Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 235 of 352
Found at i:77385086 original size:93 final size:93
Alignment explanation
Indices: 77384974--77385145 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
77384964 CGCCCATAAG
*
77384974 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
77385038 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
77385067 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
77385132 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
77385146 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:77385140 original size:46 final size:46
Alignment explanation
Indices: 77384967--77385142 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
77384957 TGTAACCCGC
* *
77384967 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
77385013 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
77385063 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
77385106 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
77385143 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:77392657 original size:93 final size:93
Alignment explanation
Indices: 77392545--77392716 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
77392535 CGCCCATAAG
*
77392545 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
77392609 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
77392638 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
77392703 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
77392717 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:77392711 original size:46 final size:46
Alignment explanation
Indices: 77392538--77392713 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
77392528 TGTAACCCGC
* *
77392538 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
77392584 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
77392634 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
77392677 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
77392714 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:77400966 original size:12 final size:11
Alignment explanation
Indices: 77400951--77400982 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
77400941 ATTCCTTGCT
77400951 TCCTCTTCTTC
1 TCCTCTTCTTC
77400962 GTCCTCTTCTTC
1 -TCCTCTTCTTC
77400974 TCCTCTTCT
1 TCCTCTTCT
77400983 AGGGTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (11 bp):
TCCTCTTCTTC
Found at i:77408388 original size:46 final size:46
Alignment explanation
Indices: 77408321--77408412 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
77408311 CATGAGCTCT
*
77408321 ACCGTGGCCTCCTCCACAAGTACCACTGGTGCTCATTATCGAATGC
1 ACCGTGGCCTCCTCCACAAGTACCACTAGTGCTCATTATCGAATGC
* *
77408367 ACCGTGGCCTCTTCCACAAGTACCTCTAGTGCTCATTATCGAATGC
1 ACCGTGGCCTCCTCCACAAGTACCACTAGTGCTCATTATCGAATGC
77408413 GCTTAGTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.26
Consensus pattern (46 bp):
ACCGTGGCCTCCTCCACAAGTACCACTAGTGCTCATTATCGAATGC
Found at i:77423587 original size:40 final size:34
Alignment explanation
Indices: 77423507--77423575 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
77423497 TGGGTAATAA
*
77423507 AATCAATAAGCATGTATTGGCTTCCCTATCACAT
1 AATCAATAAGCATGTAATGGCTTCCCTATCACAT
77423541 AATCAATAAGCATGTAATGGCTTCCCTATCACAT
1 AATCAATAAGCATGTAATGGCTTCCCTATCACAT
77423575 A
1 A
77423576 CACTCAATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (34 bp):
AATCAATAAGCATGTAATGGCTTCCCTATCACAT
Found at i:77432356 original size:47 final size:47
Alignment explanation
Indices: 77432247--77432357 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
77432237 CCGGGATAAG
* *
77432247 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * *
77432294 CACAAAGTACTTCATCGGAACAAATCCAGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTA-TAGTA
77432341 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
77432358 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:77433129 original size:4 final size:4
Alignment explanation
Indices: 77433120--77433203 Score: 71
Period size: 4 Copynumber: 20.8 Consensus size: 4
77433110 CCCTTTTCTA
** *
77433120 TTTC TTTC TTTC TTTC -TTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC
* * ** *
77433169 TGTA ACTC TTTC TATC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
77433204 TTTTAACTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
3 3 0.05
4 56 0.89
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:77433139 original size:15 final size:15
Alignment explanation
Indices: 77433121--77433152 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
77433111 CCTTTTCTAT
77433121 TTCTTTCTTTCTTTC
1 TTCTTTCTTTCTTTC
77433136 TTCTTTCTTTCTTTC
1 TTCTTTCTTTCTTTC
77433151 TT
1 TT
77433153 TCTCACGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTTCTTTCTTTC
Found at i:77439586 original size:46 final size:47
Alignment explanation
Indices: 77439478--77439587 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 47
77439468 CCGGGATAAG
*
77439478 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
77439525 CACAAAGTACTTCATCGGAACAAATCC-GAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
77439571 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
77439588 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
45 1 0.02
46 27 0.49
47 27 0.49
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:77440358 original size:4 final size:4
Alignment explanation
Indices: 77440349--77440381 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
77440339 CCCTATTCTA
77440349 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
77440382 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:77441223 original size:25 final size:25
Alignment explanation
Indices: 77441149--77441224 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
77441139 TTGCTAGAAC
*
77441149 ATCACCAAATGTGTCCGTAAAGTCA
1 ATCACCAAATGTGTCCGTAAAGTCG
77441174 ATCACCAAATGTGTCCGTAAAGTCG
1 ATCACCAAATGTGTCCGTAAAGTCG
* *
77441199 ATTACCAAATGTGTCTGTAAAGTCG
1 ATCACCAAATGTGTCCGTAAAGTCG
77441224 A
1 A
77441225 ACTTACCTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (25 bp):
ATCACCAAATGTGTCCGTAAAGTCG
Found at i:77441972 original size:22 final size:22
Alignment explanation
Indices: 77441944--77442000 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
77441934 ACACAAGGCC
*
77441944 ACACGCCTGTGTGGATACAGGG
1 ACACGCCTGTGTGGACACAGGG
*
77441966 ACACGCCCGTGTGGACACAGGG
1 ACACGCCTGTGTGGACACAGGG
*
77441988 ACATGCCTGTGTG
1 ACACGCCTGTGTG
77442001 CCTTCGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.26, G:0.35, T:0.18
Consensus pattern (22 bp):
ACACGCCTGTGTGGACACAGGG
Found at i:77444038 original size:49 final size:49
Alignment explanation
Indices: 77443974--77444105 Score: 171
Period size: 49 Copynumber: 2.7 Consensus size: 49
77443964 ACACATCTAA
*
77443974 GTCAATGCTATGTCCCAGATAGGTCTTACACTGACT-TCTATATATCGAG-
1 GTCAATGCCATGTCCCAGATAGGTCTTACACTGACTCTC-ATATATC-AGT
* * *
77444023 G-CTAATGCCATGTCCCAGATAGTTCTTACACTGGCTCTCATCTATCAGT
1 GTC-AATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCAGT
*
77444072 GTCGATGCCATGTCCCAGATAGGTCTTACACTGA
1 GTCAATGCCATGTCCCAGATAGGTCTTACACTGA
77444106 TATATGTCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
48 3 0.04
49 66 0.92
50 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (49 bp):
GTCAATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCAGT
Found at i:77444976 original size:20 final size:18
Alignment explanation
Indices: 77444939--77444989 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
77444929 CTATAGTAAC
77444939 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
77444956 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
77444976 TTACAACTTTACAA
1 TCACAA-TTTACAA
77444990 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:77450758 original size:49 final size:49
Alignment explanation
Indices: 77450645--77450851 Score: 153
Period size: 49 Copynumber: 4.3 Consensus size: 49
77450635 CGATCCTATA
77450645 TCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATGCCATG
1 TCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATGCCATG
* * * * *
77450694 TCCCAAATAGTTCTTACACTGGC-TCTCATCTATCG-GTG-TGAATGCCATG
1 TCCCAGACAGGTCTTACACTGACTTC-CATATATCGAG-GCTG-ATGCCATG
* * * * * * **
77450743 TCCTAGACAGGTCTTATACTGA----CACATGTC-AAGCCGATGCGTTG
1 TCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATGCCATG
* * * * *
77450787 TTCCAAACAGGTCTTACACTGGCTTCCATATCTCGACGCTGATG-CATG
1 TCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATGCCATG
*
77450835 TCCCAGACATGTCTTAC
1 TCCCAGACAGGTCTTAC
77450852 GCTGGCTCTC
Statistics
Matches: 116, Mismatches: 32, Indels: 21
0.69 0.19 0.12
Matches are distributed among these distances:
44 24 0.21
45 6 0.05
48 27 0.23
49 59 0.51
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
TCCCAGACAGGTCTTACACTGACTTCCATATATCGAGGCTGATGCCATG
