Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 104 of 172
Found at i:30032723 original size:51 final size:51
Alignment explanation
Indices: 30032592--30032784 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
30032582 GAAAGTGATG
* *
30032592 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * * *
30032641 GGTCGCATGTGTCGTACTATGTGCAGGCTACTATGTGTACCGGATAGT-TTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * * *
30032692 GATCACGTGTGTAGTACTATGTGTAAGCTACTACGTGTATCGGATGGTAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * *
30032744 GTCACACGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
30032785 AACATCATTG
Statistics
Matches: 116, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 40 0.34
51 73 0.63
52 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
Found at i:30032837 original size:45 final size:45
Alignment explanation
Indices: 30032781--30032875 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
30032771 TACTATGTGA
* * * *
30032781 ACCGAACATCATTGATTAGTAAGGTGGTTGTTATGTGCTGATTCC
1 ACCGAACATCATTAATTAATAAAGTGGTTGCTATGTGCTGATTCC
* *
30032826 ACCGGACATCATTAATTAATAAAGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTAATTAATAAAGTGGTTGCTATGTGCTGATTCC
*
30032871 TCCGA
1 ACCGA
30032876 GTATCTGTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTAATTAATAAAGTGGTTGCTATGTGCTGATTCC
Found at i:30036148 original size:3 final size:3
Alignment explanation
Indices: 30036140--30036188 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
30036130 ATTTTTGTCT
*
30036140 TTA TTA TTA TTA TTA GTA TTA TT- TTA TTTA TTTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA
30036185 TTA T
1 TTA T
30036189 CATCAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 30 0.73
4 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30036186 original size:15 final size:15
Alignment explanation
Indices: 30036110--30036186 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 15
30036100 TCGTGTATTC
*
30036110 ATTT-TTATTTTTTT
1 ATTTATTATTATTTT
*
30036124 AATT-TTATT-TTTGT
1 ATTTATTATTATTT-T
*
30036138 CTTTATTATTATTATT
1 ATTTATTATTATT-TT
30036154 AGTATTATT-TTA-TTT
1 A-T-TTATTATTATTTT
30036169 ATTTATTATTATTTT
1 ATTTATTATTATTTT
30036184 ATT
1 ATT
30036187 ATCATCAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
13 8 0.16
14 15 0.29
15 14 0.27
16 4 0.08
17 5 0.10
18 5 0.10
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (15 bp):
ATTTATTATTATTTT
Found at i:30036313 original size:19 final size:18
Alignment explanation
Indices: 30036267--30036313 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
30036257 ATTGTCATTG
30036267 TTATTTTTTTGTTTTATTT
1 TTATTTTTTTG-TTTATTT
*
30036286 TTATATTTTTG-TTATTT
1 TTATTTTTTTGTTTATTT
30036303 TACTATTTTTT
1 T--TATTTTTT
30036314 ATTATTTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
19 17 0.71
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (18 bp):
TTATTTTTTTGTTTATTT
Found at i:30053559 original size:17 final size:17
Alignment explanation
Indices: 30053537--30053589 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
30053527 TAAAAAAAAG
30053537 ATTAATTTTGGATTGGA
1 ATTAATTTTGGATTGGA
30053554 ATTAATTGTT---TT---
1 ATTAATT-TTGGATTGGA
30053566 ATTAATTTTGGATTGGA
1 ATTAATTTTGGATTGGA
30053583 ATTAATT
1 ATTAATT
30053590 GTTTTACCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 2 0.07
12 7 0.24
14 2 0.07
15 2 0.07
17 14 0.48
18 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (17 bp):
ATTAATTTTGGATTGGA
Found at i:30053569 original size:29 final size:29
Alignment explanation
Indices: 30053537--30053595 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
30053527 TAAAAAAAAG
30053537 ATTAATTTTGGATTGGAATTAATTGTTTT
1 ATTAATTTTGGATTGGAATTAATTGTTTT
30053566 ATTAATTTTGGATTGGAATTAATTGTTTT
1 ATTAATTTTGGATTGGAATTAATTGTTTT
30053595 A
1 A
30053596 CCGATTCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (29 bp):
ATTAATTTTGGATTGGAATTAATTGTTTT
Found at i:30054893 original size:31 final size:29
Alignment explanation
Indices: 30054850--30054908 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
30054840 AGAATAGTTT
30054850 ATTAAATAAAAATAAAATAATATTTTTTGAA
1 ATTAAATAAAAATAAAA-AAT-TTTTTTGAA
*
30054881 ATTAAA-ACAAAATAATAAATTTTTTTGA
1 ATTAAATA-AAAATAAAAAATTTTTTTGA
30054909 CAATGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 4 0.15
31 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTAAATAAAAATAAAAAATTTTTTTGAA
Found at i:30054903 original size:27 final size:26
Alignment explanation
Indices: 30054853--30054904 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30054843 ATAGTTTATT
* *
30054853 AAATAAAAATAAAATAATATTTTTTG
1 AAATAAAAACAAAATAATAATTTTTG
*
30054879 AAATTAAAACAAAATAATAAATTTTT
1 AAATAAAAACAAAATAAT-AATTTTT
30054905 TTGACAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATAAAAACAAAATAATAATTTTTG
Found at i:30067298 original size:15 final size:15
Alignment explanation
Indices: 30067280--30067316 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
30067270 GACTCGACTC
30067280 GACTCGAAATTTTTT
1 GACTCGAAATTTTTT
*
30067295 GACTCTAAATTTTTT
1 GACTCGAAATTTTTT
30067310 GACTCGA
1 GACTCGA
30067317 TTCGAAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (15 bp):
GACTCGAAATTTTTT
Found at i:30071799 original size:7 final size:7
Alignment explanation
Indices: 30071787--30071813 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
30071777 AAAAAAACTT
30071787 ATAAATA
1 ATAAATA
30071794 ATAAATA
1 ATAAATA
30071801 ATAAATA
1 ATAAATA
30071808 ATAAAT
1 ATAAAT
30071814 TTTAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATAAATA
Found at i:30071923 original size:18 final size:18
Alignment explanation
Indices: 30071877--30071925 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
30071867 AATTAGTTTT
30071877 TTTTATAAAAATTGTAAAA
1 TTTTATAAAAA-TGTAAAA
** * *
30071896 AATAAAAAAAATGTAAAA
1 TTTTATAAAAATGTAAAA
30071914 TTTTATAAAAAT
1 TTTTATAAAAAT
30071926 AATAAAAAAT
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
TTTTATAAAAATGTAAAA
Found at i:30072242 original size:179 final size:176
Alignment explanation
Indices: 30071960--30072313 Score: 460
Period size: 179 Copynumber: 2.0 Consensus size: 176
30071950 AAAAATCCCT
* ** *
30071960 TTAACAATTAACTTTAACTATTGATGGTTAAAGTTAACGACCCCTAGTTTTTTCAATTAAAATCA
1 TTAACAATTAACTTTAACTATTAATCATTAAAGTTAACGACCCCTAGTTTTTTAAATTAAAATCA
** ** * * *
30072025 TTGCGTGTCGTAACACAACGTGACATGTGGCGAAAAATGATAAAAAAATCAATAAAAGTTATAGA
66 TCACGTGTCACAACACAACGTGACATGTAGCAAAAAATGAAAAAAAAATCAATAAAAGTTATAGA
* * *
30072090 AAAATTAT-AAAATGCTTCTTTGGTATGGTAATTTTTAT-AATTTTTTC
131 AAAATTATGAAAAT--TT-TTTGATACGATAATTTTTATAAATTTTTTC
* * *
30072137 TTAACAATTAACTTTAATTGTTAATCATTAAAGTTAAACGACCCCTAGTTTGTTTAAATTAAAGT
1 TTAACAATTAACTTTAACTATTAATCATTAAAGTT-AACGACCCCTAGTTT-TTTAAATTAAAAT
* * **
30072202 CATCATGTGTCACAACATAGTGTGACATGTAGCAAAAAATGAAAAAAAAATCAATAAAAGTTATA
64 CATCACGTGTCACAACACAACGTGACATGTAGCAAAAAATGAAAAAAAAATCAATAAAAGTTATA
30072267 GAAAAATTATGAAAATTTTTTGATACGATAATTTTTATAAATTTTTT
129 GAAAAATTATGAAAATTTTTTGATACGATAATTTTTATAAATTTTTT
30072314 TACGAAATTT
Statistics
Matches: 152, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
177 47 0.31
178 25 0.16
179 75 0.49
180 5 0.03
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (176 bp):
TTAACAATTAACTTTAACTATTAATCATTAAAGTTAACGACCCCTAGTTTTTTAAATTAAAATCA
TCACGTGTCACAACACAACGTGACATGTAGCAAAAAATGAAAAAAAAATCAATAAAAGTTATAGA
AAAATTATGAAAATTTTTTGATACGATAATTTTTATAAATTTTTTC
Found at i:30072392 original size:28 final size:28
Alignment explanation
Indices: 30072361--30072442 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 28
30072351 CTTACGACGT
*
30072361 TATAAAATTTA-ATATTTTTTTAT-ATTTC
1 TATAAAATTTACA-A-TCTTTTATGATTTC
* * *
30072389 TATATATTTTACAATCTTTTATGATTTT
1 TATAAAATTTACAATCTTTTATGATTTC
*
30072417 TATAAAATTTTACCAT-TTTTAT-ATTT
1 TATAAAA-TTTACAATCTTTTATGATTT
30072443 TTTTTCTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.25
28 25 0.57
29 8 0.18
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (28 bp):
TATAAAATTTACAATCTTTTATGATTTC
Found at i:30072445 original size:28 final size:26
Alignment explanation
Indices: 30072377--30072444 Score: 82
Period size: 28 Copynumber: 2.5 Consensus size: 26
30072367 ATTTAATATT
* *
30072377 TTTTTATATTTCTATATATTTTACAA
1 TTTTTATATTTTTATAAATTTTACAA
*
30072403 TCTTTTATGATTTTTATAAAATTTTACCA
1 T-TTTTAT-ATTTTTAT-AAATTTTACAA
30072432 TTTTTATATTTTT
1 TTTTTATATTTTT
30072445 TTTCTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.03
27 12 0.33
28 13 0.36
29 10 0.28
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTTATATTTTTATAAATTTTACAA
Found at i:30072522 original size:18 final size:17
Alignment explanation
Indices: 30072501--30072535 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30072491 TTTAATAATA
*
30072501 TTTATAGATTTTAATTTT
1 TTTATAAATTTT-ATTTT
30072519 TTTATAAATTTTATTTT
1 TTTATAAATTTTATTTT
30072536 CTAATTTTTA
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:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATAAATTTTATTTT
Found at i:30072706 original size:90 final size:88
Alignment explanation
Indices: 30072554--30072761 Score: 250
