Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 288 of 318
Found at i:91858010 original size:29 final size:30
Alignment explanation
Indices: 91857967--91858046 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
91857957 GAAGTGAATC
91857967 AAATCAAAATTTCATATATAAAATTACACA-
1 AAATCAAAA-TTCATATATAAAATTACACAT
* *
91857997 AAATCAAAATTCATATATATAATTACATATT
1 AAATCAAAATTCATATATAAAATTACACA-T
* *
91858028 AAATCATAATTCATGTATA
1 AAATCAAAATTCATATATA
91858047 GTTTTAAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 18 0.41
30 9 0.20
31 17 0.39
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTCATATATAAAATTACACAT
Found at i:91860947 original size:39 final size:39
Alignment explanation
Indices: 91860889--91860986 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
91860879 TCGTGATCTG
* * *
91860889 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
91860928 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
* *
91860967 AAGCGCAAAGGCTAACTGAA
1 AAGCCCGAAGGCTAACTGAA
91860987 ACTCATCAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
Found at i:91867159 original size:16 final size:17
Alignment explanation
Indices: 91867129--91867160 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
91867119 ATAAGTATAC
91867129 ATATCAATCATTTCATT
1 ATATCAATCATTTCATT
91867146 ATATCAAT-ATTTCAT
1 ATATCAATCATTTCAT
91867161 GCTCCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATCAATCATTTCATT
Found at i:91867496 original size:46 final size:46
Alignment explanation
Indices: 91867440--91867721 Score: 334
Period size: 46 Copynumber: 6.1 Consensus size: 46
91867430 TTTATCTTTG
* * * * * *
91867440 TCATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTG
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTA
* ** **
91867486 TCATGTTGCCATGGTATCTTTCAACCATGTTCTTATTCATTTTCCCG
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT-CTA
**
91867533 TCATGTTGCCATGGTATCTCTTTCAACCATGGTCTTATTCATTTTCTA
1 TCATGTTGCCATGGTA--TCTTTCAACCATGGTCTTACACATTTTCTA
*
91867581 TCATGTTGCCATGGTATCTTTCAACCATGGTCCTACACA-TTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TA
*
91867627 TCATGTTGCCATGGTATCTTTCAACCATGATCTTACACA-TTTCATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TA
* * * *
91867673 TCAGGTTGCCATGGTATCTTTTAACTATGGTCTTACACATTTTATA
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTA
91867719 TCA
1 TCA
91867722 GAGAGCACAC
Statistics
Matches: 211, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
45 4 0.02
46 143 0.68
47 21 0.10
48 17 0.08
49 26 0.12
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (46 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTA
Found at i:91867600 original size:95 final size:92
Alignment explanation
Indices: 91867440--91867714 Score: 345
Period size: 95 Copynumber: 3.0 Consensus size: 92
91867430 TTTATCTTTG
* * * * *
91867440 TCATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCT
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATGTTGCCATGGTATCT
* ** * *
91867505 TTCAACCATGTTCTTATTCATTTTCCCG
66 TTCAACCATGGTCTTACACA-TTTCACA
*
91867533 TCATGTTGCCATGGTATCTCTTTCAACCATGGTCTTATTCATTTTCTATCATGTTGCCATGGTAT
1 TCATGTTGCCATGGTA--TCTTTCAACCATGGTCTTACTCATTTTCTATCATGTTGCCATGGTAT
* *
91867598 CTTTCAACCATGGTCCTACACATTTCATA
64 CTTTCAACCATGGTCTTACACATTTCACA
* * *
91867627 TCATGTTGCCATGGTATCTTTCAACCATGATCTTACACA-TTTCATATCAGGTTGCCATGGTATC
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TATCATGTTGCCATGGTATC
* *
91867691 TTTTAACTATGGTCTTACACATTT
65 TTTCAACCATGGTCTTACACATTT
91867715 TATATCAGAG
Statistics
Matches: 159, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
91 4 0.03
92 60 0.38
93 13 0.08
94 20 0.13
95 62 0.39
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.42
Consensus pattern (92 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTATCATGTTGCCATGGTATCT
TTCAACCATGGTCTTACACATTTCACA
Found at i:91869396 original size:15 final size:15
Alignment explanation
Indices: 91869376--91869432 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
91869366 CGATGAATTT
91869376 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
91869391 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
91869406 ATTGAATTTATATTG
1 ATTGAATTTATATTG
91869421 ATTGAA-TTATAT
1 ATTGAATTTATAT
91869433 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:91869824 original size:23 final size:23
Alignment explanation
Indices: 91869798--91869872 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
91869788 AGGCACTTTA
91869798 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
91869821 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
91869842 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
91869863 TGTGTCGTAT
1 TGTGTCGTAT
91869873 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:91873139 original size:30 final size:33
Alignment explanation
Indices: 91873099--91873167 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
91873089 TGTCATTATT
91873099 TAATATATTT-ATCAAATAAA-ATC-TTATAATA
1 TAATATATTTAAT-AAATAAATATCTTTATAATA
*
91873130 TAAT-TATTTAATTAATAAATATCTTTTATAATA
1 TAATATATTTAATAAATAAATATC-TTTATAATA
91873163 TAATA
1 TAATA
91873168 AATATCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 11 0.34
31 9 0.28
33 12 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATATTTAATAAATAAATATCTTTATAATA
Found at i:91873173 original size:21 final size:20
Alignment explanation
Indices: 91873134--91873183 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
91873124 ATAATATAAT
91873134 TATTTAAT-TAATAAATATC
1 TATTTAATATAATAAATATC
*
91873153 TTTTATAATATAATAAATATC
1 TATT-TAATATAATAAATATC
91873174 TATTTAATAT
1 TATTTAATAT
91873184 CTAATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 10 0.37
21 14 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAATATAATAAATATC
Found at i:91874722 original size:18 final size:18
Alignment explanation
Indices: 91874689--91874743 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
91874679 CGTGATCCGA
*
91874689 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
*
91874706 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
91874723 TTGAAAACACGAAAATTT
1 TTGAAAACACGAAAATTT
91874741 TTG
1 TTG
91874744 GGATTCGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:91875315 original size:26 final size:27
Alignment explanation
Indices: 91875272--91875325 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
91875262 TATGTATACC
*
91875272 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
91875298 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
91875325 A
1 A
91875326 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:91875360 original size:18 final size:17
Alignment explanation
Indices: 91875334--91875387 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
91875324 AATAAGCATA
91875334 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
91875353 ATAAAAATAATACTATAT
1 ATAAAAAT-ATAATATAT
*
91875371 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
91875387 A
1 A
91875388 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 15 0.48
19 8 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:91875453 original size:3 final size:3
Alignment explanation
Indices: 91875445--91875498 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
91875435 AAAAATAAGT
* * * *
91875445 ATA ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91875490 ATA ATA ATA
1 ATA ATA ATA
91875499 TGTGAAGGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:91875824 original size:29 final size:30
Alignment explanation
Indices: 91875792--91875848 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
91875782 ATTAGCAGCG
* *
91875792 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
* *
91875821 TGAAGATAATAAGAACAGCAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
91875849 GAAAGTAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:91879346 original size:33 final size:32
Alignment explanation
Indices: 91879254--91879358 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
91879244 AAATAATTAA
*
91879254 TTGAAATATTTCACATATAAACATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
91879286 TTGAAATATTTCACATATAAAAATAATGATAT
1 TTGAAATATTTCACATATAAAAATAATGATAT
* * *
91879318 TTTAAATATTTTAAATATAAAAAATAATGATAT
1 TTGAAATATTTCACATAT-AAAAATAATGATAT
91879351 TTGAAATA
1 TTGAAATA
91879359 ATTATTTGAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 46 0.69
33 21 0.31
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (32 bp):
TTGAAATATTTCACATATAAAAATAATGATAT
