Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008308.1 Hibiscus syriacus cultivar Beakdansim tig00110998_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1044366
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:694274 original size:21 final size:21
Alignment explanation
Indices: 694254--694350 Score: 142
Period size: 21 Copynumber: 4.6 Consensus size: 21
694244 AGCTGAAGCA
* *
694254 AGAGAAGCAGAGAGAGTAGC-
1 AGAGAAGTAGAGAGAGCAGCG
*
694274 ACGAGAAGTAGAGAGAGCAACG
1 A-GAGAAGTAGAGAGAGCAGCG
694296 AGAGAAGTAGAGAGAGCAGCG
1 AGAGAAGTAGAGAGAGCAGCG
694317 AGAGAAGTAGAGAGAGCAGCG
1 AGAGAAGTAGAGAGAGCAGCG
*
694338 AGAGAAGCAGAGA
1 AGAGAAGTAGAGA
694351 CAAAAGCAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
20 1 0.01
21 68 0.97
22 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.40, T:0.04
Consensus pattern (21 bp):
AGAGAAGTAGAGAGAGCAGCG
Found at i:694962 original size:44 final size:44
Alignment explanation
Indices: 694903--695007 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
694893 CTATTTGGCG
* *
694903 AACCTTTTGCGGCG-TTT-GTATACTAAAACGCCGCTATATAACCT
1 AACCTTTAGCGGCGTTTTAGTATAC--AAACGCCGCTACATAACCT
* *
694947 AACCTTTAGCGGCGTTTTAGTATACAAACGTCGCTACATAACTT
1 AACCTTTAGCGGCGTTTTAGTATACAAACGCCGCTACATAACCT
* * *
694991 GACTTTTAGCTGCGTTT
1 AACCTTTAGCGGCGTTT
695008 ATTAGTAGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 43 0.83
45 3 0.06
46 6 0.12
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (44 bp):
AACCTTTAGCGGCGTTTTAGTATACAAACGCCGCTACATAACCT
Found at i:705773 original size:24 final size:24
Alignment explanation
Indices: 705741--705788 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
705731 AATTGAACGT
705741 GCGTGCATTCCCCCATGATCTCCC
1 GCGTGCATTCCCCCATGATCTCCC
705765 GCGTGCATTCCCCCATGATCTCCC
1 GCGTGCATTCCCCCATGATCTCCC
705789 ATGATTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.46, G:0.17, T:0.25
Consensus pattern (24 bp):
GCGTGCATTCCCCCATGATCTCCC
Found at i:707658 original size:22 final size:23
Alignment explanation
Indices: 707630--707677 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
707620 AATTTCATCC
707630 TTATATTATATAA-TATA-TATAT
1 TTATATTATA-AATTATATTATAT
707652 TTATATTATAAATTATATTATAT
1 TTATATTATAAATTATATTATAT
707675 TTA
1 TTA
707678 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATTATAAATTATATTATAT
Found at i:720597 original size:105 final size:105
Alignment explanation
Indices: 720415--720923 Score: 928
Period size: 105 Copynumber: 4.8 Consensus size: 105
720405 AGGTTTTACC
* *
720415 CAGAGCCAATGTCAACTTCACAACGAAGGATATTGGACTCCAGACAACATAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
720480 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
720520 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACATAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
720585 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
720625 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
720690 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
* * *
720730 CAAAGCCAATCTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* * *
720795 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
720835 CAGAGCCAATTTCAACTTCCCAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
720900 ACGAAGGGACCGCTGGTTGTCAAC
66 ACGAAGGGACCGCTGGTTGTCAAC
720924 AAGCAATTTC
Statistics
Matches: 391, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 391 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
Found at i:721327 original size:20 final size:20
Alignment explanation
Indices: 721302--721343 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
721292 CCAGAACTCT
721302 GAGTTCGACTTCAACTTCAC
1 GAGTTCGACTTCAACTTCAC
* *
721322 GAGTTCGATTTCAATTTCAC
1 GAGTTCGACTTCAACTTCAC
721342 GA
1 GA
721344 CGAAGGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (20 bp):
GAGTTCGACTTCAACTTCAC
Found at i:721583 original size:22 final size:23
Alignment explanation
Indices: 721555--721602 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
721545 AATTTCATCC
721555 TTATATTATATAA-TATA-TATAT
1 TTATATTATA-AATTATATTATAT
721577 TTATATTATAAATTATATTATAT
1 TTATATTATAAATTATATTATAT
721600 TTA
1 TTA
721603 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.08
22 14 0.58
23 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATTATAAATTATATTATAT
Found at i:732352 original size:2 final size:2
Alignment explanation
Indices: 732345--732373 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
732335 TATACATTTA
732345 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
732374 TATTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:732377 original size:10 final size:11
Alignment explanation
Indices: 732345--732379 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
732335 TATACATTTA
732345 ATATATATATAT
1 ATATATATAT-T
732357 ATATATATATT
1 ATATATATATT
732368 ATATAT-TATT
1 ATATATATATT
732378 AT
1 AT
732380 TTTTTAGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.26
11 7 0.30
12 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATATATATT
Found at i:733057 original size:58 final size:58
Alignment explanation
Indices: 732935--733049 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 58
732925 TCAAGTGATA
* * * * *
732935 ATTTTGTAACTTTTAATAGTCAAGGGACTCTAAAGCAGTTCCCTATAATTAGGGAATC
1 ATTTTGTAACTTTTAATAATCAAGAGACTCTAAAACAGTACCCTATAATTAAGGAATC
*
732993 ATTTTGTAACTTTTAATAATCAAGAGACTCAATAAAATAGTACCCTATAATTAAGGA
1 ATTTTGTAACTTTTAATAATCAAGAGACTC--TAAAACAGTACCCTATAATTAAGGA
733050 CTATTTGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
58 28 0.57
60 21 0.43
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (58 bp):
ATTTTGTAACTTTTAATAATCAAGAGACTCTAAAACAGTACCCTATAATTAAGGAATC
Found at i:733196 original size:20 final size:20
Alignment explanation
Indices: 733171--733214 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
733161 ACAATGAACC
* *
733171 CCGGCTGAAAACTGGTAGAA
1 CCGGCTGAAAACCGGTAAAA
733191 CCGGCTGAAAACCGGTAAAA
1 CCGGCTGAAAACCGGTAAAA
733211 CCGG
1 CCGG
733215 GGTGAACCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.25, G:0.30, T:0.11
Consensus pattern (20 bp):
CCGGCTGAAAACCGGTAAAA
Found at i:734771 original size:31 final size:33
Alignment explanation
Indices: 734731--734792 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
734721 CTTGGGAAAT
* *
734731 TATGTATTTAGTACCTAAACTATC-ATTTTTAA
1 TATGTATTTAATACCTAAACTAACAATTTTTAA
734763 TATG-ATTTAATACCTAAACTAACAATTTTT
1 TATGTATTTAATACCTAAACTAACAATTTTT
734793 TAAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (33 bp):
TATGTATTTAATACCTAAACTAACAATTTTTAA
Found at i:738208 original size:12 final size:12
Alignment explanation
Indices: 738193--738238 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
738183 CGGTTTTTTT
*
738193 ACCGGATAAAAA
1 ACCGGTTAAAAA
738205 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
738220 ACCGGTTAAAAA
1 ACCGGTTAAAAA
738232 ACCGGTT
1 ACCGGTT
738239 TTTATCCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:738220 original size:15 final size:13
Alignment explanation
Indices: 738199--738239 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
738189 TTTTACCGGA
738199 TAAAAAACCGGTT
1 TAAAAAACCGGTT
738212 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
738226 TAAAAAACCGGTT
1 TAAAAAACCGGTT
738239 T
1 T
738240 TTATCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:740489 original size:21 final size:21
Alignment explanation
Indices: 740465--740505 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
740455 AGTTTATTTT
740465 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
740486 TAAACTTTGTTTCAATTATC
1 TAAACTTTATTTCAATTATC
740506 TAACTTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:745299 original size:22 final size:22
Alignment explanation
Indices: 745277--745319 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
745267 TCATAATTAT
745277 TTAAAAA-ATTAAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
*
745298 TTAAAAATATTTAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
745320 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAAATATTAAATAAAAATA
Found at i:748354 original size:25 final size:25
Alignment explanation
Indices: 748318--748368 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
748308 TTAGTAATTC
*
748318 AATTTTTATTTTTTAATATTTATAT
1 AATTTTTATTTTTCAATATTTATAT
*
748343 AATTATTT-TTTTTCAATATTTCTAT
1 AATT-TTTATTTTTCAATATTTATAT
748368 A
