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 36 of 130
Found at i:9046956 original size:19 final size:19
Alignment explanation
Indices: 9046898--9046957 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
9046888 ATATTAATAG
*
9046898 ATAAATAATAA-AATATAT
1 ATAAATAATAATAATATAA
* *
9046916 ATAGATAAATAAT-ATATTA
1 ATAAAT-AATAATAATATAA
9046935 ATAAATAATAATAATATAA
1 ATAAATAATAATAATATAA
9046954 ATAA
1 ATAA
9046958 TAAAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 11 0.32
19 23 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
ATAAATAATAATAATATAA
Found at i:9046960 original size:15 final size:15
Alignment explanation
Indices: 9046898--9046984 Score: 68
Period size: 15 Copynumber: 5.4 Consensus size: 15
9046888 ATATTAATAG
9046898 ATAAATAATAAAATAT
1 ATAAATAATAAAA-AT
*
9046914 ATATAGATAAATAATATATT
1 ATA-A-AT-AATAA-A-AAT
*
9046934 AATAAATAATAATAAT
1 -ATAAATAATAAAAAT
*
9046950 ATAAATAATAAAAAA
1 ATAAATAATAAAAAT
9046965 AT-AATAATAAAAAT
1 ATAAATAATAAAAAT
*
9046979 AAAAAT
1 ATAAAT
9046985 GCAAATGGAC
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.21
15 18 0.32
16 5 0.09
17 1 0.02
18 7 0.12
19 7 0.12
20 3 0.05
21 4 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (15 bp):
ATAAATAATAAAAAT
Found at i:9046966 original size:26 final size:27
Alignment explanation
Indices: 9046847--9046974 Score: 104
Period size: 30 Copynumber: 4.6 Consensus size: 27
9046837 AGATAAAGTC
*
9046847 AAAAAATATATATATTAATAGATAAATAAT
1 AAAAAA-ATATATAATAAT--ATAAATAAT
*
9046877 AAAAAACATATATATTAATAGATAAATAAT
1 AAAAAA-ATATATAATAAT--ATAAATAAT
*
9046907 -AAAATATATATAGATAA-AT-AATATAT
1 AAAAAAATATATA-ATAATATAAATA-AT
* *
9046933 TAATAAATA-ATAATAATATAAATAAT
1 AAAAAAATATATAATAATATAAATAAT
9046959 AAAAAAATA-ATAATAA
1 AAAAAAATATATAATAA
9046975 AAATAAAAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
25 8 0.09
26 25 0.29
27 10 0.12
28 7 0.08
29 7 0.08
30 29 0.34
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (27 bp):
AAAAAAATATATAATAATATAAATAAT
Found at i:9047535 original size:43 final size:42
Alignment explanation
Indices: 9047156--9047538 Score: 275
Period size: 43 Copynumber: 9.1 Consensus size: 42
9047146 AATTTTGATC
* * *
9047156 AAAGCTCCTCTAAGCAAAGGCTTAACGACTTTG-AAA-AAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
* * *
9047196 AAATTACTCCTCTAAATAGAGGCTCAACGACTTTAGAAAATAAAC
1 AAA--GCTCCTCTAAACAGAGGCTCAACGACTTT-GAAAATAAAT
* *
9047241 AAAGCTCCTCTAAACAAAGGCTCAATGACTTTG--AA-AAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
* * ** *
9047280 AAAGCTCCTCTAAGCAAAGGCTCAATAACTTTTGAAAGTAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAAATAAAT
* * * * * *
9047323 --TGCTCCCCTAAATAGAGGCACCACAACTTTG-AAA-AAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
* * ** *
9047361 AAATGGCTCTTCTAAGCAGAGGCTCAACGACTTAAAAAAAATAAAC
1 AAA--GCTCCTCTAAACAGAGGCTCAACGACTT--TGAAAATAAAT
* * * *
9047407 ATAGCTCCTCTAATA-AGAGGCTTAACGAC-TTGAAAAAAAAA
1 AAAGCTCCTCTAA-ACAGAGGCTCAACGACTTTGAAAATAAAT
* *
9047448 ACATAGCTCCTCTAATCAGAGGCTTAACGACTTTGAAAAATAAAT
1 A-A-AGCTCCTCTAAACAGAGGCTCAACGACTTTG-AAAATAAAT
** *
9047493 AAAGCTCCTCTAATTAGAGGCTCAATGACTTTGGAAAATAAAT
1 AAAGCTCCTCTAAACAGAGGCTCAACGACTTT-GAAAATAAAT
9047536 AAA
1 AAA
9047539 CAAAGTTTCT
Statistics
Matches: 270, Mismatches: 49, Indels: 45
0.74 0.13 0.12
Matches are distributed among these distances:
38 4 0.01
39 32 0.12
40 13 0.05
41 27 0.10
42 47 0.17
43 95 0.35
44 30 0.11
45 17 0.06
46 5 0.02
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (42 bp):
AAAGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAATAAAT
Found at i:9047582 original size:90 final size:86
Alignment explanation
Indices: 9047397--9047576 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 86
9047387 ACGACTTAAA
* * * *
9047397 AAAAATAAACATAGCTCCTCTAATAAGAGGCTTAACGACTTGAAAAAAAAAACATAGCTCCTCTA
1 AAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAACGACTTGAAAAAAAAAACAAAGCTCCTCTA
* * *
9047462 ATCAGAGGCTTAACGACTTTG
66 AACAGAGGCATAACAACTTTG
* * * *
9047483 AAAAATAAATAAAGCTCCTCTAATTAGAGGCTCAATGACTTTGGAAAATAAATAAACAAAGTTTC
1 AAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAACGAC-TT-GAAAA-AAA-AAACAAAGCTCC
*
9047548 TCTAAACAGAGGCATCACAACTTTTG
62 TCTAAACAGAGGCATAACAAC-TTTG
9047574 AAA
1 AAA
9047577 GTAAATGCTC
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
86 34 0.44
87 2 0.03
88 5 0.06
89 3 0.04
90 26 0.34
91 7 0.09
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (86 bp):
AAAAATAAATAAAGCTCCTCTAATAAGAGGCTCAACGACTTGAAAAAAAAAACAAAGCTCCTCTA
AACAGAGGCATAACAACTTTG
Found at i:9048596 original size:12 final size:12
Alignment explanation
Indices: 9048581--9048609 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9048571 TTTCGTTCCC
9048581 TTTTTTT-TCTT
1 TTTTTTTATCTT
9048592 TTTTTTTATCTT
1 TTTTTTTATCTT
9048604 TTTTTT
1 TTTTTT
9048610 AAGCATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.03, C:0.07, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTATCTT
Found at i:9055948 original size:355 final size:356
Alignment explanation
Indices: 9055214--9055932 Score: 1126
Period size: 355 Copynumber: 2.0 Consensus size: 356
9055204 AGCCCGTAAC
*
9055214 CTTTGTTCAAGCATACTAATCTTTAAATTTTCTTAAGATTTCACCATCATTGCATTTTCTTTCTC
1 CTTTGCTCAAGCATACTAATCTTTAAATTTTCTTAAGATTTCACCATCATTGCATTTTCTTTCTC
*
9055279 ATTCTCTTTAAAGTCATCTAGATCAATAACTTGGATTGGTTCTACTACCTTTTCAGTAAAGACAG
66 ATTCTCTTTAAAGTCATCTAGATCAAGAACTTGGATTGGTTCTACTACCTTTTCAGTAAAGACAG
* *
9055344 AATTTACATAGCTATGGTAATGCTTTGGGTTTGAAACTAATGGCATTCCAGGGTATACAAGATAT
131 AATTTACATAGCTATGGTAATGCTCTAGGTTTGAAACTAATGGCATTCCAGGGTATACAAGATAT
* * *
9055409 GTAAATTGCTATGGTGGTATATCCTATGTGGACTGGGCTTATTGTGGACCAAAACCTGAAGGATA
196 GTAAACTGCTATGGTGGTATATCCTATGTGGACTGGGCTTATTATGGACAAAAACCTGAAGGATA
* *
9055474 TAGAGGGTCAACCACTTCTTGTGATAGGGGACCTTGTTGGCTTGTATTTTTTTCTATTTCTTTTT
261 TAGAGGGTCAACCACTTCTTGTGATAGGGGACCTTATTGGCTTGTATTTTCTTCTATTTCTTTTT
9055539 CCTTGTTTAGCTTACTGAGAGCATCCAGAAT
326 CCTTGTTTAGCTTACTGAGAGCATCCAGAAT
* * * *
9055570 CTTTGTTCAAGCATACTAATCTTTAAATCTTT-TTGAG-TTTTACCA-CATTTGCCTTTTCTTTC
1 CTTTGCTCAAGCATACTAATCTTTAAAT-TTTCTTAAGATTTCACCATCA-TTGCATTTTCTTTC
* *
9055632 TCTTTCTCTTTTAAGTCATCTAGATCAAGAACTTGGATTGGTTCTACTACCTTTTCAGTAAAGAC
64 TCATTCTCTTTAAAGTCATCTAGATCAAGAACTTGGATTGGTTCTACTACCTTTTCAGTAAAGAC
*
9055697 AGGATTTACATAGCTATGGTAATGCTCTAGGTTTGAAACTAATGGCATTCCAGGGTATACAAGAT
129 AGAATTTACATAGCTATGGTAATGCTCTAGGTTTGAAACTAATGGCATTCCAGGGTATACAAGAT
* * * * * *
9055762 ATGTGAACTGCTGTGGTGGTATATCCTGTGTGGACTGGGCTTGTTATGGATAAAAACTTGAAGGA
194 ATGTAAACTGCTATGGTGGTATATCCTATGTGGACTGGGCTTATTATGGACAAAAACCTGAAGGA
* *
