Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 56 of 130
Found at i:12102411 original size:142 final size:142
Alignment explanation
Indices: 12102081--12102531 Score: 394
Period size: 142 Copynumber: 3.2 Consensus size: 142
12102071 TGATTTAAAA
* * * * ** ***
12102081 CACCAAAAATCTTGAAATATTATAAAATCATCATTT-GAAAG-TTTGTGAAAATTTGACCCCAAA
1 CACCAAAAATCTTGAAATAATATAAAATAATGATTTGGAATGTTTTGTGAAAAACTGACCTTGAA
* * * * * **
12102144 AAAGTCAAATTACAAAATTATCCCTAAAAGATGTTTTCGTAATTTCATACCTCCCAAGGTGTAAC
66 AAAGTCAAATTACAAAAATATCCCT-AAAGGTATTTTAGTAATTTCATACCTTCCAA-GTGCGAC
12102209 CAAGGTTTTTAATG
129 CAAGGTTTTTAATG
* * * * *
12102223 CACTAAAAAT-TATAAAATAATTTAAAA-ACATGATTTGAAATATTTTGTGAAAAACTGACCTTG
1 CACCAAAAATCT-TGAAATAATATAAAATA-ATGATTTGGAATGTTTTGTGAAAAACTGACCTTG
* * *
12102286 AAAAAGCCAAATTACAAAAATATCCCTAAGGGTATTTTAAT-ATTTCATACCTTCCGAAGTGCGA
64 AAAAAGTCAAATTACAAAAATATCCCTAAAGGTATTTTAGTAATTTCATACCTTCC-AAGTGCGA
12102350 CCAAGGTTTTTAATG
128 CCAAGGTTTTTAATG
* * ** * **
12102365 CACCAAAAATCTTGAAATAATATGAAATAATGATTTGGAGTGTTTTGCAAAAAAACTTATATTGA
1 CACCAAAAATCTTGAAATAATATAAAATAATGATTTGGAATGTTTTG-TGAAAAACTGACCTTGA
* * ** *
12102430 GAAGGTCAAATTACAAAAATATCATTAAAGGTATTTTGGTAATTTC-T-CACTTCTCAAGATGCG
65 AAAAGTCAAATTACAAAAATATCCCTAAAGGTATTTTAGTAATTTCATAC-CTTC-CAAG-TGCG
** * *
12102493 ATTAGGGTTTTTAATA
127 ACCAAGGTTTTTAATG
* *
12102509 CACCAAAAGTCATGAAATAATAT
1 CACCAAAAATCTTGAAATAATAT
12102532 TTTAAAGTGA
Statistics
Matches: 247, Mismatches: 50, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
141 1 0.00
142 96 0.39
143 67 0.27
144 83 0.34
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (142 bp):
CACCAAAAATCTTGAAATAATATAAAATAATGATTTGGAATGTTTTGTGAAAAACTGACCTTGAA
AAAGTCAAATTACAAAAATATCCCTAAAGGTATTTTAGTAATTTCATACCTTCCAAGTGCGACCA
AGGTTTTTAATG
Found at i:12104437 original size:43 final size:43
Alignment explanation
Indices: 12104350--12104438 Score: 146
Period size: 42 Copynumber: 2.1 Consensus size: 43
12104340 TTGTTTTTCC
* *
12104350 TTTTTTTAACAAGAAATAAATCAAATTTATAACAAAACTCTTT
1 TTTTTTTAACAAGAAACAAATCAAATTTAAAACAAAACTCTTT
12104393 TTTTTTTAACAA-AAACAAATCAAATTTAAAACAAAACT-TTT
1 TTTTTTTAACAAGAAACAAATCAAATTTAAAACAAAACTCTTT
12104434 TTTTT
1 TTTTT
12104439 ATATTTTTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 8 0.18
42 24 0.55
43 12 0.27
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (43 bp):
TTTTTTTAACAAGAAACAAATCAAATTTAAAACAAAACTCTTT
Found at i:12104911 original size:13 final size:13
Alignment explanation
Indices: 12104860--12104931 Score: 65
Period size: 13 Copynumber: 5.4 Consensus size: 13
12104850 TTTAATGTCT
12104860 AGGTTAGGG-TTA
1 AGGTTAGGGTTTA
12104872 AGGTTAGGGTTTTA
1 AGGTTAGGG-TTTA
* * *
12104886 GGGTTACGTTTTA
1 AGGTTAGGGTTTA
12104899 AGGTTAGGGTTTA
1 AGGTTAGGGTTTA
*
12104912 GAGGCTTAGGATTTA
1 -AGG-TTAGGGTTTA
*
12104927 GGGTT
1 AGGTT
12104932 TTAGGTTTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
12 9 0.19
13 16 0.33
14 14 0.29
15 9 0.19
ACGTcount: A:0.21, C:0.03, G:0.38, T:0.39
Consensus pattern (13 bp):
AGGTTAGGGTTTA
Found at i:12104942 original size:14 final size:15
Alignment explanation
Indices: 12104917--12104946 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12104907 GTTTAGAGGC
12104917 TTAGGATTTAGGGTT
1 TTAGGATTTAGGGTT
12104932 TTAGG-TTTAGGGTT
1 TTAGGATTTAGGGTT
12104946 T
1 T
12104947 CAATTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
TTAGGATTTAGGGTT
Found at i:12104945 original size:7 final size:7
Alignment explanation
Indices: 12104863--12104946 Score: 52
Period size: 6 Copynumber: 12.3 Consensus size: 7
12104853 AATGTCTAGG
12104863 TTAGGG-
1 TTAGGGT
*
12104869 TTAAGG-
1 TTAGGGT
12104875 TTAGGGTT
1 TTAGGG-T
12104883 TTAGGG-
1 TTAGGGT
* *
12104889 TTACGTT
1 TTAGGGT
*
12104896 TTAAGG-
1 TTAGGGT
12104902 TTAGGGT
1 TTAGGGT
*
12104909 TTAGAGGC
1 TTAG-GGT
*
12104917 TTAGGAT
1 TTAGGGT
12104924 TTAGGGTT
1 TTAGGG-T
12104932 TTA-GGT
1 TTAGGGT
12104938 TTAGGGT
1 TTAGGGT
12104945 TT
1 TT
12104947 CAATTTTCTT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
6 23 0.38
7 21 0.35
8 16 0.27
ACGTcount: A:0.19, C:0.02, G:0.36, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:12109678 original size:15 final size:15
Alignment explanation
Indices: 12109620--12109681 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
12109610 TTATCTTTCT
*
12109620 TTTTCCTTTTTTTTTG
1 TTTTCC-TTTTTTTTA
*
12109636 TTTTCTCTTTTTTCT-
1 TTTTC-CTTTTTTTTA
* *
12109651 TTCTCC-TATTTTTA
1 TTTTCCTTTTTTTTA
12109665 TTTTCCTTTTTTTTA
1 TTTTCCTTTTTTTTA
12109680 TT
1 TT
12109682 ATTATTACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
13 5 0.14
14 6 0.16
15 13 0.35
16 12 0.32
17 1 0.03
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTCCTTTTTTTTA
Found at i:12110580 original size:10 final size:10
Alignment explanation
Indices: 12110565--12110602 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
12110555 TATCTTTCTT
12110565 TTTTTTTTTA
1 TTTTTTTTTA
12110575 TTTTTTTTTA
1 TTTTTTTTTA
* *
12110585 TTTTTTTGTC
1 TTTTTTTTTA
12110595 TTTTTTTT
1 TTTTTTTT
12110603 CTTTATATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.05, C:0.03, G:0.03, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:12110588 original size:18 final size:18
Alignment explanation
Indices: 12110553--12110602 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
12110543 AAAATCAAAA
*
12110553 TTTATCTTTCTTTTTTTT
1 TTTATCTTTTTTTTTTTT
12110571 TTTAT-TTTTTTTTATTTT
1 TTTATCTTTTTTTT-TTTT
*
12110589 TTTGTCTTTTTTTT
1 TTTATCTTTTTTTT
12110603 CTTTATATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 13 0.46
19 8 0.29
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.86
Consensus pattern (18 bp):
TTTATCTTTTTTTTTTTT
Found at i:12110605 original size:9 final size:9
Alignment explanation
Indices: 12110557--12110606 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
12110547 TCAAAATTTA
12110557 TCTTTCTTTT
1 TCTTT-TTTT
*
12110567 T-TTTTTTA
1 TCTTTTTTT
12110575 T-TTTTTTT
1 TCTTTTTTT
*
12110583 TATTTTTTT
1 TCTTTTTTT
12110592 GTCTTTTTTT
1 -TCTTTTTTT
12110602 TCTTT
1 TCTTT
12110607 ATATGCTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
8 11 0.31
9 15 0.43
10 9 0.26
ACGTcount: A:0.04, C:0.08, G:0.02, T:0.86
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:12113362 original size:12 final size:13
Alignment explanation
Indices: 12113340--12113364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12113330 TTTGTTTCTT
12113340 TTGGTTTTTTTTG
1 TTGGTTTTTTTTG
12113353 TTGGTTTTTTTT
1 TTGGTTTTTTTT
12113365 TTGTTTATAA
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:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (13 bp):
TTGGTTTTTTTTG
Found at i:12114674 original size:16 final size:16
Alignment explanation
Indices: 12114648--12114691 Score: 79
Period size: 16 Copynumber: 2.7 Consensus size: 16
12114638 ACTATTAAAA
12114648 TATTAAAAATTATTTAT
1 TATT-AAAATTATTTAT
12114665 TATTAAAATTATTTAT
1 TATTAAAATTATTTAT
12114681 TATTAAAATTA
1 TATTAAAATTA
12114692 AAAAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:12114721 original size:43 final size:41
Alignment explanation
Indices: 12114640--12114734 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
12114630 TTAATATAAC
* * *
12114640 TATTAAAATATTAAAAATTATTTATTATTAAAATTATTTAT
1 TATTAAAATATAAAAAATAATTTATTATTAAAATTATTTAA
12114681 TATTAAAAT-TAAAAAATAATTATATT-TTAATAATAATATTTAA
1 TATTAAAATATAAAAAATAATT-TATTATTAA-AAT--TATTTAA
12114724 TATTAAAATAT
1 TATTAAAATAT
12114735 TATGTTAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
40 14 0.30
41 16 0.35
43 15 0.33
44 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (41 bp):
TATTAAAATATAAAAAATAATTTATTATTAAAATTATTTAA
Found at i:12114857 original size:64 final size:65
Alignment explanation
Indices: 12114789--12114949 Score: 188
Period size: 64 Copynumber: 2.5 Consensus size: 65
12114779 TTTATATTAT
*
12114789 TTATTAATATATTAATATATTATTTTATTAATA-AT-ATTTATTAATATATTA-TATTAATAGTA
1 TTATTAAT-TATTAATATATTATTTTATTAATATATGATTTATTAATATAATATTATTAAT-GTA
12114851 TA
64 TA
* * * *
12114853 TTATTTATTAATAATAT-TTATTTTATTAATATATGATTTATTAATATAATATTATTTATTTATA
1 TTATTAATTATTAATATATTATTTTATTAATATATGATTTATTAATATAATATTATTAATGTATA
* * * *
12114917 ATAATACTTATTAATATACTA-TTTATTAATATA
1 TTATTAATTATTAATATATTATTTTATTAATATA
12114950 ATATTATTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
62 14 0.17
63 10 0.12
64 50 0.61
65 8 0.10
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (65 bp):
TTATTAATTATTAATATATTATTTTATTAATATATGATTTATTAATATAATATTATTAATGTATA
Found at i:12114861 original size:18 final size:17
Alignment explanation
Indices: 12114781--12114960 Score: 130
Period size: 18 Copynumber: 10.7 Consensus size: 17
12114771 TATTATCCTT
12114781 TATATTATTTATTAATA
1 TATATTATTTATTAATA
* *
12114798 TATTAATATATTATT-TTA
1 TA-TATTAT-TTATTAATA
*
12114816 TTAATAATATTTATT-A-A
1 -T-ATATTATTTATTAATA
12114833 TATATTA--TATTAATA
1 TATATTATTTATTAATA
12114848 GTATATTATTTATTAATA
1 -TATATTATTTATTAATA
12114866 -ATATTTATTTTATT-A-A
1 TATA-TTA-TTTATTAATA
*
12114882 TATATGATTTATTAATA
1 TATATTATTTATTAATA
*
12114899 TAATATTATTTATTTATA
1 T-ATATTATTTATTAATA
* *
12114917 -ATAATACTTATT-A-A
1 TATATTATTTATTAATA
*
12114931 TATACTATTTATTAATA
1 TATATTATTTATTAATA
12114948 TAATATTATTTAT
1 T-ATATTATTTAT
12114961 AAGTAAAATT
Statistics
Matches: 132, Mismatches: 12, Indels: 37
0.73 0.07 0.20
Matches are distributed among these distances:
13 4 0.03
14 2 0.02
15 23 0.17
16 26 0.20
17 14 0.11
18 50 0.38
19 12 0.09
20 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:12114882 original size:49 final size:48
Alignment explanation
Indices: 12114781--12114960 Score: 202
Period size: 49 Copynumber: 3.6 Consensus size: 48
12114771 TATTATCCTT
* * *
12114781 TATATTATTTATTAATATATTAATATATTATTTTATTAATAATATTTATTAA
1 TATA-TATTTATTAATATAAT-AT-TATT-TATTAATAATAATATTTATTAA
* *
12114833 TATAT-TATATTAATAGT-ATATTATTTATTAATAATATTTATTTTATTAA
1 TATATATTTATTAATA-TAATATTATTTATTAATAATA-ATA-TTTATTAA
* *
12114882 TATATGATTTATTAATATAATATTATTTATTTATAATAATACTTATTAA
1 TATAT-ATTTATTAATATAATATTATTTATTAATAATAATATTTATTAA
12114931 TATACTATTTATTAATATAATATTATTTAT
1 TATA-TATTTATTAATATAATATTATTTAT
12114961 AAGTAAAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
47 9 0.08
48 6 0.05
49 50 0.45
50 14 0.12
51 29 0.26
52 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (48 bp):
TATATATTTATTAATATAATATTATTTATTAATAATAATATTTATTAA
Found at i:12114960 original size:82 final size:78
Alignment explanation
Indices: 12114798--12114947 Score: 185
Period size: 82 Copynumber: 1.9 Consensus size: 78
12114788 TTTATTAATA
* * * *
12114798 TATTAATATATTATTTTATTAATAATATTTATTAATATATTATATTAATAGTATATTATTTATTA
1 TATTAATATATGATTTTATTAATAATATTTATTAATATATAATATTAATAATATACTATTTATTA
12114863 ATAATATTTATTT
66 ATAATATTTATTT
* * *
12114876 TATTAATATATGATTTATTAATATAATATTATTTATTTATA-ATAATACTTATTAATATACTATT
1 TATTAATATATGA-TT-TT-AT-TAATAATATTTATTAATATATAATA-TTAATAATATACTATT
12114940 TATTAATA
61 TATTAATA
12114948 TAATATTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 12 0.20
79 2 0.03
80 2 0.03
81 7 0.12
82 37 0.62
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (78 bp):
TATTAATATATGATTTTATTAATAATATTTATTAATATATAATATTAATAATATACTATTTATTA
ATAATATTTATTT
Found at i:12131541 original size:19 final size:18
Alignment explanation
Indices: 12131504--12131545 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
12131494 TAAATGTAAA
12131504 AAAAATAAAAGAATGAAT
1 AAAAATAAAAGAATGAAT
*
12131522 AGAAAATATAAA-AATTAAT
1 A-AAAATA-AAAGAATGAAT
12131541 AAAAA
1 AAAAA
12131546 CCAGTTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 13 0.62
20 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAGAATGAAT
Found at i:12133807 original size:16 final size:16
Alignment explanation
Indices: 12133728--12133808 Score: 59
Period size: 17 Copynumber: 5.3 Consensus size: 16
12133718 TATTATTTTT
*
12133728 TTAAAAA-ATAAAATA
1 TTAAAAATAAAAAATA
*
12133743 CTAAAAATAAAAAA-A
1 TTAAAAATAAAAAATA
12133758 TT---AAT-AAAAA-A
1 TTAAAAATAAAAAATA
*
12133769 TTAAATGGATAAAAAATA
1 TTAAA--AATAAAAAATA
12133787 TTTAAAAATAAAAAATA
1 -TTAAAAATAAAAAATA
12133804 TTAAA
1 TTAAA
12133809 TTTAAAAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
11 8 0.15
12 3 0.06
15 8 0.15
16 12 0.23
17 15 0.29
18 1 0.02
19 5 0.10
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.26
Consensus pattern (16 bp):