Period size: 90 Copynumber: 2.4 Consensus size: 88
30072544 TAATAAAATC
* *
30072554 AGGGGCTTAATTACTTTTTTTTTGAAAAAGTTTGAGTCTTTTTGATGCATTTTAAAAATTCAAGT
1 AGGGGCTTAATTACTTTTTTTTTGAAAAAGTTTGAGTCTTTTTAATGCATTTTAAAAATTCAAAT
*
30072619 ACCCAATTGAGTAAAAAAAAAGT
66 ACCCAAATGAGTAAAAAAAAAGT
* * * *
30072642 AGGGGCTTAATTGCTTCTTTTTTT-AAAAGGTTTGAGAGTCTTTTTAATGCATTTTGAAAGTTCA
1 AGGGGCTTAATTACTT-TTTTTTTGAAAAAGTTT--GAGTCTTTTTAATGCATTTTAAAAATTCA
* *
30072706 AATACCTAAATGAGT-GAAAAAAAG-
63 AATACCCAAATGAGTAAAAAAAAAGT
*
30072730 -GGAG-TTAATTAC--TTTTTTTGAAAAAGTTTGAG
1 AGGGGCTTAATTACTTTTTTTTTGAAAAAGTTTGAG
30072762 GGCTTTTTGC
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
82 3 0.03
83 7 0.07
84 8 0.08
86 7 0.07
87 3 0.03
88 23 0.22
89 15 0.14
90 38 0.37
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (88 bp):
AGGGGCTTAATTACTTTTTTTTTGAAAAAGTTTGAGTCTTTTTAATGCATTTTAAAAATTCAAAT
ACCCAAATGAGTAAAAAAAAAGT
Found at i:30074773 original size:27 final size:27
Alignment explanation
Indices: 30074743--30074804 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
30074733 CCTATCAGGT
30074743 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
30074770 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
30074797 AGGCGCCA
1 AGGCGCCA
30074805 TTACTAGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.29, C:0.23, G:0.34, T:0.15
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:30075012 original size:20 final size:21
Alignment explanation
Indices: 30074967--30075010 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
30074957 AATAAACACC
30074967 AAAAA-AT-TTTTAAAAATAA
1 AAAAATATATTTTAAAAATAA
30074986 AAAAATATATTTTAAAAATAA
1 AAAAATATATTTTAAAAATAA
30075007 AAAA
1 AAAA
30075011 TAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 16 0.70
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATATATTTTAAAAATAA
Found at i:30075298 original size:19 final size:19
Alignment explanation
Indices: 30075276--30075313 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
30075266 AATTTAATTT
*
30075276 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
30075295 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
30075314 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:30075444 original size:27 final size:27
Alignment explanation
Indices: 30075412--30075483 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
30075402 TACCGACATT
* *
30075412 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTACAAAATTA
30075439 CAATATTCATACAAAATTACAAAATTA
1 CAATATTCATACAAAATTACAAAATTA
*
30075466 CAATATTCATATAAAATT
1 CAATATTCATACAAAATT
30075484 GCAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
CAATATTCATACAAAATTACAAAATTA
Found at i:30075509 original size:7 final size:7
Alignment explanation
Indices: 30075497--30075521 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30075487 ATATTTTTTG
30075497 TTATTAA
1 TTATTAA
30075504 TTATTAA
1 TTATTAA
30075511 TTATTAA
1 TTATTAA
30075518 TTAT
1 TTAT
30075522 CTATATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATTAA
Found at i:30075556 original size:22 final size:24
Alignment explanation
Indices: 30075523--30075694 Score: 148
Period size: 27 Copynumber: 7.1 Consensus size: 24
30075513 ATTAATTATC
*
30075523 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
30075547 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
*
30075571 TATAATTTTGTATGAATATTGCAAT
1 TAT-ATTTTGTATGAATATTGTAAT
30075596 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
30075620 TATAATTTTGTATGAATATTGTAATGT
1 TAT-ATTTTGTATGAATATTGTAA--T
*
30075647 CGGTATATATTG--T-AATATTGTAA-
1 ---TATATTTTGTATGAATATTGTAAT
30075670 T-T-TTTTGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
30075692 TAT
1 TAT
30075695 TTTATAATTA
Statistics
Matches: 123, Mismatches: 5, Indels: 41
0.73 0.03 0.24
Matches are distributed among these distances:
18 4 0.03
19 1 0.01
20 2 0.02
21 10 0.08
22 33 0.27
23 4 0.03
24 8 0.07
25 6 0.05
26 12 0.10
27 35 0.28
29 5 0.04
30 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:30075585 original size:49 final size:49
Alignment explanation
Indices: 30075526--30075697 Score: 235
Period size: 49 Copynumber: 3.6 Consensus size: 49
30075516 AATTATCTAT
*
30075526 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
30075575 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* ** *
30075624 ATTTTGTATGAATATTGTAA--TGTCGGTAT--ATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
30075669 ATTTTTTGTATGAATATTGTAATTATTTT
1 A--TTTTGTATGAATATTGTAATTTTTTT
30075698 ATAATTAATT
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 16 0.15
47 25 0.23
49 67 0.62
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:30076030 original size:27 final size:28
Alignment explanation
Indices: 30075999--30076068 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
30075989 GGCCCATTTG
*
30075999 CGCCTCTCAGAAT-GGCACCACCATTGC
1 CGCCTCCCAGAATAGGCACCACCATTGC
* *
30076026 CGCCTCCCAG-GTAGGCACCACCATTGG
1 CGCCTCCCAGAATAGGCACCACCATTGC
30076053 CGCCTCCCAG-ATAGGC
1 CGCCTCCCAGAATAGGC
30076069 GCCAATACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.20, C:0.41, G:0.23, T:0.16
Consensus pattern (28 bp):
CGCCTCCCAGAATAGGCACCACCATTGC
Found at i:30080028 original size:33 final size:33
Alignment explanation
Indices: 30079991--30080056 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
30079981 TAAAATATTT
30079991 AAAATATTTTAATATAATTTTATATAAAAATAA
1 AAAATATTTTAATATAATTTTATATAAAAATAA
*
30080024 AAAATATTTTAATATACTTTTATATAAAAATAA
1 AAAATATTTTAATATAATTTTATATAAAAATAA
30080057 TTATATTAAG
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:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (33 bp):
AAAATATTTTAATATAATTTTATATAAAAATAA
Found at i:30080122 original size:26 final size:25
Alignment explanation
Indices: 30080093--30080191 Score: 89
Period size: 26 Copynumber: 3.9 Consensus size: 25
30080083 ATATTATTTT
30080093 TATTAAATTATATTTAATAATAATTA
1 TATTAAA-TATATTTAATAATAATTA
*
30080119 TATTAAAATATATTTAA-AATATTTTTA
1 TATT-AAATATATTTAATAATA--ATTA
**
30080146 TTATTAAATATAATTTAATAATAATCC
1 -TATTAAATAT-ATTTAATAATAATTA
30080173 TATT-AA-A-ATTTAATAATAA
1 TATTAAATATATTTAATAATAA
30080192 CAAACATCTA
Statistics
Matches: 63, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
22 12 0.19
24 1 0.02
25 6 0.10
26 17 0.27
27 13 0.21
28 10 0.16
29 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTAAATATATTTAATAATAATTA
Found at i:30080358 original size:16 final size:16
Alignment explanation
Indices: 30080337--30080371 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
30080327 CTAATTATTG
30080337 ATTACAACTCTATTCT
1 ATTACAACTCTATTCT
*
30080353 ATTACAACTCTATTTT
1 ATTACAACTCTATTCT
30080369 ATT
1 ATT
30080372 CCAATAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTACAACTCTATTCT
Found at i:30082802 original size:30 final size:30
Alignment explanation
Indices: 30082742--30082802 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
30082732 TTTATCATCT
* * **
30082742 AAAACTCGTGCTTTTTGAACTATTACCAAA
1 AAAACTCGTGCTTCTTGAACCAAAACCAAA
*
30082772 AAAACTCGTGCTTCTTGAACCAAAAGCAAA
1 AAAACTCGTGCTTCTTGAACCAAAACCAAA
30082802 A
1 A
30082803 GCTGTTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (30 bp):
AAAACTCGTGCTTCTTGAACCAAAACCAAA
Found at i:30088065 original size:2 final size:2
Alignment explanation
Indices: 30087974--30088050 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
30087964 CAATCAAAGA
30087974 TC TC TC TC TC TC TC 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 TC TC TC TC
30088016 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30088051 GTGTGTTTGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:30089827 original size:27 final size:27
Alignment explanation
Indices: 30089792--30089859 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
30089782 AAATAAAAAA
*
30089792 TTACTAAAATGT-TATACATTTTTTTAT
1 TTACTAAAATATATATA-ATTTTTTTAT
*
30089819 TTACTAAAAAATATATAATTTTTTTAT
1 TTACTAAAATATATATAATTTTTTTAT
30089846 TTACTAAAATATAT
1 TTACTAAAATATAT
30089860 CAAAAAAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 33 0.89
28 4 0.11
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (27 bp):
TTACTAAAATATATATAATTTTTTTAT
Found at i:30089890 original size:17 final size:18
Alignment explanation
Indices: 30089860--30089903 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
30089850 TAAAATATAT
*
30089860 CAAAAAAACCAAAAAA-A
1 CAAAAAAAACAAAAAAGA
*
30089877 CAAAAAAAATAAAAAAGA
1 CAAAAAAAACAAAAAAGA
*
30089895 GAAAAAAAA
1 CAAAAAAAA
30089904 AACCTGGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.84, C:0.09, G:0.05, T:0.02
Consensus pattern (18 bp):
CAAAAAAAACAAAAAAGA
Found at i:30089974 original size:27 final size:27
Alignment explanation
Indices: 30089944--30090012 Score: 138
Period size: 27 Copynumber: 2.6 Consensus size: 27
30089934 CAAGGGAACA
30089944 CTGTTGGCGGCACCAAACAAGGGTTCC
1 CTGTTGGCGGCACCAAACAAGGGTTCC
30089971 CTGTTGGCGGCACCAAACAAGGGTTCC
1 CTGTTGGCGGCACCAAACAAGGGTTCC
30089998 CTGTTGGCGGCACCA
1 CTGTTGGCGGCACCA
30090013 CTCGTGTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.19