Found at i:77450929 original size:46 final size:44
Alignment explanation
Indices: 77450827--77450946 Score: 107
Period size: 46 Copynumber: 2.6 Consensus size: 44
77450817 TCTCGACGCT
* * *
77450827 GATGCATGTCCCAGACATGTCTTACGCTGGCTCTCGTCCCAATGTC
1 GATGCATGTCCCAGACATGCCTTACACTGGCTCTCAT--CAATGTC
* * *
77450873 AATGCTTGTCCCAGATATGCCTTACACTGGCTCTCAT-AATGTAGCC
1 GATGCATGTCCCAGACATGCCTTACACTGGCTCTCATCAATGT---C
* **
77450919 GATGCATGTCCCACACATTTCTTACACT
1 GATGCATGTCCCAGACATGCCTTACACT
77450947 AGTACACATA
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
43 5 0.08
46 54 0.92
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGCCTTACACTGGCTCTCATCAATGTC
Found at i:77454711 original size:44 final size:42
Alignment explanation
Indices: 77454660--77454819 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 42
77454650 ATATGTGTTA
* * *
77454660 TCGTGTAAGACCACATTTGGGACGTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACATCTGAGACATTGGCATCGTA-TT-TGATT
77454703 TACGTGTAAGACCACATCTGAGACATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCACATCTGAGACATTGGCATCGTATTTGATT
* * *
77454746 TCGTGTAAGACC-CTGTCT-AGGACAGTGGCATTGATATTTGATT
1 TCGTGTAAGACCAC-ATCTGA-GACATTGGCATCG-TATTTGATT
* * * *
77454789 ACATGTAAGACCACGTCTGGGACATTGGCAT
1 TCGTGTAAGACCACATCTGAGACATTGGCAT
77454820 TGTACGAGAT
Statistics
Matches: 100, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.02
42 25 0.25
43 40 0.40
44 32 0.32
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACATCTGAGACATTGGCATCGTATTTGATT
Found at i:77464745 original size:30 final size:31
Alignment explanation
Indices: 77464706--77464770 Score: 123
Period size: 30 Copynumber: 2.1 Consensus size: 31
77464696 TTTTGTGATT
77464706 AGGGACTAAATTGTCAAAATATGAAAATGTG
1 AGGGACTAAATTGTCAAAATATGAAAATGTG
77464737 AGGG-CTAAATTGTCAAAATATGAAAATGTG
1 AGGGACTAAATTGTCAAAATATGAAAATGTG
77464767 AGGG
1 AGGG
77464771 TTATTTTGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.25
Consensus pattern (31 bp):
AGGGACTAAATTGTCAAAATATGAAAATGTG
Found at i:77465299 original size:43 final size:43
Alignment explanation
Indices: 77465144--77465300 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
77465134 TGTGTTATCG
* * **
77465144 TGTAAGACCACGTCTGGGACGTTGGCATTGACT-TTTGATTTATG
1 TGTAAGACCACGTTTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * *
77465188 TGTAAGACCACGTTTGGGACATTAGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTTTGGGACGTTGGCATCGATATTTGATTACA
* *
77465230 TGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTTTGGGAC-GTTGGCATCGATATTTGATTACA
*
77465273 TGTAAGACCACATTTGGGACGTTGGCAT
1 TGTAAGACCACGTTTGGGACGTTGGCAT
77465301 TGTACGAAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.29
43 37 0.40
44 27 0.29
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACGTTGGCATCGATATTTGATTACA
Found at i:77473165 original size:43 final size:43
Alignment explanation
Indices: 77473117--77473215 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
77473107 CGGATGTGGC
* *
77473117 CTTACATGTAATTCA-ATATCGATGCC-ACTATCCCAGATAGGGT
1 CTTACATGTAAATCAGATA-CGATGCCGA-TATCCCAGACAGGGT
* *
77473160 CTTACACG-AAATCAGATACGATGCCGATATCCCAGACATGGT
1 CTTACATGTAAATCAGATACGATGCCGATATCCCAGACAGGGT
*
77473202 CTTATATGTAAATC
1 CTTACATGTAAATC
77473216 TCAATCGAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
42 31 0.66
43 16 0.34
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
CTTACATGTAAATCAGATACGATGCCGATATCCCAGACAGGGT
Found at i:77481817 original size:11 final size:11
Alignment explanation
Indices: 77481801--77481826 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
77481791 ATCCTTGTTG
77481801 AAAATAAAAGA
1 AAAATAAAAGA
77481812 AAAATAAAAGA
1 AAAATAAAAGA
77481823 AAAA
1 AAAA
77481827 GAGATAGTTA
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:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAATAAAAGA
Found at i:77482726 original size:42 final size:43
Alignment explanation
Indices: 77482667--77482784 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
77482657 GATTTGAGAT
* * *
77482667 TTACGTGTAAGATCATGTCTGGGACA-TCGGCATCG-TATTTGG
1 TTACATGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGA
*
77482709 TTTCATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
*
77482752 TTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGACCATGTCTGGGACAG-TGGCAT
77482785 TGTATGAGCT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGA
Found at i:77483542 original size:23 final size:22
Alignment explanation
Indices: 77483511--77483556 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
77483501 TTATGAATCA
*
77483511 TATGTTTTGGTACGATTTTGGTT
1 TATGATTTGGTACG-TTTTGGTT
*
77483534 TATGATTTGGTATGTTTTGGTT
1 TATGATTTGGTACGTTTTGGTT
77483556 T
1 T
77483557 GCATATATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.13, C:0.02, G:0.26, T:0.59
Consensus pattern (22 bp):
TATGATTTGGTACGTTTTGGTT
Found at i:77488004 original size:52 final size:52
Alignment explanation
Indices: 77487926--77488030 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
77487916 ATTCATATCA
77487926 TTTATTTAATATCATTTTAACATATAAAAATAAGTGGAAAACAAATATTAAC
1 TTTATTTAATATCATTTTAACATATAAAAATAAGTGGAAAACAAATATTAAC
77487978 TTTATTTAATATCATTTTAACATATAAAAATAAGTGGAAAACAAATATTAAC
1 TTTATTTAATATCATTTTAACATATAAAAATAAGTGGAAAACAAATATTAAC
77488030 T
1 T
77488031 GTCCGTGCTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (52 bp):
TTTATTTAATATCATTTTAACATATAAAAATAAGTGGAAAACAAATATTAAC
Found at i:77490308 original size:29 final size:28
Alignment explanation
Indices: 77490261--77490315 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
77490251 AACTTAAAAA
* *
77490261 TTTTAATTAATTACATAAATTACCTATT
1 TTTTAATTAAATACATAAATGACCTATT
*
77490289 TTTTCAATTAAATACGTAAATGACCTA
1 TTTT-AATTAAATACATAAATGACCTA
77490316 AAATCTCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (28 bp):
TTTTAATTAAATACATAAATGACCTATT
Found at i:77490479 original size:13 final size:13
Alignment explanation
Indices: 77490453--77490489 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
77490443 CACCCTATTA
77490453 CTTTCTTCTTTCTT
1 CTTTCTT-TTTCTT
77490467 CTTTCTTTTTCTT
1 CTTTCTTTTTCTT
*
77490480 TTTTCTTTTT
1 CTTTCTTTTT
77490490 ACTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTCTTTTTCTT
Found at i:77490479 original size:20 final size:20
Alignment explanation
Indices: 77490454--77490496 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
77490444 ACCCTATTAC
77490454 TTTCTTCTTTCTTCTTT-CTT
1 TTTCTTCTTTCTT-TTTACTT
*
77490474 TTTCTTTTTTCTTTTTACTT
1 TTTCTTCTTTCTTTTTACTT
77490494 TTT
1 TTT
77490497 TTAAGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTCTTTCTTTTTACTT
Found at i:77490487 original size:7 final size:7
Alignment explanation
Indices: 77490454--77490497 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
77490444 ACCCTATTAC
*
77490454 TTTCTTC
1 TTTCTTT
*
77490461 TTTCTTC
1 TTTCTTT
77490468 TTTC-TT
1 TTTCTTT
77490474 TTTCTTT
1 TTTCTTT
77490481 TTTCTTT
1 TTTCTTT
*
77490488 TTACTTT
1 TTTCTTT
77490495 TTT
1 TTT
77490498 TAAGTTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 5 0.15
7 28 0.85
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTCTTT
Found at i:77490495 original size:13 final size:12
Alignment explanation
Indices: 77490454--77490496 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
77490444 ACCCTATTAC
77490454 TTTCTTCTTTCTT
1 TTTCTT-TTTCTT
77490467 CTTTCTTTTTCTTT
1 -TTTCTTTTTC-TT
77490481 TTTCTTTTTACTT
1 TTTCTTTTT-CTT
77490494 TTT
1 TTT
77490497 TTAAGTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:77490656 original size:14 final size:15
Alignment explanation
Indices: 77490631--77490663 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
77490621 TTAATTTGTT
77490631 TTATAATATTTTAAA
1 TTATAATATTTTAAA
77490646 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
77490660 TTAT
1 TTAT
77490664 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:77490832 original size:7 final size:7
Alignment explanation
Indices: 77490820--77490855 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
77490810 AAAAACATAT
77490820 ATTAAAA
1 ATTAAAA
77490827 ATTAAAA
1 ATTAAAA
*
77490834 A-TATAA
1 ATTAAAA
77490840 ATTAAAA
1 ATTAAAA
77490847 ATTAAAA
1 ATTAAAA
77490854 AT
1 AT
77490856 ATATATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTAAAA
Found at i:77490833 original size:20 final size:20
Alignment explanation
Indices: 77490810--77490863 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
77490800 ACTTTATTTA
*
77490810 AAAAACATATATTAAAAATT
1 AAAAATATATATTAAAAATT
*
77490830 AAAAATATAAATTAAAAATT
1 AAAAATATATATTAAAAATT
77490850 AAAAATATATATTA
1 AAAAATATATATTA
77490864 TAACTGGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATATATATTAAAAATT
Found at i:77491639 original size:20 final size:20
Alignment explanation
Indices: 77491611--77491649 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
