Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 247 of 295
Found at i:79511401 original size:27 final size:27
Alignment explanation
Indices: 79511250--79511411 Score: 144
Period size: 27 Copynumber: 6.0 Consensus size: 27
79511240 GAAATTACTG
* * * **
79511250 AAATACCCCTGTAAGGTAGAATTTCTG
1 AAATACCCCTATAGGGTAGAATTACCA
*
79511277 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACCA
* * *
79511304 AAATACCCTTATAGGATAGAAGTACCA
1 AAATACCCCTATAGGGTAGAATTACCA
* ** * *
79511331 AAATACCCCTGTAGGGTAGAAAAATCG
1 AAATACCCCTATAGGGTAGAATTACCA
*
79511358 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTATAGGGTAGAATTACCA
* * * * *
79511385 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCA
79511412 TTTTGCCCCT
Statistics
Matches: 110, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACCA
Found at i:79511411 original size:81 final size:81
Alignment explanation
Indices: 79511241--79511411 Score: 209
Period size: 81 Copynumber: 2.1 Consensus size: 81
79511231 CTTGATTGTG
** ** *
79511241 AAATTACTGAAATACCCCTGTAAGGTAGAATTTCTGAAATACCCCTATAGGGTAGAATTACTAAA
1 AAATTACCAAAATACCCCTGTAAGGTAGAAAATCTGAAATACCCCTATAGGGTAGAATTACCAAA
79511306 ATACCCTTATAGGATA
66 ATACCCTTATAGGATA
* * * *
79511322 GAAGTACCAAAATACCCCTGTAGGGTAGAAAAATC-GAAATACCCCTATAGGGTAGAATTACCGA
1 AAATTACCAAAATACCCCTGTAAGGTAG-AAAATCTGAAATACCCCTATAGGGTAGAATTACCAA
* * * *
79511386 GATACCCTTGTGGGGTA
65 AATACCCTTATAGGATA
79511403 AAATTACCA
1 AAATTACCA
79511412 TTTTGCCCCT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
81 70 0.95
82 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGTAAGGTAGAAAATCTGAAATACCCCTATAGGGTAGAATTACCAAA
ATACCCTTATAGGATA
Found at i:79511647 original size:27 final size:26
Alignment explanation
Indices: 79511609--79511691 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
79511599 CGGAGGAAGC
*
79511609 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
79511636 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
79511662 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
79511689 GTT
1 GTT
79511692 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:79512032 original size:27 final size:27
Alignment explanation
Indices: 79512000--79512075 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
79511990 GTTAGATGGG
*
79512000 TTTGCCACATTATCTG-ATTCTGGTGGC
1 TTTGCCACAATATCTGTA-TCTGGTGGC
*
79512027 TTTGCCACAATATCTGTATCTGGTGAC
1 TTTGCCACAATATCTGTATCTGGTGGC
* * *
79512054 TCTGTCACGATATCTGT-TCTGG
1 TTTGCCACAATATCTGTATCTGG
79512076 CAGCCATGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 37 0.86
28 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (27 bp):
TTTGCCACAATATCTGTATCTGGTGGC
Found at i:79512201 original size:6 final size:6
Alignment explanation
Indices: 79512192--79512341 Score: 134
Period size: 6 Copynumber: 24.8 Consensus size: 6
79512182 TTGCATTCAC
*
79512192 ATTCTG ATTCTG ATTCTG --TCATG TAATTCTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* * *
79512241 -TTACTA ATACTG -TTACTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
79512289 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
79512337 ATTCT
1 ATTCT
79512342 CATTTTGGTT
Statistics
Matches: 119, Mismatches: 10, Indels: 30
0.75 0.06 0.19
Matches are distributed among these distances:
4 2 0.02
5 10 0.08
6 97 0.82
7 6 0.05
8 2 0.02
9 2 0.02
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:79512330 original size:42 final size:41
Alignment explanation
Indices: 79512193--79512336 Score: 175
Period size: 42 Copynumber: 3.4 Consensus size: 41
79512183 TGCATTCACA
* * *
79512193 TTCTGATTCTGATTCTGTCATGTAATTCTAATTCTGATTCTG
1 TTCTGATTCTGATTCTGTTA-CTAATTCTGATTCTGATTCTG
* *
79512235 ATTCTG-TTACTAATACTGTTACTAATTCTGATTCTGATTCTG
1 -TTCTGATT-CTGATTCTGTTACTAATTCTGATTCTGATTCTG
79512277 ATTCTGATTCTGATTCTGTTACTAATAT-TGATTCTGATTCTG
1 -TTCTGATTCTGATTCTGTTACTAAT-TCTGATTCTGATTCTG
79512319 TTACTGATTCTGATTCTG
1 TT-CTGATTCTGATTCTG
79512337 ATTCTCATTT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 71 0.79
43 17 0.19
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (41 bp):
TTCTGATTCTGATTCTGTTACTAATTCTGATTCTGATTCTG
Found at i:79513088 original size:9 final size:9
Alignment explanation
Indices: 79513074--79513150 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
79513064 ACATCATGTG
79513074 CATATCATA
1 CATATCATA
*
79513083 CATATCATGTG
1 CATATCA--TA
79513094 CATATCATA
1 CATATCATA
* *
79513103 CATGTCATGTG
1 CATATCA--TA
79513114 CATATCATA
1 CATATCATA
*
79513123 CATATCATGTG
1 CATATCA--TA
79513134 CATATCATA
1 CATATCATA
*
79513143 CATGTCAT
1 CATATCAT
79513151 GTGCACATCG
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 30 0.57
11 23 0.43
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:79513097 original size:11 final size:11
Alignment explanation
Indices: 79513066--79513141 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
79513056 TTATGAATAC
79513066 ATCATGTGCAT
1 ATCATGTGCAT
*
79513077 ATCA--TACAT
1 ATCATGTGCAT
79513086 ATCATGTGCAT
1 ATCATGTGCAT
*
79513097 ATCA--TACAT
1 ATCATGTGCAT
*
79513106 GTCATGTGCAT
1 ATCATGTGCAT
*
79513117 ATCA--TACAT
1 ATCATGTGCAT
79513126 ATCATGTGCAT
1 ATCATGTGCAT
79513137 ATCAT
1 ATCAT
79513142 ACATGTCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:79513112 original size:40 final size:40
Alignment explanation
Indices: 79513067--79513172 Score: 178
Period size: 40 Copynumber: 2.6 Consensus size: 40
79513057 TATGAATACA
79513067 TCATGTGCATATCATACATATCATGTGCATATCATACATG
1 TCATGTGCATATCATACATATCATGTGCATATCATACATG
79513107 TCATGTGCATATCATACATATCATGTGCATATCATACATG
1 TCATGTGCATATCATACATATCATGTGCATATCATACATG
* *
79513147 TCATGTGCACATCGTATCA-ATCATGT
1 TCATGTGCATATCATA-CATATCATGT
79513173 ATATCAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 61 0.97
41 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (40 bp):
TCATGTGCATATCATACATATCATGTGCATATCATACATG
Found at i:79513172 original size:20 final size:20
Alignment explanation
Indices: 79513066--79513155 Score: 162
Period size: 20 Copynumber: 4.5 Consensus size: 20
79513056 TTATGAATAC
79513066 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
79513086 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
79513106 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
79513126 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
79513146 GTCATGTGCA
1 ATCATGTGCA
79513156 CATCGTATCA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:79531209 original size:19 final size:19
Alignment explanation
Indices: 79531185--79531238 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
79531175 ATGGTGTTTA
79531185 GTAGATGGGGGTAGGATAT
1 GTAGATGGGGGTAGGATAT
*
79531204 GTAGAT-GGTGT--G-TA-
1 GTAGATGGGGGTAGGATAT
79531218 GTAGATGGGGGTAGGATAT
1 GTAGATGGGGGTAGGATAT
79531237 GT
1 GT
79531239 TATGATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 1 0.04
17 1 0.04
18 6 0.21
19 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.30
Consensus pattern (19 bp):
GTAGATGGGGGTAGGATAT
Found at i:79531220 original size:33 final size:33
Alignment explanation
Indices: 79531173--79531238 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
79531163 GGCTAGACAG
*
79531173 AGATGGTGTTTAGTAGATGGGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
79531206 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
1 AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
79531239 TATGATTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (33 bp):
AGATGGTGTGTAGTAGATGGGGGTAGGATATGT
Found at i:79532423 original size:31 final size:31
Alignment explanation
Indices: 79532357--79532427 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
79532347 AACAGCCTAG
* *
79532357 TGACTTAAAAAAAAACTTTTGAATAATTCAG
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
* * * *
79532388 TGACTTAAATGAAAATTTTTGAATAGTTTAA
1 TGACTTAAATAAAAACTTTTGAATAATTCAA
79532419 TGAC-TAAAT
1 TGACTTAAAT
79532428 TGTAACTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAATTCAA
Found at i:79535820 original size:48 final size:48
Alignment explanation
Indices: 79535738--79535829 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
79535728 TAGGGTTATG
* *
79535738 TGTGATCCCATGTAAGACCATGCCCAGGACATGGCATTGGCATCGGTA
1 TGTGATCCCATGTAAGACCATACACAGGACATGGCATTGGCATCGGTA
* ** *
79535786 TGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATACACAGGACATGGCATTGGCATC
79535830 TTATTATGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATACACAGGACATGGCATTGGCATCGGTA
Found at i:79540494 original size:7 final size:7
Alignment explanation
Indices: 79540479--79540508 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