Consensus pattern (27 bp):
CTGTTGGCGGCACCAAACAAGGGTTCC
Found at i:30090300 original size:3 final size:3
Alignment explanation
Indices: 30090292--30090326 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
30090282 AAAAATTTTA
30090292 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30090327 AGATGTTAGT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:30091090 original size:18 final size:18
Alignment explanation
Indices: 30091062--30091106 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
30091052 TTGATATGGT
*
30091062 TGGTGGTGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
*
30091080 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
30091098 TGGTGGCGA
1 TGGTGGCGA
30091107 TCATTGGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.49, T:0.18
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:30094325 original size:17 final size:17
Alignment explanation
Indices: 30094305--30094338 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30094295 TTTTTTTCCT
30094305 TTTTTTA-TTCTTTTTTG
1 TTTTTTACTT-TTTTTTG
30094322 TTTTTTACTTTTTTTTG
1 TTTTTTACTTTTTTTTG
30094339 AAATATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTTTACTTTTTTTTG
Found at i:30094399 original size:27 final size:27
Alignment explanation
Indices: 30094340--30094407 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 27
30094330 TTTTTTTTGA
30094340 AATATTTTGGTAAATAATAAAAATTAT
1 AATATTTTGGTAAATAATAAAAATTAT
* *
30094367 ATATATTTTGGTCAATAA-AAAAAGTTGT
1 A-ATATTTTGGTAAATAATAAAAA-TTAT
30094395 AATATTTTGGTAA
1 AATATTTTGGTAA
30094408 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 17 0.47
28 19 0.53
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.41
Consensus pattern (27 bp):
AATATTTTGGTAAATAATAAAAATTAT
Found at i:30095237 original size:23 final size:24
Alignment explanation
Indices: 30095202--30095330 Score: 97
Period size: 23 Copynumber: 5.5 Consensus size: 24
30095192 TTCTTTCCCT
*
30095202 CTTCTTCTTCTTTCTTTTTTTTTC
1 CTTCTTCTTCTTTCTTTTTCTTTC
* *
30095226 C-TCTTCTCCTTTCCTTTTCTTTC
1 CTTCTTCTTCTTTCTTTTTCTTTC
* * *
30095249 CTTCTTTTTCTTTC-TTTCCTCTC
1 CTTCTTCTTCTTTCTTTTTCTTTC
*
30095272 CTTTCCTT-TTCCTTCTTTTTCTTT-
1 C-TT-CTTCTTCTTTCTTTTTCTTTC
* * *
30095296 CTTCCT-TTCTTTCTTCTTCTTCC
1 CTTCTTCTTCTTTCTTTTTCTTTC
* *
30095319 CCTCTCCTTCTT
1 CTTCTTCTTCTT
30095331 CCCCCCACCA
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
22 15 0.18
23 33 0.40
24 25 0.30
25 9 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (24 bp):
CTTCTTCTTCTTTCTTTTTCTTTC
Found at i:30095249 original size:10 final size:10
Alignment explanation
Indices: 30095209--30095296 Score: 65
Period size: 10 Copynumber: 8.7 Consensus size: 10
30095199 CCTCTTCTTC
*
30095209 TTCTTTCTTT
1 TTCTTTCCTT
*
30095219 TTTTTTCCTCT
1 TTCTTTCCT-T
30095230 TCTCCTTTCCTT
1 T-T-CTTTCCTT
30095242 TTCTTTCCTT
1 TTCTTTCCTT
30095252 CTT-TTT-C-T
1 -TTCTTTCCTT
*
30095260 TTCTTTCCTC
1 TTCTTTCCTT
*
30095270 TCCTTTCCTT
1 TTCTTTCCTT
* *
30095280 TTCCTTCTTT
1 TTCTTTCCTT
30095290 TTCTTTC
1 TTCTTTC
30095297 TTCCTTTCTT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
7 2 0.03
8 4 0.07
9 2 0.03
10 39 0.64
11 5 0.08
12 3 0.05
13 6 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTTCCTT
Found at i:30095257 original size:33 final size:33
Alignment explanation
Indices: 30095209--30095313 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 33
30095199 CCTCTTCTTC
* *
30095209 TTCTTTCTTTTTTTTTCCTCTTCTCCTTTCCTT
1 TTCTTTCCTTCTTTTTCCTCTTCTCCTTTCCTT
* *
30095242 TTCTTTCCTTCTTTTTCTTTCTT-TCCTCTCCTT
1 TTCTTTCCTTCTTTTTC-CTCTTCTCCTTTCCTT
* *
30095275 TCCTTTTCCTTCTTTTT-CT-TTCTTCCTTTCTTT
1 TTC-TTTCCTTCTTTTTCCTCTTC-TCCTTTCCTT
30095308 CTTCTT
1 -TTCTT
30095314 CTTCCCCTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
31 2 0.03
32 1 0.02
33 36 0.62
34 19 0.33
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (33 bp):
TTCTTTCCTTCTTTTTCCTCTTCTCCTTTCCTT
Found at i:30095265 original size:28 final size:28
Alignment explanation
Indices: 30095234--30095313 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
30095224 TCCTCTTCTC
30095234 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
30095262 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
30095296 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
30095314 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:30095283 original size:34 final size:34
Alignment explanation
Indices: 30095227--30095299 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 34
30095217 TTTTTTTTCC
* *
30095227 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTT
1 TCTTCTCCTCTCCTTTCCTTTCCTTCTTTTTCTT
30095261 TCTT-TCCTCTCCTTTCCTTTTCCTTCTTTTTCTT
1 TCTTCTCCTCTCCTTTCC-TTTCCTTCTTTTTCTT
30095295 TCTTC
1 TCTTC
30095300 CTTTCTTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 11 0.31
34 24 0.69
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (34 bp):
TCTTCTCCTCTCCTTTCCTTTCCTTCTTTTTCTT
Found at i:30095297 original size:10 final size:10
Alignment explanation
Indices: 30095203--30095316 Score: 54
Period size: 10 Copynumber: 11.1 Consensus size: 10
30095193 TCTTTCCCTC
*
30095203 TTCTTCTTCT
1 TTCTTTTTCT
*
30095213 TTCTTTTTTT
1 TTCTTTTTCT
*
30095223 TTCCTCTTCTCCT
1 TT-CT-TT-TTCT
*
30095236 TTCCTTTTCT
1 TTCTTTTTCT
*
30095246 TTC--CTTCT
1 TTCTTTTTCT
30095254 TT-TTCTTTCT
1 TTCTT-TTTCT
* * *
30095264 TTCCTCTCCT
1 TTCTTTTTCT
* *
30095274 TTCCTTTTCC
1 TTCTTTTTCT
30095284 TTCTTTTTCT
1 TTCTTTTTCT
30095294 TTCTTCCTTTCT
1 TTCTT--TTTCT
*
30095306 TTCTTCTTCT
1 TTCTTTTTCT
30095316 T
1 T
30095317 CCCCTCTCCT
Statistics
Matches: 78, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
8 6 0.08
10 50 0.64
11 5 0.06
12 13 0.17
13 4 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:30095304 original size:38 final size:38
Alignment explanation
Indices: 30095230--30095304 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
30095220 TTTTTCCTCT
* *
30095230 TCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCCTTCCTTCTTTTTCTTCCTTTCC
*
30095268 TCTCCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 TCTCCTTTCCTTTTCCTTCCTTCTT-TTTCTTCCTTTC
30095305 TTTCTTCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 5 0.15
38 28 0.85
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (38 bp):
TCTCCTTTCCTTTTCCTTCCTTCTTTTTCTTCCTTTCC
Found at i:30095309 original size:22 final size:23
Alignment explanation
Indices: 30095274--30095316 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
30095264 TTCCTCTCCT
*
30095274 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
30095297 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
30095317 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:30095314 original size:28 final size:30
Alignment explanation
Indices: 30095227--30095317 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 30
30095217 TTTTTTTTCC
*
30095227 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTT
1 TCTT-TCC-TTCC-TTTCTTT-CTTCTTCTTCTT
*
30095261 TCTTTCCTCTCCTTTCCTTT-TCCTTCTT-TT
1 TCTTTCCT-TCCTTT-CTTTCTTCTTCTTCTT
30095291 TCTTT-CTTCCTTTCTTTCTTCTTCTTC
1 TCTTTCCTTCCTTTCTTTCTTCTTCTTC
30095318 CCCTCTCCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
27 4 0.08
28 13 0.26
29 2 0.04
30 7 0.14
31 6 0.12
32 4 0.08
33 10 0.20
34 4 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (30 bp):
TCTTTCCTTCCTTTCTTTCTTCTTCTTCTT
Found at i:30095327 original size:42 final size:40
Alignment explanation
Indices: 30095250--30095330 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 40
30095240 TTTTCTTTCC
* * *
30095250 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTT
1 TTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT
* *
30095290 TTCTTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTCTTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
30095331 CCCCCCACCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 6 0.18
41 2 0.06
42 26 0.76
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTCTTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT
Found at i:30095395 original size:27 final size:27
Alignment explanation
Indices: 30095365--30095432 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
30095355 ATATTTAAGG
30095365 TGGTGCCGCCAACAAGGAATCCTTGTT
1 TGGTGCCGCCAACAAGGAATCCTTGTT
**
30095392 TGGTGCCGCCAACAAGGTTTCCTTGTT
1 TGGTGCCGCCAACAAGGAATCCTTGTT
30095419 TGGTGCCGCCAACA
1 TGGTGCCGCCAACA
30095433 GTGTTCCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAATCCTTGTT
Found at i:30095442 original size:27 final size:27
Alignment explanation
Indices: 30095365--30095443 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
30095355 ATATTTAAGG
*
30095365 TGGTGCCGCCAACAAGGAAT-CCTTGTT
1 TGGTGCCGCCAACAAGG-TTCCCTTGTT
*
30095392 TGGTGCCGCCAACAAGGTTTCCTTGTT
1 TGGTGCCGCCAACAAGGTTCCCTTGTT
30095419 TGGTGCCGCCAAC-AGTGTTCCCTTG
1 TGGTGCCGCCAACAAG-GTTCCCTTG
30095444 ACCAAGGGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.06
27 45 0.94
ACGTcount: A:0.16, C:0.28, G:0.27, T:0.29
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGTTCCCTTGTT
Found at i:30095542 original size:24 final size:24
Alignment explanation