77491601 AAGTTTTCTA
77491611 AAAATTTAAATAT-ATTAAG
1 AAAATTTAAATATAATTAAG
*
77491630 AAAATGTTAAGTATAATTAA
1 AAAAT-TTAAATATAATTAA
77491650 TATTAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (20 bp):
AAAATTTAAATATAATTAAG
Found at i:77491824 original size:19 final size:19
Alignment explanation
Indices: 77491800--77491840 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
77491790 CAATTTTAAA
* * *
77491800 ATTTTAATATATTTAATAT
1 ATTTTAAAAAATTAAATAT
77491819 ATTTTAAAAAATTAAATAT
1 ATTTTAAAAAATTAAATAT
77491838 ATT
1 ATT
77491841 AAAAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTAAAAAATTAAATAT
Found at i:77491842 original size:17 final size:18
Alignment explanation
Indices: 77491812--77491846 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
77491802 TTTAATATAT
*
77491812 TTAATATATTTTAAAAAA
1 TTAATATATATTAAAAAA
77491830 TTAA-ATATATTAAAAAA
1 TTAATATATATTAAAAAA
77491847 ATGTTAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATATATATTAAAAAA
Found at i:77491844 original size:69 final size:70
Alignment explanation
Indices: 77491756--77491894 Score: 235
Period size: 71 Copynumber: 2.0 Consensus size: 70
77491746 AAAAAAATTT
*
77491756 AAAAATTAAATATAAT-AAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTTAATATA
1 AAAAATTAAATATAATAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATATA
77491820 TTTTA
66 TTTTA
* *
77491825 AAAAATTAAATATATTAAAAAAATGTTAAGTATAACTAATTTTAAAATTTTAATATATTCAATAT
1 AAAAATTAAATATAAT-AAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATAT
77491890 ATTTT
65 ATTTT
77491895 TTAAAAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 15 0.23
71 50 0.77
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (70 bp):
AAAAATTAAATATAATAAAAAATGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATATA
TTTTA
Found at i:77492176 original size:57 final size:57
Alignment explanation
Indices: 77492112--77492228 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 57
77492102 ACTAATTTTA
* * * ** * * *
77492112 AAATTTTAATATATTTTTTAATAGGTAAGGACAGCAAAGGGTTTTTTTAATATATTT
1 AAATTTTAATATAATTTTTAATACGTAAAGACAAAAAAAGGTTTTTTAAATATATGT
77492169 AAATTTTAATATAATTTTTAATACGTAAAGACAAAAAAAGGTTTTTTAAATATATGT
1 AAATTTTAATATAATTTTTAATACGTAAAGACAAAAAAAGGTTTTTTAAATATATGT
77492226 AAA
1 AAA
77492229 ACTCTATGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (57 bp):
AAATTTTAATATAATTTTTAATACGTAAAGACAAAAAAAGGTTTTTTAAATATATGT
Found at i:77495659 original size:20 final size:20
Alignment explanation
Indices: 77495630--77495671 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
77495620 CTTATGCTTA
*
77495630 CTCCCCTTTCTTTCCATTTT
1 CTCCCATTTCTTTCCATTTT
77495650 CTCCCATTTCTTTCCATTTT
1 CTCCCATTTCTTTCCATTTT
77495670 CT
1 CT
77495672 TATAGTATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (20 bp):
CTCCCATTTCTTTCCATTTT
Found at i:77495670 original size:11 final size:11
Alignment explanation
Indices: 77495636--77495672 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
77495626 CTTACTCCCC
77495636 TTTCTTTCCAT
1 TTTCTTTCCAT
*
77495647 TTTC-TCCCA-
1 TTTCTTTCCAT
77495656 TTTCTTTCCAT
1 TTTCTTTCCAT
77495667 TTTCTT
1 TTTCTT
77495673 ATAGTATCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.18
10 8 0.36
11 10 0.45
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCTTTCCAT
Found at i:77509796 original size:57 final size:57
Alignment explanation
Indices: 77509735--77509849 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
77509725 ATACCAAATG
*
77509735 TACAACCATTTTACAACCAATACATACACCAAATAAGCCATAACATTATCAACCAAT
1 TACAACCATTTTACAACCAATAAATACACCAAATAAGCCATAACATTATCAACCAAT
*
77509792 TACAACCATTTTACAACCAATAAATATACCAAATAAGCCATAACATTATCAACCAAT
1 TACAACCATTTTACAACCAATAAATACACCAAATAAGCCATAACATTATCAACCAAT
77509849 T
1 T
77509850 TCAAGCTTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (57 bp):
TACAACCATTTTACAACCAATAAATACACCAAATAAGCCATAACATTATCAACCAAT
Found at i:77510748 original size:43 final size:43
Alignment explanation
Indices: 77510628--77510786 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
77510618 AGCTCGTACA
* * *
77510628 ATGCCAACGTACCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATA-CG
* * *
77510671 ATGTC-ACTGTCCCAGATAG-GGTCTTATACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAATACG
*
77510713 ACGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TACG
*
77510757 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
77510787 ATAACACATA
Statistics
Matches: 96, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 24 0.25
43 37 0.39
44 33 0.34
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATACG
Found at i:77510770 original size:44 final size:42
Alignment explanation
Indices: 77510628--77510786 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 42
77510618 AGCTCGTACA
* * *
77510628 ATGCCAACGTACCAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC-AA-ATCG
* * *
77510671 ATGTC-ACTGTCCCAGATAG-GGTCTTATACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACACGTAAATCAAAT-CG
*
77510713 ACGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TCG
*
77510757 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
77510787 ATAACACATA
Statistics
Matches: 95, Mismatches: 12, Indels: 17
0.77 0.10 0.14
Matches are distributed among these distances:
41 3 0.03
42 26 0.27
43 32 0.34
44 33 0.35
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATCG
Found at i:77516306 original size:27 final size:27
Alignment explanation
Indices: 77516276--77516335 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
77516266 ATACATCCCA
77516276 TAGGGGCATATCAGTCATTATATC-AT
1 TAGGGGCATATCAGTCATTATATCAAT
* * *
77516302 GTAGGGGCATTTCAGTTATTTTATCAAT
1 -TAGGGGCATATCAGTCATTATATCAAT
77516330 TAGGGG
1 TAGGGG
77516336 GTCTAGGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (27 bp):
TAGGGGCATATCAGTCATTATATCAAT
Found at i:77524228 original size:93 final size:93
Alignment explanation
Indices: 77524113--77524283 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
77524103 GCCCATAAGT
* *
77524113 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77524178 CGAGCTCGGATGCCTAGTTAAATCTCTC
66 CGAGCTCGGATGCCTAGTTAAATCTCTC
* *
77524206 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
77524271 CGAGTTCGGATGC
66 CGAGCTCGGATGC
77524284 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTAAATCTCTC
Found at i:77524280 original size:46 final size:46
Alignment explanation
Indices: 77524105--77524280 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
77524095 TGTAACCCGC
* * *
77524105 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* **
77524151 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTAAAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
77524201 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
77524244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
77524281 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
46 65 0.60
47 28 0.26
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:77528703 original size:13 final size:13
Alignment explanation
Indices: 77528665--77528704 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
77528655 AACAAAGTAA
* *
77528665 GACACGGCCGTGC
1 GACACGGTCGTGT
*
77528678 GACACGATCGTGT
1 GACACGGTCGTGT
77528691 GACACGGTCGTGT
1 GACACGGTCGTGT
77528704 G
1 G
77528705 CACCAACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.17, C:0.28, G:0.38, T:0.17
Consensus pattern (13 bp):
GACACGGTCGTGT
Found at i:77528964 original size:19 final size:18
Alignment explanation
Indices: 77528929--77528964 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
77528919 CTTCATTTTT
*
77528929 CTCCCCTCTCTCTCCCTC
1 CTCCCCTCTCTCACCCTC
77528947 CTCCCCTCTTCTCACCCT
1 CTCCCCTC-TCTCACCCT
77528965 TGCGCACCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.03, C:0.64, G:0.00, T:0.33
Consensus pattern (18 bp):
CTCCCCTCTCTCACCCTC
Found at i:77533045 original size:21 final size:21
Alignment explanation
Indices: 77533019--77533070 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
77533009 GCGATGACGG
* *
77533019 TGAGATTAGTTACTGTAGCAA
1 TGAGATTAGATACTGTAACAA
*
77533040 TGAGATTAGATACTGTAACAG
1 TGAGATTAGATACTGTAACAA
77533061 TGAGATTAGA
1 TGAGATTAGA
77533071 AACAATAGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (21 bp):
TGAGATTAGATACTGTAACAA
Found at i:77533373 original size:14 final size:13
Alignment explanation
Indices: 77533342--77533379 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
77533332 TAGTAAAATA
*
77533342 ATAAATATTTGAT
1 ATAAATATTTTAT
77533355 A-AAATATTTTATT
1 ATAAATATTTTA-T
77533368 ATAAATATTTTA
1 ATAAATATTTTA
77533380 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATAAATATTTTAT
Found at i:77537736 original size:37 final size:37
Alignment explanation
Indices: 77537680--77537819 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
77537670 CGAATAGTCC