TTAAAAATAAAAAATA
Found at i:12133814 original size:22 final size:22
Alignment explanation
Indices: 12133786--12133842 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
12133776 GATAAAAAAT
*
12133786 ATTTAAAAATAAAAAATATTA-A
1 ATTTAAAAATAAAAAAT-TAAGA
*
12133808 ATTTAAAAA-AGAAAATTAAGA
1 ATTTAAAAATAAAAAATTAAGA
*
12133829 ATTAAAAAATAAAA
1 ATTTAAAAATAAAA
12133843 TAAAGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 15 0.52
22 12 0.41
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (22 bp):
ATTTAAAAATAAAAAATTAAGA
Found at i:12133855 original size:21 final size:20
Alignment explanation
Indices: 12133811--12133859 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
12133801 ATATTAAATT
* * *
12133811 TAAAAAAGAAAATTAAGAAT
1 TAAAAAATAAAATAAAGAAA
12133831 TAAAAAATAAAATAAAGAAAA
1 TAAAAAATAAAATAAAG-AAA
12133852 TAAAAAAT
1 TAAAAAAT
12133860 TATTAGGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (20 bp):
TAAAAAATAAAATAAAGAAA
Found at i:12150182 original size:202 final size:204
Alignment explanation
Indices: 12149514--12150192 Score: 715
Period size: 203 Copynumber: 3.4 Consensus size: 204
12149504 GAAGTATTCA
* * * * ***
12149514 TCAC-AAA-AAATGAGAAAATATGATATATTAGTGACGAAAGGTAAATCTTTGTAGTATTAGTGA
1 TCACAAAATAAATGATAAAATATGATATATTAATGACAAAAGGTAAATCGTCACAGTATTAGTGA
* * * * * *
12149577 CAAAATTATCGTCACCAATTATTGTAAGATAATATC-TACTATGACAATAAAATCAAATGTCACC
66 CATAATTATCGTCACAAATGATTATAAGATAATATCAAAC-GTGACAATAAAATCAAATGTCACC
* * * *
12149641 TTATGCATTA-ATTTTTGTGATGTTAATTTTTGTTAGCTATTTATAAACAACAACGTCATTAAAG
130 TTATGCTTTATTTTTTTATGATGTTAATTTTTGTTAGCTATTTATAAACAACAATGTCATTAAAG
12149705 GTTATAATCG
195 GTTATAATCG
* * * *
12149715 TCACAAAATAAATGATAAAATCTTATATATTAATGGCAAAAGGTAAATCGTCACAATATTAGTGA
1 TCACAAAATAAATGATAAAATATGATATATTAATGACAAAAGGTAAATCGTCACAGTATTAGTGA
** * * *
12149780 CGCAATTATCGTCATAAATGATTATAAGATAATATCAAATGTGACAATAAAATCAAACGTCACCT
66 CATAATTATCGTCACAAATGATTATAAGATAATATCAAACGTGACAATAAAATCAAATGTCACCT
* * ** * * * * *
12149845 TATACTTT-TTTTTATATGACATTAATTTTTGTCAGTTATTTATAAAGAAGAATGTCATTGAAGG
131 TATGCTTTATTTTTTTATGATGTTAATTTTTGTTAGCTATTTATAAACAACAATGTCATTAAAGG
*
12149909 TTATAATCA
196 TTATAATCG
* * * * *
12149918 TCACAAAATAAATGATAAAATTTGATATATTAATGACAAAAGGTAAATTGTCATAGTATTGGTAA
1 TCACAAAATAAATGATAAAATATGATATATTAATGACAAAAGGTAAATCGTCACAGTATTAGTGA
* * * * *
12149983 CATAATTATCATCACAAATGATTATAAGATGATGTCAAACGTGACAATAAAATCAAATGTTACAT
66 CATAATTATCGTCACAAATGATTATAAGATAATATCAAACGTGACAATAAAATCAAATGTCACCT
* * ** * *
12150048 TATGGTTTATTTTTTTATGATGTTCATTTTCATTAGCTATTTATGAA-AA-AATGTCATTAAAAG
131 TATGCTTTATTTTTTTATGATGTTAATTTTTGTTAGCTATTTATAAACAACAATGTCATTAAAGG
* * *
12150111 CTATTATTG
196 TTATAATCG
* * * * ** * * * *
12150120 TTACAAAATAAATAATTAAATATGATATATTAGTGATGAAAGATAAATCATTACAGTATTGGTGA
1 TCACAAAATAAATGATAAAATATGATATATTAATGACAAAAGGTAAATCGTCACAGTATTAGTGA
12150185 CATAATTA
66 CATAATTA
12150193 ACATTATTAA
Statistics
Matches: 390, Mismatches: 83, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
201 4 0.01
202 80 0.21
203 276 0.71
204 30 0.08
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.36
Consensus pattern (204 bp):
TCACAAAATAAATGATAAAATATGATATATTAATGACAAAAGGTAAATCGTCACAGTATTAGTGA
CATAATTATCGTCACAAATGATTATAAGATAATATCAAACGTGACAATAAAATCAAATGTCACCT
TATGCTTTATTTTTTTATGATGTTAATTTTTGTTAGCTATTTATAAACAACAATGTCATTAAAGG
TTATAATCG
Found at i:12156953 original size:12 final size:12
Alignment explanation
Indices: 12156936--12156969 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
12156926 ATCAAATAAT
12156936 CATTCCACTTCC
1 CATTCCACTTCC
12156948 CATTCCACTTCC
1 CATTCCACTTCC
12156960 CATTCCACTT
1 CATTCCACTT
12156970 GGAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.47, G:0.00, T:0.35
Consensus pattern (12 bp):
CATTCCACTTCC
Found at i:12157596 original size:68 final size:68
Alignment explanation
Indices: 12157485--12157620 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 68
12157475 TGTTGAAAAA
* * ** *
12157485 TAGCTAATATTCCCCTTAATGGTTTGGTTTTTACTGAGGTGGTAACATATGAATACCAACTAGCT
1 TAGCTAATATTCCCCTAAATGATTTACTTTTTACTGAGATGGTAACATATGAATACCAACTAGCT
12157550 AAG
66 AAG
* * * *
12157553 TAGCTAATGTTCCCCTAAATGATTTACTTTTTACTTAGATGGTAGCATGTGAATACCAACTAGCT
1 TAGCTAATATTCCCCTAAATGATTTACTTTTTACTGAGATGGTAACATATGAATACCAACTAGCT
12157618 AAG
66 AAG
12157621 CAAGTTTAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (68 bp):
TAGCTAATATTCCCCTAAATGATTTACTTTTTACTGAGATGGTAACATATGAATACCAACTAGCT
AAG
Found at i:12158676 original size:24 final size:23
Alignment explanation
Indices: 12158649--12158705 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
12158639 ATAGTGTAGT
*
12158649 TTAAAAGTTGAGGGGAAACTTGAA
1 TTAAAA-TTAAGGGGAAACTTGAA
*
12158673 TTAAAATTAATGGGAAACTTGAA
1 TTAAAATTAAGGGGAAACTTGAA
12158696 TTAAAATTAA
1 TTAAAATTAA
12158706 TTTTATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (23 bp):
TTAAAATTAAGGGGAAACTTGAA
Found at i:12158689 original size:23 final size:23
Alignment explanation
Indices: 12158661--12158706 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12158651 AAAAGTTGAG
12158661 GGGAAACTTGAATTAAAATTAAT
1 GGGAAACTTGAATTAAAATTAAT
12158684 GGGAAACTTGAATTAAAATTAAT
1 GGGAAACTTGAATTAAAATTAAT
12158707 TTTATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.30
Consensus pattern (23 bp):
GGGAAACTTGAATTAAAATTAAT
Found at i:12159035 original size:21 final size:20
Alignment explanation
Indices: 12159003--12159041 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12158993 ATTAAATCTA
12159003 CATTGATTCAACCTATGATCC
1 CATTGATTCAACCT-TGATCC
12159024 CATT-ATTACAACCTTGAT
1 CATTGATT-CAACCTTGAT
12159042 AATAGCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.36
Consensus pattern (20 bp):
CATTGATTCAACCTTGATCC
Found at i:12160430 original size:236 final size:236
Alignment explanation
Indices: 12159786--12161087 Score: 1505
Period size: 236 Copynumber: 5.5 Consensus size: 236
12159776 ATTTATGACA
* * ** * *
12159786 AAAATTTATCAAAAAAAATTCATCACAGATAAAATTTTAAATTGGTGATAAAATTGTAACGTCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCAC
* * * *
12159851 CTAAAATAAAAAATGTCATAAAAAATTTT-TCACCAAATAAAATTGGTGGTAAAAAGTCTGTGAC
66 ATAAAATAAAAAATGTCATAAAAAATTTTCTCACCAAATAAATTTGATGGT-AAAAGTTTGTGAC
* * * ** * *
12159915 ATTTATGTTATCATCATATAACATCA-AACATTGATATGACAAAATTATAATGTTATTAATAATT
130 ATTTATGTTATCGTCATATAACACCATAA-ATTGATGTGACAAAATTGCAATGTCATTAATAGTT
* * *
12159979 AACTAAAGTGTTCAATTTGTGACAAAAATTAATAACGTTACCT
194 AACTAAAGTATTCAATTTGTGACAAAAATTAATAACATCACCT
**** * * * * *
12160022 AAAATCTATCAAAAACTTTTTTGTTACAAATAAAAATTTAAATTGGGGACAAAATTATAATGTCA
1 AAAATCTAT-AAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCA
* * * * *
12160087 CATAAGATAAAAAATGTCAT-AAAAATTTTC-CATCAAATAAATTTGGTGGTAAAAGTTTATTAC
65 CATAAAATAAAAAATGTCATAAAAAATTTTCTCACCAAATAAATTTGATGGTAAAAGTTTGTGAC
* * * *
12160150 ATTTTTGTTATCGTCATATAACACTATAAATTGACGTGACAAAATTGCAATGTCATTAATTGTTA
130 ATTTATGTTATCGTCATATAACACCATAAATTGATGTGACAAAATTGCAATGTCATTAATAGTTA
* * *
12160215 ACTAAAATATTTAATTTGTGACAAAAATTAATAACATTACCT
195 ACTAAAGTATTCAATTTGTGACAAAAATTAATAACATCACCT
* * * *
12160257 AAAATCTATAAAAAAAAATTTGTCACACATAAAAATTTAAATTGGGGACAAAATTATAATGTCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCAC
* * * *
12160322 ATAAGATAAAAAAATGTCATAAAAAATTTTCT-ATCAAATAAATTTGACGGTAAAAGTTTATGAC
66 ATAAAAT-AAAAAATGTCATAAAAAATTTTCTCACCAAATAAATTTGATGGTAAAAGTTTGTGAC
* *
12160386 ATTTATTTTATCGTCATATAACACCATAAATGGATGTGACAAAATTGCAATGTCATTAATAGTTA
130 ATTTATGTTATCGTCATATAACACCATAAATTGATGTGACAAAATTGCAATGTCATTAATAGTTA
**
12160451 ACTAAAGTATTCAATTTGTGACAAAAATTAATAATGTCACCT
195 ACTAAAGTATTCAATTTGTGACAAAAATTAATAACATCACCT
** * * * *
12160493 AAAATCTATAAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACACATTTATAACATCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCAC
* * * * *
12160558 TTAAAATAAAAAAATGTCATAAAAATTTTTTTCA-CAAACTAAAATTGATAGTAAAAGTTTGTGA
66 ATAAAAT-AAAAAATGTCATAAAAAATTTTCTCACCAAA-TAAATTTGATGGTAAAAGTTTGTGA
* ** **
12160622 CATTTATGTTATCGTCATATAATACCATAAAATAAATGTGATGAAATTGCAATGTCATTAATAGT
129 CATTTATGTTATCGTCATATAACACCAT-AAATTGATGTGACAAAATTGCAATGTCATTAATAGT
* * * * *
12160687 TAACTAAAATGTT-ACATTTATGATAAAAATTGATAACATCACCT
193 TAACTAAAGTATTCA-ATTTGTGACAAAAATTAATAACATCACCT
* * * * *
12160731 -AAATCTAT-TAGAAAAATTTGTCATAGATAAAATTTTAAATTAGTGACAAAATT-TAAATGTCA
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTAT-AACGTCA
* * * * * *
12160793 CTTAAAATAAAAAACGTCACAAAAAATTTT-TCACCGAATAAATTTGGTGGTAAAAGTTTGTGTC
65 CATAAAATAAAAAATGTCATAAAAAATTTTCTCACCAAATAAATTTGATGGTAAAAGTTTGTGAC
* ** * *
12160857 ATTTATATTATAATCATATAACACCATACATTGATGTGACAAAATTGTAATGTCATTAATAGTTA
130 ATTTATGTTATCGTCATATAACACCATAAATTGATGTGACAAAATTGCAATGTCATTAATAGTTA
* *
12160922 ACTAAAGTGTTCAATTTGTGACAAAAATTAATAATATCACCT
195 ACTAAAGTATTCAATTTGTGACAAAAATTAATAACATCACCT
* * * * *
12160964 AAAATCTATCAGAAAAAATTTGTCACAAATCAAATTTTAAATTGGTGATAAAATTATAACGTCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCAC
* ** * *
12161029 ATAAAGTAAAAAACATCA-CAAAAATATTTCCCACCAAATAAATTTGATGGTAAAA-TTTG
66 ATAAAATAAAAAATGTCATAAAAAAT-TTTCTCACCAAATAAATTTGATGGTAAAAGTTTG
12161088 GCGGCAAGAT
Statistics
Matches: 912, Mismatches: 136, Indels: 37
0.84 0.13 0.03
Matches are distributed among these distances:
233 67 0.07
234 120 0.13
235 209 0.23
236 333 0.37
237 116 0.13
238 67 0.07
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (236 bp):
AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTATAACGTCAC
ATAAAATAAAAAATGTCATAAAAAATTTTCTCACCAAATAAATTTGATGGTAAAAGTTTGTGACA
TTTATGTTATCGTCATATAACACCATAAATTGATGTGACAAAATTGCAATGTCATTAATAGTTAA
CTAAAGTATTCAATTTGTGACAAAAATTAATAACATCACCT
Found at i:12160765 original size:471 final size:469
Alignment explanation
Indices: 12159786--12161083 Score: 1597
Period size: 471 Copynumber: 2.8 Consensus size: 469
12159776 ATTTATGACA
* * ** * *
12159786 AAAATTTATCAAAAAAAATTCATCACAGATAAAATTTTAAATTGGTGATAAAATTGTAACGTCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATT-TAATGTCAC
* * *
12159851 CTAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAAATTGGTGGTAAAAAGTCTGTGACA
65 ATAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAATTTGGTGGT-AAAAGTTTGTGACA
* * * * * *
12159916 TTTATGTTATCATCATATAACATCA-AACATTGATATGACAAAATTATAATGTTATTAATAATTA
129 TTTATATTATCATCATATAACACCATAA-ATTGATGTGACAAAATTGTAATGTCATTAATAGTTA
* * ****
12159980 ACTAAAGTGTTCAATTTGTGACAAAAATTAATAACGTTACCTAAAATCTATCAAAAACTTTTTTG
193 ACTAAAGTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTAT-AAAAAAAAATTTG
* * * * *
12160045 TTACAAATAAAAATTTAAATTGGGGACAAAATTATAATGTCACATAAGAT-AAAAAATGTCATAA
257 TCACAAATAAAATTTTAAATTGGTGACAAAATTATAACGTCACATAAAATAAAAAAATGTCATAA
* * * * *
12160109 AAATTTTCCATCAAATAAATTTGGTGGTAAAAGTTTATTACATTTTTGTTATCGTCATATAACAC
322 AAATTTTCCATCAAATAAAATTGATAGTAAAAGTTTATGACATTTATGTTATCGTCATATAACAC
* ** * * *
12160174 TATAAATTGACGTGACAAAATTGCAATGTCATTAATTGTTAACTAAAATATTTAATTTGTGACAA
387 CATAAATAAACGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAATAGTTAATTTATGACAA
*
12160239 AAATTAATAACATTACCT
452 AAATTAATAACATCACCT
* * *
12160257 AAAATCTATAAAAAAAAATTTGTCACACATAAAAATTTAAATTGGGGACAAAATTATAATGTCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATT-TAATGTCAC
* * ** *
12160322 ATAAGATAAAAAAATGTCATAAAAAA-TTTTCTATCAAATAAATTTGACGGTAAAAGTTTATGAC
65 ATAAAAT-AAAAAATGTCATAAAAAATTTTTC-ACCAAATAAATTTGGTGGTAAAAGTTTGTGAC
* * * *
12160386 ATTTATTTTATCGTCATATAACACCATAAATGGATGTGACAAAATTGCAATGTCATTAATAGTTA
128 ATTTATATTATCATCATATAACACCATAAATTGATGTGACAAAATTGTAATGTCATTAATAGTTA
* **
12160451 ACTAAAGTATTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTATAAAAAAAAATTCAT
193 ACTAAAGTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTATAAAAAAAAATTTGT
* * * * * *
12160516 CACAGATAAAATTTTAAATTAGTGACACATTTATAACATCACTTAAAATAAAAAAATGTCATAAA
258 CACAAATAAAATTTTAAATTGGTGACAAAATTATAACGTCACATAAAATAAAAAAATGTCATAAA
* * *
12160581 AATTTTTTTCA-CAAACTAAAATTGATAGTAAAAGTTTGTGACATTTATGTTATCGTCATATAAT
323 AA--TTTTCCATCAAA-TAAAATTGATAGTAAAAGTTTATGACATTTATGTTATCGTCATATAAC
* **
12160645 ACCATAAAATAAATGTGATGAAATTGCAATGTCATTAATAGTTAACTAAAAT-GTTACATTTATG
385 ACCAT-AAATAAACGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAATAGTTA-ATTTATG
* *
12160709 ATAAAAATTGATAACATCACCT
448 ACAAAAATTAATAACATCACCT
* * * *
12160731 -AAATCTAT-TAGAAAAATTTGTCATAGATAAAATTTTAAATTAGTGACAAAATTTAAATGTCAC
1 AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTT-AATGTCAC
