Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 268 of 310
Found at i:88419459 original size:23 final size:23
Alignment explanation
Indices: 88419429--88419500 Score: 126
Period size: 23 Copynumber: 3.1 Consensus size: 23
88419419 CCTAACCTCT
* *
88419429 TTTAATAACTGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
88419452 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
88419475 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
88419498 TTT
1 TTT
88419501 TACACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:88419577 original size:20 final size:20
Alignment explanation
Indices: 88419552--88419590 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
88419542 TATGATTACA
88419552 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
88419572 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
88419591 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:88419596 original size:20 final size:20
Alignment explanation
Indices: 88419553--88419597 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
88419543 ATGATTACAT
**
88419553 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
88419573 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
88419593 CATGT
1 CATGT
88419598 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:88429058 original size:31 final size:31
Alignment explanation
Indices: 88429020--88429093 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
88429010 TAGAAAAATG
88429020 GGCTCACACGCCCATGTGACATGCCCGTGTA
1 GGCTCACACGCCCATGTGACATGCCCGTGTA
* * *
88429051 GGCTCACAAGCCCATGTGACATGCCTGTGTG
1 GGCTCACACGCCCATGTGACATGCCCGTGTA
88429082 GGC-CTACACGCC
1 GGCTC-ACACGCC
88429094 TGTGTGGCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.19
Consensus pattern (31 bp):
GGCTCACACGCCCATGTGACATGCCCGTGTA
Found at i:88431909 original size:21 final size:21
Alignment explanation
Indices: 88431880--88431921 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
88431870 CCTAAGGTTC
*
88431880 AACCTAAATTTCACACTTGCT
1 AACCGAAATTTCACACTTGCT
88431901 AACCGAAATTTCACACTTGCT
1 AACCGAAATTTCACACTTGCT
88431922 GAATCGTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (21 bp):
AACCGAAATTTCACACTTGCT
Found at i:88439340 original size:17 final size:18
Alignment explanation
Indices: 88439313--88439346 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88439303 AATCAAGTAT
88439313 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
88439331 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
88439347 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:88443285 original size:35 final size:35
Alignment explanation
Indices: 88443226--88443296 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
88443216 GCATTTCTTT
* *
88443226 GTCTGCTTCAAAGTCTAGAATAACAAAATCAGCAG
1 GTCTCCTTCAAAGCCTAGAATAACAAAATCAGCAG
** *
88443261 GTCTCCTTCAAAGCCTAGGGTAACAAAATTAGCAG
1 GTCTCCTTCAAAGCCTAGAATAACAAAATCAGCAG
88443296 G
1 G
88443297 AAAGATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (35 bp):
GTCTCCTTCAAAGCCTAGAATAACAAAATCAGCAG
Found at i:88448320 original size:37 final size:37
Alignment explanation
Indices: 88448279--88448354 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
88448269 TGTTATTTTA
* *
88448279 ACTTTTTAGGCTACACATGTAAGAAAATAATTGATAC
1 ACTTTTTAGACTACACATGTAAAAAAATAATTGATAC
* *
88448316 ACTTTTTAGACTACACATGTAAAAAAATACTTTATAC
1 ACTTTTTAGACTACACATGTAAAAAAATAATTGATAC
88448353 AC
1 AC
88448355 ATTCTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (37 bp):
ACTTTTTAGACTACACATGTAAAAAAATAATTGATAC
Found at i:88448957 original size:23 final size:23
Alignment explanation
Indices: 88448930--88448985 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
88448920 AACTTATCAA
88448930 TTTAAATATTATAATATAAA-ATT
1 TTTAAATATTATAAT-TAAACATT
88448953 TTTAAATA--ATAATTAAAGCATT
1 TTTAAATATTATAATTAAA-CATT
88448975 TTTAATATATT
1 TTTAA-ATATT
88448986 CAACATACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 8 0.29
23 11 0.39
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTAAATATTATAATTAAACATT
Found at i:88448964 original size:21 final size:22
Alignment explanation
Indices: 88448930--88448984 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
88448920 AACTTATCAA
88448930 TTTAAATATTATAATATAAA-ATT
1 TTTAAATA-TATAAT-TAAACATT
88448953 TTTAAATA-ATAATTAAAGCATT
1 TTTAAATATATAATTAAA-CATT
88448975 TTT-AATATAT
1 TTTAAATATAT
88448985 TCAACATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.14
21 9 0.31
22 8 0.28
23 8 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAAATATATAATTAAACATT
Found at i:88453808 original size:30 final size:28
Alignment explanation
Indices: 88453768--88453833 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 28
88453758 TTAAATTTAA
88453768 TAAATAATTAATATTA-ATTACTTAAAAATAT
1 TAAA-AATTAATATTATA-TA-TT-AAAATAT
*
88453799 TTAAAATTAATATTATATATTAAAATAT
1 TAAAAATTAATATTATATATTAAAATAT
88453827 TAAAAAT
1 TAAAAAT
88453834 AAGTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 13 0.41
29 2 0.06
30 13 0.41
31 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAAATTAATATTATATATTAAAATAT
Found at i:88454052 original size:26 final size:27
Alignment explanation
Indices: 88454006--88454059 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
88453996 TTAAACCAAA
*
88454006 TTTTTCAAAAGCATTTCTCAAAAGTAT
1 TTTTTCAAAAGCATTTCTCAAAACTAT
*
88454033 TTTTTCACAA-CACTTT-TCAAAACTAT
1 TTTTTCAAAAGCA-TTTCTCAAAACTAT
88454059 T
1 T
88454060 GCCAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.43
Consensus pattern (27 bp):
TTTTTCAAAAGCATTTCTCAAAACTAT
Found at i:88454338 original size:24 final size:24
Alignment explanation
Indices: 88454311--88454357 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88454301 TGTTAAAATC
88454311 ATTAATTAAAAATAATT-TTTTTAA
1 ATTAATTAAAAA-AATTATTTTTAA
*
88454335 ATTATTTAAAAAAATTATTTTTA
1 ATTAATTAAAAAAATTATTTTTA
88454358 TTGCTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTAATTAAAAAAATTATTTTTAA
Found at i:88455601 original size:3 final size:3
Alignment explanation
Indices: 88455595--88455644 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
88455585 GAAGAAGAAA
* * * *
88455595 ATG ATG ATA ATG ATG ATG GTG ATG GTG ATG GTG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
88455643 AT
1 AT
88455645 TACATAAGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:88462889 original size:68 final size:68
Alignment explanation
Indices: 88462783--88462966 Score: 190
Period size: 68 Copynumber: 2.7 Consensus size: 68
88462773 TGTCCTGGTG
* * * * * * * * *
88462783 GACTTTATATGCTACCATAGCCTAACTATGGCCTTACACTATAAGTTGTCATGTTTCCTATCCTG
1 GACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACAATAAGATGTCATGTTTACTATCCTG
88462848 ACTA
66 AC-A
* * * * *
88462852 -ACTTCATATTTTGCCATAGCCCAGCTATGGTCATACACAATATGATGTCATGTTTACTGTCCTT
1 GACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACAATAAGATGTCATGTTTACTATCCTG
88462916 ACA
66 ACA
* * * *
88462919 GACTTCATATGTTGTCGTAGTCCAGCTATGGTCTTACACAATATGATG
1 GACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACAATAAGATG
88462967 CCATACTTTC
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
67 1 0.01
68 94 0.99
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (68 bp):
GACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACAATAAGATGTCATGTTTACTATCCTG
ACA
Found at i:88472692 original size:12 final size:12
Alignment explanation
Indices: 88472675--88472706 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
88472665 CGACTCAGTG
88472675 CATTGGCCATCA
1 CATTGGCCATCA
88472687 CATTGGCCATCA
1 CATTGGCCATCA
88472699 CATTGGCC
1 CATTGGCC
88472707 TTACCTAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (12 bp):
CATTGGCCATCA
Found at i:88479929 original size:21 final size:22
Alignment explanation
Indices: 88479905--88479952 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
88479895 TGCATTAGAA
*
88479905 TATTATTTACTT-ATT-TTAGTT
1 TATTACTTACTTAATTCTTAG-T
*
88479926 TATTACTTAGTTAATTCTTAGT
1 TATTACTTACTTAATTCTTAGT
88479948 TATTA
1 TATTA
88479953 GATCACCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (22 bp):
TATTACTTACTTAATTCTTAGT
Found at i:88484189 original size:6 final size:6
Alignment explanation
Indices: 88484178--88484205 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
88484168 AATTCTACAA
88484178 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
88484206 CCCAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:88487310 original size:11 final size:11
Alignment explanation
Indices: 88487274--88487329 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
88487264 CATGGTATGT
88487274 ATGATATGCAC
1 ATGATATGCAC
* *
88487285 ATGACATG--T
1 ATGATATGCAC
88487294 ATGATATGCAC
1 ATGATATGCAC
*
88487305 ATGATATG--T
1 ATGATATGCAC
88487314 ATGATATGCAC
1 ATGATATGCAC
88487325 ATGAT
1 ATGAT
88487330 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88487329 original size:20 final size:20
Alignment explanation
Indices: 88487263--88487329 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
88487253 ATTTTGATAA
*
88487263 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88487283 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88487303 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88487323 ACATGAT
1 ACATGAT
88487330 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88487466 original size:24 final size:24
Alignment explanation
Indices: 88487378--88487523 Score: 190
Period size: 25 Copynumber: 6.0 Consensus size: 24
88487368 GGAGGAAGTG
*
88487378 TAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
