Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 111 of 210
Found at i:32718613 original size:2 final size:2
Alignment explanation
Indices: 32718608--32718639 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32718598 CAGATATATA
32718608 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
32718640 AATGAATCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:32719827 original size:72 final size:72
Alignment explanation
Indices: 32719710--32719853 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
32719700 TTGATACATT
32719710 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
32719775 TTGGATA
66 TTGGATA
* *
32719782 TATGTGGTGTAATGTTATGCACTTGGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
32719847 TTGGATA
66 TTGGATA
32719854 ATATTATTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (72 bp):
TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
TTGGATA
Found at i:32720055 original size:10 final size:10
Alignment explanation
Indices: 32720040--32720078 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
32720030 AAAAATAATT
32720040 TATTAATATA
1 TATTAATATA
*
32720050 TATTAATAAA
1 TATTAATATA
32720060 TA-T-ATATA
1 TATTAATATA
32720068 TATTAATATA
1 TATTAATATA
32720078 T
1 T
32720079 GTAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 6 0.24
9 2 0.08
10 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TATTAATATA
Found at i:32720075 original size:14 final size:13
Alignment explanation
Indices: 32720039--32720078 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
32720029 TAAAAATAAT
32720039 TTATTAATATATA
1 TTATTAATATATA
*
32720052 TTAATAAATATATA
1 TT-ATTAATATATA
32720066 TATATTAATATAT
1 T-TATTAATATAT
32720079 GTAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 20 0.87
15 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTATTAATATATA
Found at i:32720210 original size:20 final size:20
Alignment explanation
Indices: 32720185--32720224 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32720175 AATACTTTCC
*
32720185 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
32720205 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
32720225 TCATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:32724442 original size:19 final size:19
Alignment explanation
Indices: 32724401--32724445 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32724391 TTCCCCATTG
*
32724401 TATTATTTTTTTATAAGAT
1 TATTATTTTTTTATAAGAA
*
32724420 TATTATTTTATTTCTAA-AA
1 TATTATTTT-TTTATAAGAA
32724439 TATTATT
1 TATTATT
32724446 ATAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTATTTTTTTATAAGAA
Found at i:32728370 original size:13 final size:13
Alignment explanation
Indices: 32728352--32728395 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
32728342 ACAAAGAGTT
32728352 ACACGGCCTGGCG
1 ACACGGCCTGGCG
* *
32728365 ACACGGCCTAGTG
1 ACACGGCCTGGCG
*
32728378 ACACGGTCTGGCG
1 ACACGGCCTGGCG
32728391 ACACG
1 ACACG
32728396 ACTGTGTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.20, C:0.34, G:0.34, T:0.11
Consensus pattern (13 bp):
ACACGGCCTGGCG
Found at i:32738492 original size:21 final size:21
Alignment explanation
Indices: 32738468--32738517 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
32738458 TTTGCCTAAG
*
32738468 ATGTGAATTGGATTAAATTGA
1 ATGTAAATTGGATTAAATTGA
* *
32738489 ATGTAAATTGTATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
*
32738510 GT-TAAATT
1 ATGTAAATT
32738518 TACTCATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:32746742 original size:67 final size:66
Alignment explanation
Indices: 32746607--32746758 Score: 159
Period size: 66 Copynumber: 2.3 Consensus size: 66
32746597 AATTTTAATC
* ** *
32746607 TCTAATGCTAAAAAATGAAATAAACCCCACTGCAAATAAAATCTATTAAAACATAAAATTCTAAA
1 TCTAAAGCTAAAAAATGAAATAAACCAAACTGCAAATAAAATCTAATAAAACATAAAATTCTAAA
32746672 T
66 T
* * * *
32746673 TCTAAAGTTAAAAAATGAAATAAATCAAAC-GCTAAATGAAAATTTAATAAAACGTAATAA-TC-
1 TCTAAAGCTAAAAAATGAAATAAACCAAACTGC-AAAT-AAAATCTAATAAAACATAA-AATTCT
32746735 AAGAT
63 AA-AT
*
32746740 TCTAAGGCT-AAAAATGAAA
1 TCTAAAGCTAAAAAATGAAA
32746759 GAAAATAACC
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
65 2 0.03
66 41 0.57
67 27 0.38
68 2 0.03
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (66 bp):
TCTAAAGCTAAAAAATGAAATAAACCAAACTGCAAATAAAATCTAATAAAACATAAAATTCTAAA
T
Found at i:32747179 original size:14 final size:15
Alignment explanation
Indices: 32747151--32747183 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
32747141 TCTATTTTAA
32747151 TATTATATAAAATTT
1 TATTATATAAAATTT
32747166 TATTATAT-AAATTT
1 TATTATATAAAATTT
32747180 TATT
1 TATT
32747184 GAATTGATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATAAAATTT
Found at i:32753199 original size:28 final size:28
Alignment explanation
Indices: 32753153--32753208 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
32753143 TGGTTCTTGA
** *
32753153 AACATTAGATGTGATGTGCAAGTATGAT
1 AACATTAGATGCAACGTGCAAGTATGAT
*
32753181 AACATTAGATGCAACGTGCATGTATGAT
1 AACATTAGATGCAACGTGCAAGTATGAT
32753209 TCAGGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (28 bp):
AACATTAGATGCAACGTGCAAGTATGAT
Found at i:32756063 original size:26 final size:26
Alignment explanation
Indices: 32756001--32756065 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
32755991 TTTGACTTTG
32756001 ACTAGCGAACCCCTAGTTCGCAACTTA
1 ACTAGCGAA-CCCTAGTTCGCAACTTA
* **
32756028 CCTAATGAACCCTAGTTCGCAACTTA
1 ACTAGCGAACCCTAGTTCGCAACTTA
32756054 ACTAGCGAACCC
1 ACTAGCGAACCC
32756066 CCTTACCGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.31, C:0.34, G:0.14, T:0.22
Consensus pattern (26 bp):
ACTAGCGAACCCTAGTTCGCAACTTA
Found at i:32767362 original size:15 final size:15
Alignment explanation
Indices: 32767342--32767372 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32767332 CCAACCTTCA
*
32767342 AATTTTAGGTCAATT
1 AATTTTACGTCAATT
32767357 AATTTTACGTCAATT
1 AATTTTACGTCAATT
32767372 A
1 A
32767373 TACATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (15 bp):
AATTTTACGTCAATT
Found at i:32771916 original size:16 final size:16
Alignment explanation
Indices: 32771895--32771933 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32771885 TTGATTTGCT
*
32771895 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
32771911 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
32771927 ATTACAC
1 ATTACAC
32771934 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:32771934 original size:16 final size:16
Alignment explanation
Indices: 32771907--32771948 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
32771897 TACACAGCTT
32771907 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
32771923 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
* *
32771939 ATCCAATACA
1 TTCCATTACA
32771949 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCCATTACACCTCTA
Found at i:32772323 original size:12 final size:13
Alignment explanation
Indices: 32772306--32772334 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32772296 CTCATACATG
32772306 AATAAATAAA-GC
1 AATAAATAAATGC
32772318 AATAAATAAATGC
1 AATAAATAAATGC
32772331 AATA
1 AATA
32772335 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:32775064 original size:21 final size:20
Alignment explanation
Indices: 32775019--32775068 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
32775009 CTCAATCCTT
*
32775019 TCAATTCTTTCAATGTGCGA
1 TCAATTCTTTCAATGTGAGA
32775039 TCAATTCTTTCAAT-TGAGATA
1 TCAATTCTTTCAATGTGAG--A
32775060 TCAATTCTT
1 TCAATTCTT
32775069 GCATTAACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (20 bp):
TCAATTCTTTCAATGTGAGA
Found at i:32775914 original size:13 final size:13
Alignment explanation
Indices: 32775874--32775914 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32775864 AAACGAATCC
32775874 AATTAAAATAAA-
1 AATTAAAATAAAT
*
32775886 AAATAAAATAAAAT
1 AATTAAAAT-AAAT
32775900 AATTAAAATAAAT
1 AATTAAAATAAAT
32775913 AA
1 AA
32775915 CTAAGGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
14 8 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTAAAATAAAT
Found at i:32775953 original size:12 final size:12
Alignment explanation
Indices: 32775922--32775960 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
32775912 TAACTAAGGT
32775922 AAATAAA-ATAGA
1 AAATAAAGA-AGA
32775934 ACAATAAAGAAGA
1 A-AATAAAGAAGA
32775947 AAATAAAGAAGA
1 AAATAAAGAAGA
32775959 AA
1 AA
32775961 GATGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.56
13 10 0.40
14 1 0.04
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (12 bp):
AAATAAAGAAGA
Found at i:32779554 original size:21 final size:21
Alignment explanation
Indices: 32779512--32779570 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
32779502 TCGTGTTTTA
* * * *
32779512 CTTTTTTTCAGCTTTTACGAG
1 CTTTTGTTAAGCTCTTATGAG
*
32779533 CTTTTGTTAAGTTCTTATGAG
1 CTTTTGTTAAGCTCTTATGAG
*
32779554 CTTTTGTTCAGCTCTTA
1 CTTTTGTTAAGCTCTTA
32779571 CGAACATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.53
Consensus pattern (21 bp):
CTTTTGTTAAGCTCTTATGAG
Found at i:32779643 original size:118 final size:119
Alignment explanation
Indices: 32779457--32779692 Score: 402
Period size: 118 Copynumber: 2.0 Consensus size: 119
32779447 GAGACAATAG
* * * *
32779457 CATTTTTTCCCAAGTAAATCGGGGTTCAAAATTTGTTGCAAACTCTCGTGTTTTACTTTTTTTCA
1 CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTGCAAACTCTCATGTTTTACTTTTTTTCA
*
32779522 GC-TTTTACGAGCTTTTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGAA
66 GCTTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGAA
*
32779575 CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTGCAAACTCTCATGTTTTACTTTTTTTTA
1 CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTGCAAACTCTCATGTTTTACTTTTTTTCA
*
32779640 GCTTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTTAGCTCTTACGA
66 GCTTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGA
32779693 GCTTCTATTA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
118 62 0.56
119 48 0.44
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (119 bp):
CATTTTTTCCCAACTAAACCAGGGTTCAAAATTTGTTGCAAACTCTCATGTTTTACTTTTTTTCA
GCTTTTTACGAGCTTCTGTTAAGTTCTTATGAGCTTTTGTTCAGCTCTTACGAA
Found at i:32779675 original size:21 final size:21
Alignment explanation
Indices: 32779649--32779741 Score: 109
Period size: 21 Copynumber: 4.5 Consensus size: 21
32779639 AGCTTTTTAC
*
32779649 GAGCTTCTGTTAAGTTCTTAT
1 GAGCTTCTGTTAAGCTCTTAT
* * *
32779670 GAGCTTTTGTTTAGCTCTTAC
1 GAGCTTCTGTTAAGCTCTTAT
*
32779691 GAGCTTCTATTAAGCTCTTAT
1 GAGCTTCTGTTAAGCTCTTAT
* *
32779712 GAGCTTCTGTTCAGCT-TT-C
1 GAGCTTCTGTTAAGCTCTTAT
32779731 GAGCTTCTGTT
1 GAGCTTCTGTT
32779742 GGCGTATTCG
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 11 0.18
20 2 0.03
21 48 0.79
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.45
Consensus pattern (21 bp):
GAGCTTCTGTTAAGCTCTTAT
Found at i:32779698 original size:42 final size:41
Alignment explanation
Indices: 32779630--32779741 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 41
32779620 TCATGTTTTA
* *
32779630 CTTTTTTTTAGCTTTTTACGAGCTTCTGTTAAGTTCTTATGAG
1 CTTTTGTTTAGC--TTTACGAGCTTCTGTTAAGCTCTTATGAG
*
32779673 CTTTTGTTTAGCTCTTACGAGCTTCTATTAAGCTCTTATGAG
1 CTTTTGTTTAGCT-TTACGAGCTTCTGTTAAGCTCTTATGAG
* *
32779715 CTTCTGTTCAGCTTT-CGAGCTTCTGTT
1 CTTTTGTTTAGCTTTACGAGCTTCTGTT
32779742 GGCGTATTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 11 0.18
41 3 0.05
42 37 0.60
43 11 0.18
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.49
Consensus pattern (41 bp):
CTTTTGTTTAGCTTTACGAGCTTCTGTTAAGCTCTTATGAG
Found at i:32785755 original size:32 final size:34
Alignment explanation
Indices: 32785719--32785795 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 34
32785709 ACTTTTTTGC
*
32785719 AAAATATTTTTA-AGAAATTT-GCCAAACAAC-AG
1 AAAATATTTTTACACAAATTTAGCCAAAC-ACTAG
* *
32785751 AAAATA-TTTTACACAGATTTATCCAAACACTAG
1 AAAATATTTTTACACAAATTTAGCCAAACACTAG
32785784 AAAATATTTTTA
1 AAAATATTTTTA
32785796 GTAAATCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 5 0.13
32 14 0.37
33 14 0.37
34 5 0.13
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (34 bp):
AAAATATTTTTACACAAATTTAGCCAAACACTAG
Found at i:32785822 original size:20 final size:19
Alignment explanation
Indices: 32785797--32785835 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
32785787 ATATTTTTAG
32785797 TAAATCATTTTCCAGAAAAT
1 TAAATCATTTTCCA-AAAAT
32785817 TAAATCATTTTCCAAAAAT
1 TAAATCATTTTCCAAAAAT
32785836 CATTTTCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAATCATTTTCCAAAAAT
Found at i:32785837 original size:14 final size:15
Alignment explanation
Indices: 32785818--32785855 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
32785808 CCAGAAAATT
32785818 AAATCATTTTCC-AA
1 AAATCATTTTCCGAA
32785832 AAATCATTTTCCGAA
1 AAATCATTTTCCGAA
32785847 AAA-CATTTT
1 AAATCATTTT
32785856 AGTGGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (15 bp):
AAATCATTTTCCGAA
Found at i:32792523 original size:12 final size:12
Alignment explanation
Indices: 32792506--32792530 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32792496 AACCCAAGAT
32792506 AATCTTATTTTA
1 AATCTTATTTTA
32792518 AATCTTATTTTA
1 AATCTTATTTTA
32792530 A
1 A
32792531 TATTAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AATCTTATTTTA
Found at i:32794799 original size:212 final size:212
Alignment explanation
Indices: 32794432--32794861 Score: 815
Period size: 212 Copynumber: 2.0 Consensus size: 212
32794422 TATAGATGTC
*
32794432 TCATCTACATTTTACTTTGCATCTTAAAGGTCAGGTTTAGTTTAGTTTGTATACACAACACCATT
1 TCATCTACATTTTACTTTGCATCTTAAAGGACAGGTTTAGTTTAGTTTGTATACACAACACCATT
32794497 GATTAGGGAGAGACCTTGCTAGCTTTCAGCTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
66 GATTAGGGAGAGACCTTGCTAGCTTTCAGCTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
*
32794562 CTCTATGTAGAAACATAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
131 CTCTATGTAGAAACACAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
*
32794627 TGTATTTTTCTTCTGTT
196 TGTATTTTCCTTCTGTT
32794644 TCATCTACATTTTACTTTGCATCTTAAAGGACAGGTTTAGTTTAGTTTGTATACACAACACCATT
1 TCATCTACATTTTACTTTGCATCTTAAAGGACAGGTTTAGTTTAGTTTGTATACACAACACCATT
*
32794709 GATTAGGGAGAGACCTTGCTAGCTTTCAGGTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
66 GATTAGGGAGAGACCTTGCTAGCTTTCAGCTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
*
32794774 CTCTATGTAGAAACACAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCTTATGTCT
131 CTCTATGTAGAAACACAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
32794839 TGTATTTTCCTTCTGTT
196 TGTATTTTCCTTCTGTT
32794856 TCATCT
1 TCATCT
32794862 TTTTTCTCTT
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
212 213 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (212 bp):
TCATCTACATTTTACTTTGCATCTTAAAGGACAGGTTTAGTTTAGTTTGTATACACAACACCATT
GATTAGGGAGAGACCTTGCTAGCTTTCAGCTTTTGGATCAAATGTGACTTGCAATGACTAGTGCG
CTCTATGTAGAAACACAACAGAAGACAGAAAATTAAGAAACTGAAAAAATGAATTGCGTATGTCT
TGTATTTTCCTTCTGTT
Found at i:32803693 original size:33 final size:32
Alignment explanation
Indices: 32803629--32803689 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
32803619 ATATTTATGC
*
32803629 CTTAAATTGAAAATGATTTTTATATAAGGGAG
1 CTTAAATTGAAAATGAATTTTATATAAGGGAG
32803661 CTTAAATTGAAAATGAATTTTAT-TAAGGG
1 CTTAAATTGAAAATGAATTTTATATAAGGG
32803690 GGAGTAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (32 bp):
CTTAAATTGAAAATGAATTTTATATAAGGGAG
Found at i:32804063 original size:20 final size:20
Alignment explanation
Indices: 32804038--32804088 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
32804028 GTATCGATCC
*
32804038 GGTATCGATACT-TTTCTTAA
1 GGTATCGATA-TATTTCATAA
32804058 GGTATCGATATATTTCATAA
1 GGTATCGATATATTTCATAA
32804078 GGTATCGATAT
1 GGTATCGATAT
32804089 TTCAGCTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTATCGATATATTTCATAA
Found at i:32807215 original size:20 final size:20
Alignment explanation
Indices: 32807190--32807241 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
32807180 ACTTTTGGAC
32807190 AAAGGACTAAATTGTAATAA
1 AAAGGACTAAATTGTAATAA
32807210 AAAGGACTAAATTGTAATAA
1 AAAGGACTAAATTGTAATAA
**
32807230 ATTGGACTAAAT
1 AAAGGACTAAAT
32807242 CAAATAGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (20 bp):
AAAGGACTAAATTGTAATAA
Found at i:32807819 original size:54 final size:54
Alignment explanation
Indices: 32807761--32807909 Score: 178
Period size: 54 Copynumber: 2.8 Consensus size: 54
32807751 AAATGTCTGC
* *
32807761 CAGACCATGTAACTCAC-ATATTTGGGCCACACGCCCGTGTCTCAACCCTTGTGT
1 CAGACCATGTAACTCACTA-ATTTGGGCCATACGCCCGTGTCTCAACCCGTGTGT
* * *
32807815 CAGACCATGTAACTCACTGACTTT-AGCCATA-GACCCATGTCTCAACCCGTGTGT
1 CAGACCATGTAACTCACT-AATTTGGGCCATACG-CCCGTGTCTCAACCCGTGTGT
* * *
32807869 CAAACCGTGTAACTCACTAACTTGGGCCATACGCCCGTGTC
1 CAGACCATGTAACTCACTAATTTGGGCCATACGCCCGTGTC
32807910 CAGGCTATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
53 4 0.05
54 70 0.89
55 4 0.05
56 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (54 bp):
CAGACCATGTAACTCACTAATTTGGGCCATACGCCCGTGTCTCAACCCGTGTGT
Found at i:32817033 original size:75 final size:75
Alignment explanation
Indices: 32816942--32817223 Score: 296
Period size: 75 Copynumber: 3.8 Consensus size: 75
32816932 TAACCAAGTT
* * * * * *
32816942 TTGCGCCCCGCACTAGTTGGATAAACCGATAGATATAATGATGTGCCCAACACCAGTTAGATAAA
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACTAGTTAGATAAA
*
32817007 CTGACGAAGG
66 CTGACGAAAG
* * * ** *
32817017 TTGCGCCCAGCGCTAGTCGGATAAATCGAAAAATACAATGTTGTGCCCTTCACTAGTTTGATAAA
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACTAGTTAGATAAA
*
32817082 CTGAAGAAAG
66 CTGACGAAAG
* * * * *
32817092 TTGCGCCCAACGCTAGTCGGATAAACTGAAAAATATAATGGTGTGCCCAACACTAGTCAAATAAA
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACTAGTTAGATAAA
*
32817157 CTGGCGAAAG
66 CTGACGAAAG
** ** * * * *
32817167 TCACGCCCAATGCTAGTCGGATACACC-AACAAATATAATGGTTTGCCCAGCACTAGT
1 TTGCGCCCAGCGCTAGTCGGATAAACCGAA-AAATATAATGATGTGCCCAACACTAGT
32817224 CGAATAAATC
Statistics
Matches: 173, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
74 2 0.01
75 171 0.99
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (75 bp):
TTGCGCCCAGCGCTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACTAGTTAGATAAA
CTGACGAAAG
Found at i:32817214 original size:150 final size:150
Alignment explanation
Indices: 32816954--32817223 Score: 337
Period size: 150 Copynumber: 1.8 Consensus size: 150
32816944 GCGCCCCGCA
* * * * * * *
32816954 CTAGTTGGATAAACCGATAGATATAATGATGTGCCCAACACCAGTTAGATAAACTGACGAAGGTT
1 CTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACCAGTCAAATAAACTGACGAAAGTC
* * * **
32817019 GCGCCCAGCGCTAGTCGGATAAATCGAAAAATACAATGTTGTGCCCTTCACTAGTTTGATAAACT
66 ACGCCCAACGCTAGTCGGATAAATCCAAAAATACAATGTTGTGCCCAGCACTAGTTTGATAAACT
32817084 GAAGAAAGTTGCGCCCAACG
131 GAAGAAAGTTGCGCCCAACG
* * * *
32817104 CTAGTCGGATAAACTGAAAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGGCGAAAGTC
1 CTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACCAGTCAAATAAACTGACGAAAGTC
* * *
32817169 ACGCCCAATGCTAGTCGGATACA-CCAACAAATATAATGGTT-TGCCCAGCACTAGT
66 ACGCCCAACGCTAGTCGGATAAATCCAA-AAATACAAT-GTTGTGCCCAGCACTAGT
32817224 CGAATAAATC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
149 3 0.03
150 93 0.94
151 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (150 bp):
CTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACCAGTCAAATAAACTGACGAAAGTC
ACGCCCAACGCTAGTCGGATAAATCCAAAAATACAATGTTGTGCCCAGCACTAGTTTGATAAACT
GAAGAAAGTTGCGCCCAACG
Found at i:32817231 original size:150 final size:151
Alignment explanation
Indices: 32816954--32817261 Score: 331
Period size: 150 Copynumber: 2.0 Consensus size: 151
32816944 GCGCCCCGCA
* * * * * * *
32816954 CTAGTTGGATAAACCGATAGATATAATGATGTGCCCAACACCAGTTAGATAAACTGACGAAGGTT