* * * * *
12160794 TTAAAATAAAAAACGTCACAAAAAATTTTTCACCGAATAAATTTGGTGGTAAAAGTTTGTGTCAT
65 ATAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAATTTGGTGGTAAAAGTTTGTGACAT
* *
12160859 TTATATTATAATCATATAACACCATACATTGATGTGACAAAATTGTAATGTCATTAATAGTTAAC
130 TTATATTATCATCATATAACACCATAAATTGATGTGACAAAATTGTAATGTCATTAATAGTTAAC
* * *
12160924 TAAAGTGTTCAATTTGTGACAAAAATTAATAATATCACCTAAAATCTATCAGAAAAAATTTGTCA
195 TAAAGTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTATAAAAAAAAATTTGTCA
* * * *
12160989 CAAATCAAATTTTAAATTGGTGATAAAATTATAACGTCACATAAAGTAAAAAACA--TCACAAAA
260 CAAATAAAATTTTAAATTGGTGACAAAATTATAACGTCACATAAAATAAAAAA-ATGTCATAAAA
* * *
12161052 ATATTTCCCACCAAATAAATTTGATGGTAAAA
324 AT-TTT-CCATCAAATAAAATTGATAGTAAAA
12161084 TTTGGCGGCA
Statistics
Matches: 703, Mismatches: 109, Indels: 31
0.83 0.13 0.04
Matches are distributed among these distances:
468 1 0.00
469 3 0.00
470 71 0.10
471 405 0.58
472 96 0.14
473 62 0.09
474 65 0.09
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (469 bp):
AAAATCTATAAAAAAAAATTTGTCACAGATAAAATTTTAAATTGGTGACAAAATTTAATGTCACA
TAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAATTTGGTGGTAAAAGTTTGTGACATT
TATATTATCATCATATAACACCATAAATTGATGTGACAAAATTGTAATGTCATTAATAGTTAACT
AAAGTGTTCAATTTGTGACAAAAATTAATAATGTCACCTAAAATCTATAAAAAAAAATTTGTCAC
AAATAAAATTTTAAATTGGTGACAAAATTATAACGTCACATAAAATAAAAAAATGTCATAAAAAT
TTTCCATCAAATAAAATTGATAGTAAAAGTTTATGACATTTATGTTATCGTCATATAACACCATA
AATAAACGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAATAGTTAATTTATGACAAAAAT
TAATAACATCACCT
Found at i:12160982 original size:707 final size:705
Alignment explanation
Indices: 12159786--12161083 Score: 1725
Period size: 707 Copynumber: 1.8 Consensus size: 705
12159776 ATTTATGACA
* * * * * *
12159786 AAAATTTATCAAAAAAAATTCATCACAGATAAAATTTTAAATTGGTGATAAAATTGTAACGTCAC
1 AAAATCTATAAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTATAACATCAC
* *
12159851 CTAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAAATTGGTGGTAAAAAGTCTGTGACA
66 CTAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAAATTGATAGTAAAAAGTCTGTGACA
* * ** * *
12159916 TTTATGTTATCATCATATAACATCAAACATTGATATGACAAAATTATAATGTTATTAATAATTAA
131 TTTATGTTATCATCATATAACACCAAAAATAAATATGACAAAATTACAATGTCATTAATAATTAA
* * * * *
12159981 CTAAAGTGTTCAATTTGTGACAAAAATTAATAACGTTACCTAAAATCTATCAAAAACTTTTTTGT
196 CTAAAATGTTCAATTTATGACAAAAATTAATAACATCACCTAAAATCTATCAAAAA--TATTTGT
* * * * *
12160046 TACAAATAAAAATTTAAATTGGGGACAAAATTATAATGTCACATAAGATAAAAAATGTCATAAAA
259 CACAAATAAAAATTTAAATTAGGGACAAAATTATAATGTCACATAAAATAAAAAACGTCAAAAAA
* * * ** *
12160111 ATTTTCCATCAAATAAATTTGGTGGTAAAAGTTTATTACATTTTTGTTATCGTCATATAACACTA
324 ATTTTCCACCAAATAAATTTGGTGGTAAAAGTTTATTACATTTATATTATAATCATATAACACCA
* *
12160176 TAAATTGACGTGACAAAATTGCAATGTCATTAATTGTTAACTAAAATATTTAATTTGTGACAAAA
389 TAAATTGACGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAATATTCAATTTGTGACAAAA
* *
12160241 ATTAATAACATTACCTAAAATCTATAAAAAAAAATTTGTCACACATAAAAATTTAAATTGGGGAC
454 ATTAATAACATCACCTAAAATCTATAAAAAAAAATTTGTCACAAATAAAAATTTAAATTGGGGAC
* * * * *
12160306 AAAATTATAATGTCACAT-AAGATAAAAAA-ATGTCATAAAAA-ATTTTCTATCAAATAAATTTG
519 AAAATTATAACGTCACATAAAG-TAAAAAACA--TCACAAAAATATTTCCCACCAAATAAATTTG
12160368 ACGGTAAAAGTTTATGACATTTATTTTATCGTCATATAACACCATAAATGGATGTGACAAAATTG
581 ACGGTAAAAGTTTATGACATTTATTTTATCGTCATATAACACCATAAATGGATGTGACAAAATTG
12160433 CAATGTCATTAATAGTTAACTAAAGTATTCAATTTGTGACAAAAATTAATAATGTCACCT
646 CAATGTCATTAATAGTTAACTAAAGTATTCAATTTGTGACAAAAATTAATAATGTCACCT
* *
12160493 AAAATCTATAAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACACATTTATAACATCAC
1 AAAATCTATAAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTATAACATCAC
* * *
12160558 TTAAAATAAAAAAATGTCATAAAAATTTTTTTCA-CAAACTAAAATTGATAGT-AAAAGTTTGTG
66 CTAAAAT-AAAAAATGTCATAAAAA-ATTTTTCACCAAA-TAAAATTGATAGTAAAAAGTCTGTG
* * * ** * *
12160621 ACATTTATGTTATCGTCATATAATACCATAAAATAAATGTGATGAAATTGCAATGTCATTAATAG
128 ACATTTATGTTATCATCATATAACACCA-AAAATAAATATGACAAAATTACAATGTCATTAATAA
* * *
12160686 TTAACTAAAATGTT-ACATTTATGATAAAAATTGATAACATCACCT-AAATCTATTAGAAAA-AT
192 TTAACTAAAATGTTCA-ATTTATGACAAAAATTAATAACATCACCTAAAATCTATCA-AAAATAT
* * * * *
12160748 TTGTCATAGATAAAATTTTAAATTAGTGACAAAATT-TAAATGTCACTTAAAATAAAAAACGTCA
255 TTGTCACAAATAAAAATTTAAATTAGGGACAAAATTAT-AATGTCACATAAAATAAAAAACGTCA
* * *
12160812 CAAAAAATTTTTCACCGAATAAATTTGGTGGTAAAAGTTTGTGT-CATTTATATTATAATCATAT
319 -AAAAAATTTTCCACCAAATAAATTTGGTGGTAAAAGTTTAT-TACATTTATATTATAATCATAT
* * * * *
12160876 AACACCATACATTGATGTGACAAAATTGTAATGTCATTAATAGTTAACTAAAGTGTTCAATTTGT
382 AACACCATAAATTGACGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAATATTCAATTTGT
* * * * *
12160941 GACAAAAATTAATAATATCACCTAAAATCTATCAGAAAAAATTTGTCACAAATCAAATTTTAAAT
447 GACAAAAATTAATAACATCACCTAAAATCTATAAAAAAAAATTTGTCACAAATAAAAATTTAAAT
* *
12161006 TGGTGATAAAATTATAACGTCACATAAAGTAAAAAACATCACAAAAATATTTCCCACCAAATAAA
512 TGGGGACAAAATTATAACGTCACATAAAGTAAAAAACATCACAAAAATATTTCCCACCAAATAAA
*
12161071 TTTGATGGTAAAA
577 TTTGACGGTAAAA
12161084 TTTGGCGGCA
Statistics
Matches: 504, Mismatches: 75, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
705 1 0.00
706 62 0.12
707 285 0.57
708 71 0.14
709 85 0.17
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (705 bp):
AAAATCTATAAAAAAAAATTCATCACAGATAAAATTTTAAATTAGTGACAAAATTATAACATCAC
CTAAAATAAAAAATGTCATAAAAAATTTTTCACCAAATAAAATTGATAGTAAAAAGTCTGTGACA
TTTATGTTATCATCATATAACACCAAAAATAAATATGACAAAATTACAATGTCATTAATAATTAA
CTAAAATGTTCAATTTATGACAAAAATTAATAACATCACCTAAAATCTATCAAAAATATTTGTCA
CAAATAAAAATTTAAATTAGGGACAAAATTATAATGTCACATAAAATAAAAAACGTCAAAAAAAT
TTTCCACCAAATAAATTTGGTGGTAAAAGTTTATTACATTTATATTATAATCATATAACACCATA
AATTGACGTGACAAAATTGCAATGTCATTAATAGTTAACTAAAATATTCAATTTGTGACAAAAAT
TAATAACATCACCTAAAATCTATAAAAAAAAATTTGTCACAAATAAAAATTTAAATTGGGGACAA
AATTATAACGTCACATAAAGTAAAAAACATCACAAAAATATTTCCCACCAAATAAATTTGACGGT
AAAAGTTTATGACATTTATTTTATCGTCATATAACACCATAAATGGATGTGACAAAATTGCAATG
TCATTAATAGTTAACTAAAGTATTCAATTTGTGACAAAAATTAATAATGTCACCT
Found at i:12162570 original size:30 final size:31
Alignment explanation
Indices: 12162530--12162587 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
12162520 TTATAAACTG
* *
12162530 ATGGCTTG-TTTTTGTTCAATAGGAATGATA
1 ATGGCATGTTTTTTATTCAATAGGAATGATA
*
12162560 ATGGCATGTTTTTTATTTAATAGGAATG
1 ATGGCATGTTTTTTATTCAATAGGAATG
12162588 TGGTACTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (31 bp):
ATGGCATGTTTTTTATTCAATAGGAATGATA
Found at i:12162929 original size:154 final size:154
Alignment explanation
Indices: 12162640--12162968 Score: 435
Period size: 154 Copynumber: 2.1 Consensus size: 154
12162630 TTGTTTTCTG
* * * * *
12162640 CAACAGGAATGCTAGCTTTTTGTAGGCTATATTTTGGATTATAATTGTATAAATGGATGTGGTCA
1 CAACAGGAATGCTAGCTTTTTATAAGCTATATTTTGGATTATAACTGTATAAATAGATGTGATCA
*
12162705 TTCTTACAATTCTAACATTATGTAAAGGCTATTTTCAAGGTTGTTTTTTGCAATAAAAATATGGC
66 TTCTTACAATTCTAACATTATGTAAAGGCTATTTTCAAGGTTGTTTTTTGCAATAAAAATATGAC
* * * *
12162770 TTTTGTTTATAAAGCTGTTTTTTT
131 CTTTGTTTACAAAGCTATTTTTTA
*
12162794 CAATAGGAATGCTAG-TTTTCTATAAGCTATATTTTGGATTATAACTGTATAAATAGATGTGATC
1 CAACAGGAATGCTAGCTTTT-TATAAGCTATATTTTGGATTATAACTGTATAAATAGATGTGATC
* * * * * * * ** *
12162858 ATTTTTACAATTCTGACATTGTGTAAAGGTTGTTTTTAAGGTTGTTTTTTGTAATAGGAATGTGA
65 ATTCTTACAATTCTAACATTATGTAAAGGCTATTTTCAAGGTTGTTTTTTGCAATAAAAATATGA
*
12162923 CCTTTGTTTACAAGGCTATTTTTTA
130 CCTTTGTTTACAAAGCTATTTTTTA
*
12162948 CAACAAGAATGCTAGCTTTTT
1 CAACAGGAATGCTAGCTTTTT
12162969 GCAAGCCTTA
Statistics
Matches: 149, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
153 4 0.03
154 141 0.95
155 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.44
Consensus pattern (154 bp):
CAACAGGAATGCTAGCTTTTTATAAGCTATATTTTGGATTATAACTGTATAAATAGATGTGATCA
TTCTTACAATTCTAACATTATGTAAAGGCTATTTTCAAGGTTGTTTTTTGCAATAAAAATATGAC
CTTTGTTTACAAAGCTATTTTTTA
Found at i:12164611 original size:30 final size:31
Alignment explanation
Indices: 12164559--12164623 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
12164549 ATTAGGGCTT
* ** *
12164559 AATTGGGATGAAAATATGTGTTTAAGGGTTC
1 AATTGGGATGAAAAAAAATGTTTAAGGGTAC
12164590 AATTGGG-TGAAAAAAAATGTTTAAGGGTAC
1 AATTGGGATGAAAAAAAATGTTTAAGGGTAC
12164620 AATT
1 AATT
12164624 TATGTGAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.32
Consensus pattern (31 bp):
AATTGGGATGAAAAAAAATGTTTAAGGGTAC
Found at i:12164637 original size:31 final size:30
Alignment explanation
Indices: 12164577--12164639 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
12164567 TGAAAATATG
* *
12164577 TGTTTAAGGGTTCAATTGGGTGAAAAAAAA
1 TGTTTAAGGGTACAATTAGGTGAAAAAAAA
*
12164607 TGTTTAAGGGTACAATTTATGTGAATAAAAAA
1 TGTTTAAGGGTACAA-TTAGGTGAA-AAAAAA
12164639 T
1 T
12164640 TTAGAGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 14 0.50
31 7 0.25
32 7 0.25
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.33
Consensus pattern (30 bp):
TGTTTAAGGGTACAATTAGGTGAAAAAAAA
Found at i:12165635 original size:42 final size:42
Alignment explanation
Indices: 12165589--12165671 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
12165579 TTCTTCCTTT
* *
12165589 TTTTTATTC-TAGTTTGTGAGTTGTGAGAACATAGGCAATGTC
1 TTTTT-TTCTTAGTTTGTGAGTTGTAAAAACATAGGCAATGTC
*
12165631 TTTTTTTCTTGGTTTGTGAGTTGTAAAAACATAGGCAATGT
1 TTTTTTTCTTAGTTTGTGAGTTGTAAAAACATAGGCAATGT
12165672 TTAATGAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (42 bp):
TTTTTTTCTTAGTTTGTGAGTTGTAAAAACATAGGCAATGTC
Found at i:12167969 original size:22 final size:22
Alignment explanation
Indices: 12167927--12167968 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
12167917 ATGACCTTAA
12167927 TTGATATTTAACTTTAATTTTC
1 TTGATATTTAACTTTAATTTTC
* *
12167949 TTGAT-TTTAATTTTGATTTT
1 TTGATATTTAACTTTAATTTT
12167969 TTTAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
TTGATATTTAACTTTAATTTTC
Found at i:12173470 original size:26 final size:24
Alignment explanation
Indices: 12173441--12173490 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
12173431 AATTCCTAAA
12173441 ATTTATTTATGAAAAAATATT-TTATT
1 ATTT-TTTAT-AAAAAA-ATTATTATT
*
12173467 ATTTTTTGTAAAAAAATTATTATT
1 ATTTTTTATAAAAAAATTATTATT
12173491 TTCACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 3 0.14
24 11 0.50
25 4 0.18
26 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTTTTATAAAAAAATTATTATT
Found at i:12174077 original size:9 final size:9
Alignment explanation
Indices: 12174060--12174099 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
12174050 CAAATAATCA
12174060 ATTTTTATT
1 ATTTTTATT
12174069 -TTATTTATT
1 ATT-TTTATT
12174078 ATTTTTATT
1 ATTTTTATT
12174087 ATTTTTATT
1 ATTTTTATT
12174096 -TTTT
1 ATTTT
12174100 AGCAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 21 0.72
10 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
ATTTTTATT
Found at i:12174100 original size:16 final size:16
Alignment explanation
Indices: 12174069--12174098 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
12174059 AATTTTTATT
12174069 TTATTTATTATTTTTA
1 TTATTTATTATTTTTA
12174085 TTATTT-TTATTTTT
1 TTATTTATTATTTTT
12174099 TAGCAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTATTATTTTTA
Found at i:12175345 original size:3 final size:3
Alignment explanation
Indices: 12175337--12175431 Score: 172
Period size: 3 Copynumber: 31.7 Consensus size: 3
12175327 TTAAATGATC
*
12175337 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12175385 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12175432 CAATTATTCC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12175976 original size:32 final size:33
Alignment explanation
Indices: 12175917--12176007 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
12175907 AGACCAATAT
12175917 ACTTTAAAAACTCTTCTAACTAAAGGCTATAAC
1 ACTTTAAAAACTCTTCTAACTAAAGGCTATAAC
*
12175950 ACTTTAAAAACT-TTCTAAC-AAGAGGCTATAAT
1 ACTTTAAAAACTCTTCTAACTAA-AGGCTATAAC
*
12175982 ACTTGAAAAACTCCTT-TAACTAAAGG
1 ACTTTAAAAACT-CTTCTAACTAAAGG
12176008 AAATGATACT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
31 2 0.04
32 27 0.52
33 19 0.37
34 4 0.08
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (33 bp):
ACTTTAAAAACTCTTCTAACTAAAGGCTATAAC
Found at i:12176275 original size:34 final size:34
Alignment explanation
Indices: 12176189--12176280 Score: 96
Period size: 34 Copynumber: 2.7 Consensus size: 34
12176179 TTAAAAACGT
* * * *
12176189 CTCTAACCAGAGGTTGTGATACTTTAAAAAATTC