1 A
748369 GTTTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
AATTTTTATTTTTCAATATTTATAT
Found at i:748709 original size:28 final size:32
Alignment explanation
Indices: 748678--748752 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 32
748668 TTATATATTT
*
748678 TATATAT-TAAATA-ACGAAAAGAAT-ATA-A
1 TATATATATAAATATACAAAAAGAATAATATA
* *
748706 TATATATATATATATGCAAAAAGAATAATATA
1 TATATATATAAATATACAAAAAGAATAATATA
*
748738 TATATATATATATAT
1 TATATATATAAATAT
748753 TATATGGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.17
29 5 0.12
30 9 0.22
31 3 0.08
32 16 0.40
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (32 bp):
TATATATATAAATATACAAAAAGAATAATATA
Found at i:748712 original size:30 final size:33
Alignment explanation
Indices: 748678--748746 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 33
748668 TTATATATTT
*
748678 TATATATTAAATA-ACGAAAAGAAT-ATA-ATA
1 TATATATTAAATATACAAAAAGAATAATATATA
* *
748708 TATATA-TATATATGCAAAAAGAATAATATATA
1 TATATATTAAATATACAAAAAGAATAATATATA
748740 TATATAT
1 TATATAT
748747 ATATATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 5 0.16
30 15 0.47
31 3 0.09
32 9 0.28
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (33 bp):
TATATATTAAATATACAAAAAGAATAATATATA
Found at i:748747 original size:30 final size:30
Alignment explanation
Indices: 748694--748752 Score: 100
Period size: 32 Copynumber: 1.9 Consensus size: 30
748684 TTAAATAACG
748694 AAAAGAATATAATATATATATATATATGCA
1 AAAAGAATATAATATATATATATATATGCA
748724 AAAAGAATAATATATATATATATATATAT
1 AAAAGAAT-ATA-ATATATATATATATAT
748753 TATATGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 8 0.30
31 3 0.11
32 16 0.59
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAGAATATAATATATATATATATATGCA
Found at i:750927 original size:3 final size:3
Alignment explanation
Indices: 750919--750997 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
750909 ATATTATAAA
* *
750919 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAC TAT AAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
750966 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
750998 AATATATTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:751005 original size:9 final size:10
Alignment explanation
Indices: 750993--751031 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
750983 TTATTATTAT
750993 TATTAAAT-A
1 TATTAAATAA
751002 TATTAAATACA
1 TATTAAATA-A
751013 TATATAAATAA
1 TAT-TAAATAA
751024 TATTAAAT
1 TATTAAAT
751032 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:751138 original size:16 final size:16
Alignment explanation
Indices: 751117--751153 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
751107 CCTAATCCCT
751117 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
751133 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
751149 A-CCGC
1 AGCCGC
751154 TGCCACGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.08, C:0.57, G:0.19, T:0.16
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:753056 original size:11 final size:13
Alignment explanation
Indices: 753008--753080 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
752998 ATAAATGAAA
753008 ATTTCATATAT-TT
1 ATTT-ATATATATT
753021 AATTTATAT-T-TT
1 -ATTTATATATATT
753033 -TTTATATACATATT
1 ATTTATAT--ATATT
* *
753047 ATTTTTATATAGT
1 ATTTATATATATT
753060 ATTTATATATATT
1 ATTTATATATATT
*
753073 ATTAATAT
1 ATTTATAT
753081 TTCATTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
10 7 0.14
12 3 0.06
13 27 0.55
14 6 0.12
15 6 0.12
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:753065 original size:17 final size:17
Alignment explanation
Indices: 753026--753057 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
753016 TATTTAATTT
753026 ATATT-TTTTTATATAC
1 ATATTATTTTTATATAC
753042 ATATTATTTTTATATA
1 ATATTATTTTTATATA
753058 GTATTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTATTTTTATATAC
Found at i:756394 original size:11 final size:11
Alignment explanation
Indices: 756378--756407 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
756368 TTTTGGCATA
756378 CATACATTTTG
1 CATACATTTTG
756389 CATACATTTTG
1 CATACATTTTG
756400 CATACATT
1 CATACATT
756408 CATCATTCAT
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:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (11 bp):
CATACATTTTG
Found at i:763746 original size:1 final size:1
Alignment explanation
Indices: 763740--763829 Score: 126
Period size: 1 Copynumber: 90.0 Consensus size: 1
763730 ATGCTTGAAG
* * * *
763740 AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAGAAAAGAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
763805 AGAAAAAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
763830 GGGGGGTCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:765102 original size:83 final size:83
Alignment explanation
Indices: 764963--765300 Score: 642
Period size: 83 Copynumber: 4.1 Consensus size: 83
764953 TGTAATGTAT
764963 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT-AGCAGAACCAATCATTGA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGA-CAGAACCAATCATTGA
765027 ATTTGGAAGATGAATTTGC
65 ATTTGGAAGATGAATTTGC
*
765046 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
765111 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
765129 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
765194 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
765212 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
765277 TTTGGAAGATGAATTTGC
66 TTTGGAAGATGAATTTGC
*
765295 TCATAG
1 TAATAG
765301 TAGAAATAAG
Statistics
Matches: 251, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
83 251 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (83 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAA
TTTGGAAGATGAATTTGC
Found at i:765395 original size:105 final size:105
Alignment explanation
Indices: 765213--765468 Score: 512
Period size: 105 Copynumber: 2.4 Consensus size: 105
765203 TGAATTTGCT
765213 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAT
765278 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGAATC
66 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGAATC
765318 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAT
765383 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGAATC
66 TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGAATC
765423 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
765469 GTAGGAACTA
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 151 1.00
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (105 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAAT
TTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGAATC
Found at i:766553 original size:113 final size:113
Alignment explanation
Indices: 766185--766629 Score: 633
Period size: 113 Copynumber: 3.9 Consensus size: 113
766175 ACTCAAATCT
** * *
766185 ATCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
766250 TAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGTTTGAATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTC
766298 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACATTGCCAGAG-AGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
* * *
766362 GGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTC
62 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTC
* *
766414 ATCATTTGATGGATCAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAATAAGGAA
1 ATCATTTGATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* ***
766479 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTC
* * * * *
766527 ATCAATTGATGGATTATCTTTTCCAGAGA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
766591 TAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTG
66 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
766630 CATAATTCTA
Statistics
Matches: 299, Mismatches: 28, Indels: 11
0.88 0.08 0.03
Matches are distributed among these distances:
112 69 0.23
113 123 0.41
114 1 0.00
115 1 0.00
116 105 0.35
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (113 bp):
ATCATTTGATGGATCAACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTC
Found at i:766965 original size:3 final size:3
Alignment explanation
Indices: 766957--767033 Score: 118
Period size: 3 Copynumber: 25.7 Consensus size: 3
766947 ATATTATAAA
* * *
766957 TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAC TAT AAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
