Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 247 of 310
Found at i:81507391 original size:43 final size:43
Alignment explanation
Indices: 81507136--81507393 Score: 160
Period size: 43 Copynumber: 6.0 Consensus size: 43
81507126 TGGCGTTTTT
* ** * *
81507136 TAGAACATGACCTTTAGCGGCGTTTTTCAC-ACAAACGCTGCTA
1 TAGAACATGACATTTAGCGGCGCCTTT-ACTAAAAACGCCGCTA
* * * * * *
81507179 TAGAACATGACCTTTAGCAGCACTTTTCCTACAAACGCCGCTA
1 TAGAACATGACATTTAGCGGCGCCTTTACTAAAAACGCCGCTA
* * * * * * * ** *
81507222 TAGAATATGACTTTTAGCAGCACCTTTCCCATAAACTTCACTA
1 TAGAACATGACATTTAGCGGCGCCTTTACTAAAAACGCCGCTA
* *** * * *
81507265 TAGAACGTGACATTTAGCGGCATTTTTCCCACAAACGCCGCTA
1 TAGAACATGACATTTAGCGGCGCCTTTACTAAAAACGCCGCTA
* * *
81507308 TAGAACATGACATTTAGCGGTGCCTTTACTACAAATGCCGCTA
1 TAGAACATGACATTTAGCGGCGCCTTTACTAAAAACGCCGCTA
* * * **
81507351 TAGAACGTGAGC-TTTAGCTGCGCTTTTGTTAAAAACGCCGCTA
1 TAGAACATGA-CATTTAGCGGCGCCTTTACTAAAAACGCCGCTA
81507394 AATGTCATGT
Statistics
Matches: 174, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 172 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
TAGAACATGACATTTAGCGGCGCCTTTACTAAAAACGCCGCTA
Found at i:81507539 original size:19 final size:19
Alignment explanation
Indices: 81507504--81507541 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
81507494 TTTCTTGTAA
*
81507504 CAACCAACAAATACAAATC
1 CAACCAACAAACACAAATC
81507523 CAACCAA-AAACAGCAAATC
1 CAACCAACAAACA-CAAATC
81507542 TAAATAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.32, G:0.03, T:0.08
Consensus pattern (19 bp):
CAACCAACAAACACAAATC
Found at i:81511112 original size:9 final size:9
Alignment explanation
Indices: 81511099--81511185 Score: 58
Period size: 9 Copynumber: 9.9 Consensus size: 9
81511089 ATTTATGTTG
81511099 GTTATGTAA
1 GTTATGTAA
*
81511108 ATTATGTAA
1 GTTATGTAA
81511117 GTTATGTAA
1 GTTATGTAA
81511126 GTTATG-ACA
1 GTTATGTA-A
*
81511135 TTTATG-ATA
1 GTTATGTA-A
* *
81511144 -TAATATATA
1 GTTATGTA-A
*
81511153 TTTATGT--
1 GTTATGTAA
*
81511160 TTTATGTAA
1 GTTATGTAA
81511169 GTTATGTAA
1 GTTATGTAA
81511178 GTTATGTA
1 GTTATGTA
81511186 CGTTTGATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
7 7 0.11
8 4 0.06
9 49 0.77
10 4 0.06
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
GTTATGTAA
Found at i:81519017 original size:18 final size:18
Alignment explanation
Indices: 81518956--81519017 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
81518946 CGTATCAACA
*
81518956 TTATGTGAGGTATGTAAG
1 TTATGTAAGGTATGTAAG
* * * *
81518974 TTATGATATGATATAT-AT
1 TTATG-TAAGGTATGTAAG
81518992 TTATGTAAGGTATGTAAG
1 TTATGTAAGGTATGTAAG
81519010 TTATGTAA
1 TTATGTAA
81519018 TTTTAAAGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
17 7 0.21
18 20 0.61
19 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.44
Consensus pattern (18 bp):
TTATGTAAGGTATGTAAG
Found at i:81520397 original size:32 final size:31
Alignment explanation
Indices: 81520353--81520419 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 31
81520343 AAACAATGTG
*
81520353 ATATATAAATTTT-TATTTAATTTAATTATAT
1 ATATATAAATTTTAT-TTTAATTTAATTATAC
*
81520384 ATATATGAAATTTTATTTTTATTTAATTATAC
1 ATATAT-AAATTTTATTTTAATTTAATTATAC
81520416 ATAT
1 ATAT
81520420 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 6 0.19
32 25 0.78
33 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (31 bp):
ATATATAAATTTTATTTTAATTTAATTATAC
Found at i:81526924 original size:19 final size:19
Alignment explanation
Indices: 81526902--81526948 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
81526892 TTTTGATTTG
81526902 GGGAAAATTTAGGG-ATTAA
1 GGGAAAATTTAGGGAATT-A
*
81526921 GGG-AAATTTAGGGAATTC
1 GGGAAAATTTAGGGAATTA
81526939 GGGAAAATTT
1 GGGAAAATTT
81526949 GTTGGGGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.38, C:0.02, G:0.32, T:0.28
Consensus pattern (19 bp):
GGGAAAATTTAGGGAATTA
Found at i:81527392 original size:110 final size:110
Alignment explanation
Indices: 81527194--81527399 Score: 252
Period size: 110 Copynumber: 1.9 Consensus size: 110
81527184 GCTAATTACG
* * *
81527194 CTAAAGACGCTACCTAAAACGGTGCCGTTTTAGTTAAAGTAAAATATTTTTTGCAGTGTTTTTCT
1 CTAAAGACGCAACCTAAAACGGTGCCATTTTAGTTAAAGTAAAATATTTTTTGCAGAGTTTTTCT
** *
81527259 AGTAGTGCCACTAATGGTCGATCTATTGCGGCGCTTCTAAAGCCA
66 ACAAGGGCCACTAATGGTCGATCTATTGCGGCGCTTCTAAAGCCA
* * * * **
81527304 CTAAAGACGCAACTTAAAACGGTGCCATTTTATTTAAATTAAATTATTTTTTGTGGAGTTTTTC-
1 CTAAAGACGCAACCTAAAACGGTGCCATTTTAGTTAAAGTAAAATATTTTTTGCAGAGTTTTTCT
** * *
81527368 ACCAAGGGCTGCTAATGTTTGATCTATTGCGG
66 A-CAAGGGCCACTAATGGTCGATCTATTGCGG
81527400 TGTTTTTCAC
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
109 1 0.01
110 78 0.99
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (110 bp):
CTAAAGACGCAACCTAAAACGGTGCCATTTTAGTTAAAGTAAAATATTTTTTGCAGAGTTTTTCT
ACAAGGGCCACTAATGGTCGATCTATTGCGGCGCTTCTAAAGCCA
Found at i:81527730 original size:7 final size:7
Alignment explanation
Indices: 81527718--81527806 Score: 70
Period size: 7 Copynumber: 12.7 Consensus size: 7
81527708 CAAATTTTAT
81527718 CCCTAAA
1 CCCTAAA
81527725 CCCTAAA
1 CCCTAAA
*
81527732 GCCTAAA
1 CCCTAAA
* *
81527739 CACTAGA
1 CCCTAAA
81527746 CCCTAAA
1 CCCTAAA
* *
81527753 CCATATA
1 CCCTAAA
**
81527760 CATTAAA
1 CCCTAAA
*
81527767 TCCTAAA
1 CCCTAAA
81527774 CCCTAAA
1 CCCTAAA
** *
81527781 CTATACA
1 CCCTAAA
*
81527788 CTCTAAA
1 CCCTAAA
81527795 CCCTAAA
1 CCCTAAA
81527802 CCCTA
1 CCCTA
81527807 TATATATTAC
Statistics
Matches: 61, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:81527776 original size:28 final size:28
Alignment explanation
Indices: 81527734--81527806 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
81527724 ACCCTAAAGC
* *
81527734 CTAAACACTAGACCCTAAACCATATACA-T
1 CTAAACCCTAAACCCTAAA-C-TATACACT
*
81527763 -TAAATCCTAAACCCTAAACTATACACT
1 CTAAACCCTAAACCCTAAACTATACACT
81527790 CTAAACCCTAAACCCTA
1 CTAAACCCTAAACCCTA
81527807 TATATATTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 6 0.16
27 2 0.05
28 30 0.79
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.22
Consensus pattern (28 bp):
CTAAACCCTAAACCCTAAACTATACACT
Found at i:81527994 original size:21 final size:21
Alignment explanation
Indices: 81527966--81528017 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
81527956 TAACTATAAG
*
81527966 AAAC-TAAACCCCAAACCATA
1 AAACATAAACCACAAACCATA
* * *
81527986 AAACATAAATCATAAACCTTA
1 AAACATAAACCACAAACCATA
81528007 AAACACTAAAC
1 AAACA-TAAAC
81528018 TCTAAACCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACATAAACCACAAACCATA
Found at i:81528024 original size:50 final size:49
Alignment explanation
Indices: 81527969--81528073 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 49
81527959 CTATAAGAAA
* * *
81527969 CTAAACCCCAAACCATA-AAACA-TAAATCATAAACCTTAAAA-CACTAAACT
1 CTAAA-CCCAAA--ATACAAACATTAAACCATAAACCCTAAAACCA-TAAACC
81528019 CTAAACCCAAAATACTAAACATTAAACCATAAACCCTAAAACCATAAACC
1 CTAAACCCAAAATAC-AAACATTAAACCATAAACCCTAAAACCATAAACC
81528069 CTAAA
1 CTAAA
81528074 ACCTTAAACC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
47 3 0.06
49 11 0.23
50 32 0.67
51 2 0.04
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (49 bp):
CTAAACCCAAAATACAAACATTAAACCATAAACCCTAAAACCATAAACC
Found at i:81528062 original size:15 final size:15
Alignment explanation
Indices: 81528042--81528117 Score: 86
Period size: 15 Copynumber: 5.2 Consensus size: 15
81528032 ACTAAACATT
81528042 AAACCATAAACCCTA
1 AAACCATAAACCCTA
81528057 AAACCATAAACCCTA
1 AAACCATAAACCCTA
* *
81528072 AAACCTTAAA-CCTT
1 AAACCATAAACCCTA
* *
81528086 AAA-CATTAAATCTTA
1 AAACCA-TAAACCCTA
81528101 AAACC-TAAACCCTA
1 AAACCATAAACCCTA
81528115 AAA
1 AAA
81528118 TAAAATTATT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 1 0.02
14 20 0.39
15 29 0.57
16 1 0.02
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCATAAACCCTA
Found at i:81528066 original size:22 final size:21
Alignment explanation
Indices: 81527969--81528117 Score: 74
Period size: 22 Copynumber: 7.0 Consensus size: 21
81527959 CTATAAGAAA
* *
81527969 CTAAACCCCAAACCATAAAAC
1 CTAAAACCTAAACCATAAAAC
* * * *
81527990 ATAAATCATAAACCTTAAAAC
1 CTAAAACCTAAACCATAAAAC
81528011 ACT-AAACTCTAAACCCA-AAATA-
1 -CTAAAAC-CTAAA-CCATAAA-AC
* *
81528033 CT-AAACATTAAACCATAAACC
1 CTAAAAC-CTAAACCATAAAAC
*
81528054 CTAAAACCATAAACCCTAAAAC
1 CTAAAACC-TAAACCATAAAAC
* *
81528076 CTTAAACCTTAAA-CATTAAATC
1 CTAAAACC-TAAACCA-TAAAAC
* *
81528098 TTAAAACCTAAACCCTAAAA
1 CTAAAACCTAAACCATAAAA
81528118 TAAAATTATT
Statistics
Matches: 95, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
20 3 0.03
21 43 0.45
22 46 0.48
23 3 0.03
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
CTAAAACCTAAACCATAAAAC
Found at i:81528067 original size:7 final size:7
Alignment explanation
Indices: 81527978--81528089 Score: 52
Period size: 7 Copynumber: 15.6 Consensus size: 7
81527968 ACTAAACCCC
81527978 AAACCAT
1 AAACCAT
*
81527985 AAAACAT
1 AAACCAT
*
81527992 AAATCAT
1 AAACCAT
*
81527999 AAACCTT
1 AAACCAT
*
81528006 AAAACACT
1 AAACCA-T
81528014 AAACTC-T
1 AAAC-CAT
81528021 AAACCCA-
1 AAA-CCAT
*
81528028 AAA-TACT
1 AAACCA-T
81528035 AAA-CATT
1 AAACCA-T
81528042 AAACCAT
1 AAACCAT
*
81528049 AAACCCT
1 AAACCAT
81528056 AAAACCAT
1 -AAACCAT
*
81528064 AAACCCT
1 AAACCAT
*
81528071 AAAACCTT
1 -AAACCAT
*
81528079 AAACCTT
1 AAACCAT
81528086 AAAC
1 AAAC
81528090 ATTAAATCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 1 0.01
7 61 0.74
8 19 0.23
9 1 0.01
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:81528094 original size:7 final size:7
Alignment explanation
Indices: 81528034--81528116 Score: 60
Period size: 7 Copynumber: 11.6 Consensus size: 7
81528024 CCCAAAATAC
*
81528034 TAAACAT
1 TAAACCT
*
81528041 TAAACCA
1 TAAACCT
81528048 TAAACCCT
1 TAAA-CCT
* *
81528056 AAAACCA
1 TAAACCT
81528063 TAAACCCT
1 TAAA-CCT
*
81528071 AAAACCT
1 TAAACCT
81528078 TAAACCT
1 TAAACCT
*
81528085 TAAACAT
1 TAAACCT
*
81528092 TAAATCT
1 TAAACCT
81528099 TAAAACC-
1 T-AAACCT
*
81528106 TAAACCC
1 TAAACCT
81528113 TAAA
1 TAAA
81528117 ATAAAATTAT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
6 5 0.08
7 40 0.68
8 14 0.24
