Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 225 of 235
Found at i:75972493 original size:17 final size:18
Alignment explanation
Indices: 75972463--75972496 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
75972453 CCAAGCTTAT
75972463 TATATTTAAATATATATA
1 TATATTTAAATATATATA
75972481 TATATTT-AATATATAT
1 TATATTTAAATATATAT
75972497 GGATTGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATATTTAAATATATATA
Found at i:75973838 original size:11 final size:11
Alignment explanation
Indices: 75973824--75973849 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
75973814 AAAAGTTCAT
75973824 AAAAATTTAAA
1 AAAAATTTAAA
75973835 AAAAATTTAAA
1 AAAAATTTAAA
75973846 AAAA
1 AAAA
75973850 CCCTATAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:75984649 original size:21 final size:21
Alignment explanation
Indices: 75984617--75984657 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
75984607 GAACATTTGG
75984617 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
75984638 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
75984658 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:75987437 original size:21 final size:21
Alignment explanation
Indices: 75987399--75987439 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75987389 AAATAATTTC
*
75987399 ATTTTATTCGACTTGACTCGA
1 ATTTTATTCGACTCGACTCGA
75987420 ATTTTATTTC-ACTCGACTCG
1 ATTTTA-TTCGACTCGACTCG
75987440 TTTTGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (21 bp):
ATTTTATTCGACTCGACTCGA
Found at i:75990893 original size:32 final size:32
Alignment explanation
Indices: 75990852--75991043 Score: 240
Period size: 32 Copynumber: 6.0 Consensus size: 32
75990842 TAGTTGAGGC
* *
75990852 CAATATGTTGATTTTGTTCATTCCGCTAAGGT
1 CAATATGTTGATTTTGTCCATTCCACTAAGGT
* * *
75990884 CAATATGTTGATTTTCTCCATTCCTCTAAGGC
1 CAATATGTTGATTTTGTCCATTCCACTAAGGT
* *
75990916 CAATATGTTGGTTTTGTCCATTCCATTAAGGT
1 CAATATGTTGATTTTGTCCATTCCACTAAGGT
* *
75990948 CAATATGTTGGTTTTGTCCATTCCACTGAGGT
1 CAATATGTTGATTTTGTCCATTCCACTAAGGT
* * * *
75990980 CAATATGTCGATTTTGTTCATTCCGCTAAGGC
1 CAATATGTTGATTTTGTCCATTCCACTAAGGT
* * *
75991012 CAACATGTTGGTTTTGTCCATTCCACTGAGGT
1 CAATATGTTGATTTTGTCCATTCCACTAAGGT
75991044 TAGAACAATT
Statistics
Matches: 136, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 136 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (32 bp):
CAATATGTTGATTTTGTCCATTCCACTAAGGT
Found at i:75991020 original size:96 final size:96
Alignment explanation
Indices: 75990852--75991036 Score: 289
Period size: 96 Copynumber: 1.9 Consensus size: 96
75990842 TAGTTGAGGC
* * * *
75990852 CAATATGTTGATTTTGTTCATTCCGCTAAGGTCAATATGTTGATTTTCTCCATTCCTCTAAGGCC
1 CAATATGTTGATTTTGTCCATTCCACTAAGGTCAATATGTCGATTTTCTCCATTCCGCTAAGGCC
*
75990917 AATATGTTGGTTTTGTCCATTCCATTAAGGT
66 AACATGTTGGTTTTGTCCATTCCATTAAGGT
* * * *
75990948 CAATATGTTGGTTTTGTCCATTCCACTGAGGTCAATATGTCGATTTTGTTCATTCCGCTAAGGCC
1 CAATATGTTGATTTTGTCCATTCCACTAAGGTCAATATGTCGATTTTCTCCATTCCGCTAAGGCC
75991013 AACATGTTGGTTTTGTCCATTCCA
66 AACATGTTGGTTTTGTCCATTCCA
75991037 CTGAGGTTAG
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (96 bp):
CAATATGTTGATTTTGTCCATTCCACTAAGGTCAATATGTCGATTTTCTCCATTCCGCTAAGGCC
AACATGTTGGTTTTGTCCATTCCATTAAGGT
Found at i:75991043 original size:64 final size:64
Alignment explanation
Indices: 75990846--75991042 Score: 286
Period size: 64 Copynumber: 3.1 Consensus size: 64
75990836 ATGAGTTAGT
* * *
75990846 TGAGGCCAATATGTTGATTTTGTTCATTCCGCTAAGGTCAATATGTTGATTTTCTCCATTCCTC
1 TGAGGCCAATATGTTGATTTTGTTCATTCCGCTAAGGTCAATATGTTGGTTTTGTCCATTCCAC
* * * **
75990910 TAAGGCCAATATGTTGGTTTTGTCCATTCCATTAAGGTCAATATGTTGGTTTTGTCCATTCCAC
1 TGAGGCCAATATGTTGATTTTGTTCATTCCGCTAAGGTCAATATGTTGGTTTTGTCCATTCCAC
* * * *
75990974 TGAGGTCAATATGTCGATTTTGTTCATTCCGCTAAGGCCAACATGTTGGTTTTGTCCATTCCAC
1 TGAGGCCAATATGTTGATTTTGTTCATTCCGCTAAGGTCAATATGTTGGTTTTGTCCATTCCAC
75991038 TGAGG
1 TGAGG
75991043 TTAGAACAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 116 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (64 bp):
TGAGGCCAATATGTTGATTTTGTTCATTCCGCTAAGGTCAATATGTTGGTTTTGTCCATTCCAC
Found at i:75999025 original size:50 final size:50
Alignment explanation
Indices: 75998961--75999091 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
75998951 ATGTCATATC
* ** * *
75998961 CCAA-ATATGATCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGT
1 CCAAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
** *
75999010 CCAAGATATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGT
1 CCAAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
* * *
75999060 CCCAGACATGGTCTTATATGGGACCTCTCATA
1 CCAAGATATGGTCTTACATGGGACCTCTCATA
75999092 ATCTTAATAA
Statistics
Matches: 67, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 4 0.06
50 63 0.94
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAAGATATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGT
Found at i:76000561 original size:39 final size:39
Alignment explanation
Indices: 76000507--76000586 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
76000497 AGGAAATTTG
76000507 GAGGGGGCTGGCAAGACCCCCCCTTAAAATTATAAAAAT
1 GAGGGGGCTGGCAAGACCCCCCCTTAAAATTATAAAAAT
76000546 GAGGGGGCTGGCAAGACCCCCCCTTAAAATTATAAAAAT
1 GAGGGGGCTGGCAAGACCCCCCCTTAAAATTATAAAAAT
76000585 GA
1 GA
76000587 TTATTTCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (39 bp):
GAGGGGGCTGGCAAGACCCCCCCTTAAAATTATAAAAAT
Found at i:76000992 original size:18 final size:20
Alignment explanation
Indices: 76000969--76001011 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
76000959 TGTTTTAAAG
76000969 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTTAT
*
76000987 TTTATAGTTATTTATTTTAT
1 TTTATAGTTATTAATTTTAT
76001007 TTTAT
1 TTTAT
76001012 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 1 0.05
20 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTATAGTTATTAATTTTAT
Found at i:76002071 original size:9 final size:8
Alignment explanation
Indices: 76002042--76002070 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
76002032 AATCGGCAGC
76002042 AAAAAAG-
1 AAAAAAGA
76002049 AAAAAAGA
1 AAAAAAGA
76002057 AAAAAAGA
1 AAAAAAGA
76002065 AAAAAA
1 AAAAAA
76002071 ATACATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:76002905 original size:3 final size:3
Alignment explanation
Indices: 76002897--76003020 Score: 77
Period size: 3 Copynumber: 42.3 Consensus size: 3
76002887 TTTATAATAC
* * *
76002897 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TAT TAG TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
76002944 TAGG TAT TAT TAT CA- TAT TAG T-T TA- TAT CTATT TATT TACT T-T
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TA-T TA-T TAT
76002987 TAT T-T TA- TAT TAT T-T TAT T-T TAT TAT GTAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
76003021 TTGTAATGCT
Statistics
Matches: 97, Mismatches: 11, Indels: 26
0.72 0.08 0.19
Matches are distributed among these distances:
2 16 0.16
3 65 0.67
4 15 0.15
5 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:76003022 original size:20 final size:21
Alignment explanation
Indices: 76002979--76003022 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
76002969 TATCTATTTA
*
76002979 TTTACTTTTATTTTATATTAT
1 TTTACTTTTATTATATATTAT
*
76003000 TTTA-TTTTATTATGTATTAT
1 TTTACTTTTATTATATATTAT
76003020 TTT
1 TTT
76003023 GTAATGCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTACTTTTATTATATATTAT
Found at i:76008832 original size:22 final size:22
Alignment explanation
Indices: 76008813--76008854 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
76008803 TTCAATTTAT
76008813 TTTA-TTATATATAAATATTTG
1 TTTATTTATATATAAATATTTG
* *
76008834 TTTATTTATATTTATATATTT
1 TTTATTTATATATAAATATTT
76008855 TTGTTCGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATTTATATATAAATATTTG
Found at i:76009097 original size:49 final size:49
Alignment explanation
Indices: 76009040--76009134 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
76009030 ATTTTCCTAG
76009040 GATTTTAATCAATACATATATACCAAACGTTGTAAAATAACTTTCTTGA
1 GATTTTAATCAATACATATATACCAAACGTTGTAAAATAACTTTCTTGA
* * *
76009089 GATTTTAATCAATACATATATATCTAACGTTGTAAAGTAACTTTCT
1 GATTTTAATCAATACATATATACCAAACGTTGTAAAATAACTTTCT
76009135 CGATAATCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (49 bp):
GATTTTAATCAATACATATATACCAAACGTTGTAAAATAACTTTCTTGA
Found at i:76012608 original size:37 final size:37
Alignment explanation
Indices: 76012566--76012640 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
76012556 AAAAGTTGAA
76012566 AATAAAAATTCACATTAAAAATTGAAAATAAAAATTT
1 AATAAAAATTCACATTAAAAATTGAAAATAAAAATTT
76012603 AATAAAAATTCACATTAAAAATTGAAAATAAAAATTT
1 AATAAAAATTCACATTAAAAATTGAAAATAAAAATTT
76012640 A
1 A
76012641 GTCCCTTTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (37 bp):
AATAAAAATTCACATTAAAAATTGAAAATAAAAATTT
Found at i:76012634 original size:13 final size:13
Alignment explanation
Indices: 76012554--76012638 Score: 84
Period size: 13 Copynumber: 6.6 Consensus size: 13
76012544 TCAAAAGACT
76012554 TAAAAAGTTGAAAA
1 TAAAAA-TTGAAAA
* * *
76012568 TAAAAATTCACAT
1 TAAAAATTGAAAA
76012581 TAAAAATTGAAAA
1 TAAAAATTGAAAA
*
76012594 TAAAAATT--TAA
1 TAAAAATTGAAAA
* * *
76012605 TAAAAATTCACAT
1 TAAAAATTGAAAA
76012618 TAAAAATTGAAAA
1 TAAAAATTGAAAA
76012631 TAAAAATT
1 TAAAAATT
76012639 TAGTCCCTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
11 10 0.18
13 41 0.72
14 6 0.11
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (13 bp):
TAAAAATTGAAAA
Found at i:76012801 original size:22 final size:22
Alignment explanation
Indices: 76012773--76012847 Score: 150
Period size: 22 Copynumber: 3.4 Consensus size: 22
76012763 TAATTTGAAC
76012773 AATTATGGGTTATGCATATATT
1 AATTATGGGTTATGCATATATT
76012795 AATTATGGGTTATGCATATATT
1 AATTATGGGTTATGCATATATT
76012817 AATTATGGGTTATGCATATATT
1 AATTATGGGTTATGCATATATT
76012839 AATTATGGG
1 AATTATGGG
76012848 GAGTTTGGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (22 bp):
AATTATGGGTTATGCATATATT
Found at i:76013124 original size:9 final size:9
Alignment explanation
