Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 113 of 211
Found at i:31813690 original size:20 final size:20
Alignment explanation
Indices: 31813665--31813713 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31813655 TGAGTTATTT
31813665 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
31813685 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
31813705 AAG-AAGCAA
1 AAGTAAGCAA
31813714 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:31818395 original size:10 final size:10
Alignment explanation
Indices: 31818365--31818398 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
31818355 ATTCAGCATA
31818365 AAATTGAAAAT
1 AAATT-AAAAT
31818376 AAACTTAAAAT
1 AAA-TTAAAAT
31818387 AAATTAAAAT
1 AAATTAAAAT
31818397 AA
1 AA
31818399 GAGTTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 11 0.50
12 2 0.09
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:31822605 original size:24 final size:24
Alignment explanation
Indices: 31822573--31822619 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
31822563 TTGGACTAGC
31822573 ATGTAGATACTTCATTCTACTTGT
1 ATGTAGATACTTCATTCTACTTGT
31822597 ATGTAGATACTTCATTCTACTTG
1 ATGTAGATACTTCATTCTACTTG
31822620 ATGAGTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (24 bp):
ATGTAGATACTTCATTCTACTTGT
Found at i:31829036 original size:17 final size:17
Alignment explanation
Indices: 31828995--31829028 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31828985 AAACATAAAC
*
31828995 AAATTAAATTAAAATTA
1 AAATCAAATTAAAATTA
31829012 AAATCAAATTAAAATTA
1 AAATCAAATTAAAATTA
31829029 TAAACAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATCAAATTAAAATTA
Found at i:31835734 original size:36 final size:36
Alignment explanation
Indices: 31835682--31835787 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 36
31835672 AGTAAACTCT
* *
31835682 ATTCAGTTCAGTAGCCTTCCAGATCTATTCTGACTA
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTA
* * * * *
31835718 ATTCAGTCCAGCAGCCTTTCAGATCTATTTTAATTG
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTA
* * *
31835754 ATTTAGTTCAGCAGCCTTTCGGATCTAGTCTGAC
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGAC
31835788 CGATGCACTC
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTA
Found at i:31847140 original size:63 final size:63
Alignment explanation
Indices: 31847041--31847169 Score: 188
Period size: 63 Copynumber: 2.0 Consensus size: 63
31847031 AATATCTCTC
* * * * *
31847041 ACACGGCTTGGACACATGCTCGTGTCTCTAGCCCATGTGACC-CTATTTCCAAAACAGTGAGTT
1 ACACGACTTGGACACACGCCCGTGTCTCTACCCCATGTG-CCTCTAATTCCAAAACAGTGAGTT
*
31847104 ACACGACTTGGACACACGCCCTTGTCTCTACCCCATGTGCCTCTAATTCCAAAACAGTGAGTT
1 ACACGACTTGGACACACGCCCGTGTCTCTACCCCATGTGCCTCTAATTCCAAAACAGTGAGTT
31847167 ACA
1 ACA
31847170 AGGCCTAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 2 0.03
63 57 0.97
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (63 bp):
ACACGACTTGGACACACGCCCGTGTCTCTACCCCATGTGCCTCTAATTCCAAAACAGTGAGTT
Found at i:31849185 original size:41 final size:41
Alignment explanation
Indices: 31848918--31849174 Score: 439
Period size: 41 Copynumber: 6.3 Consensus size: 41
31848908 CAGACTTTAC
* * *
31848918 GTCTAGCAGGCTTAACGCCGGTGA-A-TTATTCAGACTATAA
1 GTCTAGCAGGCTTAATGCCGGTGACACAT-TTCAGGCTATAA
31848958 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
1 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
31848999 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
1 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
31849040 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
1 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
*
31849081 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGACTATAA
1 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
31849122 GTCTAGCAGGCTTAATGCCGGTGACACATTTC-GGACTATAA
1 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGG-CTATAA
31849163 GTCTAGCAGGCT
1 GTCTAGCAGGCT
31849175 AAGAGCCGGT
Statistics
Matches: 209, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
40 24 0.11
41 184 0.88
42 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
Found at i:31849197 original size:123 final size:121
Alignment explanation
Indices: 31848918--31849228 Score: 428
Period size: 123 Copynumber: 2.5 Consensus size: 121
31848908 CAGACTTTAC
* *
31848918 GTCTAGCAGGCTTAACGCCGGTGAATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGAC
1 GTCTAGCAGGCTTAAAGCCGGTG-ATTATTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGAC
*
31848983 ACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
65 ACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
* **
31849040 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAAAGCCGGTGA-TTA-TTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGA
31849105 CACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTC-GGACTATAA
64 CACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGG-CTATAA
* * * ** *
31849163 GTCTAGCAGGC-TAAGAGCCGGTGTATTGAATCAGGTTTTAAAACCTAGCAGGCTAAATGCCGGT
1 GTCTAGCAGGCTTAA-AGCCGGTG-ATT-ATTCAGGCTAT-AAGTCTAGCAGGCTTAATGCCGGT
31849227 GA
62 GA
31849229 ATCCGTTTAA
Statistics
Matches: 168, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
121 1 0.01
122 28 0.17
123 114 0.68
124 25 0.15
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (121 bp):
GTCTAGCAGGCTTAAAGCCGGTGATTATTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGACA
CATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
Found at i:31849449 original size:33 final size:33
Alignment explanation
Indices: 31849393--31849490 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
31849383 ATATGTATAT
*
31849393 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
31849425 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
31849458 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
31849491 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:31856720 original size:41 final size:41
Alignment explanation
Indices: 31856654--31856932 Score: 445
Period size: 41 Copynumber: 6.8 Consensus size: 41
31856644 TTTATCGTTA
* * * * *
31856654 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
31856695 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
31856736 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
31856777 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
31856818 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
31856859 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
31856900 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
31856933 AAGAGCCGGT
Statistics
Matches: 227, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 222 0.98
42 2 0.01
43 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:31856955 original size:123 final size:121
Alignment explanation
Indices: 31856675--31856986 Score: 421
Period size: 123 Copynumber: 2.5 Consensus size: 121
31856665 CAGACTTTAC
* *
31856675 GTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAAAGCCGGTG--ATTATTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGA
*
31856740 CACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
64 CACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
* **
31856798 GTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAAAGCCGGTGA-TTA-TTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGA
31856863 CACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTC-GGACTATAA
64 CACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGG-CTATAA
* * * ** *
31856921 GTCTAGCAGGC-TAAGAGCCGGTGTATTGAATCAGGTTTTAAAACCTAGCAGGCTAAATGCCGGT
1 GTCTAGCAGGCTTAA-AGCCGGTG-ATT-ATTCAGGCTAT-AAGTCTAGCAGGCTTAATGCCGGT
31856985 GA
62 GA
31856987 ATCCGTTTAA
Statistics
Matches: 168, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
121 1 0.01
122 6 0.04
123 136 0.81
124 25 0.15
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (121 bp):
GTCTAGCAGGCTTAAAGCCGGTGATTATTCAGGCTATAAGTCTAGCAGGCTTAATGCCGGTGACA
CATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCAGGCTATAA
Found at i:31857202 original size:33 final size:33
Alignment explanation
Indices: 31857146--31857243 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
31857136 ATAGATATGT
*
31857146 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
31857178 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
31857211 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
31857244 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:31859129 original size:16 final size:16
Alignment explanation
Indices: 31859108--31859143 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
31859098 AGAGTGGAAA
* *
31859108 AAAATTGGAAGGGTGG
1 AAAATTGAAAGGGTAG
31859124 AAAATTGAAAGGGTAG
1 AAAATTGAAAGGGTAG
31859140 AAAA
1 AAAA
31859144 CTAGAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (16 bp):
AAAATTGAAAGGGTAG
Found at i:31861567 original size:3 final size:3
Alignment explanation
Indices: 31861559--31861583 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31861549 TTTTTTACCT
31861559 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
31861584 GATATTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31861716 original size:24 final size:24
Alignment explanation
Indices: 31861677--31861725 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
31861667 CTAGCATGAC
* *
31861677 ATTTTTTATTTCATCTTTTATTTT
1 ATTTTTTATTTCATCTATCATTTT
31861701 ATTTATTTATTT-ATCTATCATTTT
1 ATTT-TTTATTTCATCTATCATTTT
31861725 A
1 A
31861726 ATATTATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (24 bp):
ATTTTTTATTTCATCTATCATTTT
Found at i:31863016 original size:31 final size:32
Alignment explanation
Indices: 31862956--31863016 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
31862946 TTGGTGCAAT
* *
31862956 TATACATACGAAACTTTGATTGTGGTTCAAATG
1 TATACATA-GAAACTTTAATTGTGATTCAAATG
*
31862989 TATACAT-GAAACTTTAATTTTGATTCAA
1 TATACATAGAAACTTTAATTGTGATTCAA
31863017 TCATACACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.72
33 7 0.28
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (32 bp):
TATACATAGAAACTTTAATTGTGATTCAAATG
Found at i:31863449 original size:18 final size:18
Alignment explanation
Indices: 31863426--31863463 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31863416 AAACAAATTT
*
31863426 TTATAAAGGTTATATATA
1 TTATAAAAGTTATATATA
*
31863444 TTATAAAATTTATATATA
1 TTATAAAAGTTATATATA
31863462 TT
1 TT
31863464 GACTTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATAAAAGTTATATATA
Found at i:31868999 original size:40 final size:40
Alignment explanation
Indices: 31868955--31869272 Score: 244
Period size: 40 Copynumber: 8.0 Consensus size: 40
31868945 AGATGCATAA
* *
31868955 CAGGGGCACCAAAGTGCAATCAAGAGCA-TGAATGTGCGA-T
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAG-ATGTGC-ATT
* *
31868995 CAGGGGCGCCAAAGTGCAAACAAGGGCACAGATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
* * *
31869035 TAGGGGCACCAAAGTGCAAACAGGGGCACAGATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
* *** * * *
31869075 CAGGGGTATTGAAGTACAAACAAGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
* * * * * *
31869115 CAGGGGTACCGAAGTACAAACAGGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
* * * * * *
31869155 CAGGGGTATCGAAGTGCAAACAGGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
* * * * * * * *
31869195 CAGAGGTACCGAAGTACAAATAGGGGAACAGATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
* * * * * *
31869235 TAGGGGTACCGAAGTACAAACAAGGGCACTGATGTGCA
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCA
31869273 AATAAGGGCA
Statistics
Matches: 244, Mismatches: 32, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
39 1 0.00
40 242 0.99
41 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.16
Consensus pattern (40 bp):
CAGGGGCACCAAAGTGCAAACAAGAGCACAGATGTGCATT
Found at i:31869031 original size:20 final size:20
Alignment explanation
Indices: 31869008--31869274 Score: 106
Period size: 20 Copynumber: 13.3 Consensus size: 20
31868998 GGGCGCCAAA
*
31869008 GTGCAAACAAGGGCACAGAT
1 GTGCAAACAGGGGCACAGAT
*** *
31869028 GTGCATTTAGGGGCACCA-AA
1 GTGCAAACAGGGGCA-CAGAT
31869048 GTGCAAACAGGGGCACAGAT
1 GTGCAAACAGGGGCACAGAT
** * ** *
31869068 GTGCATTCAGGGGTATTGAA
1 GTGCAAACAGGGGCACAGAT
* * *
31869088 GTACAAACAAGGGCACAAAT
1 GTGCAAACAGGGGCACAGAT
** * * *
31869108 GTGCATTCAGGGGTACCGAA
1 GTGCAAACAGGGGCACAGAT
* *
31869128 GTACAAACAGGGGCACAAAT
1 GTGCAAACAGGGGCACAGAT
** * *
31869148 GTGCATTCAGGGGTATC-GAA
1 GTGCAAACAGGGGCA-CAGAT
*