88487402 GATAAAGGGCTTATGCCCCATTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
88487427 GATAAAA-GGCTTATGCCCCAGTTAT
1 --TAAAAGGGCTTATGCCCCAGTTAT
88487452 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
88487476 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
88487499 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
88487524 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
23 24 0.22
24 36 0.33
25 45 0.41
26 3 0.03
27 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:88487496 original size:47 final size:49
Alignment explanation
Indices: 88487378--88487525 Score: 196
Period size: 47 Copynumber: 3.0 Consensus size: 49
88487368 GGAGGAAGTG
* * *
88487378 TAAAAGGGCTTATGCCTCAGTTATGATAAAGGGCTTATGCCCCATTTATGA
1 TAAAAGGGCTTATGCCCCAGTTATTA-AAAGGGCTTATGCCCCAGTTAT-A
88487429 TAAAA-GGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT-
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATA
*
88487476 TAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATA
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTATGCC-CCAGTTATA
88487525 T
1 T
88487526 GATAAAGCAA
Statistics
Matches: 89, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
47 28 0.31
48 16 0.18
49 22 0.25
50 18 0.20
51 5 0.06
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (49 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATA
Found at i:88497054 original size:45 final size:45
Alignment explanation
Indices: 88497003--88497091 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
88496993 AATCAGTGAC
*
88497003 AGTATTCAACACACAAAGTG-CTGAATCTGTAACAGTAATGGTAAT
1 AGTATTCAACACACAAAGTGTC-GAATCGGTAACAGTAATGGTAAT
*
88497048 AGTATTCGACACACAAAGTGTCGAATCGGTAACAGTAATGGTAA
1 AGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAATGGTAA
88497092 CAATAACAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (45 bp):
AGTATTCAACACACAAAGTGTCGAATCGGTAACAGTAATGGTAAT
Found at i:88498713 original size:20 final size:19
Alignment explanation
Indices: 88498686--88498727 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
88498676 ATATAAAACC
88498686 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
88498705 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
88498725 ATA
1 ATA
88498728 TATATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:88499315 original size:11 final size:11
Alignment explanation
Indices: 88499299--88499323 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88499289 ATATTATATA
88499299 ATTACACATAC
1 ATTACACATAC
88499310 ATTACACATAC
1 ATTACACATAC
88499321 ATT
1 ATT
88499324 TTCAAGTTCC
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:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTACACATAC
Found at i:88500632 original size:23 final size:23
Alignment explanation
Indices: 88500602--88500647 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
88500592 ATAACTTTCC
*
88500602 TTATTTCAATGTATTGGTTGGTT
1 TTATTTCAATGTATTGCTTGGTT
88500625 TTATTTCAATGTATTGCTTGGTT
1 TTATTTCAATGTATTGCTTGGTT
88500648 CATATACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.57
Consensus pattern (23 bp):
TTATTTCAATGTATTGCTTGGTT
Found at i:88514318 original size:302 final size:302
Alignment explanation
Indices: 88513772--88514376 Score: 1210
Period size: 302 Copynumber: 2.0 Consensus size: 302
88513762 ACATTCACAT
88513772 AGTTAACTAAATCACTTTATTAACACACATTCTCATACCCATACTTACTTCACACTTCACCCACA
1 AGTTAACTAAATCACTTTATTAACACACATTCTCATACCCATACTTACTTCACACTTCACCCACA
88513837 TAGGTACACAAGGTATCAACCTTTATAAAAGCCGAGAATTCGTTAGCCGATCGCACGAATACCAT
66 TAGGTACACAAGGTATCAACCTTTATAAAAGCCGAGAATTCGTTAGCCGATCGCACGAATACCAT
88513902 TTAAAACAAACCGACTTTCCAATGCACATGCAAACATACCTTATCATTCGGGTTGGTCAAGCATA
131 TTAAAACAAACCGACTTTCCAATGCACATGCAAACATACCTTATCATTCGGGTTGGTCAAGCATA
88513967 ATTATTAAATTAATTACAGCACAAAATGCTCACATTCAACCCAAGTTTCTTCGGTATTTAACCGA
196 ATTATTAAATTAATTACAGCACAAAATGCTCACATTCAACCCAAGTTTCTTCGGTATTTAACCGA
88514032 ATGCAACCGCAAACACATTTGCCTTCGGGTCTTAGCCCGAAC
261 ATGCAACCGCAAACACATTTGCCTTCGGGTCTTAGCCCGAAC
88514074 AGTTAACTAAATCACTTTATTAACACACATTCTCATACCCATACTTACTTCACACTTCACCCACA
1 AGTTAACTAAATCACTTTATTAACACACATTCTCATACCCATACTTACTTCACACTTCACCCACA
88514139 TAGGTACACAAGGTATCAACCTTTATAAAAGCCGAGAATTCGTTAGCCGATCGCACGAATACCAT
66 TAGGTACACAAGGTATCAACCTTTATAAAAGCCGAGAATTCGTTAGCCGATCGCACGAATACCAT
88514204 TTAAAACAAACCGACTTTCCAATGCACATGCAAACATACCTTATCATTCGGGTTGGTCAAGCATA
131 TTAAAACAAACCGACTTTCCAATGCACATGCAAACATACCTTATCATTCGGGTTGGTCAAGCATA
88514269 ATTATTAAATTAATTACAGCACAAAATGCTCACATTCAACCCAAGTTTCTTCGGTATTTAACCGA
196 ATTATTAAATTAATTACAGCACAAAATGCTCACATTCAACCCAAGTTTCTTCGGTATTTAACCGA
88514334 ATGCAACCGCAAACACATTTGCCTTCGGGTCTTAGCCCGAAC
261 ATGCAACCGCAAACACATTTGCCTTCGGGTCTTAGCCCGAAC
88514376 A
1 A
88514377 TATCAACTCG
Statistics
Matches: 303, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
302 303 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (302 bp):
AGTTAACTAAATCACTTTATTAACACACATTCTCATACCCATACTTACTTCACACTTCACCCACA
TAGGTACACAAGGTATCAACCTTTATAAAAGCCGAGAATTCGTTAGCCGATCGCACGAATACCAT
TTAAAACAAACCGACTTTCCAATGCACATGCAAACATACCTTATCATTCGGGTTGGTCAAGCATA
ATTATTAAATTAATTACAGCACAAAATGCTCACATTCAACCCAAGTTTCTTCGGTATTTAACCGA
ATGCAACCGCAAACACATTTGCCTTCGGGTCTTAGCCCGAAC
Found at i:88518642 original size:40 final size:40
Alignment explanation
Indices: 88518589--88519140 Score: 771
Period size: 40 Copynumber: 13.8 Consensus size: 40
88518579 AGATATAGCT
* * *
88518589 ACTCGCTCGAATGCCTTCGGGACTTAGCCTGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
88518629 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
88518669 ACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88518709 ACTCGCA-ACAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88518749 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
88518789 ACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88518829 ACTCGCA-ACAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88518869 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
88518909 ACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88518949 ACTCGCA-ACAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88518989 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
88519029 ACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88519069 ACTCGCA-ACAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACA-AATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
88519109 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
88519141 TTATCGTCCG
Statistics
Matches: 460, Mismatches: 37, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
39 10 0.02
40 438 0.95
41 12 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:88518802 original size:120 final size:120
Alignment explanation
Indices: 88518598--88519140 Score: 1027
Period size: 120 Copynumber: 4.5 Consensus size: 120
88518588 TACTCGCTCG
* * *
88518598 AATGCCTTCGGGACTTAGCCTGG-ATATAGT-AGTTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGG
88518661 ATATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
64 ATATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
88518718 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
88518783 ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
66 ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
88518838 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
88518903 ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
66 ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
88518958 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
88519023 ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
66 ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
88519078 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
88519141 TTATCGTCCG
Statistics
Matches: 418, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
120 415 0.99
121 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (120 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTCGCACAAATACCTTAGGGACTTAGCCCGGAATTAGTAACTCGCAAC
Found at i:88522902 original size:26 final size:26
Alignment explanation
Indices: 88522865--88522915 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
88522855 ACCGTTTTAT
*
88522865 CCAACACTAGGTAAGTCCTTAAGCAC
1 CCAACACAAGGTAAGTCCTTAAGCAC
88522891 CCAACACAAGGTAAGTCCTTAAGCA
1 CCAACACAAGGTAAGTCCTTAAGCA
88522916 TTTTTGTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (26 bp):
CCAACACAAGGTAAGTCCTTAAGCAC
Found at i:88525258 original size:16 final size:15
Alignment explanation
Indices: 88525233--88525262 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88525223 AACTGTTTTA
88525233 TTACTAATTTCACTC
1 TTACTAATTTCACTC
88525248 TTACATAATTTCACT
1 TTAC-TAATTTCACT
88525263 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (15 bp):
TTACTAATTTCACTC
Found at i:88525544 original size:49 final size:50
Alignment explanation
Indices: 88525472--88525750 Score: 278
Period size: 49 Copynumber: 5.6 Consensus size: 50
88525462 ATTTGGTACG
* * * * *
88525472 CATAGTAACCTGTACTTAGTACTACACATGCGACC-AACAATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
*
88525521 CATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
* * *** * *
88525571 CGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTA-A
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATACA
* * *
88525621 GCATAGTAGCCTGCACTTAATACTACACATGTGACCTAA-CATCTGGTACA
1 -CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
* * * *
88525671 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACA
* * *
88525723 CATAGTATCCTACACATAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
88525751 TGTGTTCTCA
Statistics