Indices: 76013110--76013140 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
76013100 GTTAAAGGAA
76013110 TCGAGTTAT
1 TCGAGTTAT
*
76013119 TCGAGTTAA
1 TCGAGTTAT
76013128 TCGAGTTAT
1 TCGAGTTAT
76013137 TCGA
1 TCGA
76013141 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:76013282 original size:21 final size:21
Alignment explanation
Indices: 76013256--76013300 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
76013246 ACCCTAAACT
* *
76013256 CTCAAACATTTTTACT-TTTCC
1 CTCAAA-ACTTTTACTCCTTCC
76013277 CTCAAAACTTTTACTCCTTCC
1 CTCAAAACTTTTACTCCTTCC
76013298 CTC
1 CTC
76013301 TTTCTCCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTACTCCTTCC
Found at i:76013332 original size:32 final size:30
Alignment explanation
Indices: 76013270--76013332 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 30
76013260 AACATTTTTA
*
76013270 CTTTTCCCTCAAAACTTTTACTCCTTCCCT
1 CTTTTCCCTCAAAACTTTTACTCCTCCCCT
76013300 CTTTCTCCC-CAAAACTTTTACCCTCCTCCCCT
1 CTTT-TCCCTCAAAACTTTTA--CTCCTCCCCT
76013332 C
1 C
76013333 CCAACCCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 15 0.52
31 4 0.14
32 10 0.34
ACGTcount: A:0.16, C:0.46, G:0.00, T:0.38
Consensus pattern (30 bp):
CTTTTCCCTCAAAACTTTTACTCCTCCCCT
Found at i:76013506 original size:7 final size:7
Alignment explanation
Indices: 76013494--76013526 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
76013484 TCTCTTCCTA
76013494 TCCCACC
1 TCCCACC
76013501 TCCCACC
1 TCCCACC
76013508 TCCCACC
1 TCCCACC
76013515 TCCCACC
1 TCCCACC
76013522 TCCCA
1 TCCCA
76013527 TCTAGGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15
Consensus pattern (7 bp):
TCCCACC
Found at i:76013731 original size:9 final size:9
Alignment explanation
Indices: 76013717--76013748 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
76013707 TTTGGTTAAA
76013717 AATTACCTG
1 AATTACCTG
76013726 AATTACCTG
1 AATTACCTG
*
76013735 AATTACCCG
1 AATTACCTG
76013744 AATTA
1 AATTA
76013749 ATCGAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTACCTG
Found at i:76013754 original size:9 final size:9
Alignment explanation
Indices: 76013725--76013775 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
76013715 AAAATTACCT
76013725 GAATT-ACC
1 GAATTAACC
*
76013733 TGAATTACCC
1 -GAATTAACC
*
76013743 GAATTAATC
1 GAATTAACC
76013752 GAATTAACC
1 GAATTAACC
76013761 GAATTAACC
1 GAATTAACC
76013770 GAATTA
1 GAATTA
76013776 CTGAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
9 35 0.95
10 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (9 bp):
GAATTAACC
Found at i:76013755 original size:18 final size:18
Alignment explanation
Indices: 76013717--76013776 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
76013707 TTTGGTTAAA
*
76013717 AATTACCTGAATT-ACCTG
1 AATTACCCGAATTAACC-G
*
76013735 AATTACCCGAATTAATCG
1 AATTACCCGAATTAACCG
*
76013753 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
76013771 AATTAC
1 AATTAC
76013777 TGAAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 34 0.94
19 2 0.06
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:76013755 original size:27 final size:26
Alignment explanation
Indices: 76013724--76013802 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
76013714 AAAAATTACC
76013724 TGAATTACCTGAATTACCCGAATTAA
1 TGAATTACCTGAATTACCCGAATTAA
* *
76013750 TCGAATTAACC-GAATTAACCGAATTAC
1 T-GAATT-ACCTGAATTACCCGAATTAA
* *
76013777 TGAAAAATATCTGAATTACCCGAATT
1 TG--AATTACCTGAATTACCCGAATT
76013803 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
26 2 0.05
27 22 0.51
28 19 0.44
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (26 bp):
TGAATTACCTGAATTACCCGAATTAA
Found at i:76014129 original size:30 final size:30
Alignment explanation
Indices: 76014093--76014164 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
76014083 CCTAAAAAAT
*
76014093 TCGGTTAACCGACCGATTAACTGAATTCGG
1 TCGGTTAACCGACCGATTAACCGAATTCGG
76014123 TCGGTTAACCGACCGATTAACCGAATTCGG
1 TCGGTTAACCGACCGATTAACCGAATTCGG
76014153 TCGGTTAACCGA
1 TCGGTTAACCGA
76014165 ACTTTTTCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (30 bp):
TCGGTTAACCGACCGATTAACCGAATTCGG
Found at i:76014646 original size:118 final size:118
Alignment explanation
Indices: 76014438--76014806 Score: 738
Period size: 118 Copynumber: 3.1 Consensus size: 118
76014428 TATTAAATTA
76014438 AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
1 AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
76014503 TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
66 TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
76014556 AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
1 AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
76014621 TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
66 TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
76014674 AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
1 AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
76014739 TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
66 TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
76014792 AATTTCACATTTTAT
1 AATTTCACATTTTAT
76014807 TTTTAAAATA
Statistics
Matches: 251, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 251 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (118 bp):
AATTTCACATTTTATATTATTTATACTATTGAATTGTTTAGTCATATTGAATATTTATATTAAAT
TGAATCATTAATTATGCCATAAAATATTTGTGTTAAAATTTTATATTTGTATC
Found at i:76015589 original size:10 final size:10
Alignment explanation
Indices: 76015554--76015613 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
76015544 ACTTTTATTA
76015554 AATTTTTTA-
1 AATTTTTTAG
* *
76015563 ACTTTCTTTAT
1 AATTT-TTTAG
76015574 ATATTTTTTAG
1 A-ATTTTTTAG
*
76015585 AATTTTTTTG
1 AATTTTTTAG
* *
76015595 AAATTTTTAT
1 AATTTTTTAG
76015605 AATTTTTTA
1 AATTTTTTA
76015614 AATATATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
9 4 0.10
10 27 0.68
11 6 0.15
12 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (10 bp):
AATTTTTTAG
Found at i:76029351 original size:15 final size:15
Alignment explanation
Indices: 76029322--76029350 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
76029312 AGGGGTATAG
76029322 TAAACTATTAAAAAA
1 TAAACTATTAAAAAA
76029337 TAAA-TATTAAAAAA
1 TAAACTATTAAAAAA
76029351 AAAGACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAACTATTAAAAAA
Found at i:76045725 original size:26 final size:25
Alignment explanation
Indices: 76045696--76045761 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
76045686 ACGTTATAAG
76045696 AAATAAATAATAAAATAATAAAAATA
1 AAATAAATAAT-AAATAATAAAAATA
* **
76045722 AAATGTAATAATAAATTTTAAAAATA
1 AAAT-AAATAATAAATAATAAAAATA
*
76045748 ACAT-AATAA-AAATA
1 AAATAAATAATAAATA
76045762 TTTATTATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 4 0.12
24 5 0.15
26 19 0.56
27 6 0.18
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATAAATAATAAATAATAAAAATA
Found at i:76047769 original size:125 final size:126
Alignment explanation
Indices: 76047546--76047828 Score: 442
Period size: 125 Copynumber: 2.3 Consensus size: 126
76047536 TAATTTAAAG
* * *
76047546 AAGCTCCTACGTGGACGCGCTTTTGCTACAGTGGCTCCTGAGAAAATAATGTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAGAAAAAAATGTCGAGTAGACGTTT
* *
76047611 CTGAGTAAACAGTATCAGAAATGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTAAAAA
66 CTGAGTAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTAAAAA
** * *
76047672 AAGCTTTCACGTGGACACGCTTTTGCTACAGTAGCTCCTGA-AAAAAAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAGAAAAAAATGTCGAGTAGACGTTT
* * * *
76047736 CTGAGTAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTATTGAAAG
66 CTGAGTAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTAAAAA
76047797 AAGCTCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGT
76047829 GGCGCATGGC
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 105 0.74
126 36 0.26
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAGAAAAAAATGTCGAGTAGACGTTT
CTGAGTAAACAGTATCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTAAAAA
Found at i:76049556 original size:206 final size:206
Alignment explanation
Indices: 76049236--76049649 Score: 828
Period size: 206 Copynumber: 2.0 Consensus size: 206
76049226 AGGCAGATCC
76049236 CAAGACTTCAGTGCCGGTGTTAATTGCCAATATTCGTAGCCAAATGGGGTACATGCCCTCTTACC
1 CAAGACTTCAGTGCCGGTGTTAATTGCCAATATTCGTAGCCAAATGGGGTACATGCCCTCTTACC
76049301 GCAAGGCTTGGATAGCTTAGCAGAAGACGTTAGAGAAGATGTATAGTGAGTGGGACACTTCATAT
66 GCAAGGCTTGGATAGCTTAGCAGAAGACGTTAGAGAAGATGTATAGTGAGTGGGACACTTCATAT
76049366 AATGAAATATGACAGTGGTGTCAAGTGCTAGAGAGATACGTCCTAGCTTGCATAACGGACCTTCA
131 AATGAAATATGACAGTGGTGTCAAGTGCTAGAGAGATACGTCCTAGCTTGCATAACGGACCTTCA
76049431 AACCGAATATG
196 AACCGAATATG
76049442 CAAGACTTCAGTGCCGGTGTTAATTGCCAATATTCGTAGCCAAATGGGGTACATGCCCTCTTACC
1 CAAGACTTCAGTGCCGGTGTTAATTGCCAATATTCGTAGCCAAATGGGGTACATGCCCTCTTACC
76049507 GCAAGGCTTGGATAGCTTAGCAGAAGACGTTAGAGAAGATGTATAGTGAGTGGGACACTTCATAT
66 GCAAGGCTTGGATAGCTTAGCAGAAGACGTTAGAGAAGATGTATAGTGAGTGGGACACTTCATAT
76049572 AATGAAATATGACAGTGGTGTCAAGTGCTAGAGAGATACGTCCTAGCTTGCATAACGGACCTTCA
131 AATGAAATATGACAGTGGTGTCAAGTGCTAGAGAGATACGTCCTAGCTTGCATAACGGACCTTCA
76049637 AACCGAATATG
196 AACCGAATATG
76049648 CA
1 CA
76049650 TACTACAACG
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 208 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (206 bp):
CAAGACTTCAGTGCCGGTGTTAATTGCCAATATTCGTAGCCAAATGGGGTACATGCCCTCTTACC
GCAAGGCTTGGATAGCTTAGCAGAAGACGTTAGAGAAGATGTATAGTGAGTGGGACACTTCATAT
AATGAAATATGACAGTGGTGTCAAGTGCTAGAGAGATACGTCCTAGCTTGCATAACGGACCTTCA
AACCGAATATG
Found at i:76051609 original size:18 final size:18
Alignment explanation
Indices: 76051583--76051622 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
76051573 GACTAGAAAA
* *
76051583 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
76051601 AGGACACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
76051619 AGGA
1 AGGA
76051623 TACGCACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.30, T:0.15
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:76053415 original size:19 final size:19
Alignment explanation