Found at i:91885889 original size:24 final size:24
Alignment explanation
Indices: 91885857--91885904 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
91885847 TCAATCAATC
91885857 TATACTATTATTGAATATTGAGGT
1 TATACTATTATTGAATATTGAGGT
91885881 TATACTATTATTGAATATTGAGGT
1 TATACTATTATTGAATATTGAGGT
91885905 GAACTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (24 bp):
TATACTATTATTGAATATTGAGGT
Found at i:91899855 original size:18 final size:17
Alignment explanation
Indices: 91899808--91899886 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
91899798 TTTAAATATA
91899808 TATAAATATATTATTTAAT
1 TATAAATATATTA-TT-AT
91899827 TATAAAGTATATTATTAT
1 TATAAA-TATATTATTAT
*
91899845 TGTAAAT-TA-TATTAAT
1 TATAAATATATTATT-AT
*
91899861 TAT-ATTATATTATTATAT
1 TATAAATATATTA-T-TAT
91899879 TATAAATA
1 TATAAATA
91899887 AACTAAAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 6 0.12
16 8 0.16
17 3 0.06
18 13 0.27
19 12 0.24
20 7 0.14
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAAATATATTATTAT
Found at i:91899877 original size:13 final size:14
Alignment explanation
Indices: 91899850--91899882 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
91899840 ATTATTGTAA
91899850 ATTATATTAATTAT
1 ATTATATTAATTAT
91899864 ATTATATT-ATTAT
1 ATTATATTAATTAT
91899877 ATTATA
1 ATTATA
91899883 AATAAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATATTAATTAT
Found at i:91900118 original size:8 final size:8
Alignment explanation
Indices: 91900105--91900137 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
91900095 AACGAAACAG
91900105 AGAAGGAA
1 AGAAGGAA
91900113 AGAAGGAA
1 AGAAGGAA
91900121 AGAAGGAA
1 AGAAGGAA
*
91900129 AGAAAGAA
1 AGAAGGAA
91900137 A
1 A
91900138 AGGGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (8 bp):
AGAAGGAA
Found at i:91901638 original size:18 final size:18
Alignment explanation
Indices: 91901615--91901694 Score: 106
Period size: 18 Copynumber: 4.4 Consensus size: 18
91901605 TAAATAAAAG
*
91901615 TACTGAATGACTGATTGT
1 TACTGAATAACTGATTGT
*
91901633 TACTGAATAATTGATTGT
1 TACTGAATAACTGATTGT
* *
91901651 TACTAAATAACTGATTGC
1 TACTGAATAACTGATTGT
* *
91901669 TACTGAATAATTGATTAT
1 TACTGAATAACTGATTGT
91901687 TACTGAAT
1 TACTGAAT
91901695 GATATTGAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:91901717 original size:20 final size:20
Alignment explanation
Indices: 91901694--91901742 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
91901684 TATTACTGAA
91901694 TGATATTGAAAAATATCAAT
1 TGATATTGAAAAATATCAAT
91901714 TGATATTGAAAAATATCAAT
1 TGATATTGAAAAATATCAAT
91901734 TGATATTGA
1 TGATATTGA
91901743 GCTTGGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (20 bp):
TGATATTGAAAAATATCAAT
Found at i:91902605 original size:21 final size:21
Alignment explanation
Indices: 91902579--91902634 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
91902569 TAGGCTCTCA
91902579 ACATGGCCGTGTGACCTAGCG
1 ACATGGCCGTGTGACCTAGCG
* * *
91902600 ACATGGTCGTGTGATCTAGTG
1 ACATGGCCGTGTGACCTAGCG
91902621 ACATGGCCGTGTGA
1 ACATGGCCGTGTGA
91902635 GTCACATGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.21, G:0.34, T:0.25
Consensus pattern (21 bp):
ACATGGCCGTGTGACCTAGCG
Found at i:91908890 original size:25 final size:25
Alignment explanation
Indices: 91908862--91908922 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
91908852 TTAAAATTTG
91908862 TTTTTAATTATAACATAAATTTTTA
1 TTTTTAATTATAACATAAATTTTTA
91908887 TTTTTAATTATAACATAAATTTTTA
1 TTTTTAATTATAACATAAATTTTTA
91908912 TTTTTAATTAT
1 TTTTTAATTAT
91908923 TTATCTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTTAATTATAACATAAATTTTTA
Found at i:91919943 original size:9 final size:9
Alignment explanation
Indices: 91919926--91919955 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
91919916 ATAATTAACA
91919926 TTTATAAAAT
1 TTTA-AAAAT
91919936 TTTAAAAAT
1 TTTAAAAAT
91919945 TTTAAAAAT
1 TTTAAAAAT
91919954 TT
1 TT
91919956 AATCGAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:91921578 original size:17 final size:17
Alignment explanation
Indices: 91921558--91921592 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
91921548 AAAATATATC
* *
91921558 AAAATTAATATTATAAT
1 AAAATTAAAATTAAAAT
91921575 AAAATTAAAATTAAAAT
1 AAAATTAAAATTAAAAT
91921592 A
1 A
91921593 TTTAACATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTAAAATTAAAAT
Found at i:91929969 original size:25 final size:25
Alignment explanation
Indices: 91929935--91929983 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
91929925 AAATTAATAG
91929935 TTAAAATTGAATTT-TTTTAAAAGA
1 TTAAAATTGAATTTATTTTAAAAGA
91929959 TTAAAGATTGAATTTAATTTTAAAA
1 TTAAA-ATTGAATTT-ATTTTAAAA
91929984 AATAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
27 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
TTAAAATTGAATTTATTTTAAAAGA
Found at i:91930009 original size:24 final size:23
Alignment explanation
Indices: 91929978--91930024 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
91929968 GAATTTAATT
91929978 TTAAAAAATAA-ATAAATATTAAA
1 TTAAAAAA-AATATAAATATTAAA
*
91930001 TTAATAAAAAATATAAATTTTAAA
1 TTAA-AAAAAATATAAATATTAAA
91930025 GACTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
TTAAAAAAAATATAAATATTAAA
Found at i:91930023 original size:19 final size:19
Alignment explanation
Indices: 91929984--91930019 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
91929974 AATTTTAAAA
91929984 AATAAATAAATATTAAATT
1 AATAAATAAATATTAAATT
91930003 AATAAA-AAATA-TAAATT
1 AATAAATAAATATTAAATT
91930020 TTAAAGACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAATAAATATTAAATT
Found at i:91934918 original size:22 final size:21
Alignment explanation
Indices: 91934879--91934919 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
91934869 CATGTCTTTC
*
91934879 TTTTATAAAAATATATAAACT
1 TTTTATAAAAATACATAAACT
*
91934900 TTTTACTAAATATACATAAA
1 TTTTA-TAAAAATACATAAA
91934920 GATTAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTATAAAAATACATAAACT
Found at i:91936633 original size:18 final size:16
Alignment explanation
Indices: 91936606--91936644 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
91936596 TTATATATTT
91936606 TTTAATCTTTTTAAAAA
1 TTTAATCTTTTT-AAAA
91936623 TTTATATCTTTTTAAAA
1 TTTA-ATCTTTTTAAAA
91936640 TTTAA
1 TTTAA
91936645 CATAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 12 0.57
18 8 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATCTTTTTAAAA
Found at i:91949960 original size:5 final size:5
Alignment explanation
Indices: 91949950--91949976 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
91949940 GCGTCAACCA
91949950 AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AA
91949977 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:91953639 original size:26 final size:27
Alignment explanation
Indices: 91953599--91953649 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
91953589 TCCTTATATT
*
91953599 TTATGTTTAAATATTT-TATTGAAGAA
1 TTATGTTTAAATATTTAAATTGAAGAA
*
91953625 TTATGTTTAATTATTTAAATTGAAG
1 TTATGTTTAAATATTTAAATTGAAG
91953650 TGTGACATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (27 bp):
TTATGTTTAAATATTTAAATTGAAGAA
Found at i:91953946 original size:3 final size:3
Alignment explanation
Indices: 91953938--91953987 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
91953928 AAATATATGC
*
91953938 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
91953986 TA
1 TA
91953988 CTTTGGCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:91960624 original size:36 final size:36
Alignment explanation
Indices: 91960584--91960663 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
91960574 TTATGATTAA
* *
91960584 TTAATTAGTTTGGGTATTAGGTATTAATAGCTTAGG
1 TTAATTAATTTGGGTATTAGGTATTAATAGATTAGG
91960620 TTAATTAATTTGGGTATTAGGTATTAATAGATTAGGG
1 TTAATTAATTTGGGTATTAGGTATTAATAGATTA-GG
91960657 TT-ATTAA
1 TTAATTAA
91960664 GATTAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (36 bp):
TTAATTAATTTGGGTATTAGGTATTAATAGATTAGG
Found at i:91960680 original size:23 final size:23
Alignment explanation
Indices: 91960620--91960688 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
91960610 ATAGCTTAGG
*
91960620 TTAATTAATTTGGG-TATTAGGTA
1 TTAATTAATTTGGGTTATTAAG-A
*
91960643 TTAA-TAGATTAGGGTTATTAAGA
1 TTAATTA-ATTTGGGTTATTAAGA
91960666 TTAATTAATTTGGGTTATTAAGA
1 TTAATTAATTTGGGTTATTAAGA
91960689 AATTAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 2 0.05
23 30 0.75
24 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
TTAATTAATTTGGGTTATTAAGA
Found at i:91961711 original size:25 final size:26
Alignment explanation