9055827 TATAGAGGGTCAGCCACTTCTTGTGATAGGGG-GCTTATTGGCTTGTATTTTCTTCTA-TTCTTT
259 TATAGAGGGTCAACCACTTCTTGTGATAGGGGACCTTATTGGCTTGTATTTTCTTCTATTTCTTT
* **
9055890 TTCTCTTGTTTAGCTTGCTGAGAGCATTTAGAAT
324 TTC-CTTGTTTAGCTTACTGAGAGCATCCAGAAT
9055924 C-TTGCTCAA
1 CTTTGCTCAA
9055933 CTCATTCTCA
Statistics
Matches: 334, Mismatches: 26, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
353 16 0.05
354 52 0.16
355 231 0.69
356 32 0.10
357 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (356 bp):
CTTTGCTCAAGCATACTAATCTTTAAATTTTCTTAAGATTTCACCATCATTGCATTTTCTTTCTC
ATTCTCTTTAAAGTCATCTAGATCAAGAACTTGGATTGGTTCTACTACCTTTTCAGTAAAGACAG
AATTTACATAGCTATGGTAATGCTCTAGGTTTGAAACTAATGGCATTCCAGGGTATACAAGATAT
GTAAACTGCTATGGTGGTATATCCTATGTGGACTGGGCTTATTATGGACAAAAACCTGAAGGATA
TAGAGGGTCAACCACTTCTTGTGATAGGGGACCTTATTGGCTTGTATTTTCTTCTATTTCTTTTT
CCTTGTTTAGCTTACTGAGAGCATCCAGAAT
Found at i:9056221 original size:19 final size:20
Alignment explanation
Indices: 9056197--9056234 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9056187 ACAATATTCA
*
9056197 TCCAAAAGA-TTTCATTTAT
1 TCCAAAAAACTTTCATTTAT
9056216 TCCAAAAAACTTTCATTTA
1 TCCAAAAAACTTTCATTTA
9056235 CATAGAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (20 bp):
TCCAAAAAACTTTCATTTAT
Found at i:9059651 original size:13 final size:14
Alignment explanation
Indices: 9059633--9059668 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9059623 AATATATATT
*
9059633 TTTTATTTT-GGAA
1 TTTTATTTTAGAAA
9059646 TTTTATTTTAGAAA
1 TTTTATTTTAGAAA
9059660 TTTTATTTT
1 TTTTATTTT
9059669 TAAGGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (14 bp):
TTTTATTTTAGAAA
Found at i:9059752 original size:95 final size:96
Alignment explanation
Indices: 9059554--9059755 Score: 282
Period size: 97 Copynumber: 2.1 Consensus size: 96
9059544 CATAAACATT
* * * * *
9059554 TTTTAAAAAATTTATTTTTAAAGAAAATTCATAGTTTTACCTTTTCTTCAAAAATACTTTTTTTT
1 TTTTAGAAAATTTATTTTTAAAGAAAATTCATACTTTCAACTTTTCTTCAAAAACAC-TTTTTTT
9059619 CAAAAATATATATTTTTTATTTTGGAATTTTA
65 CAAAAATATATATTTTTTATTTTGGAATTTTA
* * * *
9059651 TTTTAGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTTTAAAAACAC-TTTTTTC
1 TTTTAGAAAATTTATTTTTAAAGAAAATTCATACTTTCAACTTTTCTTCAAAAACACTTTTTTTC
*
9059715 AAAAATATAT-TTTTTTGTTTTTGGAATTTTA
66 AAAAATATATATTTTTT-ATTTTGGAATTTTA
9059746 TTTTAGAAAA
1 TTTTAGAAAA
9059756 ATCATTAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
94 6 0.06
95 39 0.42
97 48 0.52
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (96 bp):
TTTTAGAAAATTTATTTTTAAAGAAAATTCATACTTTCAACTTTTCTTCAAAAACACTTTTTTTC
AAAAATATATATTTTTTATTTTGGAATTTTA
Found at i:9059773 original size:95 final size:96
Alignment explanation
Indices: 9059573--9059773 Score: 235
Period size: 95 Copynumber: 2.1 Consensus size: 96
9059563 ATTTATTTTT
* * * * *
9059573 AAAGAAAATTCATAGTTTTACCTTTTCTTCAAAAATACTTTTTTTTCAAAAATATATATTTTTTA
1 AAAGAAAATTGATACTTTCAACTTTTCTTCAAAAACAC-TTTTTTTCAAAAATATATATTTTTTA
** * ***
9059638 TTTTGGAATTTTATTTTAGAAATTTTATTTTT
65 TTTTGGAATTTTATTTTAGAAAAATCATTAAA
* * *
9059670 AAGGAAAATTGATACTTTCAACTTTTCTTTAAAAACAC-TTTTTTCAAAAATATAT-TTTTTTGT
1 AAAGAAAATTGATACTTTCAACTTTTCTTCAAAAACACTTTTTTTCAAAAATATATATTTTTT-A
9059733 TTTTGGAATTTTATTTTAGAAAAATCATTAAA
65 TTTTGGAATTTTATTTTAGAAAAATCATTAAA
*
9059765 AAATAAAAT
1 AAAGAAAAT
9059774 AAAATAAAAC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 6 0.07
95 50 0.57
97 31 0.36
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (96 bp):
AAAGAAAATTGATACTTTCAACTTTTCTTCAAAAACACTTTTTTTCAAAAATATATATTTTTTAT
TTTGGAATTTTATTTTAGAAAAATCATTAAA
Found at i:9059781 original size:17 final size:18
Alignment explanation
Indices: 9059761--9059797 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
9059751 GAAAAATCAT
9059761 TAAAAAATAAA-ATAAAA
1 TAAAAAATAAAGATAAAA
*
9059778 T-AAAACTAAAGATAAAA
1 TAAAAAATAAAGATAAAA
9059795 TAA
1 TAA
9059798 GGAATACCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.47
17 8 0.47
18 1 0.06
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (18 bp):
TAAAAAATAAAGATAAAA
Found at i:9059787 original size:6 final size:5
Alignment explanation
Indices: 9059764--9059797 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
9059754 AAATCATTAA
9059764 AAAAT AAAAT AAAAT AAAACT AAAGAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAA-T AAA-AT AAAAT AA
9059798 GGAATACCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 18 0.67
6 8 0.30
7 1 0.04
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:9059844 original size:3 final size:3
Alignment explanation
Indices: 9059820--9059878 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
9059810 AATTCTAATC
* * *
9059820 TAA TAAA TAC TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA -AA GAAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
9059866 TAA TAA TAT TAA T
1 TAA TAA TAA TAA T
9059879 TAATTAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:9059887 original size:21 final size:20
Alignment explanation
Indices: 9059815--9059893 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 20
9059805 CGAATAATTC
* *
9059815 TAATCTAATAAATACTAATAC
1 TAAT-TAATAAATAATAATAT
*
9059836 TAA-TAAT-AATAATAATAA
1 TAATTAATAAATAATAATAT
* *
9059854 TAATAAAAGAAATAATAATAT
1 TAAT-TAATAAATAATAATAT
9059875 TAATTAATTAAATATATAA
1 TAATTAA-TAAATA-ATAA
9059894 AAAAAACCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 12 0.26
19 4 0.09
20 4 0.09
21 22 0.48
22 4 0.09
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (20 bp):
TAATTAATAAATAATAATAT
Found at i:9060361 original size:21 final size:22
Alignment explanation
Indices: 9060330--9060381 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
9060320 TTTAGAAATT
*
9060330 TTTTAGAAAAAAACTC-CAAAAA
1 TTTT-GAAAAAAACTCAAAAAAA
*
9060352 TTTTGAAAAAAATTCAAAAAAAA
1 TTTTGAAAAAAACTC-AAAAAAA
9060375 TTTTGAA
1 TTTTGAA
9060382 CTGCCTCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 10 0.38
22 4 0.15
23 12 0.46
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.29
Consensus pattern (22 bp):
TTTTGAAAAAAACTCAAAAAAA
Found at i:9060369 original size:20 final size:22
Alignment explanation
Indices: 9060330--9060372 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9060320 TTTAGAAATT
9060330 TTTTAGAAAAAAACTCCAAAAA
1 TTTTAGAAAAAAACTCCAAAAA
* *
9060352 TTTT-GAAAAAAATTCAAAAAA
1 TTTTAGAAAAAAACTCCAAAAA
9060373 AATTTTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (22 bp):
TTTTAGAAAAAAACTCCAAAAA
Found at i:9060674 original size:26 final size:25
Alignment explanation
Indices: 9060628--9060734 Score: 85
Period size: 26 Copynumber: 4.0 Consensus size: 25
9060618 TAAAGTCAAA
*