767005 TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
767034 AATATATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:766965 original size:12 final size:12
Alignment explanation
Indices: 766948--767033 Score: 100
Period size: 12 Copynumber: 6.9 Consensus size: 12
766938 TTTTTACCCA
*
766948 TATTATAAATAT
1 TATTATAATTAT
*
766960 TATTATTATTAT
1 TATTATAATTAT
766972 TATTATAATTAT
1 TATTATAATTAT
766984 TATTACTATAATTAT
1 TA-T--TATAATTAT
*
766999 TATTATTATTAT
1 TATTATAATTAT
*
767011 TATTATCATTAT
1 TATTATAATTAT
*
767023 TATTATTATTA
1 TATTATAATTA
767034 AATATATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
12 52 0.80
13 1 0.02
14 1 0.02
15 11 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATAATTAT
Found at i:767041 original size:9 final size:10
Alignment explanation
Indices: 767029--767067 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
767019 TTATTATTAT
767029 TATTAAAT-A
1 TATTAAATAA
767038 TATTAAATACA
1 TATTAAATA-A
767049 TATATAAATAA
1 TAT-TAAATAA
767060 TATTAAAT
1 TATTAAAT
767068 TACAAGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 5 0.19
11 8 0.30
12 6 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TATTAAATAA
Found at i:767041 original size:15 final size:14
Alignment explanation
Indices: 766964--767042 Score: 81
Period size: 15 Copynumber: 5.5 Consensus size: 14
766954 AAATATTATT
766964 ATTATTATTATTATA
1 ATTATTATTATTA-A
*
766979 ATTATTATTACTATA
1 ATTATTATTATTA-A
766994 ATTATTATTATT--
1 ATTATTATTATTAA
* *
767006 ATTATTATTATCATT
1 ATTATTATTATTA-A
767021 ATTATTATTATTAA
1 ATTATTATTATTAA
767035 ATATATTA
1 AT-TATTA
767043 AATACATATA
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
12 11 0.20
14 2 0.04
15 42 0.76
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATTATTATTAA
Found at i:770735 original size:32 final size:33
Alignment explanation
Indices: 770691--770760 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
770681 ACCTTACAAC
* *
770691 TCCCTAG-TTTTTACGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTAACGGGATAAACTAGAACCTT
*
770723 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTA-ACGGGATAAACTAGAACCTT
770757 TCCC
1 TCCC
770761 CTTTACTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 22 0.67
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (33 bp):
TCCCTAGCTTTTAACGGGATAAACTAGAACCTT
Found at i:771150 original size:22 final size:21
Alignment explanation
Indices: 771105--771153 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
771095 ATCGTTAGAC
771105 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
* *
771126 GGGGGGAATCGGTACCTCCTA
1 GGGGGGAATCGGTACCCCCTG
771147 GGGGGGA
1 GGGGGGA
771154 GAGAATCTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.16, C:0.22, G:0.47, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:773350 original size:32 final size:33
Alignment explanation
Indices: 773306--773375 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
773296 ACCTTACAAC
* *
773306 TCCCTAG-TTTTTACGGGCTAAACTAGAACCTT
1 TCCCTAGCTTTTAACGGGATAAACTAGAACCTT
*
773338 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGCTTTTA-ACGGGATAAACTAGAACCTT
773372 TCCC
1 TCCC
773376 CTTTACTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 22 0.67
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (33 bp):
TCCCTAGCTTTTAACGGGATAAACTAGAACCTT
Found at i:775978 original size:12 final size:13
Alignment explanation
Indices: 775951--775983 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
775941 TAATATATCC
*
775951 TTTAAAATTATAT
1 TTTAAAAATATAT
775964 TTTAAAAAT-TAT
1 TTTAAAAATATAT
775976 TTTAAAAA
1 TTTAAAAA
775984 AATAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAAATATAT
Found at i:782254 original size:81 final size:81
Alignment explanation
Indices: 782131--782279 Score: 255
Period size: 81 Copynumber: 1.8 Consensus size: 81
782121 TTGTCACACT
*
782131 CTGATTTTACTGCCAAGGATGATAAACCTGCTTCTTTTCCTGATTCTAATGAGGTCTGTAACACT
1 CTGATTTTACTGCCAAGGATGATAAACCTGCTTCTTTTCCTGATTCTAATGAAGTCTGTAACACT
782196 TCAACATTGACACCAA
66 TCAACATTGACACCAA
* *
782212 CTGATTTTACTGCCAAGGATGATCAACCTAGC-TCTTTTCCTGATTCTAATGAAGTCTGTAATAC
1 CTGATTTTACTGCCAAGGATGATAAACCT-GCTTCTTTTCCTGATTCTAATGAAGTCTGTAACAC
782276 TTCA
65 TTCA
782280 TTACCATCTT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
81 62 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (81 bp):
CTGATTTTACTGCCAAGGATGATAAACCTGCTTCTTTTCCTGATTCTAATGAAGTCTGTAACACT
TCAACATTGACACCAA
Found at i:784350 original size:17 final size:17
Alignment explanation
Indices: 784308--784371 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
784298 AAACAACTAG
*
784308 ATGCATAAATGAAATAC
1 ATGCTTAAATGAAATAC
* * *
784325 TTCCCTAAATGAAATAC
1 ATGCTTAAATGAAATAC
* *
784342 ATGCTTAAATGCAATGC
1 ATGCTTAAATGAAATAC
* *
784359 ATGATTTAATGAA
1 ATGCTTAAATGAA
784372 CAACATACTT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (17 bp):
ATGCTTAAATGAAATAC
Found at i:795148 original size:22 final size:22
Alignment explanation
Indices: 795103--795154 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
795093 TTTATTGTCC
*
795103 ATATTTTTAATATAATATATAT
1 ATATATTTAATATAATATATAT
*
795125 ATATATTTAATATAATCTTAATAT
1 ATATATTTAATATAAT-AT-ATAT
795149 ATATAT
1 ATATAT
795155 AAGACATCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 15 0.58
23 1 0.04
24 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATATTTAATATAATATATAT
Found at i:798618 original size:109 final size:109
Alignment explanation
Indices: 798418--798623 Score: 245
Period size: 109 Copynumber: 1.9 Consensus size: 109
798408 AATATAATTA
* * * *
798418 TATATATACAACAAAGTTGAACTGTTCCACTAAAGCAATTGTTTAAAAGCCTTGACTTTATGGAT
1 TATATATACAACAAAGTTGAACTATTCCACTAAAACAATTGTTTAAAAGCCCTGACTTTATGAAT
** * * *
798483 AGATTTTTTTAGCTAACCAAATAAAGGCAAATATAATATATATG
66 AGATTCCTTCAGCTAACCAAACAAAGGAAAATATAATATATATG
* **
798527 TATATATACAATAAAGTTGAGTTATTCCTA-TAAAACAATTAG-TTAAAAGCCCTGACTTTATGA
1 TATATATACAACAAAGTTGAACTATTCC-ACTAAAACAATT-GTTTAAAAGCCCTGACTTTATGA
** *
798590 ATAGATTCCTTCAGCTTGCCGAACAAAGGAAAAT
64 ATAGATTCCTTCAGCTAACCAAACAAAGGAAAAT
798624 TAAATTAAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
109 78 0.98
110 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (109 bp):
TATATATACAACAAAGTTGAACTATTCCACTAAAACAATTGTTTAAAAGCCCTGACTTTATGAAT
AGATTCCTTCAGCTAACCAAACAAAGGAAAATATAATATATATG
Found at i:799128 original size:22 final size:22
Alignment explanation
Indices: 799089--799137 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
799079 GGGGCACTAT
*** *
799089 TTTTTCAAAACTTTATCAAATA
1 TTTTTCAAAACACCATCAAACA
799111 TTTTTCAAAACACCATCAAACA
1 TTTTTCAAAACACCATCAAACA
799133 TTTTT
1 TTTTT
799138 TCGAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTTCAAAACACCATCAAACA
Found at i:807899 original size:20 final size:20
Alignment explanation
Indices: 807871--807908 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
807861 AAGTCTCTAC
*
807871 GCGATTCGAGACTTTAAGTT
1 GCGAATCGAGACTTTAAGTT
807891 GCGAATCGAGACTTTAAG
1 GCGAATCGAGACTTTAAG
807909 ATGATTACTG
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:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (20 bp):
GCGAATCGAGACTTTAAGTT
Found at i:808435 original size:19 final size:19
Alignment explanation
Indices: 808413--808530 Score: 82
Period size: 19 Copynumber: 6.0 Consensus size: 19
808403 TCTGATGCGA
*
808413 AAAATATCAATACTCTTGG
1 AAAATATCGATACTCTTGG
808432 AAAATATCGATACT-TTAAGG
1 AAAATATCGATACTCTT--GG
* *
808452 TAAAGTATCGATGCTCTT-G
1 -AAAATATCGATACTCTTGG
808471 AAAATTATCGATACT-TTGAGG
1 AAAA-TATCGATACTCTT--GG
* *
808492 TAAAGTATCGATGCTCTT-G
1 -AAAATATCGATACTCTTGG
*
808511 AAACATATCAATACTCTTGG
1 AAA-ATATCGATACTCTTGG
808531 CCTGAAATCC
Statistics
Matches: 77, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
18 10 0.13
19 35 0.45
20 3 0.04
21 22 0.29
22 7 0.09
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (19 bp):
AAAATATCGATACTCTTGG
Found at i:808461 original size:21 final size:20
Alignment explanation
Indices: 808436--808503 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
808426 TCTTGGAAAA
808436 TATCGATACTTTAAGGTAAAG
1 TATCGATACTTT-AGGTAAAG
* * *
808457 TATCGATGCTCTT--GAAAAT
1 TATCGATACT-TTAGGTAAAG
808476 TATCGATACTTTGAGGTAAAG
1 TATCGATACTTT-AGGTAAAG
808497 TATCGAT
1 TATCGAT
808504 GCTCTTGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
18 2 0.05
19 13 0.35
21 20 0.54
22 2 0.05