1 CTCTAACCAAAGGTTATGATACTTGAAAAAATCC
** *
12176223 CTCTAACCAAAGCCTATGATACTTGAATAAA-CC
1 CTCTAACCAAAGGTTATGATACTTGAAAAAATCC
*
12176256 CTTCTAACCAAAGGTTATGAAACTT
1 C-TCTAACCAAAGGTTATGATACTT
12176281 TTAAAGATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 2 0.04
34 45 0.96
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (34 bp):
CTCTAACCAAAGGTTATGATACTTGAAAAAATCC
Found at i:12176519 original size:33 final size:34
Alignment explanation
Indices: 12176482--12176553 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 34
12176472 TAAAAATTTC
* * *
12176482 TCTAACT-AGAGGTGATGGTTTTTGAATGATTCA
1 TCTAACTCAAAGGTGATGATTTTTGAAAGATTCA
12176515 TCTAA-TCAAAGGTGATGATTTTTGAAAGATTCA
1 TCTAACTCAAAGGTGATGATTTTTGAAAGATTCA
12176548 TCTAAC
1 TCTAAC
12176554 CAGGGGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 33 0.97
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (34 bp):
TCTAACTCAAAGGTGATGATTTTTGAAAGATTCA
Found at i:12177340 original size:44 final size:44
Alignment explanation
Indices: 12177291--12177390 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
12177281 GCTAAAAAAA
12177291 ACTTTGAAATTATGTCC-AAAAGACTTTAAAACTACGCTTGGAGG
1 ACTTTGAAATTAT-TCCTAAAAGACTTTAAAACTACGCTTGGAGG
* * * * * *
12177335 TCTTTGTAATTATTCCTGAAAGATTTTAAAATTATGCTTGGAGG
1 ACTTTGAAATTATTCCTAAAAGACTTTAAAACTACGCTTGGAGG
12177379 ACTTTGAAATTA
1 ACTTTGAAATTA
12177391 GCTCAAAAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.06
44 44 0.94
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (44 bp):
ACTTTGAAATTATTCCTAAAAGACTTTAAAACTACGCTTGGAGG
Found at i:12177388 original size:22 final size:22
Alignment explanation
Indices: 12177312--12177390 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 22
12177302 ATGTCCAAAA
* *
12177312 GACTTTAAAACTACGCTTGGAG
1 GACTTTAAAATTATGCTTGGAG
* ** * * * *
12177334 GTCTTTGTAATTATTCCTGAAA
1 GACTTTAAAATTATGCTTGGAG
*
12177356 GATTTTAAAATTATGCTTGGAG
1 GACTTTAAAATTATGCTTGGAG
*
12177378 GACTTTGAAATTA
1 GACTTTAAAATTA
12177391 GCTCAAAAGT
Statistics
Matches: 38, Mismatches: 19, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (22 bp):
GACTTTAAAATTATGCTTGGAG
Found at i:12178005 original size:40 final size:40
Alignment explanation
Indices: 12177890--12178235 Score: 256
Period size: 40 Copynumber: 8.8 Consensus size: 40
12177880 TACCTTTTCA
* * * * *
12177890 ATGATACAGATGCAATGATGTAAATGCGAATGTCATTCTC
1 ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
* * * *
12177930 ATGATGTAGATGCAAATGGTGCAAATGCAAATGTCTTTCTT
1 ATGATGCAAATGC-AATGATGCAAATGCGAATGTCTTTCTT
* * * *
12177971 ATGATGCAAATGCAATAATGGAAATGGGAATGTCTTTCTC
1 ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
* * *
12178011 AT-AT----A--CAATAATGCAAATGCGATTGTCTTTCTC
1 ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
* * * * * *
12178044 ATTATGTAAATACAAGTGATGGAAATACGAATGTCTTTATT
1 ATGATGCAAATGCAA-TGATGCAAATGCGAATGTCTTTCTT
* * * * * *
12178085 TTGCTACAAATGCAATGATGCAAATACGAATGTTTTTGTT
1 ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
* * * * * *
12178125 ATGATGTAGATGCAATGATACAAATGTGAATATCTTTATT
1 ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
* * * *
12178165 ATGATGCAAATGCGATGATGTAAATACGAATGTCTTTGTT
1 ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
* * *
12178205 ATGATACAGATGCAATGATGCAAATGTGAAT
1 ATGATGCAAATGCAATGATGCAAATGCGAAT
12178236 AATCAGTTAC
Statistics
Matches: 238, Mismatches: 59, Indels: 18
0.76 0.19 0.06
Matches are distributed among these distances:
33 27 0.11
34 2 0.01
35 1 0.00
38 1 0.00
39 2 0.01
40 144 0.61
41 61 0.26
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (40 bp):
ATGATGCAAATGCAATGATGCAAATGCGAATGTCTTTCTT
Found at i:12178020 original size:33 final size:33
Alignment explanation
Indices: 12177983--12178045 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
12177973 GATGCAAATG
* *
12177983 CAATAATGGAAATGGGAATGTCTTTCTCATATA
1 CAATAATGCAAATGCGAATGTCTTTCTCATATA
*
12178016 CAATAATGCAAATGCGATTGTCTTTCTCAT
1 CAATAATGCAAATGCGAATGTCTTTCTCAT
12178046 TATGTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATAATGCAAATGCGAATGTCTTTCTCATATA
Found at i:12178077 original size:114 final size:114
Alignment explanation
Indices: 12177902--12178109 Score: 254
Period size: 114 Copynumber: 1.8 Consensus size: 114
12177892 GATACAGATG
* * * * * *
12177902 CAATGATGTAAATGCGAATGTCATTCTCATGATGTAGATGCAAATGGTGCAAATGCAAATGTCTT
1 CAATAATGCAAATGCGAATGTCATTCTCATGATGTAAATACAAATGATGCAAATACAAATGTCTT
* * *
12177967 TCTTATGATGCAAATGCAATAATGGAAATGGGAATGTCTTTCTCATATA
66 TATTATGATACAAATGCAATAATGCAAATGGGAATGTCTTTCTCATATA
* * * * * *
12178016 CAATAATGCAAATGCGATTGTCTTTCTCATTATGTAAATACAAGTGATGGAAATACGAATGTCTT
1 CAATAATGCAAATGCGAATGTCATTCTCATGATGTAAATACAAATGATGCAAATACAAATGTCTT
* * *
12178081 TATTTTGCTACAAATGCAATGATGCAAAT
66 TATTATGATACAAATGCAATAATGCAAAT
12178110 ACGAATGTTT
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
114 76 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (114 bp):
CAATAATGCAAATGCGAATGTCATTCTCATGATGTAAATACAAATGATGCAAATACAAATGTCTT
TATTATGATACAAATGCAATAATGCAAATGGGAATGTCTTTCTCATATA
Found at i:12180486 original size:13 final size:13
Alignment explanation
Indices: 12180468--12180492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12180458 AATTTATTTA
12180468 TATAATGTCAAAG
1 TATAATGTCAAAG
12180481 TATAATGTCAAA
1 TATAATGTCAAA
12180493 CATATATAGA
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:0.08, G:0.12, T:0.32
Consensus pattern (13 bp):
TATAATGTCAAAG
Found at i:12182585 original size:25 final size:26
Alignment explanation
Indices: 12182552--12182601 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
12182542 AGAATCGGGA
*
12182552 AAAT-TTTTTTTGGAGATTTTTGGTG
1 AAATCTTTTTTTGGAAATTTTTGGTG
12182577 AAATCTTTTTTTTGGAAATTTTTGG
1 AAATC-TTTTTTTGGAAATTTTTGG
12182602 AAAATTTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
27 18 0.82
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.56
Consensus pattern (26 bp):
AAATCTTTTTTTGGAAATTTTTGGTG
Found at i:12183182 original size:11 final size:10
Alignment explanation
Indices: 12183168--12183224 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
12183158 TTTAATATTC
12183168 TTTTATCTTTA
1 TTTT-TCTTTA
*
12183179 TTTTATTTTTA
1 TTTT-TCTTTA
*
12183190 TTTTTGTTTTA
1 TTTTT-CTTTA
*
12183201 CTTTTCTTTA
1 TTTTTCTTTA
12183211 TTTTT-TTTA
1 TTTTTCTTTA
12183220 TTTTT
1 TTTTT
12183225 TTATTTTCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 9 0.22
10 9 0.22
11 23 0.56
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:12183185 original size:5 final size:5
Alignment explanation
Indices: 12183149--12183261 Score: 67
Period size: 5 Copynumber: 22.4 Consensus size: 5
12183139 AATTATTAGA
* * * *
12183149 TTATGT TTATT TAATA TTCTT TTATCT TTATT TTATTT TTATTT TTGTT
1 TTAT-T TTATT TTATT TTATT TTAT-T TTATT TTA-TT TTA-TT TTATT
*
12183198 TTACTT TT-CT TTATT TT-TT TTA-T TT-TT TTATT TTCACTT TTATT
1 TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT TT-A-TT TTATT
*
12183242 TTGTT TTA-- TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TT
12183262 CTTTAAATAA
Statistics
Matches: 84, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
3 3 0.04
4 13 0.15
5 39 0.46
6 25 0.30
7 4 0.05
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:12183188 original size:17 final size:17
Alignment explanation
Indices: 12183168--12183251 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 17
12183158 TTTAATATTC
12183168 TTTTATCTTTATTTTAT
1 TTTTATCTTTATTTTAT
* *
12183185 TTTTATTTTTGTTTTA-
1 TTTTATCTTTATTTTAT
*
12183201 CTTT-TCTTTATTTT-T
1 TTTTATCTTTATTTTAT
* * *
12183216 TTTATTTTTTTATTTTCAC
1 TTT-TATCTTTATTTT-AT
*
12183235 TTTTAT-TTTGTTTTAT
1 TTTTATCTTTATTTTAT
12183251 T
1 T
12183252 ATTTTATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
15 10 0.20
16 6 0.12
17 30 0.59
18 2 0.04
19 3 0.06
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATCTTTATTTTAT
Found at i:12183249 original size:30 final size:29
Alignment explanation
Indices: 12183163--12183262 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 29
12183153 GTTTATTTAA
*
12183163 TATTCTTTTATCTTT-A-TTTTATTTTTATT
1 TATTATTTTAT-TTTCACTTTTATTTTT-TT
*
12183192 T-TTGTTTTACTTTT--C-TTTATTTTTTT
1 TATTATTTTA-TTTTCACTTTTATTTTTTT
*
12183218 TATTTTTTTATTTTCACTTTTATTTTGTTT
1 TATTATTTTATTTTCACTTTTATTTT-TTT
12183248 TATTATTTTATTTTC
1 TATTATTTTATTTTC
12183263 TTTAAATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
26 7 0.11
27 16 0.26
28 11 0.18
29 10 0.16
30 17 0.28
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (29 bp):
TATTATTTTATTTTCACTTTTATTTTTTT
Found at i:12183254 original size:33 final size:31
Alignment explanation
Indices: 12183167--12183256 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 31
12183157 ATTTAATATT
* *
12183167 CTTTTATCTTTATTTTATTTTTATTTTTGTTTTA
1 CTTTTAT-TTT-TTTTATTATT-TTTTTATTTTA
* *
12183201 CTTTTCTTTATTTTTTTTATTTTTTTATTTTCA
1 CTTTTATTT-TTTTTATTATTTTTTTATTTT-A
12183234 CTTTTATTTTGTTTTATTATTTT
1 CTTTTATTTT-TTTTATTATTTT
12183257 ATTTTCTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 10 0.21
33 30 0.64
34 7 0.15
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (31 bp):
CTTTTATTTTTTTTATTATTTTTTTATTTTA
Found at i:12183266 original size:17 final size:17
Alignment explanation
Indices: 12183175--12183266 Score: 71
Period size: 18 Copynumber: 5.0 Consensus size: 17
12183165 TTCTTTTATC
12183175 TTTATTTTATTTTTATT-
1 TTTATTTTATTTTT-TTA
*
12183192 TTTGTTTTACTTTTCTTTA
1 TTTATTTTA-TTTT-TTTA
*
12183211 TTTTTTTTATTTTTTTA
1 TTTATTTTATTTTTTTA
12183228 TTTTCACTTTTATTTTGTTT-
1 -TTT-A-TTTTATTTT-TTTA
12183248 TATTATTTTATTTTCTTTA
1 T-TTATTTTATTTT-TTTA
12183267 AATAAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
17 12 0.19
18 25 0.40
19 11 0.18
20 11 0.18
21 3 0.05
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTTTTTA
Found at i:12183361 original size:58 final size:57
Alignment explanation
Indices: 12183276--12183789 Score: 498
Period size: 58 Copynumber: 8.7 Consensus size: 57
12183266 AAATAAAATA
* *
12183276 AAAAAAAGGTTTTTGAGGAAAAGTTGAAATTATCAAATTTTCTTAAAAATAAATTTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCTTAAAAATAAATTTTC
* *
12183334 AAAAGAAGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC
* *
12183392 AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAA
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAATTTT-C
* * * * ** * *
12183451 AAAAAAAGGTTTTTTTTTTTAGGAAAAGTTGAAAATATTAATTTTCCTCGAAATTAAAAGTTTC
1 AAAAAAA-G----ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAAT-AAATTTTC
* * *
12183515 CAAAAAATATTTTCG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC
* * ** *
12183573 TAAAAAAAAAGA-TTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGTTTTC
1 ---AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCTTAAAAATAAA-TTTTC
* *
12183634 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTC
1 -AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC
** ** * * *
12183693 --AAAGGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAGATTAAAATTTC
1 AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAATTTTC
* *
12183749 TAAAAAA-ATATTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAAGAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTC
12183790 CCTGCCCAAA
Statistics
Matches: 378, Mismatches: 55, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
56 42 0.11
57 17 0.04
58 133 0.35
59 61 0.16
60 61 0.16
61 18 0.05
63 4 0.01
64 36 0.10
65 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (57 bp):
AAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTTC
Found at i:12183407 original size:116 final size:116
Alignment explanation
Indices: 12183275--12183789 Score: 576
Period size: 116 Copynumber: 4.4 Consensus size: 116
12183265 TAAATAAAAT
* * *
12183275 AAAAAAAAGGTTTTTGAGGAAAAGTTGAAATTATCAAATTTTCTTAAAAATAAATTTTCAAAAGA
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCTTAAAAATAAATTTTCAAAAAA
* ** *
12183340 AGATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
65 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
* *
12183392 -AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAA
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTAAAAATAAATTTT-CAAAAA
* * * * *
12183456 AAGGTTTTTTTTTTTAGGAAAAGTTGAAAATATTAATTTTCCTCGAAATTAAAAGTTTC
64 AA-G----ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAATTTTC
* * *
