGAAGAGCACTCTGAAGGAGCTT
87267524 TTCAGGCTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.46, C:0.16, G:0.28, T:0.10
Consensus pattern (50 bp):
ACAAGAGCAAAGAAGAGCAAACAGAATGGAAGAGCACTCTGAAGGAGCTT
Found at i:87267554 original size:6 final size:6
Alignment explanation
Indices: 87267543--87267569 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
87267533 GGTGTAGAGA
87267543 AAGCTC AAGCTC AAGCTC AAGCTC AAG
1 AAGCTC AAGCTC AAGCTC AAGCTC AAG
87267570 TTATAAAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.30, G:0.19, T:0.15
Consensus pattern (6 bp):
AAGCTC
Found at i:87271897 original size:20 final size:20
Alignment explanation
Indices: 87271874--87271914 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
87271864 TCAATTGTTT
87271874 ATTGTTTGAA-TCGATTCAAA
1 ATTGTTT-AACTCGATTCAAA
*
87271894 ATTGTTTAACTCGATTTAAA
1 ATTGTTTAACTCGATTCAAA
87271914 A
1 A
87271915 CCCAACAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (20 bp):
ATTGTTTAACTCGATTCAAA
Found at i:87277829 original size:21 final size:21
Alignment explanation
Indices: 87277797--87277837 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
87277787 AGGCTCGAGG
87277797 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
87277818 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
87277838 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:87299085 original size:21 final size:20
Alignment explanation
Indices: 87299061--87299108 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
87299051 ATGAAGCAGC
87299061 AGAAGAAGAAGCT-ACAAATGA
1 AGAAGAA-AAGCTGACAAA-GA
*
87299082 AGAAGGAAAAGGTGACAAAGA
1 AGAA-GAAAAGCTGACAAAGA
87299103 AGAAGA
1 AGAAGA
87299109 CATAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 14 0.58
22 8 0.33
ACGTcount: A:0.58, C:0.06, G:0.29, T:0.06
Consensus pattern (20 bp):
AGAAGAAAAGCTGACAAAGA
Found at i:87300164 original size:11 final size:10
Alignment explanation
Indices: 87300143--87300196 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 10
87300133 CTTCTCCCCC
87300143 TCTTCT-TTT
1 TCTTCTCTTT
87300152 TCTTCTCTGTT
1 TCTTCTCT-TT
87300163 TCTTCTCTTAT
1 TCTTCTCTT-T
87300174 TCTTCT-TTT
1 TCTTCTCTTT
87300183 TC-TCT-TTT
1 TCTTCTCTTT
87300191 TCTTCT
1 TCTTCT
87300197 ACTGCCCAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.20
9 12 0.29
10 4 0.10
11 17 0.41
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:87300188 original size:22 final size:21
Alignment explanation
Indices: 87300142--87300196 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
87300132 TCTTCTCCCC
87300142 CTCTTCTTTTTCTTCTCTGTT
1 CTCTTCTTTTTCTTCTCTGTT
87300163 -TCTTCTCTTATTCTTCT-T-TT
1 CTCTTCT-TT-TTCTTCTCTGTT
87300183 -TC-TCTTTTTCTTCT
1 CTCTTCTTTTTCTTCT
87300197 ACTGCCCAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.22
18 2 0.06
19 3 0.09
20 10 0.31
21 3 0.09
22 7 0.22
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (21 bp):
CTCTTCTTTTTCTTCTCTGTT
Found at i:87302843 original size:12 final size:12
Alignment explanation
Indices: 87302826--87302850 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87302816 TTGTGTGTTC
87302826 TTTATTTTATTT
1 TTTATTTTATTT
87302838 TTTATTTTATTT
1 TTTATTTTATTT
87302850 T
1 T
87302851 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:87307295 original size:12 final size:12
Alignment explanation
Indices: 87307278--87307302 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87307268 TTGTGTGTTC
87307278 TTTATTTTATTT
1 TTTATTTTATTT
87307290 TTTATTTTATTT
1 TTTATTTTATTT
87307302 T
1 T
87307303 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:87312522 original size:66 final size:66
Alignment explanation
Indices: 87312416--87312546 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
87312406 CAAAAGGTTT
* *
87312416 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
87312481 G
66 G
* *
87312482 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
87312547 CACATTTGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:87312814 original size:16 final size:16
Alignment explanation
Indices: 87312787--87312820 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
87312777 ATTTTAGTAA
87312787 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
87312804 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
87312819 AT
1 AT
87312821 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:87312849 original size:47 final size:47
Alignment explanation
Indices: 87312798--87312942 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
87312788 TTATATAAGA
*
87312798 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
87312845 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
87312889 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
87312936 ATATTTA
1 ATATTTA
87312943 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:87312909 original size:44 final size:43
Alignment explanation
Indices: 87312784--87312910 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
87312774 ATGATTTTAG
87312784 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
87312830 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
87312874 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
87312911 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:87313115 original size:120 final size:118
Alignment explanation
Indices: 87313007--87313508 Score: 889
Period size: 120 Copynumber: 4.2 Consensus size: 118
87312997 TTTTCAAGTT
*
87313007 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
87313072 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
87313127 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
87313192 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
87313247 ATATATTTAATAATAATTATGTT-ATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
87313311 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT--A
87313366 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
87313431 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATAAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAAT--TA
87313486 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
87313509 TAAATATGAT
Statistics
Matches: 374, Mismatches: 5, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 118 0.32
120 256 0.68
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (118 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
Found at i:87313310 original size:239 final size:240
Alignment explanation
Indices: 87313007--87313508 Score: 961
Period size: 239 Copynumber: 2.1 Consensus size: 240
87312997 TTTTCAAGTT
*
87313007 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
87313072 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
87313137 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
*
87313202 ATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 ATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATAAAA
87313247 ATATATTTAATAATAATTATGTT-ATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
87313311 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
87313376 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
*
87313441 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATAAAA
196 ATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATAAAA
87313486 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
87313509 TAAATATGAT
Statistics
Matches: 258, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
239 235 0.91
240 23 0.09
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATAAAA
Found at i:87313365 original size:18 final size:17
Alignment explanation