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (20 bp):
TATCGATACTTTAGGTAAAG
Found at i:808469 original size:40 final size:39
Alignment explanation
Indices: 808425--808525 Score: 157
Period size: 40 Copynumber: 2.5 Consensus size: 39
808415 AATATCAATA
808425 CTCTTGGAAAATATCGATACTTTAAGGTAAAGTATCGATG
1 CTCTT-GAAAATATCGATACTTTAAGGTAAAGTATCGATG
*
808465 CTCTTGAAAATTATCGATACTTTGAGGTAAAGTATCGATG
1 CTCTTGAAAA-TATCGATACTTTAAGGTAAAGTATCGATG
*
808505 CTCTTGAAACATATCAATACT
1 CTCTTGAAA-ATATCGATACT
808526 CTTGGCCTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
39 5 0.09
40 51 0.89
41 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (39 bp):
CTCTTGAAAATATCGATACTTTAAGGTAAAGTATCGATG
Found at i:811877 original size:17 final size:17
Alignment explanation
Indices: 811857--811892 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
811847 TTATTGACAC
811857 CTTACTAATACTGACCA
1 CTTACTAATACTGACCA
811874 CTTACTAATACTGACCA
1 CTTACTAATACTGACCA
811891 CT
1 CT
811893 AGGTCCTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.31
Consensus pattern (17 bp):
CTTACTAATACTGACCA
Found at i:815458 original size:30 final size:30
Alignment explanation
Indices: 815422--815478 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
815412 CCTTATCCTG
815422 CAGCCTTATCACTTCCTAAATTTTCTCTCA
1 CAGCCTTATCACTTCCTAAATTTTCTCTCA
815452 CAGCCTTATCACTTCCTAAATTTTCTC
1 CAGCCTTATCACTTCCTAAATTTTCTC
815479 CAAACGCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.04, T:0.40
Consensus pattern (30 bp):
CAGCCTTATCACTTCCTAAATTTTCTCTCA
Found at i:819591 original size:21 final size:21
Alignment explanation
Indices: 819542--819591 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
819532 CAAAATCAAC
**
819542 AAAATAAATTAACAAAAAGCCT
1 AAAA-AAATTAACAAAAAAACT
* *
819564 AACAAAATTAACAAAAAAATT
1 AAAAAAATTAACAAAAAAACT
819585 AAAAAAA
1 AAAAAAA
819592 ATCCAACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (21 bp):
AAAAAAATTAACAAAAAAACT
Found at i:819604 original size:32 final size:34
Alignment explanation
Indices: 819530--819615 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 34
819520 AATGGTAATA
* *
819530 AACAAAATCAACAAAATAAATTAACAAAAAGCCT
1 AACAAAATTAACAAAATAAATTAAAAAAAAGCCT
*
819564 AACAAAATTAACAAAA-AAATTAAAAAAAATCC-
1 AACAAAATTAACAAAATAAATTAAAAAAAAGCCT
*
819596 AACGAAATTAACAAAATAAA
1 AACAAAATTAACAAAATAAA
819616 GTAAGTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
32 15 0.32
33 17 0.36
34 15 0.32
ACGTcount: A:0.69, C:0.14, G:0.02, T:0.15
Consensus pattern (34 bp):
AACAAAATTAACAAAATAAATTAAAAAAAAGCCT
Found at i:819653 original size:14 final size:14
Alignment explanation
Indices: 819636--819669 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
819626 AGTGATAAGT
819636 AATAAAAAAA-TTAC
1 AATAAAAAAAGTT-C
819650 AATAAAAAAAGTTC
1 AATAAAAAAAGTTC
819664 AATAAA
1 AATAAA
819670 CAACTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAAAAAGTTC
Found at i:819940 original size:3 final size:3
Alignment explanation
Indices: 819925--819968 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
819915 CTCCACGCTG
*
819925 TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
819969 GTTGTCGTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
TCA
Found at i:822247 original size:21 final size:21
Alignment explanation
Indices: 822223--822267 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
822213 TTTTTTTTAA
*
822223 AAAAATGAAAGTTTAGGTACT
1 AAAAATGAAAGTTTAGATACT
* **
822244 AAAACTGCTAGTTTAGATACT
1 AAAAATGAAAGTTTAGATACT
822265 AAA
1 AAA
822268 CTATTAAGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (21 bp):
AAAAATGAAAGTTTAGATACT
Found at i:823990 original size:2 final size:2
Alignment explanation
Indices: 823983--824039 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
823973 TTTGTAAAAC
823983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
824025 AG AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
824040 CCCCCATCCC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:824177 original size:35 final size:35
Alignment explanation
Indices: 824106--824178 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
824096 ACACATCATA
* **
824106 TAAGGCTCTGAGCACAAAGCCGAGGAACCGGTAAG
1 TAAGGCACTGAGCACAAAGCCGAGGAACCGCCAAG
* * *
824141 TAAGGCACTGAGCACACAGTCGAGGAACCTCCAAG
1 TAAGGCACTGAGCACAAAGCCGAGGAACCGCCAAG
824176 TAA
1 TAA
824179 TCTTCCTCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.12
Consensus pattern (35 bp):
TAAGGCACTGAGCACAAAGCCGAGGAACCGCCAAG
Found at i:824283 original size:24 final size:24
Alignment explanation
Indices: 824256--824346 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
824246 CATAATTCAA
*
824256 GTCAAGTATCATATAAGAATCCTG
1 GTCAAGTATCATATCAGAATCCTG
* *
824280 GTCATGTATCAGATCAGAATCCAT-
1 GTCAAGTATCATATCAGAATCC-TG
*
824304 GTCAA-TATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCTG
* *
824327 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
824347 TCAAATTTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
23 19 0.34
24 36 0.64
25 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCTG
Found at i:824330 original size:47 final size:48
Alignment explanation
Indices: 824256--824346 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
824246 CATAATTCAA
* * *
824256 GTCAAGTATCATATAAGAATCCTGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATAAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
* *
824304 GTCAA-TATCATATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATAAGAATCCAGGTCAGGTATCAGAACAGAAT
824347 TCAAATTTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (48 bp):
GTCAAGTATCATATAAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:826947 original size:49 final size:50
Alignment explanation
Indices: 826845--826949 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 50
826835 CGGGTCGGAT
* *
826845 AAACGGGTCGGGTCGGGTTATGATCGGTCAAACCGGTCAACTATGCACCA
1 AAACGGGTCCGGTCGGGTTATGACCGGTCAAACCGGTCAACTATGCACCA
826895 AAACGGGTCCGGTCGGGTTATGACCGGTC-AACCGGTCAACTATGCACCA
1 AAACGGGTCCGGTCGGGTTATGACCGGTCAAACCGGTCAACTATGCACCA
826944 AAACGG
1 AAACGG
826950 TCAAACCGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 26 0.49
50 27 0.51
ACGTcount: A:0.27, C:0.26, G:0.30, T:0.18
Consensus pattern (50 bp):
AAACGGGTCCGGTCGGGTTATGACCGGTCAAACCGGTCAACTATGCACCA
Found at i:835966 original size:17 final size:18
Alignment explanation
Indices: 835944--835977 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
835934 AAAATAAATG
835944 TCAAATTTATT-ATTATA
1 TCAAATTTATTAATTATA
835961 TCAAATTTATTAATTAT
1 TCAAATTTATTAATTAT
835978 CATGTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TCAAATTTATTAATTATA
Found at i:836530 original size:22 final size:22
Alignment explanation
Indices: 836488--836530 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
836478 ATAATTTTGA
* *
836488 AATAAATTTAAATTTTACTTAT
1 AATAAATTTAAACTTAACTTAT
836510 AATAAA-TTAAACTTAATCTTA
1 AATAAATTTAAACTTAA-CTTA
836531 CAAACACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
AATAAATTTAAACTTAACTTAT
Found at i:851323 original size:19 final size:19
Alignment explanation
Indices: 851270--851323 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
851260 AACCAATAAT
851270 AATAAACAT-AAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
851288 GATGAAA-AAAATGAAATTG
1 AATAAAATAAAAT-AAATTG
851307 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
851324 GAAGATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.18
18 4 0.14
19 14 0.50
20 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.24
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:851692 original size:2 final size:2
Alignment explanation
Indices: 851644--851674 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
851634 ATAGATAAAA
851644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
851675 GGAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:851735 original size:8 final size:9
Alignment explanation
Indices: 851720--851768 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
851710 AACAATTATA
851720 ATAATAAAT
1 ATAATAAAT
851729 A-AATAAAT
1 ATAATAAAT
851737 ATAATTAAAT
1 ATAA-TAAAT
*
851747 AT-ATACAT
1 ATAATAAAT
*
851755 AT-ATACAT
1 ATAATAAAT
851763 ATAATA
1 ATAATA
851769 TAAGGGTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 22 0.61
9 7 0.19
10 7 0.19
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (9 bp):
ATAATAAAT