1 CTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACCAGTCAAATAAACTGACGAAAGTC
* * * ** *
32817019 GCGCCCAGCGCTAGTCGGATAAATCGAAAAATACAATGTTGTGCCCTTCACTAGTTTGATAAA-C
66 ACGCCCAACGCTAGTCGGATAAATCCAAAAATACAATGTTGTGCCCAGCACTAGTTCGATAAATC
32817083 TGA-AGAAAG-TTGCGCCCAACG
131 -GACA-AAAGTTTGCGCCCAACG
* * * *
32817104 CTAGTCGGATAAACTGAAAAATATAATGGTGTGCCCAACACTAGTCAAATAAACTGGCGAAAGTC
1 CTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACCAGTCAAATAAACTGACGAAAGTC
* * *
32817169 ACGCCCAATGCTAGTCGGATACA-CCAACAAATATAATGGTT-TGCCCAGCACTAG-TCGAATAA
66 ACGCCCAACGCTAGTCGGATAAATCCAA-AAATACAAT-GTTGTGCCCAGCACTAGTTCG-ATAA
*
32817231 ATCGACAAAGGTTTGCGCCCAACG
128 ATCGACAAAAGTTTGCGCCCAACG
*
32817255 CTGGTCG
1 CTAGTCG
32817262 AATGAATCGA
Statistics
Matches: 130, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
149 5 0.04
150 102 0.78
151 23 0.18
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (151 bp):
CTAGTCGGATAAACCGAAAAATATAATGATGTGCCCAACACCAGTCAAATAAACTGACGAAAGTC
ACGCCCAACGCTAGTCGGATAAATCCAAAAATACAATGTTGTGCCCAGCACTAGTTCGATAAATC
GACAAAAGTTTGCGCCCAACG
Found at i:32818445 original size:7 final size:7
Alignment explanation
Indices: 32818435--32818466 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
32818425 TTTTGTTTTT
32818435 TTTTTAA
1 TTTTTAA
32818442 TTTTTAA
1 TTTTTAA
32818449 TTTTTAA
1 TTTTTAA
32818456 TTTTTAA
1 TTTTTAA
32818463 TTTT
1 TTTT
32818467 CTCCTATCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:32819098 original size:33 final size:33
Alignment explanation
Indices: 32819056--32819123 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
32819046 CTTTTTAATT
32819056 AATATATACAGTTTCGGTAAAATTCTTGTCGAA
1 AATATATACAGTTTCGGTAAAATTCTTGTCGAA
32819089 AATATATACAGTTTCGGTAAAATTCTTGTCGAA
1 AATATATACAGTTTCGGTAAAATTCTTGTCGAA
32819122 AA
1 AA
32819124 ATAAATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (33 bp):
AATATATACAGTTTCGGTAAAATTCTTGTCGAA
Found at i:32825976 original size:50 final size:50
Alignment explanation
Indices: 32825920--32826073 Score: 227
Period size: 50 Copynumber: 3.1 Consensus size: 50
32825910 ACAATACTAG
* * * *
32825920 TTCACACATATAACTTATATAATTAGCACACACATACTTTGTATAGACAG
1 TTCACACATAGAACTTATATAATCAGCACGCACATACTTTGTATAGACAA
* * *
32825970 TTCACACAGAGAAATTATATAATCAACACGCACATACTTTGTATAGACAA
1 TTCACACATAGAACTTATATAATCAGCACGCACATACTTTGTATAGACAA
* *
32826020 TTCACACATAGAACTTAAATAAGCAGCACGCACATACTTTGTATAGACAA
1 TTCACACATAGAACTTATATAATCAGCACGCACATACTTTGTATAGACAA
32826070 TTCA
1 TTCA
32826074 TGGACCCTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 92 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (50 bp):
TTCACACATAGAACTTATATAATCAGCACGCACATACTTTGTATAGACAA
Found at i:32835688 original size:20 final size:19
Alignment explanation
Indices: 32835665--32835716 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
32835655 GATTTTTGGG
*
32835665 AAAATTAATTTTAATCAAGT
1 AAAATTAA-ATTAATCAAGT
*
32835685 AAAATTAAATTAATCAAAT
1 AAAATTAAATTAATCAAGT
*
32835704 -TAATTAAATTAAT
1 AAAATTAAATTAAT
32835717 ATGATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.41
19 9 0.31
20 8 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTAAATTAATCAAGT
Found at i:32843587 original size:16 final size:16
Alignment explanation
Indices: 32843566--32843598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32843556 TTCGCTGTAT
*
32843566 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCATAA
32843582 TGGAATAGAGGCATAA
1 TGGAATAGAGGCATAA
32843598 T
1 T
32843599 AATCAATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCATAA
Found at i:32843845 original size:16 final size:16
Alignment explanation
Indices: 32843808--32843849 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32843798 TTAATCATAT
*
32843808 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
32843824 TT-AAATATATTATAA
1 TTAAAATATATTATAA
32843839 TTAAAATATAT
1 TTAAAATATAT
32843850 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:32843856 original size:14 final size:15
Alignment explanation
Indices: 32843817--32843858 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32843807 TTTAAACATA
*
32843817 ATTATTATTAAATAT
1 ATTATAATTAAATAT
32843832 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
32843846 A-TATAATTTAATA
1 ATTATAATTAAATA
32843859 AAATTCTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:32844216 original size:47 final size:46
Alignment explanation
Indices: 32844147--32844414 Score: 179
Period size: 47 Copynumber: 5.9 Consensus size: 46
32844137 TTAATTAAAA
*
32844147 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
32844194 TATATGAATTTATATAATTTAAAACAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
32844239 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
32844285 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
32844330 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
32844376 TATATGAATTTATACAATTTAAAAT-ATT-TAATATTAAAT
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT
32844415 AAAATTTAAT
Statistics
Matches: 174, Mismatches: 24, Indels: 49
0.70 0.10 0.20
Matches are distributed among these distances:
43 6 0.03
44 55 0.32
45 18 0.10
46 20 0.11
47 65 0.37
48 10 0.06
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:32844229 original size:101 final size:98
Alignment explanation
Indices: 32844104--32844426 Score: 363
Period size: 91 Copynumber: 3.4 Consensus size: 98
32844094 ATACTATAAA
* *
32844104 ATATAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTT-A
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAAAATATAT-ATTT-ATAAAATTTCA
32844168 AAATAATT-ATAACTAATAAATTTTCTTATATGAATTT
63 AAA-AATTCATAA-TAATAAATTTTCTTATATGAATTT
* * *
32844205 ATATAATTTAAAACAATTATTATTAAATATAATTTAAT--AATA-ATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
* *
32844263 AATTCGTGATAATAAATTTTCTTATATGAATTT
66 AATTCATAATAATAAATTTTCTTATATGAATTT
* *
32844296 ATATAATTTAAAATAATTAATATTAAATATAATTTAAT--AAT-GATA--TAT--AATTTCATAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
* *
32844354 AATTCTTGATAATAAATTTTCTTATATGAATTT
66 AATTCATAATAATAAATTTTCTTATATGAATTT
* * *
32844387 ATACAATTTAAAATATTTAATATTAAATAAAATTTAATAA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
32844427 TAAAATGTTC
Statistics
Matches: 204, Mismatches: 13, Indels: 18
0.87 0.06 0.08
Matches are distributed among these distances:
91 155 0.76
92 5 0.02
93 2 0.01
94 1 0.00
96 1 0.00
97 2 0.01
98 4 0.02
100 1 0.00
101 33 0.16
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (98 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAAAATATATATTTATAAAATTTCAAAA
AATTCATAATAATAAATTTTCTTATATGAATTT
Found at i:32844254 original size:44 final size:42
Alignment explanation
Indices: 32844204--32844428 Score: 125
Period size: 44 Copynumber: 5.0 Consensus size: 42
32844194 TATATGAATT
32844204 TATATAATTTAAAACAATTATTATTAAATATAATTTAATAATAA
1 TATATAATTTAAAA-AATTATTATTAAATATAATTTAATAAT-A
* * * * *
32844248 TATATAATTTCATAAAATTCGTGATAATAAAT-T-TTCTTATATGAATT
1 TATATAATTT-AAAAAATT-AT--TATTAAATATAAT-TTA-AT-AATA
*
32844295 TATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGA
1 TATATAATTTAAAA-AATTATTATTAAATATAATTTAATAAT-A
* * * *
32844339 TATATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATT
1 TATATAATTT-AAAAAATTATT-AT--TAAATATAAT-TTA-AT-AATA
* * * *
32844386 TATACAATTTAAAATATTTAATATTAAATAAAATTTAATAATA
1 TATATAATTTAAAA-AATTATTATTAAATATAATTTAATAATA
32844429 AAATGTTCTT
Statistics
Matches: 136, Mismatches: 24, Indels: 43
0.67 0.12 0.21
Matches are distributed among these distances:
43 6 0.04
44 45 0.33
45 18 0.13
46 18 0.13
47 43 0.32
48 6 0.04
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (42 bp):
TATATAATTTAAAAAATTATTATTAAATATAATTTAATAATA
Found at i:32844277 original size:91 final size:91
Alignment explanation
Indices: 32844181--32844429 Score: 435
Period size: 91 Copynumber: 2.7 Consensus size: 91
32844171 TAATTATAAC
* *
32844181 TAATAAATTTTCTTATATGAATTTATATAATTTAAAACAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
32844246 AATATATAATTTCATAAAATTCGTGA
66 AATATATAATTTCATAAAATTCGTGA
32844272 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
32844337 GATATATAATTTCATAAAATTCTTGA
66 AATATATAATTTCATAAAATTCGTGA
* * *
32844363 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATATTTAATATTAAATAAAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
32844428 AA
66 AA
32844430 AATGTTCTTA
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 150 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCGTGA
Found at i:32847755 original size:37 final size:37
Alignment explanation
Indices: 32847714--32847802 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
32847704 GTATAAATAT
*
32847714 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTTAAC
1 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
*
32847751 ATTGATTAGTTTAATAAAGCATGTTCAAAGTTTGAAC
1 ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
32847788 ATTGATTAGTTTATT
1 ATTGATTAGTTTATT
32847803 TATTTATGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.44
Consensus pattern (37 bp):
ATTGATTAGTTTATTAAAGCATGTTCAAAGTTTGAAC
Found at i:32847814 original size:19 final size:19
Alignment explanation
Indices: 32847790--32847838 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
32847780 GTTTGAACAT
32847790 TGATTAGTTTATTTATTTA
1 TGATTAGTTTATTTATTTA
32847809 TGATTAGTTTATTTATTTA
1 TGATTAGTTTATTTATTTA
32847828 TGATTAGTTTA
1 TGATTAGTTTA
32847839 ATTAAGGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (19 bp):
TGATTAGTTTATTTATTTA
Found at i:32847899 original size:31 final size:31
Alignment explanation
Indices: 32847864--32847927 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
32847854 TTTTAAAACA
32847864 AATAAAATAAAGAATGAGGATTTGGATTAAT
1 AATAAAATAAAGAATGAGGATTTGGATTAAT
*
32847895 AATAAAATAAAGAATGAGGATTTGGTTTAAT
1 AATAAAATAAAGAATGAGGATTTGGATTAAT
32847926 AA
1 AA