Indices: 91961657--91961711 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
91961647 TCTCATGCAG
*
91961657 ATTATTTATATTTTCCTTCTAAATTT
1 ATTATTAATATTTTCCTTCTAAATTT
* *
91961683 -TTATTAATATTTT-TTTCTTAATTT
1 ATTATTAATATTTTCCTTCTAAATTT
91961707 ATTAT
1 ATTAT
91961712 ATATTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (26 bp):
ATTATTAATATTTTCCTTCTAAATTT
Found at i:91967711 original size:23 final size:25
Alignment explanation
Indices: 91967684--91967775 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 25
91967674 AATGAAAAGG
*
91967684 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGCGAATGGAAGCTA
*
91967707 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGG--AAGCTA
**
91967734 GCACTATGTGTGCGAAT-GAATATA
1 GCACTATGTGTGCGAATGGAAGCTA
91967758 TGCACTATGTGTGCGAAT
1 -GCACTATGTGTGCGAAT
91967776 TTATTAACCG
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
23 18 0.31
24 4 0.07
25 17 0.29
26 3 0.05
27 17 0.29
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (25 bp):
GCACTATGTGTGCGAATGGAAGCTA
Found at i:91967736 original size:27 final size:24
Alignment explanation
Indices: 91967706--91967775 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
91967696 CGAATGGGGC
*
91967706 AGCACTATGTGTGCGTATGGAAAAGCT
1 AGCACTATGTGTGCGAAT-GAAAA--T
*
91967733 AGCACTATGTGTGCGAATGAATAT
1 AGCACTATGTGTGCGAATGAAAAT
91967757 ATGCACTATGTGTGCGAAT
1 A-GCACTATGTGTGCGAAT
91967776 TTATTAACCG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.05
25 17 0.43
26 4 0.10
27 17 0.43
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAATGAAAAT
Found at i:91969985 original size:9 final size:9
Alignment explanation
Indices: 91969973--91970013 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
91969963 CATTAAAATT
91969973 AGAAAGAAA
1 AGAAAGAAA
91969982 AGAAAGAAA
1 AGAAAGAAA
*
91969991 CAAAAAG-AA
1 -AGAAAGAAA
91970000 AG-AAGAAA
1 AGAAAGAAA
91970008 AGAAAG
1 AGAAAG
91970014 TCACGCACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
7 3 0.11
8 5 0.19
9 14 0.52
10 5 0.19
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:91972312 original size:33 final size:33
Alignment explanation
Indices: 91972270--91972337 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
91972260 AATGCCCACA
91972270 TAGCTAGACATACGAACGTGTGACTTGGCCGTG
1 TAGCTAGACATACGAACGTGTGACTTGGCCGTG
91972303 TAGCTAGACATACGAACGTGTGACTTGGCCGTG
1 TAGCTAGACATACGAACGTGTGACTTGGCCGTG
91972336 TA
1 TA
91972338 AGTTACACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (33 bp):
TAGCTAGACATACGAACGTGTGACTTGGCCGTG
Found at i:91974636 original size:13 final size:13
Alignment explanation
Indices: 91974618--91974642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91974608 CACCTATCTA
91974618 TAAAAATAGGGTT
1 TAAAAATAGGGTT
91974631 TAAAAATAGGGT
1 TAAAAATAGGGT
91974643 GTTTCCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (13 bp):
TAAAAATAGGGTT
Found at i:91975152 original size:19 final size:18
Alignment explanation
Indices: 91975128--91975166 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
91975118 GGTTAGGGTT
91975128 ATGAAAAGAAGAAGAGAGA
1 ATGAAAAGAAGAAGA-AGA
*
91975147 ATGAAAAGGAGAAGAAGA
1 ATGAAAAGAAGAAGAAGA
91975165 AT
1 AT
91975167 AAGATAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.08
Consensus pattern (18 bp):
ATGAAAAGAAGAAGAAGA
Found at i:91977139 original size:14 final size:14
Alignment explanation
Indices: 91977120--91977150 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
91977110 AATTGAGGAA
91977120 ATATGATGATGATG
1 ATATGATGATGATG
91977134 ATATGATGATGATG
1 ATATGATGATGATG
91977148 ATA
1 ATA
91977151 CGGTAAACGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (14 bp):
ATATGATGATGATG
Found at i:91980486 original size:15 final size:16
Alignment explanation
Indices: 91980466--91980496 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
91980456 CGCACGTTGG
91980466 AATATAAA-CTAGAAT
1 AATATAAATCTAGAAT
91980481 AATATAAATCTAGAAT
1 AATATAAATCTAGAAT
91980497 TCAAACATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (16 bp):
AATATAAATCTAGAAT
Found at i:91986422 original size:25 final size:24
Alignment explanation
Indices: 91986381--91986576 Score: 165
Period size: 22 Copynumber: 8.3 Consensus size: 24
91986371 GACCTCAGCA
* **
91986381 TGCTCTGTGAATATTAGCACGCCAG
1 TGCTCTCTGAAT-TTAGCACATCAG
91986406 TGCTCTCTGATATTTAGCACATCAG
1 TGCTCTCTGA-ATTTAGCACATCAG
**
91986431 TGCTCTCTG-A-TTAGCACATTTG
1 TGCTCTCTGAATTTAGCACATCAG
* *
91986453 TGCTCTCTGATATTTAACACGTCAG
1 TGCTCTCTGA-ATTTAGCACATCAG
**
91986478 TGCTCTCTG-A-TTAGCACATTTG
1 TGCTCTCTGAATTTAGCACATCAG
*
91986500 TGCTCTCTGATATTTAGCACGTCAG
1 TGCTCTCTGA-ATTTAGCACATCAG
**
91986525 TGCTCTCT-AA-TTAGCACATTTG
1 TGCTCTCTGAATTTAGCACATCAG
* * *
91986547 TGCTCTCTG--TATAACACTTCAG
1 TGCTCTCTGAATTTAGCACATCAG
91986569 TGCTCTCT
1 TGCTCTCT
91986577 ATTCATTAGT
Statistics
Matches: 138, Mismatches: 24, Indels: 21
0.75 0.13 0.11
Matches are distributed among these distances:
22 68 0.49
23 3 0.02
24 3 0.02
25 62 0.45
26 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (24 bp):
TGCTCTCTGAATTTAGCACATCAG
Found at i:91986456 original size:47 final size:47
Alignment explanation
Indices: 91986405--91986576 Score: 278
Period size: 47 Copynumber: 3.7 Consensus size: 47
91986395 TAGCACGCCA
* *
91986405 GTGCTCTCTGATATTTAGCACATCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAACACGTCAGTGCTCTCTGATTAGCACATTT
91986452 GTGCTCTCTGATATTTAACACGTCAGTGCTCTCTGATTAGCACATTT
1 GTGCTCTCTGATATTTAACACGTCAGTGCTCTCTGATTAGCACATTT
* *
91986499 GTGCTCTCTGATATTTAGCACGTCAGTGCTCTCTAATTAGCACATTT
1 GTGCTCTCTGATATTTAACACGTCAGTGCTCTCTGATTAGCACATTT
*
91986546 GTGCTCTCTG-TA--TAACACTTCAGTGCTCTCT
1 GTGCTCTCTGATATTTAACACGTCAGTGCTCTCT
91986577 ATTCATTAGT
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 17 0.14
46 2 0.02
47 100 0.84
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (47 bp):
GTGCTCTCTGATATTTAACACGTCAGTGCTCTCTGATTAGCACATTT
Found at i:91988751 original size:34 final size:36
Alignment explanation
Indices: 91988691--91988758 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 36
91988681 TGTTGTTTAA
* *
91988691 ATTATAAATATATTATTAATGTTATTATTTTATTAT
1 ATTATAAATATATAATTAATGTTATTATTATATTAT
91988727 ATTATAAAT-TA-AATTAAT-TATATTATTATATT
1 ATTATAAATATATAATTAATGT-TATTATTATATT
91988759 TTGAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 17 0.59
35 2 0.07
36 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (36 bp):
ATTATAAATATATAATTAATGTTATTATTATATTAT
Found at i:91988768 original size:29 final size:29
Alignment explanation
Indices: 91988714--91988772 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
91988704 TATTAATGTT
*
91988714 ATTATTTTATTATATTATAAATTAAATTA
1 ATTATATTATTATATTATAAATTAAATTA
*
91988743 ATTATATTATTATATTTTGAAA-TAAATTA
1 ATTATATTATTATATTAT-AAATTAAATTA
91988772 A
1 A
91988773 GAAAAGACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATAAATTAAATTA
Found at i:91989091 original size:13 final size:13
Alignment explanation
Indices: 91989073--91989098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
91989063 CAGGGGAGAA
91989073 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
91989086 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
91989099 GGGGAAAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:91991339 original size:29 final size:29
Alignment explanation
Indices: 91991297--91991353 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
91991287 CATTAATAAG
91991297 TTAGCATTCCTCCAGAGTTCTGCGAAATT
1 TTAGCATTCCTCCAGAGTTCTGCGAAATT
91991326 TTAGCATTCCTCCAGAGTTCTGCGAAAT
1 TTAGCATTCCTCCAGAGTTCTGCGAAAT
91991354 AAATCCATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (29 bp):
TTAGCATTCCTCCAGAGTTCTGCGAAATT
Found at i:91991362 original size:29 final size:29
Alignment explanation
Indices: 91991301--91991363 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
91991291 AATAAGTTAG
** *
91991301 CATTCCTCCAGAGTTCTGCGAAATTTTAG
1 CATTCCTCCAGAGTTCTGCGAAATAATAC
91991330 CATTCCTCCAGAGTTCTGCGAAATAA-ATC
1 CATTCCTCCAGAGTTCTGCGAAATAATA-C
91991359 CATTC
1 CATTC
91991364 TTCTTTCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (29 bp):
CATTCCTCCAGAGTTCTGCGAAATAATAC
Found at i:91992212 original size:64 final size:64
Alignment explanation
Indices: 91992139--91992349 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
91992129 CTGGGCCAGA
* *
91992139 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * ** * ** *
91992203 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-AGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