Indices: 76053393--76053442 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
76053383 AATTTTTACG
76053393 ATTTAAAAAAATTTAAAAA
1 ATTTAAAAAAATTTAAAAA
*** *
76053412 ATTTAAAATTTTTTAAATA
1 ATTTAAAAAAATTTAAAAA
76053431 A-TTAAAAAAATT
1 ATTTAAAAAAATT
76053443 AAAGCTCTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTAAAAAAATTTAAAAA
Found at i:76053453 original size:28 final size:27
Alignment explanation
Indices: 76053405--76053458 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
76053395 TTAAAAAAAT
* *
76053405 TTAAAAAATTTAAAATTTTTTAAATAA
1 TTAAAAAAATTAAAATCTTTTAAATAA
*
76053432 TTAAAAAAATTAAAGCTCTTTTAAATA
1 TTAAAAAAATTAAA-ATCTTTTAAATA
76053459 TGGATTTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (27 bp):
TTAAAAAAATTAAAATCTTTTAAATAA
Found at i:76074943 original size:40 final size:39
Alignment explanation
Indices: 76074866--76074971 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 39
76074856 TTTAGCACTT
* *
76074866 TTAGCGGCGTTTGGAACAAAAACGCTGCTAAAGAGTGAGCA
1 TTAGCGGCGTTT--AACAAAAACGCCGCTAAAGAGTGAACA
* *
76074907 TTAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAACA
1 TTAGCGGCGTTTAA-CAAAAACGCCGCTAAAGAGTGAACA
* *
76074947 TTAGCAGCGTTT-ATAAAAACGCCGC
1 TTAGCGGCGTTTAACAAAAACGCCGC
76074972 AAATAATACA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
38 10 0.18
39 3 0.05
40 32 0.56
41 12 0.21
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (39 bp):
TTAGCGGCGTTTAACAAAAACGCCGCTAAAGAGTGAACA
Found at i:76075108 original size:114 final size:109
Alignment explanation
Indices: 76074924--76075159 Score: 382
Period size: 114 Copynumber: 2.1 Consensus size: 109
76074914 CGTTTAAGGA
76074924 AAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAACGCCGCAAATAATACACCCAGAC
1 AAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAACGCCGCAAATAATACACCCAGAC
*
76074989 AGTGCCGTTTTGTGGCTTTTGGGGGGGGGGAATTAGTGGCGTTTTTTGT
66 AGTGCCGTTTTGTGGCCTTT----GGGGGGAATTAGTGGC-TTTTTTGT
* *
76075038 AAAGCGCAGCTAAAGAGTTAACATTAGCAGCGTTTATAAAAACGCCGCAAATAATACACCCAGAC
1 AAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAACGCCGCAAATAATACACCCAGAC
* *
76075103 GGTGCCGTTTTGTGTCCTTTGGGGGGAATTAGTGGCTTTTTTGT
66 AGTGCCGTTTTGTGGCCTTTGGGGGGAATTAGTGGCTTTTTTGT
76075147 AAAGCGCCGCTAA
1 AAAGCGCCGCTAA
76075160 TCTAGGTGTT
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
109 20 0.17
110 16 0.14
114 80 0.69
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (109 bp):
AAAGCGCCGCTAAAGAGTGAACATTAGCAGCGTTTATAAAAACGCCGCAAATAATACACCCAGAC
AGTGCCGTTTTGTGGCCTTTGGGGGGAATTAGTGGCTTTTTTGT
Found at i:76076759 original size:22 final size:21
Alignment explanation
Indices: 76076708--76076760 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
76076698 TAGCTAGGGG
76076708 TTTAGGGGTTACAAGTTACGA
1 TTTAGGGGTTACAAGTTACGA
* *
76076729 TCTAGGGGTTA-AAGATTTAGGA
1 TTTAGGGGTTACAAG--TTACGA
76076751 TTTAGGGGTT
1 TTTAGGGGTT
76076761 TAGGGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 10 0.37
22 14 0.52
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.36
Consensus pattern (21 bp):
TTTAGGGGTTACAAGTTACGA
Found at i:76077392 original size:31 final size:31
Alignment explanation
Indices: 76077354--76077415 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
76077344 GAAATTTTGG
76077354 AAGCAATAGCGGCATTTTTTCAGTAAACGCC
1 AAGCAATAGCGGCATTTTTTCAGTAAACGCC
*
76077385 AAGCAATAGCGGCGTTTTTTCAGTAAACGCC
1 AAGCAATAGCGGCATTTTTTCAGTAAACGCC
76077416 GCAAAAGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (31 bp):
AAGCAATAGCGGCATTTTTTCAGTAAACGCC
Found at i:76077852 original size:84 final size:84
Alignment explanation
Indices: 76077713--76077965 Score: 425
Period size: 84 Copynumber: 3.0 Consensus size: 84
76077703 ATTTGTGCTT
* * *
76077713 AAAACGCCAGAAATAATGCAATTATTCCAGACCATGCAAAACAGTGTCGTTTCTGTTCACAGCTG
1 AAAACGCCACAAATAATGC-A--ATTCCAGACCACG-AAAACGGTGTCGTTTCTGTTCACAGCTG
*
76077778 TAATATCTAGTGGCGTTTTTAGG
62 TAATATTTAGTGGCGTTTTTAGG
*
76077801 AAAACACCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGCTGTAAT
1 AAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGCTGTAAT
76077866 ATTTAGTGGCGTTTTTAGG
66 ATTTAGTGGCGTTTTTAGG
76077885 AAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGCTGTAAT
1 AAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGCTGTAAT
76077950 ATTTAGTGGCGTTTTT
66 ATTTAGTGGCGTTTTT
76077966 TATATATATA
Statistics
Matches: 159, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
84 129 0.81
85 12 0.08
87 1 0.01
88 17 0.11
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (84 bp):
AAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTTTCTGTTCACAGCTGTAAT
ATTTAGTGGCGTTTTTAGG
Found at i:76078142 original size:84 final size:84
Alignment explanation
Indices: 76078053--76078247 Score: 363
Period size: 84 Copynumber: 2.3 Consensus size: 84
76078043 TAGTTAAACT
76078053 TTTAGTGGCGTTTTTAGGAAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTAGGAAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
76078118 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
* *
76078137 TTTAGTGGCGTTTTTGGGAAAACGCCACAAATAATGCAATTCCAGACCGCGAAAACGGTGTCGTT
1 TTTAGTGGCGTTTTTAGGAAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
76078202 TCTGTTCACAGCTGTAATA
66 TCTGTTCACAGCTGTAATA
76078221 TTTAGTGGCGTTTTTTAGGAAAACGCC
1 TTTAGTGGCG-TTTTTAGGAAAACGCC
76078248 GGAAATGTGG
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 92 0.86
85 15 0.14
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (84 bp):
TTTAGTGGCGTTTTTAGGAAAACGCCACAAATAATGCAATTCCAGACCACGAAAACGGTGTCGTT
TCTGTTCACAGCTGTAATA
Found at i:76080411 original size:17 final size:17
Alignment explanation
Indices: 76080389--76080489 Score: 114
Period size: 17 Copynumber: 5.6 Consensus size: 17
76080379 GTTAAATTTA
76080389 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
76080406 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
76080423 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
76080446 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
76080463 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
76080480 TTACTAAAAT
1 TTACTAAAAT
76080490 TTGTTTAAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 16
0.80 0.02 0.17
Matches are distributed among these distances:
16 3 0.04
17 55 0.74
23 13 0.18
24 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:76080468 original size:57 final size:57
Alignment explanation
Indices: 76080380--76080505 Score: 243
Period size: 57 Copynumber: 2.2 Consensus size: 57
76080370 CGATTGAATG
76080380 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
*
76080437 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
76080494 TTAAATTTATTA
1 TTAAATTTATTA
76080506 ATTAGTAATG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 68 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACTAAAATTTGT
Found at i:76080627 original size:26 final size:26
Alignment explanation
Indices: 76080543--76080881 Score: 576
Period size: 26 Copynumber: 13.1 Consensus size: 26
76080533 ATTTTATTAA
76080543 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76080569 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
76080596 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
76080622 ACAATACATAATAACTTCCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080648 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080674 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080700 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080726 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76080752 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080778 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
76080804 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
76080829 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080854 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
76080880 AT
1 AT
76080882 TTAACTTACA
Statistics
Matches: 297, Mismatches: 12, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
25 56 0.19
26 217 0.73
27 15 0.05
28 9 0.03
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:76080843 original size:18 final size:18
Alignment explanation
Indices: 76080822--76080909 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
76080812 TTTAACTTAC
76080822 AACTTACACAATACATTT
1 AACTTACACAATACATTT
*
76080840 AACTTACAACTTACATAATACATAAT
1 AACTT---AC--AC--AATACAT-TT
*
76080866 AACTTACA-ACTTACATTT
1 AACTTACACA-ATACATTT
*
76080884 AACTTACATAATACATTT
1 AACTTACACAATACATTT
76080902 AACTTACA
1 AACTTACA
76080910 TAACTTACAT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
18 30 0.54
19 6 0.11
21 3 0.05
23 4 0.07
25 7 0.12
26 6 0.11
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (18 bp):
AACTTACACAATACATTT
Found at i:76080889 original size:11 final size:10
Alignment explanation
Indices: 76080873--76080926 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
76080863 AATAACTTAC
76080873 AACTTACATTT
1 AACTTACA-TT
76080884 AACTTACA-T
1 AACTTACATT
76080893 AA--TACATTT
1 AACTTACA-TT
76080902 AACTTACA-T
1 AACTTACATT
76080911 AACTTACA-T
1 AACTTACATT
76080920 AACTTAC
1 AACTTAC
76080927 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:76080910 original size:18 final size:18
Alignment explanation
Indices: 76080847--76080912 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
76080837 TTTAACTTAC
*
76080847 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
76080866 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
76080884 AACTTACATAATACATTT
1 AACTTACATAATACATTT
76080902 AACTTACATAA
1 AACTTACATAA
76080913 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:76086403 original size:21 final size:21
Alignment explanation
Indices: 76086377--76086447 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
76086367 CTACAACTTA
* *
76086377 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
76086398 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
76086419 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
76086440 AAGCAGAG
1 AAGCAGAG