79540469 TGCATAACAG
79540479 ATCAGAT
1 ATCAGAT
*
79540486 ATCAAAT
1 ATCAGAT
79540493 ATCAGAT
1 ATCAGAT
79540500 ATCAGAT
1 ATCAGAT
79540507 AT
1 AT
79540509 TAGAATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (7 bp):
ATCAGAT
Found at i:79540617 original size:40 final size:40
Alignment explanation
Indices: 79540565--79540641 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
79540555 ACACACCATG
* *
79540565 TGGGTATAAAATCGACCCA-CCCGTCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCATCCAG-CCCTACACACCAAGTA
*
79540605 TGGGGATAAAATCGACCCATCTAGCCCTACACACCAA
1 TGGGGATAAAATCGACCCATCCAGCCCTACACACCAA
79540642 ATGGTACCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAGCCCTACACACCAAGTA
Found at i:79542306 original size:22 final size:22
Alignment explanation
Indices: 79542278--79542320 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79542268 TGTGAGTGGG
79542278 ATCAGAGTGATAGCGTCTCAAT
1 ATCAGAGTGATAGCGTCTCAAT
79542300 ATCAGAGTGATAGCGTCTCAA
1 ATCAGAGTGATAGCGTCTCAA
79542321 CATTGACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (22 bp):
ATCAGAGTGATAGCGTCTCAAT
Found at i:79547673 original size:38 final size:40
Alignment explanation
Indices: 79547631--79547715 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
79547621 TACACCATCT
* * *
79547631 CCATCCAACCCAACACACC-A-TGTGGGGATAAAATCGAC
1 CCATCCAACCCAACAAACCAAGTATGGGGATAAAATCAAC
* *
79547669 CCATCCAGCCCTACAAACCAAGTATGGGGATAAAATCAAC
1 CCATCCAACCCAACAAACCAAGTATGGGGATAAAATCAAC
79547709 CCATCCA
1 CCATCCA
79547716 GTCCTACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 16 0.40
39 1 0.03
40 23 0.57
ACGTcount: A:0.38, C:0.34, G:0.14, T:0.14
Consensus pattern (40 bp):
CCATCCAACCCAACAAACCAAGTATGGGGATAAAATCAAC
Found at i:79547699 original size:40 final size:40
Alignment explanation
Indices: 79547653--79547729 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
79547643 ACACACCATG
*
79547653 TGGGGATAAAATCGACCCATCCAGCCCTACAAACCAAGTA
1 TGGGGATAAAATCAACCCATCCAGCCCTACAAACCAAGTA
* *
79547693 TGGGGATAAAATCAACCCATCCAGTCCTACACACCAA
1 TGGGGATAAAATCAACCCATCCAGCCCTACAAACCAA
79547730 ATGGTACTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.31, G:0.16, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCATCCAGCCCTACAAACCAAGTA
Found at i:79557595 original size:20 final size:21
Alignment explanation
Indices: 79557549--79557595 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
79557539 CACATTTGGT
**
79557549 TGACTCCTTTACTGGAACTCC
1 TGACTCCTTTACTGGAACAAC
*
79557570 T-TCTCCTTTACTGGAA-AAC
1 TGACTCCTTTACTGGAACAAC
79557589 TGACTCC
1 TGACTCC
79557596 ACTGTAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 18 0.86
21 1 0.05
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (21 bp):
TGACTCCTTTACTGGAACAAC
Found at i:79559038 original size:3 final size:3
Alignment explanation
Indices: 79559030--79559063 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
79559020 GTATTGAATA
*
79559030 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
79559064 GACAGGGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:79559243 original size:45 final size:45
Alignment explanation
Indices: 79559179--79559270 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
79559169 GAGGAAAGGG
79559179 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
1 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
79559224 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
1 ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
79559269 AT
1 AT
79559271 TCTTTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (45 bp):
ATAAGAGCTGGACAAAATACTCAGTAGACCGTGCAAGCAAGAGTC
Found at i:79559793 original size:96 final size:96
Alignment explanation
Indices: 79559676--79559863 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
79559666 AATTTTAGGG
* * ** * *
79559676 TTTTAAGGAAAAAATTTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACTAATTTT
1 TTTTAAGGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-TAA-ATT
* * *
79559741 AAAAAATTAGATTATGA-TTTAGTGTTTATGGT
64 AAAAAAATAGATTAGGATTTTAGGGTTTATGGT
*
79559773 TTTTAAGGAAAAAA-TCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTAA
1 TTTTAAGGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTAA
79559837 AAAAATAGATTAGGATTTTAGGGTTTA
66 AAAAATAGATTAGGATTTTAGGGTTTA
79559864 GGGTATTAGG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 17 0.21
95 13 0.16
96 36 0.45
97 14 0.17
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (96 bp):
TTTTAAGGAAAAAATTCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTAA
AAAAATAGATTAGGATTTTAGGGTTTATGGT
Found at i:79560175 original size:126 final size:126
Alignment explanation
Indices: 79559959--79560496 Score: 810
Period size: 126 Copynumber: 4.3 Consensus size: 126
79559949 AAAAGCTTCT
* *
79559959 ACGTGGACGCTCTTTTGCTACAATAGTCTCTG-AAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
*
79560023 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * **
79560084 ACGTAGACGCTCTTTTGCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTGTCTGTTCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
79560149 CTAGTGTAAAAAACGCTTCAAGCAGGATGCATTATCAACAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
79560210 ACGTGGATGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACATGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
79560275 ATAGTGGT-AAAAATGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * **
79560336 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
79560401 ATAGTGTCAAAAACGCTTCAAGCAGAATGCATTTTCAGTAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
79560462 ATGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
79560497 TAACTTGGGC
Statistics
Matches: 372, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
125 30 0.08
126 340 0.91
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:79563766 original size:116 final size:116
Alignment explanation
Indices: 79563513--79564125 Score: 1095
Period size: 116 Copynumber: 5.3 Consensus size: 116
79563503 TTTATATTTT
* * *
79563513 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * *
79563578 AAAA-ATAAAATTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
79563628 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
79563693 AAAATTTAAAAGTAAATTACAATTATTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
79563744 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
79563809 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
79563860 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
79563924 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
79563975 ATTACATGAAATAATATAAAAATACTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
79564040 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
79564091 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
79564126 TGTATAAATA
Statistics
Matches: 478, Mismatches: 18, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
115 178 0.37
116 300 0.63
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:79563795 original size:231 final size:231
Alignment explanation
Indices: 79563513--79564125 Score: 1093
Period size: 231 Copynumber: 2.7 Consensus size: 231
79563503 TTTATATTTT
* * *
79563513 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * * * *
79563578 AAAA-ATAAAATTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTATCACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
*
79563642 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAATTTAAAAGTA
131 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-AAAATATAAAAGTA
*
79563707 AATTACAATTATTTTATTTAAAACAACCTTTTATCTA
195 AATTACAATTACTTTATTTAAAACAACCTTTTATCTA
79563744 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
79563809 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
79563874 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAATATAAAAGTAA
131 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAATATAAAAGTAA
*
79563939 ATTATAATTACTTTATTTAAAACAACCTTTTATCTA
196 ATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
79563975 ATTACATGAAATAATATAAAAATACTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
79564040 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
*
79564105 TATAAAAAGATTCAAAATGTT
131 TATAAAAATATTCAAAATGTT
79564126 TGTATAAATA
Statistics
Matches: 368, Mismatches: 13, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
231 263 0.71
232 105 0.29
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (231 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAATATAAAAGTAA
ATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:79564535 original size:18 final size:18
Alignment explanation
Indices: 79564509--79564551 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
79564499 GACTAGAAAA
* *
79564509 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
79564527 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
79564545 AGGATAC
1 AGGATAC
79564552 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:79565151 original size:7 final size:7
Alignment explanation
Indices: 79565139--79565164 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
79565129 TTAAATAAAA
79565139 AAATACT
1 AAATACT
79565146 AAATACT
1 AAATACT
79565153 AAATACT
1 AAATACT
79565160 AAATA
1 AAATA
79565165 TGAATCCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATACT
Found at i:79566342 original size:22 final size:22
Alignment explanation
Indices: 79566330--79566379 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
79566320 TAACGAGAGT
79566330 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
79566352 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
79566372 TTTGAGAG
1 TTTGAGAG
79566380 AATGTTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:79566353 original size:11 final size:11
Alignment explanation
Indices: 79566330--79566381 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
79566320 TAACGAGAGT
*
79566330 TTTGAGAGGAA
1 TTTGAGAGAAA
*
79566341 TTTAAGAGAAA
1 TTTGAGAGAAA
79566352 TTTGAGAG--A
1 TTTGAGAGAAA
79566361 TTTGAGAGAAA
1 TTTGAGAGAAA
79566372 TTTGAGAGAA
1 TTTGAGAGAA
79566382 TGTTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:79566387 original size:11 final size:10
Alignment explanation
Indices: 79566330--79566387 Score: 64
Period size: 11 Copynumber: 5.5 Consensus size: 10
79566320 TAACGAGAGT
79566330 TTTGAGAGGAA
1 TTTGAGA-GAA
*
79566341 TTTAAGAGAAA
1 TTTGAGAG-AA
79566352 TTTGAGAG-A
1 TTTGAGAGAA
79566361 TTTGAGAGAAA
1 TTTGAGAG-AA
79566372 TTTGAGAGAA
1 TTTGAGAGAA
79566382 TGTTGA
1 T-TTGA
79566388 AAGATTGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 9 0.22
10 4 0.10
11 28 0.68
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:79566393 original size:31 final size:31
Alignment explanation
Indices: 79566330--79566393 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
79566320 TAACGAGAGT
* *
79566330 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
79566361 TTTGAGAGAAATTTGAGAG-AATGTTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
79566392 TT
1 TT
79566394 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:79568206 original size:44 final size:44
Alignment explanation
Indices: 79568143--79568231 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
79568133 CAAACACCGG
79568143 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
79568187 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
79568231 A
1 A
79568232 TTTTCTGGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (44 bp):
AAAGTATTAACTTTTCTGGAAAAATAAGCCATTTTCCAGAAACC
Found at i:79570358 original size:46 final size:44
Alignment explanation
Indices: 79570275--79570387 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 44
79570265 GAAGAGTGCT
*
79570275 AGTGTAAGACGTGTCTGGGACACGCATCGGCCTCGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGACGT--ACC
* * * **
79570321 AGTGTAAGACATGTCTGGGATATGCATCGG-CTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCT-CGAGACGTACC
79570365 AGTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
79570388 TGGCTTCAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 10 0.17
45 14 0.24
46 34 0.59
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGACGTACC
Found at i:79571569 original size:21 final size:21
Alignment explanation
Indices: 79571539--79571595 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
79571529 AGATGGTCAT
79571539 ACGGGTGTGTTGCCCTTCCAC
1 ACGGGTGTGTTGCCCTTCCAC
* *
79571560 ACGGGCGTGTTGCCCTTCTAC
1 ACGGGTGTGTTGCCCTTCCAC
*
79571581 ATGGGTGTG-TGCCCT
1 ACGGGTGTGTTGCCCT
79571596 ATTTTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.09, C:0.30, G:0.32, T:0.30
Consensus pattern (21 bp):
ACGGGTGTGTTGCCCTTCCAC
Found at i:79580757 original size:19 final size:20
Alignment explanation
Indices: 79580733--79580772 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
79580723 TTTTCATTTG
79580733 ATAGTTTTTAA-AATTTATA
1 ATAGTTTTTAAGAATTTATA
*
79580752 ATAGTTTTTAAGAGTTTATA
1 ATAGTTTTTAAGAATTTATA
79580772 A
1 A
79580773 ATAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (20 bp):
ATAGTTTTTAAGAATTTATA
Found at i:79590795 original size:37 final size:37
Alignment explanation
Indices: 79590719--79590808 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
79590709 CACCACTTCT
* * * *
79590719 TCCACCCTGCACACCACATTAGGGCACAGTAGACTTA
1 TCCACCCTGCACACCACATTAAGACACAATAGACCTA
* *
79590756 TCCACCCTGCACACCACA-TAAGACTATAATAGGCCTA
1 TCCACCCTGCACACCACATTAAGAC-ACAATAGACCTA
*
79590793 TCCACCCTACACACCA
1 TCCACCCTGCACACCA
79590809 TGTGTCATGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 4 0.09
37 41 0.91
ACGTcount: A:0.32, C:0.39, G:0.11, T:0.18
Consensus pattern (37 bp):
TCCACCCTGCACACCACATTAAGACACAATAGACCTA
Found at i:79591315 original size:20 final size:19
Alignment explanation
Indices: 79591288--79591339 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
79591278 GGCTACCTAC
79591288 ACAC-CCGTGTGGTAAGGA
1 ACACGCCGTGTGGTAAGGA
* *
79591306 ACACGACCGTGTGCTAAGGC
1 ACACG-CCGTGTGGTAAGGA
79591326 ACACGCCTGTGTGG
1 ACACGCC-GTGTGG
79591340 AAATCGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 2 0.07
20 22 0.79
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (19 bp):
ACACGCCGTGTGGTAAGGA
Found at i:79595526 original size:26 final size:26
Alignment explanation
Indices: 79595497--79595549 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
79595487 TTTACAGTTT
79595497 TACCCCTAGGATATAAATT-ACCGAAA
1 TACCCCTAGGAT-TAAATTGACCGAAA
* *
79595523 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGATTAAATTGACCGAAA
79595549 T
1 T
79595550 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGATTAAATTGACCGAAA
Found at i:79596838 original size:10 final size:10
Alignment explanation
Indices: 79596823--79596852 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
79596813 TCTGTAAGTA
79596823 TTCTGAATTT
1 TTCTGAATTT
79596833 TTCTGAATTT
1 TTCTGAATTT
79596843 TTCCTGAATT
1 TT-CTGAATT
79596853 ATCTGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (10 bp):
TTCTGAATTT
Found at i:79612709 original size:18 final size:18
Alignment explanation
Indices: 79612683--79612725 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
79612673 GACTAGAAAA
* *
79612683 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
79612701 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
79612719 AGGATAC
1 AGGATAC
79612726 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:79614189 original size:13 final size:13
Alignment explanation
Indices: 79614171--79614195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79614161 TTTTATTTTA
79614171 AAAAATAAATTAG
1 AAAAATAAATTAG
79614184 AAAAATAAATTA
1 AAAAATAAATTA
79614196 CAGCTTTTTT
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAAAATAAATTAG
Found at i:79616065 original size:43 final size:43
Alignment explanation
Indices: 79615999--79616085 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
79615989 CAAACACCGG
79615999 AAAGTATTAACTTTTCTGGAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGGAAAATAAGCCATTTTCCAGAAACC
79616042 AAAGTATTAAC-TTTCTGGAAAAATAAGCCATTTTCCAGAAACC
1 AAAGTATTAACTTTTCTGG-AAAATAAGCCATTTTCCAGAAACC
79616085 A
1 A
79616086 TTTTCTGGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 7 0.16
43 36 0.84
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.29
Consensus pattern (43 bp):
AAAGTATTAACTTTTCTGGAAAATAAGCCATTTTCCAGAAACC
Found at i:79619387 original size:21 final size:21
Alignment explanation
Indices: 79619357--79619413 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
79619347 AGATGGTCAT
79619357 ACGGGTGTGTTGCCCTTCCAC
1 ACGGGTGTGTTGCCCTTCCAC
* *
79619378 ACGGGCGTGTTGCCCTTCTAC
1 ACGGGTGTGTTGCCCTTCCAC
*
79619399 ATGGGTGTG-TGCCCT
1 ACGGGTGTGTTGCCCT
79619414 ATTTTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.09, C:0.30, G:0.32, T:0.30
Consensus pattern (21 bp):
ACGGGTGTGTTGCCCTTCCAC
Found at i:79628636 original size:21 final size:21
Alignment explanation
Indices: 79628612--79628656 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
79628602 TTTTCATTTG
79628612 ATAGTATTTTAA-AATTTATAA
1 ATAGT-TTTTAAGAATTTATAA
*
79628633 ATAGTTTTTAAGAGTTTATAA