12183515 -CAAAAAATATTTTCG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCTAAAA
1 AAAAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTC---AA
* *
12183578 AAAAAGA-TTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGTTTTC
61 AAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAA-TTTTC
* * *
12183634 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTC--AAAG
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTAAAAATAAATTTTCAAAAAA
* * * *
12183697 GGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAGATTAAAATTTC
65 AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
* * *
12183749 TAAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
12183790 CCTGCCCAAA
Statistics
Matches: 347, Mismatches: 34, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
113 1 0.00
114 29 0.08
115 20 0.06
116 92 0.27
117 6 0.02
118 4 0.01
119 39 0.11
120 52 0.15
121 2 0.01
122 42 0.12
123 52 0.15
124 1 0.00
125 7 0.02
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (116 bp):
AAAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAATAAATTTTCAAAAAAA
GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTC
Found at i:12183818 original size:114 final size:116
Alignment explanation
Indices: 12183465--12183792 Score: 317
Period size: 120 Copynumber: 2.8 Consensus size: 116
12183455 AAAGGTTTTT
* * * * * *
12183465 TTTTTTAGGAAAAGTTGAAAATATTAATTTTCCTCGAAATTAAA-AGTTTC-CAAAAAATATTTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGA-TTTCAAAAAAAATATTTT
* * * ** **
12183528 CG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCTAAAAAAAAAGA
65 TGAGG-AAAAGTTGAAAGTATCAATTTTCCCTAAACATAAA----C-AATCAAACGGA
*
12183585 -TTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGTTTTCAAAAAAAATATTTTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGATTTCAAAAAAAATATTTTT
* * *** *
12183649 GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATAAATTTTCAAAGGGA
66 GAGGAAAAGTTGAAAGTATCAATTTTCCCTAAACATAAACAATCAAACGGA
* * * * *
12183700 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAGATTAAA-ATTTCTAAAAAAATA-TTTT
1 TTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGATTTCAAAAAAAATATTTTT
*
12183763 GGGGAAAAGTTGAAAGTATCAATTTTCCCT
66 GAGGAAAAGTTGAAAGTATCAATTTTCCCT
12183793 GCCCAAAAGC
Statistics
Matches: 180, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
114 32 0.18
115 18 0.10
116 39 0.22
119 42 0.23
120 47 0.26
121 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (116 bp):
TTTTTGAGAAAAAGTTGAAAGTATCAAATTTCCTCGAAATTAAAGATTTCAAAAAAAATATTTTT
GAGGAAAAGTTGAAAGTATCAATTTTCCCTAAACATAAACAATCAAACGGA
Found at i:12194210 original size:8 final size:9
Alignment explanation
Indices: 12194194--12194248 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
12194184 ATACTATGCT
12194194 TGAAAAAAA
1 TGAAAAAAA
12194203 TGAAAAAAA
1 TGAAAAAAA
12194212 T-AAAAAAA
1 TGAAAAAAA
12194220 T--AAAAAA
1 TGAAAAAAA
12194227 TGAAAAAAA
1 TGAAAAAAA
*
12194236 AGAAAAAAA
1 TGAAAAAAA
12194245 TGAA
1 TGAA
12194249 TGAAAAAGGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.17
8 8 0.19
9 27 0.64
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:12194216 original size:7 final size:8
Alignment explanation
Indices: 12194196--12194245 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
12194186 ACTATGCTTG
12194196 AAAAAAAT
1 AAAAAAAT
12194204 GAAAAAAAT
1 -AAAAAAAT
12194213 AAAAAAAT
1 AAAAAAAT
12194221 -AAAAAAT
1 AAAAAAAT
*
12194228 GAAAAAAAAG
1 --AAAAAAAT
12194238 AAAAAAAT
1 AAAAAAAT
12194246 GAATGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 7 0.19
8 15 0.42
9 8 0.22
10 6 0.17
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:12194229 original size:24 final size:25
Alignment explanation
Indices: 12194197--12194245 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
12194187 CTATGCTTGA
*
12194197 AAAAAATG-AAAAAAATAAAAAAAT
1 AAAAAATGAAAAAAAAGAAAAAAAT
12194221 AAAAAATGAAAAAAAAGAAAAAAAT
1 AAAAAATGAAAAAAAAGAAAAAAAT
12194246 GAATGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (25 bp):
AAAAAATGAAAAAAAAGAAAAAAAT
Found at i:12195302 original size:41 final size:41
Alignment explanation
Indices: 12195252--12195360 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
12195242 ATGATTGTCA
12195252 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
12195293 AGGAACAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
12195334 AGGAGCAATTTA-TTTTCTAAAGTCGTG
1 AGGAGCAATTTACTTTTC-AAAGTCGTG
12195361 CAATTTACTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 4 0.06
41 59 0.94
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:12195366 original size:22 final size:23
Alignment explanation
Indices: 12195338--12195383 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
12195328 GTTTAGAGGA
12195338 GCAATTTA--TTTTCTAAAGTCGT
1 GCAATTTACTTTTTC-AAAGTCGT
12195360 GCAATTTACTTTTTCAAAGTCGT
1 GCAATTTACTTTTTCAAAGTCGT
12195383 G
1 G
12195384 GTGCCTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.36
23 9 0.41
24 5 0.23
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (23 bp):
GCAATTTACTTTTTCAAAGTCGT
Found at i:12195450 original size:105 final size:106
Alignment explanation
Indices: 12195256--12195466 Score: 309
Period size: 105 Copynumber: 2.0 Consensus size: 106
12195246 TTGTCAAGGA
* *
12195256 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAACAATTTACTTTCCAAAGTCGTGG
1 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTACAGGAACAATTTACTTTCCAAAATCGTGG
* * *
12195321 TGCCTCTGTTTAGAGGAGCAATTTAT-TTTCT-AAAGTCGT
66 AGCCTCGGATTAGAGGAGCAATTTATGTTTCTCAAAGTCGT
* * * *
12195360 GCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTACAGGAGCAATTTATTTTTCAAAATCGTT
1 GCAATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTACAGGAACAATTTACTTTCCAAAATCGTG
*
12195425 GAGCCTCGGATTAGAGGAGCCATTTATGTTTCTCAAAGTCGT
65 GAGCCTCGGATTAGAGGAGCAATTTATGTTTCTCAAAGTCGT
12195467 TGAGCCTCTG
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
104 9 0.10
105 72 0.77
106 5 0.05
107 8 0.09
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (106 bp):
GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTACAGGAACAATTTACTTTCCAAAATCGTGG
AGCCTCGGATTAGAGGAGCAATTTATGTTTCTCAAAGTCGT
Found at i:12195472 original size:43 final size:41
Alignment explanation
Indices: 12195360--12195487 Score: 157
Period size: 41 Copynumber: 3.0 Consensus size: 41
12195350 CTAAAGTCGT
* * * *
12195360 GCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTACAGGA
1 GCAATTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
* *
12195402 GCAATTTATTTTTCAAAATCGTTGAGCCTCGGATTAGAGGA
1 GCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
* *
12195443 GCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGA
1 GCAATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGA
12195486 GC
1 GC
12195488 TTCGGTCAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
41 35 0.47
42 11 0.15
43 28 0.38
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
GCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
Found at i:12195691 original size:6 final size:6
Alignment explanation
Indices: 12195682--12195741 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
12195672 TATTTTCTTT
* * *
12195682 TTTTTA TTTTT- TTTGTA TTTTACA TTTTTA -TTTTA TTTCTA TTTATTA
1 TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA TTT-TTA
12195730 -TTTTA TTTTTA T
1 TTTTTA TTTTTA T
12195742 ATATATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
5 12 0.28
6 24 0.56
7 7 0.16
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:12195752 original size:24 final size:23
Alignment explanation
Indices: 12195707--12195752 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
12195697 TATTTTACAT
* * *
12195707 TTTTATTTTATTTCTATTTATTA
1 TTTTATTTTATATATATATATTA
12195730 TTTTATTTTTATATATATATATT
1 TTTTA-TTTTATATATATATATT
12195753 TTTCTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTATTTTATATATATATATTA
Found at i:12195754 original size:21 final size:21
Alignment explanation
Indices: 12195710--12195827 Score: 70
Period size: 21 Copynumber: 5.7 Consensus size: 21
12195700 TTTACATTTT
*
12195710 TATTTTATTTCTAT-T-TAT-
1 TATTTTATTTTTATATATATA
12195728 TATTTTATTTTTATATATATA
1 TATTTTATTTTTATATATATA
* **
12195749 TATTTT-TCTTTTATCT-TAGG
1 TATTTTAT-TTTTATATATATA
* *
12195769 TA-TTTATTATTTATTTATTTA
1 TATTTTATT-TTTATATATATA
12195790 TCATTATTATTTATTA-ATATATA
1 T-ATT-TTATTT-TTATATATATA
*
12195813 TATCTTTATTATTAT
1 TAT-TTTATTTTTAT
12195828 CTTTTTCTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
18 13 0.17
19 5 0.07
20 15 0.20
21 18 0.24
22 8 0.11
23 9 0.12
24 8 0.11
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTTTATTTTTATATATATA
Found at i:12195803 original size:25 final size:25
Alignment explanation
Indices: 12195772--12195825 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 25
12195762 TCTTAGGTAT
12195772 TTATTATTTATT--TAT-T-TATCA
1 TTATTATTTATTAATATATATATCA
*
12195793 TTATTATTTATTAATATATATATCT
1 TTATTATTTATTAATATATATATCA
12195818 TTATTATT
1 TTATTATT
12195826 ATCTTTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.43
23 3 0.11
24 1 0.04
25 12 0.43
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
TTATTATTTATTAATATATATATCA
Found at i:12195909 original size:22 final size:20
Alignment explanation
Indices: 12195884--12195951 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 20
12195874 TTATATGTTA
12195884 TAATTTATCTGTTATTTAATTT
1 TAATTTATCTG-TATTT-ATTT
12195906 TAATTTATCTGGTAATTT-TTT
1 TAATTTATCT-GT-ATTTATTT
12195927 T-ATTTATCTG-ATTTATTT
1 TAATTTATCTGTATTTATTT
*
12195945 TCATTTA
1 TAATTTA
12195952 ATTTTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.10
18 4 0.10
19 6 0.14
20 8 0.19
21 4 0.10
22 11 0.26
23 5 0.12
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (20 bp):
TAATTTATCTGTATTTATTT
Found at i:12196275 original size:24 final size:24
Alignment explanation
Indices: 12196223--12196281 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
12196213 AGGAATCGAA
*
12196223 AAAAGTTTTTTTGGAGATTTTTGACG
1 AAAA-TTTTTTTGGAAATTTTTGA-G
*
12196249 AAATTTTTTTCTGGAAATTTTTG-G
1 AAAATTTTTT-TGGAAATTTTTGAG
12196273 AAAATTTTT
1 AAAATTTTT
12196282 AGATTCCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 9 0.31
25 6 0.21
26 14 0.48
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (24 bp):
AAAATTTTTTTGGAAATTTTTGAG
Found at i:12196281 original size:26 final size:24
Alignment explanation
Indices: 12196228--12196281 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
12196218 TCGAAAAAAG
*
12196228 TTTTTTTGGAGATTTTTGACGAAAT
1 TTTTTTTGGAAATTTTTGAC-AAAT
12196253 TTTTTTCTGGAAATTTTTGGA-AAAT
1 TTTTTT-TGGAAATTTTT-GACAAAT
12196278 TTTT
1 TTTT
12196282 AGATTCCAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 14 0.54
26 10 0.38
27 2 0.08
ACGTcount: A:0.24, C:0.04, G:0.17, T:0.56
Consensus pattern (24 bp):
TTTTTTTGGAAATTTTTGACAAAT
Found at i:12196848 original size:5 final size:5
Alignment explanation
Indices: 12196786--12196923 Score: 61
Period size: 5 Copynumber: 26.6 Consensus size: 5
12196776 CTCCAGGTTA
* * * * *
12196786 TTTA- TTTA- TTTAT TTTAAT TATTAG ATTAT GTTTAT TTAAT ATTCT
1 TTTAT TTTAT TTTAT TTT-AT T-TTAT TTTAT -TTTAT TTTAT TTTAT
* * *
12196832 TTTAT CTTTAT TTTATT TTTATT TTTGT TTTACT TTT-C TTTAT TTTTT
1 TTTAT -TTTAT TTTA-T TTTA-T TTTAT TTTA-T TTTAT TTTAT TTTAT
* *
12196880 TATTTT TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 T-TTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
12196924 CTTTAAATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
3 3 0.03
4 11 0.11
5 49 0.48
6 34 0.33
7 6 0.06
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:12196872 original size:32 final size:33
Alignment explanation
Indices: 12196836--12196923 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 33
12196826 TATTCTTTTA
*
12196836 TCTTTATTTTATTTTTATTTTTGTTTT-ACTTT
1 TCTTTATTTTATTTTTATTTTTATTTTCACTTT
12196868 TCTTTATTTT-TTTATT-TTTTTATTTTCACTTT
1 TCTTTATTTTATTT-TTATTTTTATTTTCACTTT
* *
12196900 TATTTTGTTTTATTATTTTATTTT
1 T-CTTTATTTTA-T-TTTTATTTT
12196924 CTTTAAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
31 12 0.26
32 18 0.39
33 7 0.15
35 3 0.07
36 6 0.13
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (33 bp):
TCTTTATTTTATTTTTATTTTTATTTTCACTTT
Found at i:12197001 original size:58 final size:58
Alignment explanation
Indices: 12196937--12197336 Score: 385
Period size: 58 Copynumber: 6.7 Consensus size: 58