9060628 AAAAAATATATTAATAGATAAATAAT
1 AAAAAATATA-TAATAAATAAATAAT
*
9060654 AAAAAATATATAGATAAATAATATATT
1 AAAAAATATATA-ATAAATAA-ATAAT
*
9060681 AATAAATAATAATAATATAATATAAATAATT
1 AAAAAAT-AT-AT-A-ATAA-ATAAATAA-T
9060712 AAAAAATA-ATAAT-AATAAA-AAT
1 AAAAAATATATAATAAATAAATAAT
9060734 A
1 A
9060735 CAAATGGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
22 2 0.03
23 2 0.03
24 5 0.07
25 3 0.04
26 19 0.28
27 11 0.16
28 4 0.06
29 2 0.03
30 9 0.13
31 11 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAAAATATATAATAAATAAATAAT
Found at i:9060676 original size:15 final size:15
Alignment explanation
Indices: 9060650--9060734 Score: 65
Period size: 15 Copynumber: 5.8 Consensus size: 15
9060640 AATAGATAAA
*
9060650 TAATAAAAAATATA-
1 TAATAAATAATATAT
9060664 TAGATAAATAATATAT
1 TA-ATAAATAATATAT
9060680 TAATAAATAATA-A-
1 TAATAAATAATATAT
*
9060693 TAATATAATATAAATAAT
1 TAATA-AATA-ATAT-AT
*
9060711 TAAAAAATAATA-A-
1 TAATAAATAATATAT
9060724 TAATAAA-AATA
1 TAATAAATAATA
9060735 CAAATGGGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
12 4 0.07
13 11 0.19
14 8 0.14
15 23 0.39
16 4 0.07
17 5 0.08
18 4 0.07
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (15 bp):
TAATAAATAATATAT
Found at i:9060691 original size:3 final size:3
Alignment explanation
Indices: 9060648--9060734 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
9060638 TTAATAGATA
*
9060648 AAT AAT AA- AA- AAT ATAT AGAT AAAT AAT -AT ATT AAT AAAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT A-AT -AAT AAT AAT AAT AAT -AAT AAT AAT
*
9060694 AAT -AT AAT -AT AAAT AATT AA- AA- AAT AAT AAT AAT AAA AAT A
1 AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A
9060735 CAAATGGGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
2 14 0.20
3 39 0.57
4 15 0.22
5 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9060729 original size:24 final size:22
Alignment explanation
Indices: 9060648--9060739 Score: 73
Period size: 23 Copynumber: 4.0 Consensus size: 22
9060638 TTAATAGATA
*
9060648 AATAATAAAAAATATATAGATAAAT
1 AATAATAATAAATA-ATA-A-AAAT
*
9060673 AATATATTAATAAATAATAATAAT
1 AATA-A-TAATAAATAATAAAAAT
9060697 -ATAAT-ATAAATAATTAAAAAAT
1 AATAATAATAAATAA-T-AAAAAT
*
9060719 AATAATAATAAA-AATACAAAT
1 AATAATAATAAATAATAAAAAT
9060740 GGGTTGGACC
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
20 8 0.14
21 7 0.12
22 7 0.12
23 10 0.18
24 8 0.14
25 5 0.09
26 4 0.07
27 8 0.14
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (22 bp):
AATAATAATAAATAATAAAAAT
Found at i:9060729 original size:34 final size:34
Alignment explanation
Indices: 9060661--9060728 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 34
9060651 AATAAAAAAT
*
9060661 ATATAGATA-AATAATATATTAATAAATAATAATA
1 ATATA-ATAGAATAATATATTAAAAAATAATAATA
*
9060695 ATATAATA-TA-AATA-ATTAAAAAATAATAATA
1 ATATAATAGAATAATATATTAAAAAATAATAATA
9060726 ATA
1 ATA
9060729 AAAATACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 19 0.59
32 4 0.12
33 4 0.12
34 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (34 bp):
ATATAATAGAATAATATATTAAAAAATAATAATA
Found at i:9062354 original size:16 final size:15
Alignment explanation
Indices: 9062333--9062362 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9062323 TTTTATTATA
9062333 CATATTTATATATTAG
1 CATATTTATA-ATTAG
9062349 CATATTTATAATTA
1 CATATTTATAATTA
9062363 TAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (15 bp):
CATATTTATAATTAG
Found at i:9063501 original size:50 final size:50
Alignment explanation
Indices: 9063433--9063897 Score: 182
Period size: 50 Copynumber: 9.3 Consensus size: 50
9063423 ATCTCCAAAT
* *
9063433 TTCTTAAATTCAAGAACAAGTCT-TAATGACCCTTAAAGTGAAATCCA-AC
1 TTCTTCAATTCAAGAACAAGTCTCT-ATGACCCTTAAAGTAAAATCCATAC
* * * *
9063482 TCTCTTCAATTCAAGAACAAGTCTCTATGACCTTTGACGTAAAATTCATAC
1 T-TCTTCAATTCAAGAACAAGTCTCTATGACCCTTAAAGTAAAATCCATAC
** * * * **
9063533 TT-TTCAATTCAAGAACAAGTCTCTACAAACCTTGAAGCAAAGCCCATA-
1 TTCTTCAATTCAAGAACAAGTCTCTATGACCCTTAAAGTAAAATCCATAC
* ** * * *
9063581 TTCCTTCAATTCAAGAACAAGTCTTTACAACCCTTGAAA-TGAAGTCCACA-
1 TT-CTTCAATTCAAGAACAAGTCTCTATGACCCTT-AAAGTAAAATCCATAC
* * * * * * * * * * *
9063631 TTCCTTTAGTTTAAGAATAAGTCCCAACGACTCTTGAAGTGAAGTCCATA-
1 TT-CTTCAATTCAAGAACAAGTCTCTATGACCCTTAAAGTAAAATCCATAC
* * * * **
9063681 TTCATTCAATTTAAGAATAAGTCTC-A-GAAACCCTTGAAGCAAAATTAATA-
1 TTC-TTCAATTCAAGAACAAGTCTCTATG--ACCCTTAAAGTAAAATCCATAC
* * * * * * * *
9063731 TTCCTTTAATTCAAGAATAAGTCTCAATGACTCTTGAAGCAAAGTCCATAT
1 TT-CTTCAATTCAAGAACAAGTCTCTATGACCCTTAAAGTAAAATCCATAC
* * * * **
9063782 TTATTCAATTTAAGAATAAGTCT-TAAAGA-CCTTCAAAGCGAAATCCATA-
1 TTCTTCAATTCAAGAACAAGTCTCT-ATGACCCTT-AAAGTAAAATCCATAC
* * * ** ** * **
9063831 TTATTTCAATTTAAGAACAAGTCTTTACAACCCTTGTAGCAAAATTTATAC
1 TT-CTTCAATTCAAGAACAAGTCTCTATGACCCTTAAAGTAAAATCCATAC
*
9063882 TTTTTCAATTCAAGAA
1 TTCTTCAATTCAAGAA
9063898 TAAATCATTA
Statistics
Matches: 329, Mismatches: 67, Indels: 39
0.76 0.15 0.09
Matches are distributed among these distances:
48 3 0.01
49 47 0.14
50 261 0.79
51 17 0.05
52 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (50 bp):
TTCTTCAATTCAAGAACAAGTCTCTATGACCCTTAAAGTAAAATCCATAC
Found at i:9063680 original size:100 final size:101
Alignment explanation
Indices: 9063563--9063805 Score: 292
Period size: 100 Copynumber: 2.4 Consensus size: 101
9063553 CTCTACAAAC
* * * * * * ** *
9063563 CTTGAAGCAAAGCCCATATTCCTTCAATTCAAGAACAAGTCTTTA-CAACCCTTGAAATGAAGTC
1 CTTGAAGCAAAGTCCATATTCATTCAATTTAAGAATAAGTCTTCAGAAACCCTTGAAACAAAATC
* * *
9063627 CACATTCCTTTAGTTTAAGAATAAGTCCCAACGACT
66 AACATTCCTTTAATTCAAGAATAAGTCCCAACGACT
** * *
9063663 CTTGAAGTGAAGTCCATATTCATTCAATTTAAGAATAAGTC-TCAGAAACCCTTGAAGCAAAATT
1 CTTGAAGCAAAGTCCATATTCATTCAATTTAAGAATAAGTCTTCAGAAACCCTTGAAACAAAATC
* * *
9063727 AATATTCCTTTAATTCAAGAATAAGTCTCAATGACT
66 AACATTCCTTTAATTCAAGAATAAGTCCCAACGACT
*
9063763 CTTGAAGCAAAGTCCATATTTATTCAATTTAAGAATAAGTCTT
1 CTTGAAGCAAAGTCCATATTCATTCAATTTAAGAATAAGTCTT
9063806 AAAGACCTTC
Statistics
Matches: 119, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 2 0.02
100 116 0.97
101 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (101 bp):
CTTGAAGCAAAGTCCATATTCATTCAATTTAAGAATAAGTCTTCAGAAACCCTTGAAACAAAATC
AACATTCCTTTAATTCAAGAATAAGTCCCAACGACT
Found at i:9063872 original size:100 final size:100
Alignment explanation
Indices: 9063538--9063923 Score: 291
Period size: 100 Copynumber: 3.9 Consensus size: 100
9063528 CATACTTTTC
* * * * *
9063538 AATTCAAGAACAAGTCTCTACAAACCTTGAAGCAAAGCCCATATTCCTTCAATTCAAGAACAAGT
1 AATTCAAGAACAAGTCTCAACAACCCTTGAAGCAAAGTCCATATTCATTCAATTCAAGAATAAGT
* * * * *
9063603 CTTTACAACCCTTGAAA-TGAAGTCCACATTCCTTT