1 ATAGTTTTTAAGAATTTATAA
79628654 ATA
1 ATA
79628657 AAATATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
ATAGTTTTTAAGAATTTATAA
Found at i:79628719 original size:21 final size:21
Alignment explanation
Indices: 79628681--79628721 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
79628671 ATTATGGTTA
79628681 AAAAATATTTAATGTATTTATT
1 AAAAATATTTAA-GTATTTATT
79628703 AAAAATATTTTAA-TATTTA
1 AAAAATA-TTTAAGTATTTA
79628722 AAAGGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAAATATTTAAGTATTTATT
Found at i:79639270 original size:21 final size:21
Alignment explanation
Indices: 79639246--79639301 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
79639236 TGGCTACCTC
79639246 ACACACCCGTGTGGCTAAGGA
1 ACACACCCGTGTGGCTAAGGA
* *
79639267 ACACGA-CCGTGTGTCTAAGGC
1 ACAC-ACCCGTGTGGCTAAGGA
* *
79639288 ACACGCCTGTGTGG
1 ACACACCCGTGTGG
79639302 AAATCGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.18
Consensus pattern (21 bp):
ACACACCCGTGTGGCTAAGGA
Found at i:79649074 original size:26 final size:26
Alignment explanation
Indices: 79649045--79649126 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
79649035 TGATACAAAT
79649045 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79649071 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79649097 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79649123 TGAT
1 TGAT
79649127 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79652227 original size:33 final size:33
Alignment explanation
Indices: 79652190--79652357 Score: 161
Period size: 33 Copynumber: 5.3 Consensus size: 33
79652180 ATCAAATGTC
**
79652190 AAAAGGAAAGGTATACTTTGTGTGTACCACATG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
** * *
79652223 AAAAGGCTATGTATACTTAGTGTGTA-C-TCTT-
1 AAAAGGAAAGGTATACTTTGTGTGTACCAT-TTG
**
79652254 --AA--AAAGGTGGACTTTGTGTGTACCATTTG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
* * *
79652283 AAAAGGGAAGGTATACTCTGTGTGTACCATTTC
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
* *
79652316 AAAAGGAAAGGTATACTTTGTTTATACCATTTG
1 AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
79652349 AAAAGGAAA
1 AAAAGGAAA
79652358 TGTACACCTC
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
27 14 0.13
28 3 0.03
29 3 0.03
31 2 0.02
32 2 0.02
33 81 0.77
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (33 bp):
AAAAGGAAAGGTATACTTTGTGTGTACCATTTG
Found at i:79656654 original size:19 final size:20
Alignment explanation
Indices: 79656625--79656662 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
79656615 AAAATAAGGA
79656625 ATTCAAAAACAATGAATAAT
1 ATTCAAAAACAATGAATAAT
79656645 ATTC-AAAACAATGAATAA
1 ATTCAAAAACAATGAATAA
79656663 AGAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (20 bp):
ATTCAAAAACAATGAATAAT
Found at i:79657148 original size:17 final size:16
Alignment explanation
Indices: 79657122--79657156 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
79657112 TAAAATAATT
79657122 AAATAATAAATAATAA
1 AAATAATAAATAATAA
79657138 AAATAAATAAATAATAA
1 AAAT-AATAAATAATAA
79657155 AA
1 AA
79657157 TCTAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATAAATAATAA
Found at i:79657155 original size:7 final size:7
Alignment explanation
Indices: 79657114--79657147 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
79657104 AAACAATTTA
79657114 AAATAATT
1 AAATAA-T
79657122 AAATAAT
1 AAATAAT
79657129 AAATAAT
1 AAATAAT
79657136 AAA-AAT
1 AAATAAT
79657142 AAATAA
1 AAATAA
79657148 ATAATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.24
7 13 0.52
8 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATAAT
Found at i:79658883 original size:40 final size:40
Alignment explanation
Indices: 79658839--79658930 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
79658829 GTTGTGTGTG
* * * *
79658839 AGACACGACCGTATGGTCGATGGAGGCATGGTCGTGCGCA
1 AGACACGACCGTATAGTCAATGAAAGCATGGTCGTGCGCA
* * *
79658879 AGACAC-AGCCGTGTAGTCAATGAAAGCATGGTTGTGTGCA
1 AGACACGA-CCGTATAGTCAATGAAAGCATGGTCGTGCGCA
*
79658919 AGACATGACCGT
1 AGACACGACCGT
79658931 GTGATGGCGT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.02
40 40 0.95
41 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.33, T:0.20
Consensus pattern (40 bp):
AGACACGACCGTATAGTCAATGAAAGCATGGTCGTGCGCA
Found at i:79658931 original size:40 final size:39
Alignment explanation
Indices: 79658827--79658932 Score: 95
Period size: 40 Copynumber: 2.6 Consensus size: 39
79658817 TCCATGTGGT
** * * * * *
79658827 TGGTTGTGTGTGAGACACGACCGTATGGTCGATGGAGGCA
1 TGGTTGTGTGCAAGACA-GACCGTGTAGTCAATGAAAGCA
* * *
79658867 TGGTCGTGCGCAAGACACAGCCGTGTAGTCAATGAAAGCA
1 TGGTTGTGTGCAAGACAGA-CCGTGTAGTCAATGAAAGCA
79658907 TGGTTGTGTGCAAGACATGACCGTGT
1 TGGTTGTGTGCAAGACA-GACCGTGT
79658933 GATGGCGTGA
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
39 1 0.02
40 49 0.96
41 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (39 bp):
TGGTTGTGTGCAAGACAGACCGTGTAGTCAATGAAAGCA
Found at i:79659057 original size:17 final size:17
Alignment explanation
Indices: 79659032--79659097 Score: 105
Period size: 17 Copynumber: 3.8 Consensus size: 17
79659022 AGGTTAATCT
* *
79659032 GGGCGTGTGGCCTACAC
1 GGGCTTGTGGCCCACAC
79659049 GGGCTTGTGGCCCACAC
1 GGGCTTGTGGCCCACAC
79659066 GGGCTTGTGGCCCACAC
1 GGGCTTGTGGCCCACAC
79659083 GGGCTTGTGAGCCCA
1 GGGCTTGTG-GCCCA
79659098 TGTTTTTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
17 41 0.89
18 5 0.11
ACGTcount: A:0.12, C:0.32, G:0.38, T:0.18
Consensus pattern (17 bp):
GGGCTTGTGGCCCACAC
Found at i:79660297 original size:21 final size:22
Alignment explanation
Indices: 79660267--79660329 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 22
79660257 CGATCCTGTA
79660267 AGTAT-TTCTGAAACT-TAGAT
1 AGTATATTCTGAAACTGTAGAT
79660287 AGTATATTCTGAAAACATTGTAGAT
1 AGTATATTCTG-AAAC--TGTAGAT
*
79660312 AGTACATTC-GAAACTGTA
1 AGTATATTCTGAAACTGTA
79660330 CTGAAATAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
20 5 0.14
21 9 0.24
22 4 0.11
23 4 0.11
24 2 0.05
25 13 0.35
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (22 bp):
AGTATATTCTGAAACTGTAGAT
Found at i:79660440 original size:17 final size:18
Alignment explanation
Indices: 79660418--79660453 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
79660408 ATACTAGTAC
79660418 TAATGT-ATAAAATTTTA
1 TAATGTAATAAAATTTTA
79660435 TAATGTAGATAAAATTTTA
1 TAATGTA-ATAAAATTTTA
79660454 AAATTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (18 bp):
TAATGTAATAAAATTTTA
Found at i:79664893 original size:55 final size:54
Alignment explanation
Indices: 79664798--79664947 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
79664788 CTACTTTGTT
* ** * *
79664798 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
79664852 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
79664907 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
79664948 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:79664910 original size:27 final size:27
Alignment explanation
Indices: 79664770--79664947 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
79664760 TAAATTGTAC
79664770 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
79664797 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
79664823 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
79664851 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
79664879 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
79664906 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
79664933 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79664948 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:79664911 original size:82 final size:81
Alignment explanation
Indices: 79664771--79664926 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
79664761 AAATTGTACA
* * * *
79664771 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
79664836 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
79664852 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
79664915 TGTGCGAGTTGA
63 TGTGCGAATTGA
79664927 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:79685010 original size:55 final size:54
Alignment explanation
Indices: 79684915--79685064 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
79684905 CTACTTTGTT
* ** * *
79684915 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
79684969 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
79685024 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
79685065 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:79685027 original size:27 final size:27
Alignment explanation