Found at i:851742 original size:26 final size:27
Alignment explanation
Indices: 851713--851771 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
851703 AAATGAAAAC
851713 AATTATAATA-ATAAATAAATAAATAT
1 AATTATAATATATAAATAAATAAATAT
* * *
851739 AATTA-AATATATACATATATACATAT
1 AATTATAATATATAAATAAATAAATAT
851765 AA-TATAA
1 AATTATAA
851772 GGGTTAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (27 bp):
AATTATAATATATAAATAAATAAATAT
Found at i:852203 original size:37 final size:36
Alignment explanation
Indices: 852162--852253 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 36
852152 ATGCTTGTGG
*
852162 ATCCTATCTTTAGGAGTTTAAATAATAGTAGAACTCT
1 ATCCTATCTTTAGGAGTTTAAATAATAGCA-AACTCT
* * ** *
852199 ATCCTA-CTTTTAAGAGTTTGAATCCTAGCAAATTCT
1 ATCCTATC-TTTAGGAGTTTAAATAATAGCAAACTCT
* *
852235 ATCATATTTTTAGGAGTTT
1 ATCCTATCTTTAGGAGTTT
852254 GAGTCCTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
36 21 0.48
37 23 0.52
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (36 bp):
ATCCTATCTTTAGGAGTTTAAATAATAGCAAACTCT
Found at i:853206 original size:106 final size:106
Alignment explanation
Indices: 853013--854288 Score: 1917
Period size: 106 Copynumber: 12.0 Consensus size: 106
853003 AGCATTGTTC
* * * * * *
853013 CGAGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTATGGAATCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
853078 ACCAGTC-GTCCCTTTGTTGTGAAGTTAAACTTGTGTTGTCT
66 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
853119 CGAGTCCAATATTCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
853184 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* ** *
853225 CAAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
853290 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
853331 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCAGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
853396 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
853437 GGAGTCCAATATCCTTCGTTGTTAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGAAA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
853502 ATCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
853543 AGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
853608 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
853649 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
853714 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
853755 GGAGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
853820 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * *
853861 GGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
853926 ACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTAGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
853967 TGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * ** *
854032 ACCAGCCGTCCCTTCGTTGTGTTGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
854073 CGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
854138 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
854179 CGAATCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * *
854243 ACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
854284 CGAGT
1 CGAGT
854289 GGCACGATAT
Statistics
Matches: 1078, Mismatches: 91, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
105 66 0.06
106 1012 0.94
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:855881 original size:18 final size:18
Alignment explanation
Indices: 855860--855922 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 18
855850 TTTTTTATCC
*
855860 CTTTTTTTTAT-TTTTGTT
1 CTTTTTTTT-TGTTTTCTT
855878 CTTTTTTTTTGTTTTCTT
1 CTTTTTTTTTGTTTTCTT
* *
855896 CTTTTTTACTTCTTTTCTT
1 CTTTTTT-TTTGTTTTCTT
855915 -TTTTTTTT
1 CTTTTTTTT
855923 GCCCTTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 2 0.05
18 28 0.72
19 9 0.23
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (18 bp):
CTTTTTTTTTGTTTTCTT
Found at i:859228 original size:4 final size:4
Alignment explanation
Indices: 859219--859246 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
859209 AATGTTAATA
859219 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
859247 GACGAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:860347 original size:27 final size:27
Alignment explanation
Indices: 860310--860381 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
860300 AAATAAATAG
*
860310 TATAAATAAAATAATAAAATATATATA
1 TATATATAAAATAATAAAATATATATA
* *
860337 TATATATAAAAT-A-AAAATGTATGTA
1 TATATATAAAATAATAAAATATATATA
*
860362 TAATATAATAAAATACTAAA
1 T-ATAT-ATAAAATAATAAA
860382 TAGTAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 11 0.30
26 5 0.14
27 18 0.49
29 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (27 bp):
TATATATAAAATAATAAAATATATATA
Found at i:860559 original size:2 final size:2
Alignment explanation
Indices: 860552--860580 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
860542 AGATAAAATA
860552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
860581 AGAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:860596 original size:8 final size:9
Alignment explanation
Indices: 860549--860599 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
860539 CATAGATAAA
860549 ATAATATAT
1 ATAATATAT
860558 ATATATATAT
1 ATA-ATATAT
860568 ATATATATAT
1 ATA-ATATAT
* *
860578 ATAAGA-AA
1 ATAATATAT
860586 ATAATATAAT
1 ATAATAT-AT
860596 ATAA
1 ATAA
860600 CGCAAAGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.17
9 5 0.14
10 24 0.69
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (9 bp):
ATAATATAT
Found at i:861620 original size:2 final size:2
Alignment explanation
Indices: 861613--861641 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
861603 AAGAGTTAGC
861613 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
861642 ATTTGTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:864300 original size:85 final size:85
Alignment explanation
Indices: 864205--864513 Score: 408
Period size: 85 Copynumber: 3.6 Consensus size: 85
864195 TGACGGGCAA
* * * * * *
864205 TTGTGTGTCATAAATCTATGACGCGCAT-TAATGACGTT-CTTTGAGTGTCATTGAAGCCCCCGT
1 TTGTGCGTCATAAATTTATGACACGCATGT-ATGAC-TTACATTGTGCGTCATTGAAGCCCCCGT
864268 CATAAATTAAGATGACACACAT
64 CATAAATTAAGATGACACACAT
* * *
864290 TTGTGCGTCATAAATTTATGACACACATGTATGACTTACATTGTGCGTCATTGAATCCCTCGTCA
1 TTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGTGCGTCATTGAAGCCCCCGTCA
864355 TAAATTAAGATGACACACAT
66 TAAATTAAGATGACACACAT
* * *
864375 TTGTGCATCATAAATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCATCA
1 TTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGTGCGTCATTGAAGCCCCCGTCA
* * *
864440 TAAA-TATGCTTGACATACAT
66 TAAATTAAG-ATGACACACAT
* * *
864460 TTGTGTGTCATAAATTTATGACACGCATATATGACTTACATTGTGTGTCATTGA
1 TTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGTGCGTCATTGA
864514 TGCACACGTC
Statistics
Matches: 198, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
84 5 0.03
85 192 0.97
86 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (85 bp):
TTGTGCGTCATAAATTTATGACACGCATGTATGACTTACATTGTGCGTCATTGAAGCCCCCGTCA
TAAATTAAGATGACACACAT
Found at i:864339 original size:40 final size:40
Alignment explanation
Indices: 864290--864425 Score: 103
Period size: 40 Copynumber: 3.3 Consensus size: 40
864280 TGACACACAT
864290 TTGTGCGTCATAAATTTATGACACACATGTATGACTTACA
1 TTGTGCGTCATAAATTTATGACACACATGTATGACTTACA
* *** * * * **
864330 TTGTGCGTCATTGAATCCCTCGTCATAAAT-TAAGATGACACACA
1 TTGTGCGTCA-TAAATTTAT-GACACACATGT---ATGACTTACA
* *
864374 TTTGTGCATCATAAATTTATGACACGCATGTATGACTTACA
1 -TTGTGCGTCATAAATTTATGACACACATGTATGACTTACA
*
864415 TTGCGCGTCAT
1 TTGTGCGTCAT
864426 TGAAGCCCCC
Statistics
Matches: 67, Mismatches: 22, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
40 19 0.28
41 14 0.21
42 6 0.09
43 5 0.07
44 14 0.21
45 9 0.13
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (40 bp):
TTGTGCGTCATAAATTTATGACACACATGTATGACTTACA
Found at i:864580 original size:2 final size:2
Alignment explanation
Indices: 864573--864662 Score: 114
Period size: 2 Copynumber: 46.5 Consensus size: 2
864563 TTTCGGAAAT
864573 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
864614 TA TA TA -A TA TA TA -A TA AA TA AA TA AA TA AA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
864654 TA TA TA TA T
1 TA TA TA TA T
864663 TGTAGATTGA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
1 3 0.04
2 72 0.96
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:870538 original size:15 final size:15