32847928 AGAATGATGG
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:0.52, C:0.00, G:0.19, T:0.30
Consensus pattern (31 bp):
AATAAAATAAAGAATGAGGATTTGGATTAAT
Found at i:32849163 original size:23 final size:24
Alignment explanation
Indices: 32849103--32849165 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
32849093 TCTACTGACT
32849103 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
32849127 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
32849149 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
32849166 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:32849174 original size:22 final size:22
Alignment explanation
Indices: 32849132--32849177 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
32849122 CCAGCAGACT
* *
32849132 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
32849154 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
32849176 AT
1 AT
32849178 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:32849203 original size:107 final size:107
Alignment explanation
Indices: 32849079--32849368 Score: 499
Period size: 107 Copynumber: 2.7 Consensus size: 107
32849069 ACAAATCAAG
*
32849079 TTCCAGTTTCATATTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
1 TTCCAGTTTCATCTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
*
32849144 TCCAGAACAAATCAAGAACAATATCAAAACAAATGCAACAAT
66 TCCAGAACAAATCAAGAACAAAATCAAAACAAATGCAACAAT
*
32849186 TTCCAGTTTCATCTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAACT
1 TTCCAGTTTCATCTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
* *
32849251 GCCAGAACAATTCAAGAACAAAATCAAAACAAATGCAACAAT
66 TCCAGAACAAATCAAGAACAAAATCAAAACAAATGCAACAAT
* * * *
32849293 TTCCAGTTTCATCTTCTACTCACTAACAAATCAATAACATTTTCCAGCAGACTATCAAAATAATT
1 TTCCAGTTTCATCTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
32849358 TCCAGAACAAA
66 TCCAGAACAAA
32849369 CCAACAAAAT
Statistics
Matches: 171, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 171 1.00
ACGTcount: A:0.44, C:0.24, G:0.07, T:0.24
Consensus pattern (107 bp):
TTCCAGTTTCATCTTCTACTGACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAACAATT
TCCAGAACAAATCAAGAACAAAATCAAAACAAATGCAACAAT
Found at i:32854925 original size:27 final size:27
Alignment explanation
Indices: 32854859--32854926 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
32854849 ACAAAATTCT
* *
32854859 CGTGTTTACTATCCTGATGGACTACCC
1 CGTGTTTAATGTCCTGATGGACTACCC
* * *
32854886 CATGTTCAGTGTCCTGATGGACTACCC
1 CGTGTTTAATGTCCTGATGGACTACCC
32854913 CGTGTTTAATGTCC
1 CGTGTTTAATGTCC
32854927 CGGCGGACTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.34
Consensus pattern (27 bp):
CGTGTTTAATGTCCTGATGGACTACCC
Found at i:32854934 original size:27 final size:27
Alignment explanation
Indices: 32854877--32854936 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
32854867 CTATCCTGAT
* * *
32854877 GGACTACCCCATGTTCAGTGTCCTGAT
1 GGACTACCCCATGTTCAATGTCCCGAC
* * *
32854904 GGACTACCCCGTGTTTAATGTCCCGGC
1 GGACTACCCCATGTTCAATGTCCCGAC
32854931 GGACTA
1 GGACTA
32854937 TACTAGTTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.30, G:0.25, T:0.27
Consensus pattern (27 bp):
GGACTACCCCATGTTCAATGTCCCGAC
Found at i:32856163 original size:50 final size:50
Alignment explanation
Indices: 32856108--32856207 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
32856098 CTCATATAAG
32856108 ATAGATACATAGATGTGACTGACTGGACCTGAGAAGAATAGATCTTGAAT
1 ATAGATACATAGATGTGACTGACTGGACCTGAGAAGAATAGATCTTGAAT
32856158 ATAGATACATAGATGTGACTGACTGGACCTGAGAAGAATAGATCTTGAAT
1 ATAGATACATAGATGTGACTGACTGGACCTGAGAAGAATAGATCTTGAAT
32856208 CTGTTTATGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (50 bp):
ATAGATACATAGATGTGACTGACTGGACCTGAGAAGAATAGATCTTGAAT
Found at i:32857280 original size:25 final size:25
Alignment explanation
Indices: 32857252--32857311 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
32857242 GAAAACCAAA
*
32857252 TATTGGGTTTGCTCAAATTATAAAG
1 TATTGGGTTCGCTCAAATTATAAAG
*
32857277 TATTTGGTTCGCTCAAATTATAAAG
1 TATTGGGTTCGCTCAAATTATAAAG
32857302 TATTGGGTTC
1 TATTGGGTTC
32857312 AAAGCTCGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (25 bp):
TATTGGGTTCGCTCAAATTATAAAG
Found at i:32860146 original size:15 final size:16
Alignment explanation
Indices: 32860126--32860155 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32860116 AATAAAAATA
32860126 ACTTTTTTA-TTTTTC
1 ACTTTTTTAGTTTTTC
32860141 ACTTTTTTAGTTTTT
1 ACTTTTTTAGTTTTT
32860156 TCTTTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.73
Consensus pattern (16 bp):
ACTTTTTTAGTTTTTC
Found at i:32860393 original size:29 final size:28
Alignment explanation
Indices: 32860336--32860401 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 28
32860326 AGTAAATTTC
* **
32860336 TCATTTTTGTAATTAATTTGTTTCTTAT
1 TCATTTTTATAATTAATTTGTTTAATAT
* *
32860364 TCCATTTTTATAGTTAATTTTTTTAATAT
1 T-CATTTTTATAATTAATTTGTTTAATAT
32860393 T-ATTTTTAT
1 TCATTTTTAT
32860402 CAAAAGACCT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 8 0.25
28 1 0.03
29 23 0.72
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (28 bp):
TCATTTTTATAATTAATTTGTTTAATAT
Found at i:32861783 original size:26 final size:25
Alignment explanation
Indices: 32861736--32861787 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
32861726 GATTTTTTTG
*
32861736 TTTAGGGTTTTTTAGGTTTAAGGTT
1 TTTAGGGTTTGTTAGGTTTAAGGTT
32861761 TTTAGGGTTTGGTTA-GTTCTAAGGTT
1 TTTAGGGTTT-GTTAGGTT-TAAGGTT
32861787 T
1 T
32861788 AAAGTTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.15, C:0.02, G:0.29, T:0.54
Consensus pattern (25 bp):
TTTAGGGTTTGTTAGGTTTAAGGTT
Found at i:32861889 original size:17 final size:17
Alignment explanation
Indices: 32861868--32861914 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
32861858 TTTTTTAGTT
32861868 TTTAAGGTTTTTTATAGG
1 TTTAAGGTTTTTTAT-GG
* *
32861886 -TTAAGGGATTTTTCTGG
1 TTTAA-GGTTTTTTATGG
32861903 TTTAAGGTTTTT
1 TTTAAGGTTTTT
32861915 ACGAGTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.19, C:0.02, G:0.23, T:0.55
Consensus pattern (17 bp):
TTTAAGGTTTTTTATGG
Found at i:32865151 original size:42 final size:43
Alignment explanation
Indices: 32865013--32865224 Score: 256
Period size: 43 Copynumber: 5.0 Consensus size: 43
32865003 TAACCGTTAC
*
32865013 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
* * * * *
32865055 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTCAATGAT
32865097 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
* * * * *
32865140 GCAG-GGAATCAGCACATAGCAACC-CCTTTCACAGTT-AAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-ATA-TTCAATGAT
32865182 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
32865225 GCGGGTTCAC
Statistics
Matches: 141, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.01
41 25 0.18
42 47 0.33
43 57 0.40
44 10 0.07
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
Found at i:32865160 original size:85 final size:85
Alignment explanation
Indices: 32865013--32865226 Score: 376
Period size: 85 Copynumber: 2.5 Consensus size: 85
32865003 TAACCGTTAC
* * *
32865013 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAATCAACACATAGCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCAGGGAATCAACACATAGCAA
32865077 CCCCTTTCACAGTCAAGGAT
66 CCCCTTTCACAGTCAAGGAT
*
32865097 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCAGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCAGGGAATCAACACATAGCAA
*
32865162 CCCCTTTCACAGTTAAGGAT
66 CCCCTTTCACAGTCAAGGAT
32865182 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGC
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGC
32865227 GGGTTCACAT
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 28 0.23
85 96 0.77
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (85 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCAGGGAATCAACACATAGCAA
CCCCTTTCACAGTCAAGGAT
Found at i:32865334 original size:43 final size:43
Alignment explanation
Indices: 32865273--32865396 Score: 140
Period size: 51 Copynumber: 2.7 Consensus size: 43
32865263 GTGACCATCA
* * *
32865273 CTATCCGATACACGTAGTAGCCTGCACATACACGTGATCGAAG
1 CTATCCGGTACGCATAGTAGCCTGCACATACACGTGATCGAAG
32865316 CTATCCGGTACGCATAGTAGCCTGCACATAGTACTACACACGTGATCGAAG
1 CTATCCGGTACGCATAGTAGCCTGCAC-----A-T--ACACGTGATCGAAG
*
32865367 CTATCTGGTACGCATAGTAGCCTGCACATA
1 CTATCCGGTACGCATAGTAGCCTGCACATA
32865397 GTACTACAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
43 25 0.36
45 1 0.01
46 1 0.01
48 1 0.01
49 1 0.01
51 40 0.58
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (43 bp):
CTATCCGGTACGCATAGTAGCCTGCACATACACGTGATCGAAG
Found at i:32865377 original size:51 final size:51
Alignment explanation
Indices: 32865302--32865464 Score: 213
Period size: 51 Copynumber: 3.2 Consensus size: 51
32865292 GCCTGCACAT
*
32865302 ACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTACTAC
1 ACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACTAC
32865353 ACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACTAC
1 ACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACTAC
* * * ** * * * *
32865404 AAATGCGA-CCTATC-ATTCTGGTACACGTAGTAGCCTACACATAGTACTAC
1 ACACGTGATCGAAGCTA-TCTGGTACGCATAGTAGCCTGCACATAGTACTAC
32865454 ACACGTGATCG
1 ACACGTGATCG
32865465 TCACTTTCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 39 0.41
51 56 0.58
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (51 bp):
ACACGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACTAC
Found at i:32868145 original size:47 final size:49
Alignment explanation
Indices: 32868027--32868153 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
32868017 GTTTTCACAT
* *
32868027 TGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAGA-TATGGTCTTACACGGAATCACATATCACATACCGA
* * * * *
32868076 TGCCATAGCCCAGCTATAGTCTTACACGGAATCGCATATCACA-A-TGA
1 TGCCATAGTCCAGATATGGTCTTACACGGAATCACATATCACATACCGA
*