Matches: 191, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
49 71 0.37
50 48 0.25
51 39 0.20
52 33 0.17
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
Found at i:88525699 original size:150 final size:151
Alignment explanation
Indices: 88525466--88525750 Score: 403
Period size: 150 Copynumber: 1.9 Consensus size: 151
88525456 GAAGCAATTT
* * *
88525466 GGTACGCATAGTAACCTGTACTTAGTACTACACATGCGACCAACAATCTGATACACATAGTAACC
1 GGTAAGCATAGTAACCTGCACTTAATACTACACATGCGACCAACAATCTGATACACATAGTAACC
* * * * *
88525531 TGCACTTAGTACTACACACGTGACCT-AACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 TGCACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
88525595 CACACGTGATTGAAGTTGTCA
131 CACACGTGATTGAAGTTGTCA
* * * * *
88525616 GGTAAGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAAC-ATCTGGTACACGTAGTAGC
1 GGTAAGCATAGTAACCTGCACTTAATACTACACATGCGACC-AACAATCTGATACACATAGTAAC
* *
88525680 CTGCACTTAGTACTACACACATGACCTAAAACCATCTTAAACACATAGTATCCTACACATAGTAC
65 CTGCACTTAGTACTACACACATGACCT-AAACCATCTGAAACACATAGTAGCCTACACATAGTAC
88525745 TACACA
129 TACACA
88525751 TGTGTTCTCA
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
150 78 0.67
151 3 0.03
152 36 0.31
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (151 bp):
GGTAAGCATAGTAACCTGCACTTAATACTACACATGCGACCAACAATCTGATACACATAGTAACC
TGCACTTAGTACTACACACATGACCTAAACCATCTGAAACACATAGTAGCCTACACATAGTACTA
CACACGTGATTGAAGTTGTCA
Found at i:88525727 original size:101 final size:101
Alignment explanation
Indices: 88525518--88525754 Score: 282
Period size: 101 Copynumber: 2.3 Consensus size: 101
88525508 ACAATCTGAT
*
88525518 ACACATAGTAACCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTG
* * * ****
88525583 CACTTAGTACTACACACGTGATTGAAGTTGTCAGGTA
66 CACTTAGTACTACACACATGACTAAAACCATCA-GTA
* * * *
88525620 A-GCATAGTAGCCTGCACTTAATACTACACATGTGACCTAA-CATCTGGTACACGTAGTAGCCTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTG
*
88525683 CACTTAGTACTACACACATGACCTAAAACCATC-TTAA
66 CACTTAGTACTACACACATGA-CTAAAACCATCAGT-A
* * *
88525720 ACACATAGTATCCTACACATAGTACTACACATGTG
1 ACACATAGTAACCTGCACTTAGTACTACACATGTG
88525755 TTCTCACAAT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
99 1 0.01
100 44 0.39
101 68 0.60
102 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (101 bp):
ACACATAGTAACCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTG
CACTTAGTACTACACACATGACTAAAACCATCAGTA
Found at i:88528333 original size:15 final size:15
Alignment explanation
Indices: 88528299--88528354 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
88528289 TAAAGGTAAC
* * *
88528299 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
88528314 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
88528329 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
88528344 AAGAAATCCAA
1 AAGAAATCCAA
88528355 TATACAATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:88540300 original size:20 final size:20
Alignment explanation
Indices: 88540275--88540318 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
88540265 CGGGTAGGGG
88540275 ACACGAGCGTGTCCCAAAGC
1 ACACGAGCGTGTCCCAAAGC
88540295 ACACGAGCGTGTCCCAAAGC
1 ACACGAGCGTGTCCCAAAGC
88540315 ACAC
1 ACAC
88540319 AGGAGTGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.36, G:0.23, T:0.09
Consensus pattern (20 bp):
ACACGAGCGTGTCCCAAAGC
Found at i:88541662 original size:37 final size:37
Alignment explanation
Indices: 88541600--88541671 Score: 87
Period size: 37 Copynumber: 1.9 Consensus size: 37
88541590 TACAAGCCAC
*
88541600 AATCATTATAAGCCACATCTCATGGAT-ATATACAATG
1 AATCAATATAAGCCACATCTCATGGATCATA-ACAATG
88541637 AATCAATATAAGCCA-ATACAT-ATGGATCATAACAA
1 AATCAATATAAGCCACAT-C-TCATGGATCATAACAA
88541672 CATCTATCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 2 0.06
37 25 0.81
38 4 0.13
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (37 bp):
AATCAATATAAGCCACATCTCATGGATCATAACAATG
Found at i:88542215 original size:31 final size:31
Alignment explanation
Indices: 88542178--88542241 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
88542168 AAAATTAGAA
88542178 TATTGCAAAATTAACTAAATAAAGCTAGGAC
1 TATTGCAAAATTAACTAAATAAAGCTAGGAC
*
88542209 TATTGCAAAATTAACTAAATAAAGTTAGGAC
1 TATTGCAAAATTAACTAAATAAAGCTAGGAC
88542240 TA
1 TA
88542242 AATAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.28
Consensus pattern (31 bp):
TATTGCAAAATTAACTAAATAAAGCTAGGAC
Found at i:88553220 original size:15 final size:16
Alignment explanation
Indices: 88553202--88553231 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88553192 AATTGTTTTA
88553202 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
88553217 TTACATAATTTCACT
1 TTACATAATTTCACT
88553232 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:88553566 original size:50 final size:49
Alignment explanation
Indices: 88553443--88553572 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 49
88553433 CTGGTACGCA
* *
88553443 TAGTATCCTGCACTTAGTACTACACATGTGACCAACAATCCAGTACACG
1 TAGTAACCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACG
** * * *
88553492 TAGTAACAAGCACTTAGTACTACACACGTGACCTAACCAT-CTGATACATG
1 TAGTAACCTGCACTTAGTACTACACACGTGACC-AACAATCCAG-TACACG
* *
88553542 TAGTAGCCTGCACTTAATACTACACACGTGA
1 TAGTAACCTGCACTTAGTACTACACACGTGA
88553573 TTGAAATTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 31 0.46
50 37 0.54
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
TAGTAACCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACG
Found at i:88559982 original size:20 final size:20
Alignment explanation
Indices: 88559957--88559996 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
88559947 GCTTGTACAA
88559957 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
88559977 GTTTGCACTTTGTTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
88559997 ATAGCACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.28, G:0.23, T:0.45
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:88562569 original size:50 final size:50
Alignment explanation
Indices: 88562359--88562730 Score: 318
Period size: 50 Copynumber: 7.7 Consensus size: 50
88562349 GGGTTATTGT
*
88562359 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-C-ATTAT--GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGG-CATCGA-TATGCGA
* * *
88562405 GAGCTAGTGTAAGACCATTTCTGGGACATGGCATTGGCATTGAGA--CGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGCGA
* * * *
88562453 GAGCTAGTGTAAGA-AATGTCTGGGACAT-GCATTGGCCTCG-TAAAG-TA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGAT-ATGCGA
* * *
88562500 -AACCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATAGATATGCGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGCGA
* * *
88562549 GAGCTCA-TGTAAGACCATGTCTGGGACATGACATCGGCA-CGAATATGTGA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATTGGCATCG-ATATGCGA
*** *
88562599 GAGCTAGTGTAAGGTAATGTCTGGGACATGGCATCGGCA-CGAATATGC-A
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCG-ATATGCGA
* * *
88562648 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCT-ACCTC-A-ATGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-TGGCATCGATATG-CGA
*
88562697 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCAT
88562731 CGCATCGGCA
Statistics
Matches: 268, Mismatches: 37, Indels: 39
0.78 0.11 0.11
Matches are distributed among these distances:
46 36 0.13
47 44 0.16
48 38 0.14
49 68 0.25
50 81 0.30
51 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (50 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGCGA
Found at i:88562621 original size:100 final size:97
Alignment explanation
Indices: 88562359--88562730 Score: 356
Period size: 94 Copynumber: 3.8 Consensus size: 97
88562349 GGGTTATTGT
*
88562359 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACAT-TATGAGAGCTAGTGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGA-ATATGTGAGAGCTAGTGTAAGACCA
* * *
88562422 TTTCTGGGACATGGCATTGGCATTGAGA--CGA
65 TGTCTGGGACATGGCATTGGCATAGATATGCGA
* * * *
88562453 GAGCTAGTGTAAGAAATGTCTGGGACATGCATTGGCCTCGTAA-A-GT-A-AACCAGTGTAAGAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CG-AATATGTGAGAGCTAGTGTAAGAC
88562514 CATGTCTGGGACATGGCATTGGCATAGATATGCGA
63 CATGTCTGGGACATGGCATTGGCATAGATATGCGA
*
88562549 GAGCTCA-TGTAAGACCATGTCTGGGACATGACATCGGCACGAATATGTGAGAGCTAGTGTAAGG
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATG-CATCGGC-CGAATATGTGAGAGCTAGTGTAAGA
** * *
88562613 TAATGTCTGGGACATGGCATCGGCA-CGAATATGC-A
62 CCATGTCTGGGACATGGCATTGGCATAG-ATATGCGA
* ** ** * *
88562648 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCTACCTCA-ATGACGATAG-TCAGTGTAAGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCGAATATG-TGAGAGCT-AGTGTAAGA
88562711 CCATGTCTGGGACATGGCAT
62 CCATGTCTGGGACATGGCAT
88562731 CGCATCGGCA
Statistics
Matches: 231, Mismatches: 28, Indels: 34
0.79 0.10 0.12
Matches are distributed among these distances:
94 72 0.31
95 2 0.01
96 19 0.08
97 24 0.10
98 41 0.18
99 34 0.15
100 39 0.17
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (97 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCGAATATGTGAGAGCTAGTGTAAGACCAT
GTCTGGGACATGGCATTGGCATAGATATGCGA
Found at i:88566358 original size:64 final size:64
Alignment explanation
Indices: 88566257--88566385 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
88566247 CACATCTTTG
88566257 CCGTCCTCCACGGAATATCGAAACCGTTACTCGGTAGCAATTCATGTTTAACTCGGTAGCAATT
1 CCGTCCTCCACGGAATATCGAAACCGTTACTCGGTAGCAATTCATGTTTAACTCGGTAGCAATT
88566321 CCGTCCTCCACGGAATATCGAAACCGTTACTCGGTAGCAATTCATGTTTAACTCGGTAGCAATT
1 CCGTCCTCCACGGAATATCGAAACCGTTACTCGGTAGCAATTCATGTTTAACTCGGTAGCAATT
88566385 C
1 C