12196927 TAAATAAAAT
*
12196937 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTC
* *
12196995 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTC
* * * * *
12197053 AAAAAAAAAGGTTTTTTTTTAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAAGTTTC
1 -AAAAAAAA-G---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAATTTTC
* * * * **
12197117 -CAAAAAA-TATTTTCAGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAA
1 AAAAAAAAGT-TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTC
* * * *
12197175 AAAAAAAAGGTTTTTTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
1 AAAAAAAA-G----TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAA-TTTTC
* * * * * * *
12197239 AAAAAAAATATTTTTGAAGAAAAGTTAAAAGTATCAATTTTCCTCGAGATTAAAATTTC
1 AAAAAAAA-GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTC
* *
12197298 -TAAAAAA-TATTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAAGT-TTTTGAGGAAAAGTTGAAAGTATCAATTTT
12197337 TCCTGCACAA
Statistics
Matches: 288, Mismatches: 37, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.00
57 28 0.10
58 74 0.26
59 46 0.16
60 40 0.14
62 6 0.02
63 68 0.24
64 24 0.08
65 1 0.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.36
Consensus pattern (58 bp):
AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTC
Found at i:12197167 original size:122 final size:120
Alignment explanation
Indices: 12196946--12197282 Score: 462
Period size: 122 Copynumber: 2.8 Consensus size: 120
12196936 TAAAAAAAAG
* ** * * *
12196946 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAAAGTTTTTG
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATA-TTTTTG
* * *
12197010 AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGG-TTT
65 A-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTAAAAAAAAAAGGTTTT
* *
12197067 TTTTTTAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAAGTTTCCAAAAAATATTTTCA
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTCCAAAAAATATTTT-T
12197132 GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAAGGTTTT
64 GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAAGGTTTT
* *
12197189 TTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAATATTTTT
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTC-CAAAAAATATTTTT
*
12197254 GAAGAAAAGTTAAAAGTATCAATTTTCCT
64 GAA-AAAAGTTGAAAGTATCAATTTTCCT
12197283 CGAGATTAAA
Statistics
Matches: 193, Mismatches: 16, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
121 54 0.28
122 90 0.47
123 49 0.25
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (120 bp):
TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCCAAAAAATATTTTTGA
AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTAAAAAAAAAAGGTTTT
Found at i:12197303 original size:122 final size:121
Alignment explanation
Indices: 12196946--12197336 Score: 451
Period size: 122 Copynumber: 3.3 Consensus size: 121
12196936 TAAAAAAAAG
* ** * *
12196946 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTCAAAAAAAA-GTTTTT
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAATATTTTT
* * *
12197009 GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGGTTT
66 GAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC--AAAAAAAGGTTT
* *
12197067 TTTTTTAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAAG-TTTC-CAAAAAATATTTT
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTTCAAAAAAAATATTTT
* *
12197130 CAGAA-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTAAAAAAAAAAGGTTTT
65 -TGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT--CAAAAAAAGG-TTT
*
12197189 TTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAATATTTTT
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAATATTTTT
* ** * * *
12197254 GAAGAAAAGTTAAAAGTATCAATTTTCCTCGAGATTAAAATTTCTAAAAAA----T
66 GAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTT
* **
12197306 ATTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 TTTTTTAGGAAAAGTTGAAAGTATCAATTTT
12197337 TCCTGCACAA
Statistics
Matches: 232, Mismatches: 27, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
117 28 0.12
121 60 0.26
122 97 0.42
123 41 0.18
124 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (121 bp):
TTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCAAAAAAAATATTTTT
GAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGTTT
Found at i:12197340 original size:58 final size:57
Alignment explanation
Indices: 12196938--12197336 Score: 336
Period size: 63 Copynumber: 6.7 Consensus size: 57
12196928 AAATAAAATA
* *
12196938 AAAAAAAGT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAA-TATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTC
* * *
12196995 AAAAAAA-AGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAATA--TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTC
* * * * *
12197053 AAAAAAAAAGGTTTTTTTTTAGGAAAAGTTGAAAGTATTAATTTTCCTCGAAATTAAAAGTTTC
1 --AAAAAAA----TATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAA-TTTC
* * * * *
12197117 CAAAAAATATTTTCAGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTAAA
1 AAAAAAATATTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTT--C
* * * * * *
12197176 AAAAAAAGGTTTTTTTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTC
1 AAAAAAA-----TATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAA-ATTTC
* * * * *
12197239 AAAAAAAATATTTTTGAAGAAAAGTTAAAAGTATCAATTTTCCTCGAGATTAAAATTTC
1 -AAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTC
* *
12197298 TAAAAAATATTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTT
12197337 TCCTGCACAA
Statistics
Matches: 282, Mismatches: 37, Indels: 46
0.77 0.10 0.13
Matches are distributed among these distances:
57 37 0.13
58 65 0.23
59 39 0.14
60 45 0.16
62 6 0.02
63 67 0.24
64 20 0.07
65 3 0.01
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (57 bp):
AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAATTTC
Found at i:12198364 original size:15 final size:14
Alignment explanation
Indices: 12198327--12198364 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
12198317 TGAACTCTTT
12198327 AAATTT-TTTTTAA
1 AAATTTATTTTTAA
12198340 AAATTATATTTTTAA
1 AAATT-TATTTTTAA
12198355 AAGATTTATT
1 AA-ATTTATT
12198365 CAAATAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.23
14 1 0.05
15 13 0.59
16 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
AAATTTATTTTTAA
Found at i:12199637 original size:22 final size:23
Alignment explanation
Indices: 12199612--12199656 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
12199602 GGAAAGAAGA
*
12199612 AAAAC-AAATTTCTGGCAGCTTG
1 AAAACAAAATTTCTGACAGCTTG
12199634 AAAACAAAATTTCTGACAGCTTG
1 AAAACAAAATTTCTGACAGCTTG
12199657 GTTTCAGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.27
Consensus pattern (23 bp):
AAAACAAAATTTCTGACAGCTTG
Found at i:12207418 original size:16 final size:18
Alignment explanation
Indices: 12207384--12207429 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
12207374 TTCATTACAA
*
12207384 TTTTATTATTTATATATT
1 TTTTATTATTTATACATT
12207402 TTTTATTATTT-T-CATT
1 TTTTATTATTTATACATT
* *
12207418 TTCTATTGTTTA
1 TTTTATTATTTA
12207430 ATAATTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 12 0.50
17 1 0.04
18 11 0.46
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTATTATTTATACATT
Found at i:12207546 original size:3 final size:3
Alignment explanation
Indices: 12207533--12207643 Score: 81
Period size: 3 Copynumber: 37.3 Consensus size: 3
12207523 AAAACTTTTA
* * * *
12207533 TAT TTT TAT TAT TAAT TAT CTA- CAT TAT TAT TAT TAT TAT CAC TATT
1 TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* *
12207580 TAC CAT TAT T-T T-T TAT TAT T-T TA- TAT GTAT ATAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT
12207623 TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
12207644 TTTAAAAAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
2 11 0.13
3 62 0.72
4 13 0.15
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:12207795 original size:52 final size:52
Alignment explanation
Indices: 12207733--12207844 Score: 170
Period size: 52 Copynumber: 2.2 Consensus size: 52
12207723 AATTGGTTTT
* *
12207733 CATGTAAACAACAATAAGCATGTAAAACCTTTCCCCATGCATGTGCAATCTC
1 CATGTAAACAACAATAAACATGTAAAACCTTTCCCCATCCATGTGCAATCTC
** * *
12207785 CATGTAAACAACAATAAATGTGTAAAACCTTTCCCCATCCATGTGTAATCTT
1 CATGTAAACAACAATAAACATGTAAAACCTTTCCCCATCCATGTGCAATCTC
12207837 CATGTAAA
1 CATGTAAA
12207845 GAAGCCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (52 bp):
CATGTAAACAACAATAAACATGTAAAACCTTTCCCCATCCATGTGCAATCTC
Found at i:12209294 original size:17 final size:17
Alignment explanation
Indices: 12209272--12209313 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
12209262 CAGGCCAAAA
* *
12209272 TTAATTTTGTGTTATCC
1 TTAATTTTGAGTTAACC
*
12209289 TTAATTTTGAGTTAACT
1 TTAATTTTGAGTTAACC
12209306 TTAATTTT
1 TTAATTTT
12209314 CTTGATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.60
Consensus pattern (17 bp):
TTAATTTTGAGTTAACC
Found at i:12213195 original size:144 final size:143
Alignment explanation
Indices: 12212974--12213250 Score: 348
Period size: 144 Copynumber: 1.9 Consensus size: 143
12212964 AAATACCCTA
* * * *
12212974 GGTATTTTTGTAATTTGACTTTCTGGAGGTTGAATTTTTTAAAATGCTCCAGATCATGGTTTTAT
1 GGTATTTTTGTAATTTGACTTTCTGAAGGTCGAATTTTTAAAAATGCTCCAAATCATGGTTTTAT
* *
12213039 ATTATTTCATGATTTTTAGTGAATTAAAAACCTTGATTGCACCTTAG-AAGGTATGAAATTACTA
66 ATTATTTCATGATTTTTAGTGAATTAAAAACCTTAATAGCACC-TAGAAAGGTATGAAATTACTA
12213103 AAATTAACTTAAGG
130 AAATTAACTTAAGG
*
12213117 GGTATTTTTGTAATTTGACTTTCAT-AAGGTCG-ATTTTTCAAAAAATTCTCCAAATCAT-GTTT
1 GGTATTTTTGTAATTTGACTTTC-TGAAGGTCGAATTTTT--AAAAATGCTCCAAATCATGGTTT
* * * * * *
12213179 TCATATTA-TTCGATGATTTTTTGTGCATTGAAAACTTTAATAGTACCTCGAAAGGTATGAAATT
63 T-ATATTATTTC-ATGATTTTTAGTGAATTAAAAACCTTAATAGCACCTAGAAAGGTATGAAATT
12213243 ACTAAAAT
126 ACTAAAAT
12213251 ACCTTTTAGG
Statistics
Matches: 115, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
142 6 0.05
143 38 0.33
144 71 0.62
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (143 bp):
GGTATTTTTGTAATTTGACTTTCTGAAGGTCGAATTTTTAAAAATGCTCCAAATCATGGTTTTAT
ATTATTTCATGATTTTTAGTGAATTAAAAACCTTAATAGCACCTAGAAAGGTATGAAATTACTAA
AATTAACTTAAGG
Found at i:12213875 original size:31 final size:29
Alignment explanation
Indices: 12213840--12213987 Score: 111
Period size: 29 Copynumber: 4.9 Consensus size: 29
12213830 ATATATGCTC
12213840 AGTTTAGCTAGCACTGACGAGATTTAAGCCT
1 AGTTTAGCTAGCACT-A-GAGATTTAAGCCT
* * *
12213871 AGTTTAGCTAGTACCTAGA-TTTTAAGCTT
1 AGTTTAGCTAGCA-CTAGAGATTTAAGCCT
* * *
12213900 AATTTAGCTGGCACCGATGAGATTTAAGCCT
1 AGTTTAGCTAGCA-CTA-GAGATTTAAGCCT
* *
12213931 AGTTTAACTAGCACATAGA-TTTTAAGCCT
1 AGTTTAGCTAGCAC-TAGAGATTTAAGCCT
* * *
12213960 AATTTAGCTGGCACCAATGAGATTTAAG
1 AGTTTAGCTAGCA-CTA-GAGATTTAAG
12213988 TCTAATTTCA
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
29 41 0.45
30 10 0.11
31 38 0.42
32 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (29 bp):
AGTTTAGCTAGCACTAGAGATTTAAGCCT
Found at i:12213905 original size:29 final size:29
Alignment explanation
Indices: 12213862--12213974 Score: 120
Period size: 29 Copynumber: 3.8 Consensus size: 29
12213852 ACTGACGAGA
* *
12213862 TTTAAGCCTAGTTTAGCTAGTACCTAGAT
1 TTTAAGCCTAATTTAGCTAGCACCTAGAT
* *
12213891 TTTAAGCTTAATTTAGCTGGCACCGATGAGA-
1 TTTAAGCCTAATTTAGCTAGCACC--T-AGAT
* * *
12213922 TTTAAGCCTAGTTTAACTAGCACATAGAT
1 TTTAAGCCTAATTTAGCTAGCACCTAGAT
*
12213951 TTTAAGCCTAATTTAGCTGGCACC
1 TTTAAGCCTAATTTAGCTAGCACC
12213975 AATGAGATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
28 3 0.04
29 41 0.61
31 20 0.30
32 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (29 bp):
TTTAAGCCTAATTTAGCTAGCACCTAGAT
Found at i:12213935 original size:60 final size:60
Alignment explanation
Indices: 12213842--12213987 Score: 220
Period size: 60 Copynumber: 2.4 Consensus size: 60
12213832 ATATGCTCAG
* * * * * * *
12213842 TTTAGCTAGCACTGACGAGATTTAAGCCTAGTTTAGCTAGTACCTAGATTTTAAGCTTAA
1 TTTAGCTGGCACCGATGAGATTTAAGCCTAGTTTAACTAGCACATAGATTTTAAGCCTAA
12213902 TTTAGCTGGCACCGATGAGATTTAAGCCTAGTTTAACTAGCACATAGATTTTAAGCCTAA
1 TTTAGCTGGCACCGATGAGATTTAAGCCTAGTTTAACTAGCACATAGATTTTAAGCCTAA
*
12213962 TTTAGCTGGCACCAATGAGATTTAAG
1 TTTAGCTGGCACCGATGAGATTTAAG
12213988 TCTAATTTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 78 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (60 bp):