91992265 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
91992276 GCCCTTTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
91992340 GCCCATTTCA
1 GCCCATTTCA
91992350 AAATACATGC
Statistics
Matches: 104, Mismatches: 26, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 6 0.06
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.15
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGAGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:91992351 original size:137 final size:137
Alignment explanation
Indices: 91992105--91992528 Score: 803
Period size: 137 Copynumber: 3.1 Consensus size: 137
91992095 CATTGGGCTT
**
91992105 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
91992170 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
91992235 CATATGC
131 CATATGC
*
91992242 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
91992307 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
91992372 CATATGC
131 CATATGC
*
91992379 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAACCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
91992444 AGCCCCTTATTCAGATAACAGTATGGCCCATAAGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
91992509 CATATGC
131 CATATGC
91992516 AAGCCCATTTGGG
1 AAGCCCATTTGGG
91992529 GAGACTACTC
Statistics
Matches: 281, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 281 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:91994345 original size:26 final size:26
Alignment explanation
Indices: 91994314--91994421 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
91994304 TGAAATGCCC
91994314 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
91994340 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
91994366 ATCATGGAATATTTACC-AAATCCATT
1 ATCATGGAACATTTACCTAAA-CCATT
*
91994392 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
91994418 ATCA
1 ATCA
91994422 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
25 2 0.03
26 71 0.95
27 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:91994391 original size:52 final size:52
Alignment explanation
Indices: 91994314--91994421 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
91994304 TGAAATGCCC
91994314 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
91994366 ATCATGGAATATTTACC-AAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAA-CCATTATCATGGAACATTTACCTAACCCATT
91994418 ATCA
1 ATCA
91994422 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
51 3 0.06
52 51 0.94
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:92003708 original size:29 final size:26
Alignment explanation
Indices: 92003642--92003709 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
92003632 TAAATTTGTT
* *
92003642 AATTTTATTATATTATTTTTAATATAA
1 AATTTCATTA-ATTATTTTTAAAATAA
* *
92003669 AATTACTTTAATTATTATTTAAAATAA
1 AATTTCATTAATTATT-TTTAAAATAA
92003696 TATATTTCATTAAT
1 -A-ATTTCATTAAT
92003710 CAATAATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
26 6 0.19
27 16 0.50
28 1 0.03
29 9 0.28
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (26 bp):
AATTTCATTAATTATTTTTAAAATAA
Found at i:92003862 original size:13 final size:13
Alignment explanation
Indices: 92003840--92003873 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
92003830 TCTAATGTCA
92003840 TTTTTT-ACTCTC
1 TTTTTTCACTCTC
*
92003852 TTTTTTCACTCTT
1 TTTTTTCACTCTC
92003865 TTTTTTCAC
1 TTTTTTCAC
92003874 AGCCACTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTTCACTCTC
Found at i:92005883 original size:16 final size:16
Alignment explanation
Indices: 92005862--92005895 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
92005852 TATAGAACTA
92005862 GAAGTTACAATTTTGT
1 GAAGTTACAATTTTGT
92005878 GAAGTTACAATTTTGT
1 GAAGTTACAATTTTGT
92005894 GA
1 GA
92005896 CTGACTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (16 bp):
GAAGTTACAATTTTGT
Found at i:92009265 original size:19 final size:21
Alignment explanation
Indices: 92009237--92009276 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
92009227 CAAGATTAAA
92009237 TAAAATATATATTA-TAAAAT
1 TAAAATATATATTATTAAAAT
*
92009257 TAAAA-ATATCTTATTAAAAT
1 TAAAATATATATTATTAAAAT
92009277 GTATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATATATATTATTAAAAT
Found at i:92009282 original size:29 final size:28
Alignment explanation
Indices: 92009247--92009319 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
92009237 TAAAATATAT
92009247 ATTATAAAATTAA-AAATATCTTATTAAA
1 ATTATAAAATTAATAAA-ATCTTATTAAA
* *
92009275 ATGTATAAAAATAATTAAAATCTTATTAAT
1 AT-TATAAAATTAA-TAAAATCTTATTAAA
*
92009305 ATTAAAAAATTAATA
1 ATTATAAAATTAATA
92009320 TAGGAGTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
28 4 0.11
29 19 0.50
30 12 0.32
31 3 0.08
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
ATTATAAAATTAATAAAATCTTATTAAA
Found at i:92015795 original size:23 final size:21
Alignment explanation
Indices: 92015768--92015817 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
92015758 AGTAATATAC
*
92015768 AAAATAATATACATTAATTTAA
1 AAAATAATATACA-TAAATTAA
92015790 ATAAATAATATACATAAATTAA
1 A-AAATAATATACATAAATTAA
92015812 AAAATA
1 AAAATA
92015818 GTTTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 12 0.46
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATAATATACATAAATTAA
Found at i:92015799 original size:35 final size:34
Alignment explanation
Indices: 92015750--92015848 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 34
92015740 AAAAAGAAAC
* *
92015750 TTAAAGTAAGTAATATACA-AAATAATATACATTAAT
1 TTAAA-TAAATAATATACATAAATAATA-A-AATAAT
*
92015786 TTAAATAAATAATATACATAAATTAA-AAAATAGT
1 TTAAATAAATAATATACATAAA-TAATAAAATAAT
*
92015820 TTAATATAAATAATATATATAAATAATAA
1 TTAA-ATAAATAATATACATAAATAATAA
92015849 TGTATAAGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
34 11 0.20
35 32 0.58
36 9 0.16
37 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (34 bp):
TTAAATAAATAATATACATAAATAATAAAATAAT
Found at i:92015841 original size:13 final size:13
Alignment explanation
Indices: 92015823--92015847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92015813 AAATAGTTTA
92015823 ATATAAATAATAT
1 ATATAAATAATAT
92015836 ATATAAATAATA
1 ATATAAATAATA
92015848 ATGTATAAGA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:92016059 original size:26 final size:26
Alignment explanation
Indices: 92016030--92016092 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
92016020 TAAAACAGTT
*
92016030 TTAAAAAAAACTAAATAA-TAAATAAA
1 TTAAAAAAAA-TAAAGAATTAAATAAA
* *
92016056 TTAAAAGAAATAAAGAATTACATAAA
1 TTAAAAAAAATAAAGAATTAAATAAA
* *
92016082 CTAAAATAAAT
1 TTAAAAAAAAT
92016093 GAACTCAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (26 bp):
TTAAAAAAAATAAAGAATTAAATAAA
Found at i:92020004 original size:17 final size:20
Alignment explanation
Indices: 92019965--92020004 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
92019955 TTTTTAAAAA
*
92019965 ATTAAAATATATATTTAATT
1 ATTAAAATATATATTTAACT
92019985 ATTAAAATA-AT-TTT-ACT
1 ATTAAAATATATATTTAACT
92020002 ATT
1 ATT
92020005 TTAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 2 0.11
20 9 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAATATATATTTAACT
Found at i:92024607 original size:14 final size:14
Alignment explanation
Indices: 92024588--92024615 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92024578 CAATTTCACC
92024588 ATTTTTAAAACATT
1 ATTTTTAAAACATT
92024602 ATTTTTAAAACATT
1 ATTTTTAAAACATT
92024616 TAACTGTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTTAAAACATT
Found at i:92026098 original size:127 final size:125
Alignment explanation
Indices: 92025815--92026251 Score: 462
Period size: 125 Copynumber: 3.4 Consensus size: 125
92025805 GCCAAACGGT
* * * * * * * * *
92025815 AAATCGCAACCCAACACGATTGGGCACGATTTATCGAATTTTCAAATACAAAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
* * * * * * *
92025880 TTAATTTAAGAAAACATGGATGAAATGTCGAAAGGATATTACGTATCTTAGTCGAATGAA
66 TTAATTTAAGAAAGCATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTTGAATGAA
* * *
92025940 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGGAATATTACCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
** *
92026005 TTAATTTAAGAAAGTGTGGATGAAATTTCAAAAAAAGATATTCCATATTTTAGTTGAATGAA
66 TTAATTTAAGAAAGCATGGATGAAATTTC--AAAAGGATATTCCATATTTTAGTTGAATGAA
* * * *
92026067 AAAACGAAACCCAGCACGATTGGGCATGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACT-TCCAAACACGAAATATTGCCTCAT
* * ** * * *
92026132 TTTAATTTTTAAAAAAAAGCATGGACGAAATTTTTAAAGGATATTCCATATTTTAGCTCAACGAA