Indices: 79684887--79685064 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
79684877 TAAATTGTAC
79684887 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
79684914 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
79684940 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
79684968 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
79684996 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
79685023 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
79685050 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79685065 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:79685028 original size:82 final size:81
Alignment explanation
Indices: 79684888--79685043 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
79684878 AAATTGTACA
* * * *
79684888 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
79684953 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
79684969 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
79685032 TGTGCGAGTTGA
63 TGTGCGAATTGA
79685044 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:79692563 original size:13 final size:13
Alignment explanation
Indices: 79692522--79692564 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
79692512 TCAAGCATAA
79692522 TATTTATGTATCTG
1 TATTT-TGTATCTG
* * *
79692536 TATATTATATTTG
1 TATTTTGTATCTG
79692549 TATTTTGTATCTG
1 TATTTTGTATCTG
79692562 TAT
1 TAT
79692565 ATGGAGTGGG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (13 bp):
TATTTTGTATCTG
Found at i:79694056 original size:25 final size:26
Alignment explanation
Indices: 79694005--79694056 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
79693995 ATTATAAAAT
* ** *
79694005 AATTATAAAAATATTTTTTTGTGATA
1 AATTATAAAAATATCTTTTAATAATA
79694031 AATTATAAAAATA-CTTTTAATAATA
1 AATTATAAAAATATCTTTTAATAATA
79694056 A
1 A
79694057 TTAGATCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTATAAAAATATCTTTTAATAATA
Found at i:79695141 original size:32 final size:33
Alignment explanation
Indices: 79695087--79695153 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
79695077 TGATATATAA
79695087 AATATTTTTAAAAAAATAAATATAATAATAAAT
1 AATATTTTTAAAAAAATAAATATAATAATAAAT
* * * * *
79695120 AATA-TTTTAAATAATTTAATATAATGATATAT
1 AATATTTTTAAAAAAATAAATATAATAATAAAT
79695152 AA
1 AA
79695154 AATATAATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (33 bp):
AATATTTTTAAAAAAATAAATATAATAATAAAT
Found at i:79702373 original size:30 final size:30
Alignment explanation
Indices: 79702329--79702397 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
79702319 AATTTGTCAC
*
79702329 TATACTTT-ATTTTAATTGATATTTATAAT
1 TATATTTTAATTTTAATTGATATTTATAAT
79702358 TATATTTTAATTTTAATTGATATTTATAAT
1 TATATTTTAATTTTAATTGATATTTATAAT
79702388 TATATTTTAA
1 TATATTTTAA
79702398 GAATATAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 7 0.18
30 31 0.82
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (30 bp):
TATATTTTAATTTTAATTGATATTTATAAT
Found at i:79706995 original size:20 final size:19
Alignment explanation
Indices: 79706959--79707009 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
79706949 AAAGGATTTT
*
79706959 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
79706978 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
79706998 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
79707010 GTTGCTATAG
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 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:79709862 original size:13 final size:13
Alignment explanation
Indices: 79709844--79709868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79709834 AGTTTATTTC
79709844 GATTAATATTTAT
1 GATTAATATTTAT
79709857 GATTAATATTTA
1 GATTAATATTTA
79709869 GATGCATGTG
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
GATTAATATTTAT
Found at i:79711406 original size:68 final size:67
Alignment explanation
Indices: 79711334--79711485 Score: 184
Period size: 67 Copynumber: 2.3 Consensus size: 67
79711324 CATCATGTGT
* * * *
79711334 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTCATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACGAGA-A-TAT-ATGTAGCTAGGTCGCATGCGTCATACCAGTGAAGGACACCA
79711397 TGTAG
63 TGTAG
** *
79711402 ACAAGAGAGCTACGAG-ATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTCATACCA-GTGAAGGACACCATG
79711466 TAG
65 TAG
79711469 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
79711486 TAAACTGGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
64 23 0.32
65 3 0.04
66 3 0.04
67 28 0.38
68 16 0.22
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGAATATATGTAGCTAGGTCGCATGCGTCATACCAGTGAAGGACACCATGT
AG
Found at i:79714790 original size:21 final size:19
Alignment explanation
Indices: 79714758--79714811 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
79714748 ACATTTGTCC
79714758 CTTGTAATATATATTAGAA
1 CTTGTAATATATATTAGAA
*
79714777 CTTGTAATATATATTAGAT
1 CTTGTAATATATATTAGAA
79714796 CTTGTAATATATATTA
1 CTTGTAATATATATTA
79714812 AGATTCTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (19 bp):
CTTGTAATATATATTAGAA
Found at i:79715114 original size:14 final size:14
Alignment explanation
Indices: 79715095--79715125 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79715085 GGTGTCTAGT
79715095 TTTGGGGTTTAGAG
1 TTTGGGGTTTAGAG
*
79715109 TTTGGGGTTTAGGG
1 TTTGGGGTTTAGAG
79715123 TTT
1 TTT
79715126 AGTGTTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.42, T:0.48
Consensus pattern (14 bp):
TTTGGGGTTTAGAG
Found at i:79715118 original size:7 final size:7
Alignment explanation
Indices: 79715099--79715153 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
79715089 TCTAGTTTTG
79715099 GGGTTTA
1 GGGTTTA
* *
79715106 GAGTTTG
1 GGGTTTA
79715113 GGGTTTA
1 GGGTTTA
79715120 GGGTTTA
1 GGGTTTA
*
79715127 GTGTTT-
1 GGGTTTA
79715133 GTGGTTTA
1 G-GGTTTA
79715141 GGGTTTA
1 GGGTTTA
*
79715148 GCGTTT
1 GGGTTT
79715154 TAAGGCTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 1 0.03
7 37 0.95
8 1 0.03
ACGTcount: A:0.11, C:0.02, G:0.40, T:0.47
Consensus pattern (7 bp):
GGGTTTA
Found at i:79715123 original size:21 final size:21
Alignment explanation
Indices: 79715099--79715153 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
79715089 TCTAGTTTTG
79715099 GGGTTTAGAGTTTGGGGTTTA
1 GGGTTTAGAGTTTGGGGTTTA
* *
79715120 GGGTTTAGTGTTTGTGGTTTA
1 GGGTTTAGAGTTTGGGGTTTA
*
79715141 GGGTTTAGCGTTT
1 GGGTTTAGAGTTT
79715154 TAAGGCTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.11, C:0.02, G:0.40, T:0.47
Consensus pattern (21 bp):
GGGTTTAGAGTTTGGGGTTTA
Found at i:79715216 original size:15 final size:15
Alignment explanation
Indices: 79715196--79715227 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
79715186 TTTAATTTAA
79715196 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
79715211 AAGATAAATATATAT
1 AAGATAAATATAAAT
79715226 AA
1 AA
79715228 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:79716428 original size:37 final size:37
Alignment explanation
Indices: 79716387--79716551 Score: 240
Period size: 37 Copynumber: 4.5 Consensus size: 37
79716377 TCCCCCAAAT
* * * *
79716387 CCTTCACCTCGTGGATCGCAACCCATCCCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
79716424 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
79716461 CCTTTGCCCCGTGCATCGCAACTCATCTCCTCCATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
79716498 CCTTCGCCCCGTGCATCACAACCCATCTCCTCCATTG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
79716535 CCTTCGCCTCGTACATC
1 CCTTCGCCCCGTGCATC
79716552 TACTGTATAG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 116 1.00
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.24
Consensus pattern (37 bp):
CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
Found at i:79716962 original size:28 final size:28
Alignment explanation
Indices: 79716922--79716978 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
79716912 AGTAAGTTTT
79716922 TTACTTAAGTACTTTTACATTTATGTTC
1 TTACTTAAGTACTTTTACATTTATGTTC
79716950 TTACTTAAGTACTTTTACATTTATGTTC
1 TTACTTAAGTACTTTTACATTTATGTTC
79716978 T
1 T
79716979 GTGTATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (28 bp):
TTACTTAAGTACTTTTACATTTATGTTC
Found at i:79718926 original size:9 final size:9
Alignment explanation
Indices: 79718914--79719117 Score: 86
Period size: 9 Copynumber: 23.1 Consensus size: 9
79718904 TATATCATAT
79718914 CATAACTTA
1 CATAACTTA
79718923 CATAACTTA
1 CATAACTTA
* *
79718932 TATACCTTA
1 CATAACTTA
79718941 CATAA--TA
1 CATAACTTA
*
79718948 CATAA-ATA
1 CATAACTTA
* * *
79718956 TATATCATAA
1 CATAAC-TTA
*
79718966 AATAACTTA
1 CATAACTTA
*