Alignment explanation
Indices: 870514--870560 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
870504 TTTTTCCTTT
870514 TTTGACGTTTTCTTC
1 TTTGACGTTTTCTTC
*
870529 TTTGATGTTTTCTTC
1 TTTGACGTTTTCTTC
* *
870544 TTAGACGTTGTCTTC
1 TTTGACGTTTTCTTC
870559 TT
1 TT
870561 ACCCCATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.09, C:0.17, G:0.15, T:0.60
Consensus pattern (15 bp):
TTTGACGTTTTCTTC
Found at i:876604 original size:65 final size:65
Alignment explanation
Indices: 876466--876625 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
876456 TGTACTAAAA
* * * * *
876466 GTGCATCGATGCATGAAGTGAATTCGATG-TTTCAAAATAGTCTGAGTGCATCGATAAATGTCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGTCTGAGAGCATCGATAAATGTCGT
* **
876530 GTGCATCGATGCATCAAATGCATTCGATGTTTTCTTAAAA-A-TCTGAGAGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTC--AAAATAGTCTGAGAGCATCGATAAAT-GT
876593 -GT
63 CGT
876595 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
876626 CAATGTATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 26 0.31
65 51 0.61
66 3 0.04
67 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGTCTGAGAGCATCGATAAATGTCGT
Found at i:876661 original size:20 final size:20
Alignment explanation
Indices: 876636--876673 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
876626 CAATGTATTC
876636 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
876656 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
876674 TCCTTTGAAA
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:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:885256 original size:56 final size:55
Alignment explanation
Indices: 885147--885262 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
885137 ATGCATGAAG
* * * *
885147 TGCATTCGATGTTTCAAAATAGCCTGAGTTCATCGATGCATGTCTTGTACATCGA
1 TGCATTCGATGTTTCAAAATAACCTAAGTGCATCGATGCATGTCGTGTACATCGA
* *
885202 TGCATTCGATGTTTTTATAAA-AACCTAAGTGCATCGATGCATGGT-GTGTGCATCGA
1 TGCATTCGATG-TTTCA-AAATAACCTAAGTGCATCGATGCAT-GTCGTGTACATCGA
885258 TGCAT
1 TGCAT
885263 AAAATACATT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
55 11 0.21
56 36 0.69
57 5 0.10
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (55 bp):
TGCATTCGATGTTTCAAAATAACCTAAGTGCATCGATGCATGTCGTGTACATCGA
Found at i:885315 original size:20 final size:20
Alignment explanation
Indices: 885290--885327 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
885280 CAATTTATTC
885290 ATTGGTGCATCGATGCTTGG
1 ATTGGTGCATCGATGCTTGG
*
885310 ATTGGTGCATCGGTGCTT
1 ATTGGTGCATCGATGCTT
885328 TCCTTTGAAA
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:0.13, C:0.16, G:0.34, T:0.37
Consensus pattern (20 bp):
ATTGGTGCATCGATGCTTGG
Found at i:891681 original size:13 final size:13
Alignment explanation
Indices: 891663--891695 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
891653 AGCATTGTGA
891663 AAAGAAAATA-ATG
1 AAAGAAAATACA-G
891676 AAAGAAAATACAG
1 AAAGAAAATACAG
891689 AAAGAAA
1 AAAGAAA
891696 GATGAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAGAAAATACAG
Found at i:891949 original size:18 final size:19
Alignment explanation
Indices: 891914--891950 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
891904 CACGGAATGT
891914 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
891934 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
891951 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:899755 original size:11 final size:11
Alignment explanation
Indices: 899723--899751 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
899713 CTTCTTCTTA
899723 ATTTCTTCTCC
1 ATTTCTTCTCC
899734 ATTTCTTCTCC
1 ATTTCTTCTCC
899745 A-TTCTTC
1 ATTTCTTC
899752 CTCCCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTCTTCTCC
Found at i:900424 original size:20 final size:20
Alignment explanation
Indices: 900396--900447 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
900386 AAATATTTTT
*
900396 GGTACCGATACTGCAAGTAG
1 GGTATCGATACTGCAAGTAG
900416 GGTATCGATACTGCAAGTAG
1 GGTATCGATACTGCAAGTAG
900436 GGTATCGATACT
1 GGTATCGATACT
900448 ACTTACTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (20 bp):
GGTATCGATACTGCAAGTAG
Found at i:901829 original size:36 final size:36
Alignment explanation
Indices: 901789--901867 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
901779 CCCGTCCCTG
901789 TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
1 TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
**
901825 TCCCCGTCCCCGTTTAGTATAAACGGTTTTTCCCCA
1 TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
901861 TCCCCGT
1 TCCCCGT
901868 TTAATTCAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.16, C:0.39, G:0.13, T:0.32
Consensus pattern (36 bp):
TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
Found at i:904929 original size:19 final size:19
Alignment explanation
Indices: 904905--904974 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
904895 GATTTGATTC
904905 CCAACCTAAAATCCAGTTT
1 CCAACCTAAAATCCAGTTT
* *
904924 CCAACCTAAAAAACTAGTTT
1 CCAACCT-AAAATCCAGTTT
* *
904944 CCAACCTGAAAT-CTGATTT
1 CCAACCTAAAATCCAG-TTT
*
904963 CCAACCTGAAAT
1 CCAACCTAAAAT
904975 TTGATTCCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.02
19 25 0.58
20 17 0.40
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.26
Consensus pattern (19 bp):
CCAACCTAAAATCCAGTTT
Found at i:904979 original size:19 final size:19
Alignment explanation
Indices: 904941--904996 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
904931 AAAAAACTAG
904941 TTTCCAACCTGAAATCTGA
1 TTTCCAACCTGAAATCTGA
*
904960 TTTCCAACCTGAAATTTGA
1 TTTCCAACCTGAAATCTGA
*
904979 -TTCCTAACTTGAAATCTG
1 TTTCC-AACCTGAAATCTG
904997 GTTCCTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 4 0.12
19 29 0.88
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (19 bp):
TTTCCAACCTGAAATCTGA
Found at i:905001 original size:19 final size:19
Alignment explanation
Indices: 904942--905004 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
904932 AAAAACTAGT
904942 TTCC-AACCTGAAATCTGA
1 TTCCTAACCTGAAATCTGA
*
904960 TTTCC-AACCTGAAATTTGA
1 -TTCCTAACCTGAAATCTGA
* *
904979 TTCCTAACTTGAAATCTGG
1 TTCCTAACCTGAAATCTGA
904998 TTCCTAA
1 TTCCTAA
905005 TGCATAATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.10
19 35 0.90
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (19 bp):
TTCCTAACCTGAAATCTGA
Found at i:907014 original size:116 final size:117
Alignment explanation
Indices: 906810--907036 Score: 411
Period size: 116 Copynumber: 1.9 Consensus size: 117
906800 CTTATCATTC
* *
906810 AATATTTCCTTTATTCACTTCTAGCAATCCTATATAACTAGTGTTATTCTTTTTAGAATTACTAT
1 AATATTGCCTTTATTCACTTCTAGCAATCCTATATAACTAGTGTTATTCTTTCTAGAATTACTAT
906875 AGAAACTGAATTTGAATTCTTTTTCATA-TTTTTAATTGATGAACCCGTTTA
66 AGAAACTGAATTTGAATTCTTTTTCATATTTTTTAATTGATGAACCCGTTTA
* *
906926 AATATTGCCTTTATTCACTTTTAGCAATGCTATATAACTAGTGTTATTCTTTCTAGAATTACTAT
1 AATATTGCCTTTATTCACTTCTAGCAATCCTATATAACTAGTGTTATTCTTTCTAGAATTACTAT
906991 AGAAACTGAATTTGAATTCTTTTTCATATTTTTTAATTGATGAACC
66 AGAAACTGAATTTGAATTCTTTTTCATATTTTTTAATTGATGAACC
907037 TATTTATAAG
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
116 89 0.84
117 17 0.16
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.46
Consensus pattern (117 bp):
AATATTGCCTTTATTCACTTCTAGCAATCCTATATAACTAGTGTTATTCTTTCTAGAATTACTAT
AGAAACTGAATTTGAATTCTTTTTCATATTTTTTAATTGATGAACCCGTTTA
Found at i:913784 original size:17 final size:17
Alignment explanation
Indices: 913764--913813 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
913754 TTTAGGGAAG
913764 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
913781 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
913798 TAGTTCATTTATTAAA
1 TAGTTCATTAATTAAA
913814 TTAACTCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:920091 original size:17 final size:17
Alignment explanation
Indices: 920071--920120 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
920061 TTTAGGGAAG
920071 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
920088 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
920105 TAGTTCATTTATTAAA
1 TAGTTCATTAATTAAA
920121 TTAACTCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:926185 original size:20 final size:20
Alignment explanation
Indices: 926156--926193 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
926146 TTTCAAAAGA
926156 ATGCACCGATGCACCAATCT
1 ATGCACCGATGCACCAATCT
*