65 TTTAA--TTT--AAGAAAGCATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTTGAATGAA
* * * *
92026197 AAATCAAAACTCAGCACGATTGGGCACGATTTCTCAGACCTT-CAAACACGAAATA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCA-AACTTCCAAACACGAAATA
92026252 ATTCTTTAAG
Statistics
Matches: 257, Mismatches: 47, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
125 78 0.30
127 63 0.25
128 24 0.09
129 12 0.05
130 60 0.23
131 3 0.01
132 17 0.07
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
TTAATTTAAGAAAGCATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTTGAATGAA
Found at i:92026985 original size:23 final size:22
Alignment explanation
Indices: 92026943--92026985 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
92026933 TACAATACAA
*
92026943 GTAATTTAATAAAAATAATAGC
1 GTAATTTAATAAAAAGAATAGC
92026965 GTAATATTAA-AACAAAGAATA
1 GTAAT-TTAATAA-AAAGAATA
92026986 TTTATTACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (22 bp):
GTAATTTAATAAAAAGAATAGC
Found at i:92027037 original size:60 final size:60
Alignment explanation
Indices: 92026973--92027096 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 60
92026963 GCGTAATATT
*
92026973 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTACAAGATAAAATATAA
92027033 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTACAAGATAAAATATAA
1 AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTACAAGATAAAATATAA
92027093 AAAA
1 AAAA
92027097 TATTCAAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (60 bp):
AAAACAAAGAATATTTATTACAGAAAATTTTAAAAAAGTGTGTTACAAGATAAAATATAA
Found at i:92027060 original size:32 final size:31
Alignment explanation
Indices: 92026973--92027061 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 31
92026963 GCGTAATATT
*
92026973 AAAACAAAGAATATTTATTACAGAAAATT-T
1 AAAACAAAGAATATTTATTACAGAAAATTAA
* * * * *
92027003 TAAA-AAAG--TGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATAT-TTATTACAGAAAAT-TAA
92027033 AAAACAAAGAATATTTATTACAGAAAATT
1 AAAACAAAGAATATTTATTACAGAAAATT
92027062 TTAAAAAAGT
Statistics
Matches: 42, Mismatches: 11, Indels: 11
0.66 0.17 0.17
Matches are distributed among these distances:
27 2 0.05
28 11 0.26
29 5 0.12
30 6 0.14
31 5 0.12
32 11 0.26
33 2 0.05
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.29
Consensus pattern (31 bp):
AAAACAAAGAATATTTATTACAGAAAATTAA
Found at i:92027068 original size:32 final size:32
Alignment explanation
Indices: 92026973--92027068 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
92026963 GCGTAATATT
92026973 AAAACAAAGAATATTTATTACAGAAAATTTT-
1 AAAACAAAGAATATTTATTACAGAAAATTTTA
* * * * * *
92027004 -AAA-AAAG--TGTGTTATAAGATAAAATATAA
1 AAAACAAAGAATAT-TTATTACAGAAAATTTTA
92027033 AAAACAAAGAATATTTATTACAGAAAATTTTA
1 AAAACAAAGAATATTTATTACAGAAAATTTTA
92027065 AAAA
1 AAAA
92027069 AGTGTGTTAC
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
27 2 0.04
28 12 0.26
29 4 0.09
30 6 0.13
31 4 0.09
32 17 0.36
33 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (32 bp):
AAAACAAAGAATATTTATTACAGAAAATTTTA
Found at i:92027761 original size:2 final size:2
Alignment explanation
Indices: 92027750--92027782 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
92027740 CCCCAGTAAG
92027750 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
92027783 GTGTTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:92036520 original size:19 final size:19
Alignment explanation
Indices: 92036496--92036537 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
92036486 GCTATTTTGC
92036496 ATAAGT-TGTAAAATAGTTG
1 ATAAGTATGTAAAATAG-TG
*
92036515 ATAAGTATGTGAAATAGTG
1 ATAAGTATGTAAAATAGTG
92036534 ATAA
1 ATAA
92036538 TTTGAAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (19 bp):
ATAAGTATGTAAAATAGTG
Found at i:92036652 original size:30 final size:30
Alignment explanation
Indices: 92036618--92036675 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92036608 TTTTCGGGCA
* * *
92036618 TAGGGGTAAAATGATTATTTTGCCAAAGTC
1 TAGGGGCAAAATGATCATTTTACCAAAGTC
*
92036648 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
92036676 ATGTAAATTT
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:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGTC
Found at i:92037087 original size:47 final size:45
Alignment explanation
Indices: 92037016--92037376 Score: 311
Period size: 47 Copynumber: 7.7 Consensus size: 45
92037006 CGATTTGTGC
*
92037016 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGATA
* *
92037062 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCAGACGAAA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CAGATGATA
* * * *
92037110 ACTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTG-TGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC--ACAGATGATA
* * *
92037156 GTCAGTGTAAGACAATGTCTGGGACATGGCATCGGCAGAGAGATGAGT-
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CACAGATGA-TA
92037204 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACAGATGATA
* * * * *
92037251 GCCAGTGTAAGACGTATCTGGGACACGCATCGGCTA-AGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGAT-A
* ** * * *
92037295 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CAC--AGATGATA
92037343 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
92037377 TCAATATATC
Statistics
Matches: 253, Mismatches: 39, Indels: 42
0.76 0.12 0.13
Matches are distributed among these distances:
43 6 0.02
44 29 0.11
46 40 0.16
47 94 0.37
48 60 0.24
49 20 0.08
50 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGATA
Found at i:92037180 original size:94 final size:92
Alignment explanation
Indices: 92037019--92037376 Score: 395
Period size: 94 Copynumber: 3.8 Consensus size: 92
92037009 TTTGTGCGCC
* * *
92037019 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* ***
92037084 GACATGGCATCGGCATCCAGACGAAAACT
66 GACATGGCATCGGCAT-AAGA-GAGTGCT
* * *
92037113 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTGTGATAGTCAGTGTAAGACAATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
92037178 GACATGGCATCGGCAGAGAGATGAGTGCC
66 GACATGGCATCGGCATA-AGA-GAGTGCT
* * * *
92037207 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-AGAGATAGCCAGTGTAAGA-CGTATC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTA-TGATAGCCAGTGTAAGACCATGTC
*
92037269 TGGGACA-CGCATCGGC-TAAGAGATGTGCT
63 TGGGACATGGCATCGGCATAAGAGA-GTGCT
* * *
92037298 AGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGATAGCCAGTGTAAGACCATGTC
92037362 TGGGACATGGCATCG
63 TGGGACATGGCATCG
92037377 TCAATATATC
Statistics
Matches: 222, Mismatches: 30, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
90 2 0.01
91 35 0.16
92 16 0.07
93 23 0.10
94 128 0.58
95 18 0.08
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATAAGAGAGTGCT
Found at i:92037271 original size:141 final size:137
Alignment explanation
Indices: 92037018--92037376 Score: 406
Period size: 141 Copynumber: 2.6 Consensus size: 137
92037008 ATTTGTGCGC
* *
92037018 CAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TTATGA-TAGCCAGTGTAAGACCATGTC
1 CAGTGTAAGACATGTCTGGGACATGCATCGG-CAGAGATATGAGT-GCCAGTGTAAGACCATGTC
* * *
92037081 TGGGACATGGCATCGGCATCCAGACGAAAACTAGTGTAAGACATGTCTGGGACATGCATCAGCCA
64 TGGGACATGGCATCGGCATCCAGACGAAAACCAGTGTAAGACATATCTGGGACACGCATC-GCC-
* *
92037146 TACTGTGATAGT-
127 TA-AGAGAT-GTG
*
92037158 CAGTGTAAGACAATGTCTGGGACATGGCATCGGCAGAGAGATGAGTGCCAGTGTAAGA-CATGTC
1 CAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCAGAGATATGAGTGCCAGTGTAAGACCATGTC
* * * * *
92037222 TGGGACAT-GCATCGGCCTCGACAGA-GATAGCCAGTGTAAGACGTATCTGGGACACGCATCGGC
64 TGGGACATGGCATCGGCATC--CAGACGAAAACCAGTGTAAGACATATCTGGGACACGCATCGCC
92037285 TAAGAGATGTG
127 TAAGAGATGTG
** * *
92037296 CTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCGTATATGAGAGCCAGTGTAAGACCATGT
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCA-GAG-ATATGAGTGCCAGTGTAAGACCATGT
92037361 CTGGGACATGGCATCG
63 CTGGGACATGGCATCG
92037377 TCAATATATC
Statistics
Matches: 189, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
137 9 0.05
138 20 0.11
139 30 0.16
140 37 0.20
141 65 0.34
142 27 0.14
143 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (137 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCAGAGATATGAGTGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCCAGACGAAAACCAGTGTAAGACATATCTGGGACACGCATCGCCTAAG
AGATGTG
Found at i:92039084 original size:35 final size:35
Alignment explanation
Indices: 92039034--92039369 Score: 422
Period size: 35 Copynumber: 9.6 Consensus size: 35
92039024 CATGGCAAAA
* * * * *
92039034 TGTGAAATGTTGGTATGGTATTAACCATATTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