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCT
Found at i:81539449 original size:39 final size:39
Alignment explanation
Indices: 81539406--81539533 Score: 168
Period size: 39 Copynumber: 3.5 Consensus size: 39
81539396 ATGCACATGC
81539406 ACATGACATACACAACATCATTTTGATACAAAACAATAA
1 ACATGACATACACAACATCATTTTGATACAAAACAATAA
**
81539445 ACATGACATACACAACATCA---TG---C---AC-ATGC
1 ACATGACATACACAACATCATTTTGATACAAAACAATAA
81539474 ACATGACATACACAACATCATTTTGATACAAAACAATAA
1 ACATGACATACACAACATCATTTTGATACAAAACAATAA
81539513 ACATGACATACACAACATCAT
1 ACATGACATACACAACATCAT
81539534 GCACATGGCA
Statistics
Matches: 75, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
29 22 0.29
30 2 0.03
32 2 0.03
33 1 0.01
35 1 0.01
36 2 0.03
38 2 0.03
39 43 0.57
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (39 bp):
ACATGACATACACAACATCATTTTGATACAAAACAATAA
Found at i:81539450 original size:68 final size:68
Alignment explanation
Indices: 81539360--81539540 Score: 346
Period size: 68 Copynumber: 2.7 Consensus size: 68
81539350 TGCCATTCAG
*
81539360 TTTGATAC-AAATAATAAACATGACATACACAACATCATGCACATGCACATGACATACACAACAT
1 TTTGATACAAAACAATAAACATGACATACACAACATCATGCACATGCACATGACATACACAACAT
81539424 CAT
66 CAT
81539427 TTTGATACAAAACAATAAACATGACATACACAACATCATGCACATGCACATGACATACACAACAT
1 TTTGATACAAAACAATAAACATGACATACACAACATCATGCACATGCACATGACATACACAACAT
81539492 CAT
66 CAT
81539495 TTTGATACAAAACAATAAACATGACATACACAACATCATGCACATG
1 TTTGATACAAAACAATAAACATGACATACACAACATCATGCACATG
81539541 GCATACCAAA
Statistics
Matches: 112, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
67 8 0.07
68 104 0.93
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.22
Consensus pattern (68 bp):
TTTGATACAAAACAATAAACATGACATACACAACATCATGCACATGCACATGACATACACAACAT
CAT
Found at i:81540179 original size:21 final size:21
Alignment explanation
Indices: 81540153--81540193 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
81540143 CAACGTGATA
81540153 AGTTAACTAGCCACATCAGCT
1 AGTTAACTAGCCACATCAGCT
*
81540174 AGTTAACTTGCCACATCAGC
1 AGTTAACTAGCCACATCAGC
81540194 AATCCCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (21 bp):
AGTTAACTAGCCACATCAGCT
Found at i:81544896 original size:112 final size:112
Alignment explanation
Indices: 81544651--81544874 Score: 432
Period size: 112 Copynumber: 2.0 Consensus size: 112
81544641 GGTACCAAAG
*
81544651 TAGGAAAAAGTGTCAAGTTTAGGTACCAAATGTTATATTAAGCCTTTTAAAAAGGGTAAACTATA
1 TAGGAAAAAGTGTTAAGTTTAGGTACCAAATGTTATATTAAGCCTTTTAAAAAGGGTAAACTATA
81544716 CCATTAGTCACCCAACTATTAAAATATGTCTACTTTTTTCACCCAGA
66 CCATTAGTCACCCAACTATTAAAATATGTCTACTTTTTTCACCCAGA
81544763 TAGGAAAAAGTGTTAAGTTTAGGTACCAAATGTTATATTAAGCCTTTTAAAAAGGGTAAACTATA
1 TAGGAAAAAGTGTTAAGTTTAGGTACCAAATGTTATATTAAGCCTTTTAAAAAGGGTAAACTATA
81544828 CCATTAGTCACCCAACTATT-AAATATGTCTACTTTTTTCACCCAGA
66 CCATTAGTCACCCAACTATTAAAATATGTCTACTTTTTTCACCCAGA
81544874 T
1 T
81544875 CATAAAAGAT
Statistics
Matches: 111, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
111 27 0.24
112 84 0.76
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (112 bp):
TAGGAAAAAGTGTTAAGTTTAGGTACCAAATGTTATATTAAGCCTTTTAAAAAGGGTAAACTATA
CCATTAGTCACCCAACTATTAAAATATGTCTACTTTTTTCACCCAGA
Found at i:81545780 original size:30 final size:29
Alignment explanation
Indices: 81545745--81545801 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
81545735 GGATGAGATG
* *
81545745 GGGAGGAAGTAAAAGTTTTGGGGTGAAAGT
1 GGGAGGAAGTAAAAATTTAGGGG-GAAAGT
*
81545775 GGGAGGGAGTAAAAATTTAGGGGGAAA
1 GGGAGGAAGTAAAAATTTAGGGGGAAA
81545802 ATAAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (29 bp):
GGGAGGAAGTAAAAATTTAGGGGGAAAGT
Found at i:81546027 original size:9 final size:9
Alignment explanation
Indices: 81546013--81546049 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
81546003 TATAGTTTGA
81546013 TATTCGAAT
1 TATTCGAAT
81546022 TATTCGAAT
1 TATTCGAAT
**
81546031 TATTCGGGT
1 TATTCGAAT
81546040 TATTCGAAT
1 TATTCGAAT
81546049 T
1 T
81546050 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:81546278 original size:30 final size:29
Alignment explanation
Indices: 81546244--81546335 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 29
81546234 TTCAACCCTT
*
81546244 TTAATATTTACATATTCTATCAATTTGGTC
1 TTAAT-TTTACATATTCTATCAATTTAGTC
* * *
81546274 TTAATTTTAAATAATTCTATGAATTTAGCC
1 TTAATTTTACAT-ATTCTATCAATTTAGTC
* **
81546304 ATTAACTTTACACGTTCTATCAATTTAGTC
1 -TTAATTTTACATATTCTATCAATTTAGTC
81546334 TT
1 TT
81546336 GATTATTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 8 0.16
30 33 0.66
31 9 0.18
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.48
Consensus pattern (29 bp):
TTAATTTTACATATTCTATCAATTTAGTC
Found at i:81547870 original size:20 final size:20
Alignment explanation
Indices: 81547847--81547912 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
81547837 TTCTAAACTT
*
81547847 AATTTTTAAATATTTTTATT
1 AATTTTTAAATATTTTTATA
* *
81547867 AATTATTAATTATTTTT-TA
1 AATTTTTAAATATTTTTATA
**
81547886 AATTTATTTCATATTTTTATA
1 AATTT-TTAAATATTTTTATA
81547907 AATTTT
1 AATTTT
81547913 AATAATGTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 5 0.14
20 25 0.68
21 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTTAAATATTTTTATA
Found at i:81549156 original size:22 final size:21
Alignment explanation
Indices: 81549117--81549157 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
81549107 TATAGATACA
81549117 TATTTTATTTTTAGTTATTTT
1 TATTTTATTTTTAGTTATTTT
81549138 TATTTTATTTTCTAGTTATT
1 TATTTTATTTT-TAGTTATT
81549158 AATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
TATTTTATTTTTAGTTATTTT
Found at i:81549162 original size:20 final size:20
Alignment explanation
Indices: 81549118--81549167 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
81549108 ATAGATACAT
*
81549118 ATTTTATTTTTAGTTATTTTT
1 ATTTTATTTTTAGTTA-TTTA
81549139 ATTTTATTTTCTAGTTA-TTA
1 ATTTTATTTT-TAGTTATTTA
81549159 ATTTTATTT
1 ATTTTATTT
81549168 AAATTTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
ATTTTATTTTTAGTTATTTA
Found at i:81550829 original size:45 final size:42
Alignment explanation
Indices: 81550735--81550861 Score: 125
Period size: 45 Copynumber: 3.0 Consensus size: 42
81550725 TTTTCCCAAA
** *
81550735 TCACCGGCATT-TTTCCTGTTAGGCTCG-AGGCCCGACATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA-AT-AGT
81550777 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAG---T
** *
81550822 TCACCGGCATTATAGTTTGCTAAGCTC-AACGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-GGCCCGAATA
81550862 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 13 0.18
43 15 0.21
44 10 0.14
45 35 0.48
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (42 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT
Found at i:81551290 original size:127 final size:127
Alignment explanation
Indices: 81551064--81551313 Score: 500
Period size: 127 Copynumber: 2.0 Consensus size: 127
81551054 TTACCAATAT
81551064 GTTATACTTGCCATTAGGCCATATAAGCATGATACAATACACTATCATTTTATCTTTAACATTCG
1 GTTATACTTGCCATTAGGCCATATAAGCATGATACAATACACTATCATTTTATCTTTAACATTCG
81551129 GCTAAACCCTTATATTACAAGGAACACCGAATTCACATAACATATCATTTCACCGGCATTAC
66 GCTAAACCCTTATATTACAAGGAACACCGAATTCACATAACATATCATTTCACCGGCATTAC
81551191 GTTATACTTGCCATTAGGCCATATAAGCATGATACAATACACTATCATTTTATCTTTAACATTCG
1 GTTATACTTGCCATTAGGCCATATAAGCATGATACAATACACTATCATTTTATCTTTAACATTCG
81551256 GCTAAACCCTTATATTACAAGGAACACCGAATTCACATAACATATCATTTCACCGGCA
66 GCTAAACCCTTATATTACAAGGAACACCGAATTCACATAACATATCATTTCACCGGCA
81551314 CGAAGCCTGC
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (127 bp):
GTTATACTTGCCATTAGGCCATATAAGCATGATACAATACACTATCATTTTATCTTTAACATTCG
GCTAAACCCTTATATTACAAGGAACACCGAATTCACATAACATATCATTTCACCGGCATTAC
Found at i:81551367 original size:43 final size:43
Alignment explanation
Indices: 81551305--81551450 Score: 215
Period size: 43 Copynumber: 3.4 Consensus size: 43
81551295 ACATATCATT
*
81551305 TCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
81551348 TCACCGGCACTAAGACTGCTAGGCATGAAGGCCCAAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
81551391 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
81551433 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
81551451 GAGATTTATC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
41 15 0.16
42 2 0.02
43 76 0.82
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:81555322 original size:45 final size:44
Alignment explanation
Indices: 81555221--81555344 Score: 121
Period size: 45 Copynumber: 2.8 Consensus size: 44
81555211 TTTTCTCAAA
* *
81555221 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCGACATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGACATCAGT
* *
81555263 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCTGA-AT-AGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGACATCAG--T
** * *
81555307 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGA
81555345 AGAATCAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 12 0.18
43 16 0.24
44 8 0.12
45 31 0.46
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGACATCAGT
Found at i:81555745 original size:43 final size:43
Alignment explanation
Indices: 81555677--81555852 Score: 248
Period size: 43 Copynumber: 4.1 Consensus size: 43
81555667 CTGGCATTAC
* * *
81555677 GCCTGCTAGGCACGAAGGCCTGAATACATATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
* *
81555720 GCTTGCTAGGCACAAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
* *
81555763 GCCTACTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
* * *
81555806 GCCTGCTAGGCACGAAGGCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
81555847 GCCTGC
1 GCCTGC
81555853 GGGATTTATC
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 14 0.12
42 2 0.02
43 103 0.87
ACGTcount: A:0.31, C:0.32, G:0.23, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
Found at i:81577517 original size:21 final size:21
Alignment explanation
Indices: 81577478--81577518 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
81577468 ATCTGCTCAA
* *
81577478 ACTCCACCTGTTTTAGAGTAC
1 ACTCCACCTGCTGTAGAGTAC
*
81577499 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTAGAGTA
81577519 TCGCTCGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTAGAGTAC
Found at i:81584081 original size:37 final size:40
Alignment explanation
Indices: 81583999--81584082 Score: 113
Period size: 37 Copynumber: 2.2 Consensus size: 40
81583989 ACGACCAGTG
81583999 ACTCATC-GAACAATCCGAAGTAAATACATTGCGCCCAAC
1 ACTCATCGGAACAATCCGAAGTAAATACATTGCGCCCAAC
* * *
81584038 ACTCATCGGTACAA-CCGAAGTAAA-A-GTTGTGCCCAAC
1 ACTCATCGGAACAATCCGAAGTAAATACATTGCGCCCAAC
81584075 ACTCATCG
1 ACTCATCG
81584083 ACGCGTAGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
37 18 0.44
38 1 0.02
39 17 0.41
40 5 0.12
ACGTcount: A:0.36, C:0.30, G:0.15, T:0.19
Consensus pattern (40 bp):
ACTCATCGGAACAATCCGAAGTAAATACATTGCGCCCAAC
Found at i:81586078 original size:53 final size:53
Alignment explanation
Indices: 81585998--81586143 Score: 204
Period size: 53 Copynumber: 2.8 Consensus size: 53
81585988 TTTTATGTTG
* *
81585998 TAACCCACCAGTTACGGTTTTACATGATATGGTCTTCTTCCCATATGATGCCA
1 TAACCTACCAGTTACGGTCTTACATGATATGGTCTTCTTCCCATATGATGCCA
* * *
81586051 TAACC-ATCCAGTTACAGTCTTCCATGATATGGTCTTCTTACCATATGATGCCA
1 TAACCTA-CCAGTTACGGTCTTACATGATATGGTCTTCTTCCCATATGATGCCA
* * *
81586104 TAACCTACCAATTACGGTCTTACACGATATAGTCTTCTTC
1 TAACCTACCAGTTACGGTCTTACATGATATGGTCTTCTTC
81586144 AGTGTCATGG
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.98
54 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (53 bp):
TAACCTACCAGTTACGGTCTTACATGATATGGTCTTCTTCCCATATGATGCCA
Found at i:81586599 original size:16 final size:17
Alignment explanation
Indices: 81586573--81586605 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
81586563 AAATAATTAG
*
81586573 ATGCAAAATTATCCTAA
1 ATGCAAAATTAACCTAA
81586590 ATGC-AAATTAACCTAA
1 ATGCAAAATTAACCTAA
81586606 GTGTGACGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (17 bp):
ATGCAAAATTAACCTAA
Found at i:81589804 original size:19 final size:18
Alignment explanation
Indices: 81589772--81589820 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
81589762 TATAATTTGG
*
81589772 TTAA-TAATTAATTAATC
1 TTAATTAATTAATTAAAC
81589789 TTAATTAATCTAATTAAAC
1 TTAATTAAT-TAATTAAAC
*
81589808 ATAATTAAGTTAA
1 TTAATTAA-TTAA
81589821 ACATAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 4 0.15
19 18 0.67
20 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAATTAATTAATTAAAC
Found at i:81590928 original size:11 final size:11
Alignment explanation
Indices: 81590912--81590936 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
81590902 ATATGATATT
81590912 TTATTATTTTA
1 TTATTATTTTA
81590923 TTATTATTTTA
1 TTATTATTTTA
81590934 TTA
1 TTA
81590937 ATATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:81591033 original size:17 final size:17
Alignment explanation
Indices: 81591013--81591046 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
81591003 GAGAAGAGAA
81591013 GAAAGAAACTTTTCATT
1 GAAAGAAACTTTTCATT
81591030 GAAAGAAACTTTTCATT
1 GAAAGAAACTTTTCATT
81591047 CTTTACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
GAAAGAAACTTTTCATT
Found at i:81594584 original size:40 final size:40
Alignment explanation
Indices: 81594514--81594725 Score: 295
Period size: 40 Copynumber: 5.3 Consensus size: 40
81594504 ACTCAAGTAT
*
81594514 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
81594553 CTTCGGGTCTTAGCCCGAATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
81594593 CTTCGGGTCTTAGCCCGAATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
81594633 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
81594673 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
81594713 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
81594726 TCTGGTTATC
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 138 0.90
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:81607304 original size:65 final size:65
Alignment explanation
Indices: 81607196--81607329 Score: 252
Period size: 65 Copynumber: 2.1 Consensus size: 65
81607186 ATCCATTATT
*
81607196 CATA-AAGTATGTTGCATTGAAATAATGATGGATGAATTAAAATATCTTCACCAACGAAGTTTTG
1 CATATAAGTATGTTGCATTGAAATAATGATGGATGAATTAAAATATCTTCACAAACGAAGTTTTG
81607260 CATATAAGTATGTTGCATTGAAATAATGATGGATGAATTAAAATATCTTCACAAACGAAGTTTTG
1 CATATAAGTATGTTGCATTGAAATAATGATGGATGAATTAAAATATCTTCACAAACGAAGTTTTG
81607325 CATAT
1 CATAT
81607330 TACTCTGGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
64 4 0.06
65 64 0.94
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (65 bp):
CATATAAGTATGTTGCATTGAAATAATGATGGATGAATTAAAATATCTTCACAAACGAAGTTTTG
Found at i:81607925 original size:45 final size:45
Alignment explanation
Indices: 81607859--81608463 Score: 375
Period size: 45 Copynumber: 14.1 Consensus size: 45
81607849 CTTCATTGGG
** * *
81607859 GCAGATCCAAGAT-AGTGGATCTTATCTCTCTGTAATAGGCGGGGA
1 GCAGATCCAAGATGA-CAGATCTTATCTCTCTGTATTAGACGGGGA
* *
81607904 GCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTAGGCGGGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
* *
81607949 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
* * ** *
81607994 GTAGATCAAAGACAT-AGCAGATCCGA-C-CT-T-CA-T---C-GGG-
1 GCAGATCCAAG--ATGA-CAGATCTTATCTCTCTGTATTAGACGGGGA
* *
81608031 GCAAATCCAAGATGACAGATCTTATCTCTCTATATTAGACGGGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
* *
81608076 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
* * *
81608121 GCAGATCAAAGACAT-AGCAGATCTGA-C-CT-T-CA-T---C-GGG-
1 GCAGATCCAAG--ATGA-CAGATCTTATCTCTCTGTATTAGACGGGGA
* * *
81608158 GCAGATCCAAGATGACGGATCTTATCTCTCTGTAATAGACGAGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
*
81608203 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTTGACGGGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
* * * *
81608248 GCAGATCAAAGACAT-AGCAGATCTGA-C-CT-T-CA-T---C-GAG-
1 GCAGATCCAAG--ATGA-CAGATCTTATCTCTCTGTATTAGACGGGGA
* * *
81608285 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
* * * *
81608330 GTAGATCAAAGACAT-AGCAGATCTGA-C-CT-T-CA-T---C-GGG-
1 GCAGATCCAAG--ATGA-CAGATCTTATCTCTCTGTATTAGACGGGGA
* * *
81608367 GCAGATCCAAGATGAC-GAATCTTATCTCTCTGTAATGGATGGGGA
1 GCAGATCCAAGATGACAG-ATCTTATCTCTCTGTATTAGACGGGGA
* * *
81608412 GCAGATCCAAATATGACAGATCTTATCTCTCTGTATTTGACGGAGA
1 GCAGATCC-AAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
*
81608458 GTAGAT
1 GCAGAT
81608464 TGAAGACATA
Statistics
Matches: 439, Mismatches: 61, Indels: 119
0.71 0.10 0.19
Matches are distributed among these distances:
34 1 0.00
35 35 0.08
36 8 0.02
37 45 0.10
38 14 0.03
39 8 0.02
40 4 0.01
42 4 0.01
43 7 0.02
44 13 0.03
45 217 0.49
46 44 0.10
47 39 0.09
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (45 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGA
Found at i:81608039 original size:127 final size:127
Alignment explanation
Indices: 81607904--81608341 Score: 714
Period size: 127 Copynumber: 3.4 Consensus size: 127
81607894 TAGGCGGGGA
* *
81607904 GCAGATCCAAGATGAAAGATCTTATCTCTCTGTATTAGGCGGGGAGCAGATCCAAGATGACAGAT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGAGCAGATCCAAGATGACAGAT
* * *
81607969 CTTATCTCTCTGTATTCGACAGGGAGTAGATCAAAGACATAGCAGATCCGACCTTCATCGGG
66 CTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGG
* * *
81608031 GCAAATCCAAGATGACAGATCTTATCTCTCTATATTAGACGGGGAGCAGATCTAAGATGACAGAT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGAGCAGATCCAAGATGACAGAT
81608096 CTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGG
66 CTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGG
* * *
81608158 GCAGATCCAAGATGACGGATCTTATCTCTCTGTAATAGACGAGGAGCAGATCCAAGATGACAGAT
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGAGCAGATCCAAGATGACAGAT
* *
81608223 CTTATCTCTCTGTATTTGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAG
66 CTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGG
* * * * *
81608285 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGTAGATCAAAGA
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGAGCAGATCCAAGA
81608342 CATAGCAGAT
Statistics
Matches: 291, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 291 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (127 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTAGACGGGGAGCAGATCCAAGATGACAGAT
CTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGGG
Found at i:81608291 original size:209 final size:210
Alignment explanation
Indices: 81608076--81608475 Score: 676
Period size: 209 Copynumber: 1.9 Consensus size: 210
81608066 TAGACGGGGA
* *
81608076 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATAGCAG
*
81608141 ATCTGACCTTCATCGGGGCAGATCCAAGATGACGGATCTTATCTCTCTGTAATAGACGAGGAGCA
66 ATCTGACCTTCATCGGGGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATAGACGAGGAGCA
*
81608206 GATCC-AAGATGACAGATCTTATCTCTCTGTATTTGACGGGGAGCAGATCAAAGACATAGCAGAT
131 GATCCAAAGATGACAGATCTTATCTCTCTGTATTTGACGGAGAGCAGATCAAAGACATAGCAGAT
81608270 CTGACCTTCATCGAG
196 CTGACCTTCATCGAG
* *
81608285 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGTAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATAGCAG
* * *
81608350 ATCTGACCTTCATCGGGGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATGGATGGGGAGCA
66 ATCTGACCTTCATCGGGGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATAGACGAGGAGCA
* * **
81608415 GATCCAAATATGACAGATCTTATCTCTCTGTATTTGACGGAGAGTAGATTGAAGACATAGC
131 GATCCAAAGATGACAGATCTTATCTCTCTGTATTTGACGGAGAGCAGATCAAAGACATAGC
81608476 TGATTTGGCT
Statistics
Matches: 177, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
209 127 0.72
210 50 0.28
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATAGCAG
ATCTGACCTTCATCGGGGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATAGACGAGGAGCA
GATCCAAAGATGACAGATCTTATCTCTCTGTATTTGACGGAGAGCAGATCAAAGACATAGCAGAT
CTGACCTTCATCGAG
Found at i:81608336 original size:82 final size:82
Alignment explanation
Indices: 81608203--81608418 Score: 342
Period size: 82 Copynumber: 2.6 Consensus size: 82
81608193 TAGACGAGGA
* * *
81608203 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTTGACGGGGAGCAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATAGCAG
81608268 ATCTGACCTTCATCGAG
66 ATCTGACCTTCATCGAG
*