Indices: 87313337--87313371 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
87313327 ATTATTAAGA
*
87313337 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
87313354 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
87313372 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:87313491 original size:16 final size:16
Alignment explanation
Indices: 87313470--87313511 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
87313460 TTATTAAATT
87313470 ATATATTTTAATAAAA
1 ATATATTTTAATAAAA
*
87313486 ATATA-TTTAATAATA
1 ATATATTTTAATAAAA
87313501 AT-TATGTTTAA
1 ATATAT-TTTAA
87313512 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATTTTAATAAAA
Found at i:87313761 original size:17 final size:16
Alignment explanation
Indices: 87313727--87313779 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
87313717 GATTAGCTAT
87313727 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
87313743 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
87313760 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
87313776 TACA
1 TACA
87313780 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:87314806 original size:20 final size:20
Alignment explanation
Indices: 87314777--87314814 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87314767 CTATGAAAAT
87314777 AAATTATTATAA-AATTTTA
1 AAATTATTATAATAATTTTA
87314796 AAATATATTATAATAATTT
1 AAAT-TATTATAATAATTT
87314815 CATCTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTATTATAATAATTTTA
Found at i:87318109 original size:27 final size:27
Alignment explanation
Indices: 87318061--87318219 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
87318051 GCGAGGCTGC
* *
87318061 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87318088 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
87318114 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * * *
87318141 CAGATAATCGTGGCATAGCCAACA-AAA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87318168 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87318195 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87318220 GACGCTTCCT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
26 10 0.09
27 94 0.85
28 6 0.05
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87318154 original size:54 final size:54
Alignment explanation
Indices: 87318079--87318219 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
87318069 GTGACGAAGT
* *
87318079 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
87318133 CACCAGATCAGATAATCGTGGCATAGCCAACAAAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
87318187 CACCAGATTAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
87318220 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87319859 original size:26 final size:26
Alignment explanation
Indices: 87319828--87319935 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87319818 TGAAATGCCC
*
87319828 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87319854 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87319880 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87319906 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87319932 ATCA
1 ATCA
87319936 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87326165 original size:27 final size:27
Alignment explanation
Indices: 87326117--87326275 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
87326107 GCGAGGCTGC
* *
87326117 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87326144 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
87326170 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87326197 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87326224 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
87326251 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87326276 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87326217 original size:54 final size:54
Alignment explanation
Indices: 87326135--87326275 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
87326125 GTGACGAAGT
*
87326135 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
87326189 CATCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
87326243 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
87326276 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87326442 original size:28 final size:26
Alignment explanation
Indices: 87326381--87326454 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
87326371 AAATTAACCC
* * *
87326381 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
*
87326407 TAGGGGTATAGCAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
* *
87326435 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
87326455 AGCTACTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 20 0.51
28 19 0.49
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:87327935 original size:26 final size:26
Alignment explanation
Indices: 87327904--87328011 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87327894 TGAAATGCCC
*
87327904 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87327930 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87327956 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87327982 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87328008 ATCA
1 ATCA
87328012 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87350065 original size:28 final size:29
Alignment explanation
Indices: 87350007--87350065 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
87349997 GAAAAATTAA
* *
87350007 ATTATAAAAATTATAAAAAAACTAATGAT
1 ATTATAAAAATAATAAAAAAACTAATAAT
*
87350036 ATTA-AAAAATAATATAAAAA-TAATCAAT
1 ATTATAAAAATAATAAAAAAACTAAT-AAT
87350064 AT
1 AT
87350066 GGAACACTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 18 0.69
29 4 0.15
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTATAAAAATAATAAAAAAACTAATAAT
Found at i:87350604 original size:29 final size:29
Alignment explanation
Indices: 87350557--87350614 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
87350547 TTATATATTA
*
87350557 AACAAGAAAGGGATCGAAGTGTTCATACC
1 AACAAGAAAGAGATCGAAGTGTTCATACC
*
87350586 AACAAGAAAGAGATTGAAGTGTTCATACC
1 AACAAGAAAGAGATCGAAGTGTTCATACC
87350615 TGATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
AACAAGAAAGAGATCGAAGTGTTCATACC
Found at i:87353280 original size:29 final size:30
Alignment explanation
Indices: 87353229--87353290 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
87353219 ACTTATTTTA
87353229 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
87353259 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
87353288 TTG
1 TTG
87353291 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:87358933 original size:28 final size:27
Alignment explanation
Indices: 87358865--87358938 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
87358855 CAATACACAA
* * ***
87358865 ATTAAAAATATAATAAAAAGTGGTTAT
1 ATTAAAAATAAAATAAAATGTAAATAT
*
87358892 ATTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAATGTAAATAT
87358920 GATTAAAAATAAAA-AAAAT
1 -ATTAAAAATAAAATAAAAT
87358939 ATATATTTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 13 0.34
28 17 0.45
29 8 0.21
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAATGTAAATAT
Found at i:87358942 original size:23 final size:23
Alignment explanation
Indices: 87358898--87358942 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87358888 TTATATTAAA
**
87358898 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAATAAAAATATG
87358921 ATTAAAAATAAAA-AAAATATAT
1 ATTAAAAATAAAATAAAA-ATAT
87358943 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATG
Done.