66 CATTACAAACCTT-AAAGCGAAATCCATATTCCTTT
* * * * * * ** *
9063638 AGTTTAAGAATAAGTCCCAACGACTCTTGAAGTGAAGTCCATATTCATTCAATTTAAGAATAAGT
1 AATTCAAGAACAAGTCTCAACAACCCTTGAAGCAAAGTCCATATTCATTCAATTCAAGAATAAGT
* * * * **
9063703 C-TCAGAAACCCTTGAAGCAAAATTAATATTCCTTT
66 CATTACAAA-CCTTAAAGCGAAATCCATATTCCTTT
* ** * * *
9063738 AATTCAAGAATAAGTCTCAATGACTCTTGAAGCAAAGTCCATATTTATTCAATTTAAGAATAAGT
1 AATTCAAGAACAAGTCTCAACAACCCTTGAAGCAAAGTCCATATTCATTCAATTCAAGAATAAGT
*
9063803 C-TTA-AAGACCTTCAAAGCGAAATCCATATT-ATTT
66 CATTACAA-ACCTT-AAAGCGAAATCCATATTCCTTT
* ** * * ** *
9063837 CAATTTAAGAACAAGTCTTTACAACCCTTGTAGCAAAATTTATACTT-TTTCAATTCAAGAATAA
1 -AATTCAAGAACAAGTCTCAACAACCCTTGAAGCAAAGTCCATA-TTCATTCAATTCAAGAATAA
*
9063901 ATCATTA-AGAACCTTAAAGCGAA
64 GTCATTACA-AACCTTAAAGCGAA
9063924 GATGAAATTT
Statistics
Matches: 227, Mismatches: 51, Indels: 16
0.77 0.17 0.05
Matches are distributed among these distances:
99 15 0.07
100 200 0.88
101 11 0.05
102 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (100 bp):
AATTCAAGAACAAGTCTCAACAACCCTTGAAGCAAAGTCCATATTCATTCAATTCAAGAATAAGT
CATTACAAACCTTAAAGCGAAATCCATATTCCTTT
Found at i:9066821 original size:27 final size:27
Alignment explanation
Indices: 9066783--9066857 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
9066773 TTGATAGGTT
*
9066783 GGGTAGGTTGAGAATCTAGTTTTGAAG
1 GGGTTGGTTGAGAATCTAGTTTTGAAG
*
9066810 GGGTTGGTTGAGATTCTAGTTTTGAAG
1 GGGTTGGTTGAGAATCTAGTTTTGAAG
* *
9066837 AGGTTTGTT-AGGAATCTAGTT
1 GGGTTGGTTGA-GAATCTAGTT
9066858 AAGAATCTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 41 0.98
ACGTcount: A:0.23, C:0.04, G:0.35, T:0.39
Consensus pattern (27 bp):
GGGTTGGTTGAGAATCTAGTTTTGAAG
Found at i:9071104 original size:21 final size:22
Alignment explanation
Indices: 9071063--9071107 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9071053 TTACTTTTTC
*
9071063 TTTCTATTTTTCATATATTCTT
1 TTTCCATTTTTCATATATTCTT
9071085 TTTCCATTTTATCAT-T-TTCTT
1 TTTCCATTTT-TCATATATTCTT
9071106 TT
1 TT
9071108 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 10 0.48
23 4 0.19
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCCATTTTTCATATATTCTT
Found at i:9089103 original size:24 final size:24
Alignment explanation
Indices: 9089076--9089127 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
9089066 AAATAAATTT
9089076 GATTCTTATATTAAACAAAAACTC
1 GATTCTTATATTAAACAAAAACTC
* ** *
9089100 GATTTTTATATTTGATAAAAACTC
1 GATTCTTATATTAAACAAAAACTC
9089124 GATT
1 GATT
9089128 GTTTTGTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (24 bp):
GATTCTTATATTAAACAAAAACTC
Found at i:9091878 original size:18 final size:17
Alignment explanation
Indices: 9091827--9091878 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
9091817 AAAAATAGTT
9091827 ATGAAAAAGAAAAAAAA
1 ATGAAAAAGAAAAAAAA
* **
9091844 AAGAAAAGAGAATAAAACG
1 ATGAAAA-AGAA-AAAAAA
*
9091863 TTGAAAAAGAAAAAAA
1 ATGAAAAAGAAAAAAA
9091879 GAAAAGATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 10 0.37
18 8 0.30
19 9 0.33
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.08
Consensus pattern (17 bp):
ATGAAAAAGAAAAAAAA
Found at i:9092715 original size:17 final size:17
Alignment explanation
Indices: 9092693--9092751 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
9092683 TAAATTGCAT
*
9092693 AAATTTAAATAACATAG
1 AAATTTAAATAACATAA
** *
9092710 AAATTTAAATTGCA-AT
1 AAATTTAAATAACATAA
9092726 AAATTTAAATAACATAA
1 AAATTTAAATAACATAA
*
9092743 AAAATTAAA
1 AAATTTAAA
9092752 GTGCTTCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 13 0.38
17 21 0.62
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATTTAAATAACATAA
Found at i:9092733 original size:33 final size:32
Alignment explanation
Indices: 9092678--9092788 Score: 114
Period size: 33 Copynumber: 3.4 Consensus size: 32
9092668 TTACTACTAG
* *
9092678 AAAAGTAAATTGCATAAATTTAAATAACATAG
1 AAAATTAAATTGCATAAATTTAAATAACATAA
*
9092710 AAATTTAAATTGCAATAAATTTAAATAACATAA
1 AAAATTAAATTGC-ATAAATTTAAATAACATAA
* * ** * *
9092743 AAAATTAAAGTGCTTCAAAAATAAATTACATGTA
1 AAAATTAAATTGCAT-AAATTTAAATAACAT-AA
9092777 AAAATTAAATTG
1 AAAATTAAATTG
9092789 TAAAAAAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
32 12 0.18
33 41 0.63
34 12 0.18
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (32 bp):
AAAATTAAATTGCATAAATTTAAATAACATAA
Found at i:9094575 original size:305 final size:304
Alignment explanation
Indices: 9094170--9095627 Score: 1910
Period size: 305 Copynumber: 4.8 Consensus size: 304
9094160 ACTTTTAATA
* * * * * *
9094170 GTCAGATTATTGAAGGTGGTTATATCCATAAATGCCTTCAATAAAATTTTGGTAGGGACTATTCA
1 GTCAGATTATTGAAGGCGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCA
* * **
9094235 AGGTGTTACCCATAGGAAA-ACACCTTTCATAATCCATTCGATTAATTTTTACTTGGTATTATCA
66 AGGTGTTACCCATAGGAAATGC-CC-TTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTG
* * *
9094299 AAGGCGTTTTTCTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGTG
129 AAGGCGTTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGATTCTTGAAGGCG
* * *
9094364 TTTTTTTTATCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGCTGGGATTATTGAAAG-A
194 -TTTTTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGATGGGATTATTGAAGGCA
* * *
9094428 GGTTTTGGTAAAAACGGCATTAATATTCCAAACGATAAA-TTTTGATG
258 -GTTTTGGTAAAAATGCCATTAATATTCCAAACAATAAATTTTTGATG
* * *
9094475 GTCAGATTATTGAAAGGCGGTTATATCCAAAAACGCCTTCAATAACATTTTGATAAGGATTATTC
1 GTCAGATTATTG-AAGGCGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTC
*
9094540 AAGGTGTTACCCGTAAGGAAAT-CCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTG
65 AAGGTGTTACCCAT-AGGAAATGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTG
* * * *
9094604 AAGGTGTTTTTCTAAAATGCCTTCAATAATTTATACAAAAAAGACTTGATGGATTCTTGAAGGC-
129 AAGGCGTTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGATTCTTGAAGGCG
* * * * *
9094668 TTTTTTTGCCCAAAATGCCTTTAATATTCCATACAATAAATTTTTGATTGGATTATTGAAGGCAG
194 TTTTTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGATGGGATTATTGAAGGCAG
* * *
9094733 TTTTGGTAAAAAATGCCATTAATATTCCAAACGATAAATTTTTGCTT
259 TTTTGGT-AAAAATGCCATTAATATTCCAAACAATAAATTTTTGATG
* * *
9094780 GTC-GAATTATTGAAGGTGGTTATATCCAGAAACACCTTCAATAACATTTTGTTAGGGATTATTA
1 GTCAG-ATTATTGAAGGCGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTC
** * ** *
9094844 AAGGCATTACCCATAGGAAAATGTCCTTCATAATCCATTCGATTAATTTTTAGTTACTACTATTG
65 AAGGTGTTACCCATAGG-AAATGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTG
* *
9094909 AAGGTC-TTTTTTTAAAACACCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGC
129 AAGG-CGTTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGATTCTTGAAGGC
* * * *