81608285 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGTAGATCAAAGACATAGCAG
1 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATAGCAG
*
81608350 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGAG
* * * * *
81608367 GCAGATCCAAGATGACGAATCTTATCTCTCTGTAATGGATGGGGAGCAGATC
1 GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGCAGATC
81608419 CAAATATGAC
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 123 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (82 bp):
GCAGATCCAAGATGACGGATCTTATCTCTCTGTATTCGACGAGGAGCAGATCAAAGACATAGCAG
ATCTGACCTTCATCGAG
Found at i:81608418 original size:254 final size:254
Alignment explanation
Indices: 81607793--81608446 Score: 778
Period size: 254 Copynumber: 2.6 Consensus size: 254
81607783 TGAAGATAGT
* *
81607793 GGATCTTATCTCTCTGTATTCGACGGGGAGCAGAACAAAGACATAGCAGATCTGACCTTCATTGG
1 GGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGG
* * * *
81607858 GGCAGATCCAAGAT-AGTGGATCTTATCTCTCTGTAATAGG-CGGGGAGCAGATCCAAGATGAAA
66 GGCAGATCCAAGATGA-CGAATCTTATCTCTCTGTAAT-GGATGGGGAGCAGATCCAAGATGACA
* * *
81607921 GATCTTATCTCTCTGTATTAGGCGGGGAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
129 GATCTTATCTCTCTGTAATAGACGAGGAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTC
* *
81607986 GACAGGGAGTAGATCAAAGACATAGCAGATCCGACCTTCATCGGGGCAAATCCAAGATGAC
194 GACAGGGAGCAGATCAAAGACATAGCAGATCCGACCTTCATCGAGGCAAATCCAAGATGAC
* * * * * *
81608047 AGATCTTATCTCTCTATATTAGACGGGGAGCAGATCTAAG--AT-GACAGATCTTATCTCTCTGT
1 GGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAG-CAGATCTGA-C-CT-T-C
* ** ** * * *
81608109 ATTCGACGGGGAGCAGAT-CAA-A-GAC-ATAGCAGATCTGAC-CT--T-CATCGGG-GCAGATC
61 A-T---C-GGG-GCAGATCCAAGATGACGA-ATCTTATCTCTCTGTAATGGATGGGGAGCAGATC
*
81608165 CAAGATGACGGATCTTATCTCTCTGTAATAGACGAGGAGCAGATCCAAGATGACAGATCTTATCT
119 CAAGATGACAGATCTTATCTCTCTGTAATAGACGAGGAGCAGATCCAAGATGACAGATCTTATCT
* * * *
81608230 CTCTGTATTTGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGAGGCAGATCCAA
184 CTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCAGATCCGACCTTCATCGAGGCAAATCCAA
81608295 GATGAC
249 GATGAC
* *
81608301 GGATCTTATCTCTCTGTATTCGACGAGGAGTAGATCAAAGACATAGCAGATCTGACCTTCATCGG
1 GGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGG
*
81608366 GGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATGGATGGGGAGCAGATCCAAATATGACAG
66 GGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATGGATGGGGAGCAGATCC-AAGATGACAG
81608431 ATCTTATCTCTCTGTA
130 ATCTTATCTCTCTGTA
81608447 TTTGACGGAG
Statistics
Matches: 325, Mismatches: 48, Indels: 53
0.76 0.11 0.12
Matches are distributed among these distances:
246 6 0.02
247 6 0.02
248 2 0.01
249 10 0.03
250 2 0.01
251 2 0.01
252 12 0.04
253 7 0.02
254 213 0.66
255 29 0.09
256 12 0.04
257 2 0.01
258 1 0.00
259 7 0.02
260 2 0.01
261 6 0.02
262 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (254 bp):
GGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATCGG
GGCAGATCCAAGATGACGAATCTTATCTCTCTGTAATGGATGGGGAGCAGATCCAAGATGACAGA
TCTTATCTCTCTGTAATAGACGAGGAGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGA
CAGGGAGCAGATCAAAGACATAGCAGATCCGACCTTCATCGAGGCAAATCCAAGATGAC
Found at i:81620003 original size:4 final size:4
Alignment explanation
Indices: 81619994--81620071 Score: 66
Period size: 4 Copynumber: 18.0 Consensus size: 4
81619984 GAATCCTTAC
* * *
81619994 AATT AATT AATT AACT AATT AATTT TATT AATT AAATTT AATT AACT AATTT
1 AATT AATT AATT AATT AATT AA-TT AATT AATT -AA-TT AATT AATT AA-TT
*
81620046 TATT AATT AAATTT AATT AATT AATT
1 AATT AATT -AA-TT AATT AATT AATT
81620072 TTTCTTTCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
4 43 0.72
5 13 0.22
6 4 0.07
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:81620043 original size:27 final size:27
Alignment explanation
Indices: 81619995--81620073 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
81619985 AATCCTTACA
*
81619995 ATTAATT-AA-TTAACTAATTAATTTT
1 ATTAATTAAATTTAATTAATTAATTTT
*
81620020 ATTAATTAAATTTAATTAACTAATTTT
1 ATTAATTAAATTTAATTAATTAATTTT
81620047 ATTAATTAAATTTAATTAATTAATTTT
1 ATTAATTAAATTTAATTAATTAATTTT
81620074 TCTTTCATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
25 7 0.14
26 2 0.04
27 40 0.82
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTAATTAAATTTAATTAATTAATTTT
Found at i:81624676 original size:20 final size:19
Alignment explanation
Indices: 81624640--81624693 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
81624630 ATTTTAAAAA
*
81624640 ATAAA-ATTTGGAATTTTT
1 ATAAATATTTTGAATTTTT
81624658 ATAAATATTTTGAATTTTT
1 ATAAATATTTTGAATTTTT
*
81624677 AAAAATTATTTT-AATTT
1 ATAAA-TATTTTGAATTT
81624694 CTTTTTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.66
20 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.54
Consensus pattern (19 bp):
ATAAATATTTTGAATTTTT
Found at i:81629418 original size:46 final size:44
Alignment explanation
Indices: 81629368--81629484 Score: 164
Period size: 46 Copynumber: 2.6 Consensus size: 44
81629358 GAGAGCTAGC
*
81629368 GTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGTAAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCG-CCTACAAGATG--AGCCAGT
*
81629414 GTAAGACATGTCTGGGACATGCATCGGCTACAAGATGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGCCTACAAGATGAGCCAGT
81629458 GTAAGACCATGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
81629485 AGCATCCCAC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
44 13 0.20
45 16 0.24
46 37 0.56
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (44 bp):
GTAAGACATGTCTGGGACATGCATCGCCTACAAGATGAGCCAGT
Found at i:81643943 original size:38 final size:38
Alignment explanation
Indices: 81643892--81644011 Score: 114
Period size: 48 Copynumber: 2.9 Consensus size: 38
81643882 ATGAAAAACA
81643892 TGGTGCTAAGTGGATATACAACGGTTATACATGTAACG
1 TGGTGCTAAGTGGATATACAACGGTTATACATGTAACG
**
81643930 TGGTGCTAAGTGGATATACCTCGATTACACATATTGATACATGTAACG
1 TGGTGCTAAGTGGATATA---C----A-AC-GGTT-ATACATGTAACG
* *
81643978 TGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 TGGTGCTAAGTGGATATACAACGGTTATACATGT
81644012 TAATTTGAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
38 26 0.39
39 2 0.03
40 2 0.03
41 1 0.02
45 2 0.03
46 2 0.03
47 2 0.03
48 29 0.44
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATACAACGGTTATACATGTAACG
Found at i:81656677 original size:20 final size:21
Alignment explanation
Indices: 81656642--81656680 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
81656632 GTTACACTTT
81656642 GGTGTCTCTGATTTGCACTAC
1 GGTGTCTCTGATTTGCACTAC
81656663 GGTGTCTCT-ATTTGCACT
1 GGTGTCTCTGATTTGCACT
81656681 TTAGTGCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (21 bp):
GGTGTCTCTGATTTGCACTAC
Found at i:81658668 original size:2 final size:2
Alignment explanation
Indices: 81658655--81658688 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
81658645 ATATGTAATA
*
81658655 TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
81658689 AAAGGTTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:81664767 original size:21 final size:21
Alignment explanation
Indices: 81664741--81664784 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
81664731 TTAAAACCTT
*
81664741 ATTTTAAGATTGATAGCAGGA
1 ATTTTAAGATTGATAGAAGGA
81664762 ATTTTAAGATTGATAGAAGGA
1 ATTTTAAGATTGATAGAAGGA
81664783 AT
1 AT
81664785 GAGGAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTTTAAGATTGATAGAAGGA
Found at i:81671906 original size:16 final size:16
Alignment explanation
Indices: 81671849--81671909 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
81671839 CTCACAAATG
81671849 TACTGCAAGAATAACT
1 TACTGCAAGAATAACT
* * * *
81671865 TA-GGCATGATTTTACT
1 TACTGCAAGA-ATAACT
*
81671881 TAAT-CAAGAATAACT
1 TACTGCAAGAATAACT
81671896 TACTGCAAGAATAA
1 TACTGCAAGAATAA
81671910 TTTGAACAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (16 bp):
TACTGCAAGAATAACT
Found at i:81683416 original size:29 final size:29
Alignment explanation
Indices: 81683382--81683438 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
81683372 AAAAATATGT
*
81683382 ATAAATTATGGTTTATCAACAACCATGAC
1 ATAAATTACGGTTTATCAACAACCATGAC
81683411 ATAAATTACGGTTTATCAACAACCATGA
1 ATAAATTACGGTTTATCAACAACCATGA
81683439 TTTATTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (29 bp):
ATAAATTACGGTTTATCAACAACCATGAC
Found at i:81702472 original size:5 final size:5
Alignment explanation
Indices: 81702462--81702495 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
81702452 AAGCTAAACA
* *
81702462 CACCG CACCG CACCG CACCG TACCG CACCT CACC
1 CACCG CACCG CACCG CACCG CACCG CACCG CACC
81702496 CAACCAAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.21, C:0.59, G:0.15, T:0.06
Consensus pattern (5 bp):
CACCG
Found at i:81705069 original size:65 final size:64
Alignment explanation
Indices: 81704965--81705104 Score: 192
Period size: 65 Copynumber: 2.2 Consensus size: 64
81704955 AGGGCTTATG
* * * *
81704965 TTTAGGGATTTGTGGTTTGATTAGGGTTTAGGAAAAATTAAATTAGGGTATTATGTTTTTAATTT
1 TTTAGGGTTTTGTGGTTTGATTAGAGTTTAGGAAAAATTAAA-TAGGGTATTAGGTTTTTAATTA
* *
81705030 TTTAGGGTTTTG-GTGTTTGGTTAGAGTTTAGGGAAAATTAAATAGGGTATTAGGTTTTTAATTA
1 TTTAGGGTTTTGTG-GTTTGATTAGAGTTTAGGAAAAATTAAATAGGGTATTAGGTTTTTAATTA
*
81705094 TTTAAGGTTTT
1 TTTAGGGTTTT
81705105 AAGGTTTAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
64 31 0.46
65 36 0.54
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (64 bp):
TTTAGGGTTTTGTGGTTTGATTAGAGTTTAGGAAAAATTAAATAGGGTATTAGGTTTTTAATTA
Found at i:81705103 original size:64 final size:65
Alignment explanation
Indices: 81704979--81705104 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 65
81704969 GGGATTTGTG
* * * *
81704979 GTTTGATTAGGGTTTAGGAAAAATTAAATTAGGGTATTATGTTTTTAATTTTTTAGGGTTTTGGT
1 GTTTGATTAGAGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTTGGT
* *
81705044 GTTTGGTTAGAGTTTAGGGAAAATTAAA-TAGGGTATTAGGTTTTTAATTATTTAAGGTTTT
1 GTTTGATTAGAGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTT
81705105 AAGGTTTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
64 30 0.55
65 25 0.45
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.48
Consensus pattern (65 bp):