926176 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
926194 GAATAAATTA
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:0.32, C:0.32, G:0.16, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCT
Found at i:926314 original size:65 final size:63
Alignment explanation
Indices: 926156--926364 Score: 165
Period size: 65 Copynumber: 3.2 Consensus size: 63
926146 TTTCAAAAGA
* * * **
926156 ATGCACCGATGCACCAATCTATGCATCGATGCAC-CAATGAATAAATT-AAACATCGAATGCAGT
1 ATGCATCGATGCA-CAATCTATGCATCGATACACTCAA-G-CTATTTTGAAACATCGAATGCA-T
*
926219 TC
62 TG
* ** * * *
926221 ATGTATCGATGCACTCTCTATGCATCGATACACT-TAGGTTTTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACAATCTATGCATCGATACACTCAAGCTATTT-TG-AAACATCGAATGCA-TT
926285 G
63 G
* * * *
926286 ATGCATCGATGCACAATAC-ATGCCTCGATGCACTCAAGCTATTTTGAAACATCAAATGTATTG
1 ATGCATCGATGCACAAT-CTATGCATCGATACACTCAAGCTATTTTGAAACATCGAATGCATTG
926349 TATGCATCGATGCACA
1 -ATGCATCGATGCACA
926365 CTTAGTGCAC
Statistics
Matches: 115, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
62 2 0.02
63 5 0.04
64 45 0.39
65 56 0.49
66 7 0.06
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (63 bp):
ATGCATCGATGCACAATCTATGCATCGATACACTCAAGCTATTTTGAAACATCGAATGCATTG
Found at i:928331 original size:21 final size:21
Alignment explanation
Indices: 928307--928346 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
928297 GAGAAATTGT
928307 TTTTAAAATAT-AAAAATGATA
1 TTTTAAAAT-TGAAAAATGATA
*
928328 TTTTGAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
928347 AAACAATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATA
Found at i:934673 original size:18 final size:17
Alignment explanation
Indices: 934650--934715 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 17
934640 AATAAATTGA
934650 ACATCGAATGCAATTCAT
1 ACATCG-ATGCAATTCAT
934668 ACATCGATTGCAATTCAT
1 ACATCGA-TGCAATTCAT
* * *
934686 GCAACGATGCACTCTCCAT
1 ACATCGATGCAAT-T-CAT
934705 ACATCGATGCA
1 ACATCGATGCA
934716 CTCAGGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.15
18 22 0.55
19 12 0.30
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (17 bp):
ACATCGATGCAATTCAT
Found at i:934797 original size:65 final size:64
Alignment explanation
Indices: 934706--934827 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
934696 ACTCTCCATA
* * *
934706 CATCGATGCACTCAGGTTTTTATGAAAACATTGAATGCATT-TGATGTATCGATGCACAATACAT
1 CATCGATGCACTCAGGTATTTATG-AAACATCGAATGCATTGT-ATGCATCGATGCACAATACAT
934770 G
64 G
934771 CATCGATGCACTCAGGCTATTT-TGAAACATCGAATGCATTGTATGCATCGATGCACA
1 CATCGATGCACTCAGG-TATTTATGAAACATCGAATGCATTGTATGCATCGATGCACA
934828 CTTAGTTCAC
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
64 29 0.56
65 19 0.37
66 4 0.08
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (64 bp):
CATCGATGCACTCAGGTATTTATGAAACATCGAATGCATTGTATGCATCGATGCACAATACATG
Found at i:934846 original size:64 final size:65
Alignment explanation
Indices: 934668--934827 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
934658 TGCAATTCAT
* * * * ** * * *
934668 ACATCGATTGCAATTCATGCAACGATGCACTCTCCATACATCGATGCACTCAGGTTTTTATGAAA
1 ACATCGAATGCATTTGATGCATCGATGCACAATACATGCATCGATGCACTCAGGTATTTATGAAA
* *
934733 ACATTGAATGCATTTGATGTATCGATGCACAATACATGCATCGATGCACTCAGGCTATTT-TG-A
1 ACATCGAATGCATTTGATGCATCGATGCACAATACATGCATCGATGCACTCAGG-TATTTATGAA
934796 A
65 A
934797 ACATCGAATGCA-TTGTATGCATCGATGCACA
1 ACATCGAATGCATTTG-ATGCATCGATGCACA
934828 CTTAGTTCAC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
63 3 0.04
64 27 0.34
65 46 0.57
66 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (65 bp):
ACATCGAATGCATTTGATGCATCGATGCACAATACATGCATCGATGCACTCAGGTATTTATGAAA
Found at i:943540 original size:23 final size:23
Alignment explanation
Indices: 943502--943561 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
943492 ATCAAGTAAA
* * *
943502 ATAATAAATTACGTAGCGTTTAT
1 ATAATAAAATAGGTAGCGCTTAT
**
943525 ATAATGTAATAGGTAGCGCTTAT
1 ATAATAAAATAGGTAGCGCTTAT
943548 ATAATAAAATAGGT
1 ATAATAAAATAGGT
943562 TAATTACTGA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAATAAAATAGGTAGCGCTTAT
Found at i:943615 original size:23 final size:23
Alignment explanation
Indices: 943589--943648 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
943579 ATCAAGCATA
* *
943589 ATAACATATTAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
943612 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
943635 ATAATAAAATAGGT
1 ATAACATAATAGGT
943649 TAATTACTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:943620 original size:87 final size:87
Alignment explanation
Indices: 943489--943723 Score: 362
Period size: 87 Copynumber: 2.7 Consensus size: 87
943479 AATCGGAAAT
* * * *
943489 ATTATCAAGTAAAATAATAAATTACGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGCAAAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
943554 AAATAGGTTAATTACTGAAAAC
66 AAATAGGTTAATTACTGAAAAC
*
943576 ATTATCAAGCATAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGCAAAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
* *
943641 AAATAGGTTAATTACTGGAAAT
66 AAATAGGTTAATTACTGAAAAC
* * * * *
943663 ATTATTAAGCACAATAACATACTAGGTAACGTTTATATAATATAATAGGTAGCGCTTATAT
1 ATTATCAAGCAAAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATAT
943724 TGATCTATTC
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 136 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (87 bp):
ATTATCAAGCAAAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAGCGCTTATATAATA
AAATAGGTTAATTACTGAAAAC
Found at i:943711 original size:23 final size:23
Alignment explanation
Indices: 943676--943723 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
943666 ATTAAGCACA
* *
943676 ATAACATACTAGGTAACGTTTAT
1 ATAACATAATAGGTAACGCTTAT
* *
943699 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAACGCTTAT
943722 AT
1 AT
943724 TGATCTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAACGCTTAT
Found at i:944349 original size:200 final size:199
Alignment explanation
Indices: 943729--944403 Score: 900
Period size: 197 Copynumber: 3.4 Consensus size: 199
943719 TATATTGATC
*
943729 TATTCTATCATAAAA-CAGATATATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAA
1 TATTCTCTCATAAAACCAGATATATTTATACCGGT-ACATTGCAAATTTACCTATTACATTATAA
* * * *
943793 TTATCGGTTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCT
65 TTATCGGTTTCGATATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGTGTGCA
* * *
943856 CCTCGTTGGACATTCATTCTGGAAAAAAGTATTGACACAAACTTAAAACGTGTAGATACATTATG
129 CCTCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATG
943921 TAGACT
194 TAGACT
* * * * * ** * *
943927 TATTTTTTCAT-AAACCCGGTATATTTCTACCGGTACATTATAAATTTACCTAATACATTGTAAT
1 TATTCTCTCATAAAACCAGATATATTTATACCGGTACATTGCAAATTTACCTATTACATTATAAT
* * * *
943991 TATCGGTTTCTAT-TTTTTGGGATAGATACTTTTAATAAATTTATCGACACTTTATGTATGCACC
66 TATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACC
*
944055 TCGTTGGATATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTA
131 TCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTA
*
944120 GACA
196 GACT
* * *
944124 TATTTTCTCATAAAACC-GATATATTTCTACCGAGTACATTGCAAATTTACCTATTACATTGTAA
1 TATTCTCTCATAAAACCAGATATATTTATACCG-GTACATTGCAAATTTACCTATTACATTATAA
*
944188 TTATCGGTTTCAATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCAC
65 TTATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCAC
* *** *
944253 CTCGTTTGG-CATTCATTCTGGACAAAATGTATCGACAC-TTTTTAAATTTGTGTCGATACATTA
130 CTCG-TTGGACATTCATTCTGGA-AAAAAGTATCGACACAAACTTAAA-ATGTGTCGATACATTA
944316 TGTAGACT
192 TGTAGACT
** * *
944324 TATTCTCTCATAAAACCAG-TATATTTATATTGGTTACATTGTAAATTTACCTATTATATTATAA
1 TATTCTCTCATAAAACCAGATATATTTATACCGG-TACATTGCAAATTTACCTATTACATTATAA
944388 TTATCGGTTTCGATAT
65 TTATCGGTTTCGATAT
944404 AACATATGTG
Statistics
Matches: 421, Mismatches: 45, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
195 3 0.01
196 15 0.04
197 154 0.37
198 71 0.17
199 69 0.16
200 108 0.26
201 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (199 bp):
TATTCTCTCATAAAACCAGATATATTTATACCGGTACATTGCAAATTTACCTATTACATTATAAT
TATCGGTTTCGATATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACC
TCGTTGGACATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAATGTGTCGATACATTATGTA
GACT
Found at i:944545 original size:31 final size:30
Alignment explanation
Indices: 944504--944597 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
944494 TTATAATAAA
*
944504 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