* * *
77537680 CCACACGTAGTTATTGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
77537717 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
77537754 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
77537791 CCACACATAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
77537820 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:77538021 original size:48 final size:48
Alignment explanation
Indices: 77537960--77538634 Score: 1098
Period size: 48 Copynumber: 13.9 Consensus size: 48
77537950 ATATACACAC
* *
77537960 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
77538008 ATCTCATATATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538056 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
77538104 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
77538152 ATCACATACATATTTCACATTAGCCATTGGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
77538200 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
77538248 ATGTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538296 ATCTCATACATATTTCACATTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
77538344 ATCTCATAGATATTTCACACTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538392 ATCTCATATATATTTCACATTATTTCACATTAGCCATTCGGCCTTACCACATATACAT
1 ATCTC------A--T-ACA-TATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538450 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538498 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538546 ATCACATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
77538594 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
77538635 CACATATATA
Statistics
Matches: 590, Mismatches: 27, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
48 540 0.92
49 2 0.00
50 1 0.00
52 1 0.00
54 1 0.00
56 1 0.00
57 2 0.00
58 42 0.07
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:77538543 original size:250 final size:250
Alignment explanation
Indices: 77537960--77538634 Score: 1091
Period size: 250 Copynumber: 2.7 Consensus size: 250
77537950 ATATACACAC
* * *
77537960 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * * *
77538025 CATTAGTCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTT
66 CATTAGCCATTCAGCTTTACCACATATACATATCACATACATATTTCACATTAGCCATTCGGCCT
* *
77538090 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA--
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
* * *
77538153 TC----ACA--T-ACA-TATTTCACATTAGCCATTGGGCTTTACCACATATACAT
196 TCATATATATTTCACATTATTTCACATTAGCCATTCGGCCTTACCACATATACAT
* *
77538200 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATGTCATATATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
77538265 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCCT
66 CATTAGCCATTCAGCTTTACCACATATACATATCACATACATATTTCACATTAGCCATTCGGCCT
*
77538330 TACCACATATACATATCTCATAGATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
77538395 TCATATATATTTCACATTATTTCACATTAGCCATTCGGCCTTACCACATATACAT
196 TCATATATATTTCACATTATTTCACATTAGCCATTCGGCCTTACCACATATACAT
*
77538450 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
77538515 CATTAGCCATTCAGCTTTACCACATATACATATCACATACATATTTCACATTAGCCATTCGGCTT
66 CATTAGCCATTCAGCTTTACCACATATACATATCACATACATATTTCACATTAGCCATTCGGCCT
*
77538580 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACA
77538635 CACATATATA
Statistics
Matches: 405, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
240 184 0.45
242 2 0.00
246 2 0.00
248 1 0.00
249 3 0.01
250 213 0.53
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (250 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCAGCTTTACCACATATACATATCACATACATATTTCACATTAGCCATTCGGCCT
TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATATACATATC
TCATATATATTTCACATTATTTCACATTAGCCATTCGGCCTTACCACATATACAT
Found at i:77541287 original size:9 final size:9
Alignment explanation
Indices: 77541273--77541367 Score: 91
Period size: 9 Copynumber: 10.6 Consensus size: 9
77541263 ACAAGTATAA
*
77541273 AATTAACTG
1 AATTAACCG
77541282 AATTAACCG
1 AATTAACCG
**
77541291 AATTAATGG
1 AATTAACCG
77541300 AATTAACCG
1 AATTAACCG
* *
77541309 AATCACCCG
1 AATTAACCG
* *
77541318 AATTACCCA
1 AATTAACCG
*
77541327 AATTAACTG
1 AATTAACCG
**
77541336 AATTAATTG
1 AATTAACCG
*
77541345 AATTAACCA
1 AATTAACCG
77541354 AATTAACCG
1 AATTAACCG
77541363 AATTA
1 AATTA
77541368 TTTGTATAAA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:77541303 original size:27 final size:27
Alignment explanation
Indices: 77541272--77541367 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 27
77541262 AACAAGTATA
**
77541272 AAATTAACTGAATTAACCGAATTAATG
1 AAATTAACTGAATTAACCGAATTAACC
* * * * *
77541299 GAATTAACCGAATCACCCGAATTACCC
1 AAATTAACTGAATTAACCGAATTAACC
**
77541326 AAATTAACTGAATTAATTGAATTAACC
1 AAATTAACTGAATTAACCGAATTAACC
*
77541353 AAATTAACCGAATTA
1 AAATTAACTGAATTA
77541368 TTTGTATAAA
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (27 bp):
AAATTAACTGAATTAACCGAATTAACC
Found at i:77541402 original size:5 final size:6
Alignment explanation
Indices: 77541387--77541427 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
77541377 AATTATATGT
77541387 TTTTTA TTTTTA TTTTTA GTTTTATA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
77541428 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:77541414 original size:20 final size:20
Alignment explanation
Indices: 77541385--77541424 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
77541375 AAAATTATAT
*
77541385 GTTTTTTATTTTTATTTTTA
1 GTTTTATATTTTTATTTTTA
77541405 GTTTTATATTTTTATTTTTA
1 GTTTTATATTTTTATTTTTA
77541425 TTTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (20 bp):
GTTTTATATTTTTATTTTTA
Found at i:77541437 original size:26 final size:25
Alignment explanation
Indices: 77541386--77541450 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
77541376 AAATTATATG
**
77541386 TTTTTTATTTTTATTTTTAGTTTTA
1 TTTTTTATTTTTATTTTTAGAATTA
77541411 TATTTTTATTTTTATTTATTA-AATTA
1 T-TTTTTATTTTTATTT-TTAGAATTA
* *
77541437 TTTGTAATTTTTAT
1 TTTTTTATTTTTAT
77541451 GATTAGGTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 12 0.35
26 19 0.56
27 3 0.09
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (25 bp):
TTTTTTATTTTTATTTTTAGAATTA
Found at i:77548067 original size:94 final size:94
Alignment explanation
Indices: 77547906--77548078 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 94
77547896 TGATTTTTAC
* ** *
77547906 GCTAGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
77547971 TGGGACATGGCATCGACATCCAGACGAGG
66 TGGGACATGGCATCGACATCCAGACGAGG
* * * * *
77548000 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCATTGTAAGACCATTTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
77548065 TGGGACATGGCATC
66 TGGGACATGGCATC
77548079 AGCACAAAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATCCAGACGAGG
Found at i:77548101 original size:94 final size:93
Alignment explanation
Indices: 77547909--77548124 Score: 254
Period size: 94 Copynumber: 2.3 Consensus size: 93
77547899 TTTTTACGCT
* ** *
77547909 AGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTCTGG
* * *
77547974 GACATGGCATCGACATCCAGACGAGGGCT
66 GACATGGCATCGACA-CAAGACAAGGGCC
* * * * *
77548003 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCATTGTAAGACCATTTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTCTGG
* *
77548068 GACATGGCATC-AGCACAAAGATAAGTGCC
66 GACATGGCATCGA-CAC-AAGACAAGGGCC
* *
77548097 AGTGTAAGACATGTCTAGGAAATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
77548125 GGCCTCGACA
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
93 2 0.02
94 102 0.98
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACACAAGACAAGGGCC
Found at i:77548103 original size:48 final size:48
Alignment explanation
Indices: 77547953--77548112 Score: 145
Period size: 47 Copynumber: 3.4 Consensus size: 48
77547943 ATTATGAGAC
* ** *
77547953 CCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATCCAGACGAGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACA--AAGATAAGTG
* * * *
77548001 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATA-CTATGATAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAAAGATAAG-T-G
* *
77548047 CCATTGTAAGACCATTTCTGGGACATGGCATCAGCACAAAGATAAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAAAGATAAGTG
77548095 CCAGTGTAAGA-CATGTCT
1 CCAGTGTAAGACCATGTCT
77548113 AGGAAATGCA
Statistics
Matches: 89, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 15 0.17
47 36 0.40
48 29 0.33
49 4 0.04
50 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAAAGATAAGTG
Found at i:77552305 original size:105 final size:105
Alignment explanation
Indices: 77552065--77552435 Score: 633
Period size: 105 Copynumber: 3.6 Consensus size: 105
77552055 TTGTATATAA
** *
77552065 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
77552130 TGAAATGT-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