88566386 ATATTTAACA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (64 bp):
CCGTCCTCCACGGAATATCGAAACCGTTACTCGGTAGCAATTCATGTTTAACTCGGTAGCAATT
Found at i:88566377 original size:22 final size:22
Alignment explanation
Indices: 88566349--88566394 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
88566339 CGAAACCGTT
*
88566349 ACTCGGTAGCAATTCATGTTTA
1 ACTCGGTAGCAATTCATATTTA
88566371 ACTCGGTAGCAATTCATATTTA
1 ACTCGGTAGCAATTCATATTTA
88566393 AC
1 AC
88566395 AAGTAGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTCGGTAGCAATTCATATTTA
Found at i:88566530 original size:49 final size:49
Alignment explanation
Indices: 88566422--88566519 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
88566412 TGCATATTAA
88566422 TCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
1 TCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
88566471 TCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
1 TCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
88566520 ATATAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (49 bp):
TCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
Found at i:88573611 original size:22 final size:22
Alignment explanation
Indices: 88573583--88573628 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
88573573 TGAAACCGTT
*
88573583 ACTCGGTAGCAATTCATGTTTA
1 ACTCGGTAGCAATTCATATTTA
88573605 ACTCGGTAGCAATTCATATTTA
1 ACTCGGTAGCAATTCATATTTA
88573627 AC
1 AC
88573629 AAGTAGTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTCGGTAGCAATTCATATTTA
Found at i:88573714 original size:54 final size:54
Alignment explanation
Indices: 88573651--88573760 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
88573641 TAATTTGCAT
88573651 ATTAATCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
1 ATTAATCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
88573705 ATTAATCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
1 ATTAATCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
88573759 AT
1 AT
88573761 ATAAATAACA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (54 bp):
ATTAATCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATCATATC
Found at i:88577111 original size:48 final size:48
Alignment explanation
Indices: 88577039--88577133 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
88577029 ATAGCACAAC
* * *
88577039 TATGGTCTTATACATTATAGTCTCATGTTTACAGTCCTGGCAGACTTT
1 TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTGACAGACTTT
*
88577087 TATGGTCTTACACATTATAATCTCATGTTTACTGTCCTGACAGACTT
1 TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTGACAGACTT
88577134 CATATGCTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (48 bp):
TATGGTCTTACACATTATAATCTCATGTTTACAGTCCTGACAGACTTT
Found at i:88587965 original size:17 final size:17
Alignment explanation
Indices: 88587945--88587977 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88587935 ACTAATCATT
*
88587945 AAAATGCGATGACAATA
1 AAAATGCAATGACAATA
88587962 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
88587978 GTGCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:88590622 original size:29 final size:29
Alignment explanation
Indices: 88590577--88590634 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
88590567 CCATAAAGTG
* * *
88590577 TCATTCAGTCTAGAAGACCACTCTTTCCT
1 TCATCCAGTCTAGAAGACAAATCTTTCCT
88590606 TCATCCAGTCT-GAAAGACAAATCTTTCCT
1 TCATCCAGTCTAG-AAGACAAATCTTTCCT
88590635 CTAAGGGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (29 bp):
TCATCCAGTCTAGAAGACAAATCTTTCCT
Found at i:88591353 original size:62 final size:62
Alignment explanation
Indices: 88591252--88591375 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
88591242 TCATTGCATA
* *
88591252 CCTTGAATAAATATAGCTCGTTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
1 CCTTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
* * *
88591314 CCTTGAATAAATACAGCTCATTCCAATGATACTTTACTACTTCATGAAGAAATCTTTCTTTT
1 CCTTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
88591376 TTATGGTCTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (62 bp):
CCTTGAATAAATACAGCTCATTCCAATGATACTTCACTACTTCACGAAGAAATATTTCTTTT
Found at i:88595507 original size:37 final size:37
Alignment explanation
Indices: 88595445--88595523 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
88595435 TTATTACGAA
* * *
88595445 GTCTTACCCGGACATAATCTGCACACGAAGTTATCAG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
* *
88595482 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCT-CCACACGAAGTCATCAG
88595519 GTCTT
1 GTCTT
88595524 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCAG
Found at i:88595720 original size:47 final size:47
Alignment explanation
Indices: 88595642--88596221 Score: 571
Period size: 47 Copynumber: 12.4 Consensus size: 47
88595632 CCCTTCGGGA
* * * * * *
88595642 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
88595689 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88595736 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88595783 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88595830 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88595879 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGCCC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGG--C
*
88595930 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88595977 CTTATCACACATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * ** * *
88596024 CTTATCAC--AT-T-CAGTGATAATATTC-TCGCATAAAGCC-TGCAGGGT
1 CTTATCACATATATACACT-TTCACATTCATCACAT-CGGCCAT-TA-GGC
* * * ** * * * * *
88596069 TTTAACCCGGATATAGTAC--TGACA--CA--A-AT--GCCCTTCGGGA
1 CTTATCACATATATA-CACTTTCACATTCATCACATCGGCCATT-AGGC
* *
88596109 CTTATCACATTTATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
88596156 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88596203 CTTATCACATATATACACT
1 CTTATCACATATATACACT
88596222 GTCTTGGCTG
Statistics
Matches: 448, Mismatches: 59, Indels: 52
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.00
40 13 0.03
41 5 0.01
43 13 0.03
44 10 0.02
45 11 0.02
46 4 0.01
47 252 0.56
48 6 0.01
49 122 0.27
50 1 0.00
51 9 0.02
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88619646 original size:40 final size:40
Alignment explanation
Indices: 88619591--88619693 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
88619581 GATGATAACG
*
88619591 GGGCTAAGTCCCGAAGGCATTTGTGCCAACTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAACTACTATATCC
** **
88619631 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCCAACTACTATATCC
88619671 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
88619694 NNNNNNNNNN
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCCAACTACTATATCC
Found at i:88641602 original size:19 final size:19
Alignment explanation
Indices: 88641578--88641646 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
88641568 TATGGCGGAG
88641578 ACATGGGGTTGAAGAGGCC
1 ACATGGGGTTGAAGAGGCC
* *
88641597 ACAT-GGG-AGCAGA-G--
1 ACATGGGGTTGAAGAGGCC
88641611 ACATGGGGTTGAAGAGGCC
1 ACATGGGGTTGAAGAGGCC
88641630 ACATGGGAGCTTGAAGA
1 ACATGGG-G-TTGAAGA
88641647 AATCATGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 5 0.13
17 5 0.13
18 3 0.08
19 11 0.28
20 1 0.03
21 7 0.18
ACGTcount: A:0.30, C:0.14, G:0.41, T:0.14
Consensus pattern (19 bp):
ACATGGGGTTGAAGAGGCC
Found at i:88641617 original size:33 final size:33
Alignment explanation
Indices: 88641575--88641639 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
88641565 TGTTATGGCG
88641575 GAGACATGGGGTTGAAGAGGCCACATGGGAGCA
1 GAGACATGGGGTTGAAGAGGCCACATGGGAGCA
88641608 GAGACATGGGGTTGAAGAGGCCACATGGGAGC
1 GAGACATGGGGTTGAAGAGGCCACATGGGAGC
88641640 TTGAAGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.43, T:0.12
Consensus pattern (33 bp):
GAGACATGGGGTTGAAGAGGCCACATGGGAGCA
Found at i:88655188 original size:46 final size:46
Alignment explanation
Indices: 88655107--88655465 Score: 612
Period size: 46 Copynumber: 7.8 Consensus size: 46
88655097 TGATGTCATA
* * * * * *
88655107 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
** * *
88655153 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
88655199 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
88655245 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
88655291 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
88655337 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
88655383 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
88655429 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
88655466 AGAGCACACT
Statistics
Matches: 303, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
45 4 0.01
46 299 0.99
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:88657569 original size:21 final size:21
Alignment explanation
Indices: 88657519--88657574 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
88657509 TATATATACA
88657519 CATATGTATTTATATTTAAAT
1 CATATGTATTTATATTTAAAT
* * * *
88657540 AATAAGTATTATTTATTT-ATT
1 CATATGTATT-TATATTTAAAT
88657561 CATATGTATATTAT
1 CATATGTAT-TTAT
88657575 TAGTACATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (21 bp):
CATATGTATTTATATTTAAAT
Found at i:88659880 original size:99 final size:92
Alignment explanation
Indices: 88659685--88659944 Score: 262
Period size: 99 Copynumber: 2.8 Consensus size: 92
88659675 GACGAGTGCT
* * *
88659685 AGTGTAAGA-CATGTCTGGTACAT-GCATC-GCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTAAGCCAGTGTAAGACATATCTG
* *
88659747 GGACATGCATCGGCTACGAGATGTGTC
66 GGACATGCATAGCCTACGAGATGTGTC
* * *
88659774 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCTAGTGTAAGACCATAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGT-A-AGCCAGTGTAAGA-CATAT