31869168 GTGCAAACAGGGGCACAAAT
1 GTGCAAACAGGGGCACAGAT
** * * * *
31869188 GTGCATTCAGAGGTACCGAA
1 GTGCAAACAGGGGCACAGAT
* * *
31869208 GTACAAATAGGGGAACAGAT
1 GTGCAAACAGGGGCACAGAT
*** * * *
31869228 GTGCATTTAGGGGTACCGAA
1 GTGCAAACAGGGGCACAGAT
* * *
31869248 GTACAAACAAGGGCACTGAT
1 GTGCAAACAGGGGCACAGAT
31869268 GTGCAAA
1 GTGCAAA
31869275 TAAGGGCACC
Statistics
Matches: 163, Mismatches: 80, Indels: 8
0.65 0.32 0.03
Matches are distributed among these distances:
19 3 0.02
20 157 0.96
21 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (20 bp):
GTGCAAACAGGGGCACAGAT
Found at i:31869095 original size:80 final size:80
Alignment explanation
Indices: 31869006--31869272 Score: 381
Period size: 80 Copynumber: 3.3 Consensus size: 80
31868996 AGGGGCGCCA
* * * * * *
31869006 AAGTGCAAACAAGGGCACAGATGTGCATTTAGGGGCACCAAAGTGCAAACAGGGGCACAGATGTG
1 AAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAGATGTG
*
31869071 CATTCAGGGGTATTG
66 CATTCAGGGGTATCG
*
31869086 AAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAAATGTG
1 AAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAGATGTG
31869151 CATTCAGGGGTATCG
66 CATTCAGGGGTATCG
* * * * *
31869166 AAGTGCAAACAGGGGCACAAATGTGCATTCAGAGGTACCGAAGTACAAATAGGGGAACAGATGTG
1 AAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAGATGTG
* *
31869231 CATTTAGGGGTACCG
66 CATTCAGGGGTATCG
**
31869246 AAGTACAAACAAGGGCACTGATGTGCA
1 AAGTACAAACAAGGGCACAAATGTGCA
31869273 AATAAGGGCA
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 167 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (80 bp):
AAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAGATGTG
CATTCAGGGGTATCG
Found at i:31869170 original size:120 final size:120
Alignment explanation
Indices: 31869006--31869272 Score: 381
Period size: 120 Copynumber: 2.2 Consensus size: 120
31868996 AGGGGCGCCA
* * *
31869006 AAGTGCAAACAAGGGCACAGATGTGCATTTAGGGGCACCAAAGTGCAAACAGGGGCACAGATGTG
1 AAGTACAAACAAGGGCACAGATGTGCATTCAGGGGCACCAAAGTGCAAACAGGGGCACAAATGTG
* ** *
31869071 CATTCAGGGGTATTGAAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTACCG
66 CATTCAGAGGTACCGAAGTACAAACAAGGGAACAAATGTGCATTCAGGGGTACCG
* * * * *
31869126 AAGTACAAACAGGGGCACAAATGTGCATTCAGGGGTATCGAAGTGCAAACAGGGGCACAAATGTG
1 AAGTACAAACAAGGGCACAGATGTGCATTCAGGGGCACCAAAGTGCAAACAGGGGCACAAATGTG
* * * *
31869191 CATTCAGAGGTACCGAAGTACAAATAGGGGAACAGATGTGCATTTAGGGGTACCG
66 CATTCAGAGGTACCGAAGTACAAACAAGGGAACAAATGTGCATTCAGGGGTACCG
*
31869246 AAGTACAAACAAGGGCACTGATGTGCA
1 AAGTACAAACAAGGGCACAGATGTGCA
31869273 AATAAGGGCA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (120 bp):
AAGTACAAACAAGGGCACAGATGTGCATTCAGGGGCACCAAAGTGCAAACAGGGGCACAAATGTG
CATTCAGAGGTACCGAAGTACAAACAAGGGAACAAATGTGCATTCAGGGGTACCG
Found at i:31874019 original size:38 final size:37
Alignment explanation
Indices: 31873944--31874024 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
31873934 AAGTATAAAA
* *
31873944 ATAAAATTAAACTTAAAATATTAAAATTAAAAGAAATT
1 ATAAAATTAAACTTAAAATA-TAAAACTAAAAAAAATT
31873982 ATAAAATTAGAA-TTAAAATA-AAAACTAAAACTAAAATT
1 ATAAAATTA-AACTTAAAATATAAAACTAAAA--AAAATT
31874020 A-AAAA
1 ATAAAA
31874025 GTGGCTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
36 9 0.24
37 4 0.11
38 23 0.61
39 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (37 bp):
ATAAAATTAAACTTAAAATATAAAACTAAAAAAAATT
Found at i:31874310 original size:25 final size:24
Alignment explanation
Indices: 31874268--31874315 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
31874258 TGGGCCATTC
31874268 TCCAAAATATTATCGTATGTAATT
1 TCCAAAATATTATCGTATGTAATT
* *
31874292 TCCAAAACTTTTATTGTATGTAAT
1 TCCAAAA-TATTATCGTATGTAAT
31874316 AGGCAATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (24 bp):
TCCAAAATATTATCGTATGTAATT
Found at i:31874839 original size:24 final size:24
Alignment explanation
Indices: 31874812--31874857 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31874802 TCAAAGAAAT
*
31874812 TTGAGTCGTATTTTGAGTTGTGTA
1 TTGAGTCGTATTTAGAGTTGTGTA
* *
31874836 TTGAGTTGTCTTTAGAGTTGTG
1 TTGAGTCGTATTTAGAGTTGTG
31874858 CTTGTCACGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.04, G:0.30, T:0.50
Consensus pattern (24 bp):
TTGAGTCGTATTTAGAGTTGTGTA
Found at i:31878499 original size:27 final size:27
Alignment explanation
Indices: 31878465--31878642 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
31878455 TAAATTGTAC
31878465 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31878492 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31878518 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31878546 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
31878574 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31878601 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31878628 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31878643 GACTTAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31878579 original size:82 final size:81
Alignment explanation
Indices: 31878466--31878621 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
31878456 AAATTGTACA
*
31878466 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
31878530 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31878547 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
31878612 TGCGAGTTGA
65 TGCGAATTGA
31878622 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31878633 original size:82 final size:81
Alignment explanation
Indices: 31878462--31878642 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
31878452 GAGTAAATTG
*
31878462 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
31878527 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31878543 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
31878607 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31878625 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31878643 GACTTAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31889121 original size:27 final size:27
Alignment explanation
Indices: 31889087--31889264 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
31889077 TAAATTGTAC
31889087 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31889114 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31889140 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31889168 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
31889196 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31889223 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31889250 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31889265 GACTTAATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31889201 original size:82 final size:81
Alignment explanation
Indices: 31889088--31889243 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
31889078 AAATTGTACA
*
31889088 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
31889152 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31889169 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
31889234 TGCGAGTTGA
65 TGCGAATTGA
31889244 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31889255 original size:82 final size:81
Alignment explanation
Indices: 31889084--31889264 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
31889074 GAGTAAATTG
*
31889084 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
31889149 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31889165 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
31889229 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31889247 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31889265 GACTTAATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31893387 original size:34 final size:33
Alignment explanation
Indices: 31893343--31893483 Score: 142
Period size: 34 Copynumber: 4.2 Consensus size: 33
31893333 ATTGAATTGA
* *
31893343 TATAACCATATTAAGTGCTACTGTATTGATCTGT
1 TATAAGCATATTAATTG-TACTGTATTGATCTGT
* *
31893377 CATAAGCATATTAATTAGTACTGTATTGATCTAT
1 TATAAGCATATTAATT-GTACTGTATTGATCTGT
*
31893411 TATGAGCATATTAATTGTTA-TCGTATTGATCTGT
1 TATAAGCATATTAATTG-TACT-GTATTGATCTGT
* * *
31893445 TATAAGAATATTAATTTCTACCT-TAATGATCTGT
1 TATAAGCATATTAA-TTGTA-CTGTATTGATCTGT
31893479 TATAA
1 TATAA
31893484 ACATGTCACA
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
33 2 0.02
34 84 0.93
35 3 0.03
36 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (33 bp):
TATAAGCATATTAATTGTACTGTATTGATCTGT
Found at i:31893631 original size:42 final size:43
Alignment explanation
Indices: 31893584--31893720 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 43
31893574 ATCAACAGTC
*
31893584 TATCTGC-AAATTTGTTTTGTATCCACAGCCGGAGGTAGATTT
1 TATCTGCGAAATTTGTTTTGTATCCACAGCCAGAGGTAGATTT
* * * * *
31893626 TATCTGCGAGATTT-TTCTGTCTATCCATAGCCAGAGGCAGATTC
1 TATCTGCGAAATTTGTT-T-TGTATCCACAGCCAGAGGTAGATTT
* * * * **
31893670 TATCTACGAGATTTTGCTGTGTATCCACAGTTAGAGGTAGATTT
1 TATCTGCGA-AATTTGTTTTGTATCCACAGCCAGAGGTAGATTT
31893714 TATCTGC
1 TATCTGC
31893721 AAGGTTATGT
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
42 9 0.12
43 6 0.08
44 53 0.74
45 3 0.04
46 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (43 bp):
TATCTGCGAAATTTGTTTTGTATCCACAGCCAGAGGTAGATTT
Found at i:31893668 original size:44 final size:44
Alignment explanation
Indices: 31893603--31893720 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 44
31893593 ATTTGTTTTG
* *
31893603 TATCCACAGCCGGAGGTAGATTTTATCTGCGAGATTTTTCTGTC
1 TATCCACAGCCAGAGGTAGATTTTATCTGCGAGATTTTGCTGTC
* * * * *
31893647 TATCCATAGCCAGAGGCAGATTCTATCTACGAGATTTTGCTGTG
1 TATCCACAGCCAGAGGTAGATTTTATCTGCGAGATTTTGCTGTC
**
31893691 TATCCACAGTTAGAGGTAGATTTTATCTGC
1 TATCCACAGCCAGAGGTAGATTTTATCTGC
31893721 AAGGTTATGT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (44 bp):
TATCCACAGCCAGAGGTAGATTTTATCTGCGAGATTTTGCTGTC
Found at i:31901030 original size:116 final size:117
Alignment explanation
Indices: 31900874--31901109 Score: 402
Period size: 116 Copynumber: 2.0 Consensus size: 117
31900864 CACCTAATTC
* *
31900874 CATGCATAAAAATCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAC
1 CATGCATAAAAACCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAA
31900939 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
66 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
* * *
31900991 CATGCATAAAAACCAA-TCCATTGTGTGCTTATCCACAACATAAACACTTAATTCAAACACCTAA
1 CATGCATAAAAACCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAA
* *
31901055 CTAATCATACCGCATTTATCACTTTCAATCCATTACAAGCATACCATAACAA
66 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
31901107 CAT
1 CAT
31901110 ACATTTCAAT
Statistics
Matches: 112, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 97 0.87
117 15 0.13
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.25
Consensus pattern (117 bp):
CATGCATAAAAACCAAGCCCATTATGTGCTTATCCACAACATAAACACCTAATTCAAACACCTAA
CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
Found at i:31904177 original size:29 final size:29
Alignment explanation
Indices: 31904125--31904230 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 29
31904115 CAATTTTCGT
** ** *
31904125 AAAAGGAAACCTTTGTGGCTATCTTTGTA
1 AAAAGGAAGTCTTTGTGGAAATCTATGTA
* *
31904154 AAAAGGATGTCTTTGTGGAAATCTATGTT
1 AAAAGGAAGTCTTTGTGGAAATCTATGTA
* *
31904183 TAAAGGAAGTCTTTATGGCAATATCTAT-TA
1 AAAAGGAAGTCTTTGTGG-AA-ATCTATGTA
*
31904213 AAAAGAAAG-CATTTGTGG
1 AAAAGGAAGTC-TTTGTGG
31904231 CGATTTATGT
Statistics
Matches: 60, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
29 38 0.63
30 16 0.27
31 6 0.10
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (29 bp):
AAAAGGAAGTCTTTGTGGAAATCTATGTA
Found at i:31924628 original size:6 final size:6
Alignment explanation
Indices: 31924617--31924642 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31924607 GATATACCAA
31924617 ATACAG ATACAG ATACAG ATACAG AT
1 ATACAG ATACAG ATACAG ATACAG AT
31924643 CATATCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATACAG
Found at i:31930808 original size:16 final size:16
Alignment explanation
Indices: 31930785--31930827 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
31930775 AAACAAAATT
31930785 AAAATAAAATTACATA
1 AAAATAAAATTACATA
* *
31930801 ACAAT-AAATTCCATA
1 AAAATAAAATTACATA
31930816 AAAATTAAAATT
1 AAAA-TAAAATT
31930828 TTTTGACCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 12 0.55
16 5 0.23
17 5 0.23
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAAAATTACATA
Found at i:31939036 original size:18 final size:17
Alignment explanation