77552169 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
77552234 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
77552274 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
77552338 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
77552377 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
77552436 ATAACGGTTA
Statistics
Matches: 256, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
103 59 0.23
104 95 0.37
105 101 0.39
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:77552387 original size:26 final size:26
Alignment explanation
Indices: 77552352--77552403 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
77552342 AATGTGAAAG
*
77552352 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
77552378 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
77552404 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:77559330 original size:28 final size:29
Alignment explanation
Indices: 77559276--77559330 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
77559266 AATTCCGAGC
*
77559276 TTGGGGACAAAAGTGTAATTATGAAAAGT
1 TTGGGGACAAAAGTGTAATTATCAAAAGT
* *
77559305 TTGGGG-CAAAATTGTAATTTTCAAAA
1 TTGGGGACAAAAGTGTAATTATCAAAA
77559331 AGTTGGGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (29 bp):
TTGGGGACAAAAGTGTAATTATCAAAAGT
Found at i:77559772 original size:25 final size:25
Alignment explanation
Indices: 77559739--77559788 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
77559729 ATGTAAAAAG
*
77559739 GGGTGGCTATGTGCTGATTCCCCGA
1 GGGTGGCTAAGTGCTGATTCCCCGA
*
77559764 GGGTTGCTAAGTGCTGATTCCCCGA
1 GGGTGGCTAAGTGCTGATTCCCCGA
77559789 TTCATTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (25 bp):
GGGTGGCTAAGTGCTGATTCCCCGA
Found at i:77559875 original size:26 final size:26
Alignment explanation
Indices: 77559839--77559890 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
77559829 AAATGTGAAA
77559839 AGGGGGTGCTATGTGCTGATCCCCCG
1 AGGGGGTGCTATGTGCTGATCCCCCG
* *
77559865 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGGTGCTATGTGCTGATCCCCCG
77559891 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.37, T:0.27
Consensus pattern (26 bp):
AGGGGGTGCTATGTGCTGATCCCCCG
Found at i:77559920 original size:103 final size:102
Alignment explanation
Indices: 77559662--77560023 Score: 554
Period size: 102 Copynumber: 3.6 Consensus size: 102
77559652 GTATATAAAG
** *
77559662 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
*
77559727 AAATGT-AAAAAGGGGTGGCTATGTGCTGATTCCCCGA
66 AAATGTGAAAAGGGGGT-GCTATGTGCTGATTCCCCGA
*
77559764 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTTG
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
*
77559829 AAATGTGAAAAGGGGGTGCTATGTGCTGATCCCCCGA
66 AAATGTGAAAAGGGGGTGCTATGTGCTGATTCCCCGA
* *
77559866 GGGGTTGCTATGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
1 -GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCTT
77559930 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCGA
64 TGAAATGTGAAAAGGGGG-TGCTATGTGCTGATTCCCCGA
** *
77559969 GGGTTGCTAAGTGCT-ATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGAT-CACCA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
77560024 ATAACGGTAA
Statistics
Matches: 242, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
100 5 0.02
101 30 0.12
102 110 0.45
103 96 0.40
104 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (102 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
AAATGTGAAAAGGGGGTGCTATGTGCTGATTCCCCGA
Found at i:77559992 original size:24 final size:25
Alignment explanation
Indices: 77559944--77559992 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
77559934 ATGTGAAAGG
*
77559944 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
77559969 GGGTTGCTAAGTGCT-ATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
77559993 TTCAGCGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:77565963 original size:47 final size:46
Alignment explanation
Indices: 77565892--77566201 Score: 205
Period size: 47 Copynumber: 6.7 Consensus size: 46
77565882 TGATTTTTAC
* *
77565892 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
* * * *
77565938 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAATATGAGA
* * * *
77565985 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-CACAAAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-AATATGAGA
* * * * * *
77566033 GCCAGTGTAAGACATGTCTAGGTCATGCATCAGCCCCGACA-GAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAG--A
* * * *
77566080 GCCAGTGTAAGA-AGTGTTTGGGACACGCATCGGCTA-AGAGT-T--GT
1 GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGCCACA-A-TATGAGA
* * *
77566124 GCTAGTGTAA-ACAGTGTCT-GG-CATGCATCAG-CACGTATATGAGA
1 GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGCCAC-AATATGAGA
77566168 GCCAGTGTAAGACCA-GTCT-GGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
77566202 AATATATCCC
Statistics
Matches: 202, Mismatches: 41, Indels: 41
0.71 0.14 0.14
Matches are distributed among these distances:
41 2 0.01
42 10 0.05
43 3 0.01
44 31 0.15
45 7 0.03
46 30 0.15
47 96 0.48
48 23 0.11
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
Found at i:77566061 original size:94 final size:90
Alignment explanation
Indices: 77565892--77566201 Score: 264
Period size: 95 Copynumber: 3.4 Consensus size: 90
77565882 TGATTTTTAC
* ** *
77565892 GCCAGTGTAAGACATGTCTGGGACAT-GCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCA-AAGATGAGTGCCAGTGTAAGA-CATGT
77565956 CTGGGACATGCATCAGCCATACTATGATA
64 CT-GG-CATGCATCAGCCATACTATGATA
* *
77565985 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCACAAAGATGAGTGCCAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-CAAAGATGAGTGCCAGTGTAAGACATGT
**
77566050 CTAGGTCATGCATCAGCCCCGAC-A-GAGTTA
64 CT-GG-CATGCATCAG-CCATACTATGA--TA
* * * * *
77566080 GCCAGTGTAAGA-AGTGTTTGGGACA-CGCATCGG-CTAAGA-GTTGTGCTAGTGTAA-ACAGTG
1 GCCAGTGTAAGACA-TGTCTGGGACATGGCATCGGCCAAAGATG-AGTGCCAGTGTAAGACA-TG
* *
77566140 TCTGGCATGCATCAGCACGTA-TATGAGA
63 TCTGGCATGCATCAGC-CATACTATGATA
77566168 GCCAGTGTAAGACCA-GTCT-GGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
77566202 AATATATCCC
Statistics
Matches: 181, Mismatches: 20, Indels: 36
0.76 0.08 0.15
Matches are distributed among these distances:
87 5 0.03
88 24 0.13
89 13 0.07
90 9 0.05
91 21 0.12
93 22 0.12
94 42 0.23
95 43 0.24
96 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCAAAGATGAGTGCCAGTGTAAGACATGTCT
GGCATGCATCAGCCATACTATGATA
Found at i:77571915 original size:13 final size:13
Alignment explanation
Indices: 77571897--77571921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77571887 ATATATTTTA
77571897 TTTTTAATTAATG
1 TTTTTAATTAATG
77571910 TTTTTAATTAAT
1 TTTTTAATTAAT
77571922 AAATATATTG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:77572426 original size:13 final size:13
Alignment explanation
Indices: 77572408--77572440 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
77572398 TTAGGGCTAA
77572408 TTTAAAATT-TCTT
1 TTTAAAATTAT-TT
77572421 TTTAAAATTATTT
1 TTTAAAATTATTT
77572434 TTTAAAA
1 TTTAAAA
77572441 GTGCTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAAAATTATTT
Found at i:77572712 original size:20 final size:20
Alignment explanation
Indices: 77572689--77572729 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
77572679 TATATGAAAT
77572689 ATAAATTTTAAATATTTTTA
1 ATAAATTTTAAATATTTTTA
77572709 ATAAATTTTAAATATTTTTA
1 ATAAATTTTAAATATTTTTA
77572729 A
1 A
77572730 GCAATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATTTTAAATATTTTTA
Found at i:77572735 original size:20 final size:20
Alignment explanation
Indices: 77572691--77572735 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
77572681 TATGAAATAT
*
77572691 AAATTTTAAATATTTTTAAT
1 AAATTTTAAATATTTTTAAG
77572711 AAATTTTAAATATTTTTAAG
1 AAATTTTAAATATTTTTAAG
*
77572731 CAATT
1 AAATT
77572736 AATATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTTTAAATATTTTTAAG
Found at i:77576447 original size:2 final size:2
Alignment explanation
Indices: 77576440--77576468 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
77576430 ATGGGATTAG
77576440 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
77576469 TAGTAGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:77576526 original size:18 final size:18
Alignment explanation
Indices: 77576486--77576527 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
77576476 AAAAACTCCT
77576486 GGAGAAAATGAAAGAAGAA
1 GGAG-AAATGAAAGAAGAA
77576505 -GAGAAATGAAAG-AGAA
1 GGAGAAATGAAAGAAGAA
77576521 GGGAGAA
1 -GGAGAA
77576528 CCAAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (18 bp):
GGAGAAATGAAAGAAGAA
Found at i:77581440 original size:42 final size:43
Alignment explanation
Indices: 77581332--77581491 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
77581322 AGCTCATACA
* * * * *
77581332 ATGCCAACGGCCCAGACATGGTGTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