TTTAGCTGGCACCGATGAGATTTAAGCCTAGTTTAACTAGCACATAGATTTTAAGCCTAA
Found at i:12213993 original size:31 final size:30
Alignment explanation
Indices: 12213842--12213995 Score: 145
Period size: 31 Copynumber: 5.1 Consensus size: 30
12213832 ATATGCTCAG
* * *
12213842 TTTAGCTAGCACTGACGAGATTTAAGCCTAG
1 TTTAGCTAGCAC-CATGAGATTTAAGCCTAA
* *
12213873 TTTAGCTAGTACC-T-AGATTTTAAGCTTAA
1 TTTAGCTAGCACCATGAGA-TTTAAGCCTAA
* *
12213902 TTTAGCTGGCACCGATGAGATTTAAGCCTAG
1 TTTAGCTAGCACC-ATGAGATTTAAGCCTAA
*
12213933 TTTAACTAGCA-CAT-AGATTTTAAGCCTAA
1 TTTAGCTAGCACCATGAGA-TTTAAGCCTAA
* *
12213962 TTTAGCTGGCACCAATGAGATTTAAGTCTAA
1 TTTAGCTAGCACC-ATGAGATTTAAGCCTAA
12213993 TTT
1 TTT
12213996 CATTAGCATC
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
28 6 0.06
29 41 0.41
30 2 0.02
31 45 0.45
32 6 0.06
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (30 bp):
TTTAGCTAGCACCATGAGATTTAAGCCTAA
Found at i:12214003 original size:60 final size:62
Alignment explanation
Indices: 12213858--12214051 Score: 200
Period size: 60 Copynumber: 3.2 Consensus size: 62
12213848 TAGCACTGAC
* * * * * *
12213858 GAGATTTAAGCCTAGTTTAGCTAGTA-C-CTAGATTTTAAGCTTAATTTAGCTGGCACCGAT
1 GAGATTTAAGCCTAATTTAACTAGCATCAATAGATTTTAAGCCTAATTTAGCTGGCACCAAT
*
12213918 GAGATTTAAGCCTAGTTTAACTAGCA-C-ATAGATTTTAAGCCTAATTTAGCTGGCACCAAT
1 GAGATTTAAGCCTAATTTAACTAGCATCAATAGATTTTAAGCCTAATTTAGCTGGCACCAAT
* * * * * * * * *
12213978 GAGATTTAAGTCTAATTTCATTAGCATCAATAAAATTTAA-ACTCAATTTAGCTAGTACTAAT
1 GAGATTTAAGCCTAATTTAACTAGCATCAATAGATTTTAAGCCT-AATTTAGCTGGCACCAAT
12214040 GAGATTTAAGCC
1 GAGATTTAAGCC
12214052 CAATCTAGTT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
60 77 0.67
61 3 0.03
62 35 0.30
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (62 bp):
GAGATTTAAGCCTAATTTAACTAGCATCAATAGATTTTAAGCCTAATTTAGCTGGCACCAAT
Found at i:12214516 original size:50 final size:49
Alignment explanation
Indices: 12214443--12214644 Score: 178
Period size: 50 Copynumber: 4.1 Consensus size: 49
12214433 ATGTGTTACA
* * * *
12214443 TTTTTAATGTTATTTAGACTTTGTTTAAGAGGAGCTTTTTAAATGAGAAT
1 TTTTTAAAGTTGTTTAGCCTTTGTTTAAGAAGAGCTTTTTAAATGAG-AT
* * * *
12214493 TTTTTAAAGTTGTTTAGTCTTTG-TTAGGAAGAGCTATTTTACATAAGAT
1 TTTTTAAAGTTGTTTAGCCTTTGTTTAAGAAGAGCT-TTTTAAATGAGAT
* * * **
12214542 TTTTTCAAAGTTGTTTAGCCTCT-ATTAAGATGATATTTTTCAAATGAGA-
1 TTTTT-AAAGTTGTTTAGCCTTTGTTTAAGAAGAGCTTTTT-AAATGAGAT
* * * *
12214591 TTTTT-AAGTTGTTTAGCCTTTGTTTTATAAGAGCTTTTCATATGAGAT
1 TTTTTAAAGTTGTTTAGCCTTTGTTTAAGAAGAGCTTTTTAAATGAGAT
12214639 CTTTTT
1 -TTTTT
12214645 TTTTTTTTAA
Statistics
Matches: 121, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
47 22 0.18
48 10 0.08
49 31 0.26
50 58 0.48
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (49 bp):
TTTTTAAAGTTGTTTAGCCTTTGTTTAAGAAGAGCTTTTTAAATGAGAT
Found at i:12218268 original size:14 final size:13
Alignment explanation
Indices: 12218227--12218270 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
12218217 GAGCGTGAGC
12218227 AAAAAAATGAAAA
1 AAAAAAATGAAAA
*
12218240 ATGAAAAAT-AAAA
1 A-AAAAAATGAAAA
12218253 AAAAAAGATGAAAA
1 AAAAAA-ATGAAAA
12218267 AAAA
1 AAAA
12218271 TAATTTAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 14 0.54
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAAAAATGAAAA
Found at i:12225104 original size:71 final size:70
Alignment explanation
Indices: 12224984--12225159 Score: 194
Period size: 71 Copynumber: 2.5 Consensus size: 70
12224974 TTGGGGCAAG
* * * * * *
12224984 TAGAATCATTTTTTTGGATGTTGCATTTGTATCGATGTTTGGACCATGCAGTTTG-ATTATTTGG
1 TAGAATCATTGTTTT-GATGTTGCATTTGCATCAAGGTTTAGACCATGCA-TTTGCATTATTTGA
*
12225048 TGAGTAT
64 TGAATAT
*
12225055 ATAG-ATCATTGTTTTGAATGTTGCATTTGCATTAAGGTTTAGACCATGCATTTGCATTATTTGA
1 -TAGAATCATTGTTTTG-ATGTTGCATTTGCATCAAGGTTTAGACCATGCATTTGCATTATTTGA
12225119 TGAATAT
64 TGAATAT
* * *
12225126 TTGAATCTTTGTTTTGATAATTGCATTTGCATCA
1 TAGAATCATTGTTTTGAT-GTTGCATTTGCATCA
12225160 TTTAATGAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
70 9 0.10
71 76 0.86
72 3 0.03
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (70 bp):
TAGAATCATTGTTTTGATGTTGCATTTGCATCAAGGTTTAGACCATGCATTTGCATTATTTGATG
AATAT
Found at i:12228253 original size:40 final size:40
Alignment explanation
Indices: 12228205--12228300 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
12228195 GTTGGTGAGG
* *
12228205 GATTGGGTGTGGTGAGG-TATTTGGGGAAAATGTAGGGAGA
1 GATTGGGTGTGGTG-GGCCATTGGGGGAAAATGTAGGGAGA
* * * *
12228245 GATTGGGTGTGGTGGGCCGTTGGGGGTAAATGTGGGGAGG
1 GATTGGGTGTGGTGGGCCATTGGGGGAAAATGTAGGGAGA
*
12228285 GATTTGGTGTGGTGGG
1 GATTGGGTGTGGTGGG
12228301 TGTTAGGAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.17, C:0.02, G:0.53, T:0.28
Consensus pattern (40 bp):
GATTGGGTGTGGTGGGCCATTGGGGGAAAATGTAGGGAGA
Found at i:12232234 original size:6 final size:6
Alignment explanation
Indices: 12232206--12232278 Score: 101
Period size: 6 Copynumber: 12.2 Consensus size: 6
12232196 TTTAAGTCCA
* * * *
12232206 GATGAT GATGAT GATGGT GATGGT GATGGT AATGGT GATGGA GATGGT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT
*
12232254 GATGGA GATGGT GATGGT GATGGT G
1 GATGGT GATGGT GATGGT GATGGT G
12232279 CAAATTTTGG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (6 bp):
GATGGT
Found at i:12233978 original size:24 final size:25
Alignment explanation
Indices: 12233946--12233997 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
12233936 TTTCTTTTTC
* *
12233946 TAAACATTTTTATAAA-ATAATATTT
1 TAAACA-TTTAATAAATATAATAATT
12233971 TAAA-ATTTAATAAATATAATAATT
1 TAAACATTTAATAAATATAATAATT
12233995 TAA
1 TAA
12233998 TCAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 12 0.50
25 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAACATTTAATAAATATAATAATT
Found at i:12234733 original size:32 final size:31
Alignment explanation
Indices: 12234667--12234733 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
12234657 TTTTGTTTAA
* * *
12234667 TTAAAAGTTCAATTGAATTAAAAATAAATAT
1 TTAAAAATTCAATTGAAGTAAAAAAAAATAT
* *
12234698 TTAAAAATTCAATTTAAGTAAAAAAAAGATGT
1 TTAAAAATTCAATTGAAGTAAAAAAAA-ATAT
12234730 TTAA
1 TTAA
12234734 GAACTCAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (31 bp):
TTAAAAATTCAATTGAAGTAAAAAAAAATAT
Found at i:12235143 original size:3 final size:3
Alignment explanation
Indices: 12235135--12235165 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
12235125 TCCAACTTCA
12235135 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12235166 CTGTTTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12239660 original size:60 final size:60
Alignment explanation
Indices: 12239596--12239799 Score: 171
Period size: 60 Copynumber: 3.3 Consensus size: 60
12239586 TTTGTAAAAA
* *
12239596 GATTATTAAAGACGTTTTTTGCCAAAAATGCCTTCAATAA-CCTCATTAAATTTTTTTTTA-
1 GATTATT-AAGACGTTTTTTGCCAAAAATACCTT-AATAATCCTCATTAAAATTTTTTTTAG
*** * * * **
12239656 GATTATTTAAGGTTTTTTTTGGCAAAAAGTACCTTAAGTAATCACGTCATAAAAATTTATTAGAG
1 GATTA-TTAAGACGTTTTTTGCCAAAAA-TACCTTAA-TAATC-C-TCATTAAAATTTTTTTTAG
* * * *
12239721 GATTATTAAGACATTTTTTGCTAGAAACACCTTTAATAATCCT-ATTAAAATTTTTTTTAG
1 GATTATTAAGACGTTTTTTGCCAAAAATACC-TTAATAATCCTCATTAAAATTTTTTTTAG
*
12239781 GATTATTCAAGGCGTTTTT
1 GATTATT-AAGACGTTTTT
12239800 GACGAAAAAT
Statistics
Matches: 112, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
60 43 0.38
61 20 0.18
62 2 0.02
63 9 0.08
64 33 0.29
65 5 0.04
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (60 bp):
GATTATTAAGACGTTTTTTGCCAAAAATACCTTAATAATCCTCATTAAAATTTTTTTTAG
Found at i:12239682 original size:125 final size:124
Alignment explanation
Indices: 12239544--12240028 Score: 467
Period size: 125 Copynumber: 3.9 Consensus size: 124
12239534 CTGATTTGGA
* * * * *
12239544 TTTTTTTAACAAAAAACATCTTGAGTAATCACATCATAAAAATTTGTAAAAAGATTATTAAAGAC
1 TTTTTTTGACAAAAAACATCTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGAC
* * * ** * *
12239609 GTTTTTTGCCAAAAATGCCTTCAATAACCTCATTAAATTTTTTTTTAGATTATTTAAGG
66 ATTTTTTGCTAGAAACACCTTCAATAACCTCATTAAAATTTTTTTTAGATTATTCAAGG
* ** * * * * *
12239668 TTTTTTTTGGCAAAAAGTACCTTAAGTAATCACGTCATAAAAATTTATTAGAGGATTATT-AAGA
1 -TTTTTTTGACAAAAAACATCTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGA
*
12239732 CATTTTTTGCTAGAAACACCTTTAATAATCCT-ATTAAAATTTTTTTTAGGATTATTCAAGG
65 CATTTTTTGCTAGAAACACCTTCAATAA-CCTCATTAAAATTTTTTTTA-GATTATTCAAGG
** * * ** * **
12239793 CGTTTTTGAC-GAAAA-ATGCTTTGAATAATCATGTTATAAAAATTTATGAGGGGATTATTGAAG
1 TTTTTTTGACAAAAAACAT-C-TTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAG
* * ** **
12239856 ACATTTTTTGCTAGAAACACCTTTAATAACCCCATTAAAAAAAAATTTTTGGGATTATTCAAGG
64 ACATTTTTTGCTAGAAACACCTTCAATAACCTCATT---AAAATTTTTTTTAGATTATTCAAGG
* * * * *
12239920 TATTTTTGACGAAAAACAACTTGAGTAATCACATCATAAAAATTTATGAGGAGATTATTGAAGAT
1 TTTTTTTGACAAAAAACATCTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGAC
* * *
12239985 GTTTTTGGCTAGAAACGCCTTCAATAACC-CATTAAAATTTTTTT
66 ATTTTTTGCTAGAAACACCTTCAATAACCTCATTAAAATTTTTTT
12240029 CGGGATTAAA
Statistics
Matches: 297, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
122 1 0.00
123 13 0.04
124 83 0.28
125 97 0.33
126 4 0.01
127 84 0.28
128 14 0.05
129 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (124 bp):
TTTTTTTGACAAAAAACATCTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGAC
ATTTTTTGCTAGAAACACCTTCAATAACCTCATTAAAATTTTTTTTAGATTATTCAAGG
Found at i:12239898 original size:64 final size:64
Alignment explanation
Indices: 12239706--12240021 Score: 179
Period size: 64 Copynumber: 5.0 Consensus size: 64
12239696 ATCACGTCAT
* * *
12239706 AAAAATTTATTAGAGGATTATT-AAGACATTTTTTGCTAGAAACACCTTTAATAATCCTATT-A
1 AAAAATTTATGAGGGGATTATTCAAGACATTTTTTGCTAGAAACACCTTTAATAATCCCATTAA
** * * * * * * ***
12239768 AAATTTTTTTTA--GGATTATTCAAGGC-GTTTTTG--ACGAAAAATGCTTTGAATAATCATGTT
1 AAAAATTTATGAGGGGATTATTCAAGACATTTTTTGCTA-GAAACA-CCTTT-AATAATCCCATT
*
12239828 AT
63 AA
* *
12239830 AAAAATTTATGAGGGGATTATTGAAGACATTTTTTGCTAGAAACACCTTTAATAACCCCATTAAA
1 AAAAATTTATGAGGGGATTATTCAAGACATTTTTTGCTAGAAACACCTTTAATAATCCCATT--A
12239895 A
64 A
* ** * * * * * * * *
12239896 AAAAATTT-T--TGGGATTATTCAAGGTA-TTTTTGACGAAAAACAACTTGAGTAATCACATCAT
1 AAAAATTTATGAGGGGATTATTCAAGACATTTTTTG-CTAGAAACACCTTTAATAATCCCATTAA
* * ** * * *
12239957 AAAAATTTATGAGGAGATTATTGAAGATGTTTTTGGCTAGAAACGCCTTCAATAA-CCCATTAA
1 AAAAATTTATGAGGGGATTATTCAAGACATTTTTTGCTAGAAACACCTTTAATAATCCCATTAA
12240020 AA
1 AA
12240022 TTTTTTTCGG
Statistics
Matches: 185, Mismatches: 52, Indels: 33
0.69 0.19 0.12
Matches are distributed among these distances:
58 1 0.01
59 5 0.03
60 18 0.10
61 23 0.12
62 24 0.13
63 38 0.21
64 45 0.24
65 16 0.09
66 14 0.08
67 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (64 bp):
AAAAATTTATGAGGGGATTATTCAAGACATTTTTTGCTAGAAACACCTTTAATAATCCCATTAA
Found at i:12239959 original size:127 final size:125
Alignment explanation
Indices: 12239546--12240028 Score: 472
Period size: 127 Copynumber: 3.9 Consensus size: 125
12239536 GATTTGGATT
* * * * * * * *
12239546 TTTTTAACAAAAAACATCTTGAGTAATCACATCATAAAAATTTGTAAAAAGATTATTAAAGACGT
1 TTTTTGACGAAAAACAACTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGACAT
* * ** * * * *
12239611 TTTTTGCCAAAAATGCCTTCAATAACCTCATTAAATTTTTTTTTA-GATTATTTAAGGTTT
66 TTTTTGCTAGAAACACCTTCAATAACCCCATTAAAATTTTTTTTAGGATTATTCAAGG-TA
* * * * * * *
12239671 TTTTTGGC-AAAAAGTACCTTAAGTAATCACGTCATAAAAATTTATTAGAGGATTATT-AAGACA
1 TTTTTGACGAAAAA-CAACTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGACA
* * * **
12239734 TTTTTTGCTAGAAACACCTTTAATAATCCTATTAAAATTTTTTTTAGGATTATTCAAGGCG
65 TTTTTTGCTAGAAACACCTTCAATAACCCCATTAAAATTTTTTTTAGGATTATTCAAGGTA
** * ** * **
12239795 TTTTTGACGAAAAA-TGCTTTGAATAATCATGTTATAAAAATTTATGAGGGGATTATTGAAGACA
1 TTTTTGACGAAAAACAAC-TTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGACA
* *** *
12239859 TTTTTTGCTAGAAACACCTTTAATAACCCCATTAAAAAAAAATTTTTGGGATTATTCAAGGTA
65 TTTTTTGCTAGAAACACCTTCAATAACCCCATT--AAAATTTTTTTTAGGATTATTCAAGGTA
* **
12239922 TTTTTGACGAAAAACAACTTGAGTAATCACATCATAAAAATTTATGAGGAGATTATTGAAGATGT
1 TTTTTGACGAAAAACAACTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGACAT
* *
12239987 TTTTGGCTAGAAACGCCTTCAATAA-CCCATTAAAATTTTTTT
66 TTTTTGCTAGAAACACCTTCAATAACCCCATTAAAATTTTTTT
12240029 CGGGATTAAA
Statistics
Matches: 295, Mismatches: 55, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
123 1 0.00
124 95 0.32
125 94 0.32
126 6 0.02
127 98 0.33
128 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (125 bp):