Indices: 31939013--31939048 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31939003 CAATAAAAAG
*
31939013 AACTAAAAATAAAACTAA
1 AACTAAAAAGAAAA-TAA
31939031 AACTAAAAAGAAAATAA
1 AACTAAAAAGAAAATAA
31939048 A
1 A
31939049 TAAACTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (17 bp):
AACTAAAAAGAAAATAA
Found at i:31946421 original size:18 final size:18
Alignment explanation
Indices: 31946395--31946429 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31946385 GGGAGAAGAG
31946395 GAGGCTGATGATGATGAC
1 GAGGCTGATGATGATGAC
*
31946413 GAGGGTGATGATGATGA
1 GAGGCTGATGATGATGA
31946430 TGATGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.43, T:0.23
Consensus pattern (18 bp):
GAGGCTGATGATGATGAC
Found at i:31948041 original size:22 final size:22
Alignment explanation
Indices: 31948013--31948062 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
31948003 TCTATAATTC
31948013 AGGGTTTAAGGGA-TATGGGTTA
1 AGGGTTTAA-GGATTATGGGTTA
* *
31948035 GGGGTTTAAGGATTATGGTTTA
1 AGGGTTTAAGGATTATGGGTTA
31948057 AGGGTT
1 AGGGTT
31948063 GAGGTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (22 bp):
AGGGTTTAAGGATTATGGGTTA
Found at i:31948076 original size:21 final size:21
Alignment explanation
Indices: 31948051--31948111 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
31948041 TAAGGATTAT
31948051 GGTTTAAGG-GTTGAGGTTTAA
1 GGTTT-AGGAGTTGAGGTTTAA
*
31948072 GGTTTAGGTGTTGAAGG-TTAA
1 GGTTTAGGAGTTG-AGGTTTAA
* *
31948093 GGGTTAGGAGTTTAGGTTT
1 GGTTTAGGAGTTGAGGTTT
31948112 TATAGTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.18
21 25 0.74
22 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (21 bp):
GGTTTAGGAGTTGAGGTTTAA
Found at i:31948232 original size:22 final size:22
Alignment explanation
Indices: 31948176--31948234 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
31948166 TGTGGTTTAC
* *
31948176 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGTGTTAGGGGTTAAA
*
31948197 GGTTTAGGTGTTAGGGGTTAAA
1 GGTTTAAGTGTTAGGGGTTAAA
31948219 GGTTTATAGT-TTAGGG
1 GGTTTA-AGTGTTAGGG
31948235 TTTAGGGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 20 0.62
23 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
GGTTTAAGTGTTAGGGGTTAAA
Found at i:31948293 original size:57 final size:57
Alignment explanation
Indices: 31948170--31948317 Score: 145
Period size: 57 Copynumber: 2.6 Consensus size: 57
31948160 ATGGTTTGTG
* * * * ** *
31948170 GTTTACGGTTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTAGGGGTTAAAGGTTTATA
1 GTTTAGGGTTTAAGGGTTAGGGTTTAAGGTTTAGGTGGTAGAGGTTAAAGGGATAGA
* * * *
31948227 GTTTAGGGTTTAGGGGTTATGGTTTAAGGTTTAGGTGGTAGAGGTT-AAGGGATGGG
1 GTTTAGGGTTTAAGGGTTAGGGTTTAAGGTTTAGGTGGTAGAGGTTAAAGGGATAGA
* ** * *
31948283 GTTTAGGGGTTATTGTTTAGGGTTTAAGGGTTAGG
1 GTTTAGGGTTTAAGGGTTAGGGTTTAAGGTTTAGG
31948318 GTTTAAGATT
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
56 34 0.46
57 40 0.54
ACGTcount: A:0.20, C:0.01, G:0.41, T:0.39
Consensus pattern (57 bp):
GTTTAGGGTTTAAGGGTTAGGGTTTAAGGTTTAGGTGGTAGAGGTTAAAGGGATAGA
Found at i:31948312 original size:8 final size:7
Alignment explanation
Indices: 31948169--31948342 Score: 72
Period size: 7 Copynumber: 24.7 Consensus size: 7
31948159 TATGGTTTGT
*
31948169 GGTTTAC
1 GGTTTAG
31948176 GGTTTAAG
1 GGTTT-AG
*
31948184 GG-TTGG
1 GGTTTAG
*
31948190 GGTTTAA
1 GGTTTAG
31948197 GGTTTA-
1 GGTTTAG
31948203 GGTGTTAGG
1 GGT-TTA-G
* *
31948212 GGTTAAA
1 GGTTTAG
*
31948219 GGTTTAT
1 GGTTTAG
*
31948226 AGTTTAG
1 GGTTTAG
31948233 GGTTTAG
1 GGTTTAG
* *
31948240 GGGTTAT
1 GGTTTAG
*
31948247 GGTTTAA
1 GGTTTAG
31948254 GGTTTA-
1 GGTTTAG
*
31948260 GGTGGTAG
1 GGT-TTAG
*
31948268 AGGTTAAG
1 -GGTTTAG
* *
31948276 GG-ATGG
1 GGTTTAG
31948282 GGTTTAG
1 GGTTTAG
* *
31948289 GGGTTAT
1 GGTTTAG
*
31948296 TGTTTAG
1 GGTTTAG
31948303 GGTTTAAG
1 GGTTT-AG
31948311 GG-TTAG
1 GGTTTAG
*
31948317 GGTTTAA
1 GGTTTAG
*
31948324 GATTTAG
1 GGTTTAG
31948331 GGTCTT-G
1 GGT-TTAG
31948338 GGTTT
1 GGTTT
31948343 TTAAGATAAG
Statistics
Matches: 122, Mismatches: 33, Indels: 25
0.68 0.18 0.14
Matches are distributed among these distances:
6 18 0.15
7 85 0.70
8 13 0.11
9 6 0.05
ACGTcount: A:0.19, C:0.01, G:0.40, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:31949258 original size:31 final size:32
Alignment explanation
Indices: 31949197--31949259 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
31949187 TCTTTTCCCC
*
31949197 TTATTTTATGCCTTTTGGTTCAATTCTTCCCTA
1 TTATTTTATGCCTTTTAGTT-AATTCTTCCCTA
* *
31949230 TTATTTTCTGCCTTTTAGTT-TTTCTTCCCT
1 TTATTTTATGCCTTTTAGTTAATTCTTCCCT
31949260 TGATTAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
33 18 0.67
ACGTcount: A:0.11, C:0.22, G:0.08, T:0.59
Consensus pattern (32 bp):
TTATTTTATGCCTTTTAGTTAATTCTTCCCTA
Found at i:31950021 original size:28 final size:28
Alignment explanation
Indices: 31949983--31950156 Score: 131
Period size: 29 Copynumber: 5.9 Consensus size: 28
31949973 GTTTATTCGG
31949983 TTTAATGTGAATAAATTATCAATTTTTGA
1 TTTAAT-TGAATAAATTATCAATTTTTGA
* * *
31950012 TTTAATTGAATTAATTATGTTTGATTAGTTTATTCGG
1 TTTAATTGAA-TAA--A---TT-ATCAATTT-TT-GA
31950049 TTTAATGTGAATAAATTATCAATTTTTGA
1 TTTAAT-TGAATAAATTATCAATTTTTGA
*
31950078 TTTAATTGAATAAA-T-T--ATGTTTGA
1 TTTAATTGAATAAATTATCAATTTTTGA
* *
31950102 TTTTAAGTGAATAAATTATCAATTTTTTA
1 -TTTAATTGAATAAATTATCAATTTTTGA
* *
31950131 TTTTAATTTAATAAATTATCGATTTT
1 -TTTAATTGAATAAATTATCAATTTT
31950157 ATATTTGATT
Statistics
Matches: 117, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
24 7 0.06
25 13 0.11
26 2 0.02
27 2 0.02
28 12 0.10
29 45 0.38
30 2 0.02
31 7 0.06
32 2 0.02
34 2 0.02
35 7 0.06
36 2 0.02
37 10 0.09
38 4 0.03
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (28 bp):
TTTAATTGAATAAATTATCAATTTTTGA
Found at i:31950028 original size:66 final size:66
Alignment explanation
Indices: 31949942--31950103 Score: 299
Period size: 66 Copynumber: 2.5 Consensus size: 66
31949932 ACTTTATATA
*
31949942 TTTGA-TTAATTGGATAAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCAAT
1 TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCAAT
31950006 T
66 T
*
31950007 TTTGATTTAATTGAATTAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCAAT
1 TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCAAT
31950072 T
66 T
31950073 TTTGATTTAATTGAATAAATTATGTTTGATT
1 TTTGATTTAATTGAATAAATTATGTTTGATT
31950104 TTAAGTGAAT
Statistics
Matches: 93, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 5 0.05
66 88 0.95
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.51
Consensus pattern (66 bp):
TTTGATTTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCAAT
T
Found at i:31950100 original size:24 final size:25
Alignment explanation
Indices: 31950073--31950120 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
31950063 ATTATCAATT
*
31950073 TTTGA-TTTAATTGAATAAATTATG
1 TTTGATTTTAAGTGAATAAATTATG
31950097 TTTGATTTTAAGTGAATAAATTAT
1 TTTGATTTTAAGTGAATAAATTAT
31950121 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TTTGATTTTAAGTGAATAAATTATG
Found at i:31954159 original size:44 final size:43
Alignment explanation
Indices: 31954088--31954251 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
31954078 TTAGGCGCAT
* *
31954088 TTGTGA-ATAAAGCG-TCGCTAAAGGTCATGTTATTTAGCAGCAT
1 TTGTGATA-AAAGCGCT-GCTAAAGGTCATGTTCTTTAGCAGCAA
**
31954131 TTGTGATAAAAAGCGCTG-TCAAAGGTCATGTTCTTTAGCAGCGG
1 TTGTGAT-AAAAGCGCTGCT-AAAGGTCATGTTCTTTAGCAGCAA
* * * * *
31954175 TTGTTATTAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCAA
1 TTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTTTAGCAGCAA
* *
31954218 TTGTGATAAAAGCGCTACTAAAAGTCATGTTCTT
1 TTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTT
31954252 GAGCGTCGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
43 63 0.63
44 35 0.35
45 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
TTGTGATAAAAGCGCTGCTAAAGGTCATGTTCTTTAGCAGCAA
Found at i:31967161 original size:45 final size:45
Alignment explanation
Indices: 31967085--31967227 Score: 128
Period size: 45 Copynumber: 3.2 Consensus size: 45
31967075 ATGTTATTGT
* * * *
31967085 AAACAAGATTAAAACGAGTAACATCAAAGCTGAAAAACGA-TAT-G
1 AAACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAAC-ATTATGG
* *
31967129 ACAATATGAGTAAAACGAGTAAGACCATAGCTGAAAAACATTATGG
1 A-AACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAACATTATGG
* * * * * * *
31967175 AAACATGATTAAAACAAGTAAGACTACAGTTGAAAGACGTTATGG
1 AAACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAACATTATGG
*
31967220 CAACATGA
1 AAACATGA
31967228 ATTAAAATAA
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
44 2 0.02
45 77 0.95
46 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (45 bp):
AAACATGAGTAAAACGAGTAAGACCAAAGCTGAAAAACATTATGG
Found at i:31967246 original size:46 final size:45
Alignment explanation
Indices: 31967134--31967257 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
31967124 ATATGACAAT
* * * * *
31967134 ATGAGTAAAACGAGTAAGACCATAGCTGAAAAACATTATGGAAAC
1 ATGATTAAAACAAGTAAGACTATAGTTGAAAGACATTATGGAAAC
* * *
31967179 ATGATTAAAACAAGTAAGACTACAGTTGAAAGACGTTATGGCAAC
1 ATGATTAAAACAAGTAAGACTATAGTTGAAAGACATTATGGAAAC
*
31967224 ATGAATTAAAATAAGTAAGACTATAGTTGAAAGA
1 ATG-ATTAAAACAAGTAAGACTATAGTTGAAAGA
31967258 TGCTAAGGCA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 40 0.59
46 28 0.41
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.22
Consensus pattern (45 bp):
ATGATTAAAACAAGTAAGACTATAGTTGAAAGACATTATGGAAAC
Found at i:31967273 original size:46 final size:46
Alignment explanation
Indices: 31967176--31967273 Score: 135
Period size: 46 Copynumber: 2.2 Consensus size: 46
31967166 ACATTATGGA
* *
31967176 AACATG-ATTAAAACAAGTAAGACTACAGTTGAAAGACGTTATGGC
1 AACATGAATTAAAACAAGTAAGACTACAGTTGAAAGACGCTAAGGC
* * *
31967221 AACATGAATTAAAATAAGTAAGACTATAGTTGAAAGATGCTAAGGC
1 AACATGAATTAAAACAAGTAAGACTACAGTTGAAAGACGCTAAGGC
*
31967267 ATCATGA
1 AACATGA
31967274 CGAAATTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 6 0.13
46 40 0.87
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.23
Consensus pattern (46 bp):
AACATGAATTAAAACAAGTAAGACTACAGTTGAAAGACGCTAAGGC
Found at i:31973958 original size:45 final size:46
Alignment explanation
Indices: 31973877--31974194 Score: 319
Period size: 45 Copynumber: 7.0 Consensus size: 46
31973867 TGTTATCGTA
* * *
31973877 AACATG-ATTAAAATGGGTAAGACTATAGCTGAAAGACACTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * * * *
31973922 AATATG-GTTAAAACGAGTAAGACCATAGTTGGAAGACGCTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
*
31973967 AACATG-ATTAAAATGAGTAAGACCATAGCTGAAAGACGTTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * *
31974012 AACAAGAATTAAAATGAGTAATACCATAGCTGAAAGACGTTATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * *
31974058 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGAC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *** * * * * *
31974104 ATCAT-AAAGGAAGTTAGTAAGACCATGGTTGAAAGACGCAATGGC
1 AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
31974149 ATCATTGTAATTAGAACT-A-T--GACCATAGCTGAAAGACGCTATGGC
1 AACA-TG-AATTA-AAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
31974194 A
1 A
31974195 TCCTTTGACA
Statistics
Matches: 227, Mismatches: 41, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
45 137 0.60
46 83 0.37
47 1 0.00
48 3 0.01
49 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
AACATGAATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
Found at i:31974123 original size:91 final size:91
Alignment explanation
Indices: 31973877--31974149 Score: 282
Period size: 91 Copynumber: 3.0 Consensus size: 91
31973867 TGTTATCGTA
* * * * * * * * * *
31973877 AACATGATTAAAATGGGTAAGACTATAGCTGAAAGACACTATGGCAATATG-GTTAAAACGAGTA
1 AACATGATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGACAACAAGAATGAAAATGAGTA
*
31973941 AGACCATAGTTGGAAGACGCTATGGC
66 AGACCATAGTTGAAAGACGCTATGGC
* * * *
31973967 AACATGATTAAAATGAGTAAGACCATAGCTGAAAGACGTTATGGCAACAAGAATTAAAATGAGTA
1 AACATGATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGACAACAAGAATGAAAATGAGTA
* * *
31974032 ATACCATAGCTGAAAGACGTTATGGC
66 AGACCATAGTTGAAAGACGCTATGGC
* * * * *
31974058 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATA-AA-GGAAGTTAG
1 AACATG-ATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGACAACA-AGAATGAAAATGAG
* *
31974121 TAAGACCATGGTTGAAAGACGCAATGGC
64 TAAGACCATAGTTGAAAGACGCTATGGC
31974149 A
1 A
31974150 TCATTGTAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
90 45 0.29
91 68 0.44
92 40 0.26