32868123 TGCCATATTCCAGATATGGTCTTACACGGAA
1 TGCCATAGTCCAGATATGGTCTTACACGGAA
32868154 ATTTCATAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 29 0.44
48 1 0.02
49 36 0.55
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
TGCCATAGTCCAGATATGGTCTTACACGGAATCACATATCACATACCGA
Found at i:32869277 original size:2 final size:2
Alignment explanation
Indices: 32869260--32869314 Score: 87
Period size: 2 Copynumber: 28.0 Consensus size: 2
32869250 ATGATCATCC
32869260 AT AT AT CAT -T AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32869301 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
32869315 CATGACTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32870381 original size:43 final size:43
Alignment explanation
Indices: 32870276--32870483 Score: 264
Period size: 43 Copynumber: 4.9 Consensus size: 43
32870266 TAACCGTTAC
* *
32870276 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATAGTCAAGGAT
* * *
32870318 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAGTCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-ATAGTCAAGGAT
* *
32870360 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATAGTCAAGGAT
* * *
32870403 GCGG-GGAATCAGCACATAGCAACC-CCTTTCATAGTTAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTT-ATAGTCAAGGAT
*
32870445 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATAGTCAA
32870484 TGATGCGGGT
Statistics
Matches: 140, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.01
41 25 0.18
42 48 0.34
43 55 0.39
44 10 0.07
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTATAGTCAAGGAT
Found at i:32870421 original size:85 final size:85
Alignment explanation
Indices: 32870276--32870492 Score: 382
Period size: 85 Copynumber: 2.6 Consensus size: 85
32870266 TAACCGTTAC
* *
32870276 ACGGTGGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGGGAATCAACACATAGCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAACACATAGCAA
32870340 CCCCTTTCACAGTCAAGGAT
66 CCCCTTTCACAGTCAAGGAT
*
32870360 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAGCACATAGCAA
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAACACATAGCAA
* *
32870425 CCCCTTTCATAGTTAAGGAT
66 CCCCTTTCACAGTCAAGGAT
32870445 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGG
1 ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGG
32870493 TTCACATAGT
Statistics
Matches: 127, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 28 0.22
85 99 0.78
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (85 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAATGATGCGGGGAATCAACACATAGCAA
CCCCTTTCACAGTCAAGGAT
Found at i:32870591 original size:51 final size:50
Alignment explanation
Indices: 32870499--32870683 Score: 176
Period size: 51 Copynumber: 3.7 Consensus size: 50
32870489 CGGGTTCACA
* * * * *
32870499 TAGTAGCATGCACATAGTAGTACTCATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCTATCCGGTACACG
* * *
32870550 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCTATCCGGTACACG
* * * * * * *
32870601 TAGTAGCCTGTACATAGTACTACAAATGCGACCTATC-ATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTA-TCCGGTACACG
*
32870651 TAGTAGCCTACACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
32870684 GTCACTTTCA
Statistics
Matches: 108, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.37
51 65 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCAAGCTATCCGGTACACG
Found at i:32870705 original size:101 final size:102
Alignment explanation
Indices: 32870491--32870684 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 102
32870481 CAATGATGCG
* * ** *
32870491 GGTTCACATAGTAGCATGCACATAGTAGTACTCATGTGACCATCACTATCCGATACACGTAGTAG
1 GGTTCACATAGTAGCCTGCACATAGTACTACAAATGCGACCATCACTATCCGATACACGTAGTAG
* *
32870556 CCTGCACATAGTACTACACACGTGATCGAAGCTATCC
66 CCTACACATAGTACTACACACGTGACCGAAGCTATCC
* * * * *
32870593 GGTACGCATAGTAGCCTGTACATAGTACTACAAATGCGACCTATCA-T-TCTGGTACACGTAGTA
1 GGTTCACATAGTAGCCTGCACATAGTACTACAAATGCGACC-ATCACTATCCGATACACGTAGTA
32870656 GCCTACACATAGTACTACACACGTGACCG
65 GCCTACACATAGTACTACACACGTGACCG
32870685 TCACTTTCAC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 41 0.52
102 34 0.43
103 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (102 bp):
GGTTCACATAGTAGCCTGCACATAGTACTACAAATGCGACCATCACTATCCGATACACGTAGTAG
CCTACACATAGTACTACACACGTGACCGAAGCTATCC
Found at i:32874008 original size:16 final size:17
Alignment explanation
Indices: 32873974--32874011 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32873964 AAAACTAAGA
*
32873974 TTTTTAGAACATCTAAT
1 TTTTTACAACATCTAAT
*
32873991 TTTTTACAACAT-TCAT
1 TTTTTACAACATCTAAT
32874007 TTTTT
1 TTTTT
32874012 TTCTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTTTACAACATCTAAT
Found at i:32874819 original size:31 final size:31
Alignment explanation
Indices: 32874781--32874851 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
32874771 AAAGGTAAAA
32874781 GGACTAAAATTAACGAATTC-AA-AAAGTATAT
1 GGACTAAAATTAA-GAA-TCAAATAAAGTATAT
*
32874812 GGACTAAAATTAATAATCAAATTAAAGTATAT
1 GGACTAAAATTAAGAATCAAA-TAAAGTATAT
32874844 GGACTAAA
1 GGACTAAA
32874852 TCCGAACCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 2 0.06
30 4 0.11
31 13 0.36
32 17 0.47
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (31 bp):
GGACTAAAATTAAGAATCAAATAAAGTATAT
Found at i:32877096 original size:77 final size:77
Alignment explanation
Indices: 32876895--32877086 Score: 271
Period size: 77 Copynumber: 2.5 Consensus size: 77
32876885 ATTAAAGGTA
* ***
32876895 AAATAAAAATCATTTCGGGATTGATTCTTTCCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
1 AAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
32876960 CCAAAAACGAGT
66 CCAAAAACGAGT
** * * *
32876972 AAATAAAAATCGTTTTAGGATTGATTCCCGCCGTTCAACAATTTTATTCCAAATTTGTTTTATTT
1 AAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
32877037 -CAAAAACGAGT
66 CCAAAAACGAGT
32877048 AACAT-AAAATCCGTTTCGGGATTGATTCCCACCGTTCAA
1 AA-ATAAAAAT-CGTTTCGGGATTGATTCCCACCGTTCAA
32877087 TGAATTTATT
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
76 18 0.18
77 84 0.82
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (77 bp):
AAATAAAAATCGTTTCGGGATTGATTCCCACCGTTCAACAATTTTATTCCAAAATTGTCTTATTT
CCAAAAACGAGT
Found at i:32877234 original size:84 final size:84
Alignment explanation
Indices: 32877130--32877289 Score: 248
Period size: 84 Copynumber: 1.9 Consensus size: 84
32877120 AATGAGAAAT
* * *
32877130 TAAATTAAATAAAATCTGTTTCAGAATTTATTCCCGCTATTTAACAAGATTTTATTTGATTTTAT
1 TAAATTAAATAAAATCTGTTTCAGAATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTAT
32877195 TTTGTTTCCAAATTCGAAC
66 TTTGTTTCCAAATTCGAAC
* * * * *
32877214 TAAATTAAATAAAATTTGTTTCTGGATTTATTCCCGCCGTTTAACAAGATTTTATTCGATATTGT
1 TAAATTAAATAAAATCTGTTTCAGAATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTAT
32877279 TTTGTTTCCAA
66 TTTGTTTCCAA
32877290 GCAAAGACGT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 68 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (84 bp):
TAAATTAAATAAAATCTGTTTCAGAATTTATTCCCGCCATTTAACAAGATTTTATTCGATATTAT
TTTGTTTCCAAATTCGAAC
Found at i:32889055 original size:39 final size:39
Alignment explanation
Indices: 32888959--32889057 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
32888949 ATTCACTTTT
* * *
32888959 AAGCATATATCACATTACACATATAATTACATAATATTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
* * * * *
32888998 AAGCACACATCGCAATACTCATATAATTGCATAACGTTC
1 AAGCATATATCACAATACTCATATAATTACATAACATTC
*
32889037 GAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
32889058 AAAACATGTG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATTACATAACATTC
Found at i:32891379 original size:22 final size:22
Alignment explanation
Indices: 32891354--32891398 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
32891344 TAGATAACAT
32891354 TAAAAACTAATAGAAAGATGAA
1 TAAAAACTAATAGAAAGATGAA
32891376 TAAAAACTAATAGAAAGATGAA
1 TAAAAACTAATAGAAAGATGAA
32891398 T
1 T
32891399 GGTTACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.20
Consensus pattern (22 bp):
TAAAAACTAATAGAAAGATGAA
Found at i:32894731 original size:101 final size:102
Alignment explanation
Indices: 32894608--32894790 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
32894598 AAAGTGATGG
* *
32894608 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGATCGCATGTGTAGT
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GATCACATGTGTAGT
32894671 ACTATGTACAGGCTACTACGCGTACCGGATAGCTTCGA
65 ACTATGTACAGGCTACTACGCGTACCGGATAGCTTCGA
* * *
32894709 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGATCACATGTGTAGTA
*
32894774 CTATGTGCAGGCTACTA
66 CTATGTACAGGCTACTA
32894791 TGTGAACTGA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.53
102 31 0.42
103 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (102 bp):
TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGATCACATGTGTAGTA
CTATGTACAGGCTACTACGCGTACCGGATAGCTTCGA
Found at i:32894735 original size:51 final size:49
Alignment explanation
Indices: 32894608--32894790 Score: 215
Period size: 51 Copynumber: 3.6 Consensus size: 49
32894598 AAAGTGATGG
* * *
32894608 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGATAGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-TTGA
* * *
32894658 TCGCATGTGTAGTACTATGTACAGGCTACTACGCGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TT-GA
* * * *
32894709 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TGA
32894760 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
32894791 TGTGAACTGA
Statistics
Matches: 113, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
50 40 0.35
51 72 0.64
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTGA
Found at i:32894743 original size:28 final size:28
Alignment explanation
Indices: 32894711--32894790 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
32894701 AGCTTCGATC
32894711 ACGTGTATAGTACTATGTGCAGGCTACT
1 ACGTGTATAGTACTATGTGCAGGCTACT
* *