77581375 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
77581417 ATTCCAATGTCTCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
** * * *
77581461 ATAACAACGTCCCAGACGTAGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
77581492 TAACACATAT
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 27 0.28
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:77586073 original size:32 final size:32
Alignment explanation
Indices: 77586032--77586103 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
77586022 GGCATTACAG
77586032 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
1 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
* * *
77586064 TGTGGGCCACTCGGGCAAGGCCAATTTGGGCG
1 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
*
77586096 TCTGGGCC
1 TGTGGGCC
77586104 CAAGATTCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.17, C:0.28, G:0.39, T:0.17
Consensus pattern (32 bp):
TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
Found at i:77588193 original size:20 final size:20
Alignment explanation
Indices: 77588168--77588210 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
77588158 ATAAAGGGGA
*
77588168 AGAAGAAAAGGAAAATAAAG
1 AGAAGAAAAGGAAAAAAAAG
* *
77588188 AGAAGATAATGAAAAAAAAG
1 AGAAGAAAAGGAAAAAAAAG
77588208 AGA
1 AGA
77588211 GAGGAAAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (20 bp):
AGAAGAAAAGGAAAAAAAAG
Found at i:77590214 original size:19 final size:20
Alignment explanation
Indices: 77590185--77590229 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
77590175 AAAAATGATA
*
77590185 AAAAATAATTAAATTTTAAT
1 AAAAATAATTAAAATTTAAT
*
77590205 AAAAAT-ATTAAAATTTATT
1 AAAAATAATTAAAATTTAAT
77590224 AAAAAT
1 AAAAAT
77590230 TATAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATAATTAAAATTTAAT
Found at i:77590237 original size:20 final size:19
Alignment explanation
Indices: 77590203--77590256 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
77590193 TTAAATTTTA
*
77590203 ATAAAAA-TATTAAAATTT
1 ATAAAAATTATAAAAATTT
*
77590221 ATTAAAAATTATAAAAATCGT
1 A-TAAAAATTATAAAAAT-TT
*
77590242 AAAAAAATTATAAAA
1 ATAAAAATTATAAAA
77590257 TATATCGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 21 0.70
21 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAATTT
Found at i:77590324 original size:20 final size:20
Alignment explanation
Indices: 77590301--77590352 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
77590291 ATAAAATCAT
77590301 AAGAAAATTATAAAA-ATGTA
1 AAGAAAA-TATAAAATATGTA
*
77590321 AAG-AAATATAAAATTTGTA
1 AAGAAAATATAAAATATGTA
*
77590340 AAAAAAATATAAA
1 AAGAAAATATAAA
77590353 TTATCGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 12 0.43
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (20 bp):
AAGAAAATATAAAATATGTA
Found at i:77590516 original size:10 final size:10
Alignment explanation
Indices: 77590503--77590555 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
77590493 TTTTGATGCA
77590503 TTTTATAATT
1 TTTTATAATT
*
77590513 TTTTATGATT
1 TTTTATAATT
*
77590523 TTTT-TAAAT
1 TTTTATAATT
77590532 TTTTA-AATT
1 TTTTATAATT
77590541 TTTTATAATT
1 TTTTATAATT
77590551 CTTTT
1 -TTTT
77590556 TTATTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.42
10 17 0.47
11 4 0.11
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:77590525 original size:19 final size:19
Alignment explanation
Indices: 77590503--77590565 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
77590493 TTTTGATGCA
*
77590503 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTATAAT
* *
77590522 TTTTTTAAATTTTTA-AATT
1 TTTTATAATTTTTTATAA-T
*
77590541 TTTTATAATTCTTTT-TTAT
1 TTTTATAATT-TTTTATAAT
77590560 TTTTAT
1 TTTTAT
77590566 TTTTATAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.03
19 29 0.83
20 5 0.14
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:77590533 original size:28 final size:30
Alignment explanation
Indices: 77590502--77590565 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
77590492 TTTTTGATGC
*
77590502 ATTTTAT-AATTTTTTATGATT-TTTTTAA
1 ATTTTATAAATTTTTTATAATTCTTTTTAA
*
77590530 ATTTT-TAAATTTTTTATAATTCTTTTTTA
1 ATTTTATAAATTTTTTATAATTCTTTTTAA
*
77590559 TTTTTAT
1 ATTTTAT
77590566 TTTTATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 18 0.60
29 10 0.33
30 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (30 bp):
ATTTTATAAATTTTTTATAATTCTTTTTAA
Found at i:77590576 original size:15 final size:16
Alignment explanation
Indices: 77590558--77590599 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
77590548 ATTCTTTTTT
77590558 ATTTTTATTTTT-ATA
1 ATTTTTATTTTTAATA
77590573 ATTTTTAATGTTTTAATA
1 ATTTTT-AT-TTTTAATA
*
77590591 TTTTTTATT
1 ATTTTTATT
77590600 AAAATTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 6 0.26
18 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
ATTTTTATTTTTAATA
Found at i:77590966 original size:83 final size:83
Alignment explanation
Indices: 77590809--77590965 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 83
77590799 AAAATAGGGA
* * * **
77590809 CTTAATTTTTTTTTTAATTTTGAGGGCCTTTATGATAAATTTTGAAAGTTCAAGTACCCAATTTT
1 CTTAATTTTTTTTTTAAATTTGAGAGCCTTTATGATAAATTTTGAAAATTCAAGTACCCAATTGA
*
77590874 GTGCAAAAAATGCAGGAG
66 ATGCAAAAAATGCAGGAG
** *
77590892 CTTAATTTTTTTTTTAAATTTGAGAGCCTTT-TGATGCATTTT-AAATATTCAAGTACCTAATTG
1 CTTAATTTTTTTTTTAAATTTGAGAGCCTTTATGATAAATTTTGAAA-ATTCAAGTACCCAATTG
77590955 AATGCAAAAAA
65 AATGCAAAAAA
77590966 AAATACAGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 3 0.05
82 32 0.50
83 29 0.45
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (83 bp):
CTTAATTTTTTTTTTAAATTTGAGAGCCTTTATGATAAATTTTGAAAATTCAAGTACCCAATTGA
ATGCAAAAAATGCAGGAG
Found at i:77590979 original size:83 final size:84
Alignment explanation
Indices: 77590770--77590988 Score: 205
Period size: 83 Copynumber: 2.6 Consensus size: 84
77590760 TTGACAGTTT
* * * *
77590770 AAGTACCCAATTGAGTGCAAAAAAAAAATAAAATAGGGACTTAATTTTTTTTTTAATTTTGAGGG
1 AAGTACCCAATTGAATGC-AAAAAAAAAT---ACA--GACTTAATTTTTTTTTTAAATTTGAGAG
*
77590835 CCTTTATGATAAATTTTGAAAGTTC
60 CCTTTATGATAAATTTTGAAAATTC
*** *
77590860 AAGTACCCAATTTTGTGC---AAAAAATGCAGGAGCTTAATTTTTTTTTTAAATTTGAGAGCCTT
1 AAGTACCCAATTGAATGCAAAAAAAAATACA-GA-CTTAATTTTTTTTTTAAATTTGAGAGCCTT
**
77590922 T-TGATGCATTTT-AAATATTC
64 TATGATAAATTTTGAAA-ATTC
* *
77590942 AAGTACCTAATTGAATGCAAAAAAAAATACAGACTTAATTATTTTTT
1 AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTT
77590989 AAAAAAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
81 3 0.03
82 29 0.27
83 43 0.39
84 2 0.02
85 9 0.08
86 7 0.06
90 16 0.15
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (84 bp):
AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTTTAAATTTGAGAGCCTTTA
TGATAAATTTTGAAAATTC
Found at i:77599713 original size:30 final size:29
Alignment explanation
Indices: 77599663--77599775 Score: 127
Period size: 30 Copynumber: 3.8 Consensus size: 29
77599653 ATTTTACATC
*
77599663 CTATTATAATGTTAGCTTGTGTGAGAAAT
1 CTATTATAATGTCAGCTTGTGTGAGAAAT
* * * *
77599692 CTTATTGTAATATCAGTTTGTGTGAGCAAAA
1 C-TATTATAATGTCAGCTTGTGTGAG-AAAT
* *
77599723 CTATTATAATGTCAGCTTATGTGAGCAAT
1 CTATTATAATGTCAGCTTGTGTGAGAAAT
*
77599752 CCTATTATAATGTCAGCCTGTGTG
1 -CTATTATAATGTCAGCTTGTGTG
77599776 TCCCAGTTCG
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
29 3 0.04
30 61 0.90
31 4 0.06
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (29 bp):
CTATTATAATGTCAGCTTGTGTGAGAAAT
Found at i:77599774 original size:60 final size:60
Alignment explanation
Indices: 77599663--77599775 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
77599653 ATTTTACATC
* * * * **
77599663 CTATTATAATGTTAGCTTGTGTGAGAAATCTTATTGTAATATCAGTTTGTGTGAGCAAAA
1 CTATTATAATGTCAGCTTATGTGAGAAATCCTATTATAATATCAGCCTGTGTGAGCAAAA
* *
77599723 CTATTATAATGTCAGCTTATGTGAGCAATCCTATTATAATGTCAGCCTGTGTG
1 CTATTATAATGTCAGCTTATGTGAGAAATCCTATTATAATATCAGCCTGTGTG
77599776 TCCCAGTTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (60 bp):
CTATTATAATGTCAGCTTATGTGAGAAATCCTATTATAATATCAGCCTGTGTGAGCAAAA
Found at i:77600598 original size:41 final size:40
Alignment explanation
Indices: 77600516--77600599 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 40
77600506 TTTTTGAAAA
* *
77600516 TTCTAAATTTTTTATAATTTTTAAAAATTCTATATTTTATT
1 TTCTAAATATTTTATAATTTTTAAAAA-TATATATTTTATT
* *
77600557 TTCTAAATGATTTTATATTTTTTAAAAA-ATATTTTTCTATT
1 TTCTAAAT-ATTTTATAATTTTTAAAAATATATATTT-TATT
77600598 TT
1 TT
77600600 TTATAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 6 0.16
41 14 0.38
42 17 0.46
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (40 bp):
TTCTAAATATTTTATAATTTTTAAAAATATATATTTTATT
Found at i:77600609 original size:9 final size:9
Alignment explanation
Indices: 77600587--77600641 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
77600577 TTTAAAAAAT
*
77600587 ATTTTTCTA
1 ATTTTTATA
*
77600596 TTTTTTATA