9094973 G-TTTTTGACCCAAAATGCCTTTAATTTTTCACACAATAAAATTTTGGTGGAATTATTGAAGGCA
193 GTTTTTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGATGGGATTATTGAAGGCA
9095037 GTTTTGGTAAAAATGCCATTAATATTCCAAACAATAAA-TTTTGATG
258 GTTTTGGTAAAAATGCCATTAATATTCCAAACAATAAATTTTTGATG
* * * *
9095083 GTCAGATTATTAAAGGCTGTTATATCTAGAAATGCCTTCAATAACATTTTGTTAGGGATTATTCA
1 GTCAGATTATTGAAGGCGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCA
** *** * *
9095148 AGGCATTACATGTAGGACAATGCCATTCATAATCCATTCAATTAATTTTTAGTTGGTATTATTGA
66 AGGTGTTACCCATAGGA-AATGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGA
* * * * * * *
9095213 AGGCATTTTTTTAAAACACCTTTAATAATTTAAACAAAAAAGATTCAATGGATTTTTGAAGGCG-
130 AGGCGTTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGATTCTTGAAGGCGT
* * * * *
9095277 TTTTTTACCCAAAATGCCTTTAATATTCCACACAATAAATTTTTTATTGGATTATTGAAGGTAGT
195 TTTTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGATGGGATTATTGAAGGCAGT
* * *
9095342 TTTGGTAAAAAATGCTATTAATATTTCGAACAATAAATTTTTGATG
260 TTTGGT-AAAAATGCCATTAATATTCCAAACAATAAATTTTTGATG
* * * *
9095388 GTCGGATTATTGAAGGCGGTTATATCCAGAAACGCCTTTAATAACATTTTGTTAAGGATTATTAA
1 GTCAGATTATTGAAGGCGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCA
*
9095453 AGGTGTTACCCATAGGAAAATGCCCTTCATAATCCATTCCATTAATTTTTAGTTGGTATTATTGA
66 AGGTGTTACCCATAGG-AAATGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGA
* * ** * ** *
9095518 AGGTGTTTTTTTAAAACGCCTTTAATAATCCATACAAAAAAGGCTCGATATATTCTTGAAGGCAT
130 AGGCGTTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGATTCTTGAAGGCGT
* *
9095583 TTTTTTTCCCAAAATGCCTTTAATTTTTCACACAATTAATTTTTG
195 TTTTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTG
9095628 GGTTGATTAT
Statistics
Matches: 1009, Mismatches: 126, Indels: 35
0.86 0.11 0.03
Matches are distributed among these distances:
302 2 0.00
303 299 0.30
304 148 0.15
305 452 0.45
306 101 0.10
307 7 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (304 bp):
GTCAGATTATTGAAGGCGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCA
AGGTGTTACCCATAGGAAATGCCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAA
GGCGTTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGATTCTTGAAGGCGTT
TTTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGATGGGATTATTGAAGGCAGTT
TTGGTAAAAATGCCATTAATATTCCAAACAATAAATTTTTGATG
Found at i:9095274 original size:608 final size:607
Alignment explanation
Indices: 9094175--9095659 Score: 2084
Period size: 608 Copynumber: 2.4 Consensus size: 607
9094165 TAATAGTCAG
* * * * * *
9094175 ATTATTGAAGGTGGTTATATCCATAAATGCCTTCAATAAAATTTTGGTAGGGACTATTCAAGGTG
1 ATTATTGAAGGTGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTAAAGGTG
* * **
9094240 TTACCCATAGGAAAA-CACCTTTCATAATCCATTCGATTAATTTTTACTTGGTATTATCAAAGG-
66 TTACCCATAGGAAAATGACC-TTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGT
* *
9094303 CGTTTTTCTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGTGTTTT
130 C-TTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGCG--TT
* * *
9094368 TTTTATCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGCTGGGATTATTGAAAG-AGGTT
192 TTTTACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGGT-GGATTATTGAAGGCA-GTT
* *
9094432 TTGGTAAAAACGGCATTAATATTCCAAACGATAAATTTTGATGGTCAGATTATTGAAAGGCGGTT
255 TTGGTAAAAACGCCATTAATATTCCAAACAATAAATTTTGATGGTCAGATTATTGAAAGGCGGTT
** *
9094497 ATATCCAAAAACGCCTTCAATAACATTTTGATAAGGATTATTCAAGGTGTTACCCGTAAGGAAAT
320 ATATCCAAAAACGCCTTCAATAACATTTTGATAAGGATTATTCAAGGCATTACACGTAAGGAAAT
* * ** **
9094562 CCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTGTTTTTCTAAAATGCCTT
385 CCATTCATAATCCATTCAATTAATTTTTAGTTGGTATTATTGAAGGCATTTTTCTAAAACACCTT
* * * *
9094627 CAATAATTTATACAAAAAAGACTTGATGGATTCTTGAAGGCTTTTTTTGCCCAAAATGCCTTTAA
450 CAATAATTTAAACAAAAAAGACTTAATGGATTCTTGAAGGCGTTTTTTACCCAAAATGCCTTTAA
*
9094692 TATTCCATACAATAAATTTTTGATTGGATTATTGAAGGCAGTTTTGGTAAAAAATGCCATTAATA
515 TATTCCACACAATAAATTTTTGATTGGATTATTGAAGGCAGTTTTGGTAAAAAATGCCATTAATA
* * *
9094757 TTCCAAACGATAAATTTTTGCTTGTCGA
580 TTCCAAACAATAAATTTTTGATGGTCGA
* **
9094785 ATTATTGAAGGTGGTTATATCCAGAAACACCTTCAATAACATTTTGTTAGGGATTATTAAAGGCA
1 ATTATTGAAGGTGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTAAAGGTG
* ** *
9094850 TTACCCATAGGAAAATGTCCTTCATAATCCATTCGATTAATTTTTAGTTACTACTATTGAAGGTC
66 TTACCCATAGGAAAATGACCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTC
* *
9094915 TTTTTTTAAAACACCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGCGTTTTTG
131 TTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGCGTTTTTT
*
9094980 ACCCAAAATGCCTTTAATTTTTCACACAATAAAATTTTGGTGGAATTATTGAAGGCAGTTTTGGT
196 ACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGGTGG-ATTATTGAAGGCAGTTTTGGT
* *
9095045 AAAAATGCCATTAATATTCCAAACAATAAATTTTGATGGTCAGATTATT-AAAGGCTGTTATATC
260 AAAAACGCCATTAATATTCCAAACAATAAATTTTGATGGTCAGATTATTGAAAGGCGGTTATATC
* * * * * *
9095109 TAGAAATGCCTTCAATAACATTTTGTTAGGGATTATTCAAGGCATTACATGT-AGGACAATGCCA
325 CAAAAACGCCTTCAATAACATTTTGATAAGGATTATTCAAGGCATTACACGTAAGGA-AAT-CCA
* *
9095173 TTCATAATCCATTCAATTAATTTTTAGTTGGTATTATTGAAGGCATTTTTTTAAAACACCTTTAA
388 TTCATAATCCATTCAATTAATTTTTAGTTGGTATTATTGAAGGCATTTTTCTAAAACACCTTCAA
*
9095238 TAATTTAAACAAAAAAGA-TTCAATGGATTTTTGAAGGCGTTTTTTACCCAAAATGCCTTTAATA
453 TAATTTAAACAAAAAAGACTT-AATGGATTCTTGAAGGCGTTTTTTACCCAAAATGCCTTTAATA
* * *
9095302 TTCCACACAATAAATTTTTTATTGGATTATTGAAGGTAGTTTTGGTAAAAAATGCTATTAATATT
517 TTCCACACAATAAATTTTTGATTGGATTATTGAAGGCAGTTTTGGTAAAAAATGCCATTAATATT
* * *
9095367 TCGAACAATAAATTTTTGATGGTCGG
582 CCAAACAATAAATTTTTGATGGTCGA
* * *
9095393 ATTATTGAAGGCGGTTATATCCAGAAACGCCTTTAATAACATTTTGTTAAGGATTATTAAAGGTG
1 ATTATTGAAGGTGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTAAAGGTG
* * *
9095458 TTACCCATAGGAAAATGCCCTTCATAATCCATTCCATTAATTTTTAGTTGGTATTATTGAAGGTG
66 TTACCCATAGGAAAATGACCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTC
* ** * *** *
9095523 TTTTTTTAAAACGCCTTTAATAATCCATACAAAAAAGGCTCGATATATTCTTGAAGGCATTTTTT
131 TTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGC-GTTTTT
* * * *
9095588 TTCCCAAAATGCCTTTAATTTTTCACACAATTAATTTTTGGGTTGATTATCGAAGGC-GATTTTG
195 TACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTT-GGTGGATTATTGAAGGCAG-TTTTG
9095652 GTTAAAAA
258 G-TAAAAA
9095660 AGCCTTCAAA
Statistics
Matches: 776, Mismatches: 88, Indels: 22
0.88 0.10 0.02
Matches are distributed among these distances:
606 4 0.01
607 64 0.08
608 473 0.61
609 58 0.07
610 174 0.22
611 3 0.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (607 bp):
ATTATTGAAGGTGGTTATATCCAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTAAAGGTG
TTACCCATAGGAAAATGACCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAAGGTC
TTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGACGGATTCTTGAAGGCGTTTTTT
ACCCAAAATGCCTTTAATTTTTCACACAATAAATTTTTGGTGGATTATTGAAGGCAGTTTTGGTA
AAAACGCCATTAATATTCCAAACAATAAATTTTGATGGTCAGATTATTGAAAGGCGGTTATATCC
AAAAACGCCTTCAATAACATTTTGATAAGGATTATTCAAGGCATTACACGTAAGGAAATCCATTC
ATAATCCATTCAATTAATTTTTAGTTGGTATTATTGAAGGCATTTTTCTAAAACACCTTCAATAA
TTTAAACAAAAAAGACTTAATGGATTCTTGAAGGCGTTTTTTACCCAAAATGCCTTTAATATTCC
ACACAATAAATTTTTGATTGGATTATTGAAGGCAGTTTTGGTAAAAAATGCCATTAATATTCCAA
ACAATAAATTTTTGATGGTCGA
Found at i:9095335 original size:63 final size:63
Alignment explanation
Indices: 9095261--9095405 Score: 145
Period size: 63 Copynumber: 2.3 Consensus size: 63
9095251 AAAGATTCAA
* * * *
9095261 TGGATTTTTGAAGGCGTTTT-TTACCCAAAATGCCT-TTAATA-TTCCACACAATAAATTTTTTA
1 TGGATTATTGAAGGCGTTTTGGTA--AAAAATG-CTATTAATATTTCCA-ACAATAAATTTTTGA
9095323 T-
62 TG
* *
9095324 TGGATTATTGAAGGTAGTTTTGGTAAAAAATGCTATTAATATTTCGAACAATAAATTTTTGATGG
1 TGGATTATTGAAGG-CGTTTTGGTAAAAAATGCTATTAATATTTCCAACAATAAATTTTTGAT-G
9095389 TCGGATTATTGAAGGCG
1 T-GGATTATTGAAGGCG
9095406 GTTATATCCA
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
62 2 0.03
63 40 0.59
64 9 0.13
65 4 0.06
66 13 0.19
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (63 bp):
TGGATTATTGAAGGCGTTTTGGTAAAAAATGCTATTAATATTTCCAACAATAAATTTTTGATG
Found at i:9100284 original size:23 final size:23
Alignment explanation
Indices: 9100254--9100301 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9100244 TATTTCTAAA
9100254 TTCTTTTATAAATTTTTCACCAT
1 TTCTTTTATAAATTTTTCACCAT
9100277 TTCTTTTATAAATTTTTCACCAT
1 TTCTTTTATAAATTTTTCACCAT
9100300 TT
1 TT
9100302 GGATCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (23 bp):
TTCTTTTATAAATTTTTCACCAT
Found at i:9100555 original size:16 final size:18
Alignment explanation
Indices: 9100526--9100567 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
9100516 ATAATTAATA
9100526 TTTAATTTCAAA-TT-TT
1 TTTAATTTCAAATTTATT
**
9100542 TTTAATTTTTAATTTATT
1 TTTAATTTCAAATTTATT
9100560 TTTAATTT
1 TTTAATTT
9100568 ATTTTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 10 0.45
17 2 0.09
18 10 0.45
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTAATTTCAAATTTATT
Found at i:9100562 original size:11 final size:11
Alignment explanation
Indices: 9100546--9100576 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
9100536 AATTTTTTTA
9100546 ATTTTTAATTT
1 ATTTTTAATTT
9100557 ATTTTTAATTT
1 ATTTTTAATTT
9100568 ATTTTTAAT
1 ATTTTTAAT
9100577 AATTGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATTTTTAATTT
Found at i:9100776 original size:201 final size:198
Alignment explanation
Indices: 9100404--9100773 Score: 421
Period size: 201 Copynumber: 1.9 Consensus size: 198
9100394 ACAATTACTT
* * *
9100404 TTATTGAAATTGCATCTAAATTATTCACTATTTGGGATAAATTTAGAAAATTCTCACCTAGAGAT
1 TTATTGAAATTGCATCTAAATTATTCACCATTTGGCACAAATTTAGAAAATTCTCACCTAGAGAT
* * * * * *
9100469 TTCTTAGAGAATTTACCATTTGAAATTTCTAAGAATTTCATCCTTGGATAATTAATATTTAATTT
66 TTCTTAGAGAATTTACCATTTAAAATTTCTAAAAATTTCATCATTAGACAATTAATAGTTAATTT
***** * *
9100534 CAAATTTTTTTAATTTTTAATTTATTTTTAATTTATTTTTAATAATTGAAAATAAATATTAATCA
131 CAAAAAAAATTAATTTATAATTTATTTTTAATATATTTTTAATAATTGAAAATAAATATTAATCA
9100599 TTG
196 TTG
** *
9100602 TTATTGAAATTTTATCTAAATTATTCCACCATTTGGCACAAATTTAGAAAAATTTCTCACTTAG-
1 TTATTGAAATTGCATCTAAATTATT-CACCATTTGGCACAAATTTAG-AAAA-TTCTCACCTAGA
*
9100666 GAATTT-TATAGA-AATTTGCCATTTAAAATTT-TATGAAAATTTCATCATTAGACAATTAATAG
63 G-ATTTCT-TAGAGAATTTACCATTTAAAATTTCTA--AAAATTTCATCATTAGACAATTAATAG
*
9100728 TT-ATTCTCAAAAAAAATT-ATTTATATTTTATATTTT-ATATATTTTT
124 TTAATT-TCAAAAAAAATTAATTTATAATTTAT-TTTTAATATATTTTT
9100774 TAAATTTAAT
Statistics
Matches: 142, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
198 23 0.16
199 20 0.14
200 46 0.32
201 53 0.37
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (198 bp):
TTATTGAAATTGCATCTAAATTATTCACCATTTGGCACAAATTTAGAAAATTCTCACCTAGAGAT
TTCTTAGAGAATTTACCATTTAAAATTTCTAAAAATTTCATCATTAGACAATTAATAGTTAATTT
CAAAAAAAATTAATTTATAATTTATTTTTAATATATTTTTAATAATTGAAAATAAATATTAATCA
TTG
Found at i:9101579 original size:15 final size:15
Alignment explanation
Indices: 9101559--9101608 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
9101549 ACAAAACATA
*
9101559 AGATTTATCTTATAC
1 AGATTTATCCTATAC
*
9101574 AGATTTACCCTATAC
1 AGATTTATCCTATAC
* *
9101589 AAATTTATCCTATAG
1 AGATTTATCCTATAC
9101604 AGATT
1 AGATT
9101609 GAATCCCTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (15 bp):
AGATTTATCCTATAC
Found at i:9101804 original size:19 final size:20
Alignment explanation
Indices: 9101764--9101810 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
9101754 AAGATAAAAT
9101764 AAAAA-AAACAAACAAATGA
1 AAAAATAAACAAACAAATGA
* *
9101783 AAAAATAAATAAACACAT-A
1 AAAAATAAACAAACAAATGA
*
9101802 AAACATAAA
1 AAAAATAAA
9101811 ATAATTGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.77, C:0.11, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAAATAAACAAACAAATGA
Found at i:9105198 original size:21 final size:21
Alignment explanation
Indices: 9105174--9105217 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
9105164 CCTAAACTAT
*
9105174 CATGAAACCATAGTAAAATAA
1 CATGAAACCAAAGTAAAATAA
* *
9105195 CATGAAACTAAATTAAAATAA
1 CATGAAACCAAAGTAAAATAA
9105216 CA
1 CA
9105218 AGTGAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.20
Consensus pattern (21 bp):
CATGAAACCAAAGTAAAATAA
Found at i:9106594 original size:144 final size:144
Alignment explanation
Indices: 9106247--9106653 Score: 540
Period size: 144 Copynumber: 2.8 Consensus size: 144
9106237 GGATTTTAAA
* *
9106247 CACCAAAAATCATGAAATATTATAAAATCAAGATCTAAAAAGTTTCATGAAAAAT-CGAGCTC-A
1 CACCAAAAATCATGAAATATTATAAAATCAAGATCTGAAAAGTTTCAT-AAAAATCCAAGCTCGA
* * * *
9106310 GGAAGGTCAAATTATAAAAATACCCATATATC-AA--TATTTTTGTAATTTCACACTTTCTAGGG
65 -GAAAGCCAAATTATGAAAATACCC-T-TA-CAAAGGTATTTTAGTAATTTCACACTTT-TAGGG
9106372 TATTGCTGTGATTTCAAATG
125 TATTGCTGTGATTTCAAATG
* *
9106392 CA-CAAAAA-AATGAAATATTATAAAATCAAGATCTGAAAAGTTTCATGAAAATCCAAGCTCGAG
1 CACCAAAAATCATGAAATATTATAAAATCAAGATCTGAAAAGTTTCATAAAAATCCAAGCTCGAG
* * * * *
9106455 AAAGCCAAATTATGAAAATACACTTACAAAGGTATTTTGGTAATTTTACACTTTTGGGGTATTGT
66 AAAGCCAAATTATGAAAATACCCTTACAAAGGTATTTTAGTAATTTCACACTTTTAGGGTATTGC
9106520 TGTGATTTCAAATG
131 TGTGATTTCAAATG
* * * *
9106534 CACCAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTTCATAAAAATCCAAGCTTGAG
1 CACCAAAAATCATGAAATATTATAAAATCAAGATCTGAAAAGTTTCATAAAAATCCAAGCTCGAG
* *
9106599 AAAGCCAAATTATGAAAATACCCTTATAAGGGTATTTTAGTAATTTCACACTTTT
66 AAAGCCAAATTATGAAAATACCCTTACAAAGGTATTTTAGTAATTTCACACTTTT