Indices: 30095515--30095565 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
30095505 TATTGGTAAA
*
30095515 TAAAAAAAAT-TATATATATTTTGG
1 TAAAAAAAATGTATA-ACATTTTGG
30095539 TAAAAAAAATGTATAACATTTTGG
1 TAAAAAAAATGTATAACATTTTGG
30095563 TAA
1 TAA
30095566 TTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (24 bp):
TAAAAAAAATGTATAACATTTTGG
Found at i:30098845 original size:83 final size:83
Alignment explanation
Indices: 30098706--30098871 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
30098696 TTCACCACTT
*
30098706 AAGGTTTGTGTGATTGAAGTTGCAGATTTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
1 AAGGTTTGTGTGATTGAAGTTGCAGATGTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
30098771 AAGAGTTAGCTGTACCAG
66 AAGAGTTAGCTGTACCAG
*
30098789 AAGGTTTGTGTGATTGAAGTTGCAGATGTAATAGTTTCCTGCAAATATAAAGCAGGTCATCTTAA
1 AAGGTTTGTGTGATTGAAGTTGCAGATGTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
30098854 AAGAGTTAGCTGTACCAG
66 AAGAGTTAGCTGTACCAG
30098872 CAAAGTCAGT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (83 bp):
AAGGTTTGTGTGATTGAAGTTGCAGATGTAATAGCTTCCTGCAAATATAAAGCAGGTCATCTTAA
AAGAGTTAGCTGTACCAG
Found at i:30106001 original size:23 final size:23
Alignment explanation
Indices: 30105974--30106022 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
30105964 TTTTTTTTTC
30105974 TTCGGTTTAATCAATTCAATCCA
1 TTCGGTTTAATCAATTCAATCCA
* *
30105997 TTCGGTTTGATCAATTCAATCGA
1 TTCGGTTTAATCAATTCAATCCA
30106020 TTC
1 TTC
30106023 AATTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (23 bp):
TTCGGTTTAATCAATTCAATCCA
Found at i:30119826 original size:49 final size:49
Alignment explanation
Indices: 30119771--30119965 Score: 309
Period size: 49 Copynumber: 4.0 Consensus size: 49
30119761 TTCGTTTTCT
* * *
30119771 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
30119820 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
30119869 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
30119918 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
30119966 GTTCACATGT
Statistics
Matches: 137, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 131 0.96
50 6 0.04
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:30121279 original size:37 final size:37
Alignment explanation
Indices: 30121218--30121363 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
30121208 TACGTATGAT
* *
30121218 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
30121253 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
30121290 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
30121327 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
30121364 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:30121380 original size:46 final size:46
Alignment explanation
Indices: 30121327--30121595 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
30121317 TAAGTGTAGC
* **
30121327 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
30121373 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
30121419 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30121471 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30121523 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
30121569 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30121596 AGTACTAAAT
Statistics
Matches: 207, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
46 112 0.54
49 1 0.00
50 1 0.00
51 3 0.01
52 90 0.43
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:30121446 original size:52 final size:52
Alignment explanation
Indices: 30121370--30121589 Score: 326
Period size: 52 Copynumber: 4.3 Consensus size: 52
30121360 TAGCTAAAGC
* *
30121370 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
30121423 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
30121475 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
30121527 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
30121573 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
30121590 ATCAGAAGTA
Statistics
Matches: 152, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
46 43 0.28
50 1 0.01
52 93 0.61
53 15 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:30121538 original size:98 final size:94
Alignment explanation
Indices: 30121327--30121595 Score: 348
Period size: 98 Copynumber: 2.8 Consensus size: 94
30121317 TAAGTGTAGC
* ** *
30121327 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--TTTGTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
30121390 CTTGATCAGATAAGTATAGCCGAAGCTAT
66 CTTGATCAGATAAGTATAGCCGAAGCTAT
30121419 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
* *
30121484 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 ----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* *
30121523 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC--TTTATCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
30121586 CTTGATCAGA
66 CTTGATCAGA
30121596 AGTACTAAAT
Statistics
Matches: 157, Mismatches: 8, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
92 25 0.16
95 1 0.01
96 1 0.01
98 86 0.55
100 1 0.01
101 1 0.01
104 42 0.27
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (94 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTTGTCA
CTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:30124052 original size:27 final size:27
Alignment explanation
Indices: 30124014--30124401 Score: 419
Period size: 27 Copynumber: 14.3 Consensus size: 27
30124004 TGCGATTCGT
30124014 GGTAAAATGACTGAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
30124041 GGTAAAATGACTAAAATACCCTTGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
30124068 GGTAAAATGA-TCGAAATACCCTCGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
* * * * * *
30124095 GGTAATACGATTGAAATTCCATTGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
** *
30124122 GGTAAAATGACCAAAATACCCTCAAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
*
30124149 GGTAAAATTA-TCGAAATACCCTCGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
*
30124176 GGTAAAATGACTAAAATACCCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* * *
30124203 GGTAAAATAACTAAAATACCCATCAAAG
1 GGTAAAATGACTGAAATACCC-TCGAAG
*
30124231 GGTAAAATGACTGAAATACGCTCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
* *
30124258 GGTAAAATTA-TCGAAATACCCTCAAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
30124285 GGTTAAATTACTGAAATACCC-CTGAAG
1 GGTAAAATGACTGAAATACCCTC-GAAG
* *
30124312 AGTAAAATTA-TCGAAATACCCTCGAAG
1 GGTAAAATGACT-GAAATACCCTCGAAG
* *
30124339 GGTAAAATTAC-GAAAATACCTTCGAAG
1 GGTAAAATGACTG-AAATACCCTCGAAG
* * *
30124366 GGTAAAATTACCGAAATACCCCCGAAG
1 GGTAAAATGACTGAAATACCCTCGAAG
30124393 GGTAAAATG
1 GGTAAAATG
30124402 GCTGTTATAC
Statistics
Matches: 306, Mismatches: 42, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.02
27 273 0.89
28 28 0.09
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCTCGAAG
Found at i:30131404 original size:15 final size:15
Alignment explanation
Indices: 30131384--30131412 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30131374 TAGCCATGGG
30131384 ATGTCACGACACACT
1 ATGTCACGACACACT
30131399 ATGTCACGACACAC
1 ATGTCACGACACAC
30131413 CCCTAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (15 bp):
ATGTCACGACACACT
Found at i:30135083 original size:22 final size:22
Alignment explanation
Indices: 30135047--30135100 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30135037 CTCTCTCACA
* *
30135047 TTTCTTTATTC-TTTTCTTGTT
1 TTTCTTTTTTCTTTTTCTAGTT
*
30135068 CTTTCTTTTTTGTTTTTCTAGTT
1 -TTTCTTTTTTCTTTTTCTAGTT
30135091 TTCTCTTTTT
1 TT-TCTTTTT
30135101 GGCCATCGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.04, C:0.15, G:0.06, T:0.76
Consensus pattern (22 bp):
TTTCTTTTTTCTTTTTCTAGTT
Found at i:30135947 original size:6 final size:6
Alignment explanation
Indices: 30135936--30135986 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
30135926 ATCTTTATTA
* * * * *
30135936 GTATCT GTATCT GTATTT GTATTT GTATTT GTATTT GTATCT ATATCT
1 GTATCT GTATCT GTATCT GTATCT GTATCT GTATCT GTATCT GTATCT
30135984 GTA
1 GTA
30135987 ACTCATCTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.57
Consensus pattern (6 bp):
GTATCT
Found at i:30135986 original size:18 final size:18
Alignment explanation
Indices: 30135926--30135986 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
30135916 CAGTATATGC
* *
30135926 ATCTTTATTAGTATCTGT
1 ATCTGTATTTGTATCTGT
*
30135944 ATCTGTATTTGTATTTGT
1 ATCTGTATTTGTATCTGT
* *
30135962 ATTTGTATTTGTATCTAT
1 ATCTGTATTTGTATCTGT
30135980 ATCTGTA
1 ATCTGTA
30135987 ACTCATCTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.57
Consensus pattern (18 bp):
ATCTGTATTTGTATCTGT
Found at i:30137303 original size:21 final size:22
Alignment explanation
Indices: 30137273--30137319 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
30137263 TTGAATGTAT
* *
30137273 AAAAGCAAAATGAGTACAAAGA
1 AAAAGCAAAAGGAGTAAAAAGA
*
30137295 AAAAG-AAAAGGTGTAAAAAGA
1 AAAAGCAAAAGGAGTAAAAAGA
30137316 AAAA
1 AAAA
30137320 AAACAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.68, C:0.04, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAGCAAAAGGAGTAAAAAGA
Found at i:30145233 original size:14 final size:14
Alignment explanation
Indices: 30145214--30145240 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30145204 ATTAGCATTA
30145214 CATTTCATTACATG
1 CATTTCATTACATG
30145228 CATTTCATTACAT
1 CATTTCATTACAT
30145241 AAAAAGTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.44
Consensus pattern (14 bp):
CATTTCATTACATG
Found at i:30146747 original size:32 final size:32
Alignment explanation
Indices: 30146708--30146775 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
30146698 GCCTTGCCTG
30146708 GAAGAGGAAGGAACTGGAAAAGAAGCACGAAA
1 GAAGAGGAAGGAACTGGAAAAGAAGCACGAAA
* * *
30146740 GAAGAGGAAGGAATTGGAAAATAAGCACTAAA
1 GAAGAGGAAGGAACTGGAAAAGAAGCACGAAA
30146772 GAAG
1 GAAG
30146776 GAAAACACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.53, C:0.07, G:0.32, T:0.07
Consensus pattern (32 bp):
GAAGAGGAAGGAACTGGAAAAGAAGCACGAAA
Found at i:30147844 original size:7 final size:7
Alignment explanation
Indices: 30147815--30147860 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
30147805 GATATAACCA
30147815 TTTA-TT
1 TTTATTT
30147821 TTTATTTT
1 TTTA-TTT
*
30147829 TATTCTTT
1 T-TTATTT
30147837 TTTATTT
1 TTTATTT
30147844 TTTATTT
1 TTTATTT
30147851 TTTATTT
1 TTTATTT
30147858 TTT
1 TTT
30147861 TCTTTCTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 4 0.11
7 22 0.63
8 7 0.20
9 2 0.06
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTATTT
Found at i:30155320 original size:46 final size:45
Alignment explanation
Indices: 30155210--30155397 Score: 153
Period size: 46 Copynumber: 4.1 Consensus size: 45
30155200 TTAGGAACAT
* * * * *
30155210 GGAACCTATTTCTGTGTTCTCGAGTCCACAACGTATGTAGGAGCTC
1 GGAACCTAATT-TGTATTCTCGAGTCCGCAACGTATGCAAGAGCTC
** * *
30155256 AAAACCTAATCCTATATTCTCGAGTCCGCAACGTATGCAAGAGCTC
1 GGAACCTAAT-TTGTATTCTCGAGTCCGCAACGTATGCAAGAGCTC
* * * * *
30155302 GGAACCTAATATTGTATTCTCAAGTCTGCAACATATGCAAGAGTTT
1 GGAACCTAAT-TTGTATTCTCGAGTCCGCAACGTATGCAAGAGCTC
* * * * * *
30155348 GGAACCT-ATTCGATATTCTCGAGTCTGCAATGTACGTAAGAGCTT
1 GGAACCTAATTTG-TATTCTCGAGTCCGCAACGTATGCAAGAGCTC
30155393 GGAAC
1 GGAAC
30155398 TTGGGCAAAG
Statistics
Matches: 114, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
44 2 0.02
45 33 0.29
46 79 0.69
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (45 bp):
GGAACCTAATTTGTATTCTCGAGTCCGCAACGTATGCAAGAGCTC
Found at i:30155389 original size:45 final size:47
Alignment explanation
Indices: 30155269--30155397 Score: 156
Period size: 46 Copynumber: 2.8 Consensus size: 47
30155259 ACCTAATCCT
* * *
30155269 ATATTCTCGAGTCCGCAACGTATGCAAGAGCTCGGAACCTAATATTG
1 ATATTCTCGAGTCTGCAACGTATGCAAGAGCTTGGAACCTAATATCG
* * *
30155316 -TATTCTCAAGTCTGCAACATATGCAAGAGTTTGGAACCT-AT-TCG
1 ATATTCTCGAGTCTGCAACGTATGCAAGAGCTTGGAACCTAATATCG
* * *
30155360 ATATTCTCGAGTCTGCAATGTACGTAAGAGCTTGGAAC
1 ATATTCTCGAGTCTGCAACGTATGCAAGAGCTTGGAAC
30155398 TTGGGCAAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 2 0.03
45 33 0.48
46 34 0.49
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
ATATTCTCGAGTCTGCAACGTATGCAAGAGCTTGGAACCTAATATCG
Found at i:30163989 original size:27 final size:27
Alignment explanation
Indices: 30163958--30164235 Score: 285
Period size: 27 Copynumber: 10.3 Consensus size: 27
30163948 AGAGGTCAAT
30163958 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
30163985 AAATGACTGAAATACGCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
**
30164012 AAATGA-TCGAAATACCCCTGTAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
* * *
30164039 AAATGATTGGAATACCGCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
30164066 AAATGACCGAAATACCGCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* ** * * *
30164093 AAATAACCAAAATACCTCCACAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * * *
30164120 AAATGA-TCATATTACTCCCATAAGGTA
1 AAATGACTGA-AATACCCCCATAGGGTA
* * *
30164147 AAATGACCGTATTACCCCCA-ATGGGTA
1 AAATGACTGAAATACCCCCATA-GGGTA
* *
30164174 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
*
30164201 AAATGACCGAAATA-CCCCATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
30164227 AAATGACTG
1 AAATGACTG
30164236 TTATACCCTT
Statistics
Matches: 212, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.10
27 188 0.89
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:30166184 original size:43 final size:42
Alignment explanation
Indices: 30166118--30166265 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 42
30166108 TATCTCAAAT
* * *
30166118 ATGGTCTTACATGTAATCTCATATCGATGCCAATAGCCCAGCC
1 ATGGTCTTACACGAAATCTCATATCGATGCC-ATAGCCCAGAC
* *
30166161 ATGGTCTTACACGAAATCACATATCGATGCCGAT-GTCCCAAAC
1 ATGGTCTTACACGAAATCTCATATCGATGCC-ATAG-CCCAGAC
* * * * *
30166204 ATGGTCTTACACGAAGTTTCATATCGATGTCATATCCCAGAT
1 ATGGTCTTACACGAAATCTCATATCGATGCCATAGCCCAGAC
*
30166246 ATGGTCTTACACGTAATCTC
1 ATGGTCTTACACGAAATCTC
30166266 GGTAAACCTA
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 25 0.29
43 62 0.71
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATATCGATGCCATAGCCCAGAC
Found at i:30170904 original size:3 final size:3
Alignment explanation
Indices: 30170898--30170935 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30170888 AAACTACTAT
30170898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30170936 TTGCTAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:30172157 original size:17 final size:17
Alignment explanation
Indices: 30172135--30172174 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
30172125 ATAAATTATT
30172135 TTTGGGCTT-GTTGGGTA
1 TTTGGGCTTGGTT-GGTA
30172152 TTTGGGCTTGGTTGGTA
1 TTTGGGCTTGGTTGGTA
30172169 TTTGGG
1 TTTGGG
30172175 TTAGGCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.05, C:0.05, G:0.42, T:0.47
Consensus pattern (17 bp):
TTTGGGCTTGGTTGGTA
Found at i:30172360 original size:29 final size:30
Alignment explanation
Indices: 30172311--30172370 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
30172301 AGTATAAGGT
30172311 TTAAATTTTTAAAAATAAAAG-TATAAAAA
1 TTAAATTTTTAAAAATAAAAGATATAAAAA
**
30172340 TTAAA-TTTTAAATTTATAAAGAATATAAAAA
1 TTAAATTTTTAAAAATA-AAAG-ATATAAAAA
30172371 CTTATCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 9 0.35
29 9 0.35
31 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
TTAAATTTTTAAAAATAAAAGATATAAAAA
Found at i:30183119 original size:37 final size:37
Alignment explanation
Indices: 30183058--30183241 Score: 291
Period size: 37 Copynumber: 5.0 Consensus size: 37
30183048 TACGTATGAT
*
30183058 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
30183093 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
30183130 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
30183167 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
30183204 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
30183241 C
1 C
30183242 GAAGCTATTA
Statistics
Matches: 138, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
35 9 0.07
36 4 0.03
37 125 0.91
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:30183256 original size:46 final size:46
Alignment explanation
Indices: 30183204--30183328 Score: 151
Period size: 52 Copynumber: 2.6 Consensus size: 46
30183194 TAAGTGTAGT
* *
30183204 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAC
* * *
30183250 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAC
30183302 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30183329 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
46 25 0.37
48 1 0.01
50 1 0.01
52 40 0.60
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAC
Found at i:30183272 original size:52 final size:52
Alignment explanation
Indices: 30183215--30183314 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
30183205 ACTTATCACT
* **
30183215 TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACTTATCACTTTCCAC
* *
30183267 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 TTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACTTATCACTTT
30183315 GTCACTTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACTTATCACTTTCCAC
Found at i:30192980 original size:44 final size:44
Alignment explanation
Indices: 30192929--30193277 Score: 179
Period size: 44 Copynumber: 7.5 Consensus size: 44
30192919 AAGCCACATG
*
30192929 TCTTATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * * * * *
30192973 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG-GAG-GA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAA-GCTAGTAA
* * * * * *
30193017 TTTTATCTCTCTGA-AGTTACAATAGAGTAGATCGCATTAGATGGAAGCCAGAAA
1 TCTTATCTCCCTGAGA-TTAC---AGCG--GA--GC---AGATTGAAGCTAGTAA
30193071 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * *** **
30193115 TCCTATCTCCCTGAGATTACAGTGGAATGGATT-AAAATAG-AGGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTA--A
* * * **
30193159 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCACGTCAGATTGAAGCCAAAAA
1 TCTTATCTCCCTGAGA-TTAC---AGCG--G---A-G-CAGATTGAAGCTAGTAA
30193213 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* *
30193257 TCCTATCTCCTTGAGATTACA
1 TCTTATCTCCCTGAGATTACA
30193278 ATGGAGCGGG
Statistics
Matches: 227, Mismatches: 46, Indels: 64
0.67 0.14 0.19
Matches are distributed among these distances:
42 1 0.00
43 7 0.03
44 136 0.60
45 5 0.02
46 2 0.01
47 8 0.04
49 6 0.03
51 8 0.04
52 2 0.01
53 4 0.02
54 42 0.19
55 5 0.02
56 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
Found at i:30193175 original size:142 final size:142
Alignment explanation
Indices: 30192929--30193340 Score: 662
Period size: 142 Copynumber: 2.9 Consensus size: 142
30192919 AAGCCACATG
*
30192929 TCTTATCTCCATGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
30192994 GTGGAGCGGATTAAAATGGAGGATTTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATTAGAT
66 GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGAT
*
30193059 GGAAGCCAGAAA
131 GGAAGCCAAAAA
30193071 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
** * * *
30193136 GTGGAATGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACGTCAGAT
66 GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGAT
*
30193201 TGAAGCCAAAAA
131 GGAAGCCAAAAA
*
30193213 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * * * * *
30193278 ATGGAGCGGGTTAAAATAAAGGATCTTATCTCTCTGAACTTATAGCAGAGTAGATCGCATTAG
66 GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAG
30193341 GTCTTATCTC
Statistics
Matches: 247, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 247 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAGAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGAT
GGAAGCCAAAAA
Found at i:30197090 original size:20 final size:19
Alignment explanation
Indices: 30197065--30197103 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30197055 TCTACTATAC
30197065 TTACATATGTAATTTAATTT
1 TTACAT-TGTAATTTAATTT
* *
30197085 TTACATTTTAATTTCATTT
1 TTACATTGTAATTTAATTT
30197104 AATTTGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (19 bp):
TTACATTGTAATTTAATTT
Found at i:30197357 original size:50 final size:50
Alignment explanation
Indices: 30197301--30197406 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 50
30197291 CTTGAATTAA
*
30197301 TTAATAATATTACGAACATAGAAGAATCAAATCATATTAAATTGCGAAGG
1 TTAATAATATTACGAAAATAGAAGAATCAAATCATATTAAATTGCGAAGG
30197351 TTAATAATATTACGAAAATAGAAGAATCAAATCATATTAAATTGCGAAGG
1 TTAATAATATTACGAAAATAGAAGAATCAAATCATATTAAATTGCGAAGG
30197401 TTAATA
1 TTAATA
30197407 GGCTTTGTTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.29
Consensus pattern (50 bp):
TTAATAATATTACGAAAATAGAAGAATCAAATCATATTAAATTGCGAAGG
Found at i:30197387 original size:27 final size:27
Alignment explanation
Indices: 30197307--30197389 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
30197297 TTAATTAATA
*
30197307 ATATTACGAACATAGAAGAATCAAATC
1 ATATTACGAAAATAGAAGAATCAAATC
* * * * *
30197334 ATATT---AAATTGCGAAG-GT-TAATA
1 ATATTACGAAAAT-AGAAGAATCAAATC
30197357 ATATTACGAAAATAGAAGAATCAAATC
1 ATATTACGAAAATAGAAGAATCAAATC
30197384 ATATTA
1 ATATTA
30197390 AATTGCGAAG
Statistics
Matches: 39, Mismatches: 11, Indels: 12
0.63 0.18 0.19
Matches are distributed among these distances:
23 8 0.21
24 4 0.10
25 8 0.21
26 5 0.13
27 14 0.36
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.28
Consensus pattern (27 bp):
ATATTACGAAAATAGAAGAATCAAATC
Found at i:30199383 original size:21 final size:21
Alignment explanation
Indices: 30199337--30199384 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30199327 CACAACATCT
* *
30199337 AAATATATATATATTTTATAC
1 AAATATACATATATTTTATAA
*
30199358 TAATATAACATATATTTTA-AA
1 AAATAT-ACATATATTTTATAA
30199379 AAATAT
1 AAATAT
30199385 GGATGAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATACATATATTTTATAA
Found at i:30199897 original size:23 final size:22
Alignment explanation
Indices: 30199863--30199910 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
30199853 ATCTGTTAAC
30199863 AAAAATTACAAAATAATAATTTTA
1 AAAAATTACAAAATAAT--TTTTA
30199887 AAAAATT-CAAAATAATTTTTA
1 AAAAATTACAAAATAATTTTTA
30199908 AAA
1 AAA
30199911 TTTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.33
23 9 0.38
24 7 0.29
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATTACAAAATAATTTTTA
Found at i:30199902 original size:20 final size:20
Alignment explanation
Indices: 30199877--30199929 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
30199867 ATTACAAAAT
30199877 AATAATTTTAAAAAATTCAA
1 AATAATTTTAAAAAATTCAA
* *
30199897 AATAATTTT-TAAAATTTAA
1 AATAATTTTAAAAAATTCAA
30199916 AAT-ATTTATAAAAA
1 AATAATTT-TAAAAA
30199930 TCAAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 12 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAATTTTAAAAAATTCAA
Found at i:30199912 original size:19 final size:19
Alignment explanation
Indices: 30199877--30199936 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
30199867 ATTACAAAAT
*
30199877 AATAATTTTAAAAAATTCAA
1 AATAATTTT-TAAAATTCAA
*
30199897 AATAATTTTTAAAATTTAA
1 AATAATTTTTAAAATTCAA
* *
30199916 AAT-ATTTATAAAAATCAA
1 AATAATTTTTAAAATTCAA
30199934 AAT
1 AAT
30199937 TTTATATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.43
19 11 0.31
20 9 0.26
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAATTTTTAAAATTCAA
Found at i:30199927 original size:18 final size:18
Alignment explanation
Indices: 30199883--30199964 Score: 62
Period size: 18 Copynumber: 4.7 Consensus size: 18
30199873 AAATAATAAT
* *
30199883 TTTAAAAAATTCAAAATAA
1 TTTATAAAATTTAAAAT-A
*
30199902 TTTTTAAAATTTAAAATA
1 TTTATAAAATTTAAAATA
* *
30199920 TTTATAAAAATCAAAAT-
1 TTTATAAAATTTAAAATA
**
30199937 TTTAT-ATTTTTAAAA-A
1 TTTATAAAATTTAAAATA
*
30199953 ATTATAAAATTT
1 TTTATAAAATTT
30199965 TTCAAACAAT
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
16 10 0.21
17 9 0.19
18 15 0.31
19 14 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATAAAATTTAAAATA
Found at i:30199975 original size:20 final size:19
Alignment explanation
Indices: 30199942--30199980 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
30199932 AAAATTTTAT
30199942 ATTTTTAAAAAATTATAAA
1 ATTTTTAAAAAATTATAAA
* *
30199961 ATTTTTCAAACAATTCTAAA
1 ATTTTT-AAAAAATTATAAA
30199981 GAATACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTTTAAAAAATTATAAA
Found at i:30205164 original size:34 final size:35
Alignment explanation
Indices: 30205097--30205218 Score: 131
Period size: 35 Copynumber: 3.5 Consensus size: 35
30205087 TAAAGAGTGT
30205097 GCCCAGCACTAGTCAGATAAACTGACAGAAGTTGC
1 GCCCAGCACTAGTCAGATAAACTGACAGAAGTTGC
* * *
30205132 GCCCAGCGCTAGTCGGAT-AACTGAC-GATAGTTGT
1 GCCCAGCACTAGTCAGATAAACTGACAGA-AGTTGC
* * * * *
30205166 GCCCAGTACTAATCAGATAAATTGACAAAAATTGC
1 GCCCAGCACTAGTCAGATAAACTGACAGAAGTTGC
**
30205201 GCCCAGTGCTAGTCAGAT
1 GCCCAGCACTAGTCAGAT
30205219 GAATCGACAA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
33 2 0.03
34 26 0.37
35 42 0.59
36 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (35 bp):
GCCCAGCACTAGTCAGATAAACTGACAGAAGTTGC
Found at i:30205298 original size:20 final size:21
Alignment explanation
Indices: 30205258--30205306 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
30205248 AGTCCATAAA
30205258 ATCACATTTCATAACCTCAAT
1 ATCACATTTCATAACCTCAAT
30205279 ATCACATTTCATAA-CTCAAT
1 ATCACATTTCATAACCTCAAT
30205299 ATCACATT
1 ATCACATT
30205307 CACTTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.35
Consensus pattern (21 bp):
ATCACATTTCATAACCTCAAT
Found at i:30212458 original size:22 final size:22
Alignment explanation
Indices: 30212428--30212479 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
30212418 AATGGCTAAG
* * *
30212428 AGCCGTAAATAGGATAGCTATA
1 AGCCATAAATAGAATAGCTACA
* *
30212450 AGCTATAAATAGAATGGCTACA
1 AGCCATAAATAGAATAGCTACA
30212472 AGCCATAA
1 AGCCATAA
30212480 GTACAATAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (22 bp):
AGCCATAAATAGAATAGCTACA
Found at i:30212534 original size:32 final size:32
Alignment explanation
Indices: 30212486--30212558 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
30212476 ATAAGTACAA
* *
30212486 TAATATGATTGGCACAAAGCCATCAGTAATAG
1 TAATATGATCGACACAAAGCCATCAGTAATAG
* *
30212518 TAGTATGATCGACACAAAGCCATCAGTAATGG
1 TAATATGATCGACACAAAGCCATCAGTAATAG
30212550 TAATATGAT
1 TAATATGAT
30212559 TTGGACACAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (32 bp):
TAATATGATCGACACAAAGCCATCAGTAATAG
Found at i:30212571 original size:32 final size:31
Alignment explanation
Indices: 30212486--30212574 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 31
30212476 ATAAGTACAA
*
30212486 TAATATGATTGGCACAAAGCCATCAGTAATAG
1 TAATATGATTGG-ACACAGCCATCAGTAATAG
* * *
30212518 TAGTATGA-TCGACACAAAGCCATCAGTAATGG
1 TAATATGATTGGACAC--AGCCATCAGTAATAG
30212550 TAATATGATTTGGACACAGCCATCA
1 TAATATGA-TTGGACACAGCCATCA
30212575 ATAGTATCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
30 3 0.06
31 2 0.04
32 36 0.77
34 6 0.13
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (31 bp):
TAATATGATTGGACACAGCCATCAGTAATAG
Found at i:30212797 original size:24 final size:25
Alignment explanation
Indices: 30212770--30212833 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
30212760 CAAATCACAA
* *
30212770 ACAAATCAGTCATTTACATCTC-GG
1 ACAAATCAATCATTTACATCACAGG
*
30212794 ACAAATCATTCATTTACATCACAGG
1 ACAAATCAATCATTTACATCACAGG
30212819 A-AAATCAATCATTTA
1 ACAAATCAATCATTTA
30212834 ACCCCGAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 33 0.92