76086448 CAGAACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.32, C:0.18, G:0.46, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:76086690 original size:14 final size:14
Alignment explanation
Indices: 76086671--76086704 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
76086661 ATTGCTATTG
76086671 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
76086685 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
*
76086699 TTTGCT
1 GTTGCT
76086705 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.21, T:0.59
Consensus pattern (14 bp):
GTTGCTTTTGAATT
Found at i:76086825 original size:43 final size:43
Alignment explanation
Indices: 76086770--76086893 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
76086760 GTTTTTGTAT
* *
76086770 AAAAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTAA-A
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT-TAAGA
* * * *
76086813 AAAAATGCCACTAAAGAATATGTTCTTTAGCGGCG-CTTAAGG
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAGA
* *
76086855 AAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTT
76086894 TGTTTGTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.04
42 32 0.47
43 33 0.49
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (43 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTTAAGA
Found at i:76086872 original size:42 final size:43
Alignment explanation
Indices: 76086770--76086890 Score: 147
Period size: 42 Copynumber: 2.8 Consensus size: 43
76086760 GTTTTTGTAT
* * *
76086770 AAAAGCGCCACTAAAGAACATGTTCTTTCGCGGCGTTTGTAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTCTGTAAA
* * *
76086813 AAAAATGCCACTAAAGAATATGTTCTTTAGCGGCG-CT-TAAGG
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTCTGTAA-A
* *
76086855 AAAAACGCCGCTAAAGAACATGGTCTTTAGCGGCGT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGT
76086891 TTTTGTTTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
41 3 0.05
42 32 0.48
43 31 0.47
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (43 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTCTGTAAA
Found at i:76094034 original size:16 final size:15
Alignment explanation
Indices: 76094013--76094060 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
76094003 GAAATAAAAC
76094013 CAATAACAATGAATAA
1 CAATAACAAT-AATAA
*
76094029 CAATAACGATAATAA
1 CAATAACAATAATAA
*
76094044 CATTAA-AATAATGAA
1 CAATAACAATAAT-AA
76094059 CA
1 CA
76094061 CAGTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 9 0.32
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
CAATAACAATAATAA
Found at i:76095607 original size:50 final size:50
Alignment explanation
Indices: 76095529--76096330 Score: 700
Period size: 50 Copynumber: 16.1 Consensus size: 50
76095519 TTTATTCCAC
* * *
76095529 TGCAACGTCAGGG-GGTAAGA-CCTGCTGTTGTAGCTTCAATATTTTTAAT
1 TGCAATGTCAGGGAAGTAAGATCC-GCTGTTGTAGCTTCAATCTTTTTAAT
*
76095578 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* * ** *
76095628 TGCAATGTCAGGGAAGTAAGATCTGCTGCTGTAGCTTCAAT-TTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTTAAT
** ** * * * * * *
76095678 TGCACCG-CCTGGAAATAAGATTCGCCGTTGTGGCCTCAATC-TTTTGAT
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* * ** *
76095726 TGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* *
76095776 TGCAACG-CTA-GGAGAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
1 TGCAATGTC-AGGGA-AGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* ** *
76095826 TGCAATGTTAGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT-TTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTTAAT
** * *
76095876 TGCAGCG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
1 TGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
** *
76095926 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACT
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTTAAT
** * * * * * *
76095977 T-CACCGCCTGGAAAGTAAGATCTGCTTTTGTAGCTTCAATCTTCTTAAT
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* ** *
76096026 TGCAATGTTAGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT-TTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTTAAT
** * *
76096076 TGCAGCG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
1 TGCAATGTC-AGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* * ** *
76096126 TGCAATGTCAGGGAAGTAAGATCTGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
** * * * *
76096176 TGCACCACCT-A-GAAAGTAAGATCTGCTATTGTAGCTTCAATCTTCTTAAT
1 TGCA--ATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
* * ** *
76096226 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
** * * * *
76096276 TGCACCACCT-A-GAAAGTAAGATCTGCTATTGTAGCTTCAATCTTCTTAAT
1 TGCA--ATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
76096326 TGCAA
1 TGCAA
76096331 ACTATGGTTT
Statistics
Matches: 594, Mismatches: 133, Indels: 53
0.76 0.17 0.07
Matches are distributed among these distances:
48 11 0.02
49 78 0.13
50 484 0.81
51 17 0.03
52 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
Found at i:76095661 original size:100 final size:99
Alignment explanation
Indices: 76095529--76096330 Score: 1041
Period size: 100 Copynumber: 8.1 Consensus size: 99
76095519 TTTATTCCAC
* * * ** * * *
76095529 TGCAACGTCAGGG-GGTAAGA-CCTGCTGTTGTAGCTTCAATATTTTTAATTGCAATGTCAGGGA
1 TGCAATGTCAGGGAAGTAAGATCC-GCTGTTGTAGCTTCAATCTTTTCCACTGCAACG-CAGGAA
76095592 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
64 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* * * *
76095628 TGCAATGTCAGGGAAGTAAGATCTGCTGCTGTAGCTTCAAT-TTGTTCCACTGCACCGCCTGGAA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTCCACTGCAACG-CAGGAA
* * * * *
76095692 A-TAAGATTCGCCGTTGTGGCCTCAATCTT-TTGAT
64 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* * *
76095726 TGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACGCTAGGAGA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCCACTGCAACGC-AGGAAA
76095791 GTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
65 GTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* *
76095826 TGCAATGTTAGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT-TTGTTCCACTGCAGCGCTAGGAA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTCCACTGCAACGC-AGGAA
76095890 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
64 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* * * *
76095926 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTTCACCGCCTGGAAA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCCACTGCAACG-CAGGAAA
* *
76095991 GTAAGATCTGCTTTTGTAGCTTCAATCTTCTTAAT
65 GTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* *
76096026 TGCAATGTTAGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT-TTGTTCCACTGCAGCGCTAGGAA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTT-TTCCACTGCAACGC-AGGAA
76096090 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
64 AGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* *
76096126 TGCAATGTCAGGGAAGTAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCAC-CTA-GA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCCACTGCA--ACGC-AGGA
* *
76096189 AAGTAAGATCTGCTATTGTAGCTTCAATCTTCTTAAT
63 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
* *
76096226 TGCAATGTCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCAC-CTA-GA
1 TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCCACTGCA--ACGC-AGGA
* *
76096289 AAGTAAGATCTGCTATTGTAGCTTCAATCTTCTTAAT
63 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
76096326 TGCAA
1 TGCAA
76096331 ACTATGGTTT
Statistics
Matches: 632, Mismatches: 56, Indels: 29
0.88 0.08 0.04
Matches are distributed among these distances:
97 1 0.00
98 58 0.09
99 66 0.10
100 499 0.79
101 7 0.01
102 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (99 bp):
TGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTCCACTGCAACGCAGGAAAG
TAAGATCCGCTGTTGTAGCTTCAATCTTCTTAAT
Found at i:76096025 original size:200 final size:200
Alignment explanation
Indices: 76095591--76096330 Score: 1175
Period size: 200 Copynumber: 3.7 Consensus size: 200
76095581 AATGTCAGGG
*
76095591 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCTGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
* * * * *
76095656 CTGTAGCTTCAATTTGTTCCACTGCACCGCCT-GGAAA-TAAGATTCGCCGTTGTGGCCTCAATC
66 TTGTAGCTTCAATTTGTTCCACTGCACCG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
* * *
76095719 TT-TTGATTGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAACG
130 TTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG
76095783 -CTAGGA
195 CCT-GGA
* *
76095789 GAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTTAGGGAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
*
76095854 TTGTAGCTTCAATTTGTTCCACTGCAGCGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
66 TTGTAGCTTCAATTTGTTCCACTGCACCGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
*
76095919 TCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTTCACCGC
131 TCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
76095984 CTGGA
196 CTGGA
* * *
76095989 AAGTAAGATCTGCTTTTGTAGCTTCAATCTTCTTAATTGCAATGTTAGGGAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
*
76096054 TTGTAGCTTCAATTTGTTCCACTGCAGCGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
66 TTGTAGCTTCAATTTGTTCCACTGCACCGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
* *
76096119 TCTTAATTGCAATGTCAGGGAAGTAAGATCTGCTGTTGTAGCTTCAATCTGTTCCACTGCACCAC
131 TCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
*
76096184 CTAGA
196 CTGGA
* * *
76096189 AAGTAAGATCTGCTATTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGAAAGTAAGATCCGCTG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
* * * *
76096254 TTGTAGCTTCAATCTGTTCCACTGCACCACCTA-GAAAGTAAGATCTGCTATTGTAGCTTCAATC
66 TTGTAGCTTCAATTTGTTCCACTGCACC-GCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
76096318 TTCTTAATTGCAA
130 TTCTTAATTGCAA
76096331 ACTATGGTTT
Statistics
Matches: 509, Mismatches: 28, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
197 2 0.00
198 94 0.18
199 24 0.05
200 384 0.75
201 5 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (200 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTG
TTGTAGCTTCAATTTGTTCCACTGCACCGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
TCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
CTGGA
Found at i:76101286 original size:31 final size:31
Alignment explanation
Indices: 76101259--76101389 Score: 262
Period size: 31 Copynumber: 4.2 Consensus size: 31
76101249 ATGAAGAATG
76101259 AAAGAATATTTAGAAGAATGTTCGAAGAACA
1 AAAGAATATTTAGAAGAATGTTCGAAGAACA
76101290 AAAGAATATTTAGAAGAATGTTCGAAGAACA
1 AAAGAATATTTAGAAGAATGTTCGAAGAACA
76101321 AAAGAATATTTAGAAGAATGTTCGAAGAACA
1 AAAGAATATTTAGAAGAATGTTCGAAGAACA
76101352 AAAGAATATTTAGAAGAATGTTCGAAGAACA
1 AAAGAATATTTAGAAGAATGTTCGAAGAACA
76101383 AAAGAAT
1 AAAGAAT
76101390 CCGAAAGTAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (31 bp):
AAAGAATATTTAGAAGAATGTTCGAAGAACA
Found at i:76105104 original size:106 final size:106
Alignment explanation
Indices: 76104919--76105129 Score: 386
Period size: 106 Copynumber: 2.0 Consensus size: 106
76104909 TTACGACTAC
76104919 GGCACAAGTGAAGCGACCTTTCCAACTCAGCTATCTGGGCTTTTAATCTTACTTCTTCATTTCGG
1 GGCACAAGTGAAGCGACCTTTCCAACTCAGCTATCTGGGCTTTTAATCTTACTTCTTCATTTCGG
* *
76104984 CATTCTAACAAATTTTTTTCCAAAACGCTTTCTCGAGCTCA
66 CATTCTAACAAATTTTTCTCCAAAACACTTTCTCGAGCTCA
*
76105025 GGCACAAGTGAAGCGACCTTTCCAACTCAGCTATCTGGGCTTTTAATCTTGCTTCTTCATTTCGG
1 GGCACAAGTGAAGCGACCTTTCCAACTCAGCTATCTGGGCTTTTAATCTTACTTCTTCATTTCGG
*
76105090 CATTCTAACAAATTTTTCTCCAAAGCACTTTCTCGAGCTC
66 CATTCTAACAAATTTTTCTCCAAAACACTTTCTCGAGCTC
76105130 GGGCGTCTTG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 101 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.35
Consensus pattern (106 bp):
GGCACAAGTGAAGCGACCTTTCCAACTCAGCTATCTGGGCTTTTAATCTTACTTCTTCATTTCGG
CATTCTAACAAATTTTTCTCCAAAACACTTTCTCGAGCTCA
Found at i:76111071 original size:12 final size:14
Alignment explanation
Indices: 76111046--76111074 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76111036 TATAAATATT
76111046 ATATATAAAGAAAA
1 ATATATAAAGAAAA
76111060 ATATATAAA-AAAA
1 ATATATAAAGAAAA
76111073 AT
1 AT
76111075 TAGTTGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
ATATATAAAGAAAA
Found at i:76112251 original size:20 final size:20
Alignment explanation
Indices: 76112218--76112261 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
76112208 ACATTATTTG
76112218 AAAAATTAAATAAA-GAAAA
1 AAAAATTAAATAAATGAAAA
* *
76112237 AAAAATTGAACTAAATTAAAA
1 AAAAATT-AAATAAATGAAAA
76112258 AAAA
1 AAAA
76112262 CAAATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAATTAAATAAATGAAAA
Found at i:76112252 original size:24 final size:22
Alignment explanation
Indices: 76112224--76112273 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
76112214 TTTGAAAAAT
76112224 TAAA-TAAAGAAAAAAAAATTGAAC
1 TAAATTAAA-AAAAAAAAA-T-AAC
*
76112248 TAAATTAAAAAAAACAAATAAC
1 TAAATTAAAAAAAAAAAATAAC
76112270 TAAA
1 TAAA
76112274 CGTATGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.29
23 1 0.04
24 12 0.50
25 4 0.17
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.18
Consensus pattern (22 bp):
TAAATTAAAAAAAAAAAATAAC
Found at i:76126033 original size:254 final size:254
Alignment explanation
Indices: 76125584--76126107 Score: 1039
Period size: 254 Copynumber: 2.1 Consensus size: 254
76125574 AATGAACACT
76125584 TCAATAAATGAATAAATAAATATCAAATAAAACAACGATAATAATACGAATTATAAAAGATGAAA
1 TCAATAAATGAATAAATAAATATCAAATAAAACAACGATAATAATACGAATTATAAAAGATGAAA
76125649 TATTTACGTATGTGCATCTATATATTTAAATTATAAATTATAAATTATATGAATGTATATACATA
66 TATTTACGTATGTGCATCTATATATTTAAATTATAAATTATAAATTATATGAATGTATATACATA
76125714 TATGAAAAAAAACAAATATGCATATCTATGTATATATATATAAATTAGAAAAATAAACAAATAAA
131 TATGAAAAAAAACAAATATGCATATCTATGTATATATATATAAATTAGAAAAATAAACAAATAAA
76125779 TAAAGTATATAATATAAAAAAGTAATGCAATACTAATTTATATAATAATGGAATAATAA
196 TAAAGTATATAATATAAAAAAGTAATGCAATACTAATTTATATAATAATGGAATAATAA
76125838 TCAATAAATGAATAAATAAATATCAAATAAAACAACGATAATAATACGAATTATAAAAGATGAAA
1 TCAATAAATGAATAAATAAATATCAAATAAAACAACGATAATAATACGAATTATAAAAGATGAAA
76125903 TATTTACGTATGTGCATCTATATATTTAAATTATAAATTATAAATTATATGAATGTATATACATA
66 TATTTACGTATGTGCATCTATATATTTAAATTATAAATTATAAATTATATGAATGTATATACATA
76125968 TATGAAAAAAAACAAATATGCATATCTATGTATATATATATAAATTAGAAAAATAAACAAATAAA
131 TATGAAAAAAAACAAATATGCATATCTATGTATATATATATAAATTAGAAAAATAAACAAATAAA
76126033 TAAAGTATATAATATAAAAAAGTAATGCAATACTAATTTATATAATAATGGAATAATAA
196 TAAAGTATATAATATAAAAAAGTAATGCAATACTAATTTATATAATAATGGAATAATAA
*
76126092 TGAATAAATGAATAAA
1 TCAATAAATGAATAAA
76126108 AGGAAAACGA
Statistics
Matches: 269, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
254 269 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.32
Consensus pattern (254 bp):
TCAATAAATGAATAAATAAATATCAAATAAAACAACGATAATAATACGAATTATAAAAGATGAAA
TATTTACGTATGTGCATCTATATATTTAAATTATAAATTATAAATTATATGAATGTATATACATA
TATGAAAAAAAACAAATATGCATATCTATGTATATATATATAAATTAGAAAAATAAACAAATAAA
TAAAGTATATAATATAAAAAAGTAATGCAATACTAATTTATATAATAATGGAATAATAA
Found at i:76127635 original size:15 final size:15
Alignment explanation
Indices: 76127584--76127645 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
76127574 CCCTTTTTTA
*
76127584 TTATTATTATTTA-G
1 TTATTATTATTAATG
* * *
76127598 TTCATTGTTTTTATTG
1 TT-ATTATTATTAATG
*
76127614 CTATTATTATTAATG
1 TTATTATTATTAATG
*
76127629 TTATTATTATTATTG
1 TTATTATTATTAATG
76127644 TT
1 TT
76127646 TCTACATTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (15 bp):
TTATTATTATTAATG
Found at i:76127642 original size:30 final size:30
Alignment explanation
Indices: 76127585--76127643 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
76127575 CCTTTTTTAT
* * *
76127585 TATTATTATTTAGTTCATTGTTTTTATTGC
1 TATTATTATTAAGTTCATTATTATTATTGC
76127615 TATTATTATTAATGTT-ATTATTATTATTG
1 TATTATTATTAA-GTTCATTATTATTATTG
76127644 TTTCTACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (30 bp):
TATTATTATTAAGTTCATTATTATTATTGC
Found at i:76134351 original size:41 final size:41
Alignment explanation
Indices: 76134306--76134446 Score: 228
Period size: 41 Copynumber: 3.4 Consensus size: 41
76134296 TTAAGTCTAC
76134306 CAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAG
1 CAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAG
* *
76134347 CAGGCTATGTGCCGGTGATCTGAACCAGGTTATAAACCTAG
1 CAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAG
* * *
76134388 CAGGCTATGTGCCGGTGATCTGAATCAGGCTATAAGCCTAG
1 CAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAG
*
76134429 CAGGCTAAGTGCGGGTGA
1 CAGGCTAAGTGCCGGTGA
76134447 ATACGTTAAT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (41 bp):
CAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAG
Found at i:76135184 original size:13 final size:13
Alignment explanation
Indices: 76135166--76135191 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76135156 ATGCCTCGTA
76135166 ACCCTAATTCGGC
1 ACCCTAATTCGGC
76135179 ACCCTAATTCGGC
1 ACCCTAATTCGGC
76135192 GACGGATACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (13 bp):
ACCCTAATTCGGC
Found at i:76138739 original size:19 final size:19
Alignment explanation
Indices: 76138723--76138782 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
76138713 TACATTTTCA
76138723 AATTTTTATATTTTTTTAT
1 AATTTTTATATTTTTTTAT
* * *
76138742 AACTTTTAGTAATTTTTAAT
1 AATTTTTA-TATTTTTTTAT
76138762 AATTTTTA-ATTTTTTTA-
1 AATTTTTATATTTTTTTAT
76138779 AATT
1 AATT
76138783 CTTTTTATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 4 0.12
18 7 0.21
19 7 0.21
20 16 0.47
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
AATTTTTATATTTTTTTAT
Found at i:76138874 original size:20 final size:19
Alignment explanation
Indices: 76138849--76138895 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
76138839 GTCCTGTTCA
76138849 TTTTAAATAAATATATATAT
1 TTTTAAATAAATATATA-AT
* *
76138869 TTTTAAAT-AATTTTTAAT
1 TTTTAAATAAATATATAAT
76138887 TTTTAAATA
1 TTTTAAATA
76138896 TTTTACCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 6 0.25
20 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAAATAAATATATAAT
Found at i:76143967 original size:19 final size:19
Alignment explanation
Indices: 76143926--76143963 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
76143916 AAAAAGGTAT
* *
76143926 ATAAAGCAATTTTAAAGTA
1 ATAAAACAATTTTAAACTA
76143945 ATAAAACAATTTT-AACTA
1 ATAAAACAATTTTAAACTA
76143963 A
1 A
76143964 ATAATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
ATAAAACAATTTTAAACTA
Found at i:76147302 original size:10 final size:10
Alignment explanation
Indices: 76147287--76147345 Score: 68
Period size: 10 Copynumber: 6.1 Consensus size: 10
76147277 CTTGTTTTTC
76147287 TTTTATAATT
1 TTTTATAATT
*
76147297 TTTTATAATG
1 TTTTATAATT
*
76147307 TTTTACAATT
1 TTTTATAATT
* *
76147317 TTTAAT-TTT
1 TTTTATAATT
76147326 TTTTAT-ATT
1 TTTTATAATT
76147335 TTTTATAATT
1 TTTTATAATT
76147345 T
1 T
76147346 AAGAAATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 15 0.38
10 25 0.62
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:76147327 original size:28 final size:28
Alignment explanation
Indices: 76147287--76147345 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
76147277 CTTGTTTTTC
76147287 TTTTATAA-TTTTTTATAATGTTTTACAA
1 TTTTATAATTTTTTTAT-ATGTTTTACAA
* *
76147315 TTTT-TAATTTTTTTTATATTTTTTATAA
1 TTTTATAA-TTTTTTTATATGTTTTACAA
76147343 TTT
1 TTT
76147346 AAGAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
28 16 0.59
29 8 0.30
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTATAATTTTTTTATATGTTTTACAA
Found at i:76152764 original size:41 final size:41
Alignment explanation
Indices: 76152707--76152786 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
76152697 TGTAGGCCAT
76152707 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAAC
1 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAAC
*
76152748 TTTGCCCAGGCCCAATTACAACCTAAACCCAAACTAAAA
1 TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAA
76152787 TTAACCCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.35, G:0.07, T:0.16
Consensus pattern (41 bp):
TTTGCCCAGGCCCAATTACAACCCAAACCCAAACTAAAAAC
Found at i:76154719 original size:108 final size:109
Alignment explanation