TTTTTGACGAAAAACAACTTGAGTAATCACATCATAAAAATTTATGAGAAGATTATTGAAGACAT
TTTTTGCTAGAAACACCTTCAATAACCCCATTAAAATTTTTTTTAGGATTATTCAAGGTA
Found at i:12240481 original size:42 final size:41
Alignment explanation
Indices: 12240435--12240569 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 41
12240425 TTTGATTTAT
*
12240435 GGTTTTCTGTTATTGATTTTAATTGCTCAAATTTATAGTTAA
1 GGTTTTCTGCTATTG-TTTTAATTGCTCAAATTTATAGTTAA
* *
12240477 GGTTTTCTGCTATTGTTCTTAATTGCTCAAATTTATATTTGA
1 GGTTTTCTGCTATTGTT-TTAATTGCTCAAATTTATAGTTAA
* * * * * *
12240519 GATTTTTTACTATTGTTTTTAATTAG-TCAAAATAATAGTTAG
1 GGTTTTCTGCTATTG-TTTTAATT-GCTCAAATTTATAGTTAA
12240561 GGTTTTCTG
1 GGTTTTCTG
12240570 TTCTTACTTG
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.03
42 71 0.93
43 3 0.04
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (41 bp):
GGTTTTCTGCTATTGTTTTAATTGCTCAAATTTATAGTTAA
Found at i:12240594 original size:37 final size:37
Alignment explanation
Indices: 12240453--12240651 Score: 123
Period size: 42 Copynumber: 5.0 Consensus size: 37
12240443 GTTATTGATT
* *
12240453 TTAATTGCTCAAATTTATAGTTAAGGTTTTCTGCTATTGTTC
1 TTAATTGCTCAAAATTATAGTT-AGGGTTT-TGC---TGTTC
* * ** * *
12240495 TTAATTGCTCAAATTTATATTTGAGATTTTTTACTATTGTTT
1 TTAATTGCTCAAAATTATAGTT-AG-GGTTTTGC---TGTTC
*
12240537 TTAATTAG-TCAAAATAATAGTTAGGGTTTT-CTGTTC
1 TTAATT-GCTCAAAATTATAGTTAGGGTTTTGCTGTTC
* *
12240573 TTACTTGGTCAAAAATTATAGTTAGGGTTTCTGCTGTTATTC
1 TTAATTGCTC-AAAATTATAGTTAGGGTTT-TGCTG---TTC
*
12240615 TTAATTGCTCGAAATTATAGTTAGGGCTTTTGCTGTT
1 TTAATTGCTCAAAATTATAGTTAGGG-TTTTGCTGTT
12240652 TAGGCATATT
Statistics
Matches: 131, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
35 1 0.01
36 11 0.08
37 18 0.14
38 3 0.02
39 4 0.03
40 4 0.03
41 22 0.17
42 63 0.48
43 5 0.04
ACGTcount: A:0.25, C:0.10, G:0.16, T:0.49
Consensus pattern (37 bp):
TTAATTGCTCAAAATTATAGTTAGGGTTTTGCTGTTC
Found at i:12241374 original size:32 final size:32
Alignment explanation
Indices: 12241337--12241415 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
12241327 TATAACATGG
*
12241337 TTATAACAAAGTAAAAGCTTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAATAGAAATT
12241369 TTATAACAAAGTAAAAGATTATAATAGAAATT
1 TTATAACAAAGTAAAAGATTATAATAGAAATT
** *
12241401 AGATAACAATGTAAA
1 TTATAACAAAGTAAA
12241416 GGACATGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (32 bp):
TTATAACAAAGTAAAAGATTATAATAGAAATT
Found at i:12244636 original size:6 final size:6
Alignment explanation
Indices: 12244625--12244667 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
12244615 TTGCATCTAT
* * * *
12244625 AACTGC AACTGC AACTAC AACTGT AACTAC AACTGC ATCTGC A
1 AACTGC AACTGC AACTGC AACTGC AACTGC AACTGC AACTGC A
12244668 TCTACAATTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.21
Consensus pattern (6 bp):
AACTGC
Found at i:12244640 original size:12 final size:12
Alignment explanation
Indices: 12244625--12244661 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
12244615 TTGCATCTAT
*
12244625 AACTGCAACTGC
1 AACTACAACTGC
*
12244637 AACTACAACTGT
1 AACTACAACTGC
12244649 AACTACAACTGC
1 AACTACAACTGC
12244661 A
1 A
12244662 TCTGCATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (12 bp):
AACTACAACTGC
Found at i:12244646 original size:18 final size:18
Alignment explanation
Indices: 12244625--12244685 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
12244615 TTGCATCTAT
* *
12244625 AACTGCAACTGCAACTAC
1 AACTGCAACTACAACTGC
*
12244643 AACTGTAACTACAACTGC
1 AACTGCAACTACAACTGC
* * *
12244661 ATCTGCATCTACAATTGC
1 AACTGCAACTACAACTGC
*
12244679 ATCTGCA
1 AACTGCA
12244686 CAAACCTTAA
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:0.34, C:0.30, G:0.11, T:0.25
Consensus pattern (18 bp):
AACTGCAACTACAACTGC
Found at i:12245529 original size:17 final size:17
Alignment explanation
Indices: 12245509--12245541 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12245499 CATATTGCTT
12245509 TATTATAAGATTGCCTC
1 TATTATAAGATTGCCTC
*
12245526 TATTATCAGATTGCCT
1 TATTATAAGATTGCCT
12245542 TCAATTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (17 bp):
TATTATAAGATTGCCTC
Found at i:12245890 original size:64 final size:64
Alignment explanation
Indices: 12245822--12246063 Score: 201
Period size: 64 Copynumber: 3.8 Consensus size: 64
12245812 ATTTCTGGTA
** *
12245822 AAAAACACATTCAATAATCCCCTCATAAAATTTTATGATGTGATTACTCAAGGCATTTTCTT-CT
1 AAAAACACATTCAATAATCCCCTCATAAAATTTTATGACATGATTACTCAAGGCATTTT-TTGCC
* * * * **
12245886 AAAAACGCATTTAATAATCCCCTCATAAATTTTTATGACATGATTACTTAAGGTGTTTTTTGCC
1 AAAAACACATTCAATAATCCCCTCATAAAATTTTATGACATGATTACTCAAGGCATTTTTTGCC
* * * * * * * * * *
12245950 AAAAACACCTTGAATAAT--CCTAAAAAAAAATTAATG--A-GGTTATTGAAGGCATTTTTGGCC
1 AAAAACACATTCAATAATCCCCT-CATAAAATTTTATGACATGATTACTCAAGGCATTTTTTGCC
** * *
12246010 AAAAATGCCTTCAATAATCCCCTCAT-AAATTTGTATAACATGATTACTCAAGGC
1 AAAAACACATTCAATAATCCCCTCATAAAATTT-TATGACATGATTACTCAAGGC
12246064 TAAAAATACC
Statistics
Matches: 136, Mismatches: 34, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
60 37 0.27
61 4 0.03
62 6 0.04
63 12 0.09
64 77 0.57
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (64 bp):
AAAAACACATTCAATAATCCCCTCATAAAATTTTATGACATGATTACTCAAGGCATTTTTTGCC
Found at i:12246163 original size:116 final size:115
Alignment explanation
Indices: 12245950--12246437 Score: 311
Period size: 131 Copynumber: 4.0 Consensus size: 115
12245940 GTTTTTTGCC
* * *
12245950 AAAAACACCTTGAATAATCCTAAAAAAAAATTAATGAGGTTATTGAAGGCATTTTTGGCCAAAAA
1 AAAAACACCTTAAATAATCCTAAAAAAAAATTAATGAGGTTATTGAAAGCATTTTTGACCAAAAA
*
12246015 TGCCTTCAATAATCCCCTCATAAATTTGTATAACATGATTACTCAAGGCT
66 CGCCTTCAATAATCCCCTCATAAATTTGTATAACATGATTACTCAAGGCT
* ** * *
12246065 AAAAATACCTTAAATAATCCTAAAAAAATTTTTTAATGGGGTTATTGAAAGCGTTTTTGACC-AA
1 AAAAACACCTTAAATAATCCTAAAAAAA--AATTAATGAGGTTATTGAAAGCATTTTTGACCAAA
* * * * *
12246129 AACGCCTTCAATAATCCCTTTATAAATTTTTATAACGTTATTACTCAAGGCGTTTTTT
64 AACGCCTTCAATAATCCCCTCATAAATTTGTATAACATGATTACTCAAGGC------T
* * * * **
12246187 ACCAAAAACGCCTTGAATAATCCTAAAAAAAAATTTTAATGGGGTTATTGAAGGTGTTTGGTTTT
1 ---AAAAACACCTTAAATAATCCTAAAAAAAAA--TTAATGAGGTTATTGAA--AGCAT--TTTT
* * * * *
12246252 CGGCTAAAAATGCCTTCAATAATCTCCC-CATAAATTTTTATAACATGATTACTTAAGGTGTTTT
57 -GACCAAAAACGCCTTCAATAATC-CCCTCATAAATTTGTATAACATGATTACTCAA-G-G----
*
12246316 TTTGT
114 ---CT
* * *
12246321 CAAAAACACCTT-TATAATCC-AAAAACAAATTTTGTAATGAGGTTATTGAAAGCGTTTTTTG-C
1 -AAAAACACCTTAAATAATCCTAAAAA-AAA--AT-TAATGAGGTTATTGAAAGC-ATTTTTGAC
* * * * * * *
12246383 TAAAAAGGTCTTCAATAATCTCCTCATAAATTTTTATGACATGATTATTCAAGGC
60 CAAAAACGCCTTCAATAATCCCCTCATAAATTTGTATAACATGATTACTCAAGGC
12246438 ATTTTTCACT
Statistics
Matches: 294, Mismatches: 44, Indels: 67
0.73 0.11 0.17
Matches are distributed among these distances:
115 26 0.09
116 47 0.16
117 26 0.09
122 1 0.00
125 43 0.15
126 3 0.01
127 46 0.16
128 1 0.00
129 8 0.03
130 8 0.03
131 54 0.18
132 29 0.10
133 1 0.00
134 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (115 bp):
AAAAACACCTTAAATAATCCTAAAAAAAAATTAATGAGGTTATTGAAAGCATTTTTGACCAAAAA
CGCCTTCAATAATCCCCTCATAAATTTGTATAACATGATTACTCAAGGCT
Found at i:12246515 original size:127 final size:126
Alignment explanation
Indices: 12246063--12246516 Score: 452
Period size: 127 Copynumber: 3.6 Consensus size: 126
12246053 TTACTCAAGG
* * ** *
12246063 CTAAAAATACCTTAAATAATCCTAAAAAAATTTTTTAATGGGGTTATTGAAAGCGTTTTTGACC-
1 CTAAAAACACCTTAAATAATCCAAAAAAAAAATTTTAATGGGGTTATTGAAAGCGTTTTTGGCCA
* * * *
12246127 AAAACGCCTTCAATAATC-CCTTTATAAATTTTTATAACGTTATTACTCAAGGCGTTTTTTA
66 AAAACGCCTTCAATAATCTCC-TCATAAATTTTTATAACATGATTATTCAAGGCGTTTTTTA
* * * * * *
12246188 CCAAAAACGCCTTGAATAATCCTAAAAAAAAATTTTAATGGGGTTATTGAAGGTGTTTGGTTTTC
1 CTAAAAACACCTTAAATAATCCAAAAAAAAAATTTTAATGGGGTTATTGAAAGCG--T--TTTT-
* * * *
12246253 GGCTAAAAATGCCTTCAATAATCTCCCCATAAATTTTTATAACATGATTACTT-AAGGTGTTTTT
61 GGCCAAAAACGCCTTCAATAATCTCCTCATAAATTTTTATAACATGATTA-TTCAAGGCGTTTTT
*
12246317 TT
125 TA
* * * * * *
12246319 GTCAAAAACACCTT-TATAATCCAAAAACAAATTTTGTAATGAGGTTATTGAAAGCGTTTTTTGC
1 CT-AAAAACACCTTAAATAATCCAAAAAAAAAATTT-TAATGGGGTTATTGAAAGCGTTTTTGGC
* * * * * *
12246383 TAAAAAGGTCTTCAATAATCTCCTCATAAATTTTTATGACATGATTATTCAAGGCATTTTTCA
64 CAAAAACGCCTTCAATAATCTCCTCATAAATTTTTATAACATGATTATTCAAGGCGTTTTTTA
* *
12246446 CTAAAAACACCTTAAAGAATCTCAAAAAAAAAAATTTAATGGGGTTATT-AAAG-GTGTTTCTGG
1 CTAAAAACACCTTAAATAATC-CAAAAAAAAAATTTTAATGGGGTTATTGAAAGCGT-TTT-TGG
12246509 CCAAAAAC
63 CCAAAAAC
12246517 CAAATGCTCC
Statistics
Matches: 267, Mismatches: 47, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
125 49 0.18
126 20 0.07
127 81 0.30
128 15 0.06
129 4 0.01
130 3 0.01
131 65 0.24
132 30 0.11
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.36
Consensus pattern (126 bp):
CTAAAAACACCTTAAATAATCCAAAAAAAAAATTTTAATGGGGTTATTGAAAGCGTTTTTGGCCA
AAAACGCCTTCAATAATCTCCTCATAAATTTTTATAACATGATTATTCAAGGCGTTTTTTA
Found at i:12247149 original size:23 final size:23
Alignment explanation
Indices: 12247123--12247174 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
12247113 ATCATAAAAC
12247123 AAATACCAACAAAAACACCAAAG
1 AAATACCAACAAAAACACCAAAG
* *
12247146 AAATATCAACAAAAATACCAAAG
1 AAATACCAACAAAAACACCAAAG
12247169 AAATAC
1 AAATAC
12247175 TAGTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.65, C:0.21, G:0.04, T:0.10
Consensus pattern (23 bp):
AAATACCAACAAAAACACCAAAG
Found at i:12247161 original size:12 final size:12
Alignment explanation
Indices: 12247123--12247166 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
12247113 ATCATAAAAC
12247123 AAATACCAACAA
1 AAATACCAACAA
* *
12247135 AAACACCAA-AG
1 AAATACCAACAA
*
12247146 AAATATCAACAA
1 AAATACCAACAA
12247158 AAATACCAA
1 AAATACCAA
12247167 AGAAATACTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.66, C:0.23, G:0.02, T:0.09
Consensus pattern (12 bp):
AAATACCAACAA
Found at i:12254079 original size:17 final size:16
Alignment explanation
Indices: 12254055--12254104 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
12254045 TATCTAATTA
12254055 TATAATTTTTATTTTT
1 TATAATTTTTATTTTT
*
12254071 TACTAATTTTTCACTTTT
1 TA-TAATTTTT-ATTTTT
*
12254089 TATTA-TTTTATTTTT
1 TATAATTTTTATTTTT
12254104 T
1 T
12254105 TATTTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 10 0.34
18 7 0.24
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TATAATTTTTATTTTT
Found at i:12254788 original size:2 final size:2
Alignment explanation
Indices: 12254783--12254829 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
12254773 TTAGAAATTA
12254783 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12254825 AT AT A
1 AT AT A
12254830 GAAAGAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12257304 original size:10 final size:11
Alignment explanation
Indices: 12257280--12257327 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
12257270 TAATTTTAAT
12257280 TTTAAAATATA
1 TTTAAAATATA
12257291 TTTAAAAT-TA
1 TTTAAAATATA
*
12257301 TTTAAATATAAA
1 TTTAAA-ATATA
*
12257313 TATAAAAATATA
1 T-TTAAAATATA
12257325 TTT
1 TTT
12257328 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
10 8 0.27
11 11 0.37
12 7 0.23
13 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTAAAATATA
Found at i:12258147 original size:14 final size:15
Alignment explanation
Indices: 12258128--12258158 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12258118 ATTACATAGC
12258128 AAATTTAATA-TTAA
1 AAATTTAATACTTAA
12258142 AAATTTAATACTTAA
1 AAATTTAATACTTAA
12258157 AA
1 AA
12258159 TTTCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTTAATACTTAA
Found at i:12259243 original size:17 final size:18
Alignment explanation
Indices: 12259210--12259245 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12259200 AAATTAAGCA
*
12259210 TTTTCTATCGTTCCCTCC
1 TTTTCTATCGCTCCCTCC
12259228 TTTTCTATC-CTCCCTCC
1 TTTTCTATCGCTCCCTCC
12259245 T
1 T
12259246 AAACATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.06, C:0.42, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTCTATCGCTCCCTCC
Found at i:12263150 original size:22 final size:22
Alignment explanation
Indices: 12263122--12263174 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
12263112 ACAATTTTCT
12263122 ATTTTGATTAAATCTAACAAAA
1 ATTTTGATTAAATCTAACAAAA
12263144 ATTTTGATTAAATCTAACAAAA
1 ATTTTGATTAAATCTAACAAAA
12263166 ATTTTGATT
1 ATTTTGATT
12263175 CACTTGATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (22 bp):
ATTTTGATTAAATCTAACAAAA
Done.