9106654 TCTAGTACAA
Statistics
Matches: 232, Mismatches: 23, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
140 1 0.00
141 4 0.02
142 31 0.13
143 88 0.38
144 106 0.46
145 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (144 bp):
CACCAAAAATCATGAAATATTATAAAATCAAGATCTGAAAAGTTTCATAAAAATCCAAGCTCGAG
AAAGCCAAATTATGAAAATACCCTTACAAAGGTATTTTAGTAATTTCACACTTTTAGGGTATTGC
TGTGATTTCAAATG
Found at i:9108302 original size:5 final size:5
Alignment explanation
Indices: 9108292--9108332 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
9108282 TACTATGCTT
*
9108292 AAAGA AAAGAA AAAGA AAA-A AAAGA AAAAA AAAGA AAAGA A
1 AAAGA AAAG-A AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A
9108333 GATGAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.12
5 23 0.72
6 5 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:9108316 original size:15 final size:15
Alignment explanation
Indices: 9108292--9108332 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
9108282 TACTATGCTT
9108292 AAAGAAAAGAAAAAGA
1 AAAGAAAAGAAAAA-A
9108308 AAA-AAAAGAAAAAA
1 AAAGAAAAGAAAAAA
9108322 AAAGAAAAGAA
1 AAAGAAAAGAA
9108333 GATGAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.71
16 3 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAA
Found at i:9109024 original size:20 final size:21
Alignment explanation
Indices: 9108981--9109024 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
9108971 GAAGTGAGTG
**
9108981 AAAATGAAAATGAAATGATGA
1 AAAATGAAAATGAAATGAAAA
*
9109002 AAAATGGAAAT-AAATGAAAA
1 AAAATGAAAATGAAATGAAAA
9109022 AAA
1 AAA
9109025 GGGGGAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAATGAAAATGAAATGAAAA
Found at i:9109362 original size:13 final size:13
Alignment explanation
Indices: 9109346--9109375 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9109336 AAGCACATGG
9109346 TATGAACAAAATT
1 TATGAACAAAATT
9109359 TATGAACAAAATT
1 TATGAACAAAATT
9109372 TATG
1 TATG
9109376 GAACCATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (13 bp):
TATGAACAAAATT
Found at i:9109691 original size:47 final size:47
Alignment explanation
Indices: 9109611--9110399 Score: 592
Period size: 47 Copynumber: 16.8 Consensus size: 47
9109601 AGCCTTTTTT
* * * *
9109611 AAAATGATTTTCAAAGTTACTTGCCTATGTTTATAGGAGCCCTTTTCA
1 AAAAT-ATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * *
9109659 AAAATATTTTTAAACTCACCTACCTATATTTATAGGAGCCCTTGTTAAA
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTT-TT-CA
* * * * *
9109708 AAAGATTTTTTTAAAGTTACCTGCTTATGTTTATAGGAGCCTTTTTCA
1 AAA-ATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * * *
9109756 AAAAGATTTTTAAAGT---C-ACC--TG--CAT-GGAGGCCTCTTC-
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* *
9109793 AAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCA
1 AAAAT-ATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * * *
9109841 AAATTATCTTTAAAGTCACCTCCCTATGTTTATAAGAGCCCTTATT-A
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTT-TTCA
* * * **
9109888 AAAAGATTTTTAAAGTCATCTACCTGTGTTTATAAAAGCCC-TTTC-
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * * *
9109933 AAAATAATTTTTAAGGTCACCTACCTAAGTTTATAAGAGCCTTTTTC-
1 AAAAT-ATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* *
9109980 AAAATGATTTTTAAAGTCACTTACCTATGTTTATAGGAGCCCTTTTCG
1 AAAAT-ATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
** * * * * *
9110028 AAACGATTTTGAAAGTCACCTATCTATATTTATAAGAGCCATTTTCA
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * * * *
9110075 AAATTATTTTTAAAGTTACTTGCCTATGTTTATAGGAGCCCTTGTCA
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * * *
9110122 AAACAGATTTTTAAAGTCACCTGCCTATGTTTATAAGAGCCATTTTCTA
1 AAA-ATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTC-A
* * * * *
9110171 AAGA-ATTTTTAAAGTCACTTGCCTATATTTATAGGAGCCCTTTTTA
1 AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * * * ** * *
9110217 GAATGATTTTTTTTAAAGCCA-TTTTCTATGTTTATAGAAGCCATTTTC-
1 -AA--AATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* ** * *
9110265 AAAATAATTTATAAAGTCATATGCCTATGTTTATAGAAGCCCTTTTC-
1 AAAAT-ATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * ** * *
9110312 AAAATGAATTTTAAAGTCACATTTCTATGTTTATAGAAGCCTTTTTCA
1 AAAAT-ATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
* * *
9110360 AAATTAATTTTTAACA-TCACCTTA-TTATATTTATAGGAGC
1 AAAAT-ATTTTTAA-AGTCACC-TACCTATGTTTATAGGAGC
9110400 TTTTCTATAA
Statistics
Matches: 591, Mismatches: 120, Indels: 60
0.77 0.16 0.08
Matches are distributed among these distances:
37 4 0.01
38 20 0.03
39 2 0.00
41 3 0.01
42 2 0.00
43 1 0.00
44 3 0.01
45 8 0.01
46 44 0.07
47 343 0.58
48 85 0.14
49 32 0.05
50 44 0.07
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (47 bp):
AAAATATTTTTAAAGTCACCTACCTATGTTTATAGGAGCCCTTTTCA
Found at i:9109980 original size:140 final size:140
Alignment explanation
Indices: 9109790--9110403 Score: 538
Period size: 140 Copynumber: 4.3 Consensus size: 140
9109780 TGGAGGCCTC
* * *
9109790 TTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCAAAATTATCTTTAAA
1 TTCAAAATAATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCAAAATGATTTTTAAA
* * * *
9109855 GTCACCTCCCTATGTTTATAAGAGCCCTTATTAAAAAGATTTTTAAAGTCATCTACCTGTGTTTA
66 GTCACCTACCTATGTTTATAAGAGCCCTT-TTAAAAAGATTTTTAAAGTCACCTACCTATATTTA
9109920 TAAAAGCC-CT
130 TAAAAGCCACT
* * * *
9109930 TTCAAAATAATTTTTAAGGTCACCTACCTAAGTTTATAAGAGCCTTTTTCAAAATGATTTTTAAA
1 TTCAAAATAATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCAAAATGATTTTTAAA
* * * * * *
9109995 GTCACTTACCTATGTTTATAGGAGCCCTTTTCGAAACGATTTTGAAAGTCACCTATCTATATTTA
66 GTCACCTACCTATGTTTATAAGAGCCCTTTT-AAAAAGATTTTTAAAGTCACCTACCTATATTTA
* *
9110060 TAAGAGCCATT
130 TAAAAGCCACT
* * * * * *
9110071 TTCAAAATTATTTTTAAAGTTACTTGCCTATGTTTATAGGAGCCCTTGTCAAAACAGATTTTTAA
1 TTCAAAATAATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCAAAA-TGATTTTTAA
* * ** * *
9110136 AGTCACCTGCCTATGTTTATAAGAGCCATTTTCTAAAGAATTTTTAAAGTCACTTGCCTATATTT
65 AGTCACCTACCTATGTTTATAAGAGCCCTTTTAAAAAG-ATTTTTAAAGTCACCTACCTATATTT
**
9110201 ATAGGAGCC-CTT
129 ATAAAAGCCAC-T
* ** * * ** * * * *
9110213 TTTAGAATGATTTTTTTTAAAGCCA-TTTTCTATGTTTATAGAAGCCATTTTCAAAATAATTTAT
1 TTCA-AA--ATAATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCAAAATGATTTTT
** * * * * ** *
9110277 AAAGTCATATGCCTATGTTTAT-AGAAGCCCTTTTCAAAATGAATTTTAAAGTCACATTTCTATG
63 AAAGTCACCTACCTATGTTTATAAG-AGCCCTTTT-AAAAAGATTTTTAAAGTCACCTACCTATA
* **
9110341 TTTATAGAAGCCTTT
126 TTTATAAAAGCCACT
*** *
9110356 TTCAAAATTAATTTTTAACA-TCACCTTATTATATTTATAGGAG-CTTTT
1 TTCAAAA-TAATTTTTAA-AGTCACCTGCCTATGTTTATAGGAGCCTTTT
9110404 CTATAAAAAA