GTTTGATTAGAGTTTAGGAAAAATTAAATTAGGGTATTAGGTTTTTAATTATTTAAGGTTTTGGT
Found at i:81705214 original size:29 final size:29
Alignment explanation
Indices: 81705148--81705221 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
81705138 TTTGGGAAAT
*
81705148 ATAATTTTGACGAGATGGGTTTTGAAAAA
1 ATAATTTTGACGAGATGGGTTCTGAAAAA
* * * *
81705177 ATAAATTTGGCGTGATGTGTTCTGAAAAA
1 ATAATTTTGACGAGATGGGTTCTGAAAAA
*
81705206 ATTATTTTGACGAGAT
1 ATAATTTTGACGAGAT
81705222 AGATTTTATT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.36
Consensus pattern (29 bp):
ATAATTTTGACGAGATGGGTTCTGAAAAA
Found at i:81707206 original size:31 final size:31
Alignment explanation
Indices: 81707161--81707223 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
81707151 TTGAGTTCAA
*
81707161 CTTGCACCCTCGGCCTATATTGGCCACGAGC
1 CTTGCACCCCCGGCCTATATTGGCCACGAGC
*
81707192 CTTGCCCCCCCGGCCTATATTGGCCACGAGC
1 CTTGCACCCCCGGCCTATATTGGCCACGAGC
81707223 C
1 C
81707224 AAAACCTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.14, C:0.43, G:0.22, T:0.21
Consensus pattern (31 bp):
CTTGCACCCCCGGCCTATATTGGCCACGAGC
Found at i:81709431 original size:36 final size:36
Alignment explanation
Indices: 81709390--81709461 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
81709380 AGGTTAAATC
81709390 GAATTTTATAATTTTAGGGGCTAAAATATAATTTTA
1 GAATTTTATAATTTTAGGGGCTAAAATATAATTTTA
* *
81709426 GAATTTTATAATTTTAGGGGTTAAAGTATAATTTTA
1 GAATTTTATAATTTTAGGGGCTAAAATATAATTTTA
81709462 TTTTTATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (36 bp):
GAATTTTATAATTTTAGGGGCTAAAATATAATTTTA
Found at i:81712385 original size:281 final size:281
Alignment explanation
Indices: 81711227--81712616 Score: 1510
Period size: 281 Copynumber: 4.9 Consensus size: 281
81711217 TAACATTTAG
* * *
81711227 AAATATTGTAATTATTATAAAATAGTGAATATT-GACGCCATAATTTAGACGTATCCTAAATTAT
1 AAATATAGTAATTATTATAAAATAATGAATATTAG-CGCCATAATTTAGACCTATCCTAAATTAT
* ** * *
81711291 AGTGTTATAACTTAAATCTAAATATTTTGTTTATTTATC-TTTACTAAAACTTTCTTTAAGCTTA
65 AGCGTTATAACTTAAATCTAAATATTACGTTTATTTA-CACTTACTAAATCTTTCTTTAAGCTTA
* * *****
81711355 ACATCAAGAATGACGT-AATTCAATTGTAAAAATTATTAAACATAAAATTAAAAAAAAGAATAAT
129 ACATCATGAATGACGTCAATTCAATTGTAGAAATTATTAAACAT-AAATTTTTTTAAA-AA-AAT
* * * * * *
81711419 ATTATTGTTTAAATCTAAACATTAATTTCATTTTTTACTTACTAAATTTATAATTAATCTTAACG
191 ATTATTGTTTAAATCTAAACATTAATTCCA-TTTTTACTTACTAAATCTATCATTGAGCTTAACA
* * * *
81711484 TCACCAATAACCGTCAATTAAATTTTAA
255 TGACCAATGA-CGTCAACTAAATTATAA
* * * * * ** **
81711512 AAATATTGTAAAT-TTATAAAATAATAAATAATTA-TGTCATAAACTAGATTTATCCTAAATTAT
1 AAATATAGTAATTATTATAAAATAATGAAT-ATTAGCGCCATAATTTAGACCTATCCTAAATTAT
* ** * * * *
81711575 CA-CTTTATTGCTTAAATCTAAACATTAC-TTTCATTTATACTTACTGAATTTTTCTTTAAGCTT
65 -AGCGTTATAACTTAAATCTAAATATTACGTTT-ATTTACACTTACTAAATCTTTCTTTAAGCTT
* * * * * * *
81711638 TAGATCATGAATCACATCAATTCAATTGTAGAAATTATTAAACATTATTTTTTTTTAAAAAA-AT
128 AACATCATGAATGACGTCAATTCAATTGTAGAAATTATTAAACATAAATTTTTTTAAAAAAATAT
** * * * *
81711702 TATTGTTTAAATCTAAACATTAATTTTATTTTTACTCACTAAATATATCATTTAGCTTAATATGA
193 TATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGA
* * *
81711767 CAAATGACGTCAAGTATATTATAA
258 CCAATGACGTCAACTAAATTATAA
* * * * *
81711791 AGATGTAGTAATTATCAT-AAATAATGAATATTAGTGCCATAATTTAGACCTAACCTAAATTATA
1 AAATATAGTAATTATTATAAAATAATGAATATTAGCGCCATAATTTAGACCTATCCTAAATTATA
* *
81711855 -CTGTTATAACTTAAATCTAAATATTACGTTTGTTTGCACTTACTAAATCTTTCTTTAAGCTTAA
66 GC-GTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAA
* * * *
81711919 CATCATGAATGACGTTAACTCAATTGTAGAAATGATTAAACATAATTTTTTTACTTACTAAAAAT
130 CATCATGAATGACGTCAATTCAATTGTAGAAATTATTAAACATAA--ATTTT--TT--TAAAAA-
* * *
81711984 AATATTATTGTTTAAATCGAAACATTGATTCTATTTTTACTTACTAAATCTATCATTGAGCTTAA
188 AATATTATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAA
81712049 CATGACCAATTGA-GTCAACTAAATTATAA
253 CATGACCAA-TGACGTCAACTAAATTATAA
* * * *
81712078 AAATATAATAATTATCATAAAATAATGAATATTGGCGCCATGATTTAGACCTATCCTAAATTATA
1 AAATATAGTAATTATTATAAAATAATGAATATTAGCGCCATAATTTAGACCTATCCTAAATTATA
* * * * * * *
81712143 GGGTTCTAACTTGAATCTACATATTCCATTTATTTACACTTACTAAATCTTTTTTTAAGCTTAAC
66 GCGTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
* * **
81712208 ATTATGAATGACATCAACCCAATTGTAGAAATTATTAAACATAAATTTTTTTAAAAAAATATTAT
131 ATCATGAATGACGTCAATTCAATTGTAGAAATTATTAAACATAAATTTTTTTAAAAAAATATTAT
* *
81712273 TGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATTATCGAGCTTAACATGACCA
196 TGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCA
81712338 ATGACGTCAACTAAATTATAA
261 ATGACGTCAACTAAATTATAA
* *
81712359 AGATATAGTAATTATTATAAAATAATGAATATTAGCCCCATAATTTAGACCTATCCTAAATTATA
1 AAATATAGTAATTATTATAAAATAATGAATATTAGCGCCATAATTTAGACCTATCCTAAATTATA
* * * * * * *
81712424 GCATTATGACTTTAATCTAAATATCACTTTTATTTATACTTACTAAATCTTTCTTTATGCTTAAC
66 GCGTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
* * * ****
81712489 ATAATAAATCG-CGTCAATTCAATTGAAGAAATTATTAAACATAAATTTAAAAAAAAAATAGTAT
131 ATCATGAAT-GACGTCAATTCAATTGTAGAAATTATTAAACATAAATTTTTTTAAAAAA-A-TAT
* * * * *
81712553 TATTGTTTAAATCTAAACATTAATTCCA-TTTTATTTATTAATTCTATTATTGAGCTTGACATGA
193 TATTGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGA
81712617 TGGATGTAGT
Statistics
Matches: 931, Mismatches: 149, Indels: 53
0.82 0.13 0.05
Matches are distributed among these distances:
278 6 0.01
279 142 0.15
280 43 0.05
281 277 0.30
282 41 0.04
283 38 0.04
284 100 0.11
285 47 0.05
286 6 0.01
287 92 0.10
288 139 0.15
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (281 bp):
AAATATAGTAATTATTATAAAATAATGAATATTAGCGCCATAATTTAGACCTATCCTAAATTATA
GCGTTATAACTTAAATCTAAATATTACGTTTATTTACACTTACTAAATCTTTCTTTAAGCTTAAC
ATCATGAATGACGTCAATTCAATTGTAGAAATTATTAAACATAAATTTTTTTAAAAAAATATTAT
TGTTTAAATCTAAACATTAATTCCATTTTTACTTACTAAATCTATCATTGAGCTTAACATGACCA
ATGACGTCAACTAAATTATAA
Found at i:81713318 original size:1 final size:1
Alignment explanation
Indices: 81713252--81713301 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
81713242 CAAGGAAACG
* ****
81713252 AAAAAAAAAAAAAAAAAAAAAAAAGAAANNNNAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
81713302 CAAGTGAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.00, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:81715552 original size:15 final size:15
Alignment explanation
Indices: 81715519--81715613 Score: 61
Period size: 15 Copynumber: 6.5 Consensus size: 15
81715509 GCTTGATATA
*
81715519 GATGACGATGAAGAA
1 GATGACGATGAAGAT
*
81715534 GATGACGATGATGAT
1 GATGACGATGAAGAT
*
81715549 GATGA-G--GAAGAG
1 GATGACGATGAAGAT
* * *
81715561 GATGATGAGGAAGAG
1 GATGACGATGAAGAT
* ** *
81715576 GATGAGGATGCTGAC
1 GATGACGATGAAGAT
* *
81715591 GATGAGGATGAGGAT
1 GATGACGATGAAGAT
81715606 GATGACGA
1 GATGACGA
81715614 AGGAAGTAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
12 9 0.14
13 1 0.02
14 1 0.02
15 53 0.83
ACGTcount: A:0.37, C:0.05, G:0.41, T:0.17
Consensus pattern (15 bp):
GATGACGATGAAGAT
Found at i:81715611 original size:21 final size:21
Alignment explanation
Indices: 81715573--81715613 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
81715563 TGATGAGGAA
*
81715573 GAGGATGAGGATGCTGACGAT
1 GAGGATGAGGATGATGACGAT
81715594 GAGGATGAGGATGATGACGA
1 GAGGATGAGGATGATGACGA
81715614 AGGAAGTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.44, T:0.17
Consensus pattern (21 bp):
GAGGATGAGGATGATGACGAT
Found at i:81726067 original size:52 final size:55
Alignment explanation
Indices: 81725941--81726085 Score: 161
Period size: 52 Copynumber: 2.7 Consensus size: 55
81725931 ATTAGGGTTT
* *
81725941 AAGGATACCAAGTAAGACCATGTCAAGACATGGCATTGATAAACTATGATAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGATAAACTATCATAAGGC
** * * * * * *
81725996 AAATATCCCATGTAAGACCATGCCAAGGCATGGCAATG-T-GAGT-TCATAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGATAAACTATCATAAGGC
* *
81726048 AAGGATACCACGTAAGACCATGTCAAGACATGTCAATG
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATG
81726086 GTAAGTTTAA
Statistics
Matches: 73, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
52 39 0.53
53 2 0.03
54 1 0.01
55 31 0.42
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (55 bp):
AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGATAAACTATCATAAGGC
Found at i:81726382 original size:37 final size:37
Alignment explanation
Indices: 81726323--81726398 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
81726313 CGGAAAATCG
* *
81726323 TAAGGACATCAGATATCACCTCACTCTATCAATGAGC
1 TAAGGACATCAGAGATCACCTCACTCTATCAACGAGC
*
81726360 TAAGGACATCAGAGATCGCCTCACTCTATCAACGAGC
1 TAAGGACATCAGAGATCACCTCACTCTATCAACGAGC
81726397 TA
1 TA
81726399 TCTCGGTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (37 bp):
TAAGGACATCAGAGATCACCTCACTCTATCAACGAGC
Found at i:81728598 original size:45 final size:45
Alignment explanation
Indices: 81728545--81728762 Score: 215
Period size: 45 Copynumber: 4.8 Consensus size: 45
81728535 TACCAGAAAT
* * *
81728545 GAGTAAGACCATGACTTAAAGACATTATGACATCATGATTCTAAC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
* * **
81728590 GAGCAAGACCATGACTGAAATATGTTATGGCATCATGATTCTATC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
* *
81728635 GGGTAAGACCATGACCGAAAGACATTATGGCATCATGATTCTATC
1 GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
* * ** * **
81728680 GAGTAAAACCAT-AGCTCAAAGACGCTATGGCATCATGAATC-AAA
1 GAGTAAGACCATGA-CTGAAAGACATTATGGCATCATGATTCTATC
* ** * *
81728724 GAAATAAGACCATGGTTGAAAGACACTATGGCAACATGA
1 G-AGTAAGACCATGACTGAAAGACATTATGGCATCATGA
81728763 CGAAAAATGA
Statistics
Matches: 141, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
44 3 0.02
45 138 0.98
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACATTATGGCATCATGATTCTATC
Found at i:81728836 original size:45 final size:46
Alignment explanation
Indices: 81728725--81728840 Score: 180
Period size: 46 Copynumber: 2.5 Consensus size: 46
81728715 TGAATCAAAG
* *
81728725 AAATAAGACCATGGTTGAAAGACACTATGGCAACATGACGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTAGGGCAACAAGACGAAAAAT
* * *
81728771 GAATAAGACCATGGTTGAAAGACACTAGGGCATCAAGAC-AAGAAT
1 AAATAAGACCATGGTTGAAAGACACTAGGGCAACAAGACGAAAAAT