*
88659839 CTGGGACATGACGTTAGCCT-CGATGATGATAGTC
63 CTGGGACATG-C-ATAGCCTACGA-GATG-T-GTC
* * * *
88659873 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AGTTGAGATATGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TCGAGATGTAAGCCAGTGTAAGA-CATATC
*
88659936 TAGGACATG
64 TGGGACATG
88659945 GCATCGACAA
Statistics
Matches: 143, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
89 9 0.06
90 13 0.09
91 5 0.03
92 9 0.06
93 1 0.01
94 12 0.08
95 14 0.10
96 30 0.21
97 9 0.06
98 8 0.06
99 33 0.23
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGTAAGCCAGTGTAAGACATATCTG
GGACATGCATAGCCTACGAGATGTGTC
Found at i:88659951 original size:47 final size:47
Alignment explanation
Indices: 88659593--88659950 Score: 269
Period size: 47 Copynumber: 7.6 Consensus size: 47
88659583 TTTAAGCTAC
* *
88659593 TGTAAGA-CATGTCTGGGACAT-GCATCGGC--CACATCATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGAT-AT--GAGCCAG
* * *
88659639 TGTAAGACCATG-CTTGGGACATGGCATCGGCATTGAGACGA-GTGCTAG
1 TGTAAGACCATGTC-TGGGACATGGCATCGGC-TTGAGA-TATGAGCCAG
* * * * *
88659687 TGTAAGA-CATGTCTGGTACAT-GCATCGCCTCGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATGAGCCAG
* * *
88659732 TGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-ACGAGATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GATATGAGCCAG
* *
88659776 TGTAAGACCATGTCTGGGACATGGCATCGGCATG-GATATGTGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATA--T--GAGCCAG
* * * * * * *
88659826 TGTAAGACCATATCTGGGACATGACGTTAGCCTCGATGATGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGC-ATCGGCTTGA-GAT-ATGAGCCAG
88659875 TGTAAGACCATGTCTGGGACATGGCATCGAG-TTGAGATATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCG-GCTTGAGATATGAGCCAG
*
88659922 TGTAAGACCATGTCTAGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
88659951 ACAACTTATC
Statistics
Matches: 246, Mismatches: 42, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 14 0.06
45 50 0.20
46 28 0.11
47 60 0.24
48 27 0.11
49 27 0.11
50 27 0.11
51 7 0.03
52 1 0.00
53 3 0.01
54 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATATGAGCCAG
Found at i:88662617 original size:2 final size:2
Alignment explanation
Indices: 88662610--88662647 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
88662600 GTCCTGAAAT
88662610 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
88662648 AAGTAAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:88667491 original size:45 final size:48
Alignment explanation
Indices: 88667346--88667752 Score: 310
Period size: 50 Copynumber: 8.6 Consensus size: 48
88667336 TATGATCTAC
* * * *
88667346 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATCATG-AGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAG-TAG
* * * * * *
88667392 TGTAAGACCATGACTGGGACATGGCATTGGCATTGAGACG-AGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAG-TAG
* *
88667440 TGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGATGTA-AGTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGTAG
*
88667485 TGTAAGA-CATGTCTGGGACAT-GCATCGG-ATACGAGATGT---GTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGT-AG
* *
88667529 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGGTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGA-GTAG
* *
88667579 TGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGGTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGA-GTAG
* * *
88667629 TGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATGATG-ATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGT-AG
* * * * * * **
88667678 TGTAAGACCATGTCTAGGACATGGCAT-TGACTTGAGATATAAACCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGTAG
*
88667725 TGTAAGACCATATCTGGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
88667753 AACACCATAC
Statistics
Matches: 302, Mismatches: 39, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.01
44 10 0.03
45 51 0.17
46 35 0.12
47 56 0.19
48 29 0.10
49 31 0.10
50 83 0.27
51 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGTAG
Found at i:88668859 original size:31 final size:31
Alignment explanation
Indices: 88668800--88668863 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88668790 TGTAGGTTTG
*
88668800 CATTTAGAATTATTTCCACACGACTGGAGGA
1 CATTTAGAATTATTTCCACACAACTGGAGGA
* *
88668831 CATTTAGAATTATTTCCACATAAGTGGAGGA
1 CATTTAGAATTATTTCCACACAACTGGAGGA
88668862 CA
1 CA
88668864 CGGGCGTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (31 bp):
CATTTAGAATTATTTCCACACAACTGGAGGA
Found at i:88668972 original size:20 final size:21
Alignment explanation
Indices: 88668934--88668972 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88668924 TCGAATTGGT
*
88668934 CACACGTGCGTGTTGCCCTTC
1 CACACGAGCGTGTTGCCCTTC
88668955 CACACGAGCGTG-TGCCCT
1 CACACGAGCGTGTTGCCCT
88668973 ATTTCAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGAGCGTGTTGCCCTTC
Found at i:88680554 original size:66 final size:66
Alignment explanation
Indices: 88680470--88680600 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
88680460 AGGTACACAA
*
88680470 CCGTGTCCCAGCCCGTGTCCTTACTCGTGTAACTCTCTAACTTGGGTCACACAGCCAACCACACG
1 CCGTGTCCCAGCCCGTGTCCTTACCCGTGTAACTCTCTAACTTGGGTCACACAGCCAACCACACG
88680535 G
66 G
* *
88680536 CCGTGTCCCAGCCTGTGTCCTTACCCGTGTAACTCTCTAACTTGGGTCACACGGCCAACCACACG
1 CCGTGTCCCAGCCCGTGTCCTTACCCGTGTAACTCTCTAACTTGGGTCACACAGCCAACCACACG
88680601 TCTGTGTGCT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.19, C:0.38, G:0.20, T:0.23
Consensus pattern (66 bp):
CCGTGTCCCAGCCCGTGTCCTTACCCGTGTAACTCTCTAACTTGGGTCACACAGCCAACCACACG
G
Found at i:88681888 original size:45 final size:46
Alignment explanation
Indices: 88681810--88681897 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
88681800 TGAGCCATGT
* *
88681810 ATCAGGAAGCTTATTTAGGCTAAACAGGAAACTCAT-AAGAGTTTTA
1 ATCAGGAAGCTCATTGAGGCTAAACAGGAAACTC-TGAAGAGTTTTA
* *
88681856 ATCAGGAAGCTCATTGA-GCTTAACAGGTAACTCTGAAGAGTT
1 ATCAGGAAGCTCATTGAGGCTAAACAGGAAACTCTGAAGAGTT
88681898 ATTATTAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 1 0.03
45 21 0.57
46 15 0.41
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (46 bp):
ATCAGGAAGCTCATTGAGGCTAAACAGGAAACTCTGAAGAGTTTTA
Found at i:88687358 original size:28 final size:28
Alignment explanation
Indices: 88687302--88687365 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
88687292 ATTCTCGAGA
**
88687302 CATTTTCTCAGAACCCATCTTGTCAAAAT
1 CATTTT-TCAGAACCCATCTCATCAAAAT
* *
88687331 TATTTTTCAGAACCCATCTCATCTAAAT
1 CATTTTTCAGAACCCATCTCATCAAAAT
88687359 CATTTTT
1 CATTTTT
88687366 TCAAAACTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (28 bp):
CATTTTTCAGAACCCATCTCATCAAAAT
Found at i:88687496 original size:18 final size:18
Alignment explanation
Indices: 88687473--88687510 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88687463 CCAAAACTCT
*
88687473 AATT-AATAAACACTTAAA
1 AATTAAATAAA-ACATAAA
88687491 AATTAAATAAAACATAAA
1 AATTAAATAAAACATAAA
88687509 AA
1 AA
88687511 CCATAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (18 bp):
AATTAAATAAAACATAAA
Found at i:88687573 original size:22 final size:22
Alignment explanation
Indices: 88687508--88687577 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
88687498 TAAAACATAA
* *
88687508 AAACCATAATTTAATAAACACT
1 AAACCCTAATTTAATAAACCCT
* *
88687530 AAGCCCTAA-TT-A-AAACCAT
1 AAACCCTAATTTAATAAACCCT
88687549 AAACCCTAATTTAATAAACCCT
1 AAACCCTAATTTAATAAACCCT
88687571 AAACCCT
1 AAACCCT
88687578 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 3 0.08
22 20 0.51
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (22 bp):
AAACCCTAATTTAATAAACCCT
Found at i:88688033 original size:19 final size:19
Alignment explanation
Indices: 88688009--88688054 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
88687999 GAAATTCCTC
88688009 TAATATATTAT-TATATACA
1 TAATATATTATGTATATA-A
88688028 TAATATATTATGTATATAA
1 TAATATATTATGTATATAA
88688047 TAATATAT
1 TAATATAT
88688055 AAATACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATATATTATGTATATAA
Found at i:88688399 original size:41 final size:42
Alignment explanation
Indices: 88688351--88688429 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
88688341 TTCATCAACC
* *
88688351 AATTTTAAATGAGAT-AATATTGTTAACAATAAAAATACCAA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
* * *
88688392 AATTTTAAATTAAATCAATTTTATTAGCAATAAAAATA
1 AATTTTAAATGAAATCAATATTATTAACAATAAAAATA
88688430 TTCAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 13 0.41
42 19 0.59
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.35
Consensus pattern (42 bp):
AATTTTAAATGAAATCAATATTATTAACAATAAAAATACCAA
Found at i:88691990 original size:6 final size:6
Alignment explanation
Indices: 88691980--88692012 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
88691970 TTTTTTTTTA
*
88691980 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
88692013 GCACAAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:88694902 original size:19 final size:19
Alignment explanation
Indices: 88694878--88694925 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
88694868 AAAAATTAGC
*
88694878 AAAAAATTACAGTAGGAGA
1 AAAAAATTACAGAAGGAGA
* * *
88694897 AAAAAAGTAGAGAAGGGGA
1 AAAAAATTACAGAAGGAGA
88694916 AAAACAATTA
1 AAAA-AATTA
88694926 AAAGAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.23, T:0.12
Consensus pattern (19 bp):
AAAAAATTACAGAAGGAGA
Found at i:88695539 original size:200 final size:201
Alignment explanation
Indices: 88695196--88695605 Score: 734
Period size: 200 Copynumber: 2.0 Consensus size: 201
88695186 CTTTTTTGCT
*