92039069 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
92039104 TGTAAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * *
92039139 TTTGAAATGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* * * *
92039174 TGTGAAACATAAGTATGGTATAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
92039209 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
* *
92039244 TGTGAAACGTAGGTATGGTATAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
*
92039279 TGTGAAACGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
** * * *
92039314 TAAGAAACGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATCAT-CCATACTGAGT
* *
92039349 TGTGAAATGTAAGTATGGTAT
1 TGTGAAACGTAGGTATGGTAT
92039370 TTCAATGAGG
Statistics
Matches: 263, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
34 1 0.00
35 262 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
Found at i:92041918 original size:20 final size:18
Alignment explanation
Indices: 92041891--92041931 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
92041881 TTAAATTGGG
92041891 TTTTTATTTTTTAAATATA
1 TTTTTATTTTTTAAATA-A
*
92041910 TTTTATATTTTTTTAATAA
1 TTTT-TATTTTTTAAATAA
92041929 TTT
1 TTT
92041932 CTTTAATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTTTTTAAATAA
Found at i:92048784 original size:25 final size:25
Alignment explanation
Indices: 92048750--92048799 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
92048740 TTAGGTTATC
92048750 AGCCAGATTAATTACGAAAATGGTA
1 AGCCAGATTAATTACGAAAATGGTA
92048775 AGCCAGATTAATTACGAAAATGGTA
1 AGCCAGATTAATTACGAAAATGGTA
92048800 TACTTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (25 bp):
AGCCAGATTAATTACGAAAATGGTA
Found at i:92051903 original size:28 final size:27
Alignment explanation
Indices: 92051871--92051926 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
92051861 TACCTTAATA
92051871 ATTTTTAAATGA-TTAAATTAAAAATTTT
1 ATTTTT-AATGAGTTAAATT-AAAATTTT
*
92051899 ATTTTTAATGAGTTAAATTACAATTTT
1 ATTTTTAATGAGTTAAATTAAAATTTT
92051926 A
1 A
92051927 CTATATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (27 bp):
ATTTTTAATGAGTTAAATTAAAATTTT
Found at i:92052253 original size:31 final size:30
Alignment explanation
Indices: 92052186--92052257 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
92052176 TGTATACACG
* *
92052186 AACTTTAATTTGGTGCAATTATACACGTGA
1 AACTTTAATTTGGTGCAAATATACACGTAA
* * *
92052216 AACTTTAATTGTGGTTCAAATGTATACGTAA
1 AACTTTAATT-TGGTGCAAATATACACGTAA
92052247 AACTTTAATTT
1 AACTTTAATTT
92052258 TGATTTAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 11 0.31
31 25 0.69
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAAATATACACGTAA
Found at i:92056559 original size:14 final size:11
Alignment explanation
Indices: 92056535--92056572 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
92056525 AGTTAAATAA
92056535 TATGATATTAT
1 TATGATATTAT
92056546 TATGATATTAT
1 TATGATATTAT
92056557 TATGATATTAT
1 TATGATATTAT
92056568 TATGA
1 TATGA
92056573 GTTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (11 bp):
TATGATATTAT
Found at i:92056807 original size:16 final size:17
Alignment explanation
Indices: 92056775--92056807 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92056765 CTTCTAACCA
92056775 CAAAAATAAACTTATTT
1 CAAAAATAAACTTATTT
*
92056792 CAAAGATAAA-TTATTT
1 CAAAAATAAACTTATTT
92056808 ATTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (17 bp):
CAAAAATAAACTTATTT
Found at i:92064128 original size:17 final size:19
Alignment explanation
Indices: 92064103--92064139 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
92064093 AAAAGAAATA
92064103 ATTTCAAT-AATATA-ATT
1 ATTTCAATAAATATATATT
*
92064120 ATTTTAATAAATATATATT
1 ATTTCAATAAATATATATT
92064139 A
1 A
92064140 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 6 0.35
19 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTCAATAAATATATATT
Found at i:92065938 original size:27 final size:27
Alignment explanation
Indices: 92065858--92065943 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
92065848 ATTAAATTAA
* * *
92065858 ATTAAAACAATTAACAGCTAAATTCAG
1 ATTATAACAATTAACAACTAAATTCGG
92065885 ATTATAGA-AA-T-ACAAACTAGAAATTCGG
1 ATTATA-ACAATTAAC-AACT--AAATTCGG
92065913 ATTATAACAATTAACAACTAAATTCGG
1 ATTATAACAATTAACAACTAAATTCGG
92065940 ATTA
1 ATTA
92065944 AATAATATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
25 2 0.04
26 4 0.08
27 20 0.41
28 16 0.33
29 5 0.10
30 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (27 bp):
ATTATAACAATTAACAACTAAATTCGG
Found at i:92077961 original size:16 final size:17
Alignment explanation
Indices: 92077940--92077972 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92077930 TAAATGAGTT
92077940 AATTAGGAT-TAAATTG
1 AATTAGGATATAAATTG
*
92077956 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
92077973 GATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AATTAGGATATAAATTG
Found at i:92077993 original size:3 final size:3
Alignment explanation
Indices: 92077985--92078009 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
92077975 TAGAAATTCA
92077985 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
92078010 ATTAGTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:92078204 original size:31 final size:31
Alignment explanation
Indices: 92078169--92078232 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
92078159 TTAATTGTTA
*
92078169 TATTTTAATTAAGATGCATGGTAGATAAATT
1 TATTTTAATTAAAATGCATGGTAGATAAATT
92078200 TATTTTAATTAAAATGCATGGTAGATAAATT
1 TATTTTAATTAAAATGCATGGTAGATAAATT
92078231 TA
1 TA
92078233 GGAAAGTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (31 bp):
TATTTTAATTAAAATGCATGGTAGATAAATT
Found at i:92078867 original size:44 final size:44
Alignment explanation
Indices: 92078804--92078887 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
92078794 TGTTTAGGGA
92078804 TACTTCGAACTTGAGTCGATGAAGCACTATAAGTGTCGTACTGT
1 TACTTCGAACTTGAGTCGATGAAGCACTATAAGTGTCGTACTGT
* **
92078848 TACTTCG-ACTTTGAGTCGATGAGGCACTATTTGTGTCGTA
1 TACTTCGAAC-TTGAGTCGATGAAGCACTATAAGTGTCGTA
92078888 GTGCTATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (44 bp):
TACTTCGAACTTGAGTCGATGAAGCACTATAAGTGTCGTACTGT
Found at i:92090803 original size:44 final size:44
Alignment explanation
Indices: 92090748--92091009 Score: 186
Period size: 44 Copynumber: 6.0 Consensus size: 44
92090738 TTTCAGCAGC
*
92090748 CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTATA-G
1 CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGG
* * * *
92090791 ATCTTATCTCCCTAAGCAATAGTGG---CATAGATTGAAAA-CAGCAGG
1 CT-TTAACTCCCTAAGCAATAG-GGTAACA-AG-CTGAAAATTA-CAGG
* * * *
92090836 CTTTAACTCCCTAAACAAAAGGATAACAAGCT-AAAGATTGCAGG
1 CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAA-ATTACAGG
92090880 CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACA-G
1 CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGG
* * * * * *
92090923 ATCTTATCTCCCTAAGCAATAGTGG-AGC-AGATCAAAGA-TACATG
1 CT-TTAACTCCCTAAGCAATAG-GGTAACAAGCTGAAA-ATTACAGG
* * * *
92090967 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAG
1 CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAA-TTACAG
92091010 ATCTGGGCTC
Statistics
Matches: 168, Mismatches: 31, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
42 5 0.03
43 41 0.24
44 109 0.65
45 11 0.07
46 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (44 bp):
CTTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGG
Found at i:92091229 original size:84 final size:85
Alignment explanation
Indices: 92090882--92091266 Score: 465
Period size: 85 Copynumber: 4.5 Consensus size: 85
92090872 ATTGCAGGCT
* * * *** * * *
92090882 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAA-TTACAGATCTTATCTC-CCTAAGCAATAG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCTGGGCTCGCC-GAGCAGTGG
* *
92090945 TGGAGCAGATCAAAGA-TACATGCC
64 TGGAGCAGGTCGAAGACT-C--GCC
92090969 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGTG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGTG
92091034 GAGCAGGTCGAAGACTCGCC
66 GAGCAGGTCGAAGACTCGCC
* * * * * *
92091054 TTAACCTCCTAAGTAGTAGGGTAACAGGTTAAAGTTTACAGATTTGGGCTCGCCAAGCAGTGGTG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGTG
* *
92091119 GAGCAGGTCGAAGACTTGTC
66 GAGCAGGTCGAAGACTCGCC
* * *
92091139 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT-GGCTCTCCGAGTAGTGATG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGTG
*
92091203 GAGCAGGTCGAAGACTCACC
66 GAGCAGGTCGAAGACTCGCC
* *
92091223 TTAACCCCTTAAGCAGTACGGTAACAGGCTAAAA-TTACAGATCT