81728816 AAATAAGACCATGGTTGAAAGACAC
1 AAATAAGACCATGGTTGAAAGACAC
81728841 CATGACACAC
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
45 29 0.45
46 35 0.55
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (46 bp):
AAATAAGACCATGGTTGAAAGACACTAGGGCAACAAGACGAAAAAT
Found at i:81730844 original size:11 final size:11
Alignment explanation
Indices: 81730830--81730870 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
81730820 TATTTTCTCC
81730830 CTATTTTGCTA
1 CTATTTTGCTA
*
81730841 CTATTTTACTA
1 CTATTTTGCTA
* *
81730852 TTATGTTGCTA
1 CTATTTTGCTA
81730863 CTATTTTG
1 CTATTTTG
81730871 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:81730947 original size:30 final size:30
Alignment explanation
Indices: 81730911--81730968 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
81730901 ATTTTATTAT
* *
81730911 TAATTTTTTTATTGTTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
81730941 TAATTTTGTTATTATTTTAGAGGCATTT
1 TAATTTTGTTATTATTTTAAAGACATTT
81730969 TCTTGTTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:81731114 original size:12 final size:12
Alignment explanation
Indices: 81731093--81731126 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
81731083 TATATATTTT
*
81731093 AAAATTATATAA
1 AAAATAATATAA
81731105 AAAATAATATAA
1 AAAATAATATAA
*
81731117 AAATTAATAT
1 AAAATAATAT
81731127 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:81733263 original size:41 final size:43
Alignment explanation
Indices: 81733165--81733312 Score: 142
Period size: 41 Copynumber: 3.4 Consensus size: 43
81733155 AATGCCAACA
* **
81733165 TCCCAGACATGGTCTTACATGCTACCTCATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGCAACCAAATATCGATGCCACTG
* * * *
81733208 TCCCAAACAGGGTCTTACATG-AATCAAATAT-GATGTCGA-TG
1 TCCCAGACATGGTCTTACATGCAACCAAATATCGATG-CCACTG
* *
81733249 TCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAACT-
1 TCCCAGACATGGTCTTACATGCAACCA-A-ATATCGATGCC-ACTG
*
81733294 TCCCAGACGTGGTCTTACA
1 TCCCAGACATGGTCTTACA
81733313 CGAAAACACA
Statistics
Matches: 85, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
41 24 0.28
42 12 0.14
43 20 0.24
44 5 0.06
45 23 0.27
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGCAACCAAATATCGATGCCACTG
Found at i:81734947 original size:14 final size:15
Alignment explanation
Indices: 81734930--81734958 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
81734920 TCATGAAAAT
81734930 TTCACACAT-ATAAA
1 TTCACACATAATAAA
81734944 TTCACACATAATAAA
1 TTCACACATAATAAA
81734959 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:81736105 original size:21 final size:21
Alignment explanation
Indices: 81736081--81736120 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
81736071 ACTTGTGTAA
*
81736081 CTATCATCAAACATTAAAAAT
1 CTATCATCAAACATCAAAAAT
*
81736102 CTATCATTAAACATCAAAA
1 CTATCATCAAACATCAAAA
81736121 TACTCATGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.28
Consensus pattern (21 bp):
CTATCATCAAACATCAAAAAT
Found at i:81737315 original size:182 final size:182
Alignment explanation
Indices: 81736995--81737368 Score: 622
Period size: 182 Copynumber: 2.0 Consensus size: 182
81736985 ATCAACGCTA
* * **
81736995 CATCGACACATGAAACACATTGTTTATTTTCTCTAACTCATCCAGTAAAGCTAGTCGATATGCCG
1 CATCGAAACATGAAACACATGGTGGATTTTCTCTAACTCATCCAGTAAAGCTAGTCGATATGCCG
* *
81737060 CTGACCCTATTCTTTCAATGATCTCGTACGGCCCGATGAAACGCATACTCAATTTACCTTTACGA
66 CTGACCCTATTCTTTCAAAGATCTCGTACGACCCGATGAAACGCATACTCAATTTACCTTTACGA
*
81737125 CCAAATCGATGGATTTTCTTCCACAGAGATACTTTTAGAAATACTTTATCAC
131 CAAAATCGATGGATTTTCTTCCACAGAGATACTTTTAGAAATACTTTATCAC
* *
81737177 CATCGAAACATGAAACACATGGTGGATTTTCTCTAACTTATCCAGTAAAGCTAGTCGATATGCCT
1 CATCGAAACATGAAACACATGGTGGATTTTCTCTAACTCATCCAGTAAAGCTAGTCGATATGCCG
* *
81737242 CTGACCCTGTTCTTTCAAAGATCTCGTACGACCCGATGAAACGCGTACTCAATTTACCTTTACGA
66 CTGACCCTATTCTTTCAAAGATCTCGTACGACCCGATGAAACGCATACTCAATTTACCTTTACGA
*
81737307 CAAAATCGATGGATTTTCTTCCACGGAGATACTTTTAGAAATACTTTATCAC
131 CAAAATCGATGGATTTTCTTCCACAGAGATACTTTTAGAAATACTTTATCAC
81737359 CGATCTGAAA
1 C-ATC-GAAA
81737369 TTCAATGTTT
Statistics
Matches: 178, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
182 171 0.96
183 3 0.02
184 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (182 bp):
CATCGAAACATGAAACACATGGTGGATTTTCTCTAACTCATCCAGTAAAGCTAGTCGATATGCCG
CTGACCCTATTCTTTCAAAGATCTCGTACGACCCGATGAAACGCATACTCAATTTACCTTTACGA
CAAAATCGATGGATTTTCTTCCACAGAGATACTTTTAGAAATACTTTATCAC
Found at i:81743158 original size:47 final size:48
Alignment explanation
Indices: 81743077--81743200 Score: 187
Period size: 47 Copynumber: 2.6 Consensus size: 48
81743067 TTCACACACT
* *
81743077 AAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAGCTCGCACCCG
1 AAGTGCTAATATCATGGCTCGAAGCCAAACCAATGAAGCTCGCACCCG
* * *
81743125 AAGTACTAATATCATGG-TTGAAGCCAAACCAATGAAGCTCGCAGCCG
1 AAGTGCTAATATCATGGCTCGAAGCCAAACCAATGAAGCTCGCACCCG
*
81743172 AAGTGCCAATATCATGGCTCGAAGCCAAA
1 AAGTGCTAATATCATGGCTCGAAGCCAAA
81743201 TTAATGTATC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 41 0.61
48 26 0.39
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (48 bp):
AAGTGCTAATATCATGGCTCGAAGCCAAACCAATGAAGCTCGCACCCG
Found at i:81746234 original size:28 final size:28
Alignment explanation
Indices: 81746194--81746248 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
81746184 AGCTAAAGTA
81746194 AGTAAATGCAATGGAAAGTAAGTATATG
1 AGTAAATGCAATGGAAAGTAAGTATATG
*
81746222 AGTAAATGCAATGGAAAGTACGTATAT
1 AGTAAATGCAATGGAAAGTAAGTATAT
81746249 AGAAGGGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTAAATGCAATGGAAAGTAAGTATATG
Found at i:81752457 original size:35 final size:36
Alignment explanation
Indices: 81752413--81752487 Score: 116
Period size: 35 Copynumber: 2.1 Consensus size: 36
81752403 GTTTATTTGC
* * *
81752413 TAAAGAATTTAATTTATTGAGTGCGAAAAGGAAAAT
1 TAAAGAATTTAACTTATTGAGTGCCAAAAGAAAAAT
81752449 TAAA-AATTTAACTTATTGAGTGCCAAAAGAAAAAT
1 TAAAGAATTTAACTTATTGAGTGCCAAAAGAAAAAT
81752484 TAAA
1 TAAA
81752488 CTTATTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 32 0.89
36 4 0.11
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (36 bp):
TAAAGAATTTAACTTATTGAGTGCCAAAAGAAAAAT
Found at i:81755591 original size:45 final size:43
Alignment explanation
Indices: 81755547--81755635 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
81755537 TGGTCACACA
* * *
81755547 ACAA-AGTCCCCACAGATGGAATCTGCCTCTGGCTGTGGATAC
1 ACAACAGTACCCACAGATGGAATCTACCTCTGGCTGTAGATAC
** * *
81755589 ACAACAGTACCCGTAGATGGAATCTACCTTTGGTTGTAGATAC
1 ACAACAGTACCCACAGATGGAATCTACCTCTGGCTGTAGATAC
81755632 ACAA
1 ACAA
81755636 AAAATATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 4 0.10
43 35 0.90
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
ACAACAGTACCCACAGATGGAATCTACCTCTGGCTGTAGATAC
Found at i:81756045 original size:19 final size:20
Alignment explanation
Indices: 81756006--81756045 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
81755996 TAATATAAAC
*
81756006 AAAACATAAAATTCTGGGAA
1 AAAACATAAAATTCTGAGAA
*
81756026 AAAATATAAAATT-TGAGAA
1 AAAACATAAAATTCTGAGAA
81756045 A
1 A
81756046 CAGGGGACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.60, C:0.05, G:0.12, T:0.23
Consensus pattern (20 bp):
AAAACATAAAATTCTGAGAA
Found at i:81759732 original size:25 final size:25
Alignment explanation
Indices: 81759695--81759742 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
81759685 TCTCATCTCA
81759695 ATTTTACCCTAGTAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTGATG
*
81759720 ATTTTACCGTAGTAAAATTTTGA
1 ATTTTACCCTAGTAAAATTTTGA
81759743 GAAAATCCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.44
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGATG
Found at i:81762099 original size:25 final size:27
Alignment explanation
Indices: 81762062--81762114 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
81762052 TCAAACATGC
81762062 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
81762088 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
81762114 A
1 A
81762115 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:81763638 original size:26 final size:26
Alignment explanation
Indices: 81763600--81763683 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
81763590 CATGAAATTC
* *
81763600 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
81763626 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
81763652 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
81763678 TTATCA
1 TTATCA
81763684 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:81765639 original size:27 final size:26
Alignment explanation
Indices: 81765599--81765667 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 26
81765589 ATAGCTACAG
81765599 AGGCTTTCCTTTTAGAG-TCTTGCCATAA
1 AGGC-TTCCTTTTAGAGATC--GCCATAA
81765627 AGGCTTCCTTTTAATAGAGATCGCCATAA
1 AGGCTTCC-TTT--TAGAGATCGCCATAA
81765656 AGGCTTCCTTTT
1 AGGCTTCCTTTT
81765668 TAACAGAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 10 0.27
29 15 0.41
30 5 0.14
31 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (26 bp):
AGGCTTCCTTTTAGAGATCGCCATAA
Found at i:81765669 original size:30 final size:29
Alignment explanation
Indices: 81765620--81765781 Score: 175
Period size: 28 Copynumber: 5.6 Consensus size: 29
81765610 TTAGAGTCTT
* * *
81765620 GCCATAAAGGCTTCCTTTTAATAGAGATC
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
* *
81765649 GCCATAAAGGCTTCCTTTTTAACAGAGATC
1 GCCACAAAGGCTTCC-TTTTAACAGAGATA
* * * * *
81765679 CCCAAAAAGGCTTCATTTTAAATAGAGATT
1 GCCACAAAGGCTTCCTTTT-AACAGAGATA
*
81765709 TCCACAAAGGCTTCC-TTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
*
81765737 ACCACAAAGGCTTCC-TTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTTAACAGAGATA
*
81765765 GCCACAAAGACTTCCTT
1 GCCACAAAGGCTTCCTT
81765782 ACAAAAACTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
28 48 0.41
29 23 0.20
30 45 0.39
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCTTCCTTTTAACAGAGATA
Found at i:81765719 original size:60 final size:58
Alignment explanation
Indices: 81765625--81765781 Score: 183
Period size: 58 Copynumber: 2.7 Consensus size: 58
81765615 GTCTTGCCAT