Indices: 76154530--76154837 Score: 453
Period size: 108 Copynumber: 2.8 Consensus size: 109
76154520 TTTCTAATTG
* *
76154530 AGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * **
76154595 CGTTTAACCAAATGGCTTAATATCCTTT-TAAAATTTTAAAATA
66 CGTTTAACCAAATGGCTTAATATCCTTTAAAAAAATACAAAATA
76154638 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
76154703 CGTTCAACCAACTGGCTTAATATCCTTTCCAAAAAAAATACAAAATA
66 CGTTTAACCAAATGGCTTAATATCCTTT---AAAAAAATACAAAATA
* *
76154750 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACATGCCCTAAGGTGCTGGGTATCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
**
76154812 CGTTTAACCAAATGGCCAAATATCCT
66 CGTTTAACCAAATGGCTTAATATCCT
76154838 CTTGAATTTT
Statistics
Matches: 182, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
108 89 0.49
109 27 0.15
111 26 0.14
112 40 0.22
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTTAACCAAATGGCTTAATATCCTTTAAAAAAATACAAAATA
Found at i:76164791 original size:21 final size:21
Alignment explanation
Indices: 76164732--76164795 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
76164722 GAGGAAAAAG
* *
76164732 AAGAGGAGAAGGAGAAGGAGA
1 AAGAAGAGAAGGAGAAGGAAA
* * **
76164753 AGGATACAG-AGGTTAAGGAAA
1 AAGA-AGAGAAGGAGAAGGAAA
76164774 AAGAAGAGAAGGAGAAGGAAA
1 AAGAAGAGAAGGAGAAGGAAA
76164795 A
1 A
76164796 GGATAAGGAT
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.39, T:0.05
Consensus pattern (21 bp):
AAGAAGAGAAGGAGAAGGAAA
Found at i:76164798 original size:48 final size:48
Alignment explanation
Indices: 76164723--76164837 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 48
76164713 AAGAAGGTCG
* *
76164723 AGGAAAAAG-A-AG-AGGAGAAGGAGAAGGAGAAGGATACAGAGGTTA
1 AGGAAAAAGAAGAGAAGGAGAAGGAAAAGGAGAAGGATAAAGAGGTTA
*
76164768 AGGAAAAAGAAGAGAAGGAGAAGGAAAAGGATAAGGATAAAGAGGTTA
1 AGGAAAAAGAAGAGAAGGAGAAGGAAAAGGAGAAGGATAAAGAGGTTA
* * * *
76164816 AGGGAGACGAAGAGAAAGAGAA
1 AGGAAAAAGAAGAGAAGGAGAA
76164838 AGAGAAAGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
45 9 0.15
46 1 0.02
47 2 0.03
48 48 0.80
ACGTcount: A:0.54, C:0.02, G:0.38, T:0.06
Consensus pattern (48 bp):
AGGAAAAAGAAGAGAAGGAGAAGGAAAAGGAGAAGGATAAAGAGGTTA
Found at i:76164836 original size:6 final size:6
Alignment explanation
Indices: 76164825--76164903 Score: 67
Period size: 6 Copynumber: 13.2 Consensus size: 6
76164815 AAGGGAGACG
*
76164825 AAGAGA AAGAGA AAGAGA AAGA-A AAGA-A AA-AG- AAGAAGA AAGACA
1 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAG-AGA AAGAGA
* *
76164870 AAGATGGGA AAGAGA AAGAGA AAAAGA AAAAGA A
1 AAGA---GA AAGAGA AAGAGA AAGAGA AAGAGA A
76164904 GAAAAAGGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
4 3 0.05
5 8 0.13
6 44 0.70
7 3 0.05
9 5 0.08
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (6 bp):
AAGAGA
Found at i:76164891 original size:27 final size:27
Alignment explanation
Indices: 76164825--76164892 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
76164815 AAGGGAGACG
*
76164825 AAGAGAAAGAGAAAGAGAAAGAAAAGA
1 AAGAGAAAGAGAAAGACAAAGAAAAGA
* ***
76164852 AAAAG-AAGAAGAAAGACAAAGATGGGA
1 AAGAGAAAG-AGAAAGACAAAGAAAAGA
76164879 AAGAGAAAGAGAAA
1 AAGAGAAAGAGAAA
76164893 AAGAAAAAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.09
27 27 0.82
28 3 0.09
ACGTcount: A:0.68, C:0.01, G:0.29, T:0.01
Consensus pattern (27 bp):
AAGAGAAAGAGAAAGACAAAGAAAAGA
Found at i:76164907 original size:27 final size:27
Alignment explanation
Indices: 76164828--76164908 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
76164818 GGAGACGAAG
76164828 AGAAAGAGAAAGAGAAAGAA-AAGAAA
1 AGAAAGAGAAAGAGAAAGAAGAAGAAA
* * *
76164854 A-AGAAGAAGAAAGACAAAGATG-GGAAA
1 AGA-AAG-AGAAAGAGAAAGAAGAAGAAA
*
76164881 GAGAAAGAGAAAAAGAAA-AAGAAGAAA
1 -AGAAAGAGAAAGAGAAAGAAGAAGAAA
76164908 A
1 A
76164909 AGGATAAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
25 1 0.02
26 7 0.17
27 29 0.69
28 4 0.10
29 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (27 bp):
AGAAAGAGAAAGAGAAAGAAGAAGAAA
Found at i:76165028 original size:24 final size:24
Alignment explanation
Indices: 76165001--76165053 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
76164991 TTCCTCATCG
* *
76165001 TCGTCATCGTCATCTTCTTCTTCC
1 TCGTCATCATCATCATCTTCTTCC
* *
76165025 TCGTCATCATCTTCATCTTCTTCG
1 TCGTCATCATCATCATCTTCTTCC
76165049 TCGTC
1 TCGTC
76165054 TTCTGATTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.09, C:0.36, G:0.09, T:0.45
Consensus pattern (24 bp):
TCGTCATCATCATCATCTTCTTCC
Found at i:76165028 original size:27 final size:27
Alignment explanation
Indices: 76164986--76165047 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
76164976 GGATAAAGGT
*
76164986 TCTTCTTCCTCATCGTCGTCATCGTCA
1 TCTTCTTCCTCATCGTCATCATCGTCA
* * *
76165013 TCTTCTTCTTCCTCGTCATCATCTTCA
1 TCTTCTTCCTCATCGTCATCATCGTCA
76165040 TCTTCTTC
1 TCTTCTTC
76165048 GTCGTCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.10, C:0.37, G:0.06, T:0.47
Consensus pattern (27 bp):
TCTTCTTCCTCATCGTCATCATCGTCA
Found at i:76165036 original size:21 final size:21
Alignment explanation
Indices: 76165010--76165050 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
76165000 GTCGTCATCG
*
76165010 TCATCTTCTTCTTCCTCGTCA
1 TCATCTTCATCTTCCTCGTCA
*
76165031 TCATCTTCATCTTCTTCGTC
1 TCATCTTCATCTTCCTCGTC
76165051 GTCTTCTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.37, G:0.05, T:0.49
Consensus pattern (21 bp):
TCATCTTCATCTTCCTCGTCA
Found at i:76165156 original size:24 final size:24
Alignment explanation
Indices: 76165129--76165184 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
76165119 ATAAAGAGCC
*
76165129 GAAAGAAGATGA-ACACAAAGAGAA
1 GAAAGAAGACGAGACA-AAAGAGAA
*
76165153 GAAAGATGACGAGACAAAAGAGAA
1 GAAAGAAGACGAGACAAAAGAGAA
76165177 -AAAGAAGA
1 GAAAGAAGA
76165185 AAAAGAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.62, C:0.07, G:0.27, T:0.04
Consensus pattern (24 bp):
GAAAGAAGACGAGACAAAAGAGAA
Found at i:76166052 original size:35 final size:35
Alignment explanation
Indices: 76166006--76166082 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
76165996 TGCATTATAG
*
76166006 GTTCTGCGGGTTATGGATAACAGGATTACTTACAA
1 GTTCTGCGGGTTATGAATAACAGGATTACTTACAA
*
76166041 GTTCTGCGGGTTATGAATAACAGGATTACTTCCAA
1 GTTCTGCGGGTTATGAATAACAGGATTACTTACAA
76166076 GTTCTGC
1 GTTCTGC
76166083 AAGCACTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (35 bp):
GTTCTGCGGGTTATGAATAACAGGATTACTTACAA
Found at i:76170142 original size:13 final size:13
Alignment explanation
Indices: 76170124--76170148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76170114 TTAGACAAAA
76170124 AAAAATTATGTTT
1 AAAAATTATGTTT
76170137 AAAAATTATGTT
1 AAAAATTATGTT
76170149 GATATCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
AAAAATTATGTTT
Found at i:76170292 original size:3 final size:3
Alignment explanation
Indices: 76170284--76170310 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
76170274 GCCCTCAACA
76170284 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
76170311 CAAGTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:76170495 original size:15 final size:16
Alignment explanation
Indices: 76170463--76170503 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
76170453 TAACATTTAA
* *
76170463 TAAATATTTTAAATAT
1 TAAATATATTAAAAAT
76170479 TAAA-ATATTAAAAAT
1 TAAATATATTAAAAAT
76170494 TAAATATATT
1 TAAATATATT
76170504 TTTTAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATATTAAAAAT
Found at i:76170647 original size:19 final size:19
Alignment explanation
Indices: 76170593--76170670 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 19
76170583 AATTTAAGAG
*
76170593 AAAGTATGAAAAATTATTA
1 AAAGTATTAAAAATTATTA
*
76170612 ATAGT-TATAAGAAATTATTA
1 AAAGTAT-TAA-AAATTATTA
* *
76170632 AAAGTATTAAAAATTAGTC
1 AAAGTATTAAAAATTATTA
*
76170651 AAAGTATTTAAAATTTATTA
1 AAAGTA-TTAAAAATTATTA
76170671 TATATGGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.02
19 19 0.40
20 26 0.55
21 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.37
Consensus pattern (19 bp):
AAAGTATTAAAAATTATTA
Found at i:76174192 original size:13 final size:13
Alignment explanation
Indices: 76174160--76174198 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
76174150 GCGCAAATGC
76174160 ATATGAATAT-TAT
1 ATAT-AATATATAT
76174173 ATA-AATATATAT
1 ATATAATATATAT
76174185 ATATAATATATAT
1 ATATAATATATAT
76174198 A
1 A
76174199 AAAATGTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 6 0.25
13 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:76174472 original size:15 final size:13
Alignment explanation
Indices: 76174408--76174482 Score: 57
Period size: 15 Copynumber: 5.6 Consensus size: 13
76174398 CTAAACTATC
76174408 ATATAATAATAAT
1 ATATAATAATAAT
*
76174421 ATGATGAATAAAAAT
1 AT-AT-AATAATAAT
76174436 GATATAAATAATAAT
1 -ATAT-AATAATAAT
*
76174451 AGA-AATAATAAT
1 ATATAATAATAAT
*
76174463 -CATAATAATAA-
1 ATATAATAATAAT
76174474 ATGATAATA
1 AT-ATAATA
76174483 CATTAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
11 1 0.02
12 17 0.34
13 8 0.16
14 4 0.08
15 18 0.36
16 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (13 bp):
ATATAATAATAAT
Found at i:76181631 original size:8 final size:8
Alignment explanation
Indices: 76181618--76181671 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
76181608 AATTGAATTA
76181618 TTAATATT
1 TTAATATT
*
76181626 TTAATATA
1 TTAATATT
76181634 TTAA-ATCT
1 TTAATAT-T
76181642 TTAA-A-T
1 TTAATATT
*
76181648 ATAATATT
1 TTAATATT
76181656 TTAAATATT
1 TT-AATATT
76181665 TTAATAT
1 TTAATAT
76181672 AAAATTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 4 0.11
7 3 0.08
8 23 0.61
9 8 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATATT
Found at i:76181650 original size:17 final size:16
Alignment explanation
Indices: 76181616--76181671 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
76181606 AGAATTGAAT
76181616 TATTAATATTTTAATA
1 TATTAATATTTTAATA
76181632 TATTAA-ATCTTTAA-A
1 TATTAATAT-TTTAATA
76181647 TA-TAATATTTTAAATA
1 TATTAATATTTT-AATA
*
76181663 TTTTAATAT
1 TATTAATAT
76181672 AAAATTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 6 0.18