1 ATTTTTATA
77600605 ATTTTTCA-A
1 ATTTTT-ATA
*
77600614 AATTTTATA
1 ATTTTTATA
*
77600623 ATTTCTATA
1 ATTTTTATA
77600632 ATTTTTATA
1 ATTTTTATA
77600641 A
1 A
77600642 ATTCTATTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 1 0.03
9 35 0.95
10 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:77600610 original size:18 final size:18
Alignment explanation
Indices: 77600587--77600641 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
77600577 TTTAAAAAAT
*
77600587 ATTTTTCTATTTTTTATA
1 ATTTTTCTAATTTTTATA
* *
77600605 ATTTTTCAAAATTTTATA
1 ATTTTTCTAATTTTTATA
* *
77600623 ATTTCTATAATTTTTATA
1 ATTTTTCTAATTTTTATA
77600641 A
1 A
77600642 ATTCTATTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTCTAATTTTTATA
Found at i:77601262 original size:15 final size:15
Alignment explanation
Indices: 77601228--77601261 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
77601218 AAAATTATGG
77601228 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
*
77601243 TAAAAT-AAAAAAAT
1 AAAAATAAAAAAAAT
77601257 AAAAA
1 AAAAA
77601262 AAATGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:77612131 original size:46 final size:46
Alignment explanation
Indices: 77612079--77612352 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
77612069 GCTTTCTGAA
** * *
77612079 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
77612125 ATGAAATGTGTATGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
77612171 ATGAAATGAACAAGACGATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
77612217 GA-AAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
77612263 ATGAAATGAACAAGGCCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
77612309 AGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
77612353 TCAAAGATAA
Statistics
Matches: 198, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 196 0.99
47 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:77612236 original size:92 final size:92
Alignment explanation
Indices: 77612090--77612347 Score: 383
Period size: 92 Copynumber: 2.8 Consensus size: 92
77612080 TGAAATGTGT
* * * * *
77612090 AAGACCATGGTTGAAAGATACAATGGCAACATGATATGAAATGTGTATGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
77612155 ACCATGGCAACGTGACATGAAATGAAC
66 ACCATGGCAACGTGACATGAAATGAAC
* * * *
77612182 AAGACGATGGTTGAAAGATACCATGGCAACATGAC-GAAAAATAAATAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAG-GAAATGAGTAAGACCATGGTTGAAAGA
77612246 TACCATGGCAACGTGACATGAAATGAAC
65 TACCATGGCAACGTGACATGAAATGAAC
* * *
77612274 AAGGCCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
*
77612339 ACTATGGCA
66 ACCATGGCA
77612348 TCATGTCAAA
Statistics
Matches: 147, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
92 146 0.99
93 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
ACCATGGCAACGTGACATGAAATGAAC
Found at i:77612337 original size:138 final size:137
Alignment explanation
Indices: 77612089--77612370 Score: 384
Period size: 138 Copynumber: 2.1 Consensus size: 137
77612079 ATGAAATGTG
* *** *
77612089 TAAGACCATGGTTGAAAGATACAATGGCAACATGATATGAAATGTGTATGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACAATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
* * * * *
77612154 TACCATGGCAACGTGACATGAAATGAACAAGACGATGGTTGAAAGATACCATGGCAACATGACGA
66 TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGAC-A
77612219 AAAATAAA
130 AAAATAAA
* * *
77612227 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAACAAGGCCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACAATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
** * * *
77612292 TACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAA
66 TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGACAA
*
77612357 AGATAAA
131 AAATAAA
77612364 TAAGACC
1 TAAGACC
77612371 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
137 15 0.12
138 110 0.88
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACAATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGACAA
AAATAAA
Found at i:77616159 original size:17 final size:17
Alignment explanation
Indices: 77616137--77616177 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
77616127 TTTTGCTCGT
77616137 GAGGCATTAACTATCTC
1 GAGGCATTAACTATCTC
*
77616154 GAGGCATTAACTGTCTC
1 GAGGCATTAACTATCTC
*
77616171 AAGGCAT
1 GAGGCAT
77616178 AATCAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGGCATTAACTATCTC
Found at i:77633128 original size:47 final size:47
Alignment explanation
Indices: 77633077--77633346 Score: 407
Period size: 47 Copynumber: 5.7 Consensus size: 47
77633067 TTAGGATTCT
* * * *
77633077 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
77633124 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
77633171 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
77633218 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
77633265 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
77633312 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
77633347 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 205 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:77641846 original size:44 final size:44
Alignment explanation
Indices: 77641796--77641885 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
77641786 TAACATGTAC
77641796 AATCAATTATTATTAAAGATTTAATTTTTAGGTGAGTAAAATAA
1 AATCAATTATTATTAAAGATTTAATTTTTAGGTGAGTAAAATAA
77641840 AATCAATTATTATTAAAGATTTAATTTTTAGGTGAGTAAAATAA
1 AATCAATTATTATTAAAGATTTAATTTTTAGGTGAGTAAAATAA
77641884 AA
1 AA
77641886 ACATTCTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (44 bp):
AATCAATTATTATTAAAGATTTAATTTTTAGGTGAGTAAAATAA
Found at i:77642249 original size:14 final size:13
Alignment explanation
Indices: 77642222--77642257 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
77642212 AAAGTAAATT
77642222 AAATTTTTTATTA
1 AAATTTTTTATTA
*
77642235 AAATTTTTTATTT
1 AAATTTTTTATTA
*
77642248 AAATTGTTTA
1 AAATTTTTTA
77642258 GTTGATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
AAATTTTTTATTA
Found at i:77644849 original size:19 final size:19
Alignment explanation
Indices: 77644822--77644888 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
77644812 ATATATAAAA
77644822 TTTGTAATTTTTATAAA-TAT
1 TTTG-AATTTTTA-AAATTAT
* *
77644842 TTTGAATTTTAAAAATTAG
1 TTTGAATTTTTAAAATTAT
77644861 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTT-AAAATTAT
77644881 TTTGAATT
1 TTTGAATT
77644889 ATTTTGTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.07
19 19 0.46
20 19 0.46
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTGAATTTTTAAAATTAT
Found at i:77652980 original size:58 final size:57
Alignment explanation
Indices: 77652917--77653089 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 57
77652907 TGATAATAGT
* * *
77652917 AATTGTGATGCATCAATTAAATCGAATGAGTAATTACAATAAAAATTAATTAATGCAA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATG-AA
*
77652975 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT-AAAA-TGA-TAAT-AA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATGAA
* *
77653028 TAATTGTGGTGAATTAATTAAATTGCATG-GATAATTACAATAAAAATTAATTAATGAA
1 -AATTGTGGTGCATCAATTAAATTGCATGAG-TAATTACAATAAAAATTAATTAATGAA
77653086 AATT
1 AATT
77653090 CTTTTAATTG
Statistics
Matches: 102, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
53 3 0.03
54 36 0.35
55 8 0.08
56 4 0.04
57 12 0.12
58 39 0.38
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (57 bp):
AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATGAA
Found at i:77653054 original size:54 final size:54
Alignment explanation
Indices: 77652903--77653072 Score: 209
Period size: 54 Copynumber: 3.1 Consensus size: 54
77652893 TAATGTTAAA
* * * *
77652903 AAAATGATAATAGTAATTGTGATGCATCAATTAAATCGAATGAGTAATTACAAT
1 AAAATGATAATAATAATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT
*
77652957 AAAAATTAATTAATGCAA-AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT
1 -AAAA-TGA-TAAT--AATAATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT
* *
77653015 AAAATGATAATAATAATTGTGGTGAATTAATTAAATTGCATG-GATAATTACAAT
1 AAAATGATAATAATAATTGTGGTGCATCAATTAAATTGCATGAG-TAATTACAAT
77653069 AAAA
1 AAAA
77653073 ATTAATTAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
53 3 0.03
54 40 0.40
55 8 0.08
56 4 0.04
57 8 0.08
58 37 0.37
59 1 0.01
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.32
Consensus pattern (54 bp):
AAAATGATAATAATAATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT
Found at i:77662006 original size:18 final size:18
Alignment explanation
Indices: 77661983--77662026 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
77661973 TTCTCTTTTG
*
77661983 TTTATTTTAAAAGTATGT
1 TTTATTTTAAAAGTATAT
*
77662001 TTTATTTTAGAAGTATAT
1 TTTATTTTAAAAGTATAT
*
77662019 TTTCTTTT
1 TTTATTTT
77662027 TGGTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTATTTTAAAAGTATAT
Found at i:77664085 original size:76 final size:75