25 3 0.08
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (25 bp):
ACAAATCAATCATTTACATCACAGG
Found at i:30212883 original size:27 final size:27
Alignment explanation
Indices: 30212852--30213157 Score: 328
Period size: 27 Copynumber: 11.3 Consensus size: 27
30212842 GGGTAAAATA
* *
30212852 GTCATTTTACCCTACAAGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30212879 ATCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30212906 GTCTTTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30212933 ATCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30212960 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
30212987 GTCATTTTACCCTACAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
30213014 GTTATTTTACCTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
30213041 GTCATTTTACCCTATAGGGAAATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
30213068 GTCATTTTACCC-ATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGCATTACG
** * *
30213095 GTCATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * **
30213122 ATAATTTTACCCTTCAGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGCATTACG
30213149 GTCATTTTA
1 GTCATTTTA
30213158 TCATTCGGTG
Statistics
Matches: 238, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 235 0.99
28 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:30213171 original size:54 final size:54
Alignment explanation
Indices: 30213039--30213212 Score: 158
Period size: 54 Copynumber: 3.2 Consensus size: 54
30213029 AGGGGCATTA
** * * * *
30213039 CGGTCATTTTACCC-TATAGGGAAATTACGGTCATTTTACCCATCGAGGGTATTT
1 CGGTCATTTTACCCAT-TAGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTT
*
30213093 CGGTCATTTTACCCTTTAGGGGTATTTC-GATAATTTTACCCTTC-AGGGGTATTT
1 CGGTCATTTTACCCATTAGGGGTATTTCAG-TAATTTTACCCTTCGA-GGGTATTT
* * * **
30213147 TGGTCATTTTA-TCATTCGGTGGTATTTCAGTTTTTTTACCCTTCGAGGGTATTT
1 CGGTCATTTTACCCATTAGG-GGTATTTCAGTAATTTTACCCTTCGAGGGTATTT
* *
30213201 CGATAATTTTAC
1 CGGTCATTTTAC
30213213 AACCTTTTTG
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
53 7 0.07
54 89 0.90
55 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (54 bp):
CGGTCATTTTACCCATTAGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTT
Found at i:30213210 original size:27 final size:27
Alignment explanation
Indices: 30213071--30213212 Score: 121
Period size: 27 Copynumber: 5.3 Consensus size: 27
30213061 AATTACGGTC
* * *
30213071 ATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
30213098 ATTTTACCCTT-TAGGGGTATTTCGATA
1 ATTTTACCCTTCGA-GGGTATTTCGATA
* * *
30213125 ATTTTACCCTTC-AGGGGTATTTTGGTC
1 ATTTTACCCTTCGA-GGGTATTTCGATA
* * *
30213152 ATTTTATCATTCG-GTGGTATTTC-AGTT
1 ATTTTACCCTTCGAG-GGTATTTCGA-TA
*
30213179 TTTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
30213206 ATTTTAC
1 ATTTTAC
30213213 AACCTTTTTG
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
26 2 0.02
27 87 0.96
28 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:30216195 original size:15 final size:15
Alignment explanation
Indices: 30216156--30216187 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30216146 TAGATACATC
30216156 AAGACAGAGTTTGTA
1 AAGACAGAGTTTGTA
*
30216171 AAGATAGAGTTTGTA
1 AAGACAGAGTTTGTA
30216186 AA
1 AA
30216188 AGCAGAGTGA
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:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (15 bp):
AAGACAGAGTTTGTA
Found at i:30220140 original size:42 final size:42
Alignment explanation
Indices: 30220075--30220230 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 42
30220065 AACTCGTACA
*
30220075 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
* *
30220117 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-A
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * * *
30220159 ATGTCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
30220203 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
30220231 CGATAACACA
Statistics
Matches: 92, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
41 2 0.02
42 49 0.53
43 14 0.15
44 25 0.27
45 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:30223470 original size:35 final size:35
Alignment explanation
Indices: 30223430--30223535 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 35
30223420 TGATGTAAAG
30223430 AGAAAACATGATAAATGATTGAAGTGTAGAGTTTA
1 AGAAAACATGATAAATGATTGAAGTGTAGAGTTTA
* * **
30223465 AGAAAATGCCTGAT--TTGTATT-AAGAAT-GAG----
1 AGAAAA--CATGATAAATG-ATTGAAGTGTAGAGTTTA
30223495 AGAAAACATGATAAATGATTGAAGTGTAGAGTTTA
1 AGAAAACATGATAAATGATTGAAGTGTAGAGTTTA
30223530 AGAAAA
1 AGAAAA
30223536 TGCCTGATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 22
0.63 0.10 0.27
Matches are distributed among these distances:
28 5 0.10
29 3 0.06
30 12 0.23
31 3 0.06
34 3 0.06
35 18 0.35
36 3 0.06
37 5 0.10
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (35 bp):
AGAAAACATGATAAATGATTGAAGTGTAGAGTTTA
Found at i:30223532 original size:65 final size:65
Alignment explanation
Indices: 30223428--30223558 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
30223418 ATTGATGTAA
30223428 AGAGAAAACATGATAAATGATTGAAGTGTAGAGTTTAAGAAAATGCCTGATTTGTATTAAGAATG
1 AGAGAAAACATGATAAATGATTGAAGTGTAGAGTTTAAGAAAATGCCTGATTTGTATTAAGAATG
30223493 AGAGAAAACATGATAAATGATTGAAGTGTAGAGTTTAAGAAAATGCCTGATTTGTATTAAGAATG
1 AGAGAAAACATGATAAATGATTGAAGTGTAGAGTTTAAGAAAATGCCTGATTTGTATTAAGAATG
30223558 A
1 A
30223559 AGTGAATCCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.29
Consensus pattern (65 bp):
AGAGAAAACATGATAAATGATTGAAGTGTAGAGTTTAAGAAAATGCCTGATTTGTATTAAGAATG
Found at i:30229279 original size:6 final size:6
Alignment explanation
Indices: 30229268--30229307 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
30229258 TCTACTTTAT
*
30229268 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCT CTTC
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTC
30229308 ATTTGCATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CTTCCC
Found at i:30235598 original size:42 final size:42
Alignment explanation
Indices: 30235537--30235709 Score: 258
Period size: 42 Copynumber: 4.1 Consensus size: 42
30235527 CAGTGCCTAT
* * *
30235537 CAGGTTTATTGCCAGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * *
30235579 CAGGCTTAATGCCGGTGAAATAATTTCAGACCTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
30235621 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * *
30235663 CAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
30235704 CAGGCT
1 CAGGCT
30235710 AAGTGTCGGT
Statistics
Matches: 119, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 23 0.19
42 96 0.81
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:30239984 original size:40 final size:40
Alignment explanation
Indices: 30239940--30240112 Score: 183
Period size: 40 Copynumber: 4.4 Consensus size: 40
30239930 GTACCTAGCG
* * *
30239940 CTAGTCAGACAAACTGACGATATCAAATGTGTGTCCAGCA
1 CTAGTCAGATAAACTGACGATATCAAATGTATGCCCAGCA
*
30239980 CTAGTCAGATAAACTGACGATATCAAATGTATGCCCATCA
1 CTAGTCAGATAAACTGACGATATCAAATGTATGCCCAGCA
* * * * *
30240020 CTAGTCGGATAAACTAAC-A-AT-AAAT-TACGCCTAACA
1 CTAGTCAGATAAACTGACGATATCAAATGTATGCCCAGCA
* * * *
30240056 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGAA
1 CTAGTCAGATAAACTGACGATATCAAATGTATGCCCAGCA
* *
30240096 CTAGTCGGGTAAACTGA
1 CTAGTCAGATAAACTGA
30240113 AAATACAGAC
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
36 24 0.22
37 5 0.05
38 4 0.04
39 5 0.05
40 73 0.66
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (40 bp):
CTAGTCAGATAAACTGACGATATCAAATGTATGCCCAGCA
Found at i:30245057 original size:24 final size:24
Alignment explanation
Indices: 30245030--30245077 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30245020 GATGAGATAC
* *
30245030 CGACCTTTTCGTTGATATCCTTTT
1 CGACCTTTTCATTGATATCATTTT
*
30245054 CGACCTTTTCATTTATATCATTTT
1 CGACCTTTTCATTGATATCATTTT
30245078 TAATCTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.08, T:0.52
Consensus pattern (24 bp):
CGACCTTTTCATTGATATCATTTT
Found at i:30245314 original size:76 final size:75
Alignment explanation
Indices: 30245213--30245418 Score: 236
Period size: 76 Copynumber: 2.7 Consensus size: 75
30245203 GGTGTGCCGT
*
30245213 GCACTAGTCGGATAAACCGACAATGTTTCATG-CCCAGCGCTAGTTA-GATAAACTGAAGATATC
1 GCACTAGTCGGATAAACCGACAATGTTT--TGACCCAGCGATAG-TAGGATAAACTGAAGATATC
30245276 AAATGTGTGTCCA
63 AAATGTGTGTCCA
** * * *
30245289 GCACTAGTCGGATAAATTGATAATGTTTTGCACCCGGCGATAGTAGGATAAACTGACGATATCAA
1 GCACTAGTCGGATAAACCGACAATGTTTTG-ACCCAGCGATAGTAGGATAAACTGAAGATATCAA
*
30245354 ATGTGTGTCTA
65 ATGTGTGTCCA
* * * * *
30245365 GCACTAGTCAGATAAACCGACAATGATTTTACACCCAGCGCTAGTCGAATAAAC
1 GCACTAGTCGGATAAACCGACAATG-TTTT-GACCCAGCGATAGTAGGATAAAC
30245419 CAAAATATAC
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
74 2 0.02
75 2 0.02
76 83 0.76
77 22 0.20
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (75 bp):
GCACTAGTCGGATAAACCGACAATGTTTTGACCCAGCGATAGTAGGATAAACTGAAGATATCAAA
TGTGTGTCCA
Found at i:30245575 original size:27 final size:27
Alignment explanation
Indices: 30245544--30245597 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30245534 ATATATTTCC