944534 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
* * *
944564 TTATAAAAT-T-ATAGAT-ATAATATTTTAA
1 TAATAAAATATAATA-ATAATAATTTTTTAT
944592 TAATAA
1 TAATAA
944598 TATTGACATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
28 18 0.33
29 5 0.09
30 24 0.44
31 8 0.15
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:944597 original size:14 final size:14
Alignment explanation
Indices: 944515--944601 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 14
944505 AATAAATATA
**
944515 ATTTATAATAATTTT
1 ATTT-TAATAATAAT
944530 ATTTTAATAA-AAT
1 ATTTTAATAATAAT
** *
944543 ATAATAATCATAAT
1 ATTTTAATAATAAT
* * * *
944557 TTTTTATTTATAAA
1 ATTTTAATAATAAT
*
944571 ATTATAGAT-ATAAT
1 ATTTTA-ATAATAAT
944585 ATTTTAATAATAAT
1 ATTTTAATAATAAT
944599 ATT
1 ATT
944602 GACATAAATA
Statistics
Matches: 53, Mismatches: 16, Indels: 7
0.70 0.21 0.09
Matches are distributed among these distances:
13 10 0.19
14 38 0.72
15 5 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
ATTTTAATAATAAT
Found at i:944597 original size:28 final size:28
Alignment explanation
Indices: 944529--944597 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
944519 ATAATAATTT
*
944529 TATTTTAATAA-AATATAATAATCATAA
1 TATTTTAATAATAAAATAATAATCATAA
* * * *
944556 TTTTTTATTTATAAAATTATAGAT-ATAA
1 TATTTTAATAATAAAATAATA-ATCATAA
944584 TATTTTAATAATAA
1 TATTTTAATAATAA
944598 TATTGACATA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 8 0.25
28 22 0.69
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
TATTTTAATAATAAAATAATAATCATAA
Found at i:945064 original size:21 final size:20
Alignment explanation
Indices: 944978--945135 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
944968 AAATGACCAA
**
944978 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
944997 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
945017 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
945037 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
945058 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
945079 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
945099 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
945120 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
945136 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:945126 original size:20 final size:20
Alignment explanation
Indices: 945102--945351 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
945092 CGATTTTCCA
** *
945102 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
945122 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
945142 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
945162 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
945182 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
945202 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
945222 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
945242 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
945262 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
945282 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
945302 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
945322 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
945342 AAATCACAAC
1 AAATCGCAAC
945352 ACTGAAATTT
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:946073 original size:24 final size:24
Alignment explanation
Indices: 946034--946080 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
946024 AAATTTGGTC
946034 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
946058 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
946081 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:946272 original size:12 final size:12
Alignment explanation
Indices: 946255--946279 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
946245 ATATAATCCT
946255 GAAGAAGAAAAA
1 GAAGAAGAAAAA
946267 GAAGAAGAAAAA
1 GAAGAAGAAAAA
946279 G
1 G
946280 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:948653 original size:19 final size:19
Alignment explanation
Indices: 948613--948710 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
948603 GATTCTCTCG
948613 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
948633 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
948652 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
948666 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
948685 TTGCGATTTTCATTTCTCA
1 TTGCGATTTTCATTTCGCA
948704 TTGCGAT
1 TTGCGAT
948711 AGTCAATTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 35 0.50
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:948707 original size:52 final size:53
Alignment explanation
Indices: 948594--948710 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
948584 GAAATGAAAA
948594 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
948647 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
948699 TCTCATTGCGAT
1 TCGCATTGCGAT
948711 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:948806 original size:14 final size:14
Alignment explanation
Indices: 948787--948841 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
948777 CGGAAATGAA
948787 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
948801 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
948820 AATCGCAACGAGAG
1 AATCGCAACGAGAG
948834 AATCGCAA
1 AATCGCAA
948842 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:948821 original size:33 final size:33
Alignment explanation
Indices: 948769--948860 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
948759 CCATTACATT
948769 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
948803 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
948836 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
948861 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 49 0.84
34 9 0.16
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:948860 original size:52 final size:52
Alignment explanation
Indices: 948801--948917 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
948791 GCAACGAGAG
948801 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
948853 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
948905 AATCGCATTGCGA
1 AATCGCAATGCGA
948918 TTCTCCCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:948966 original size:19 final size:19
Alignment explanation
Indices: 948924--949023 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
948914 GCGATTCTCC
948924 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
948944 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
948963 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
948979 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
948996 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
949015 CATTGCGAT
1 CATTGCGAT
949024 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:949020 original size:52 final size:53
Alignment explanation
Indices: 948907--949023 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
948897 GAAATTAAAA
948907 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
948960 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
949012 TCGCATTGCGAT
1 TCGCATTGCGAT
949024 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:949148 original size:14 final size:14
Alignment explanation
Indices: 949129--949165 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
949119 CATCAATTAC
949129 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
949143 ACAAATCATCTTTT
1 ACAAATCAACTTTT
949157 ACAAATCAA
1 ACAAATCAA
949166 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:951162 original size:14 final size:14
Alignment explanation
Indices: 951143--951199 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
951133 GCGAAATGAA
*
951143 AATCGCAACGACAG
1 AATCGCAACGAAAG
951157 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
951174 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
951190 AATCGCAACG
1 AATCGCAACG
951200 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:951170 original size:33 final size:33
Alignment explanation
Indices: 951124--951216 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
951114 GCGAAACCAA
*
951124 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
951157 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
951190 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
951217 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Done.