93 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (91 bp):
AACATGATTAAAATGAGTAAGACCATAGCTAAAAGACGCTATGACAACAAGAATGAAAATGAGTA
AGACCATAGTTGAAAGACGCTATGGC
Found at i:31976832 original size:13 final size:13
Alignment explanation
Indices: 31976814--31976864 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
31976804 ATTTTTATTT
31976814 TATTTTATTTTTA
1 TATTTTATTTTTA
31976827 TATTTT-TGTTTTA
1 TATTTTAT-TTTTA
*
31976840 -ATTTAATTTTTA
1 TATTTTATTTTTA
*
31976852 CATTTTACTTTTT
1 TATTTTA-TTTTT
31976865 CTTTTGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 10 0.31
13 17 0.53
14 5 0.16
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:31976843 original size:25 final size:24
Alignment explanation
Indices: 31976783--31976857 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
31976773 TTAGGAAAAA
**
31976783 TTTATTTCTA-TTAATTTAGACATT
1 TTTATTT-TATTTAATTTTTACATT
* *
31976807 TTTATTTTATTTTATTTTTATATT
1 TTTATTTTATTTAATTTTTACATT
*
31976831 TTTGTTTTAATTTAATTTTTACATT
1 TTTATTTT-ATTTAATTTTTACATT
31976856 TT
1 TT
31976858 ACTTTTTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 2 0.05
24 24 0.57
25 16 0.38
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTATTTTATTTAATTTTTACATT
Found at i:31981445 original size:67 final size:64
Alignment explanation
Indices: 31981373--31981503 Score: 165
Period size: 65 Copynumber: 2.0 Consensus size: 64
31981363 ATTTTTCATT
* *
31981373 TTTCA-TTGTAGAAATAATATTTATCTAATACATTTTAATTTTTAAAAAATAATGTTTTAAATAA
1 TTTCATTTGTAGAAATAATA--TATATAATACATTTTAA-TTTT-AAAAATAAAGTTTTAAATAA
31981437 TGA
62 TGA
* * *
31981440 TTTCATTTTTTAGAAATAATATATATAATACTTTTTAATTTTAAAAGTAAAGTTTTAAATAATG
1 TTTCA-TTTGTAGAAATAATATATATAATACATTTTAATTTTAAAAATAAAGTTTTAAATAATG
31981504 TAAAAGCATA
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
65 20 0.35
66 4 0.07
67 20 0.35
69 13 0.23
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (64 bp):
TTTCATTTGTAGAAATAATATATATAATACATTTTAATTTTAAAAATAAAGTTTTAAATAATGA
Found at i:31984934 original size:21 final size:21
Alignment explanation
Indices: 31984910--31984981 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
31984900 CTATAGCATC
31984910 TTTTAGCTATGGTCTTACTCA
1 TTTTAGCTATGGTCTTACTCA
** * *
31984931 TTTTAATTCATGTTGCCATAACGTC-
1 TTTTAGCT-ATG--GTC-TTAC-TCA
31984956 TTTTAGCTATGGTCTTACTCA
1 TTTTAGCTATGGTCTTACTCA
31984977 TTTTA
1 TTTTA
31984982 ATTCATGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 5 0.14
24 5 0.14
25 9 0.24
26 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (21 bp):
TTTTAGCTATGGTCTTACTCA
Found at i:31985057 original size:45 final size:45
Alignment explanation
Indices: 31984908--31985125 Score: 294
Period size: 45 Copynumber: 4.8 Consensus size: 45
31984898 TGCTATAGCA
*
31984908 TCTTTTAGCTATGGTCTTACTCATTTTAATTCATGTTGCCATAACG
1 TCTTTCAGCTATGGTCTTACTCATTTTAA-TCATGTTGCCATAACG
* **
31984954 TCTTTTAGCTATGGTCTTACTCATTTTAATTCATGTTGCCATAATA
1 TCTTTCAGCTATGGTCTTACTCATTTTAA-TCATGTTGCCATAACG
* * *
31985000 TTTTTCAACTATGGTCTTACTCATTTTAATCATGTTGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTTGCCATAACG
* * **
31985045 TCTTCCAGCTATGGTCTTACTCATTTTAATCATATTGCCATAGTG
1 TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTTGCCATAACG
*
31985090 TCTTTCAGCTATGGTCTTAC-CTAATTTAATCATGTT
1 TCTTTCAGCTATGGTCTTACTC-ATTTTAATCATGTT
31985126 TACGATAACA
Statistics
Matches: 155, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.01
45 84 0.54
46 70 0.45
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTTAATCATGTTGCCATAACG
Found at i:31995200 original size:44 final size:44
Alignment explanation
Indices: 31995151--31996080 Score: 229
Period size: 44 Copynumber: 21.2 Consensus size: 44
31995141 TACCTGGGGA
* *
31995151 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * *
31995195 AGATAAGA-TCTGTTA-TTTTCAACCTACTCCACTATTGCTTAGGG
1 AGATAAGATTC-G-TAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
31995239 AGATAGGACTAGT-GACTTAAATCTGCTTCC-CTACTACCT-GGG
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACTGCTTAGGG
** ** *
31995281 AAAGATAAGATTCGCCGTCTTCAATCTGCTTAACTACTGCATAGGG
1 --AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
31995327 AGATAAGA-TCTGTAATATTTAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * *
31995371 AGATAAGACTTAC--AATCTTCAACCTATTCCACTGCTG-TCCAAGG
1 AGATAAGA-TT-CGTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * ** * * * * *
31995415 AGATAGGACTAAT-GGCTTAAATCTGTTTCC-CTACTAG-ATGGGG
1 AGATAAGATTCGTAGTCTTCAATCTG-CTCCACTACT-GCTTAGGG
** * *
31995458 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGA
1 -AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** *
31995503 AGATAAGA-TCTGTAATCTTCAACCTATTCCACTGCTG-TCTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * * * * * * * * *
31995547 AAATAGGACTAGT-GACTTAAATTTGCTTCC-CTACTACCTGGGG
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACTGCTTAGGG
** * *
31995590 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAG
1 -AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * *
31995635 AGATAAGA-TCTGTAATTTTCAACCT--TCCA-TCACTGCTTAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACT-ACTGCTTAGGG
* * * ** *
31995677 AGATAAGGCTTAC--AATCTTCAACCTATTCCACTGCTG-TCTAGGG
1 AGATAA-GATT-CGTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * * * * * * *
31995721 AGATAGGACTAGT-GGCTTAAATCTGCTTCC-CTACTACCTGAGGA
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACT-GCTTAGGG
* *
31995765 AGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * ** * *
31995809 AGATAAGA-TCTGTAATTTTTGACCTATTCCACTGCTG-TCCAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * * ** * *
31995853 AGATAAGACT-GTTA-TCTTCTACCTATTCCACTGCTG-TCCAGGG
1 AGATAAGATTCG-TAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
*** * **
31995896 AGATAAGATTCACCGTATTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * ** * *
31995940 AGATAAGA-TCTGTAATTTTCGACCTATTCCACTGCTG-TCCAGGG
1 AGATAAGATTC-GTAGTCTTCAATCTGCTCCACTACTGCT-TAGGG
* * * * * * * *
31995984 AGATAGGACTAGT-GGCTTTAATCTGCTTCC-CTACTACCTGGGG
1 AGATAAGATTCGTAGTCTTCAATCTGC-TCCACTACTGCTTAGGG
* * *
31996027 AAGATAAGATTCGCCA-TCTTCAATATGCTTCACTACTGCTTAGGG
1 -AGATAAGATTCG-TAGTCTTCAATCTGCTCCACTACTGCTTAGGG
31996072 AGATAAGAT
1 AGATAAGAT
31996081 CTGTAATTTT
Statistics
Matches: 626, Mismatches: 197, Indels: 126
0.66 0.21 0.13
Matches are distributed among these distances:
41 1 0.00
42 34 0.05
43 121 0.19
44 369 0.59
45 96 0.15
46 4 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATTCGTAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:31995286 original size:132 final size:132
Alignment explanation
Indices: 31995105--31995380 Score: 428
Period size: 132 Copynumber: 2.1 Consensus size: 132
31995095 TGCTGTCCAA
* * * *
31995105 GGAGATAGGACCAGTGGCTTAAATCTACTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTT
1 GGAGATAGGACTAGTGACTTAAATCTACTTCCCTACTACCTGGGAAAGATAAGATTCGCCGTCTT
* * * * *
31995170 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTAT-TTTCAACCTACTCCACTATTGCT
66 CAATCTGCTCAACTACTGCATAGGGAGATAAGATCTGTAATATTT-AACCTACTCCACTACTGCT
31995234 TAG
130 TAG
*
31995237 GGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAGATAAGATTCGCCGTCTT
1 GGAGATAGGACTAGTGACTTAAATCTACTTCCCTACTACCTGGGAAAGATAAGATTCGCCGTCTT
*
31995302 CAATCTGCTTAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTACTCCACTACTGCTT
66 CAATCTGCTCAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTACTCCACTACTGCTT
31995367 AG
131 AG
*
31995369 GGAGATAAGACT
1 GGAGATAGGACT
31995381 TACAATCTTC
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
132 128 0.98
133 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (132 bp):
GGAGATAGGACTAGTGACTTAAATCTACTTCCCTACTACCTGGGAAAGATAAGATTCGCCGTCTT
CAATCTGCTCAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTACTCCACTACTGCTT
AG
Found at i:31995359 original size:176 final size:175
Alignment explanation
Indices: 31995177--31995535 Score: 479
Period size: 176 Copynumber: 2.0 Consensus size: 175
31995167 CTTCGATCTG
* * * * *
31995177 CTCCACTACTGCTTAGGGAGATAAGATCTGT-TATTTTCAACCTACTCCACTATTG-CTTAGGGA
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TAAATCTTCAACCTACTCCACTACTGTC-CAAGGA
* *
31995240 GATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAGATAAGATTCGCCGTCTTCAA
63 GATAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGAAAGATAAGATTCGCCGTCTTCAA
* * *
31995305 TCTGCTTAACTACTGCATAGGGAGATAAGATCTGTAATATTTAACCTA
128 TCTGCTCAACTACTGCATAGGAAGATAAGATCTGTAATATTCAACCTA
* *
31995353 CTCCACTACTGCTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGACTTA-AATCTTCAACCTACTCCACTACTGTCCAAGGAGA
* * * * *
31995418 TAGGACTAATGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTCGATC
65 TAGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGAAAGATAAGATTCGCCGTCTTCAATC
* * *
31995483 TGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTA
130 TGCTCAACTACTGCATAGGAAGATAAGATCTGTAATATTCAACCTA
*
31995529 TTCCACT
1 CTCCACT
31995536 GCTGTCTAGG
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
174 1 0.01
175 2 0.01
176 155 0.97
177 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (175 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTAAATCTTCAACCTACTCCACTACTGTCCAAGGAGAT
AGGACTAATGACTTAAATCTGCTTCCCTACTACATGGGAAAGATAAGATTCGCCGTCTTCAATCT
GCTCAACTACTGCATAGGAAGATAAGATCTGTAATATTCAACCTA
Found at i:31995463 original size:132 final size:132
Alignment explanation
Indices: 31995303--31995659 Score: 382
Period size: 132 Copynumber: 2.7 Consensus size: 132
31995293 CGCCGTCTTC
** * * * *
31995303 AATCTGCTTAACTACTGCATAGGG-AGATAAGA-TCTGTAATATTTAACCTACTCCACTACTGCT
1 AATCTGCTTCCCTACTACATGGGGAAGATAAGATTC-GCAATATTCAACCTACTCCACTACTGCT
* *
31995366 TAGGGAGATAAGA-CT-TACAATCTTCAACCTATTCCACTGCTGTCCAAGGAGATAGGACTAATG
65 TAGGAAGATAAGATCTGT--AATCTTCAACCTATTCCACTGCTGTCCAAGGAAATAGGACTAATG
*
31995429 GCTTA
128 ACTTA
* * ** * * * *
31995434 AATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCAATATTCAACCTACTCCACTACTGCTT
* * *
31995499 AGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAAATAGGACTAGTGACT
66 AGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAAGGAAATAGGACTAATGACT
31995564 TA
131 TA
* * ** * * * *
31995566 AATTTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTT
1 AATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCAATATTCAACCTACTCCACTACTGCTT
*
31995631 A-GAGAGATAAGATCTGTAATTTTCAACCT
66 AGGA-AGATAAGATCTGTAATCTTCAACCT
31995660 TCCATCACTG
Statistics
Matches: 196, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
131 20 0.10
132 171 0.87
133 4 0.02
134 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (132 bp):
AATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCAATATTCAACCTACTCCACTACTGCTT
AGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAAGGAAATAGGACTAATGACT
TA
Found at i:31995555 original size:308 final size:308
Alignment explanation
Indices: 31994978--31995972 Score: 1443
Period size: 308 Copynumber: 3.2 Consensus size: 308
31994968 GCTTGGGAGA
* * *
31994978 ATAAGATTCGTCGTCTTCGATCTGCTCCACTATTGCTTAAGGAGATAAGAT-TGTAATTTTCAAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
* *
31995042 CTACTCCACTACTGCTTAAGGAGATAAGGCTTACAATCTTCAACCTATTACACTGCTGTCCAAGG
66 CTACTCCACTACTGCTTAGGGAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCCAAGG
* *
31995107 AGATAGGACCAGTGGCTTAAATCTACTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTTCG
131 AGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTTCG
* * **
31995172 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATTTTCAACCTACTCCACTATTG-CTTA
196 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTC-TA
31995236 GGGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAG
260 GGGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAG
* ** *
31995285 ATAAGATTCGCCGTCTTCAATCTGCTTAACTACTGCATAGGGAGATAAGATCTGTAATATTT-AA
1 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTTCAA
*
31995349 CCTACTCCACTACTGCTTAGGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCCAAG
65 CCTACTCCACTACTGCTTAGGGAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCCAAG
* * ** *
31995414 GAGATAGGACTAATGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTC
130 GAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTTC
* *
31995479 GATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCTA
195 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCTA
* * *
31995544 GGGAAATAGGACTAGTGACTTAAATTTGCTTCCCTACTACCTGGGGAAG
260 GGGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAG
*
31995593 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
* *
31995658 CT--TCCA-TCACTGCTTAGGGAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCTAGG
66 CTACTCCACT-ACTGCTTAGGGAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCCAAG
*
31995720 GAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGTCGTCTTC
130 GAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTTC
** *
31995785 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTGCTGTCCA
195 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCTA
* * ** * * * * *
31995850 GGGAGATAAGACT-GTTATCTTCTACCT-ATTCCACTGCTGTCCAGGG--AG
260 GGGAGATAGGACTAGTGA-CTTAAATCTGCTTCC-CTACT-ACCTGGGAAAG
* * * *
31995898 ATAAGATTCACCGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCGAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
*
31995963 CTATTCCACT
66 CTACTCCACT
31995973 GCTGTCCAGG
Statistics
Matches: 616, Mismatches: 61, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
305 72 0.12
306 194 0.31
307 56 0.09
308 290 0.47
309 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (308 bp):
ATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAAC
CTACTCCACTACTGCTTAGGGAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCCAAGG
AGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGTCGTCTTCG
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCTAG
GGAGATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGGGAAAG
Found at i:31995784 original size:174 final size:174
Alignment explanation
Indices: 31995503--31995900 Score: 597
Period size: 174 Copynumber: 2.3 Consensus size: 174
31995493 CTGCTTAGGA
*
31995503 AGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAAATAGGACTAGTGACTTAAA
1 AGATAAGA-CTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTTAAA
* *
31995568 TTTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
65 TCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
31995633 AGAGATAAGATCTGTAATTTTCAACCT-TCCATCACTGCT-T-AGGG
130 AGAGATAAGATCTGTAATTTTCAACCTATCC--CACTGCTGTCAGGG
* *
31995677 AGATAAGGCT-TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAA
1 AGATAAGACTGT--AATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTTAA
*
31995741 ATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTACTGCTTA
64 ATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTA
* ** *
31995806 GGGAGATAAGATCTGTAATTTTTGACCTATTCCACTGCTGTCCAGGG
129 GAGAGATAAGATCTGTAATTTTCAACCTATCCCACTGCTGT-CAGGG
* * *
31995853 AGATAAGACTGTTATCTTCTACCTATTCCACTGCTGTCCAGGGAGATA
1 AGATAAGACTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATA
31995901 AGATTCACCG
Statistics
Matches: 203, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
172 1 0.00
173 9 0.04
174 144 0.71
175 35 0.17
176 13 0.06
177 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (174 bp):
AGATAAGACTGTAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGACTTAAAT
CTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGA
GAGATAAGATCTGTAATTTTCAACCTATCCCACTGCTGTCAGGG
Found at i:31995947 original size:131 final size:131
Alignment explanation
Indices: 31995666--31996294 Score: 680
Period size: 131 Copynumber: 4.8 Consensus size: 131
31995656 ACCTTCCATC
* * * * *
31995666 ACTGCTTAGGGAGATAAG-GCT-TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGA
1 ACTGCTTAGGGAGATAAGATCTGT--AATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGA
* * * * * * * ** *
31995729 CTAGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGTCGTCTTCGATCTGCTC
64 CTAGTAGCTTCAACCTGATTCCCTGCTTCCT-AGGGAGATAAGATTCACCATCTTCGATCTGCTC
31995794 CACT
128 CACT
*
31995798 ACTGCTTAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
1 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
* * * * *
31995863 -GTTATCTTCTACCT-ATTCCACTGCTGTCC-AGGGAGATAAGATTCACCGTATTTGATCTGCTC
66 AG-TAGCTTCAACCTGATTCC-CTGCT-TCCTAGGGAGATAAGATTCACCATCTTCGATCTGCTC
31995925 CACT
128 CACT
*
31995929 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACT
1 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
* * * * * * * * * * *
31995994 AGTGGCTTTAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATATGCTTCA
66 AGTAGCTTCAACCTGATTCCCTGCTTCCTAGGG-AGATAAGATTCACCATCTTCGATCTGCTCCA
31996059 CT
130 CT
* *
31996061 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTTCACTGCTGTCCAGGGAGATAGGACT
1 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
* * * * * * * * *
31996126 AGTGGCTTAAATCTGCTTCCGT-ATTACCTAGGAAGATAAGATTCACCATTTTTGATCTGCTCCA
66 AGTAGCTTCAACCTGATTCCCTGCTT-CCTAGGGAGATAAGATTCACCATCTTCGATCTGCTCCA
31996190 CT
130 CT
* *
31996192 ACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCCAGGGAGATAAGACT
1 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
* *
31996257 GGTATCTTCAACCT-ATTCCACTGCTGT-CTAGGGAGATA
66 AGTAGCTTCAACCTGATTCC-CTGCT-TCCTAGGGAGATA
31996295 GGACTAGTGG
Statistics
Matches: 421, Mismatches: 63, Indels: 27
0.82 0.12 0.05
Matches are distributed among these distances:
130 6 0.01
131 223 0.53
132 186 0.44
133 5 0.01
134 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (131 bp):
ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGACT
AGTAGCTTCAACCTGATTCCCTGCTTCCTAGGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
T
Found at i:31996165 original size:263 final size:263
Alignment explanation
Indices: 31995666--31996256 Score: 834
Period size: 263 Copynumber: 2.2 Consensus size: 263
31995656 ACCTTCCATC
* * * *
31995666 ACTGCTTAGGGAGATAAG-GCT-TACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGA
1 ACTGCTTAGGGAGATAAGATCTGT--AATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGA
* * * *
31995729 CTAGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGTCGTCTTCGATCTGCTC
64 CTAGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCATCTTCAATATGCTC
*
31995794 CACTACTGCTTAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTGCTGTCCAGGGAGATAA
129 CACTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAA
* ** * * *
31995859 GACTGTTATCTTCTACCTATTCCACTGCTGTCCAGGGAGATAAGATTCACCGTATTTGATCTGCT
194 GACTGTTAGCTTAAACCTATTCCACTGATGTCCAGGAAGATAAGATTCACCATATTTGATCTGCT
31995924 CCACT
259 CCACT
31995929 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACT
1 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACT
* * *
31995994 AGTGGCTTTAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATATGCTTCA
66 AGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCATCTTCAATATGCTCCA
* *
31996059 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTTCACTGCTGTCCAGGGAGATAGGA
131 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGA
* * * * *
31996124 CTAG-TGGCTTAAATCTGCTTCC-GT-AT-TACCTAGGAAGATAAGATTCACCATTTTTGATCTG
196 CT-GTTAGCTTAAACCT-ATTCCACTGATGT-CC-AGGAAGATAAGATTCACCATATTTGATCTG
31996185 CTCCACT
257 CTCCACT
* * *
31996192 ACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCCAGGGAGATAAGACT
1 ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACT
31996257 GGTATCTTCA
Statistics
Matches: 294, Mismatches: 28, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
261 1 0.00
262 3 0.01
263 282 0.96
264 7 0.02
265 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (263 bp):
ACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACT
AGTGGCTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCGCCATCTTCAATATGCTCCA
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAAGA
CTGTTAGCTTAAACCTATTCCACTGATGTCCAGGAAGATAAGATTCACCATATTTGATCTGCTCC
ACT
Found at i:31996234 original size:44 final size:44
Alignment explanation
Indices: 31996186--31996411 Score: 112
Period size: 44 Copynumber: 5.2 Consensus size: 44
31996176 TTTGATCTGC
31996186 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
* ** * *
31996230 TCCAC-AGCTG-TCCAGGGAGATAAGA-CTGGTATCTTCAACCTAT
1 TCCACTA-CTGCT-TAGGGAGATAAGATCTGCAATTTTCGACCTAT
* * * ** * *
31996273 TCCACTGCTG-TCTAGGGAGATAGGA-CT--AGTGGTTTAAATCTGCT
1 TCCACTACTGCT-TAGGGAGATAAGATCTGCAAT--TTTCGACCT-AT
* * * * **
31996317 TCC-CTACTACTTGGGGAAGATAAGAT-T-CACTATCTTCGATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGATCTGCA--ATTTTCGACCTAT
* * *
31996361 TCCACTACTACTTAGGGAGATAAGATCTGTAATTTTTGACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
31996405 TCCACTA
1 TCCACTA
31996412 TCGTCCAGGC
Statistics
Matches: 136, Mismatches: 31, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
41 1 0.01
43 53 0.39
44 60 0.44
45 20 0.15
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTAT
Found at i:31996266 original size:569 final size:569
Alignment explanation
Indices: 31995353--31996563 Score: 1681
Period size: 569 Copynumber: 2.1 Consensus size: 569
31995343 ATTTAACCTA
*
31995353 CTCCACTACTGCTTAGGGAGATAAGA-CT-TACAATCTTCAACCTATTCCACTGCTGTCCAAGGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGT--AATTTTCAACCTATTCCACTGCTGTCCAAGGA
* * * *
31995416 GATAGGACTAATGGCTTAAATCTGTTTCCCTACTAGATGGGGAAGATAAGATTCGCCGTCTTCGA
64 GATAGGACTAATGGCTTAAATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCCATCTTCAA
* *
31995481 TCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCTAGG
129 TATGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGG
* * * *
31995546 GAAATAGGACTAGTGACTTAAATTTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCGTCTTC
194 GAAATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTC
* *
31995611 GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATTTTCAACCTTCCATCACTGCTTAGG
259 GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACCTTCCATCACTGCTCAGG
*
31995676 GAGATAAGGCTTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAA
324 GAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAA
* * *
31995741 ATCTGCTTCCCTACTACCTGAGGAAGATAAGATTC-GTCGTCTTCGATCTGCTCCACTACTGCTT
389 ATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACT-ATCTTCGATCTGCTCCACTACTACTT
* * *
31995805 AGGGAGATAAGATCTGTAATTTTTGACCTATTCCACT-GCTGTCCAGGGAGATAAGACT-GTTAT
453 AGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATC-GTCCAGGCAGATAAGACTAG-TAG
** * *
31995868 CTTCTACCTA-TTCCACTGCTGTCC-AGGG-AGATAAGATTCACCGTATTTGATCTG
516 CTTAAACC-ACTTCC-CTACT-ACCTAGGGAAGATAAGATTCACCGTATTTGATCTG
* *
31995922 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAAGGAGA
* * *
31995987 TAGGACTAGTGGCTTTAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATA
66 TAGGACTAATGGCTTAAATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCCATCTTCAATA
* * * * *
31996052 TGCTTCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCGACCTATTTCACTGCTGTCCAGGGA
131 TGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGA
* * * * * *
31996117 GATAGGACTAGTGGCTTAAATCTGCTTCCGTATTACCT-AGGAAGATAAGATTCACCATTTTTGA
196 AATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCGA
* *
31996181 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCA-CAGCTG-TCCA
261 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACC--TTCCATCA-CTGCT-CA
*** *
31996244 GGGAGATAAGAC-TGGTATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGTTT
322 GGGAGATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTT
* *
31996308 AAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTACT
387 AAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTACT
* *
31996373 TAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTGGC
452 TAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCCAGGCAGATAAGACTAGTAGC
* * ***
31996438 TTAAATCAGCTTCCCTACTACCTTGGGAAGATAAGATTTGTCGTATTTGATCTG
517 TTAAACCA-CTTCCCTACTACCTAGGGAAGATAAGATTCACCGTATTTGATCTG
* * * * *
31996492 CTCCACTACTACTTAGGGATATAAGATTTGCAATTTTTAACCTATTCCACTGCTGTCCAAGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAAGGAGA
31996557 TAGGACT
66 TAGGACT
31996564 GGTATCTTCG
Statistics
Matches: 567, Mismatches: 62, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
568 67 0.12
569 382 0.67
570 117 0.21
571 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (569 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTATTCCACTGCTGTCCAAGGAGA
TAGGACTAATGGCTTAAATCTGCTTCCCTACTACATGGGGAAGATAAGATTCGCCATCTTCAATA
TGCTCCACTACTGCTTAGGAAGATAAGATCTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGA
AATAGGACTAGTGACTTAAATCTGCTTCCCTACTACCTGAGGAAGATAAGATTCACCATCTTCGA
TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACCTTCCATCACTGCTCAGGGA
GATAAGACTTACAATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGCTTAAAT
CTGCTTCCCTACTACCTGAGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTACTTAGG
GAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCCAGGCAGATAAGACTAGTAGCTTAA