32894739 ACGTGTATCGGA-TA-GTG-ATGG-T-C-
1 ACGTGTATAGTACTATGTGCA-GGCTACT
* *
32894762 ACATGTGTAGTACTATGTGCAGGCTACT
1 ACGTGTATAGTACTATGTGCAGGCTACT
32894790 A
1 A
32894791 TGTGAACTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
23 8 0.21
24 3 0.08
25 7 0.18
26 7 0.18
27 3 0.08
28 11 0.28
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (28 bp):
ACGTGTATAGTACTATGTGCAGGCTACT
Found at i:32895039 original size:16 final size:16
Alignment explanation
Indices: 32895018--32895049 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32895008 TGATTGAAAG
*
32895018 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
32895034 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
32895050 ACAAAAAAAT
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:32900765 original size:51 final size:50
Alignment explanation
Indices: 32900710--32900842 Score: 151
Period size: 51 Copynumber: 2.6 Consensus size: 50
32900700 AGTGATGGTA
*
32900710 ACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATC
1 ACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG-TAT-GATC
* * * * * * *
32900761 ACGTGTATGGTACTATATGCAGGCTACTACGTGTATCAGATAGTGATGGTC
1 ACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT-ATGATC
*
32900812 ACATGTGTAGTACTATGTGCAGGCTACTATG
1 ACGTGTGTAGTACTATGTGCAGGCTACTATG
32900843 TGAACCGGTA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 1 0.01
51 65 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
ACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTATGATC
Found at i:32900919 original size:46 final size:44
Alignment explanation
Indices: 32900846--32900934 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 44
32900836 TACTATGTGA
*
32900846 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCT-AATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCC
* *
32900889 ACCGGATATCATTGATTACAAAGGGTGGTTGCTTTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
32900935 ATCGTGTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 5 0.13
44 11 0.28
45 2 0.05
46 16 0.41
47 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (44 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCCC
Found at i:32901089 original size:16 final size:16
Alignment explanation
Indices: 32901068--32901099 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32901058 TGATTGAAAG
*
32901068 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
32901084 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
32901100 GCAACAAAAT
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:32903614 original size:3 final size:3
Alignment explanation
Indices: 32903606--32903648 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
32903596 AGATGAAGGA
32903606 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC -TC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
32903649 TGCTGGCCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:32912520 original size:25 final size:25
Alignment explanation
Indices: 32912472--32912521 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
32912462 CAAACAGAAC
* *
32912472 ATGCCATAAAGGCAACTTACAGAGT
1 ATGCCACAAAGGCAACATACAGAGT
* *
32912497 ATGCCACAAAGGCTACATATAGAGT
1 ATGCCACAAAGGCAACATACAGAGT
32912522 CACGTGTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (25 bp):
ATGCCACAAAGGCAACATACAGAGT
Found at i:32921711 original size:20 final size:18
Alignment explanation
Indices: 32921661--32921712 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
32921651 CTACAAGATA
32921661 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
32921678 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
32921698 AATATTAAATTAATA
1 AATATTAAATTAATA
32921713 AAATACTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 11 0.37
18 1 0.03
19 3 0.10
20 15 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:32921766 original size:17 final size:17
Alignment explanation
Indices: 32921726--32921763 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32921716 TACTATCAAG
*
32921726 TTAAGTATTAAATTTAA
1 TTAAATATTAAATTTAA
*
32921743 TTTAATATTAAATTT-A
1 TTAAATATTAAATTTAA
32921759 TTAAA
1 TTAAA
32921764 ATAATGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAATATTAAATTTAA
Found at i:32931266 original size:21 final size:21
Alignment explanation
Indices: 32931201--32931272 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
32931191 AAAACAAGTG
*
32931201 AGGAAAAAGAAAAAGAAGAGAA
1 AGGAAAATGAAAAAGAAGA-AA
*
32931223 A-AATACAAGTGAAAAAGAAGAAA
1 AGGA-A-AA-TGAAAAAGAAGAAA
* **
32931246 ATGAAAATGAAAAAGGCGAAA
1 AGGAAAATGAAAAAGAAGAAA
32931267 AGGAAA
1 AGGAAA
32931273 GCAAGAAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 18 0.45
22 4 0.10
23 6 0.15
24 12 0.30
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.06
Consensus pattern (21 bp):
AGGAAAATGAAAAAGAAGAAA
Found at i:32943107 original size:20 final size:20
Alignment explanation
Indices: 32943079--32943121 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32943069 ACCACTTCAC
*
32943079 TTACATACTTATCTTTCGAT
1 TTACATACTTATCTTTCCAT
* *
32943099 TTACTTACTTTTCTTTCCAT
1 TTACATACTTATCTTTCCAT
32943119 TTA
1 TTA
32943122 TTTAGCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.56
Consensus pattern (20 bp):
TTACATACTTATCTTTCCAT
Found at i:32953854 original size:16 final size:18
Alignment explanation
Indices: 32953823--32953860 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
32953813 GATTTGTATG
32953823 AAATATTGATTTTTAACA
1 AAATATTGATTTTTAACA
32953841 AAATA-TGA-TTTTAACA
1 AAATATTGATTTTTAACA
32953857 AAAT
1 AAAT
32953861 TTCCGTTGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 3 0.15
18 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
AAATATTGATTTTTAACA
Found at i:32955744 original size:17 final size:17
Alignment explanation
Indices: 32955709--32955740 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32955699 AATAATTTTT
32955709 TTATAAATGTTTATATA
1 TTATAAATGTTTATATA
32955726 TTATAAAT-TTTATAT
1 TTATAAATGTTTATAT
32955741 TATTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTATAAATGTTTATATA
Found at i:32958829 original size:239 final size:239
Alignment explanation
Indices: 32958410--32958876 Score: 679
Period size: 239 Copynumber: 2.0 Consensus size: 239
32958400 TTGGCTACAG
* * *
32958410 TTTTATTTTAAGATGCATACTGGCATGCTATTTCTACTTAAGTAGCAAATGCTGACGGGGGTAAA
1 TTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGGGGTAAA
* * * * * *
32958475 CATAGATATAAGTATTGTACTATGTCTAATTGGATTATGTATTTATTTATCCGTAACTTGTATGT
66 CATAGACACAAGTATCGTACTATGTCTAATTGGATTATGTATTAAATGATCCGTAACTTGTATGT
* * *
32958540 CACATCATACTTATTTTGTGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCATTAGTAATTT
131 CACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAGT-ATTT
*
32958605 T-CCTGATATCCTAAGTCCAAACTAGATGTACCAGTTGACTAAAA
195 TCCCTGATATCCTAAGTACAAACTAGATGTACCAGTTGACTAAAA
**
32958649 TTTTATTTGAAGATGTGTACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGA-GGGGGTTAA
1 TTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGGGG-TAA
* *
32958713 ACATAGACACAAGTATCGTGCTACT-TCTAATTGGATTATGTATTAAATGATCTGTAACTTGTAT
65 ACATAGACACAAGTATCGTACTA-TGTCTAATTGGATTATGTATTAAATGATCCGTAACTTGTAT
* * * *
32958777 GTCACATCATATTTATTCTATGTGCTTGGATTTCATTGCAGTTACAGTTAGTTGTCGCTAGTATT
129 GTCACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAGTATT
* *
32958842 TTCCCTGTTATCCTAAGTACGAACTAGATGTACCA
194 TTCCCTGATATCCTAAGTACAAACTAGATGTACCA
32958877 TTTTACTCAG
Statistics
Matches: 202, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
238 10 0.05
239 191 0.95
240 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (239 bp):
TTTTATTTGAAGATGCATACTGGCATGCGATTTCTACTTAAGCAGCAAATGCTGACGGGGGTAAA
CATAGACACAAGTATCGTACTATGTCTAATTGGATTATGTATTAAATGATCCGTAACTTGTATGT
CACATCATACTTATTCTATGTGCTTGGATTTCATCGCACTTACAGTTAGTTGTCACTAGTATTTT
CCCTGATATCCTAAGTACAAACTAGATGTACCAGTTGACTAAAA
Found at i:32964810 original size:20 final size:20
Alignment explanation
Indices: 32964752--32964812 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
32964742 TATTTGACAT
*
32964752 AAGAATTATATATAATATATCTA
1 AAGAATTA-AT-TAATAT-TTTA
*
32964775 AAGAATTAGTTAATATTTTA
1 AAGAATTAATTAATATTTTA
32964795 AA-AATTAATTACATATTT
1 AAGAATTAATTA-ATATTT
32964813 ATTATTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 8 0.24
20 11 0.32
21 6 0.18
22 1 0.03
23 8 0.24
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (20 bp):
AAGAATTAATTAATATTTTA
Found at i:32964813 original size:19 final size:19
Alignment explanation
Indices: 32964752--32964813 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 19
32964742 TATTTGACAT
32964752 AAGAATTATATATAATATATCTA
1 AAGAATTA-AT-TAATAT-T-TA
*
32964775 AAGAATTAGTTAATATTTTA
1 AAGAATTAATTAATA-TTTA
32964795 AA-AATTAATTACATATTTA
1 AAGAATTAATTA-ATATTTA
32964814 TTATTTAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 12 0.34
20 7 0.20
21 6 0.17
22 2 0.06
23 8 0.23
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
AAGAATTAATTAATATTTA
Found at i:32964874 original size:14 final size:14
Alignment explanation
Indices: 32964855--32964881 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32964845 ATTAAAAAAT
32964855 AAAAAAAATATTTG
1 AAAAAAAATATTTG
32964869 AAAAAAAATATTT
1 AAAAAAAATATTT
32964882 ATTAATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAAAAAATATTTG
Found at i:32970064 original size:30 final size:31
Alignment explanation
Indices: 32970025--32970084 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
32970015 AGAGGTGAGA
*
32970025 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
32970056 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
32970085 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:32970314 original size:9 final size:9
Alignment explanation
Indices: 32970297--32970333 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32970287 TATAGTTTAA
*
32970297 TATTTGAAT
1 TATTCGAAT