15 9 0.26
16 13 0.38
17 6 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TATTAATATTTTAATA
Found at i:76181653 original size:22 final size:21
Alignment explanation
Indices: 76181627--76181681 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
76181617 ATTAATATTT
*
76181627 TAATATATTAAATCTTTAAATA
1 TAATAT-TTAAATATTTAAATA
*
76181649 TAATATTTTAAATATTTTAATA
1 TAATA-TTTAAATATTTAAATA
*
76181671 TAAAATTTAAA
1 TAATATTTAAA
76181682 AAATATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 22 0.76
23 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATATTTAAATATTTAAATA
Found at i:76181690 original size:35 final size:37
Alignment explanation
Indices: 76181620--76181710 Score: 123
Period size: 35 Copynumber: 2.5 Consensus size: 37
76181610 TTGAATTATT
* *
76181620 AATATTTTAATATATTAAATCTTTAAATATAATATTTTA
1 AATATTTTAATATA--AAATCTTAAAAAATAATATTTTA
76181659 AATATTTTAATATAAAAT-TTAAAAAAT-ATATTTTA
1 AATATTTTAATATAAAATCTTAAAAAATAATATTTTA
*
76181694 ATTATTTTAATATAAAA
1 AATATTTTAATATAAAA
76181711 ATAATTATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
35 24 0.49
36 7 0.14
37 4 0.08
39 14 0.29
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (37 bp):
AATATTTTAATATAAAATCTTAAAAAATAATATTTTA
Found at i:76184811 original size:28 final size:28
Alignment explanation
Indices: 76184771--76184825 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
76184761 AATTAACGAA
* * *
76184771 ATTCTTAGCATTTTATCGCATGTGATTG
1 ATTCTTAGAATTTGATCACATGTGATTG
76184799 ATTCTTAGAATTTGATCACATGTGATT
1 ATTCTTAGAATTTGATCACATGTGATT
76184826 CATATTGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (28 bp):
ATTCTTAGAATTTGATCACATGTGATTG
Found at i:76198046 original size:12 final size:11
Alignment explanation
Indices: 76198019--76198075 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 11
76198009 CTTTATATTT
*
76198019 TAAATTAAAAA
1 TAAATAAAAAA
76198030 TAAATAAAAAA
1 TAAATAAAAAA
76198041 TAAAATAAAAAA
1 T-AAATAAAAAA
*
76198053 -GAATAAAAAA
1 TAAATAAAAAA
*
76198063 T-GA-AAAAAA
1 TAAATAAAAAA
76198072 TAAA
1 TAAA
76198076 CACGATTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 7 0.18
10 11 0.28
11 11 0.28
12 10 0.26
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
TAAATAAAAAA
Found at i:76198049 original size:22 final size:22
Alignment explanation
Indices: 76198019--76198075 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
76198009 CTTTATATTT
*
76198019 TAAATTAAAAATAAATAAAAAA
1 TAAAATAAAAATAAATAAAAAA
76198041 TAAAATAAAAA-AGAATAAAAAA
1 TAAAATAAAAATA-AATAAAAAA
*
76198063 T-GAA-AAAAATAAA
1 TAAAATAAAAATAAA
76198076 CACGATTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 7 0.23
21 4 0.13
22 20 0.65
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (22 bp):
TAAAATAAAAATAAATAAAAAA
Found at i:76198061 original size:16 final size:15
Alignment explanation
Indices: 76198024--76198075 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
76198014 TATTTTAAAT
76198024 TAAAAATAAATAAAAA
1 TAAAAATAAA-AAAAA
76198040 -ATAAAATAAAAAAGAA
1 TA-AAAATAAAAAA-AA
*
76198056 TAAAAAATGAAAAAAA
1 T-AAAAATAAAAAAAA
76198072 TAAA
1 TAAA
76198076 CACGATTCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 7 0.23
16 13 0.42
17 10 0.32
18 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (15 bp):
TAAAAATAAAAAAAA
Found at i:76202796 original size:194 final size:194
Alignment explanation
Indices: 76202467--76202855 Score: 751
Period size: 194 Copynumber: 2.0 Consensus size: 194
76202457 TCTGCCAGCT
76202467 TTACCTCAGTGGACTCGAGTAACTCCGTTATCTTTTCCCTATTTGCACCGAGAGAATCCAACACA
1 TTACCTCAGTGGACTCGAGTAACTCCGTTATCTTTTCCCTATTTGCACCGAGAGAATCCAACACA
76202532 AAATCTCTGAGTTGCTCCTCCATTGAGTCTAACCCATCTGTGCGTCCCTCGACCAATTCAAGCGT
66 AAATCTCTGAGTTGCTCCTCCATTGAGTCTAACCCATCTGTGCGTCCCTCGACCAATTCAAGCGT
76202597 CTCTTTCACGTTCCCTACGGATTCCTCGAGATTCACCACTCGATTTTTCAAAGCTGTCAGCATC
131 CTCTTTCACGTTCCCTACGGATTCCTCGAGATTCACCACTCGATTTTTCAAAGCTGTCAGCATC
* *
76202661 TTACCTCAGTGGACTCGAGTAATTCCGTTATCTTTTCCCTATTTGCACCGAGAGAGTCCAACACA
1 TTACCTCAGTGGACTCGAGTAACTCCGTTATCTTTTCCCTATTTGCACCGAGAGAATCCAACACA
*
76202726 AAATCTTTGAGTTGCTCCTCCATTGAGTCTAACCCATCTGTGCGTCCCTCGACCAATTCAAGCGT
66 AAATCTCTGAGTTGCTCCTCCATTGAGTCTAACCCATCTGTGCGTCCCTCGACCAATTCAAGCGT
76202791 CTCTTTCACGTTCCCTACGGATTCCTCGAGATTCACCACTCGATTTTTCAAAGCTGTCAGCATC
131 CTCTTTCACGTTCCCTACGGATTCCTCGAGATTCACCACTCGATTTTTCAAAGCTGTCAGCATC
76202855 T
1 T
76202856 CCCTCGAGCG
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 192 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (194 bp):
TTACCTCAGTGGACTCGAGTAACTCCGTTATCTTTTCCCTATTTGCACCGAGAGAATCCAACACA
AAATCTCTGAGTTGCTCCTCCATTGAGTCTAACCCATCTGTGCGTCCCTCGACCAATTCAAGCGT
CTCTTTCACGTTCCCTACGGATTCCTCGAGATTCACCACTCGATTTTTCAAAGCTGTCAGCATC
Found at i:76203246 original size:51 final size:51
Alignment explanation
Indices: 76203130--76203258 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
76203120 CTACCATCAA
* * *
76203130 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
* * ** * * **
76203181 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
76203232 ATCTCTAAGATTATAATATCATATCTT
1 ATCTCTAAGATTATAATATCATATCTT
76203259 CTAATATTAG
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.40
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
Found at i:76208859 original size:102 final size:102
Alignment explanation
Indices: 76208683--76208881 Score: 292
Period size: 102 Copynumber: 2.0 Consensus size: 102
76208673 CTACGGAAAC
* * * * * *
76208683 AAATCTCTGTGTTATTTCTGTTTTGCTTGCACAATTTTTCGCAGTGACAAGCCATAATAGTCATT
1 AAATCTCTATGTTATTTCTATTTTGCTTGCACAATTTTTCACAGTCACAAGCCATAACAGTCACT
76208748 GCAGACTAACACTTCCATTGAAATTTTCATTTAGAGT
66 GCAGACTAACACTTCCATTGAAATTTTCATTTAGAGT
* * *
76208785 AAATCTCTATGTTATTTTTATTTTGTTTGCACAATTTTTCACAGTCACAAGTCATAACAG-CAAC
1 AAATCTCTATGTTATTTCTATTTTGCTTGCACAATTTTTCACAGTCACAAGCCATAACAGTC-AC
*
76208849 TGTAGACTAACACTTCCATTGAAATTTTCATTT
65 TGCAGACTAACACTTCCATTGAAATTTTCATTT
76208882 TAAGCAAACC
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.01
102 85 0.99
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (102 bp):
AAATCTCTATGTTATTTCTATTTTGCTTGCACAATTTTTCACAGTCACAAGCCATAACAGTCACT
GCAGACTAACACTTCCATTGAAATTTTCATTTAGAGT
Found at i:76211122 original size:58 final size:58
Alignment explanation
Indices: 76211021--76211170 Score: 149
Period size: 58 Copynumber: 2.6 Consensus size: 58
76211011 GATAGAAGAA
*** * ** *
76211021 AGAACATGCAACAAATGAGTAGCAATTCTTTTTTCTTCAAGAACTTAGGCAGATTCCT
1 AGAACATGCAACAAAACTGTAGCAATTCTTTTTCCTTCAAGAACTTAAACAGACTCCT
* * *
76211079 AGACCATGCAACAAAACTGTAGCAATTCTTTTTCCCTT-GAGAACTTAAATAGACTCCT
1 AGAACATGCAACAAAACTGTAGCAATTCTTTTT-CCTTCAAGAACTTAAACAGACTCCT
** * *
76211137 AGAATGTGCAACATAACTGTAGCACTTCCTTTTT
1 AGAACATGCAACAAAACTGTAGCAATT-CTTTTT
76211171 TTTCCCTCTA
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 66 0.88
59 9 0.12
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (58 bp):
AGAACATGCAACAAAACTGTAGCAATTCTTTTTCCTTCAAGAACTTAAACAGACTCCT
Found at i:76217239 original size:13 final size:13
Alignment explanation
Indices: 76217223--76217286 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
76217213 TTTAAACTAA
*
76217223 ACTTTTTAAAAGT
1 ACTTTTCAAAAGT
*
76217236 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
* *
76217249 ACTTTTCCACAGT
1 ACTTTTCAAAAGT
**
76217262 ACTTTTCAAAAAC
1 ACTTTTCAAAAGT
*
76217275 AATTTTCAAAAG
1 ACTTTTCAAAAG
76217287 CAATGAAGAA
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:76219922 original size:50 final size:50
Alignment explanation
Indices: 76219831--76219946 Score: 126
Period size: 50 Copynumber: 2.3 Consensus size: 50
76219821 CTAACATTGA
* * *
76219831 CAATAGTTGCACCTTTGACATTCTATTATGTAAATCTGGGTTGTAAGAAT
1 CAATGGTTGCACCTTTGACATTCTACTATGTAAATCTGGGTTGCAAGAAT
* * * **
76219881 CAATGGTTGCACCTTTGGCATTCTACTGTGT-AATTTCGGGTTGCAATCAT
1 CAATGGTTGCACCTTTGACATTCTACTATGTAAATCT-GGGTTGCAAGAAT
* *
76219931 CCACGGTTGCACCTTT
1 CAATGGTTGCACCTTT
76219947 TATATACAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (50 bp):
CAATGGTTGCACCTTTGACATTCTACTATGTAAATCTGGGTTGCAAGAAT
Found at i:76221502 original size:17 final size:18
Alignment explanation
Indices: 76221480--76221522 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
76221470 TGGCTTATAG
76221480 TTTTGGCTTG-ACACCAC
1 TTTTGGCTTGCACACCAC
*
76221497 TTTTGGCTTGCACGCCAC
1 TTTTGGCTTGCACACCAC
76221515 -TTTGGCTT
1 TTTTGGCTT
76221523 ACTTTTTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.40
Consensus pattern (18 bp):
TTTTGGCTTGCACACCAC
Found at i:76221532 original size:29 final size:29
Alignment explanation
Indices: 76221497--76221603 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 29
76221487 TTGACACCAC
76221497 TTTTGGCTTGCACGCCACTTTGGCTTACT
1 TTTTGGCTTGCACGCCACTTTGGCTTACT
** *
76221526 TTTTGGCTTGTTCGCCACTTTAGCTTACT
1 TTTTGGCTTGCACGCCACTTTGGCTTACT
* * **
76221555 CTTTAGAC-TGTC-CGCCACTTTGAATTGCAC-
1 -TTTTGGCTTG-CACGCCACTTTGGCTT--ACT
76221585 TTTTGGCTTGCACGCCACT
1 TTTTGGCTTGCACGCCACT
76221604 ATTGCATGGT
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
29 45 0.74
30 14 0.23
31 2 0.03
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (29 bp):
TTTTGGCTTGCACGCCACTTTGGCTTACT
Found at i:76222188 original size:13 final size:13
Alignment explanation
Indices: 76222170--76222194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76222160 TCATTATTGA
76222170 CTTTAGAAAAAGC
1 CTTTAGAAAAAGC
76222183 CTTTAGAAAAAG
1 CTTTAGAAAAAG
76222195 TTAAGATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
CTTTAGAAAAAGC
Found at i:76222876 original size:28 final size:29
Alignment explanation
Indices: 76222845--76222917 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
76222835 GAAAAAAAAG
76222845 TTAAATGTA-AGAAAAAGAC-ATTAAAACA
1 TTAAATGTAGAGAAAAA-ACTATTAAAACA
* * *
76222873 TTAAATGCATAG-AAAAACTATTAAGACA
1 TTAAATGTAGAGAAAAAACTATTAAAACA
76222901 TTAAATGTAGAGAAAAA
1 TTAAATGTAGAGAAAAA
76222918 TTTGTTGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 2 0.05
28 30 0.79
29 6 0.16
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (29 bp):