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
92091267 TATCTTCGTT
Statistics
Matches: 262, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
83 10 0.04
84 64 0.24
85 120 0.46
86 4 0.02
87 61 0.23
88 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (85 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGTG
GAGCAGGTCGAAGACTCGCC
Found at i:92095018 original size:54 final size:54
Alignment explanation
Indices: 92094955--92095187 Score: 234
Period size: 54 Copynumber: 4.1 Consensus size: 54
92094945 AGTATCATAT
*
92094955 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
92095009 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
92095063 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
92095127 A
54 A
*
92095128 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
92095183 ATTAT
1 ATTAT
92095188 ATATTTTAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 62 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.03
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.03
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:92095055 original size:28 final size:27
Alignment explanation
Indices: 92094970--92095055 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
92094960 GATTTGAGTA
*
92094970 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
92094998 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
92095022 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
92095052 AATT
1 AATT
92095056 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:92095092 original size:15 final size:15
Alignment explanation
Indices: 92095057--92095108 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
92095047 TTAAGAATTT
*
92095057 TATTAAATTAT-ATA
1 TATTTAATTATAATA
92095071 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
92095085 TATTTAATAATAAT-
1 TATTTAATTATAATA
92095099 TATGTTAATT
1 TAT-TTAATT
92095109 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:92095134 original size:120 final size:120
Alignment explanation
Indices: 92095009--92095224 Score: 432
Period size: 120 Copynumber: 1.8 Consensus size: 120
92094999 ATTTTATTAA
92095009 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
92095074 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
66 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
92095129 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
92095194 TAATTATAATATATTTAATAATAATTATGTT
66 TAATTATAATATATTTAATAATAATTATGTT
92095225 TAAATATGAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (120 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
Found at i:92095207 original size:16 final size:16
Alignment explanation
Indices: 92095186--92095227 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
92095176 TTATTAAATT
*
92095186 ATATATTTTAATTATA
1 ATATATTTTAATAATA
92095202 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
92095217 AT-TATGTTTAA
1 ATATAT-TTTAA
92095228 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:92095212 original size:15 final size:15
Alignment explanation
Indices: 92095177--92095218 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
92095167 TTAAGAATTT
*
92095177 TATTAAATTAT-ATA
1 TATTTAATTATAATA
92095191 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
92095205 TATTTAATAATAAT
1 TATTTAATTATAAT
92095219 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:92095438 original size:45 final size:43
Alignment explanation
Indices: 92095338--92095447 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
92095328 TTTTCCATTA
92095338 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
92095377 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
92095422 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
92095448 CCTCTATTCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:92095449 original size:16 final size:16
Alignment explanation
Indices: 92095428--92095495 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
92095418 GATTTGCTAT
*
92095428 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
92095444 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
92095460 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
92095476 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
92095492 TACA
1 TACA
92095496 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:92096187 original size:186 final size:186
Alignment explanation
Indices: 92095908--92096250 Score: 616
Period size: 186 Copynumber: 1.8 Consensus size: 186
92095898 TTTCTTCCTC
* *
92095908 ATTTTAATTTATATAATTCATTATTTCTTTAAATTCATTTGGCATTCATTTTTTTATTTTTTATT
1 ATTTTAATTTAAATAACTCATTATTTCTTTAAATTCATTTGGCATTCATTTTTTTATTTTTTATT
*
92095973 TTTTTTATATACATACATTTTAAATTACTTTGATGAATTACGTTGTTGTTTTTTGTTTTTTTAAA
66 TTTTTTATATACATACATTTTAAATTACTTTGATGAATTACGTTGTTGTTTTTTATTTTTTTAAA
*
92096038 TTATAAGTT-TCTTTTTAAATTTCTCTTATATAATATTATTTTAAAATTTTGTATG
131 TTATAAGTTGTCTTTTTAAATTACTCTTATATAATATTATTTTAAAATTTTGTATG
*
92096093 ATTTTACATTTAAATAGCTCATTATTTCTTTAAATTCATTTGGCATTCATTTTTTTATTTTTTAT
1 ATTTTA-ATTTAAATAACTCATTATTTCTTTAAATTCATTTGGCATTCATTTTTTTATTTTTTAT
92096158 TTTTTTTATATACATACATTTTAAATTACTTTGATGAATTACGTTGTTGTTTTTTATTTTTTTAA
65 TTTTTTTATATACATACATTTTAAATTACTTTGATGAATTACGTTGTTGTTTTTTATTTTTTTAA
*
92096223 ATTATAAGTTGTTTTTTTAAATTACTCT
130 ATTATAAGTTGTCTTTTTAAATTACTCT
92096251 CAAAATTTTT
Statistics
Matches: 150, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
185 6 0.04
186 129 0.86
187 15 0.10
ACGTcount: A:0.27, C:0.07, G:0.06, T:0.59
Consensus pattern (186 bp):
ATTTTAATTTAAATAACTCATTATTTCTTTAAATTCATTTGGCATTCATTTTTTTATTTTTTATT
TTTTTTATATACATACATTTTAAATTACTTTGATGAATTACGTTGTTGTTTTTTATTTTTTTAAA
TTATAAGTTGTCTTTTTAAATTACTCTTATATAATATTATTTTAAAATTTTGTATG
Found at i:92114752 original size:23 final size:23
Alignment explanation
Indices: 92114698--92114758 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
92114688 GACACATAAA
92114698 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
92114719 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
92114740 GTGCCTGAAATACAACACA
1 GTGCCTGAAATACGACACA
92114759 TAAAGTGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.71
23 9 0.26
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:92114766 original size:23 final size:23
Alignment explanation
Indices: 92114685--92114766 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 23
92114675 CTGATCAGTG
*
92114685 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
92114707 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
92114727 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
* *
92114750 TACAACACATAAAGTGC
1 TACGACACACAAAGTGC
92114767 TTGATCAGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 34 0.69
23 14 0.29
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:92116897 original size:17 final size:17
Alignment explanation
Indices: 92116877--92116909 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92116867 TTAACTATTA
92116877 AATTAAATTAATTCATT
1 AATTAAATTAATTCATT
*
92116894 AATTAATTTAATTCAT
1 AATTAAATTAATTCAT
92116910 GTGACAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAAATTAATTCATT
Found at i:92119645 original size:21 final size:21
Alignment explanation
Indices: 92119621--92119685 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
92119611 AAGTCTAGCT
*
92119621 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
92119642 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
92119660 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
92119681 GAAGC
1 GAAGC
92119686 CCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:92119662 original size:39 final size:39
Alignment explanation
Indices: 92119607--92119703 Score: 167
Period size: 39 Copynumber: 2.5 Consensus size: 39
92119597 TGATCTGAAA
* * *
92119607 CCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
92119646 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
92119685 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
92119704 TCATCAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.36, C:0.26, G:0.26, T:0.12
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
Found at i:92123066 original size:33 final size:30
Alignment explanation
Indices: 92123027--92123086 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
92123017 ATCTATATTA
* *
92123027 TAATAAT-AGTTATATATGTATTAATATTTT
1 TAATAATAATTTATAT-TATATTAATATTTT
*
92123057 TAATAATAATTTATATTATATTATTATTTT
1 TAATAATAATTTATATTATATTAATATTTT
92123087 ATGTATTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