32970306 TATTCGAAT
1 TATTCGAAT
*
32970315 TATTCGAGT
1 TATTCGAAT
32970324 TATTCGAAT
1 TATTCGAAT
32970333 T
1 T
32970334 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:32970702 original size:20 final size:20
Alignment explanation
Indices: 32970661--32970703 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
32970651 AAAAGGATAT
*
32970661 ATTTGATTCTAATCAATCTG
1 ATTTGATTCTAATAAATCTG
*
32970681 ATTTGATTTTAATTAAAT-TG
1 ATTTGATTCTAA-TAAATCTG
32970701 ATT
1 ATT
32970704 CAATTGCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTTGATTCTAATAAATCTG
Found at i:32971297 original size:17 final size:17
Alignment explanation
Indices: 32971267--32971299 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32971257 AGGCGAAAAG
32971267 AAAAAAAAATATTTTTC
1 AAAAAAAAATATTTTTC
32971284 AAAAATAAAA-ATTTTT
1 AAAAA-AAAATATTTTT
32971300 TAAATAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAAAAAATATTTTTC
Found at i:32971308 original size:19 final size:19
Alignment explanation
Indices: 32971267--32971308 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
32971257 AGGCGAAAAG
*
32971267 AAAA-AAAAATATTTTTCA
1 AAAATAAAAATATTTTTAA
32971285 AAAATAAAAAT-TTTTTAA
1 AAAATAAAAATATTTTTAA
32971303 ATAAAT
1 A-AAAT
32971309 CTGTTTCGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATAAAAATATTTTTAA
Found at i:32971580 original size:79 final size:82
Alignment explanation
Indices: 32971486--32971719 Score: 233
Period size: 88 Copynumber: 2.8 Consensus size: 82
32971476 AATAAAATTT
* * * *
32971486 TTTCGGGATTGATTCCTGTCGTTCAACGGTTTTATTTCATTTTTTATTTTATTTCCAAAAATGAG
1 TTTCGGGATTAATTCCTGCCGTTCAACGGTTTTATTTCAATTTTGATTTTATTTCCAAAAATGAG
32971551 TAAAA-T-AAAT-TCCG
66 TAAAATTAAAATATCCG
* ** ** *
32971565 TTTCGGGATTAATTCCCGCCGTTCAACAATTTTATACCAAATTTTGATTTTATTTCCAAAACAAG
1 TTTCGGGATTAATTCCTGCCGTTCAACGGTTTTATTTC-AATTTTGATTTTATTTCCAAAA-ATG
* *
32971630 TATTAAAATTAAAATAAAATCTG
64 -AGTAAAATTAAAAT---ATCCG
* * * *
32971653 TTTCGAGATTTATTCCTACCGTTCAACGGATTTTATTTCAATTTTGATGTTATTTCC-AAAATGA
1 TTTCGGGATTAATTCCTGCCGTTCAACGG-TTTTATTTCAATTTTGATTTTATTTCCAAAAATGA
32971717 GTA
65 GTA
32971720 TTAAAACTAA
Statistics
Matches: 122, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
79 31 0.25
80 20 0.16
81 2 0.02
82 6 0.05
83 1 0.01
84 4 0.03
85 3 0.02
86 2 0.02
87 3 0.02
88 43 0.35
89 7 0.06
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (82 bp):
TTTCGGGATTAATTCCTGCCGTTCAACGGTTTTATTTCAATTTTGATTTTATTTCCAAAAATGAG
TAAAATTAAAATATCCG
Found at i:32971647 original size:88 final size:88
Alignment explanation
Indices: 32971551--32971758 Score: 265
Period size: 88 Copynumber: 2.4 Consensus size: 88
32971541 CAAAAATGAG
* * * *
32971551 TAAAATAAATTCCGTTTCGGGATTAATTCCCGCCGTTCAAC-AATTTTATACCAAATTTTGATTT
1 TAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATACC-AATTTTGATGT
*
32971615 TATTTCCAAAACAAGTATTAAAAT
65 TATTTCCAAAACAAGTATTAAAAC
* ** * **
32971639 TAAAATAAAATCTGTTTCGAGATTTATTCCTACCGTTCAACGGATTTTATTTCAATTTTGATGTT
1 TAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATACCAATTTTGATGTT
**
32971704 ATTTCCAAAATGAGTATTAAAAC
66 ATTTCCAAAACAAGTATTAAAAC
* *
32971727 TAAATTAAAATCTGTTTCAGGATTTATTCCCG
1 TAAAATAAAATCTGTTTCGGGATTTATTCCCG
32971759 TTTATCAACG
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 93 0.92
89 8 0.08
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (88 bp):
TAAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACGAATTTTATACCAATTTTGATGTT
ATTTCCAAAACAAGTATTAAAAC
Found at i:32971767 original size:88 final size:87
Alignment explanation
Indices: 32971551--32971867 Score: 247
Period size: 88 Copynumber: 3.6 Consensus size: 87
32971541 CAAAAATGAG
* * * * * ** *
32971551 TAAAATAAATTCCGTTTCGGGATTAATTCCCGCCGTTCAAC-AATTTTATACCAAATTTTGATTT
1 TAAAATAAAATCTGTTTCGAGATTTATT-CCACCGTTCAACGAATTTTATTTC-AATTTTGATGT
*
32971615 TATTTCCAAAACAAGTATTAAAAT
64 TATTTCCAAAACAAGTATTAAAAC
*
32971639 TAAAATAAAATCTGTTTCGAGATTTATTCCTACCGTTCAACGGATTTTATTTCAATTTTGATGTT
1 TAAAATAAAATCTGTTTCGAGATTTATTCC-ACCGTTCAACGAATTTTATTTCAATTTTGATGTT
**
32971704 ATTTCCAAAATGAGTATTAAAAC
65 ATTTCCAAAACAAGTATTAAAAC
*
32971727 TAAATTAAAATCTGTTTC-AGGATTTATT-C-CCGTTTATCAACGAA-TTTA--TCACA-TTTGA
1 TAAAATAAAATCTGTTTCGA-GATTTATTCCACCG--T-TCAACGAATTTTATTTCA-ATTTTGA
* * * *
32971785 TTTTGTTGCCAAAAAAACAAGAAATTAAAA-
61 TGTTATTTCC---AAAACAAG-TATTAAAAC
* * * * *
32971815 TCAAATAAAATCTGTTTTGAGATTTATTCCCACCATTTAACAAGATTTTATTT
1 TAAAATAAAATCTGTTTCGAGATTTATT-CCACCGTTCAACGA-ATTTTATTT
32971868 GATTTTATTT
Statistics
Matches: 184, Mismatches: 26, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
85 18 0.10
86 1 0.01
87 9 0.05
88 130 0.71
89 18 0.10
90 5 0.03
91 2 0.01
92 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (87 bp):
TAAAATAAAATCTGTTTCGAGATTTATTCCACCGTTCAACGAATTTTATTTCAATTTTGATGTTA
TTTCCAAAACAAGTATTAAAAC
Found at i:32971928 original size:84 final size:84
Alignment explanation
Indices: 32971807--32972099 Score: 365
Period size: 84 Copynumber: 3.5 Consensus size: 84
32971797 AAAAACAAGA
* * * *
32971807 AATTAAAATCAAATAAAATCTGTTTTGAGATTTATTCCCACCATTTAACAAGATTTTATTTGATT
1 AATT-AAATCAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATT
32971872 TTATTTTGTTTCCAAATTAG
65 TTATTTTGTTTCCAAATTAG
* * *
32971892 AATTAAATTAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTTAACAAGGTTTTATTTGATTA
1 AATTAAATCAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
* * *
32971957 TATTTTATTTTCAGATTAG
66 TATTTTGTTTCCAAATTAG
* * * * * *
32971976 AATTAAATAAAATAAAATCTGTTTTGGGATTTATTCCCGTCGTTTAACTAGATTTTATTCGATAT
1 AATTAAATCAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
** *
32972041 TGGTTTGTTTCCAAA-TAA
66 TATTTTGTTTCCAAATTAG
* *
32972059 AGATGAAATCAAAT-AATTCTATTTTGGGATTTATTCCCGCC
1 A-ATTAAATCAAATAAAATCTATTTTGGGATTTATTCCCGCC
32972100 ACCGTTTAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
83 27 0.15
84 147 0.83
85 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (84 bp):
AATTAAATCAAATAAAATCTATTTTGGGATTTATTCCCGCCGTTTAACAAGATTTTATTTGATTT
TATTTTGTTTCCAAATTAG
Found at i:32982999 original size:16 final size:16
Alignment explanation
Indices: 32982978--32983014 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
32982968 CTTCTTTCCC
32982978 TCTCTTCGAGAGTTAT
1 TCTCTTCGAGAGTTAT
32982994 TCTCTTCGAGAGTTAT
1 TCTCTTCGAGAGTTAT
32983010 TCTCT
1 TCTCT
32983015 ATTTTACTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (16 bp):
TCTCTTCGAGAGTTAT
Found at i:32989465 original size:40 final size:40
Alignment explanation
Indices: 32989421--32989543 Score: 183
Period size: 40 Copynumber: 3.1 Consensus size: 40
32989411 AAAAATATGT
*
32989421 TCAGGGGTACCGAAGTACAAATAGGGGCACATATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* *
32989461 TCAGGGGTACCGAAGTACAAACAAGGGCACATATGAGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* * * *
32989501 TTAGGGATACCGAAGTACGAACAGGGGCACGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
32989541 TCA
1 TCA
32989544 TTCAGTAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.29, T:0.16
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
Found at i:32995446 original size:33 final size:34
Alignment explanation
Indices: 32995395--32995672 Score: 137
Period size: 33 Copynumber: 7.7 Consensus size: 34
32995385 TTATCCGTTA
* *
32995395 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
32995429 TCGG-GGAATCAGCACTTAGCAACC-CTTTTCACATTTAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCAC----CA-A--T--GAT
* *
32995470 ACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
32995504 TCGG-GGAATCAACACTTAGCAACC-CC-----T
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
* * * *
32995531 T-GGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAAT
1 TCGGTGGAATCAGCACTTAGCAA-CCAC--CA-A--T--GAT
* *
32995572 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
32995606 TCGGGGAATCAGCAGGAATCAGCACTTAGCAACCACCAATGAA
1 TC--GG--T-----GGAATCAGCACTTAGCAACCACCAATGAT
32995649 TCGG-GGAATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
32995673 CCTTGGGGGA
Statistics
Matches: 194, Mismatches: 14, Indels: 73
0.69 0.05 0.26
Matches are distributed among these distances:
26 2 0.01
27 20 0.10
28 2 0.01
29 1 0.01
31 1 0.01
32 3 0.02
33 57 0.29
34 12 0.06
36 6 0.03
38 3 0.02
39 5 0.03
41 12 0.06
42 38 0.20
43 32 0.16
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:32995551 original size:102 final size:102
Alignment explanation
Indices: 32995431--32995616 Score: 318
Period size: 102 Copynumber: 1.8 Consensus size: 102
32995421 CCAGTGATTC
* ** * *
32995431 GGGGAATCAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
32995496 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
32995533 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
32995598 CCAATGAATCGGGGAATCA
66 CCAATGAATCGGGGAATCA
32995617 GCAGGAATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 78 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
Found at i:32995631 original size:43 final size:43
Alignment explanation
Indices: 32995577--32995662 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
32995567 AAAATACGGT
32995577 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCA
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCA
32995620 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCA
1 GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCA
32995663 CTTAGCAACC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.26, G:0.23, T:0.14
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCA
Found at i:32995689 original size:27 final size:27
Alignment explanation
Indices: 32995651--32995728 Score: 147
Period size: 27 Copynumber: 2.9 Consensus size: 27
32995641 CCAATGAATC
*
32995651 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATTAGCACTTAGCAACCCCTTG
32995678 GGGGAATTAGCACTTAGCAACCCCTTG
1 GGGGAATTAGCACTTAGCAACCCCTTG
32995705 GGGGAATTAGCACTTAGCAACCCC
1 GGGGAATTAGCACTTAGCAACCCC