Alignment explanation
Indices: 77663907--77664096 Score: 220
Period size: 75 Copynumber: 2.5 Consensus size: 75
77663897 TTATTGGTGA
* * * * *
77663907 GCAAATCTTCGTTAGTTTACCTTACTAGTGCTGGGAACATCATTATAGTCATCGATTTATCCGAC
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGATTTATCCGAC
*
77663972 TAGCACTGGT
66 TAGCACTGGC
* * *
77663982 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATATTCAAC-AGTTTCTCTGA
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGA-TTTATCCGA
**
77664046 CTAGTGCTGGAC
65 CTAGCACTGG-C
* * **
77664058 GCAAATCTTCGTCAGTTTATCTGACTAGTTTTGGGCACA
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACA
77664097 ACCTCTATAA
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.01
75 62 0.63
76 35 0.36
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (75 bp):
GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGATTTATCCGAC
TAGCACTGGC
Found at i:77664748 original size:40 final size:40
Alignment explanation
Indices: 77664693--77664772 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
77664683 ATTAAATGTT
77664693 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
1 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
77664733 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
1 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
77664773 GTATAGGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (40 bp):
TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
Found at i:77665394 original size:16 final size:17
Alignment explanation
Indices: 77665373--77665404 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
77665363 GAATGTGATT
77665373 TGATTAATT-ATTATTA
1 TGATTAATTAATTATTA
77665389 TGATTAATTAATTATT
1 TGATTAATTAATTATT
77665405 TGTAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TGATTAATTAATTATTA
Found at i:77666817 original size:10 final size:10
Alignment explanation
Indices: 77666802--77666828 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
77666792 CATAGACCTG
77666802 TGTGTGGGGC
1 TGTGTGGGGC
77666812 TGTGTGGGGC
1 TGTGTGGGGC
77666822 TGTGTGG
1 TGTGTGG
77666829 AGCATACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.59, T:0.33
Consensus pattern (10 bp):
TGTGTGGGGC
Found at i:77668182 original size:33 final size:33
Alignment explanation
Indices: 77668135--77668200 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
77668125 ATGTAAAAAC
**
77668135 GACAACACGGGTCAACTATTCCGTAACTTTGTT
1 GACAACACAAGTCAACTATTCCGTAACTTTGTT
77668168 GACAACACAAGTCAACTATTCCGTAACTTTGTT
1 GACAACACAAGTCAACTATTCCGTAACTTTGTT
77668201 CTTTCCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (33 bp):
GACAACACAAGTCAACTATTCCGTAACTTTGTT
Found at i:77677347 original size:38 final size:38
Alignment explanation
Indices: 77677305--77677377 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
77677295 ATGCAGAATA
77677305 CATATTAATGATGTTCAAACTATGACATAATTAAAACT
1 CATATTAATGATGTTCAAACTATGACATAATTAAAACT
77677343 CATATTAATGATGTTCAAACTATGACATAATTAAA
1 CATATTAATGATGTTCAAACTATGACATAATTAAA
77677378 GACACAATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (38 bp):
CATATTAATGATGTTCAAACTATGACATAATTAAAACT
Found at i:77679868 original size:25 final size:25
Alignment explanation
Indices: 77679836--77679908 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
77679826 AAACACTCTC
77679836 TTGAGCCATATAACAGGAAGCTCAT
1 TTGAGCCATATAACAGGAAGCTCAT
* * *
77679861 TTGAGCCATGTAAAAGGAAGCTTAT
1 TTGAGCCATATAACAGGAAGCTCAT
* *
77679886 TTG-GGC-TATAACAGGAAACTCAT
1 TTGAGCCATATAACAGGAAGCTCAT
77679909 AAGAGTTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 13 0.32
24 2 0.05
25 25 0.62
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (25 bp):
TTGAGCCATATAACAGGAAGCTCAT
Found at i:77691222 original size:42 final size:42
Alignment explanation
Indices: 77691174--77691292 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
77691164 AATTCAATAT
* *
77691174 TGATGCCTCTGTCCCAGACAGGATCTTACACGAAAATAG-ATA
1 TGATGCCTATGTCCCAGACAGGATCTTACACGAAAAT-GCAAA
*
77691216 TGATGCCTATGTCCTAGACATGG-TCTTACACGAAAATGTCAAA
1 TGATGCCTATGTCCCAGACA-GGATCTTACACGAAAATG-CAAA
* * *
77691259 TCGAGGCCTATGTCCCAGACACGATTTTACACGA
1 T-GATGCCTATGTCCCAGACAGGATCTTACACGA
77691293 TATCTCATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.02
42 32 0.49
43 6 0.09
44 26 0.40
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
TGATGCCTATGTCCCAGACAGGATCTTACACGAAAATGCAAA
Found at i:77694516 original size:29 final size:28
Alignment explanation
Indices: 77694417--77694531 Score: 115
Period size: 29 Copynumber: 4.0 Consensus size: 28
77694407 TACCTGTATT
* *
77694417 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * *
77694445 TGGCCCATTAGGCACAAATCACCTGT-TTA
1 TGGCCCATTAGGC-CCAATCACAT-TCATA
* *
77694474 TGACCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
77694503 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
77694531 T
1 T
77694532 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
28 26 0.37
29 43 0.61
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:77694769 original size:8 final size:8
Alignment explanation
Indices: 77694746--77694784 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
77694736 CCCAACTTTA
77694746 GGCTTTTC
1 GGCTTTTC
*
77694754 GGCATTTC
1 GGCTTTTC
*
77694762 AGCTTTTC
1 GGCTTTTC
77694770 GGCTTTTC
1 GGCTTTTC
77694778 GGCTTTT
1 GGCTTTT
77694785 GCCGATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (8 bp):
GGCTTTTC
Found at i:77703048 original size:48 final size:46
Alignment explanation
Indices: 77702982--77703150 Score: 153
Period size: 48 Copynumber: 3.6 Consensus size: 46
77702972 AAGCTAATGC
* * * * *
77702982 CATGTCCCAAACAGGTCTTACACTAGCTTGTCCATCGCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCTAT-G-AAGGCCGATG
* ** *
77703030 CATGTCCCAGACATGTCTTACACTGGCTTAAATATTAAGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCTA-TGA-AGGCCGATG
* * * *
77703078 CATGTCCCAGACACGTCTTACACTGGC-TCTCATATTG-TGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATC-TA-TGAAGGCCGATG
77703124 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
77703151 ACACATATCA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
46 33 0.33
47 2 0.02
48 65 0.64
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATCTATGAAGGCCGATG
Found at i:77703142 original size:46 final size:47
Alignment explanation
Indices: 77703021--77703147 Score: 186
Period size: 48 Copynumber: 2.7 Consensus size: 47
77703011 GTCCATCGCA
*
77703021 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATTAAG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATT-AG
* *
77703069 AGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCT-CATATT-G
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATTAG
*
77703115 TGGCCGATGCATGTCCCAGACATGTCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
77703148 AGCACACATA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
46 32 0.44
48 40 0.55
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATTAG
Found at i:77703158 original size:46 final size:47
Alignment explanation
Indices: 77703021--77703158 Score: 188
Period size: 46 Copynumber: 2.9 Consensus size: 47
77703011 GTCCATCGCA
* * *
77703021 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATTAAG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATT-AG
* *
77703069 AGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATATT-G
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATTAG
* * *
77703115 TGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATAT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAT
77703159 CACCCAATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 40 0.50
48 40 0.50
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATTAG
Found at i:77705307 original size:68 final size:68
Alignment explanation
Indices: 77705203--77705446 Score: 269
Period size: 67 Copynumber: 3.6 Consensus size: 68
77705193 TGTCCAAGTG
* * * *
77705203 GACTCCATATGTTGCCATAGTCAAGCTACGGGCTTACACAATGTAACCCCATGTTTACTGTCCTG
1 GACTCCATATATTGCCATAGTCAAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTG
77705268 GCA
66 GCA
* ** * * ** *
77705271 GACTCCATATTTTTACATAGTTAAGCCATGGTCTTACACAATGTAATACCAT-ATTATTGTCCTG
1 GACTCCATATATTGCCATAGTCAAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTG
77705335 G-A
66 GCA
* *
77705337 GGACTCCATATATTGCCATAG-CAGAGCTATGATCTTACACAATGTAACCCCATGTTTTTTTGTC
1 -GACTCCATATATTGCCATAGTCA-AGCTATGGTCTTACACAATGTAACCCCATG-TTTATTGTC
*
77705401 CTAGCA
63 CTGGCA
* * * *
77705407 GACTCTATATGTTGCCATAGCCGAGCTATGGTCTTACACA
1 GACTCCATATATTGCCATAGTCAAGCTATGGTCTTACACA
77705447 TTAAACTCCT
Statistics
Matches: 144, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
66 2 0.01
67 53 0.37
68 43 0.30
69 44 0.31
70 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (68 bp):
GACTCCATATATTGCCATAGTCAAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTG
GCA
Done.