88695196 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAGAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
*
88695261 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGCCCAAAATGCATTGGC
66 GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
88695326 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGA-CTTCATTTTTCATGAAGTACCCGTATCTGAC
131 GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCATGAAGTACCCGTATCTGAC
88695390 ACACGG
196 ACACGG
88695396 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
1 ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
88695461 GGCTTCACCACTTCAATCAAGCTAG-CTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
66 GGCTTCACCACTTCAATCAAGCT-GTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGG
* * *
88695525 CGCGAGGGCCCATTTAGAATCTATGTTGCTTAGACTCTTCATTTTTCATGAAGTGCCTGTATCTG
130 CGCGAGGGCCCATTTAAAATCTATGTTGCTTAGAC-CTTCATTTTTCATGAAGTACCCGTATCTG
88695590 ACACACGG
194 ACACACGG
*
88695598 ATATGTGG
1 ATAAGTGG
88695606 ATATGACCTC
Statistics
Matches: 201, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
200 158 0.79
201 1 0.00
202 42 0.21
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (201 bp):
ATAAGTGGTCATTTGAGTTTAGAAGAAAGAAGGGGAAAAAAAGGAAAGAGAGATTCCTAAAAGCT
GGCTTCACCACTTCAATCAAGCTGTCTTTTTTGTCGCCTAGCATTGAAGACCAAAATGCATTGGC
GCGAGGGCCCATTTAAAATCTATGTTGCTTAGACCTTCATTTTTCATGAAGTACCCGTATCTGAC
ACACGG
Found at i:88705452 original size:23 final size:24
Alignment explanation
Indices: 88705412--88705456 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
88705402 GAAATACTTG
88705412 AGGATTCAATAAGTAATTAAACTA
1 AGGATTCAATAAGTAATTAAACTA
88705436 AGGATCTCAA-AA-TAATTAAAC
1 AGGAT-TCAATAAGTAATTAAAC
88705457 CATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 9 0.45
24 7 0.35
25 4 0.20
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (24 bp):
AGGATTCAATAAGTAATTAAACTA
Found at i:88707822 original size:20 final size:20
Alignment explanation
Indices: 88707794--88707831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88707784 CTAGGAACTA
88707794 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
88707814 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
88707832 TATATGTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:88712104 original size:21 final size:21
Alignment explanation
Indices: 88712073--88712132 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
88712063 AATGTAAACA
88712073 AGGGC-ACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
88712093 AGGGCAACATGCCCGTGTGGG
1 AGGGCAACATGCCCGTGTGGG
88712114 AGGGCAACATGCCCGTGTG
1 AGGGCAACATGCCCGTGTG
88712133 TCCTCTTAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 5 0.13
21 34 0.87
ACGTcount: A:0.18, C:0.25, G:0.42, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGG
Found at i:88713424 original size:48 final size:48
Alignment explanation
Indices: 88713367--88713774 Score: 503
Period size: 48 Copynumber: 8.5 Consensus size: 48
88713357 CGTGTCTCAG
*
88713367 ACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* *
88713415 ACATGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * *
88713463 ATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * ** * * *
88713511 ACATGGTCTTACATTGGCTCACATATCGAGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* * *
88713559 ACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* ** * *
88713607 ACATGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* **
88713654 ACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAA
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
* ** * * ** * *
88713702 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATTTCATGTCCCAT
1 ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
*
88713750 ACATGGTCTTACATTGGCTCTCATA
1 ACATGGTCTTACACTGGCTCTCATA
88713775 ACCCTAGTAT
Statistics
Matches: 307, Mismatches: 52, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 40 0.13
48 267 0.87
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATATAAATGCCGATGCCATGTTCCAA
Found at i:88713516 original size:96 final size:96
Alignment explanation
Indices: 88713353--88713774 Score: 585
Period size: 96 Copynumber: 4.4 Consensus size: 96
88713343 TAAGATGCTA
* * * * *
88713353 ATGCCGTGTCTCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
* * ** * *
88713418 TGGTCTTACACTAGCTCTCATATAAATGCCA
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
* * * * *
88713449 ATGCCATGTTCCAAATATGGTCTTACACTAGCTCTCATATAAATGCCGATGCTATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
*
88713514 TGGTCTTACATTGGCTCACATATCGAGGCCG
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
* * *
88713545 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
88713610 TGGTCTTACACTGGC-CACATATCGAGGCCG
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
* *
88713640 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATACTAATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
* *
88713705 TGGTCTTACACTGGCTCACATATTGAGGCTG
66 TGGTCTTACACTGGCTCACATATCGAGGCCG
** * *
88713736 ATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA
88713775 ACCCTAGTAT
Statistics
Matches: 290, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
95 90 0.31
96 200 0.69
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAAATGCCAATGCCATGTTCCAAACA
TGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:88713722 original size:191 final size:192
Alignment explanation
Indices: 88713353--88713774 Score: 612
Period size: 191 Copynumber: 2.2 Consensus size: 192
88713343 TAAGATGCTA
* * * * * *
88713353 ATGCCGTGTCTCAGACATGGTCTTACACTGGCTCTGATATAAATGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
* * * *
88713418 TGGTCTTACACTAGCTCTCATATAAATGCCAATGCCATGTTCCAAATATGGTCTTACACTAGCTC
66 TGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTC
* * * *
88713483 TCATATAAATGCCGATGCTATGTTCCAAACATGGTCTTACATTGGCTCACATATCGAGGCCG
131 TCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCG
88713545 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
* ** * *
88713610 TGGTCTTACACTGGC-CACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
66 TGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTC
* * *
88713674 TCATATAAATACTAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTG
131 TCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCG
** *
88713736 ATTTCATGTCCCATACATGGTCTTACATTGGCTCTCATA
1 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA
88713775 ACCCTAGTAT
Statistics
Matches: 205, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
191 132 0.64
192 73 0.36
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (192 bp):
ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATAAATGCCAACGCCATGTTCCAAACA
TGGTCTTACACTAGCTCACATATAAAGGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCTC
TCATATAAATACCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCG
Found at i:88715183 original size:57 final size:57
Alignment explanation
Indices: 88715121--88715247 Score: 245
Period size: 57 Copynumber: 2.2 Consensus size: 57
88715111 ACAAATGCTC
88715121 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
1 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
*
88715178 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGATAAGTTTG
1 CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
88715235 CTGTTGTGTTTAT
1 CTGTTGTGTTTAT
88715248 TGATGATATT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.43
Consensus pattern (57 bp):
CTGTTGTGTTTATGGACTTAATGAATCGAATATTTCGACCATATTTGGACAAGTTTG
Found at i:88719326 original size:27 final size:27
Alignment explanation
Indices: 88719296--88719473 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88719286 ATATTGAGTC
* * * *
88719296 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
88719323 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88719350 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
88719378 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88719405 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88719432 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88719459 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88719474 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88719435 original size:82 final size:81
Alignment explanation
Indices: 88719317--88719472 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88719307 TGCTATATAA
* *
88719317 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
88719382 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
88719399 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88719463 CACTTAGTGC
65 CACTTAGTGC
88719473 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88728660 original size:50 final size:49
Alignment explanation
Indices: 88728597--88728742 Score: 154
Period size: 50 Copynumber: 2.9 Consensus size: 49
88728587 TCTTTAGAAA
*
88728597 ATTGTCTCTATAGTCGCAACATTCCATTGA-TGAAGTCACGACATCAAGCT
1 ATTGTCTCCATAGTCGCAACATTCC-TT-ATTGAAGTCACGACATCAAGCT
* * *
88728647 GTTGTCTCCATAGTCGCGACATTCCCCTATTGAAGCTGCA--ACATCAAGCT
1 ATTGTCTCCATAGTCGCAACATT-CCTTATTGAAG-T-CACGACATCAAGCT
* * *
88728697 ACTGTCTCCATAGTTGCAACATTTCCTTATTGAACTCACGACATCA
1 ATTGTCTCCATAGTCGCAACA-TTCCTTATTGAAGTCACGACATCA
88728743 TGATATTGCT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
48 2 0.03
49 2 0.03
50 68 0.86
51 5 0.06
52 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (49 bp):
ATTGTCTCCATAGTCGCAACATTCCTTATTGAAGTCACGACATCAAGCT
Found at i:88730038 original size:17 final size:18
Alignment explanation
Indices: 88730016--88730050 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88730006 TTACATTGAA