TTAAATGTAGAGAAAAAACTATTAAAACA
Found at i:76228518 original size:23 final size:23
Alignment explanation
Indices: 76228468--76228564 Score: 90
Period size: 23 Copynumber: 4.2 Consensus size: 23
76228458 CCAATATTTT
* * *
76228468 AGCTCGTAAGAGCCTATTGTTTTC
1 AGCTCGTTAGAGCTTACTG-TTTC
76228492 AGCTCGTTAGAGCTTACTGTTTC
1 AGCTCGTTAGAGCTTACTGTTTC
* *
76228515 AGCTCG-TATGAGCTTACTATCT-
1 AGCTCGTTA-GAGCTTACTGTTTC
* * *
76228537 AGCGCATTAGAGCTTACCGTTTC
1 AGCTCGTTAGAGCTTACTGTTTC
76228560 AGCTC
1 AGCTC
76228565 AATATAGCCC
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
22 16 0.27
23 27 0.46
24 16 0.27
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (23 bp):
AGCTCGTTAGAGCTTACTGTTTC
Found at i:76237976 original size:14 final size:14
Alignment explanation
Indices: 76237957--76237991 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
76237947 TAAATTTATT
76237957 TTTAAGTTTGACAG
1 TTTAAGTTTGACAG
76237971 TTTAAGTTTGACAG
1 TTTAAGTTTGACAG
76237985 TTTAAGT
1 TTTAAGT
76237992 AGAGAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (14 bp):
TTTAAGTTTGACAG
Found at i:76239546 original size:18 final size:17
Alignment explanation
Indices: 76239519--76239673 Score: 74
Period size: 18 Copynumber: 9.0 Consensus size: 17
76239509 AATATTAAGA
76239519 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
76239536 ATTTCTATTAAA-T-TAT
1 ATTT-TATTAAATTATAT
* *
76239552 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
76239566 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
76239585 AGTATTA-TATATTATA-
1 A-TTTTATTAAATTATAT
76239601 ATTTTATTAAATTCATAT
1 ATTTTATTAAATT-ATAT
*** *
76239619 AAGAATATTTAATATTA-AGA
1 -ATTTTA-TTAA-ATTATA-T
76239639 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
76239656 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
76239674 TTAATAATAA
Statistics
Matches: 102, Mismatches: 18, Indels: 35
0.66 0.12 0.23
Matches are distributed among these distances:
13 2 0.02
14 5 0.05
15 10 0.10
16 10 0.10
17 23 0.23
18 32 0.31
19 9 0.09
20 8 0.08
21 3 0.03
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:76239590 original size:22 final size:23
Alignment explanation
Indices: 76239565--76239607 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
76239555 TAATAATAAT
*
76239565 TATTTTAAATTAT-ATTTTATAG
1 TATTATAAATTATAATTTTATAG
*
76239587 TATTATATATTATAATTTTAT
1 TATTATAAATTATAATTTTAT
76239608 TAAATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTATAAATTATAATTTTATAG
Found at i:76239590 original size:121 final size:120
Alignment explanation
Indices: 76239311--76239703 Score: 714
Period size: 120 Copynumber: 3.3 Consensus size: 120
76239301 TGCAGTTTAA
76239311 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
1 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
*
76239376 TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTGTTAAATTAT
66 TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
76239431 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
1 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
*
76239496 TTAAGAATATTTAAATATTAAGAATTTTATTAAATTATATATTTCTATTAAATTAT
66 TTAAGAATATTT-AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
* *
76239552 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTATTAAATTCAT
1 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
*
76239617 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
66 TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
* *
76239672 ATTTAATAATAATTATGTTAAATTATCTTTTA
1 ATTTAATAATAATTATTTTAAATTATATTTTA
76239704 AATTATTTAT
Statistics
Matches: 264, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 149 0.56
121 115 0.44
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
Found at i:76239755 original size:120 final size:116
Alignment explanation
Indices: 76239311--76239815 Score: 563
Period size: 120 Copynumber: 4.2 Consensus size: 116
76239301 TGCAGTTTAA
* * *
76239311 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT-TTAGTAAATTCA
1 ATTTAATAATAATTATGTTAAATTATATTTTATAG-ATTATATA-T-TG-TTAATAATAAATTCA
* *
76239375 TTTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTGTTAAATTAT
62 -TAAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
* * *
76239431 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATT-TTAGTAAATTCA
1 ATTTAATAATAATTATGTTAAATTATATTTTATAG-ATTATATA-T-TG-TTAATAATAAATTCA
* *
76239495 TTTAAGAATATTTAAATATTAAGAATTTTATTAAATTATATATTTCTATTAAATTAT
62 -TAAAGAATATTT-AATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
* * *
76239552 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATT-ATAATTTTATTAAATTCA
1 ATTTAATAATAATTATGTTAAATTATATTTTATAG-ATTATATATTGTTAA---TAATAAATTCA
76239616 TATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
62 TA-AAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
* * *
76239672 ATTTAATAATAATTATGTTAAATTATCTTTTA-A-ATTATTTATTGTTAATAATAATTTACCA-A
1 ATTTAATAATAATTATGTTAAATTATATTTTATAGATTATATATTGTTAATAATAAATT--CATA
* * * *
76239734 AACAAATTTCTGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAT
64 AA-GAATAT-T--TAA-TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
*
76239792 ATTTAATAAAAATTATGTTTAAAT
1 ATTTAATAATAATTATG-TTAAAT
76239816 ATGATTAAAT
Statistics
Matches: 352, Mismatches: 18, Indels: 29
0.88 0.05 0.07
Matches are distributed among these distances:
115 9 0.03
116 5 0.01
117 13 0.04
118 3 0.01
119 5 0.01
120 206 0.59
121 111 0.32
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (116 bp):
ATTTAATAATAATTATGTTAAATTATATTTTATAGATTATATATTGTTAATAATAAATTCATAAA
GAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTAT
Found at i:76239787 original size:18 final size:17
Alignment explanation
Indices: 76239759--76239793 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
76239749 ATTATTAAGA
*
76239759 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
76239776 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
76239794 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:76239793 original size:16 final size:16
Alignment explanation
Indices: 76239759--76239813 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
76239749 ATTATTAAGA
76239759 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
76239776 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
76239792 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
76239806 ATGTTTAA
1 AT-TTTAA
76239814 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:76239815 original size:241 final size:239
Alignment explanation
Indices: 76239311--76239815 Score: 718
Period size: 241 Copynumber: 2.1 Consensus size: 239
76239301 TGCAGTTTAA
*
76239311 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
1 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCAT
* *
76239376 TTAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
66 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAT
* * * * *
76239441 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATAT
131 AATTATGTTAAATTATATTTTATAG-ATTATATATTATGATTATAATAAATTCA-TAAAAAATAT
*
76239506 TTAAATATTAAGAATTTTATTAAATTATATATTTCTATTAAATTAT
194 TTAAATATTAAGAATTTTATTAAATTATATATTTCTATTAAAATAT
*
76239552 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTATTAAATTCAT
1 ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCAT
76239617 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAT
66 ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAT
* * *
76239682 AATTATGTTAAATTATCTTTTA-A-ATTATTTA-T-TG-TTAATAATAATTTACCA-AAACAAAT
131 AATTATGTTAAATTATATTTTATAGATTATATATTATGATT-ATAATAAATT--CATAAA-AAAT
* *
76239741 TTCTGCTAATTATTAAGAATTTTATTAAATTATATATTT-TAATTAAAATAT
192 AT-T--TAAATATTAAGAATTTTATTAAATTATATATTTCT-ATTAAAATAT
*
76239792 ATTTAATAAAAATTATGTTTAAAT
1 ATTTAATAATAATTAT-TTTAAAT
76239816 ATGATTAAAT
Statistics
Matches: 239, Mismatches: 16, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
235 2 0.01
236 11 0.05
237 5 0.02
238 10 0.04
239 1 0.00
240 57 0.24
241 153 0.64
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (239 bp):
ATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATAATTTTAGTAAATTCAT
ATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAT
AATTATGTTAAATTATATTTTATAGATTATATATTATGATTATAATAAATTCATAAAAAATATTT
AAATATTAAGAATTTTATTAAATTATATATTTCTATTAAAATAT
Found at i:76240050 original size:16 final size:16
Alignment explanation
Indices: 76240029--76240097 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
76240019 GATTTGCTAT
76240029 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
76240045 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
76240062 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
76240078 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
76240094 TACA
1 TACA
76240098 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:76240071 original size:33 final size:32
Alignment explanation
Indices: 76240029--76240097 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
76240019 GATTTGCTAT
76240029 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
76240062 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
76240094 TACA
1 TACA
76240098 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:76243692 original size:14 final size:15
Alignment explanation
Indices: 76243670--76243746 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
76243660 CAATCAAACA
76243670 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
76243684 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
76243699 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
76243719 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
76243733 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
76243747 ACTGGCTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:76243711 original size:20 final size:20
Alignment explanation
Indices: 76243686--76243725 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
76243676 AATATTTTCC
*
76243686 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
76243706 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
76243726 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Done.