79718975 CAAAACTTA
1 CATAACTTA
79718984 CATAA--TA
1 CATAACTTA
*
79718991 CATAA-ATA
1 CATAACTTA
* ** *
79718999 TATCTCATA
1 CATAACTTA
79719008 TCATAACTTA
1 -CATAACTTA
79719018 CATAACTTA
1 CATAACTTA
*
79719027 CATAAATGT-
1 CATAACT-TA
* *
79719036 -ATATCATA
1 CATAACTTA
79719044 TCATAACTTA
1 -CATAACTTA
*
79719054 CATACCTTA
1 CATAACTTA
*
79719063 CATAAATGT-
1 CATAACT-TA
* *
79719072 -ATATCATA
1 CATAACTTA
79719080 TCATAACTTA
1 -CATAACTTA
79719090 CATAACTTA
1 CATAACTTA
*
79719099 CAAAACTTA
1 CATAACTTA
*
79719108 CTTAACTTA
1 CATAACTTA
79719117 C
1 C
79719118 GTAATACATA
Statistics
Matches: 143, Mismatches: 38, Indels: 28
0.68 0.18 0.13
Matches are distributed among these distances:
7 16 0.11
8 15 0.10
9 88 0.62
10 24 0.17
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:79718956 original size:52 final size:49
Alignment explanation
Indices: 79718894--79719026 Score: 170
Period size: 43 Copynumber: 2.8 Consensus size: 49
79718884 TATAATAACT
79718894 TACATAAATATATATCATATCATAACTTACATAACTTATATACCTTACATAA
1 TACATAAATATATATCATATCATAACTTACATAACTTA-A-A-CTTACATAA
**
79718946 TACATAAATATATATCATAAAATAACTTAC---A---AAACTTACATAA
1 TACATAAATATATATCATATCATAACTTACATAACTTAAACTTACATAA
*
79718989 TACATAAATATATCTCATATCATAACTTACATAACTTA
1 TACATAAATATATATCATATCATAACTTACATAACTTA
79719027 CATAAATGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
43 36 0.51
44 1 0.01
45 1 0.01
46 2 0.03
49 2 0.03
52 28 0.40
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.35
Consensus pattern (49 bp):
TACATAAATATATATCATATCATAACTTACATAACTTAAACTTACATAA
Found at i:79718960 original size:79 final size:76
Alignment explanation
Indices: 79718871--79719108 Score: 219
Period size: 79 Copynumber: 2.9 Consensus size: 76
79718861 ATCTTAATGT
*
79718871 TAAATATATATCATATAATAACTTACATAAATATATATCATATCATAACTTACATAACTTATATA
1 TAAATATATATCATATAATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATA
*
79718936 CCTTACATAATACA
66 ACTTACAT-A-A-A
* * *
79718950 TAAATATATATCATAAAATAACTTACA-AAACTTACATAATACATAAAT-ATATCTCATATCATA
1 TAAATATATATCATATAATAACTTACATAAA--TATAT-AT-CAT--ATCATAACT--TA-CATA
79719013 ACTTACATAACTTACATAAA
57 ACTTACATAACTTACATAAA
** * *
79719033 TGTATATCATATCATAACTTACATACCTTACATAAATGTATATCATATCATAACTTACATAACTT
1 TAAATAT-ATATCAT-A--TA-ATAACTTACATAAATATATATCATATCATAACTTACATAACTT
*
79719098 ACAAAACTTAC
61 ACATAACTTAC
79719109 TTAACTTACG
Statistics
Matches: 130, Mismatches: 13, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
78 3 0.02
79 26 0.20
80 4 0.03
81 20 0.15
82 5 0.04
83 13 0.10
84 15 0.12
85 7 0.05
86 21 0.16
87 4 0.03
88 9 0.07
89 3 0.02
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (76 bp):
TAAATATATATCATATAATAACTTACATAAATATATATCATATCATAACTTACATAACTTACATA
ACTTACATAAA
Found at i:79718987 original size:36 final size:36
Alignment explanation
Indices: 79718937--79719100 Score: 197
Period size: 36 Copynumber: 4.4 Consensus size: 36
79718927 ACTTATATAC
**
79718937 CTTACATAA--TACATAAATATATATCATAAAATAA
1 CTTACATAACTTACATAAATATATATCATATCATAA
*
79718971 CTTACAAAACTTACATAATACATAAATATATCTCATATCATAA
1 CTTACATAACTTACAT-A-A-AT--ATATA--TCATATCATAA
*
79719014 CTTACATAACTTACATAAATGTATATCATATCATAA
1 CTTACATAACTTACATAAATATATATCATATCATAA
* *
79719050 CTTACATACCTTACATAAATGTATATCATATCATAA
1 CTTACATAACTTACATAAATATATATCATATCATAA
79719086 CTTACATAACTTACA
1 CTTACATAACTTACA
79719101 AAACTTACTT
Statistics
Matches: 114, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
34 8 0.07
36 65 0.57
37 1 0.01
38 5 0.04
39 2 0.02
40 2 0.02
41 6 0.05
42 1 0.01
43 24 0.21
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (36 bp):
CTTACATAACTTACATAAATATATATCATATCATAA
Found at i:79719045 original size:43 final size:42
Alignment explanation
Indices: 79718888--79719100 Score: 164
Period size: 36 Copynumber: 5.2 Consensus size: 42
79718878 ATATCATATA
* * *
79718888 ATAACTTACATAAATATATATCATATCATAACT-TACATAACTTAT
1 ATAACTTACATAAATATAAAT-ATATC-TCA-TAT-CATAACTTAC
* * * **
79718933 ATACCTTACATAATACATAAATATATATCATAAAATAACTTAC
1 ATAACTTACATAA-ATATAAATATATCTCATATCATAACTTAC
* *
79718976 AAAACTTACATAATACATAAATATATCTCATATCATAACTTAC
1 ATAACTTACATAA-ATATAAATATATCTCATATCATAACTTAC
*
79719019 ATAACTTACAT-AA-AT--GTATA--TCATATCATAACTTAC
1 ATAACTTACATAAATATAAATATATCTCATATCATAACTTAC
* *
79719055 ATACCTTACAT-AA-AT--GTATA--TCATATCATAACTTAC
1 ATAACTTACATAAATATAAATATATCTCATATCATAACTTAC
79719091 ATAACTTACA
1 ATAACTTACA
79719101 AAACTTACTT
Statistics
Matches: 149, Mismatches: 17, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
36 60 0.40
38 4 0.03
40 2 0.01
41 1 0.01
42 1 0.01
43 57 0.38
44 2 0.01
45 16 0.11
46 6 0.04
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (42 bp):
ATAACTTACATAAATATAAATATATCTCATATCATAACTTAC
Found at i:79724231 original size:13 final size:14
Alignment explanation
Indices: 79724215--79724243 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79724205 TTTTAAATAT
79724215 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
79724228 TTATAATGGTTTAA
1 TTATAATGGTTTAA
79724242 TT
1 TT
79724244 TGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:79725057 original size:43 final size:42
Alignment explanation
Indices: 79724992--79725123 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
79724982 AATATATATT
* * *
79724992 TTTAGCGGCGTTTAAGATAAAAGTGCCGCTAAAATTCACGTTC
1 TTTAGCGGCGTTTATGA-AAAAGCGCCGCTAAAAGTCACGTTC
* * * * *
79725035 TTTAGCGGCGTTTGTGCAAAAAGCGCAGCTAAAGGTCACATTT
1 TTTAGCGGCGTTTATG-AAAAAGCGCCGCTAAAAGTCACGTTC
* * *
79725078 TTTAGCGGTGTTTTTTTAAAAA-CGCCGCTAAAAGTCACGTTC
1 TTTAGCGGCG-TTTATGAAAAAGCGCCGCTAAAAGTCACGTTC
79725120 TTTA
1 TTTA
79725124 ATATATATTT
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
42 20 0.28
43 47 0.65
44 5 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTATGAAAAAGCGCCGCTAAAAGTCACGTTC
Found at i:79725299 original size:35 final size:35
Alignment explanation
Indices: 79725260--79725343 Score: 143
Period size: 34 Copynumber: 2.4 Consensus size: 35
79725250 GTTACGTTCT
*
79725260 TTAGCGGTGTTTTTTTACATAAATGCCATAAAATG
1 TTAGCGGTGTTTTTTTACATAAACGCCATAAAATG
79725295 TTAGCGGTG-TTTTTTACATAAACGCCATAAAATG
1 TTAGCGGTGTTTTTTTACATAAACGCCATAAAATG
*
79725329 TTAGCGGTATTTTTT
1 TTAGCGGTGTTTTTT
79725344 GCGGCGCTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 32 0.70
35 14 0.30
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (35 bp):
TTAGCGGTGTTTTTTTACATAAACGCCATAAAATG
Found at i:79731747 original size:5 final size:5
Alignment explanation
Indices: 79731734--79731768 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
79731724 TAGAAAGATA
* *
79731734 TTATT TTGTT TTGTT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
79731769 AATTTAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:79733725 original size:113 final size:113
Alignment explanation
Indices: 79733527--79733746 Score: 359
Period size: 113 Copynumber: 1.9 Consensus size: 113
79733517 ATATTGTGGG
* * * *
79733527 AATTCGTCAAAAAGACACTGAATCACTTTACGATTACTGGGAGCGATGCAAAAAGTTGTGCGCAA
1 AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTATGCGCAA
79733592 GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
66 GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
** *
79733640 AATTCGTCAAAAAGATGCTGAATCACTCTACGGTTACTGGGAGCAATACAAAAAGTTATGCGCAA
1 AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTATGCGCAA
* *
79733705 GCTGCCCATAACATGGACTGATTGAACAGTCACTCTTGCAGT
66 GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGT
79733747 TTTTACTCCC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 98 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (113 bp):
AATTCGTCAAAAAGACACTGAATCACTCTACGATTACTGGGAGCAATACAAAAAGTTATGCGCAA
GCTGCCCACAACATGGACTGACTGAACAGTCACTCTTGCAGTATTGGA
Found at i:79740233 original size:27 final size:25
Alignment explanation
Indices: 79740162--79740233 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 25
79740152 CTTACCCTAA
79740162 ACCCAAATACCAAACTACCCATCCATC
1 ACCC-AATACCAAAC-ACCCATCCATC
* * * *
79740189 AGCACAATACCCACCACCCAATCCACTT
1 A-CCCAATACCAAACACCC-ATCCA-TC
79740217 ACCCAATACCAAACACC
1 ACCCAATACCAAACACC
79740234 TAACCTAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
26 4 0.11
27 27 0.77
28 4 0.11
ACGTcount: A:0.40, C:0.46, G:0.01, T:0.12
Consensus pattern (25 bp):
ACCCAATACCAAACACCCATCCATC
Found at i:79740299 original size:13 final size:13
Alignment explanation
Indices: 79740281--79740305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79740271 ACATAATATA
79740281 CCAACACCCAAAC
1 CCAACACCCAAAC
79740294 CCAACACCCAAA
1 CCAACACCCAAA
79740306 ACAAGCCCAA