TAATAATAATTTATATTATATTAATATTTT
Found at i:92123273 original size:16 final size:17
Alignment explanation
Indices: 92123252--92123284 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92123242 ATAATTATTG
92123252 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
92123268 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
92123285 TAAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:92125972 original size:68 final size:68
Alignment explanation
Indices: 92125863--92125998 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
92125853 GAGAATAAAA
92125863 ACATAAGCAAAATTTCTATCTATCTTTCAAGAGATCTAGGTCTCTCTCTAAACAAGTCCTAAAGG
1 ACATAAGCAAAATTTCTATCTATCTTTCAAGAGATCTAGGTCTCTCTCTAAACAAGTCCTAAAGG
92125928 TTT
66 TTT
*
92125931 ACATAAGCAAAATTTCTA-CTTATTTTTCAAGAGATCTAGGTCTCTCTCTAAACAAGTCCTAAAG
1 ACATAAGCAAAATTTCTATC-TATCTTTCAAGAGATCTAGGTCTCTCTCTAAACAAGTCCTAAAG
92125995 GTTT
65 GTTT
92125999 CAGTTTCCCT
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 1 0.02
68 65 0.98
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (68 bp):
ACATAAGCAAAATTTCTATCTATCTTTCAAGAGATCTAGGTCTCTCTCTAAACAAGTCCTAAAGG
TTT
Found at i:92127025 original size:16 final size:17
Alignment explanation
Indices: 92126999--92127030 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92126989 AACTGAAATT
92126999 AAAAAAGGAAAAAGAAG
1 AAAAAAGGAAAAAGAAG
92127016 AAAAAA-GAAAAAGAA
1 AAAAAAGGAAAAAGAA
92127031 AATTTGAATT
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAAGGAAAAAGAAG
Found at i:92134612 original size:2 final size:2
Alignment explanation
Indices: 92134605--92134683 Score: 131
Period size: 2 Copynumber: 39.5 Consensus size: 2
92134595 ATTTTGACCT
92134605 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * *
92134647 GA GA GA GA GA GA GA GA GA GA GA GG GG GA GA GG GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
92134684 GAAGCAAACC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
GA
Found at i:92135678 original size:3 final size:3
Alignment explanation
Indices: 92135670--92135704 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
92135660 TGTTCAACGG
92135670 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
92135705 AATTGAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:92137071 original size:95 final size:95
Alignment explanation
Indices: 92136908--92137096 Score: 378
Period size: 95 Copynumber: 2.0 Consensus size: 95
92136898 ACTATGGTAT
92136908 TTTTCCTATGGCTTTGTGCTCATTATGGTTGAACCATAAGTGCAATAGTGTTGGAACATTGGTAT
1 TTTTCCTATGGCTTTGTGCTCATTATGGTTGAACCATAAGTGCAATAGTGTTGGAACATTGGTAT
92136973 GCCCTGTGACACAGCAGAAAGAAAAAAAAA
66 GCCCTGTGACACAGCAGAAAGAAAAAAAAA
92137003 TTTTCCTATGGCTTTGTGCTCATTATGGTTGAACCATAAGTGCAATAGTGTTGGAACATTGGTAT
1 TTTTCCTATGGCTTTGTGCTCATTATGGTTGAACCATAAGTGCAATAGTGTTGGAACATTGGTAT
92137068 GCCCTGTGACACAGCAGAAAGAAAAAAAA
66 GCCCTGTGACACAGCAGAAAGAAAAAAAA
92137097 TTTCGGCAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (95 bp):
TTTTCCTATGGCTTTGTGCTCATTATGGTTGAACCATAAGTGCAATAGTGTTGGAACATTGGTAT
GCCCTGTGACACAGCAGAAAGAAAAAAAAA
Found at i:92139355 original size:41 final size:41
Alignment explanation
Indices: 92139278--92139356 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
92139268 TTTGGATAAA
* * *** *
92139278 AAACGCCGCAAAAAACTAAGCAATAGTGGCGTTTTTGGTCG
1 AAACGCCACAAAAAACTAAACAATAGCAACGCTTTTGGTCG
92139319 AAACGCCACAAAAAACTAAACAATAGCAACGCTTTTGG
1 AAACGCCACAAAAAACTAAACAATAGCAACGCTTTTGG
92139357 AAAAACGTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (41 bp):
AAACGCCACAAAAAACTAAACAATAGCAACGCTTTTGGTCG
Found at i:92139402 original size:40 final size:40
Alignment explanation
Indices: 92139356--92139467 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 40
92139346 AACGCTTTTG
*
92139356 GAAAAACGTCACTATAGATCGAGGTTTTAGCGGTGCTTCTA
1 GAAAAACGTCACTATAGAT-GAGGTTTTAGCGGCGCTTCTA
* * * * * *
92139397 G-AAAAC-TGCGCTATTGCTTAGTTTTTAGCGGCGCTTTTA
1 GAAAAACGT-CACTATAGATGAGGTTTTAGCGGCGCTTCTA
* *
92139436 GAAAAACGCCACTATAGA-GAAGTTTTAGCGGC
1 GAAAAACGTCACTATAGATGAGGTTTTAGCGGC
92139468 ATTTTTCGAA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
39 30 0.56
40 23 0.43
41 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (40 bp):
GAAAAACGTCACTATAGATGAGGTTTTAGCGGCGCTTCTA
Found at i:92139462 original size:39 final size:38
Alignment explanation
Indices: 92139348--92139481 Score: 99
Period size: 39 Copynumber: 3.4 Consensus size: 38
92139338 ACAATAGCAA
* *
92139348 CGCTTTTGGAAAAACGTCACTATAGATCGAGGTTTTAGCGG
1 CGCTTTTAGAAAAACG-CACTATAGA--GAAGTTTTAGCGG
* * * * ***
92139389 TGCTTCTAG-AAAACTGCGCTATTGCTTAGTTTTTAGCGG
1 CGCTTTTAGAAAAAC-GCACTATAGAGAAG-TTTTAGCGG
92139428 CGCTTTTAGAAAAACGCCACTATAGAGAAGTTTTAGCGG
1 CGCTTTTAGAAAAACG-CACTATAGAGAAGTTTTAGCGG
** *
92139467 CATTTTTCGAAAAAC
1 CGCTTTTAGAAAAAC
92139482 ATAGAAAAAT
Statistics
Matches: 70, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
38 1 0.01
39 38 0.54
40 24 0.34
41 7 0.10
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (38 bp):
CGCTTTTAGAAAAACGCACTATAGAGAAGTTTTAGCGG
Found at i:92139617 original size:21 final size:22
Alignment explanation
Indices: 92139588--92139628 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
92139578 AGTTTAGGGG
*
92139588 TTAATGGTTTATGTTTTATGAT
1 TTAATGGTTTATGGTTTATGAT
*
92139610 TTAA-GGTTTGTGGTTTATG
1 TTAATGGTTTATGGTTTATG
92139629 GGATTAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (22 bp):
TTAATGGTTTATGGTTTATGAT
Found at i:92142207 original size:17 final size:17
Alignment explanation
Indices: 92142181--92142220 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
92142171 ATGCATATGA
92142181 TCTC-TATGTGACCAGT
1 TCTCATATGTGACCAGT
92142197 TCTCATATGTGACCAGT
1 TCTCATATGTGACCAGT
92142214 TCTCATA
1 TCTCATA
92142221 CTTTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (17 bp):
TCTCATATGTGACCAGT
Found at i:92159845 original size:287 final size:289
Alignment explanation
Indices: 92159513--92160146 Score: 653
Period size: 290 Copynumber: 2.2 Consensus size: 289
92159503 CCTTGGCAGG
* * * * * * *
92159513 GTTCGAACTCATGCCCATAAA-TGACATTAATAGCTAAGTACACTACCAGTTGTCTAGAAAAAGG
1 GTTCGAACCCATGCCCTTAAATTG-CATTAGT-GGTAAGTACACTACCACTTGACTAGAAAAAAG
* * * * *
92159577 GTGT-TTTTT-TCT-AGGGGAGGTCAGTCTCGCTTTGGGAGACATCTTCTTGGAA-TGTC-GTCT
64 GTATCTTTTTGT-TAAGGGGAGATCAGTCTAGCTCTGGGAGACATCTT-TTGGAAGTGTCATTC-
** ** * * *
92159637 G-GGAGCCATTAAACCCCTCAACGGTGGATGTATTGTGCCTGAGATATCTATG-TTCGGTTTTAG
126 GAGGAGCCAACAAACCCCTCAACAATAGAGGTATTGTGCCTGAGATATCTATGCTT-GGTTTTAA
** * * *
92159700 CCTCAAGTTTTTTATCCCAACTTTGAG-AAGAGCCCAATGATTCATGGAGTTTGTGGAA-CGCCT
190 CCTCAAGTTTTAGATCCCAACTTTAAGCAA-AGCCCAA-GATTCATAGAGTTTG-GAAAGCGCCT
92159763 CACCACTAAGGAAATG-TTAGCATTT-GACATTAGTGGC
252 CACCACTAAGGAAATGTTTAGCATTTGGAC-TTAGTGGC
* *
92159800 GTTCGAACCCATGCCCTTAAATTGCATTAGTGGTTAAGAACACTACCACTTGGCTAGAAAAAAGG
1 GTTCGAACCCATGCCCTTAAATTGCATTAGTGG-TAAGTACACTACCACTTGACTAGAAAAAAGG
* *
92159865 TATCTTTTTGTTAAGGGGAGATCGGTCTAGCTCTGGGAGACATCTTTTTGAAGTGTCATTCGAGG
65 TATCTTTTTGTTAAGGGGAGATCAGTCTAGCTCTGGGAGACATCTTTTGGAAGTGTCATTCGAGG
* * * * * * * *
92159930 AGTCAACAAACCCTTCAACAATAGAGGTATTGTGCCTGGGGTGTTTGTGCTTGGTTTTAACCTTA
130 AGCCAACAAACCCCTCAACAATAGAGGTATTGTGCCTGAGATATCTATGCTTGGTTTTAACCTCA
* * * * *
92159995 GGTTTTAGCTCCCGACTTTAAGCAAAGCCCAAGGTTCATAGAGTTTGGAAAGCGCCTCATCACTA
195 AGTTTTAGATCCCAACTTTAAGCAAAGCCCAAGATTCATAGAGTTTGGAAAGCGCCTCACCACTA
* * *
92160060 AGGAAATGTTTAGCATTTGGTCTTGGTGGG
260 AGGAAATGTTTAGCATTTGGACTTAGTGGC
* * *
92160090 GTTTGAACCTATGCCCTTAAATGGCATTAGTGAGTAAGTACACTACCACTTGACTAG
1 GTTCGAACCCATGCCCTTAAATTGCATTAGTG-GTAAGTACACTACCACTTGACTAG
92160147 TCTTTTTGGA
Statistics
Matches: 285, Mismatches: 48, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
286 1 0.00
287 54 0.19
288 16 0.06
289 68 0.24
290 139 0.49
291 7 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (289 bp):
GTTCGAACCCATGCCCTTAAATTGCATTAGTGGTAAGTACACTACCACTTGACTAGAAAAAAGGT
ATCTTTTTGTTAAGGGGAGATCAGTCTAGCTCTGGGAGACATCTTTTGGAAGTGTCATTCGAGGA
GCCAACAAACCCCTCAACAATAGAGGTATTGTGCCTGAGATATCTATGCTTGGTTTTAACCTCAA
GTTTTAGATCCCAACTTTAAGCAAAGCCCAAGATTCATAGAGTTTGGAAAGCGCCTCACCACTAA
GGAAATGTTTAGCATTTGGACTTAGTGGC
Found at i:92163481 original size:18 final size:19
Alignment explanation
Indices: 92163452--92163493 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
92163442 GGACTTTATT
*
92163452 TATTGAAAAATATTTTGTA
1 TATTGAAAAATATTTGGTA
92163471 TATTG-AAAATATTTGGTA
1 TATTGAAAAATATTTGGTA
92163489 TATTG
1 TATTG
92163494 TCAATGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (19 bp):
TATTGAAAAATATTTGGTA
Done.