88730016 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
88730033 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
88730051 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:88731142 original size:29 final size:29
Alignment explanation
Indices: 88731105--88731192 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 29
88731095 CCCAATCCCG
88731105 TTCATATGGCCCATCTGGCCTAGTTCATA
1 TTCATATGGCCCATCTGGCCTAGTTCATA
* * * *
88731134 TTCTTATGG-CCA-CTAGGCCCAATTCACA
1 TTCATATGGCCCATCT-GGCCTAGTTCATA
*
88731162 TTCATATGGCCCATTTGGCCTAAG-TCATA
1 TTCATATGGCCCATCTGGCCT-AGTTCATA
88731191 TT
1 TT
88731193 ATACTCATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
27 2 0.04
28 21 0.46
29 21 0.46
30 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (29 bp):
TTCATATGGCCCATCTGGCCTAGTTCATA
Found at i:88731167 original size:57 final size:57
Alignment explanation
Indices: 88731081--88731192 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
88731071 CATACATGCA
* * *
88731081 TATGGCCCACTGGGCCCAATCCCGTTCATATGGCCCATCTGGCCT-AGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCTAAG-TCATATTCT
*
88731138 TATGG-CCACTAGGCCCAATTCACATTCATATGGCCCATTTGGCCTAAGTCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATCTGGCCTAAGTCATATT
88731193 ATACTCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 12 0.24
57 35 0.71
58 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCTAAGTCATATTCT
Found at i:88733192 original size:29 final size:29
Alignment explanation
Indices: 88733155--88733242 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 29
88733145 CCCAATCCCG
88733155 TTCATATGGCCCATCTGGCCTAGTTCATA
1 TTCATATGGCCCATCTGGCCTAGTTCATA
* * * *
88733184 TTCTTATGG-CCA-CTAGGCCCAATTCACA
1 TTCATATGGCCCATCT-GGCCTAGTTCATA
*
88733212 TTCATATGGCCCATTTGGCCTAAG-TCATA
1 TTCATATGGCCCATCTGGCCT-AGTTCATA
88733241 TT
1 TT
88733243 ATACTCATGC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
27 2 0.04
28 21 0.46
29 21 0.46
30 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (29 bp):
TTCATATGGCCCATCTGGCCTAGTTCATA
Found at i:88733217 original size:57 final size:57
Alignment explanation
Indices: 88733131--88733242 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
88733121 CATACATGCA
* * *
88733131 TATGGCCCACTGGGCCCAATCCCGTTCATATGGCCCATCTGGCCT-AGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCTAAG-TCATATTCT
*
88733188 TATGG-CCACTAGGCCCAATTCACATTCATATGGCCCATTTGGCCTAAGTCATATT
1 TATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATCTGGCCTAAGTCATATT
88733243 ATACTCATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
56 12 0.24
57 35 0.71
58 2 0.04
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATATGGCCCATCTGGCCTAAGTCATATTCT
Found at i:88740644 original size:15 final size:17
Alignment explanation
Indices: 88740614--88740645 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
88740604 GATTATGGGT
88740614 TGCATGCTACTGATTCA
1 TGCATGCTACTGATTCA
88740631 TGCATGC-A-TGATTCA
1 TGCATGCTACTGATTCA
88740646 ATAGTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (17 bp):
TGCATGCTACTGATTCA
Found at i:88743888 original size:16 final size:16
Alignment explanation
Indices: 88743867--88743898 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
88743857 GGTGTAATGC
88743867 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
88743883 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
88743899 TCCTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:88747879 original size:30 final size:30
Alignment explanation
Indices: 88747837--88747893 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
88747827 ACTATAGATG
88747837 ATTAGACTTTTTGAATGGTTT-TTAATATGA
1 ATTAGACTTTTTG-ATGGTTTCTTAATATGA
*
88747867 ATTA-ACTGTTTTGATGTTTTCTTAATA
1 ATTAGACT-TTTTGATGGTTTCTTAATA
88747894 AGATCCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (30 bp):
ATTAGACTTTTTGATGGTTTCTTAATATGA
Found at i:88748935 original size:26 final size:25
Alignment explanation
Indices: 88748903--88748956 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
88748893 TCAGCAAATT
*
88748903 TTTGATGACTTTACCCTTGGTACAAA
1 TTTGATGACTTTACCCTTGATA-AAA
* *
88748929 TTTGATGATTTTGCCCTTGATAAAA
1 TTTGATGACTTTACCCTTGATAAAA
88748954 TTT
1 TTT
88748957 CAAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (25 bp):
TTTGATGACTTTACCCTTGATAAAA
Found at i:88750197 original size:24 final size:24
Alignment explanation
Indices: 88750170--88750295 Score: 103
Period size: 24 Copynumber: 5.3 Consensus size: 24
88750160 CTATCCAGAC
* *
88750170 CTTCCCGATATAGTTTTTTGTGAA
1 CTTCCCGATATAGTTCTTTATGAA
* *
88750194 CTTCCCAATATGGTTCTTTATGAA
1 CTTCCCGATATAGTTCTTTATGAA
* * *
88750218 CTTCCCGATTATGGCTC-TTATGAG
1 CTTCCCGA-TATAGTTCTTTATGAA
* * *
88750242 CTTCCCGATA-GGCTCTTTATGAG
1 CTTCCCGATATAGTTCTTTATGAA
* * * *
88750265 CTTCCCAAAATAGTTCTGTGTGAA
1 CTTCCCGATATAGTTCTTTATGAA
88750289 CTTCCCG
1 CTTCCCG
88750296 TTACAAGGCT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 5 0.06
23 17 0.20
24 55 0.65
25 7 0.08
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (24 bp):
CTTCCCGATATAGTTCTTTATGAA
Found at i:88750265 original size:23 final size:24
Alignment explanation
Indices: 88750170--88750270 Score: 107
Period size: 24 Copynumber: 4.2 Consensus size: 24
88750160 CTATCCAGAC
* * * * *
88750170 CTTCCCGATATAGTTTTTTGTGAA
1 CTTCCCGATATGGCTCTTTATGAG
* * *
88750194 CTTCCCAATATGGTTCTTTATGAA
1 CTTCCCGATATGGCTCTTTATGAG
88750218 CTTCCCGATTATGGCTC-TTATGAG
1 CTTCCCGA-TATGGCTCTTTATGAG
88750242 CTTCCCGATA-GGCTCTTTATGAG
1 CTTCCCGATATGGCTCTTTATGAG
88750265 CTTCCC
1 CTTCCC
88750271 AAAATAGTTC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
22 5 0.07
23 15 0.22
24 41 0.60
25 7 0.10
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.40
Consensus pattern (24 bp):
CTTCCCGATATGGCTCTTTATGAG
Found at i:88750293 original size:47 final size:47
Alignment explanation
Indices: 88750170--88750295 Score: 119
Period size: 47 Copynumber: 2.6 Consensus size: 47
88750160 CTATCCAGAC
* * * *
88750170 CTTCCCGATATAGTTTTTTGTGAACTTCCCAATATGGTTCTTTATGAA
1 CTTCCCAATATAG-TTCTTGTGAACTTCCCGATATGGCTCTTTATGAA
* * * * * *
88750218 CTTCCCGATTATGGCTCTTATGAGCTTCCCGATA-GGCTCTTTATGAG
1 CTTCCC-AATATAGTTCTTGTGAACTTCCCGATATGGCTCTTTATGAA
*
88750265 CTTCCCAAAATAGTTCTGTGTGAACTTCCCG
1 CTTCCCAATATAGTTCT-TGTGAACTTCCCG
88750296 TTACAAGGCT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
46 7 0.12
47 28 0.47
48 21 0.35
49 4 0.07
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (47 bp):
CTTCCCAATATAGTTCTTGTGAACTTCCCGATATGGCTCTTTATGAA
Found at i:88751702 original size:28 final size:29
Alignment explanation
Indices: 88751681--88751774 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
88751671 GCCCATTCAT
88751681 ATTCATATGGCCCATTAGGCCCAAATCAGC
1 ATTCATATGGCCCATTAGGCCCAAATCA-C
*
88751711 -TGT-ATATGGCCCATTAGACCCAAATCAC
1 AT-TCATATGGCCCATTAGGCCCAAATCAC
* * *
88751739 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
88751767 ATTCATAT
1 ATTCATAT
88751775 TCATGCTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 14 0.25
29 41 0.73
30 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:88753424 original size:30 final size:30
Alignment explanation
Indices: 88753388--88753450 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
88753378 TCTTCTGTTA
* *
88753388 TTGTTAAGTTTGTTATTCTTTTAAAGACAT
1 TTGTTAAGTTTGGTATTATTTTAAAGACAT
* *
88753418 TTGTTAATTTTGGTATTATTTTAGAGACAT
1 TTGTTAAGTTTGGTATTATTTTAAAGACAT
88753448 TTG
1 TTG
88753451 CTTGTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (30 bp):
TTGTTAAGTTTGGTATTATTTTAAAGACAT
Found at i:88753604 original size:12 final size:12
Alignment explanation
Indices: 88753574--88753606 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
88753564 TTTATTTTGT
88753574 AAAATT-ATATA
1 AAAATTAATATA
88753585 AAAA-TAATATA
1 AAAATTAATATA
88753596 AAAATTAATAT
1 AAAATTAATAT
88753607 GGGCGGACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:88755693 original size:28 final size:29
Alignment explanation
Indices: 88755604--88755728 Score: 164
Period size: 29 Copynumber: 4.4 Consensus size: 29
88755594 TGAAAGCATG
*
88755604 CATATGAATGTGATTTGGGCCTAATGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGT
*
88755633 CGTATGAATGTGATTTGGGCCTAATGGGT
1 CATATGAATGTGATTTGGGCCTAATGGGT
* *
88755662 CATACGAATGTGATTT-GGTCTAATGGGT
1 CATATGAATGTGATTTGGGCCTAATGGGT
* * *
88755690 CATATGAATGAGA-TTGGGCCTAGTGGGC
1 CATATGAATGTGATTTGGGCCTAATGGGT
*
88755718 CATATGCATGT
1 CATATGAATGT
88755729 ATGTAGACTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 2 0.02
28 40 0.48
29 41 0.49
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.32
Consensus pattern (29 bp):
CATATGAATGTGATTTGGGCCTAATGGGT
Found at i:88755698 original size:57 final size:57
Alignment explanation
Indices: 88755604--88755721 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 57
88755594 TGAAAGCATG
* * * *
88755604 CATATGAATGTGATTTGGGCCTAATGGGCCGTATGAATGTGATTTGGGCCTAATGGGT
1 CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGA-TTGGGCCTAATGGGC
* * *
88755662 CATACGAATGTGATTT-GGTCTAATGGGTCATATGAATGAGATTGGGCCTAGTGGGC
1 CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGC
88755718 CATA
1 CATA
88755722 TGCATGTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 17 0.32
57 21 0.40
58 15 0.28
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (57 bp):
CATACGAATGTGATTTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAATGGGC
Found at i:88759115 original size:68 final size:67
Alignment explanation
Indices: 88759043--88759192 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