ACCACTTCCCTACTACCTAGGGAAGATAAGATTCACCGTATTTGATCTG
Found at i:31996283 original size:43 final size:43
Alignment explanation
Indices: 31996199--31996299 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
31996189 ACTACTGCTT
* *
31996199 AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCC
1 AGGGAGATAAGA-CTGCAATCTTCAACCTATTCCACAGCTGTCC
** * *
31996243 AGGGAGATAAGACTGGTATCTTCAACCTATTCCACTGCTGTCT
1 AGGGAGATAAGACTGCAATCTTCAACCTATTCCACAGCTGTCC
*
31996286 AGGGAGATAGGACT
1 AGGGAGATAAGACT
31996300 AGTGGTTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 38 0.76
44 12 0.24
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (43 bp):
AGGGAGATAAGACTGCAATCTTCAACCTATTCCACAGCTGTCC
Found at i:31996319 original size:306 final size:307
Alignment explanation
Indices: 31995936--31996572 Score: 931
Period size: 306 Copynumber: 2.1 Consensus size: 307
31995926 ACTACTGCTT
* *
31995936 AGGGAGATAAGATCT-GTAATTTTCGACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGC
1 AGGGAGATAAGA-CTGGT-ATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGC
* * *
31996000 TTTAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCGCCATCTTCAATATGCTTCACTACTG
64 TTTAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCACCATCTTCAATATGCTCCACTACTA
* * *
31996065 CTTAGGGAGATAAGATCTGTAATTTTCGACCTATTTCACT-GCTGTCCAGGGAGATAGGACTAGT
129 CTTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTATC-GTCCAGGCAGATAGGACTAGT
* * * *
31996129 GGCTTAAATCTGCTTCCGTATTACC-TAGGAAGATAAGATTCACCATTTTTGATCTGCTCCACTA
193 GGCTTAAATCAGCTTCCCTACTACCTTAGGAAGATAAGATTCACCATATTTGATCTGCTCCACTA
* *
31996193 CTGCTTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACAGCTGTCC
258 CTACTTAGGGAGATAAGATCTGCAATTTTCAACCTATTCCACAGCTGTCC
*
31996243 AGGGAGATAAGACTGGTATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGG-TT
1 AGGGAGATAAGACTGGTATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCTT
* * * *
31996307 TAAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTAC
66 T-AATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCACCATCTTCAATATGCTCCACTACTAC
*
31996372 TTAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTGG
130 TTAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTGG
* *** *
31996437 CTTAAATCAGCTTCCCTACTACCTTGGGAAGATAAGATTTGTCGTATTTGATCTGCTCCACTACT
195 CTTAAATCAGCTTCCCTACTACCTTAGGAAGATAAGATTCACCATATTTGATCTGCTCCACTACT
* * * *
31996502 ACTTAGGGATATAAGATTTGCAATTTTTAACCTATTCCACTGCTGTCC
260 ACTTAGGGAGATAAGATCTGCAATTTTCAACCTATTCCACAGCTGTCC
* *
31996550 AAGGAGATAGGACTGGTATCTTC
1 AGGGAGATAAGACTGGTATCTTC
31996573 GATCTGCTTC
Statistics
Matches: 295, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
305 3 0.01
306 179 0.61
307 113 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (307 bp):
AGGGAGATAAGACTGGTATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCTT
TAATCTGCTTCCCTACTACCTGGGGAAGATAAGATTCACCATCTTCAATATGCTCCACTACTACT
TAGGGAGATAAGATCTGTAATTTTCGACCTATTCCACTATCGTCCAGGCAGATAGGACTAGTGGC
TTAAATCAGCTTCCCTACTACCTTAGGAAGATAAGATTCACCATATTTGATCTGCTCCACTACTA
CTTAGGGAGATAAGATCTGCAATTTTCAACCTATTCCACAGCTGTCC
Found at i:31996364 original size:175 final size:174
Alignment explanation
Indices: 31996068--31996431 Score: 516
Period size: 175 Copynumber: 2.1 Consensus size: 174
31996058 ACTACTGCTT
* * *
31996068 AGGGAGATAAGATCTGTAATTTTCGACCTATTTCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
1 AGGGAGATAAGA-CTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
* * * * *
31996133 TAAATCTGCTTCCGTATTACCTAGGAAGATAAGATTCACCATTTTTGATCTGCTCCACTACTGCT
65 TAAATCTGCTTCCCTACTACCTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACT
31996198 TAGGGAGATAAGATCTGCAATTTTCGACCTATTCCAC-AGCTGTCC
130 TAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTAGC-GTCC
* *
31996243 AGGGAGATAAGACTGGT-ATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGTT
1 AGGGAGATAAGACT-GTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCT
* * *
31996307 TAAATCTGCTTCCCTACTACTTGGGGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTAC
65 TAAATCTGCTTCCCTACTACCT-AGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTAC
* * *
31996372 TTAGGGAGATAAGATCTGTAATTTTTGACCTATTCCACTATCGTCC
129 TTAGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTAGCGTCC
* *
31996418 AGGCAGATAGGACT
1 AGGGAGATAAGACT
31996432 AGTGGCTTAA
Statistics
Matches: 168, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
174 63 0.38
175 103 0.61
176 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (174 bp):
AGGGAGATAAGACTGTAATCTTCAACCTATTCCACTGCTGTCCAGGGAGATAGGACTAGTGGCTT
AAATCTGCTTCCCTACTACCTAGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACTT
AGGGAGATAAGATCTGCAATTTTCGACCTATTCCACTAGCGTCC
Found at i:31996442 original size:132 final size:131
Alignment explanation
Indices: 31996243--31996563 Score: 418
Period size: 132 Copynumber: 2.4 Consensus size: 131
31996233 ACAGCTGTCC
** * * * *
31996243 AGGGAGATAAGA-CTGGTATCTTCAACCTATTCCACTGCTGTCTAGGGAGATAGGACTAGTGGTT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGCTGTCCA-GGAGATAGGACTAGTGGCT
*
31996307 TAAATCTGCTTCCCTACTA-CTTGGGGAAGATAAGA-TTCAC-TATCTTCGATCTGCTCCACTAC
65 TAAATCAGCTTCCCTACTACCTT-GGGAAGATAAGATTTCACGTAT-TT-GATCTGCTCCACTAC
31996369 TACTT
127 TACTT
* * *
31996374 AGGGAGATAAGATCTGTAATTTTTGACCTATTCCACT-ATCGTCCAGGCAGATAGGACTAGTGGC
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGCT-GTCCAGG-AGATAGGACTAGTGGC
**
31996438 TTAAATCAGCTTCCCTACTACCTTGGGAAGATAAGATTTGTCGTATTTGATCTGCTCCACTACTA
64 TTAAATCAGCTTCCCTACTACCTTGGGAAGATAAGATTTCACGTATTTGATCTGCTCCACTACTA
31996503 CTT
129 CTT
* *
31996506 AGGGATATAAGATTTGCAATTTTTAACCTATTCCACTGCTGTCCAAGGAGATAGGACT
1 AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGCTGTCC-AGGAGATAGGACT
31996564 GGTATCTTCG
Statistics
Matches: 166, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
131 15 0.09
132 136 0.82
133 12 0.07
134 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (131 bp):
AGGGAGATAAGATCTGCAATTTTTAACCTATTCCACTGCTGTCCAGGAGATAGGACTAGTGGCTT
AAATCAGCTTCCCTACTACCTTGGGAAGATAAGATTTCACGTATTTGATCTGCTCCACTACTACT
T
Found at i:31998059 original size:48 final size:46
Alignment explanation
Indices: 31997995--31998134 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 46
31997985 TTTTTTTAAA
* *
31997995 TTTTTTT-GGATTCAAAGCGCCCTTTGCAGGTTTTCACTTTGGTCTTT
1 TTTTTTTAGGAATCAAAGTGCCCTTTGC-GGTTTTCAC-TTGGTCTTT
31998042 TTTTTTTAGGAATCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTCTTT
1 TTTTTTTAGGAATCAAAGTGCCCTTTGC-GGTTTTCA-CTTGGTCTTT
*
31998090 TTTTTTTAGGAATCAAAGTGCCATTTGCGAGTTTTCAACTTGGTC
1 TTTTTTTAGGAATCAAAGTGCCCTTTGCG-GTTTTC-ACTTGGTC
31998135 CCTTTTCCTT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
47 8 0.09
48 75 0.88
49 2 0.02
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (46 bp):
TTTTTTTAGGAATCAAAGTGCCCTTTGCGGTTTTCACTTGGTCTTT
Found at i:31998989 original size:23 final size:23
Alignment explanation
Indices: 31998958--31999004 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31998948 CGCCTTAACC
*
31998958 TCTCCTTTTTTCTTTTC-TTTTCA
1 TCTCCTTTTTT-TTATCATTTTCA
*
31998981 TCTCTTTTTTTTTATCATTTTCA
1 TCTCCTTTTTTTTATCATTTTCA
31999004 T
1 T
31999005 TTTTTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (23 bp):
TCTCCTTTTTTTTATCATTTTCA
Found at i:31999022 original size:14 final size:15
Alignment explanation
Indices: 31998989--31999024 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
31998979 CATCTCTTTT
31998989 TTTTTATCATTTTCA
1 TTTTTATCATTTTCA
*
31999004 TTTTT-TCATTTTGA
1 TTTTTATCATTTTCA
31999018 TTTTTAT
1 TTTTTAT
31999025 TTTTATCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTTATCATTTTCA
Found at i:31999047 original size:26 final size:25
Alignment explanation
Indices: 31999018--31999080 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
31999008 TTCATTTTGA
*
31999018 TTTTTATTTTTATCTAGATTTTTCCT
1 TTTTTATTTTT-TCTAGATTTTTCAT
* *
31999044 TTTTTATTTTTTCTTGATTTTTGAT
1 TTTTTATTTTTTCTAGATTTTTCAT
*
31999069 TTTTGATTTTTT
1 TTTTTATTTTTT
31999081 TTGAATTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 22 0.67
26 11 0.33
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTTTCTAGATTTTTCAT
Found at i:32003842 original size:25 final size:25
Alignment explanation
Indices: 32003761--32003848 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
32003751 TAGGTTAATT
* * *
32003761 TTAAAATAAGTAATATGTAAAACAAC
1 TTAAAATAA-TAATCTATAAAGCAAC
*
32003787 TTAAAATAA-AATGACATATAAAGTAAC
1 TTAAAATAATAAT--C-TATAAAGCAAC
*
32003814 TTAAAATAATAATCTATAAAGCAAG
1 TTAAAATAATAATCTATAAAGCAAC
32003839 TTAAAATAAT
1 TTAAAATAAT
32003849 CATATACAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.06
25 19 0.37
26 10 0.19
27 17 0.33
28 3 0.06
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (25 bp):
TTAAAATAATAATCTATAAAGCAAC
Found at i:32005395 original size:45 final size:46
Alignment explanation
Indices: 32005282--32005477 Score: 186
Period size: 46 Copynumber: 4.3 Consensus size: 46
32005272 CTTACTTCCG
* * * *
32005282 TCATGATGCCATAGCATCTTTCAACTATGGTCTTACTTATTTTAAT
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
*
32005328 TCATGTTGCCATAACGTCTTTCAACTATAGTCTTACTTGTTTTAA-
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
* * * * *
32005373 TCATGTTGCCATAATGTTTTTCAGCTATGGTCTTACTCG-TTT-AC
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
* * ** * *
32005417 TCATATTGTCATGTCGTCTTTCAGCTATGGTCTTA-TTCGTTTGAA-
1 TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTT-GTTTTAAT
*
32005462 TCATGTTTGCAATAAC
1 TCATG-TTGCCATAAC
32005478 ATATATATAT
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
43 2 0.02
44 33 0.27
45 40 0.33
46 47 0.39
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (46 bp):
TCATGTTGCCATAACGTCTTTCAACTATGGTCTTACTTGTTTTAAT
Found at i:32005442 original size:44 final size:45
Alignment explanation
Indices: 32005298--32005465 Score: 162
Period size: 45 Copynumber: 3.7 Consensus size: 45
32005288 TGCCATAGCA
* ** *
32005298 TCTTTCAACTATGGTCTTACTTATTTTAATTCATGTTGCCATAA-CG
1 TCTTTCAGCTATGGTCTTAC-TCGTTTAA-TCATATTGCCATAATCG
* * * *
32005344 TCTTTCAACTATAGTCTTACTTGTTTTAATCATGTTGCCATAAT-G
1 TCTTTCAGCTATGGTCTTACTCG-TTTAATCATATTGCCATAATCG
* * * *
32005389 TTTTTCAGCTATGGTCTTACTCGTTTACTCATATTGTCAT-GTCG
1 TCTTTCAGCTATGGTCTTACTCGTTTAATCATATTGCCATAATCG
*
32005433 TCTTTCAGCTATGGTCTTATTCGTTTGAATCAT
1 TCTTTCAGCTATGGTCTTACTCGTTT-AATCAT
32005466 GTTTGCAATA
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.01
44 39 0.38
45 40 0.38
46 24 0.23
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCGTTTAATCATATTGCCATAATCG
Found at i:32012384 original size:16 final size:16
Alignment explanation
Indices: 32012363--32012396 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32012353 AGGGCTAGAA
32012363 TATGCCCAAGAAAGAG
1 TATGCCCAAGAAAGAG
* *
32012379 TATGCCTAAGGAAGAG
1 TATGCCCAAGAAAGAG
32012395 TA
1 TA
32012397 CGTCCGAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (16 bp):
TATGCCCAAGAAAGAG
Found at i:32013218 original size:6 final size:6
Alignment explanation
Indices: 32013209--32013234 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32013199 GTTTTTTTCC
32013209 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
32013235 GTTCTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:32013782 original size:3 final size:3
Alignment explanation
Indices: 32013776--32013822 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
32013766 GTTATCTTTG
* *
32013776 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA TTT TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32013821 TT
1 TT
32013823 CTAATACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:32018676 original size:8 final size:8
Alignment explanation
Indices: 32018672--32018711 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
32018662 GAAAAAATAA
32018672 AAAAAAAT
1 AAAAAAAT
*
32018680 AAAAAAAG
1 AAAAAAAT
32018688 AACAAAAAT
1 AA-AAAAAT
*
32018697 AAAAAAAC
1 AAAAAAAT
32018705 AAAAAAA
1 AAAAAAA
32018712 CCTCTACCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.88, C:0.05, G:0.03, T:0.05
Consensus pattern (8 bp):
AAAAAAAT
Found at i:32018683 original size:17 final size:17
Alignment explanation
Indices: 32018671--32018711 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
32018661 GGAAAAAATA
*
32018671 AAAAAAAATAAAAAAAG
1 AAAAAAAATAAAAAAAC
*
32018688 AACAAAAATAAAAAAAC
1 AAAAAAAATAAAAAAAC
32018705 AAAAAAA
1 AAAAAAA
32018712 CCTCTACCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAATAAAAAAAC
Found at i:32018688 original size:29 final size:26
Alignment explanation
Indices: 32018648--32018711 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 26
32018638 GATTCGATGC
32018648 AAAAAAAAAAGAAGGAAAAAATAAAAAA
1 AAAAAAAAAAGAA--AAAAAATAAAAAA
*
32018676 AAATAAAAAAAGAACAAAAATAAAAAA
1 AAA-AAAAAAAGAAAAAAAATAAAAAA
*
32018703 ACAAAAAAA
1 AAAAAAAAA
32018712 CCTCTACCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 6 0.18
27 14 0.42
28 3 0.09
29 10 0.30
ACGTcount: A:0.86, C:0.03, G:0.06, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAAAAATAAAAAA
Found at i:32019230 original size:14 final size:14
Alignment explanation
Indices: 32019211--32019255 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
32019201 TGAAAAAATG
32019211 TGAAAAAATGAAAA
1 TGAAAAAATGAAAA
32019225 TG-AAAAATGAAAAA
1 TGAAAAAATG-AAAA
*
32019239 TGGAAAAAATAAAAA
1 T-GAAAAAATGAAAA
32019254 TG
1 TG
32019256 GAGAGGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 6 0.22
16 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
TGAAAAAATGAAAA
Found at i:32019244 original size:15 final size:16
Alignment explanation
Indices: 32019204--32019257 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
32019194 GATGATGTGA
32019204 AAAAATGTGAAAAAATG
1 AAAAATG-GAAAAAATG
32019221 -AAAAT-G-AAAAATG
1 AAAAATGGAAAAAATG
32019234 AAAAATGGAAAAAAT-
1 AAAAATGGAAAAAATG
32019249 AAAAATGGA
1 AAAAATGGA
32019258 GAGGCTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 10 0.29
16 11 0.32
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
AAAAATGGAAAAAATG
Found at i:32019252 original size:6 final size:7
Alignment explanation
Indices: 32019214--32019255 Score: 52
Period size: 6 Copynumber: 6.0 Consensus size: 7
32019204 AAAAATGTGA
32019214 AAAAATG
1 AAAAATG
32019221 -AAAATG
1 AAAAATG
32019227 AAAAATG
1 AAAAATG
32019234 AAAAATGG
1 AAAAAT-G
32019242 AAAAAAT-
1 -AAAAATG
32019249 AAAAATG
1 AAAAATG
32019256 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 12 0.39
7 12 0.39
8 1 0.03
9 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:32020641 original size:88 final size:88
Alignment explanation
Indices: 32020520--32020840 Score: 466
Period size: 88 Copynumber: 3.6 Consensus size: 88
32020510 CGGAGCAGAC
* * * * *
32020520 TGAAAATGGCAGATCTTGCCATCCTGTACTGACAGCGAAGCAGATCGAAGATATCAACCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTGTCT
*
32020585 CCCTGGGCAGTAGTGGAGTAGGT
66 CCTTGGGCAGTAGTGGAGTAGGT
* *
32020608 TGAAAAT-GACAGATCTTGCCTTCCTGTATTGACAACGAAGCAGATCGAAGATACCAGCCTTATC
1 TGAAAATAG-CAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTGTC
32020672 TCCTTGGGCAGTAGTGGAGTAGG-
65 TCCTTGGGCAGTAGTGGAGTAGGT
* * *
32020695 TGAAAAATAGCAGATCTTGCCTTCCTATACTGACAGCGAGGCAGATCGAAGATACCAGCCTTGTC
1 TG-AAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTGTC
*
32020760 TCCTTGGGCAGTAGTGGACTAGGT
65 TCCTTGGGCAGTAGTGGAGTAGGT
* * * *
32020784 TGAAAATAGCAGATCTTGCCTTCTTGTACTGGCAACGAAGCAGATCAAAGACACCAG
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAG
32020841 TCTTATCACC
Statistics
Matches: 209, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
87 3 0.01
88 203 0.97
89 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAGATCGAAGATACCAGCCTTGTCT
CCTTGGGCAGTAGTGGAGTAGGT
Found at i:32020822 original size:176 final size:176
Alignment explanation
Indices: 32020522--32020853 Score: 513
Period size: 176 Copynumber: 1.9 Consensus size: 176
32020512 GAGCAGACTG
* * *
32020522 AAAATGGCAGATCTTGCCATCCTGTACTGACAGCGAAGCAGATCGAAGATATCAACCTTGTCTCC
1 AAAATAGCAGATCTTGCCATCCTATACTGACAGCGAAGCAGATCGAAGATACCAACCTTGTCTCC
* *
32020587 CTGGGCAGTAGTGGAGTAGGTTGAAAATGACAGATCTTGCCTTCCTGTATTGACAACGAAGCAGA
66 CTGGGCAGTAGTGGACTAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGA
* * *
32020652 TCGAAGATACCAGCCTTATCTCCTTGGGCAGTAGTGGAGTAGGTGA
131 TCAAAGACACCAGCCTTATCACCTTGGGCAGTAGTGGAGTAGGTGA
* * *
32020698 AAAATAGCAGATCTTGCCTTCCTATACTGACAGCGAGGCAGATCGAAGATACCAGCCTTGTCTCC
1 AAAATAGCAGATCTTGCCATCCTATACTGACAGCGAAGCAGATCGAAGATACCAACCTTGTCTCC
* * *
32020763 TTGGGCAGTAGTGGACTAGGTTGAAAAT-AGCAGATCTTGCCTTCTTGTACTGGCAACGAAGCAG
66 CTGGGCAGTAGTGGACTAGGTTGAAAATGA-CAGATCTTGCCTTCCTGTACTGACAACGAAGCAG
*
32020827 ATCAAAGACACCAGTCTTATCACCTTG
130 ATCAAAGACACCAGCCTTATCACCTTG
32020854 ACGTAGCAAT
Statistics
Matches: 140, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
175 1 0.01
176 139 0.99
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (176 bp):
AAAATAGCAGATCTTGCCATCCTATACTGACAGCGAAGCAGATCGAAGATACCAACCTTGTCTCC
CTGGGCAGTAGTGGACTAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGACAACGAAGCAGA
TCAAAGACACCAGCCTTATCACCTTGGGCAGTAGTGGAGTAGGTGA
Found at i:32021344 original size:267 final size:266
Alignment explanation
Indices: 32020869--32021696 Score: 1221
Period size: 267 Copynumber: 3.1 Consensus size: 266
32020859 GCAATGGAAT
* *
32020869 AGATTGAAGCCACAACGACGGATCTTATTTTCCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGA
1 AGATTGAAGCCACAACGGCGGATCTTATTTTTCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGA
* * *
32020934 TAGTGGGTCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAATGGATTGAAACTGTG
66 TAGTGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
* *
32020999 GGCAGCGAATCTTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGTGGATCTTAC
131 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTAC
*
32021064 TTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGTA
196 TT-CCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCA
32021129 ATTAAAA
260 ATTAAAA
* *
32021136 AGATTGAAGCCACAACGGCAGATCTTATTTTTCTGGCGTCGCAGCGGAGCAGATTGAAGCCGCGA
1 AGATTGAAGCCACAACGGCGGATCTTATTTTTCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGA
* * * *
32021201 TGGTGGATCTTATCTTCCTGGTATTAAGGCTTGGATTAGATGAAGTGGAGTGGATTGAAGCTGTG
66 TAGTGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
* *
32021266 GGCAGCGGATCCTATCTCTTTAGCATCACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTAC
131 GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTAC
* * *
32021331 TTCCGTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGACAGATCTGGTTTCCCCAACATTGCA
196 TTCC-TGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCA
32021396 ATTAAAA
260 ATTAAAA
* * **
32021403 AAATTGAAGCCACAACGGCGGATCTTA-TTTTCTTGGAGTCGCAGCGGAATAGATTGAAGCCACG
1 AGATTGAAGCCACAACGGCGGATCTTATTTTTC-TGGCGTCGCAGCGGAGCAGATTGAAGCCACG
*** * * * *
32021467 ATTA-CAAATCTTATCTCCCTGGCGTTAAGGCTTTGATTAGCTAAAGTGGAGTGGATTGCAGCTG
65 A-TAGTGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTG
*
32021531 TGGGTAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTT
129 TGGGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTT
* * * * *
32021596 ACTTTCCTGGTGGTGTAGTTGAACAGATTGAAG-TCACGACAGCGGATCTGGTTTCCCTGACATT
194 AC-TTCCTGGCGGTGTAGTGGAACAGATTGAAGCT-ACGACGGCAGATCTGGTTTCCCCGACATT
* *
32021660 GCGATTTAAA
257 GCAATTAAAA
**
32021670 AGATTGAAGCCACAATAGCGGATCTTA
1 AGATTGAAGCCACAACGGCGGATCTTA
32021697 CATCCCTGGT
Statistics
Matches: 504, Mismatches: 52, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
266 8 0.02
267 491 0.97
268 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (266 bp):
AGATTGAAGCCACAACGGCGGATCTTATTTTTCTGGCGTCGCAGCGGAGCAGATTGAAGCCACGA
TAGTGGATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTG
GGCAGCGAATCCTATCTCTTTAGCATTACAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTAC
TTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAA
TTAAAA
Found at i:32021724 original size:50 final size:50
Alignment explanation
Indices: 32021564--32021801 Score: 154
Period size: 50 Copynumber: 4.8 Consensus size: 50
32021554 AGCATTACAG
* * * *
32021564 TGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTGGTGTAG
1 TGGAAAAGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGTAGTGTAA
* * * * *** ** * **
32021614 TTGAACAGATTGAAGTCACGACAGCGGATCTGGTTTCCCTGACATTGCGA
1 TGGAAAAGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGTAGTGTAA
** * *
32021664 TTTAAAAGATTGAAGCCACAATAGCGGATCTTACATCCCTGGTAGTGTAA
1 TGGAAAAGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGTAGTGTAA
* * * * ** ** * *
32021714 TGGAACAGATTGAAGCTACGACAGTGGATC-TGGTTCCCCCGTCATTGCAA
1 TGGAAAAGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGT-AGTGTAA
** **
32021764 TTAAAAAGATTGAAGCCACAATGGCGGATCTTACTTCC
1 TGGAAAAGATTGAAGCCACAACAGCGGATCTTACTTCC
32021802 TTAGCGGTGC
Statistics
Matches: 132, Mismatches: 54, Indels: 3
0.70 0.29 0.02
Matches are distributed among these distances:
49 7 0.05
50 120 0.91
51 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (50 bp):
TGGAAAAGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGTAGTGTAA
Found at i:32021743 original size:100 final size:100
Alignment explanation
Indices: 32021567--32021797 Score: 329
Period size: 100 Copynumber: 2.3 Consensus size: 100
32021557 ATTACAGTGG
* * * * * *
32021567 AAAAGATTGAAGCCACAACGGCGGATCTTACTTTCCTGGTGGTGTAGTTGAACAGATTGAAGTCA
1 AAAAGATTGAAGCCACAATGGCGGATCTTACATCCCTGGTAGTGTAATGGAACAGATTGAAGTCA
* * * *
32021632 CGACAGCGGATCTGGTTTCCCTGACATTGCGATTT
66 CGACAGCGGATCTGGTTCCCCCGACATTGCAATTA
*
32021667 AAAAGATTGAAGCCACAATAGCGGATCTTACATCCCTGGTAGTGTAATGGAACAGATTGAAG-CT
1 AAAAGATTGAAGCCACAATGGCGGATCTTACATCCCTGGTAGTGTAATGGAACAGATTGAAGTC-
* *
32021731 ACGACAGTGGATCTGGTTCCCCCGTCATTGCAATTA
65 ACGACAGCGGATCTGGTTCCCCCGACATTGCAATTA
32021767 AAAAGATTGAAGCCACAATGGCGGATCTTAC
1 AAAAGATTGAAGCCACAATGGCGGATCTTAC
32021798 TTCCTTAGCG
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
99 1 0.01
100 115 0.99
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAATGGCGGATCTTACATCCCTGGTAGTGTAATGGAACAGATTGAAGTCA
CGACAGCGGATCTGGTTCCCCCGACATTGCAATTA
Found at i:32023053 original size:3 final size:3
Alignment explanation
Indices: 32023047--32023108 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
32023037 GTTATCTTTG
*
32023047 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA -TA TTAA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
*
32023092 TTT TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
32023109 CTAATACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:32030567 original size:79 final size:81
Alignment explanation
Indices: 32030443--32030626 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
32030433 GCTACTCGTT
* *
32030443 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTC-GGATCTTAACCCG
* * *
32030506 GATTTAGTAAC-TCGCG
65 GATATAGTAACTTAGCA
* * **
32030522 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGTACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC-AATGCCTTCGGATCTTAACCCG
* *
32030585 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
32030602 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32030627 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 23 0.26
79 48 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:32030626 original size:40 final size:40
Alignment explanation
Indices: 32030424--32030626 Score: 211
Period size: 39 Copynumber: 5.1 Consensus size: 40
32030414 CGGAATTTAA
** *
32030424 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32030464 CCGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32030503 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
32030542 CCGGA-ATTAGTATCTCGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
32030582 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32030622 CCGGA
1 CCGGA
32030627 CATCATTCAA
Statistics
Matches: 135, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 65 0.48
40 57 0.42
41 11 0.08
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32038436 original size:79 final size:82
Alignment explanation
Indices: 32038318--32038502 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
32038308 GCTACTCGTT
* * *
32038318 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
32038381 GGATTTAGTAAC-TCGCG
65 GGATATAGTAACTTAGCA
* **
32038398 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
32038461 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
32038478 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32038503 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:32038502 original size:40 final size:40
Alignment explanation
Indices: 32038299--32038502 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
32038289 TGGAATTTAA
** *
32038299 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
32038339 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32038379 CCGGATTTAGTAACTCGCGCAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