* * **
81765625 AAAGGCTTCCTTTTAATAGAGATCGCCATAAAGGCTTCCTTTTTAACAGAGATCCCCAA
1 AAAGGCTT-CTTTTAATAGAGATAGCCACAAAGGCTTCCTTTTTAACAGAGATAACCAA
** *
81765684 AAAGGCTTCATTTTAAATAGAGATTTCCACAAAGGCTTCC--TTTAACAGAGATAACCAC
1 AAAGGCTTC-TTTT-AATAGAGATAGCCACAAAGGCTTCCTTTTTAACAGAGATAACCAA
* * *
81765742 AAAGGCTTCCTTTAACAGAGATAGCCACAAAGACTTCCTT
1 AAAGGCTTCTTTTAATAGAGATAGCCACAAAGGCTTCCTT
81765782 ACAAAAACTG
Statistics
Matches: 83, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
56 21 0.25
57 3 0.04
58 25 0.30
59 12 0.14
60 22 0.27
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (58 bp):
AAAGGCTTCTTTTAATAGAGATAGCCACAAAGGCTTCCTTTTTAACAGAGATAACCAA
Found at i:81767765 original size:43 final size:43
Alignment explanation
Indices: 81767714--81767803 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
81767704 TTTTAAAAAG
*
81767714 AATTGTCAGGCTTTTTTCACATGCGAGAATATTTTAAAAATAA
1 AATTGTCAGGCTTTGTTCACATGCGAGAATATTTTAAAAATAA
81767757 AATTGTCAGGCTTTGTTCACATGCGAGAATATTTTAAAAATAA
1 AATTGTCAGGCTTTGTTCACATGCGAGAATATTTTAAAAATAA
81767800 AATT
1 AATT
81767804 AATTAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (43 bp):
AATTGTCAGGCTTTGTTCACATGCGAGAATATTTTAAAAATAA
Found at i:81767913 original size:10 final size:10
Alignment explanation
Indices: 81767894--81767924 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
81767884 TCATTTATTA
81767894 ATGG-AATTG
1 ATGGAAATTG
81767903 ATGGAAATTG
1 ATGGAAATTG
81767913 ATGGAAATTG
1 ATGGAAATTG
81767923 AT
1 AT
81767925 TTAATGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
ATGGAAATTG
Found at i:81769627 original size:43 final size:43
Alignment explanation
Indices: 81769580--81769661 Score: 164
Period size: 43 Copynumber: 1.9 Consensus size: 43
81769570 ATTGTATTAC
81769580 ATAATTTTATTTATATTCAAATTTAAATTTATGGTAACTTTAA
1 ATAATTTTATTTATATTCAAATTTAAATTTATGGTAACTTTAA
81769623 ATAATTTTATTTATATTCAAATTTAAATTTATGGTAACT
1 ATAATTTTATTTATATTCAAATTTAAATTTATGGTAACT
81769662 AATATTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (43 bp):
ATAATTTTATTTATATTCAAATTTAAATTTATGGTAACTTTAA
Found at i:81775868 original size:25 final size:25
Alignment explanation
Indices: 81775827--81775898 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
81775817 TTGTCGATTC
*
81775827 TCAGCTCTAA-GAGCTTACCGTTAT
1 TCAGCTCGAAGGAGCTTACCGTTAT
* * *
81775851 TCAGCTCGGAGGAGCTTACTGATAT
1 TCAGCTCGAAGGAGCTTACCGTTAT
* *
81775876 TTAGCTCGAATGAGCTTACCGTT
1 TCAGCTCGAAGGAGCTTACCGTT
81775899 TATCTCTCGT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 8 0.21
25 30 0.79
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (25 bp):
TCAGCTCGAAGGAGCTTACCGTTAT
Found at i:81782889 original size:25 final size:25
Alignment explanation
Indices: 81782796--81782890 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 25
81782786 GGACTCACCA
*
81782796 CAGCTCGTATGAGCTTA-TCGAT-TCT
1 CAGCTCGAATGAGCTTACT-GATAT-T
* *
81782821 CAGCTCGTAA-GAGCTTACCGCTATT
1 CAGCTCG-AATGAGCTTACTGATATT
* * *
81782846 TAGCTCGGAGGAGCTTACTGATATT
1 CAGCTCGAATGAGCTTACTGATATT
81782871 CAGCTCGAATGAGCTTACTG
1 CAGCTCGAATGAGCTTACTG
81782891 TTTATCTCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
24 1 0.02
25 53 0.95
26 2 0.04
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (25 bp):
CAGCTCGAATGAGCTTACTGATATT
Found at i:81783388 original size:20 final size:20
Alignment explanation
Indices: 81783363--81783414 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
81783353 TTCTTACCAG
81783363 TCCATTTACTTACTTTACAT
1 TCCATTTACTTACTTTACAT
* *
81783383 TTCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTACAT
81783403 TCCATTTACTTA
1 TCCATTTACTTA
81783415 GCATTAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (20 bp):
TCCATTTACTTACTTTACAT
Found at i:81785264 original size:23 final size:23
Alignment explanation
Indices: 81785238--81785285 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
81785228 CATGGATCCA
81785238 AATGACAAACAACCATGACTTTT
1 AATGACAAACAACCATGACTTTT
81785261 AATGACAAACAACCATGACTTTT
1 AATGACAAACAACCATGACTTTT
81785284 AA
1 AA
81785286 AGAGAAGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (23 bp):
AATGACAAACAACCATGACTTTT
Found at i:81786503 original size:40 final size:40
Alignment explanation
Indices: 81786432--81786509 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
81786422 TACAAAAACA
*
81786432 CCGCTACAGATCGAGCATTAGCGACGCTTTTTGAAAAATG
1 CCGCTACAGATCGAGCATTAGCGACGCTTTTTAAAAAATG
* * * * *
81786472 CCGCTATAGGTCGAGCATTAGTGGCGTTTTTTAAAAAA
1 CCGCTACAGATCGAGCATTAGCGACGCTTTTTAAAAAA
81786510 CGCCACAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (40 bp):
CCGCTACAGATCGAGCATTAGCGACGCTTTTTAAAAAATG
Found at i:81787013 original size:22 final size:22
Alignment explanation
Indices: 81786983--81787105 Score: 124
Period size: 22 Copynumber: 5.6 Consensus size: 22
81786973 GAGTTAATAT
* *
81786983 TTTAAGGTTTATGGATTATGGG
1 TTTAGGGTTTAAGGATTATGGG
* *
81787005 TTTAGGGTTTAAGGTTTAGGGG
1 TTTAGGGTTTAAGGATTATGGG
**
81787027 TTTAGGGTTTAA-GAGTTAAT-AT
1 TTTAGGGTTTAAGGA-TT-ATGGG
* *
81787049 TTTAAGGTTTATGGATTATGGG
1 TTTAGGGTTTAAGGATTATGGG
* *
81787071 TTTAGGGTTTAAGGTTTAGGGG
1 TTTAGGGTTTAAGGATTATGGG
81787093 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
81787106 AGTTAATATT
Statistics
Matches: 81, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
21 3 0.04
22 75 0.93
23 3 0.04
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAGGGTTTAAGGATTATGGG
Found at i:81787027 original size:15 final size:14
Alignment explanation
Indices: 81786983--81787103 Score: 71
Period size: 15 Copynumber: 8.3 Consensus size: 14
81786973 GAGTTAATAT
* *
81786983 TTTAAGGTTTATGG
1 TTTAGGGTTTAAGG
* *
81786997 ATTATGGGTTTAGGG
1 TTTA-GGGTTTAAGG
* *
81787012 TTTAAGGTTTAGGGG
1 TTTAGGGTTTA-AGG
81787027 TTTAGGGTTTAAGAG
1 TTTAGGGTTTAAG-G
* ***
81787042 TTAATATTTTAAGG
1 TTTAGGGTTTAAGG
* * *
81787056 TTTATGGATTATGGG
1 TTTAGGGTTTA-AGG
81787071 TTTAGGGTTTAAGG
1 TTTAGGGTTTAAGG
*
81787085 TTTAGGGGTTTAGGG
1 TTTA-GGGTTTAAGG
81787100 TTTA
1 TTTA
81787104 AGAGTTAATA
Statistics
Matches: 82, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
14 24 0.29
15 58 0.71
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:81787118 original size:22 final size:22
Alignment explanation
Indices: 81786976--81787131 Score: 77
Period size: 22 Copynumber: 7.1 Consensus size: 22
81786966 TTATGATGAG
* * *
81786976 TTAATATTTTAAGGTTTATGGA
1 TTAATAGTTTAGGGTTTAAGGA
* *
81786998 TT-ATGGGTTTAGGGTTTAAGGT
1 TTAAT-AGTTTAGGGTTTAAGGA
***
81787020 TTAGGGGTTTAGGGTTTAA-GA
1 TTAATAGTTTAGGGTTTAAGGA
* * *
81787041 GTTAATATTTTAAGGTTTATGGA
1 -TTAATAGTTTAGGGTTTAAGGA
* *
81787064 TT-ATGGGTTTAGGGTTTAAGGT
1 TTAAT-AGTTTAGGGTTTAAGGA
***
81787086 TTAGGGGTTTAGGGTTTAA-GA
1 TTAATAGTTTAGGGTTTAAGGA
* * *
81787107 GTTAATATTTTAAGGTTTATGGA
1 -TTAATAGTTTAGGGTTTAAGGA
81787130 TT
1 TT
81787132 TAAGGATTAT
Statistics
Matches: 98, Mismatches: 28, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
21 6 0.06
22 88 0.90
23 4 0.04
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (22 bp):
TTAATAGTTTAGGGTTTAAGGA
Found at i:81787133 original size:15 final size:15
Alignment explanation
Indices: 81787115--81787153 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
81787105 GAGTTAATAT
81787115 TTTAAGGTTTATGGA
1 TTTAAGGTTTATGGA
* *
81787130 TTTAAGGATTATGGT
1 TTTAAGGTTTATGGA
*
81787145 TTTAGGGTT
1 TTTAAGGTT
81787154 CAAGGGTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (15 bp):
TTTAAGGTTTATGGA
Found at i:81787146 original size:66 final size:66
Alignment explanation
Indices: 81786922--81787131 Score: 334
Period size: 66 Copynumber: 3.2 Consensus size: 66
81786912 TATCATTATA
* * * * *
81786922 GTTTAAGGTTTAT-GGTTTAGGGTATATGGTTTA-GGGTTTATGGTTTATGATGAGTTAATATTT
1 GTTTATGGATTATGGGTTTAGGGTTTAAGGTTTAGGGGTTTAGGGTTTA--A-GAGTTAATATTT
81786985 TAAG
63 TAAG
81786989 GTTTATGGATTATGGGTTTAGGGTTTAAGGTTTAGGGGTTTAGGGTTTAAGAGTTAATATTTTAA
1 GTTTATGGATTATGGGTTTAGGGTTTAAGGTTTAGGGGTTTAGGGTTTAAGAGTTAATATTTTAA
81787054 G
66 G
81787055 GTTTATGGATTATGGGTTTAGGGTTTAAGGTTTAGGGGTTTAGGGTTTAAGAGTTAATATTTTAA
1 GTTTATGGATTATGGGTTTAGGGTTTAAGGTTTAGGGGTTTAGGGTTTAAGAGTTAATATTTTAA
81787120 G
66 G
81787121 GTTTATGGATT
1 GTTTATGGATT
81787132 TAAGGATTAT
Statistics
Matches: 136, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
66 93 0.68
67 12 0.09
68 18 0.13
69 13 0.10
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (66 bp):
GTTTATGGATTATGGGTTTAGGGTTTAAGGTTTAGGGGTTTAGGGTTTAAGAGTTAATATTTTAA
G
Found at i:81787216 original size:22 final size:22
Alignment explanation
Indices: 81787186--81787234 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
81787176 TAAGGTTTAT
*
81787186 GGTTTAGGGGTTAAGAGTTAAG
1 GGTTAAGGGGTTAAGAGTTAAG
* * * *
81787208 GGTTAAGGGTTTAGGGGTTATG
1 GGTTAAGGGGTTAAGAGTTAAG
81787230 GGTTA
1 GGTTA
81787235 GTAGTTTAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (22 bp):
GGTTAAGGGGTTAAGAGTTAAG
Found at i:81787223 original size:7 final size:7
Alignment explanation
Indices: 81786922--81787263 Score: 94
Period size: 7 Copynumber: 46.4 Consensus size: 7
81786912 TATCATTATA
*
81786922 GTTTAAG
1 GTTTAGG
*
81786929 GTTTATG
1 GTTTAGG
81786936 GTTTAGG
1 GTTTAGG
* *
81786943 GTATATG
1 GTTTAGG
81786950 GTTTAGG
1 GTTTAGG
*
81786957 GTTTATG
1 GTTTAGG
81786964 GTTTATGATG
1 GTTTA-G--G
* **
81786974 AGTTAATA
1 -GTTTAGG
* *
81786982 TTTTAAG
1 GTTTAGG
*
81786989 GTTTATG
1 GTTTAGG
*
81786996 GATTATGG
1 GTTTA-GG
81787004 GTTTAGG
1 GTTTAGG
*
81787011 GTTTAAG
1 GTTTAGG
81787018 GTTTAGGG
1 GTTTA-GG
81787026 GTTTAGG
1 GTTTAGG
*
81787033 GTTTAAGA
1 GTTT-AGG
* **
81787041 GTTAATA
1 GTTTAGG
* *
81787048 TTTTAAG
1 GTTTAGG
*
81787055 GTTTATG
1 GTTTAGG
*
81787062 GATTATGG
1 GTTTA-GG
81787070 GTTTAGG
1 GTTTAGG
*
81787077 GTTTAAG
1 GTTTAGG
81787084 GTTTAGGG
1 GTTTA-GG
81787092 GTTTAGG
1 GTTTAGG
*
81787099 GTTTAAGA
1 GTTT-AGG
* **
81787107 GTTAATA
1 GTTTAGG
* *
81787114 TTTTAAG
1 GTTTAGG
81787121 GTTTATGG
1 GTTTA-GG
* *
81787129 ATTTAAG
1 GTTTAGG
*
81787136 GATTATGG
1 GTTTA-GG
*
81787144 TTTTAGG
1 GTTTAGG
*
81787151 GTTCAAGG
1 GTT-TAGG
*
81787159 GTTGA-G
1 GTTTAGG
* *
81787165 ATTTTGG