88759033 CATCATGTGT
* * * *
88759043 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
88759105 ATGTAG
62 ATGTAG
** * *
88759111 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
88759176 AG
66 AG
88759178 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
88759193 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:88759148 original size:64 final size:64
Alignment explanation
Indices: 88759067--88759250 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
88759057 AGACATTATG
* *
88759067 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
88759131 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
88759196 AA
63 AA
* * * *
88759198 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
88759251 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:88763693 original size:13 final size:13
Alignment explanation
Indices: 88763677--88763710 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
88763667 ATGATTTTTT
88763677 GAAAATTTCATTC
1 GAAAATTTCATTC
88763690 GAAAATTTCATTC
1 GAAAATTTCATTC
88763703 GAAAATTT
1 GAAAATTT
88763711 TGACGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (13 bp):
GAAAATTTCATTC
Found at i:88787710 original size:13 final size:13
Alignment explanation
Indices: 88787678--88787712 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
88787668 CCAGGTCTTT
*
88787678 GGACACAGGTTCG
1 GGACACGGGTTCG
88787691 GGACACGGGTTCG
1 GGACACGGGTTCG
88787704 GGACACGGG
1 GGACACGGG
88787713 CGTGTCCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.23, G:0.46, T:0.11
Consensus pattern (13 bp):
GGACACGGGTTCG
Found at i:88790956 original size:14 final size:14
Alignment explanation
Indices: 88790937--88790964 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88790927 TTAAATATCA
88790937 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
88790951 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
88790965 ATATGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:88791131 original size:15 final size:15
Alignment explanation
Indices: 88791111--88791144 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
88791101 AATGGTTTAT
88791111 GTTTTAGGATTGAGG
1 GTTTTAGGATTGAGG
* *
88791126 GTTTTAGGGTTTAGG
1 GTTTTAGGATTGAGG
88791141 GTTT
1 GTTT
88791145 AAGGGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (15 bp):
GTTTTAGGATTGAGG
Found at i:88791140 original size:7 final size:7
Alignment explanation
Indices: 88791000--88791151 Score: 81
Period size: 7 Copynumber: 21.3 Consensus size: 7
88790990 GAGTTACTAT
*
88791000 TTTAAGG
1 TTTAGGG
*
88791007 TTTATGG
1 TTTAGGG
* *
88791014 ATTATGG
1 TTTAGGG
88791021 TTTAAGGG
1 TTT-AGGG
*
88791029 -TTGGGG
1 TTTAGGG
*
88791035 TTTAAGG
1 TTTAGGG
88791042 TTTAGGG
1 TTTAGGG
*
88791049 GTTAGGG
1 TTTAGGG
*
88791056 GTTAGTGG
1 TTTAG-GG
* *
88791064 TTAAAGG
1 TTTAGGG
* *
88791071 TTAAAGG
1 TTTAGGG
*
88791078 TTAAGGG
1 TTTAGGG
*
88791085 TTAAGGG
1 TTTAGGG
88791092 TTTAGGG
1 TTTAGGG
* *
88791099 TTAATGG
1 TTTAGGG
* *
88791106 TTTATGT
1 TTTAGGG
*
88791113 TTTAGGA
1 TTTAGGG
*
88791120 TTGAGGG
1 TTTAGGG
88791127 TTTTAGGG
1 -TTTAGGG
88791135 TTTAGGG
1 TTTAGGG
88791142 TTTAAGGG
1 TTT-AGGG
88791150 TT
1 TT
88791152 AATTGATTAA
Statistics
Matches: 117, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
6 3 0.03
7 95 0.81
8 19 0.16
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (7 bp):
TTTAGGG
Found at i:88795114 original size:43 final size:43
Alignment explanation
Indices: 88795038--88795184 Score: 206
Period size: 43 Copynumber: 3.4 Consensus size: 43
88795028 AAATATTTTT
* * *
88795038 TAAAGGTCAT-ATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
* * *
88795080 TAAAGGTCATGGTCTTTAGCGGCTTTTGCCAGAAAAGCGCTGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
* * *
88795123 TAAAAGTCATGGTCTTTAGCGGCGTTTGCGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
88795166 TAAAGGTCATGGTCTTTAG
1 TAAAGGTCATGGTCTTTAG
88795185 TAGCATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 10 0.11
43 81 0.89
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAGAAAAGCGCCGC
Found at i:88803298 original size:56 final size:56
Alignment explanation
Indices: 88803231--88803406 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
88803221 TATTAGTTTA
*
88803231 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88803287 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88803343 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88803399 TTGCCCAT
1 TTGCCCAT
88803407 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:88809390 original size:28 final size:28
Alignment explanation
Indices: 88809358--88809485 Score: 166
Period size: 29 Copynumber: 4.5 Consensus size: 28
88809348 ATAGTAAGTC
*
88809358 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
88809386 CGCACACTTAGTGCTTACATAATTAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
88809415 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
88809443 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
88809472 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88809486 CAATCTCATG
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:88809422 original size:57 final size:57
Alignment explanation
Indices: 88809357--88809485 Score: 197
Period size: 57 Copynumber: 2.3 Consensus size: 57
88809347 CATAGTAAGT
*
88809357 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATTAAAC
* * * *
88809414 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATTAAAC
88809471 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
88809486 CAATCTCATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATTAAAC
Found at i:88815831 original size:40 final size:40
Alignment explanation
Indices: 88815776--88815992 Score: 305
Period size: 40 Copynumber: 5.5 Consensus size: 40
88815766 TGGATGATAA
** * *
88815776 CCGGGCTAAGTCCCGAAGGCATTTACGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
88815816 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
88815856 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
88815896 CCGGGCTAGGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
88815936 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
88815976 CC-GGTTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
88815993 ATACTTGGCT
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:88827504 original size:29 final size:30
Alignment explanation
Indices: 88827438--88827507 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 30
88827428 TAAGTCTTCA
*
88827438 AAAATAAAGAAGAGAAAATAAAATTTAAAT
1 AAAATAAAGAAGAGAAAATAAAATTCAAAT
* *
88827468 AAATATAAA-AATA-AAAATAAAATTCATAGT
1 AAA-ATAAAGAAGAGAAAATAAAATTCA-AAT
88827498 AAAATAAAGA
1 AAAATAAAGA
88827508 GACTCAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 17 0.50
30 12 0.35
31 5 0.15
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.21
Consensus pattern (30 bp):
AAAATAAAGAAGAGAAAATAAAATTCAAAT
Found at i:88827650 original size:15 final size:15
Alignment explanation
Indices: 88827613--88827643 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
88827603 ATCTAACTGT
88827613 TCAAAGCACTGCTGC
1 TCAAAGCACTGCTGC
88827628 TCAAAGCACTGCTGC
1 TCAAAGCACTGCTGC
88827643 T
1 T
88827644 TTAAGCAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (15 bp):
TCAAAGCACTGCTGC
Found at i:88829318 original size:17 final size:18
Alignment explanation
Indices: 88829296--88829329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88829286 GAAAAAGAAA
*
88829296 TAAGGGA-AAGGGAGGGG
1 TAAGGGAGAAGAGAGGGG
88829313 TAAGGGAGAAGAGAGGG
1 TAAGGGAGAAGAGAGGG
88829330 TCAGGCGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.56, T:0.06
Consensus pattern (18 bp):
TAAGGGAGAAGAGAGGGG
Found at i:88834966 original size:70 final size:68
Alignment explanation
Indices: 88834892--88835055 Score: 170
Period size: 70 Copynumber: 2.4 Consensus size: 68
88834882 AATAAATTAT
*
88834892 TTTAAA-TATTTCATTAATAATTTGG-GTTGTAATTAATTATTTAAATTGGATAAATTTTATTCC
1 TTTAAATTA-TTCATT--TAATTTGGAGGTGTAA-TAATTATTTAAATTGGATAAATTTTATTCC
88834955 TTGGTCC
62 TTGGTCC
* * * * * *
88834962 TTTAACTTATTGATTTATTTTGGACAGGTGTGATAATTATTTATATTGGATAATTTTTATTCCTT
1 TTTAAATTATTCATTTAATTTGG--AGGTGTAATAATTATTTAAATTGGATAAATTTTATTCCTT
88835027 GGTCC
64 GGTCC
* * *
88835032 TTTAACTTATTGATTTATTTTGGA
1 TTTAAATTATTCATTTAATTTGGA
88835056 CAGTTCTGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
68 8 0.10
70 68 0.82
71 7 0.08
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.52
Consensus pattern (68 bp):
TTTAAATTATTCATTTAATTTGGAGGTGTAATAATTATTTAAATTGGATAAATTTTATTCCTTGG
TCC
Found at i:88835056 original size:70 final size:70
Alignment explanation
Indices: 88834925--88835058 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
88834915 GGGTTGTAAT
88834925 TAATTATTTAAATTGGATAAATTTTATTCCTTGGTCCTTTAACTTATTGATTTATTTTGGACAGG
1 TAATTATTTAAATTGGATAAATTTTATTCCTTGGTCCTTTAACTTATTGATTTATTTTGGACAGG
88834990 TGTGA
66 TGTGA
* *
88834995 TAATTATTTATATTGGATAATTTTTATTCCTTGGTCCTTTAACTTATTGATTTATTTTGGACAG
1 TAATTATTTAAATTGGATAAATTTTATTCCTTGGTCCTTTAACTTATTGATTTATTTTGGACAG
88835059 TTCTGATAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (70 bp):
TAATTATTTAAATTGGATAAATTTTATTCCTTGGTCCTTTAACTTATTGATTTATTTTGGACAGG
TGTGA
Found at i:88838857 original size:14 final size:16
Alignment explanation
Indices: 88838824--88838860 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
88838814 TTTTAATTAG
*
88838824 TATTATGAGATAAAAT
1 TATTATTAGATAAAAT
88838840 TATTATTAGA-AAAA-
1 TATTATTAGATAAAAT
88838854 TATTATT
1 TATTATT
88838861 GTATGTGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
TATTATTAGATAAAAT
Done.