32038418 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
32038458 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
32038498 CCGGA
1 CCGGA
32038503 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 91 0.66
41 12 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:32041658 original size:12 final size:12
Alignment explanation
Indices: 32041643--32041674 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
32041633 AAAATTTACC
32041643 TTTATTTTTAAT
1 TTTATTTTTAAT
32041655 TTTATTTTTAAT
1 TTTATTTTTAAT
*
32041667 TATATTTT
1 TTTATTTT
32041675 ATTTTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTATTTTTAAT
Found at i:32046428 original size:16 final size:16
Alignment explanation
Indices: 32046409--32046439 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32046399 TATATTATTA
*
32046409 TTGTGTTTATTTTCTT
1 TTGTGATTATTTTCTT
32046425 TTGTGATTATTTTCT
1 TTGTGATTATTTTCT
32046440 GCAAGGCATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.13, T:0.71
Consensus pattern (16 bp):
TTGTGATTATTTTCTT
Found at i:32055122 original size:26 final size:26
Alignment explanation
Indices: 32055092--32055159 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
32055082 ATTCCGACCT
32055092 ACAGCTCGTGTGAGCAGACCCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
32055118 ACAGCTCGTGTGAGCAGGCCCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
32055144 ACATCTCGTGTGAGCA
1 ACAGCTCGTGTGAGCA
32055160 TACTCTTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAGACCCATTTC
Found at i:32055169 original size:26 final size:26
Alignment explanation
Indices: 32055096--32055178 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 26
32055086 CGACCTACAG
*
32055096 CTCGTGTGAGCAGACCCATTTCACAG
1 CTCGTGTGAGCAGACCCATTTCACAA
* *
32055122 CTCGTGTGAGCAGGCCCATTTCACAT
1 CTCGTGTGAGCAGACCCATTTCACAA
* * * *
32055148 CTCGTGTGAGCATACTCTTTTCGCAA
1 CTCGTGTGAGCAGACCCATTTCACAA
32055174 CTCGT
1 CTCGT
32055179 ATGAATATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (26 bp):
CTCGTGTGAGCAGACCCATTTCACAA
Found at i:32067771 original size:25 final size:25
Alignment explanation
Indices: 32067743--32067813 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
32067733 AGGCTTCCCT
*
32067743 GATGACTCGCCCCAAAGGCTTTACA
1 GATGACTCGCCACAAAGGCTTTACA
*
32067768 GATGACTCACCACAAAGGCTTTACA
1 GATGACTCGCCACAAAGGCTTTACA
* *
32067793 GATGACTTGCCACAAGGGCTT
1 GATGACTCGCCACAAAGGCTT
32067814 CCCAAATGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (25 bp):
GATGACTCGCCACAAAGGCTTTACA
Found at i:32067868 original size:40 final size:40
Alignment explanation
Indices: 32067792--32067869 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
32067782 AAGGCTTTAC
* *
32067792 AGATGACTTGCCACAAGGGCTTCCCAAATGATTCACCACT
1 AGATGACTTGCCACAAAGGCTTCCCAAATGACTCACCACT
* * * * *
32067832 AGATGTCTTGCCATAAAGGCTTTCTATATGACTCACCA
1 AGATGACTTGCCACAAAGGCTTCCCAAATGACTCACCA
32067870 TAAAGGCTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (40 bp):
AGATGACTTGCCACAAAGGCTTCCCAAATGACTCACCACT
Found at i:32067920 original size:25 final size:25
Alignment explanation
Indices: 32067830--32067923 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
32067820 TGATTCACCA
* *
32067830 CTAGATGTCTTGCCATAAAGGCTTT
1 CTAGATGACTTGCCACAAAGGCTTT
* ** *
32067855 CTATATGACTCACCATAAAGGCTTT
1 CTAGATGACTTGCCACAAAGGCTTT
* *
32067880 ATAGATGACTCT-CCACAAAGGCTTC
1 CTAGATGACT-TGCCACAAAGGCTTT
*
32067905 CTAGATGTCTTGCCACAAA
1 CTAGATGACTTGCCACAAA
32067924 ATCTTCCCAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 55 0.98
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (25 bp):
CTAGATGACTTGCCACAAAGGCTTT
Found at i:32068998 original size:15 final size:17
Alignment explanation
Indices: 32068968--32069003 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
32068958 TTTGAAAAAT
32068968 AAATTTTTCATTTTTA-
1 AAATTTTTCATTTTTAG
32068984 AAATTTTTCA-TTTTAG
1 AAATTTTTCATTTTTAG
32069000 AAAT
1 AAAT
32069004 AATATATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
AAATTTTTCATTTTTAG
Found at i:32069030 original size:33 final size:32
Alignment explanation
Indices: 32068987--32069104 Score: 116
Period size: 33 Copynumber: 3.6 Consensus size: 32
32068977 ATTTTTAAAA
*
32068987 TTTTTCATTTTAGAAATAATATATATCTAATAC
1 TTTTTAATTTTAGAAATAATATATAT-TAATAC
* * *
32069020 TTTTTAATTTTA-AAA-AATAAAGTTTTAAATAAT
1 TTTTTAATTTTAGAAATAATATA-TATT-AAT-AC
*
32069053 TTTTTCATTTTTAGAAATAATATATA-TAATAC
1 TTTTT-AATTTTAGAAATAATATATATTAATAC
*
32069085 TTTTTAATTTTAAAAATAAT
1 TTTTTAATTTTAGAAATAAT
32069105 GTTTTAAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
31 19 0.28
32 14 0.20
33 20 0.29
34 7 0.10
35 4 0.06
36 5 0.07
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTTTAATTTTAGAAATAATATATATTAATAC
Found at i:32069084 original size:65 final size:64
Alignment explanation
Indices: 32068987--32069112 Score: 209
Period size: 67 Copynumber: 1.9 Consensus size: 64
32068977 ATTTTTAAAA
32068987 TTTTTCATTTTAGAAATAATATATATCTAATACTTTTTAATTTTAAAAAATAAAGTTTTAAATAA
1 TTTTTCATTTTAGAAATAATATATA-CTAATACTTTTTAATTTT-AAAAATAAAGTTTTAAATAA
32069052 T
64 T
*
32069053 TTTTTCATTTTTAGAAATAATATATA-TAATACTTTTTAATTTTAAAAATAATGTTTTAAA
1 TTTTTCA-TTTTAGAAATAATATATACTAATACTTTTTAATTTTAAAAATAAAGTTTTAAA
32069113 ACTTGTAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
64 16 0.28
65 17 0.29
66 7 0.12
67 18 0.31
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (64 bp):
TTTTTCATTTTAGAAATAATATATACTAATACTTTTTAATTTTAAAAATAAAGTTTTAAATAAT
Found at i:32070180 original size:15 final size:15
Alignment explanation
Indices: 32070158--32070195 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32070148 AAATACTAAT
*
32070158 AATAATAACAATAA-
1 AATAATAAAAATAAC
32070172 AAGTAATAAAAATAAC
1 AA-TAATAAAAATAAC
32070188 AATAATAA
1 AATAATAA
32070196 TACTAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (15 bp):
AATAATAAAAATAAC
Found at i:32079140 original size:20 final size:20
Alignment explanation
Indices: 32079117--32079158 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
32079107 ATAAATTGGA
32079117 ATTAAAAATGATTAATTTGC
1 ATTAAAAATGATTAATTTGC
*
32079137 ATTAAAAATGGTTAATTTGC
1 ATTAAAAATGATTAATTTGC
32079157 AT
1 AT
32079159 GTTTTGTGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
ATTAAAAATGATTAATTTGC
Found at i:32081533 original size:109 final size:109
Alignment explanation
Indices: 32081350--32081645 Score: 404
Period size: 109 Copynumber: 2.8 Consensus size: 109
32081340 ATATTCAGCA
* * * *
32081350 TTTGGAAATAT-GAGAAAACGTACCCTAATGTGCTGGGTTTTGATTTTTCTCGTTCTACCAAATA
1 TTTGGAAAT-TCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATA
* * * *
32081414 ACTAAGTATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTACG
65 GCCAAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTCTACG
* *
32081459 TTTGGTAATTCGAGGAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
** *
32081524 CCAAATATCCTTCCAAAAATTTCAAAATAAGGCAATGTTCTGCG
66 CCAAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTCTACG
* *
32081568 TTTGGAAATTCGAGG-AACGTGCCCTAATGTGCT-GGTTTCGA--TTTCTCGTTTAACTAAATAG
1 TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
*
32081629 CCAAATATCCTCTTAAA
66 CCAAATATCCTTTTAAA
32081646 TTTTAATCCA
Statistics
Matches: 166, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
105 32 0.19
107 8 0.05
108 18 0.11
109 108 0.65
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTGGAAATTCGAGGAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCAACCAAATAG
CCAAATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTCTACG
Found at i:32082962 original size:29 final size:30
Alignment explanation
Indices: 32082909--32082969 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
32082899 CGCTAAGCAA
32082909 GTTTCATAAACATGTATCATCCATTT-CAT
1 GTTTCATAAACATGTATCATCCATTTCCAT
*
32082938 GTTTCAGTAATCATGTAAT-AT-CATTTCCAT
1 GTTTCA-TAAACATGT-ATCATCCATTTCCAT
32082968 GT
1 GT
32082970 ACTTCATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 11 0.39
30 15 0.54
31 2 0.07
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (30 bp):
GTTTCATAAACATGTATCATCCATTTCCAT
Found at i:32083250 original size:49 final size:48
Alignment explanation
Indices: 32083122--32083263 Score: 185
Period size: 49 Copynumber: 2.9 Consensus size: 48
32083112 GTACATGCAT
* * *
32083122 GCTCATACGAGCTATGAATCGGTATGCTCTCACGAGCTGTAAATCGGTAA
1 GCTCATACGAGCTA-GAATCAGTATGCTCTCACGAGCTG-CAATCAGTAA
* * *
32083172 GCTCATACAAGGTTAGAATTAGTATGCTCTCACGAGCTGCAATCAGTAA
1 GCTCATACGA-GCTAGAATCAGTATGCTCTCACGAGCTGCAATCAGTAA
*
32083221 GCTCATACGAGCTGAGAATCAGTAAGCTCTCACGAGCTGCAAT
1 GCTCATACGAGCT-AGAATCAGTATGCTCTCACGAGCTGCAAT
32083264 TGGTAATCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 2 0.03
49 44 0.55
50 31 0.39
51 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (48 bp):
GCTCATACGAGCTAGAATCAGTATGCTCTCACGAGCTGCAATCAGTAA
Found at i:32083259 original size:25 final size:25
Alignment explanation
Indices: 32083128--32083259 Score: 112
Period size: 25 Copynumber: 5.3 Consensus size: 25
32083118 GCATGCTCAT
* *
32083128 ACGAGCT-ATGAATCGGTATGCTCTC
1 ACGAGCTGA-GAATCAGTAAGCTCTC
*
32083153 ACGAGCTGTA-AATCGGTAAGCTCAT-
1 ACGAGCTG-AGAATCAGTAAGCTC-TC
* * * * *
32083178 ACAAGGTTAGAATTAGTATGCTCTC
1 ACGAGCTGAGAATCAGTAAGCTCTC
*
32083203 ACGAGCTG-CAATCAGTAAGCTCAT-
1 ACGAGCTGAGAATCAGTAAGCTC-TC
32083227 ACGAGCTGAGAATCAGTAAGCTCTC
1 ACGAGCTGAGAATCAGTAAGCTCTC
32083252 ACGAGCTG
1 ACGAGCTG
32083260 CAATTGGTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
24 22 0.26
25 61 0.72
26 1 0.01
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (25 bp):
ACGAGCTGAGAATCAGTAAGCTCTC
Found at i:32086980 original size:31 final size:31
Alignment explanation
Indices: 32086945--32087041 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
32086935 GCGAGTAATA
* * *
32086945 GTGGTGGAATGTGTTATATGTGGAAGCATTT
1 GTGGTGAAATATGTTATATGTGGAAGCCTTT
*** * * *
32086976 GTGGTTGTTCTTTGTTTTATGT--AAGCCTTA
1 GTGG-TGAAATATGTTATATGTGGAAGCCTTT
32087006 GTGGTGAAATATGTTATATGTGGAAGCCTTT
1 GTGGTGAAATATGTTATATGTGGAAGCCTTT
32087037 GTGGT
1 GTGGT
32087042 TATTCCCTAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
29 12 0.24
30 10 0.20
31 16 0.32
32 12 0.24
ACGTcount: A:0.20, C:0.06, G:0.31, T:0.43
Consensus pattern (31 bp):
GTGGTGAAATATGTTATATGTGGAAGCCTTT
Found at i:32087168 original size:30 final size:30
Alignment explanation
Indices: 32087127--32087202 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
32087117 TATCTAGACC
* * *
32087127 CCTTTGGGGCTATCTAATGATGTGTGGATG
1 CCTTTGTGGCTATCTAATGATGTATGGATA
* *
32087157 CTTTTGTGGCTATCTAATGGTGTATGGATA
1 CCTTTGTGGCTATCTAATGATGTATGGATA
*
32087187 CCTCTGTGGCTATCTA
1 CCTTTGTGGCTATCTA
32087203 TGTAAAGTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.39
Consensus pattern (30 bp):
CCTTTGTGGCTATCTAATGATGTATGGATA
Found at i:32090962 original size:60 final size:61
Alignment explanation
Indices: 32090871--32091017 Score: 210
Period size: 61 Copynumber: 2.5 Consensus size: 61
32090861 GCTAAATCTA
* * *
32090871 TTATATAT-G-AGCCATTGTGGTTGTTCTCTGTTTCATGTGAGCC-TAGTAGCAAAATGTG
1 TTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAAAATATG
* * *
32090929 TTATATATGGAAGCCTTTGTGGTTGTTTTCTGTTTCATGCGAGCCTTAGTGGCAGAATATG
1 TTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAAAATATG
*
32090990 TTATATATGGAAGCCTTTGTGGCTGTTC
1 TTATATATGGAAGCCTTTGTGGTTGTTC
32091018 CCTATTACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 8 0.10
59 1 0.01
60 31 0.40
61 38 0.49
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (61 bp):
TTATATATGGAAGCCTTTGTGGTTGTTCTCTGTTTCATGCGAGCCTTAGTAGCAAAATATG
Found at i:32091955 original size:26 final size:26
Alignment explanation
Indices: 32091896--32091955 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
32091886 TTTTCTTTTC
** *
32091896 TTTTTCTTTTCATTTTTAGTTTAGGT
1 TTTTTCTTTTCATTTTTAGAGTAGAT
*
32091922 TTTCTCTTTT-ATTTTTAGAGTAGAT
1 TTTTTCTTTTCATTTTTAGAGTAGAT
32091947 TTTATTCTT
1 TTT-TTCTT
32091956 GTAGTTTTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (26 bp):
TTTTTCTTTTCATTTTTAGAGTAGAT
Found at i:32093618 original size:19 final size:19
Alignment explanation
Indices: 32093594--32093631 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32093584 TTATCATACT
32093594 TTTATTTTTAAGAATTTAA
1 TTTATTTTTAAGAATTTAA
32093613 TTTATTTTTAAGAATTTAA
1 TTTATTTTTAAGAATTTAA
32093632 CTCCTCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTATTTTTAAGAATTTAA
Done.