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:0.52, G:0.00, T:0.00
Consensus pattern (13 bp):
CCAACACCCAAAC
Found at i:79743667 original size:5 final size:5
Alignment explanation
Indices: 79743651--79743693 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
79743641 TAGGAAGATA
*
79743651 TTATT TTGTT TTATT TTATT TTATTAT TTATT ATTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-T-T TTATT -TTATT TTATT
79743694 AATTTAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 22 0.67
6 7 0.21
7 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:79743687 original size:18 final size:18
Alignment explanation
Indices: 79743660--79743699 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
79743650 ATTATTTTGT
79743660 TTTATTTTATTTTATT-A
1 TTTATTTTATTTTATTAA
79743677 TTTATTATTATTTTATTAA
1 TTTATT-TTATTTTATTAA
79743696 TTTA
1 TTTA
79743700 GGTTAAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTATTTTATTAA
Found at i:79749053 original size:23 final size:23
Alignment explanation
Indices: 79749026--79749073 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
79749016 CTTCAAATAT
79749026 TTGACTTAAGTGAGAAATAAACA
1 TTGACTTAAGTGAGAAATAAACA
79749049 TTGACTTAAGTGAGAAATAAACA
1 TTGACTTAAGTGAGAAATAAACA
79749072 TT
1 TT
79749074 CTACTGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (23 bp):
TTGACTTAAGTGAGAAATAAACA
Found at i:79755239 original size:38 final size:37
Alignment explanation
Indices: 79755162--79755240 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
79755152 TAAAAATATA
* * *
79755162 TTTTGGTCAAAAAAAACTTTTGAGCAAAAATTAATTT
1 TTTTGGTCAAAAAAAACTTTTAAGCAAAAATAAAATT
* *
79755199 TTTTTGTCAAAAAAAACTTTTAAGTAAAAACTAAAATT
1 TTTTGGTCAAAAAAAACTTTTAAGCAAAAA-TAAAATT
79755237 TTTT
1 TTTT
79755241 ACTTTTGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 27 0.75
38 9 0.25
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (37 bp):
TTTTGGTCAAAAAAAACTTTTAAGCAAAAATAAAATT
Found at i:79755353 original size:17 final size:18
Alignment explanation
Indices: 79755331--79755369 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
79755321 CTTATTTAGT
79755331 AATA-TTTTTA-CCTCAAA
1 AATATTTTTTATCC-CAAA
79755348 AATATTTTTTATCCCAAA
1 AATATTTTTTATCCCAAA
79755366 AATA
1 AATA
79755370 AGAAGGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATTTTTTATCCCAAA
Found at i:79759089 original size:91 final size:91
Alignment explanation
Indices: 79758951--79759158 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
79758941 TTGATTTTAG
* *
79758951 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
79759016 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
79759043 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
79759108 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
79759134 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
79759159 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:79759127 original size:26 final size:28
Alignment explanation
Indices: 79759073--79759133 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
79759063 TATTATCAAG
* *
79759073 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
79759101 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
79759127 AATTATA
1 AATTATA
79759134 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:79759133 original size:44 final size:43
Alignment explanation
Indices: 79758991--79759133 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
79758981 GAATTTTATG
* *
79758991 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
79759035 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
79759082 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
79759126 AAATTATA
1 AAATTATA
79759134 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:79759323 original size:18 final size:17
Alignment explanation
Indices: 79759295--79759329 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
79759285 ATTATTAAGA
*
79759295 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
79759312 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
79759330 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:79759559 original size:44 final size:45
Alignment explanation
Indices: 79759494--79759584 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
79759484 ACCTCTATTC
* * *
79759494 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
79759538 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
79759583 CA
1 CA
79759585 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:79759599 original size:17 final size:16
Alignment explanation
Indices: 79759565--79759617 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
79759555 GATTAGCTAT
79759565 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
79759581 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
79759598 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
79759614 TACA
1 TACA
79759618 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:79759883 original size:69 final size:67
Alignment explanation
Indices: 79759837--79759975 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 67
79759827 CTTTTTTATA
79759837 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGAATCATTTAATAA
1 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTT--AGAATCATTTAATAA
79759902 ATAT
64 ATAT
*
79759906 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTGAAGTATCATTTAATAA
1 AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTT--AGAATCATTTAATAA
79759971 ATAT
64 ATAT
79759975 A
1 A
79759976 TTTATTATAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (67 bp):
AATCAATAGAAATGTATTCATAACAAGTTAAACTTTATTATTATATTTAGAATCATTTAATAAAT
AT
Found at i:79763311 original size:30 final size:30
Alignment explanation
Indices: 79763275--79763334 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
79763265 TTAGGGATGG
79763275 AAAAACAGGTTAAAAACAGGCAAACTAGAT
1 AAAAACAGGTTAAAAACAGGCAAACTAGAT
79763305 AAAAACAGGTTAAAAACAGGCAAACTAGAT
1 AAAAACAGGTTAAAAACAGGCAAACTAGAT
79763335 TTCTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (30 bp):
AAAAACAGGTTAAAAACAGGCAAACTAGAT
Found at i:79765249 original size:21 final size:20
Alignment explanation
Indices: 79765225--79765282 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
79765215 ATGAATTCAT
79765225 AAATCATAAATTCCAAAGCTA
1 AAATC-TAAATTCCAAAGCTA
* * *
79765246 AAATTTTAAAATCCAAATCTA
1 AAA-TCTAAATTCCAAAGCTA
*
79765267 AATTCTAAATTCCAAA
1 AAATCTAAATTCCAAA
79765283 TTCCAAACAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 11 0.37
21 18 0.60
22 1 0.03
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATCTAAATTCCAAAGCTA
Found at i:79765275 original size:20 final size:21
Alignment explanation
Indices: 79765231--79765283 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
79765221 TCATAAATCA
* *
79765231 TAAATTCCAAAGCTAAAATTT
1 TAAATTCCAAATCTAAAATTC
*
79765252 TAAAATCCAAATCT-AAATTC
1 TAAATTCCAAATCTAAAATTC
79765272 TAAATTCCAAAT
1 TAAATTCCAAAT
79765284 TCCAAACACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAATTCCAAATCTAAAATTC
Found at i:79765675 original size:53 final size:53
Alignment explanation
Indices: 79765611--79765716 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
79765601 AAAGCACAAT
*
79765611 ATATGAATGATACTCATGAGTGTGAGACGCTAATCGTCAATAACATAAACATA
1 ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
* *
79765664 ATATGAATGATACTCCTGAGTGTGAGACACTGATCGTCAATAACATAAACATA
1 ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
79765717 TCAACAGTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (53 bp):
ATATGAATGATACTCATGAGTGTGAGACACTAATCGTCAATAACATAAACATA
Found at i:79765980 original size:99 final size:99
Alignment explanation
Indices: 79765858--79766055 Score: 360
Period size: 99 Copynumber: 2.0 Consensus size: 99
79765848 GTCACTATTG
* * *
79765858 ATATATTTGAAGTTTCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTATGACAAAACA
1 ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
79765923 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
66 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
*
79765957 ATATATCTGAAGTATCCACAATGTGCTAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
1 ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
79766022 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
66 AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
79766056 TGAACAAATC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (99 bp):
ATATATCTGAAGTATCCACAATGTGCCAAGGAAGTTTCCACTTCCAACACTACTACGACAAAACA
AAAATTTGCAATTTTTTGAAGATTGACAATTTAT
Found at i:79767279 original size:19 final size:19