30245544 ATAGCATTACATTTAAAATACTAATCA
1 ATAGCATTACATTTAAAATACTAATCA
30245571 ATAGCATTACATTTAAAATACTAATCA
1 ATAGCATTACATTTAAAATACTAATCA
30245598 TTTGAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (27 bp):
ATAGCATTACATTTAAAATACTAATCA
Found at i:30250469 original size:76 final size:76
Alignment explanation
Indices: 30250343--30250639 Score: 402
Period size: 76 Copynumber: 3.9 Consensus size: 76
30250333 TTCTTGGCGA
*
30250343 GCAAATATTTGTCGATTAATCCGACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCCGAC
1 GCAAATATTTGTCGATTAATTCGACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCCGAC
*
30250408 TAGCGCAGGGC
66 TAGCGCTGGGC
* *
30250419 GCAAATATTTGTC-ATTTAA-TCTAAGTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCCG
1 GCAAATATTTGTCGA-TTAATTC-GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCCG
30250482 ACTAGCGCTGGGC
64 ACTAGCGCTGGGC
* * * * *
30250495 ACAAATAGTTGACGGTTAATTCGACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCTGAC
1 GCAAATATTTGTCGATTAATTCGACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCCGAC
**
30250560 TAGCGCTGAAC
66 TAGCGCTGGGC
* * * * *
30250571 GCAAATCTTTGTCGATTAATTCGACTAGTGCTGGGCACAC-TTTTACTATCGTCGGTTTATCCAA
1 GCAAATATTTGTCGATTAATTCGACTAGTGTTGGGCACACATTTAAC-ATCGTCGGTTCATCCGA
30250635 CTAGC
65 CTAGC
30250640 ACTGAGTGCA
Statistics
Matches: 193, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
75 7 0.04
76 184 0.95
77 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (76 bp):
GCAAATATTTGTCGATTAATTCGACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCCGAC
TAGCGCTGGGC
Found at i:30250561 original size:40 final size:40
Alignment explanation
Indices: 30250365--30250562 Score: 137
Period size: 40 Copynumber: 5.2 Consensus size: 40
30250355 CGATTAATCC
*
30250365 GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCC
1 GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCT
* ** * * ** *
30250405 GACTAGCGCAGGGCGCAAATATT----T-GTCATTTAATCT
1 GACTAGTGTTGGGCACACAT-TTAACATCGTCGGTTCATCT
* * *
30250441 AAGTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCC
1 GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCT
* * * * * * *
30250481 GACTAGCGCTGGGCACA-A-AT-A-GTTGACGGTTAAT-T
1 GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCT
30250516 CGACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCT
1 -GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCT
30250557 GACTAG
1 GACTAG
30250563 CGCTGAACGC
Statistics
Matches: 109, Mismatches: 37, Indels: 24
0.64 0.22 0.14
Matches are distributed among these distances:
35 2 0.02
36 45 0.41
37 3 0.03
38 2 0.02
39 3 0.03
40 51 0.47
41 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (40 bp):
GACTAGTGTTGGGCACACATTTAACATCGTCGGTTCATCT
Found at i:30258049 original size:19 final size:18
Alignment explanation
Indices: 30258020--30258069 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
30258010 GTATATGTTT
30258020 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
*
30258038 TAAATCTTATTTAGGTATA
1 TAAAT-TTATTTAGGTAGA
*
30258057 TAAGCTTTATTTA
1 TAA-ATTTATTTA
30258070 TATTCTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:30259380 original size:31 final size:31
Alignment explanation
Indices: 30259341--30259516 Score: 214
Period size: 31 Copynumber: 5.7 Consensus size: 31
30259331 GTATATATTT
30259341 TATACATTGCCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * * *
30259372 TATGCATTGCCGAATTTGATTTATATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
30259403 TATACATTGTCAAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
30259434 TATACATTGCCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
30259464 TATACATTGCCGAATTTGATTCGTATAT-GAA
1 TATACATTGCCGAATTTGATTTGTATATAG-A
* * *
30259495 TATATATTTCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
30259517 GGCATTGGAT
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
30 36 0.29
31 88 0.71
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:30259482 original size:61 final size:61
Alignment explanation
Indices: 30259341--30259516 Score: 226
Period size: 61 Copynumber: 2.9 Consensus size: 61
30259331 GTATATATTT
* * * * *
30259341 TATACATTGCCGAATTTGATTTGTATATAGATATGCATTGCCGAATTTGATTTATATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGTATATAGA
* * *
30259403 TATACATTGTCAAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGA
* * * * *
30259464 TATACATTGCCGAATTTGATTCGTATATGAATATATATTTCTGAATTGATTTG
1 TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTG
30259517 GGCATTGGAT
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
61 58 0.59
62 41 0.41
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (61 bp):
TATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATAGA
Found at i:30259725 original size:43 final size:43
Alignment explanation
Indices: 30259634--30259738 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
30259624 TCCGAGGTGT
** **
30259634 GATTTCATGTAAGACCATATTTGAGCTATTGGCATCAATTTGA
1 GATTTCATGTAAGACCATAGCTGAGCTATTGGCATCAATACGA
* * * * *
30259677 CATTTCGTGTAAGACCATAGCTGGGCTATTGTCATCGATACGA
1 GATTTCATGTAAGACCATAGCTGAGCTATTGGCATCAATACGA
30259720 GATTTCCATGTAAGACCAT
1 GATTT-CATGTAAGACCAT
30259739 GTCTGGGACA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
43 38 0.76
44 12 0.24
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (43 bp):
GATTTCATGTAAGACCATAGCTGAGCTATTGGCATCAATACGA
Found at i:30261859 original size:50 final size:50
Alignment explanation
Indices: 30261758--30261892 Score: 119
Period size: 50 Copynumber: 2.7 Consensus size: 50
30261748 TGAGGTTATT
* * * *
30261758 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATG
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTGGGCACCGAGATG
* * * *
30261808 AGAGGTCCCCCGTAAGACCATGTTTAGGACATGGCAG-GGGCACTGATATG
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGC-GTGGGCACCGAGATG
** * * * * *
30261858 AGAACTCTCATGTAAGACCATATCTGGGATATGGC
1 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGC
30261893 ATTTCCAGTA
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
50 66 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTGGGCACCGAGATG
Found at i:30262176 original size:20 final size:20
Alignment explanation
Indices: 30262151--30262189 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30262141 TGAGTTATTT
30262151 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
30262171 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
30262190 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:30264354 original size:15 final size:16
Alignment explanation
Indices: 30264334--30264372 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
30264324 TTGAAAATTT
30264334 TTTATTTTTATG-AAA
1 TTTATTTTTATGTAAA
* *
30264349 TTTATTATTATGTAAT
1 TTTATTTTTATGTAAA
30264365 TTTATTTT
1 TTTATTTT
30264373 ATTTTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTATTTTTATGTAAA
Found at i:30266946 original size:23 final size:23
Alignment explanation
Indices: 30266914--30266961 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
30266904 CCTATTTATC
*
30266914 CTTAATTTCGTCATGTTTTGATA
1 CTTAAATTCGTCATGTTTTGATA
30266937 CTTAAATTCGTCATGTTTTGATA
1 CTTAAATTCGTCATGTTTTGATA
30266960 CT
1 CT
30266962 GATGTCGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (23 bp):
CTTAAATTCGTCATGTTTTGATA
Found at i:30268926 original size:45 final size:45
Alignment explanation
Indices: 30268857--30268953 Score: 178
Period size: 45 Copynumber: 2.2 Consensus size: 45
30268847 CCTATCCCAA
*
30268857 ACAATTGATCTGCTAAGAAGCCCTACATAGAAACTAATTAATCAC
1 ACAATTGATCTGCTAAGAAACCCTACATAGAAACTAATTAATCAC
30268902 ACAATTGATCTGCTAAGAAACCCTACATAGAAACTAATTAATCAC
1 ACAATTGATCTGCTAAGAAACCCTACATAGAAACTAATTAATCAC
30268947 AC-ATTGA
1 ACAATTGA
30268954 CTCACTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 5 0.10
45 46 0.90
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (45 bp):
ACAATTGATCTGCTAAGAAACCCTACATAGAAACTAATTAATCAC
Found at i:30268976 original size:14 final size:14
Alignment explanation
Indices: 30268957--30268985 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30268947 ACATTGACTC
30268957 ACTAATCCCCTATT
1 ACTAATCCCCTATT
30268971 ACTAATCCCCTATT
1 ACTAATCCCCTATT
30268985 A
1 A
30268986 AGAGGATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (14 bp):
ACTAATCCCCTATT
Found at i:30274891 original size:28 final size:25
Alignment explanation
Indices: 30274875--30274923 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30274865 ATCAATATAC
30274875 TTTATATCTCATTTCATACAACATA
1 TTTATATCTCATTTCATACAACATA
* *
30274900 TTTCTATCTCATTTCCATATAACA
1 TTTATATCTCATTT-CATACAACA
30274924 CATCATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTATATCTCATTTCATACAACATA
Found at i:30277981 original size:7 final size:7
Alignment explanation
Indices: 30277969--30278005 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
30277959 AACATATACT
30277969 TTTTATA
1 TTTTATA
30277976 TTTTATA
1 TTTTATA
30277983 TTTTATA
1 TTTTATA
*
30277990 TTTCATA
1 TTTTATA
30277997 TTTTATA
1 TTTTATA
30278004 TT
1 TT
30278006 CTTTATATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTATA
Done.