1 GTTTAGG
*
81787172 GTTTTAAG
1 G-TTTAGG
*
81787180 GTTTATG
1 GTTTAGG
81787187 GTTTAGGG
1 GTTTA-GG
* *
81787195 GTTAAGA
1 GTTTAGG
*
81787202 GTTAAGG
1 GTTTAGG
*
81787209 GTTAAGG
1 GTTTAGG
81787216 GTTTAGG
1 GTTTAGG
*
81787223 GGTTATGG
1 GTTTA-GG
*
81787231 G-TTAGTA
1 GTTTAG-G
81787238 GTTTAAGG
1 GTTT-AGG
81787246 GTTTAGG
1 GTTTAGG
*
81787253 GGTTATGG
1 GTTTA-GG
81787261 GTT
1 GTT
81787264 AGTAGTTTAA
Statistics
Matches: 242, Mismatches: 72, Indels: 41
0.68 0.20 0.12
Matches are distributed among these distances:
6 4 0.02
7 161 0.67
8 70 0.29
9 2 0.01
10 1 0.00
11 4 0.02
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:81787246 original size:30 final size:30
Alignment explanation
Indices: 81787210--81787275 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
81787200 GAGTTAAGGG
81787210 TTAAGGGTTTAGGGGTTATGGGTTAGTAGT
1 TTAAGGGTTTAGGGGTTATGGGTTAGTAGT
81787240 TTAAGGGTTTAGGGGTTATGGGTTAGTAGT
1 TTAAGGGTTTAGGGGTTATGGGTTAGTAGT
81787270 TTAAGG
1 TTAAGG
81787276 CATTAAGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (30 bp):
TTAAGGGTTTAGGGGTTATGGGTTAGTAGT
Found at i:81790290 original size:24 final size:24
Alignment explanation
Indices: 81790260--81790312 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
81790250 CTATGTTATA
81790260 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
*
81790284 ATATTTGTATCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
81790308 ATATT
1 ATATT
81790313 ATAAAACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:81796303 original size:13 final size:14
Alignment explanation
Indices: 81796287--81796315 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
81796277 TTATAAATAT
81796287 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
81796300 TTATAATGGTTTAA
1 TTATAATGGTTTAA
81796314 TT
1 TT
81796316 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:81796750 original size:21 final size:21
Alignment explanation
Indices: 81796722--81796771 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
81796712 AAGCAGATGT
* *
81796722 AGCAGCGAGGGAGGTAGCGGC
1 AGCAGCGAGGGAGGCAGAGGC
*
81796743 AGTAGCGAGGGAGGCAGAGGC
1 AGCAGCGAGGGAGGCAGAGGC
81796764 AGCAGCGA
1 AGCAGCGA
81796772 TGGCAGCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.50, T:0.04
Consensus pattern (21 bp):
AGCAGCGAGGGAGGCAGAGGC
Found at i:81801694 original size:23 final size:23
Alignment explanation
Indices: 81801668--81801718 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
81801658 AAGTATGCAA
*
81801668 GAGAGTATCTAAGTTAGAAAATT
1 GAGAGAATCTAAGTTAGAAAATT
*
81801691 GAGAGAATCTCAGTTAGAAAATT
1 GAGAGAATCTAAGTTAGAAAATT
81801714 GAGAG
1 GAGAG
81801719 CTTGACACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (23 bp):
GAGAGAATCTAAGTTAGAAAATT
Found at i:81802124 original size:7 final size:7
Alignment explanation
Indices: 81802112--81802138 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
81802102 GGTATTTTTA
81802112 AAAATTC
1 AAAATTC
81802119 AAAATTC
1 AAAATTC
81802126 AAAATTC
1 AAAATTC
81802133 AAAATT
1 AAAATT
81802139 ATTTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATTC
Found at i:81810062 original size:19 final size:19
Alignment explanation
Indices: 81810035--81810074 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
81810025 TTTATTTTAT
* * *
81810035 TTTCTTTTCTTTTTCAAAA
1 TTTCCTTTCTCTTCCAAAA
81810054 TTTCCTTTCTCTTCCAAAA
1 TTTCCTTTCTCTTCCAAAA
81810073 TT
1 TT
81810075 CCCAAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTCCTTTCTCTTCCAAAA
Found at i:81810925 original size:53 final size:53
Alignment explanation
Indices: 81810863--81810968 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
81810853 GTGTTCTATA
* *
81810863 AGGCGACCTTTGCCTATATTTTGGCAGCTTGGCTACACTTTATCTGATATGTG
1 AGGCGACCTTTGCCTATATTCTGGCAACTTGGCTACACTTTATCTGATATGTG
* *
81810916 AGGCGACCTTTGCCTATATTCTGGTAACTTGGCTGCACTTTATCTGATATGTG
1 AGGCGACCTTTGCCTATATTCTGGCAACTTGGCTACACTTTATCTGATATGTG
81810969 TCATAATGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (53 bp):
AGGCGACCTTTGCCTATATTCTGGCAACTTGGCTACACTTTATCTGATATGTG
Found at i:81811793 original size:17 final size:19
Alignment explanation
Indices: 81811773--81811815 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
81811763 TAAGATAAAC
81811773 ATTAAAATAA-A-TTTAAT
1 ATTAAAATAACACTTTAAT
*
81811790 ATTAAGATAATCACTTTAAT
1 ATTAAAATAA-CACTTTAAT
81811810 ATTAAA
1 ATTAAA
81811816 TTAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
19 1 0.05
20 11 0.52
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAAAATAACACTTTAAT
Found at i:81819562 original size:11 final size:11
Alignment explanation
Indices: 81819546--81819621 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
81819536 GATAACCACT
81819546 TTAATATTAAA
1 TTAATATTAAA
81819557 TTAATA--AAA
1 TTAATATTAAA
*
81819566 -TACTATTAAA
1 TTAATATTAAA
*
81819576 ATAAGTATTAAA
1 TTAA-TATTAAA
81819588 TTAA-ATTTAATA
1 TTAATA-TTAA-A
81819600 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
81819613 ATAATATTA
1 TTAATATTA
81819622 TTTCTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 4 0.08
11 17 0.33
12 15 0.29
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:81819608 original size:37 final size:36
Alignment explanation
Indices: 81819546--81819621 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
81819536 GATAACCACT
81819546 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
81819583 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
81819619 TTA
1 TTA
81819622 TTTCTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 23 0.64
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:81823507 original size:25 final size:25
Alignment explanation
Indices: 81823479--81823528 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
81823469 CGCAAATGCA
81823479 GCTCTATATAAGCATCCTGATATAG
1 GCTCTATATAAGCATCCTGATATAG
* * * *
81823504 GCTCTTTTTAAGCTTCTTGATATAG
1 GCTCTATATAAGCATCCTGATATAG
81823529 CTCGCTTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (25 bp):
GCTCTATATAAGCATCCTGATATAG
Found at i:81838399 original size:15 final size:15
Alignment explanation
Indices: 81838381--81838430 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
81838371 TATGAAATTA
81838381 TATATTATCATATAT
1 TATATTATCATATAT
* *
81838396 TATATTAATTTATATTT
1 TATATT-A-TCATATAT
*
81838413 TATAGTATCATATAT
1 TATATTATCATATAT
81838428 TAT
1 TAT
81838431 GATTTGAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 15 0.54
16 2 0.07
17 11 0.39
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (15 bp):
TATATTATCATATAT
Found at i:81838749 original size:45 final size:44
Alignment explanation
Indices: 81838669--81838758 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
81838659 ACCTCTATTC
*
81838669 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCATTA
* *
81838713 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTAATCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAATCCATTA
81838758 C
1 C
81838759 GCCTCTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.39
45 24 0.59
ACGTcount: A:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCATTA
Found at i:81838759 original size:16 final size:16
Alignment explanation
Indices: 81838738--81838770 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
81838728 TTGATTTGCT
81838738 ATTACGCCTCTAATCC
1 ATTACGCCTCTAATCC
*
81838754 ATTACGCCTCTATTCC
1 ATTACGCCTCTAATCC
81838770 A
1 A
81838771 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.36, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTACGCCTCTAATCC
Found at i:81840796 original size:9 final size:9
Alignment explanation
Indices: 81840782--81840818 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
81840772 AATATTATTT
81840782 ATTAAATTA
1 ATTAAATTA
81840791 ATTAAATTA
1 ATTAAATTA
81840800 ATTTAAATTA
1 A-TTAAATTA
81840810 A-TAAATTA
1 ATTAAATTA
81840818 A
1 A
81840819 ATAATTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.30
9 10 0.37
10 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAAATTA
Found at i:81842246 original size:86 final size:86
Alignment explanation
Indices: 81842142--81842311 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 86
81842132 GATGTTTATT
*
81842142 AAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGGAAAAAGCGCCGCTAAAAGTC
1 AAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTC
81842207 ATGGCCTTTAGCGGCGTTTGG
66 ATGGCCTTTAGCGGCGTTTGG
81842228 AAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTC
1 AAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTC
*
81842293 ATGGCCTTTAGTGGCGTTT
66 ATGGCCTTTAGCGGCGTTT
81842312 TTCCCACAAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (86 bp):
AAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGCTAAAAGTC
ATGGCCTTTAGCGGCGTTTGG
Found at i:81842250 original size:44 final size:42
Alignment explanation
Indices: 81842144--81842311 Score: 300
Period size: 42 Copynumber: 4.0 Consensus size: 42
81842134 TGTTTATTAA
81842144 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
*
81842186 GAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
81842228 AAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
1 --AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
*
81842272 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGTGGCGTTT
1 AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
81842312 TTCCCACAAA
Statistics
Matches: 121, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
42 80 0.66
44 41 0.34
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (42 bp):
AAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGG
Found at i:81842747 original size:21 final size:21
Alignment explanation
Indices: 81842686--81842748 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
81842676 TCCTATGCTT
* *
81842686 TGCCTCCCTCGCTGCTGCCGC
1 TGCCTCCCTCTCTGCTGCCTC
81842707 TGCCTCCCTCTCTGCTGCCTC
1 TGCCTCCCTCTCTGCTGCCTC
81842728 TGCCTCCCTCTCTGCTGCCTC
1 TGCCTCCCTCTCTGCTGCCTC
81842749 CACTCTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.00, C:0.52, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCCTCCCTCTCTGCTGCCTC
Done.