32995729 CTTTATATTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (27 bp):
GGGGAATTAGCACTTAGCAACCCCTTG
Found at i:32995760 original size:43 final size:42
Alignment explanation
Indices: 32995707--32995788 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 42
32995697 ACCCCTTGGG
* * *
32995707 GGAATTAGCACTTAGCAACCCCCTTTATATTCAATGATACGGT
1 GGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGGT
*
32995750 GGAATCAGCACTTATCAACCACCTTATAATCAATGATAC
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATAC
32995789 TCGGTTCACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGT
Found at i:32995905 original size:51 final size:50
Alignment explanation
Indices: 32995795--32995984 Score: 177
Period size: 51 Copynumber: 3.8 Consensus size: 50
32995785 ATACTCGGTT
* * * ** * * *
32995795 CACATAGTAGCCTACACATAGTACTACTCATGTGACCATTTCCA-CCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCATTCAGGTA
* *
32995846 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTC-GGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGC-ATTCAGGTA
* * * * *
32995897 CTCATAGTAGCCTGCACATAGTACTACACATGCGACCCATCATTCAGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCAGGTA
* *
32995947 CACGTAGTAGCCTGTACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
32995985 TCACTTTCAC
Statistics
Matches: 113, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
49 4 0.04
50 40 0.35
51 66 0.58
52 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCAGGTA
Found at i:32995968 original size:50 final size:51
Alignment explanation
Indices: 32995844--32995978 Score: 175
Period size: 50 Copynumber: 2.7 Consensus size: 51
32995834 TTCCACCCGA
* *
32995844 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTATTCGG
* * * * *
32995895 TACTCATAGTAGCCTGCACATAGTACTACACATGCGA-CCCATC-ATTCAGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTATTC-GG
*
32995945 TACACGTAGTAGCCTGTACATAGTACTACACACG
1 TACACGTAGTAGCCTGCACATAGTACTACACACG
32995979 TGACCATCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
49 4 0.06
50 35 0.49
51 33 0.46
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGCGATCCAAGCTATTCGG
Found at i:32995974 original size:101 final size:100
Alignment explanation
Indices: 32995797--32995981 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 100
32995787 ACTCGGTTCA
* *
32995797 CATAGTAGCCTACACATAGTACTACTCATGTGACCATTTCCACCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATTTCCA--CGATACACGTAGTAGCCTGCA
32995862 CATAGTACTACACACGTGATCGAAGCTATTCGGTACT
64 CATAGTACTACACACGTGATCGAAGCTATTCGGTACT
* * *
32995899 CATAGTAGCCTGCACATAGTACTACACATGCGACCCATCATT-CA-GGTACACGTAGTAGCCTGT
1 CATAGTAGCCTACACATAGTACTACACATGCGA-CCAT--TTCCACGATACACGTAGTAGCCTGC
32995962 ACATAGTACTACACACGTGA
63 ACATAGTACTACACACGTGA
32995982 CCATCACTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
101 37 0.49
102 30 0.40
103 4 0.05
104 2 0.03
105 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATTTCCACGATACACGTAGTAGCCTGCACA
TAGTACTACACACGTGATCGAAGCTATTCGGTACT
Found at i:32996004 original size:101 final size:101
Alignment explanation
Indices: 32995796--32996015 Score: 236
Period size: 101 Copynumber: 2.2 Consensus size: 101
32995786 TACTCGGTTC
* *
32995796 ACATAGTAGCCTACACATAGTACTACTCATGTGACCATTTCCACCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTACACATAGTACTACACATGCGACCATTTCCA--CGATACACGTAGTAGCCTGC
* **
32995861 ACATAGTACTACACACGTGATCGAAGCTATTCGGTACT
64 ACATAGTACTACACACGTGATCCAAGCTATTCACTACT
* *
32995899 -CATAGTAGCCTGCACATAGTACTACACATGCGACCCATCATT-CA-GGTACACGTAGTAGCCTG
1 ACATAGTAGCCTACACATAGTACTACACATGCGA-CCAT--TTCCACGATACACGTAGTAGCCTG
* **
32995961 TACATAGTACTACACACGTGA-CCATCA-CT-TTCACTTTT
63 CACATAGTACTACACACGTGATCCA--AGCTATTCACTACT
*
32995999 ACATAGTGGCCTACACA
1 ACATAGTAGCCTACACA
32996016 CAGTCCGTGC
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
100 7 0.07
101 53 0.54
102 31 0.31
103 4 0.04
104 2 0.02
105 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTACACATAGTACTACACATGCGACCATTTCCACGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCCAAGCTATTCACTACT
Found at i:32998596 original size:75 final size:75
Alignment explanation
Indices: 32998473--32998616 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
32998463 TCACAAGCTT
* *
32998473 TGATTGCATAGGCTCTAGCTGGTTTTCTCTCTTCAGATAGTTCATTCATCTCACTATTCTTCCCT
1 TGATTGCATAGGCTCTAGCTGGTTTTCTCGCTTCAAATAGTTCATTCATCTCACTATTCTTCCCT
32998538 CGACTGGGTC
66 CGACTGGGTC
* ** *
32998548 TGATTGCATAGGCTCTAGCTGGTTTTCTCGCTTTAAACTA-TTCATTCATCTTTCTATTCTTCGC
1 TGATTGCATAGGCTCTAGCTGGTTTTCTCGCTTCAAA-TAGTTCATTCATCTCACTATTCTTCCC
32998612 TCGAC
65 TCGAC
32998617 AGGATGGTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 60 0.97
76 2 0.03
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.42
Consensus pattern (75 bp):
TGATTGCATAGGCTCTAGCTGGTTTTCTCGCTTCAAATAGTTCATTCATCTCACTATTCTTCCCT
CGACTGGGTC
Found at i:33006777 original size:43 final size:41
Alignment explanation
Indices: 33006716--33007002 Score: 218
Period size: 42 Copynumber: 6.8 Consensus size: 41
33006706 TCATGGAAAT
* *
33006716 AAACGCCGCTAAAGGTCATGTTCTTTAGCTGTGCTTTTTCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGC-G-GCGTTTCCTAC
* *** * *
33006759 AAACGCCGCTAAAGGTCATATTCTTTAGCGGCGCAACCAGAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCC-TAC
* * * * *
33006801 AAATGCCGCTAAAGGTCAAGTTCATTAGCGGCGCTTCCATAG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCC-TAC
** ** * *
33006843 AAAATCCGCTAAAGAACATGATCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCG-TTTCCTAC
* *
33006885 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTT-TTACAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCG-TTTCCT--AC
** * * *
33006928 AAACGTTGCTAAAGGTCATGTTCTTTAGTGGCACTTTTCT-C
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGC-GTTTCCTAC
*
33006969 GGAAACGCCCCTAAAGGTCATGTTCTTTAGCGGC
1 --AAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
33007003 ACTTTTTCCA
Statistics
Matches: 192, Mismatches: 44, Indels: 16
0.76 0.17 0.06
Matches are distributed among these distances:
41 4 0.02
42 94 0.49
43 93 0.48
44 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (41 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCCTAC
Found at i:33006894 original size:42 final size:42
Alignment explanation
Indices: 33006716--33007007 Score: 246
Period size: 43 Copynumber: 6.9 Consensus size: 42
33006706 TCATGGAAAT
* * * *
33006716 AAACGCCGCTAAAGGTCATGTTCTTTAGCTGTGCTTTTTCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCCAC
* ** * *
33006759 AAACGCCGCTAAAGGTCATATTCTTTAGCGGCGC-AACCAGAA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-CAC
* * * * *
33006801 AAATGCCGCTAAAGGTCAAGTTCATTAGCGGCGC-TTCCATAG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCC-CAC
** ** *
33006843 AAAATCCGCTAAAGAACATGATCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAC
* **
33006885 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTTACAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCCAC
** * * * **
33006928 AAACGTTGCTAAAGGTCATGTTCTTTAGTGGCACTTTTCTCGG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TTTCCCAC
* *
33006971 AAACGCCCCTAAAGGTCATGTTCTTTAGCGGCACTTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTT
33007008 TTCCAAAAAT
Statistics
Matches: 200, Mismatches: 46, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
41 1 0.00
42 94 0.47
43 105 0.52
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCCAC
Found at i:33007396 original size:21 final size:21
Alignment explanation
Indices: 33007372--33007421 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
33007362 TTCTGCTTTG
33007372 CTCTGCTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAAC
* * **
33007393 CTCTACTTCCCTTGCTGCTGC
1 CTCTGCTTCCCTCGCTGCAAC
33007414 CTCTGCTT
1 CTCTGCTT
33007422 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.44, G:0.14, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAAC
Found at i:33012901 original size:9 final size:9
Alignment explanation
Indices: 33012884--33013260 Score: 208
Period size: 9 Copynumber: 43.4 Consensus size: 9
33012874 TATGTATTAA
*
33012884 GTAAATTAT
1 GTAAGTTAT
33012893 GTAAGTTAT
1 GTAAGTTAT
*
33012902 GTACGTGTA-
1 GTAAGT-TAT
33012911 -TAAGTTAT
1 GTAAGTTAT
33012919 GTAAGTTAT
1 GTAAGTTAT
*
33012928 GT-A-TTAA
1 GTAAGTTAT
*
33012935 GTAAGCTAT
1 GTAAGTTAT
*
33012944 GTAAGTTGT
1 GTAAGTTAT
33012953 GT-A-TTAT
1 GTAAGTTAT
33012960 GTAAGTTAT
1 GTAAGTTAT
33012969 GTAAGTTAT
1 GTAAGTTAT
** *
33012978 CAAAGTAAT
1 GTAAGTTAT
*
33012987 GTATGTTAT
1 GTAAGTTAT
*
33012996 GTAAGTTGT
1 GTAAGTTAT
*
33013005 GT-AG-AAT
1 GTAAGTTAT
*
33013012 GTAAGCTAT
1 GTAAGTTAT
33013021 GTAAGTTAT
1 GTAAGTTAT
**
33013030 GTAAAG-GGT
1 GT-AAGTTAT
*
33013039 GCATAATGTAAT
1 G--TAA-GTTAT
33013051 -TAAGTTAT
1 GTAAGTTAT
33013059 GTAAGTTAT
1 GTAAGTTAT
33013068 G--AGTTAT
1 GTAAGTTAT
33013075 GTAAGTTAT
1 GTAAGTTAT
*
33013084 GT-A-TAAT
1 GTAAGTTAT
*
33013091 GTACGTTAT
1 GTAAGTTAT
* *
33013100 GTATAATATTAA
1 G--TAA-GTTAT
** *
33013112 AAAATTTAT
1 GTAAGTTAT
*
33013121 GTAAGTTGT
1 GTAAGTTAT
*
33013130 GT-A-TAAT
1 GTAAGTTAT
33013137 GTAAGTTAT
1 GTAAGTTAT
*
33013146 GTAAGTAAT
1 GTAAGTTAT
*
33013155 GT--CTTAT
1 GTAAGTTAT
*
33013162 GTAAGTTGT
1 GTAAGTTAT
33013171 GT-A--TACT
1 GTAAGTTA-T
*
33013178 GTTAGTTAT
1 GTAAGTTAT
*
33013187 -CAGAGTTAT
1 GTA-AGTTAT
33013196 GT-A-TTAT
1 GTAAGTTAT
33013203 GTAAGTTAT
1 GTAAGTTAT
33013212 GTAAGTTAT
1 GTAAGTTAT
*
33013221 GTAAGTTGT
1 GTAAGTTAT
33013230 GTAAGTTAT
1 GTAAGTTAT
*
33013239 TTAAGTTAT
1 GTAAGTTAT
*
33013248 GTAAGTAAT
1 GTAAGTTAT
33013257 GTAA
1 GTAA
33013261 TATATACTTA
Statistics
Matches: 276, Mismatches: 58, Indels: 68
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.00
7 45 0.16
8 23 0.08
9 188 0.68
10 11 0.04
11 4 0.01
12 4 0.01
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.42
Consensus pattern (9 bp):
GTAAGTTAT
Done.