Alignment explanation
Indices: 79767250--79767286 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
79767240 AAATATTTTT
79767250 TAAAAAAATT-ATAAAAAA
1 TAAAAAAATTAATAAAAAA
79767268 TAAAAAATATTAATAAAAA
1 TAAAAAA-ATTAATAAAAA
79767287 CTATGTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 3 0.18
20 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAAAAATTAATAAAAAA
Found at i:79779212 original size:33 final size:33
Alignment explanation
Indices: 79779170--79779232 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
79779160 TTTAATGATC
* *
79779170 CATTTCAA-TTCAATTTCATTTTCATATCATTCT
1 CATTTCAATTTC-ATTTCATGTTCAAATCATTCT
79779203 CATTTCAATTTCATTTCATGTTCAAATCAT
1 CATTTCAATTTCATTTCATGTTCAAATCAT
79779233 ATATTGCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.49
Consensus pattern (33 bp):
CATTTCAATTTCATTTCATGTTCAAATCATTCT
Found at i:79779226 original size:6 final size:5
Alignment explanation
Indices: 79779170--79779226 Score: 51
Period size: 6 Copynumber: 10.4 Consensus size: 5
79779160 TTTAATGATC
* *
79779170 CATTT CAATT CAATTT CATTTT CATAT CATTCT CATTT CAATTT CATTT
1 CATTT CATTT C-ATTT CA-TTT CATTT CATT-T CATTT C-ATTT CATTT
79779219 CATGTT CA
1 CAT-TT CA
79779227 AATCATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 20 0.47
6 23 0.53
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (5 bp):
CATTT
Found at i:79779441 original size:5 final size:5
Alignment explanation
Indices: 79779431--79779483 Score: 88
Period size: 5 Copynumber: 10.4 Consensus size: 5
79779421 AAAACTCATA
*
79779431 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAC AAAAT AAAAT AAATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
79779482 AA
1 AA
79779484 CTAGTCTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 41 0.91
6 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:79780266 original size:18 final size:17
Alignment explanation
Indices: 79780238--79780282 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 17
79780228 TATACTAGTA
*
79780238 ATTAATAAAATATTATT
1 ATTATTAAAATATTATT
79780255 ACTTATTAAAATATTATT
1 A-TTATTAAAATATTATT
79780273 ATTATTAAAA
1 ATTATTAAAA
79780283 ATATCATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATTAAAATATTATT
Found at i:79780286 original size:18 final size:18
Alignment explanation
Indices: 79780243--79780282 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
79780233 TAGTAATTAA
79780243 TAAAATATTATTACTTAT
1 TAAAATATTATTACTTAT
79780261 TAAAATATTATTA-TTAT
1 TAAAATATTATTACTTAT
79780278 TAAAA
1 TAAAA
79780283 ATATCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAATATTATTACTTAT
Found at i:79786284 original size:19 final size:19
Alignment explanation
Indices: 79786253--79786305 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
79786243 AAATGAGAAT
*
79786253 CAAAATTAGAATCAGGTGA
1 CAAAATCAGAATCAGGTGA
* *
79786272 TACAATCAGAATCAGGTGA
1 CAAAATCAGAATCAGGTGA
79786291 CAAAATCAGAATCAG
1 CAAAATCAGAATCAG
79786306 TATCAGGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (19 bp):
CAAAATCAGAATCAGGTGA
Found at i:79786303 original size:25 final size:25
Alignment explanation
Indices: 79786275--79786333 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
79786265 CAGGTGATAC
*
79786275 AATCAGAATCAGGTGACAAAATCAG
1 AATCAGAATCAGGTAACAAAATCAG
* *
79786300 AATCAGTATCAGGTAACAGAATCAG
1 AATCAGAATCAGGTAACAAAATCAG
79786325 AATCAGAAT
1 AATCAGAAT
79786334 GTGAATACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGGTAACAAAATCAG
Found at i:79786488 original size:27 final size:26
Alignment explanation
Indices: 79786451--79786506 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
79786441 AACATGGCTG
*
79786451 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGACAGAGCCA
*
79786477 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGACAGAGCCA
79786504 CCA
1 CCA
79786507 AAATAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CCAGAACAAATATTGTGACAGAGCCA
Found at i:79787211 original size:27 final size:27
Alignment explanation
Indices: 79787181--79787517 Score: 295
Period size: 27 Copynumber: 13.0 Consensus size: 27
79787171 GGGGCAAAAT
* * *
79787181 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79787208 GGTAATTCTACCTTATAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79787235 GGT-A---TACCTTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
79787258 GGTAATTCTATCCTATAGGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79787285 AGTAATTCTACCCTATAAGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79787312 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79787339 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
79787366 GGTAATTCTACCCTAC-A-GG----T-
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79787386 --TAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79787411 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
79787438 AGTATTTCTACCCTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
79787465 GGTATTTCTACCCTACCGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
79787492 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
79787518 TAATAATTTT
Statistics
Matches: 255, Mismatches: 42, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
18 12 0.05
20 2 0.01
21 1 0.00
23 20 0.08
24 2 0.01
25 2 0.01
26 2 0.01
27 214 0.84
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:79787253 original size:23 final size:23
Alignment explanation
Indices: 79787216--79787261 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
79787206 TCGGTAATTC
79787216 TACCTTATAAAGGTATTTCGGTA
1 TACCTTATAAAGGTATTTCGGTA
79787239 TACCTTA-AAAGGGTATTTCGGTA
1 TACCTTATAAA-GGTATTTCGGTA
79787262 ATTCTATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (23 bp):
TACCTTATAAAGGTATTTCGGTA
Found at i:79787416 original size:99 final size:99
Alignment explanation
Indices: 79787287--79787480 Score: 325
Period size: 99 Copynumber: 2.0 Consensus size: 99
79787277 GGTATCTCAG
* * *
79787287 TAATTCTACCCTATAAGTGTATTTCGGTATTTCTACCTTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
79787352 TACAAGGGTATTTCGGTAATTCTACCCTACAGGT
66 TACAAGGGTATTTCGGTAATTCTACCCTACAGGT
* *
79787386 TAATTTTACCCTATAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
* *
79787451 TACAATGGTATTTCGGTATTTCTACCCTAC
66 TACAAGGGTATTTCGGTAATTCTACCCTAC
79787481 CGGGGTATTT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 88 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (99 bp):
TAATTCTACCCTATAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTCGGTAATTCTACCCTACAGGT
Found at i:79787425 original size:126 final size:126
Alignment explanation
Indices: 79787260--79787510 Score: 385
Period size: 126 Copynumber: 2.0 Consensus size: 126
79787250 GGTATTTCGG
* * * * *
79787260 TAATTCTATCCTATAGGGGTATCTCAGTAATTCTACCCTATAAGTGTATTTCGGTATTTCTACCT
1 TAATTCTACCCTATAGGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
*
79787325 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGT
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGT
* * *
79787386 TAATTTTACCCTATAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTATAGGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
* * **
79787451 TACAATGGTATTTCGGTATTTCTACCCTACCGGGGTATTTCAGTAATTCTACCCTACAGG
66 TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGG
79787511 GGTATTTTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
126 112 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (126 bp):
TAATTCTACCCTATAGGGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGT
Found at i:79787632 original size:53 final size:53
Alignment explanation
Indices: 79787548--79787795 Score: 275
Period size: 53 Copynumber: 4.7 Consensus size: 53
79787538 GGTAAAACGG
* * * * *
79787548 TAATTTTATAAATTGGGGGTACTTTGGTAATTTTACAAGTCGA-GGTATTTCAGA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAA-TCGACGGTATTTC-GA
* * * * * * * * *
79787602 -AGTTCTATAAATCAAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATC-GACGGTATTTCGA
*
79787655 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACAGTATTTCGA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGA
* *
79787708 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGATATTTCGG
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGA
* **
79787761 TAATTTTACAAATCGAGGATATTTGGGTAATTTTA
1 TAATTTTACAAATCGAGGGTATTTTAGTAATTTTA
79787796 TAAACCGGGG
Statistics
Matches: 164, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 124 0.76
54 39 0.24
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
TAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAATCGACGGTATTTCGA
Done.