Statistics
Matches: 383, Mismatches: 77, Indels: 27
0.79 0.16 0.06
Matches are distributed among these distances:
139 2 0.01
140 118 0.31
141 63 0.16
142 90 0.23
143 68 0.18
144 29 0.08
145 13 0.03
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (140 bp):
TTCAAAATAATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCTTTTTCAAAATGATTTTTAAA
GTCACCTACCTATGTTTATAAGAGCCCTTTTAAAAAGATTTTTAAAGTCACCTACCTATATTTAT
AAAAGCCACT
Found at i:9110713 original size:10 final size:10
Alignment explanation
Indices: 9110700--9110764 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
9110690 TCAATTCTAA
9110700 TCAAACTTAG
1 TCAAACTTAG
9110710 TCAAACTT-G
1 TCAAACTTAG
**
9110719 ATCAAACAAAG
1 -TCAAACTTAG
*
9110730 TCAAAATTAG
1 TCAAACTTAG
*
9110740 TCAAAATTTA-
1 TC-AAACTTAG
*
9110750 TCAAACTTGG
1 TCAAACTTAG
9110760 TCAAA
1 TCAAA
9110765 ATGATAGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
9 6 0.14
10 30 0.70
11 7 0.16
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.28
Consensus pattern (10 bp):
TCAAACTTAG
Found at i:9112852 original size:21 final size:21
Alignment explanation
Indices: 9112828--9112878 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
9112818 CCTAGACATG
*
9112828 AAACTCTTAA-CCTCAAATCCT
1 AAAC-CTTAATCCTCAAAACCT
**
9112849 AAACCCCAATCCTCAAAACCT
1 AAACCTTAATCCTCAAAACCT
9112870 AAACCTTAA
1 AAACCTTAA
9112879 AATCTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCTTAATCCTCAAAACCT
Found at i:9119253 original size:8 final size:8
Alignment explanation
Indices: 9119240--9119273 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
9119230 ATTATCAAAG
9119240 AAATATAT
1 AAATATAT
9119248 AAATATAT
1 AAATATAT
9119256 AAATATAT
1 AAATATAT
*
9119264 ATATATAT
1 AAATATAT
9119272 AA
1 AA
9119274 TTTATGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAATATAT
Found at i:9125986 original size:44 final size:44
Alignment explanation
Indices: 9125883--9125986 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 44
9125873 ATTACCTTTC
* * **
9125883 TTATCTTTATCTTTGATTTCATTTATTTATTATTTATTTGTACTT
1 TTATCTTTATCTTT-ATCTCATTTATTTATTATGTATTTAAACTT
* *
9125928 TTAT-TTTATATTTATCTCATTTATCTTATT-TGT-TTTAAATTT
1 TTATCTTTATCTTTATCTCATTTAT-TTATTATGTATTTAAACTT
9125970 GTTATCTTTATCTTTAT
1 -TTATCTTTATCTTTAT
9125987 TTATATCTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
42 6 0.12
43 16 0.33
44 23 0.47
45 4 0.08
ACGTcount: A:0.21, C:0.09, G:0.04, T:0.66
Consensus pattern (44 bp):
TTATCTTTATCTTTATCTCATTTATTTATTATGTATTTAAACTT
Found at i:9126792 original size:17 final size:17
Alignment explanation
Indices: 9126750--9126800 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
9126740 AAAAAATTAG
* *
9126750 AGAAAGAGGAAAGAATAT
1 AGAAAGA-GAAAGAAAAA
9126768 AGAAAGAGAAAGAAAAA
1 AGAAAGAGAAAGAAAAA
*
9126785 AGATAGAG-AAGAAAAA
1 AGAAAGAGAAAGAAAAA
9126801 GAATCTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 8 0.27
17 15 0.50
18 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (17 bp):
AGAAAGAGAAAGAAAAA
Found at i:9127205 original size:54 final size:55
Alignment explanation
Indices: 9127116--9127220 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 55
9127106 TAATAAAAAA
9127116 ATGAATTTTGAAAAAAGTAAACCTTACAAACATATTGAAAGGCTGAAATTTTAAT
1 ATGAATTTTGAAAAAAGTAAACCTTACAAACATATTGAAAGGCTGAAATTTTAAT
* * * * * *
9127171 ATGAATTTTGAATAGA-TAAACCTTACTAAGATATTGGAAGGTTGAAATTT
1 ATGAATTTTGAAAAAAGTAAACCTTACAAACATATTGAAAGGCTGAAATTT
9127221 CAAAAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
54 30 0.68
55 14 0.32
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (55 bp):
ATGAATTTTGAAAAAAGTAAACCTTACAAACATATTGAAAGGCTGAAATTTTAAT
Found at i:9130172 original size:7 final size:7
Alignment explanation
Indices: 9130160--9130247 Score: 54
Period size: 8 Copynumber: 11.6 Consensus size: 7
9130150 AAATTTATTC
9130160 AATAAAA
1 AATAAAA
9130167 AAT-AAA
1 AATAAAA
*
9130173 TAT-AAA
1 AATAAAA
9130179 AATCAAAA
1 AAT-AAAA
9130187 AATCAAAA
1 AAT-AAAA
**
9130195 AGGAAAA
1 AATAAAA
9130202 AATAAGAAA
1 AAT-A-AAA
9130211 AAGTAAAA
1 AA-TAAAA
9130219 AAGTAAAA
1 AA-TAAAA
9130227 AATAAGCAAA
1 AAT-A--AAA
9130237 AATAAAA
1 AATAAAA
9130244 AATA
1 AATA
9130248 TTAACAATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
6 10 0.15
7 16 0.24
8 27 0.40
9 7 0.10
10 7 0.10
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:9130219 original size:25 final size:25
Alignment explanation
Indices: 9130184--9130245 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
9130174 ATAAAAATCA
*
9130184 AAAAATCAAAAAGGAAAAAATAAG-
1 AAAAATAAAAAAGGAAAAAATAAGC
*
9130208 AAAAAGTAAAAAAGTAAAAAATAAGC
1 AAAAA-TAAAAAAGGAAAAAATAAGC
9130234 AAAAATAAAAAA
1 AAAAATAAAAAA
9130246 TATTAACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 5 0.15
25 24 0.71
26 5 0.15
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (25 bp):
AAAAATAAAAAAGGAAAAAATAAGC
Found at i:9130426 original size:11 final size:10
Alignment explanation
Indices: 9130384--9130427 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
9130374 AAAAAGCTTC
9130384 ATATTTA-AA
1 ATATTTATAA
*
9130393 AAATTTATAA
1 ATATTTATAA
9130403 ATATTTATAA
1 ATATTTATAA
9130413 ATATTTATTAA
1 ATATTTA-TAA
9130424 ATAT
1 ATAT
9130428 AAAAAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 6 0.19
10 18 0.58
11 7 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATTTATAA
Found at i:9130624 original size:18 final size:18
Alignment explanation
Indices: 9130601--9130642 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
9130591 ACTCCCAAAC
*
9130601 AAAAAAAAATTTAA-ATT
1 AAAAAAAAATTAAATATT
*
9130618 AAAAAAATATTAAATATT
1 AAAAAAAAATTAAATATT
9130636 AAAAAAA
1 AAAAAAA
9130643 GAAAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAAAAATTAAATATT
Found at i:9133343 original size:33 final size:33
Alignment explanation
Indices: 9133256--9133345 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 33
9133246 GATACGCTAA
*
9133256 TAAAAAATATT--TTTATGTATTATAGTTATTTAT
1 TAAAAAATATTAATTTAT-TATTA-AATTATTTAT
**
9133289 T-AAAAATATATAATAGA-TATTAAATTGATTT-T
1 TAAAAAATAT-TAATTTATTATTAAATT-ATTTAT
9133321 TAAAAAATATTAATTTATTATTAAA
1 TAAAAAATATTAATTTATTATTAAA
9133346 AAATTGATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
32 18 0.39
33 26 0.57
35 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (33 bp):
TAAAAAATATTAATTTATTATTAAATTATTTAT
Found at i:9133344 original size:21 final size:22
Alignment explanation
Indices: 9133305--9133349 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9133295 TATATAATAG
*
9133305 ATATTAAATTGATTTTTAAAAA
1 ATATTAAATTGATTATTAAAAA
*
9133327 ATATT-AATTTATTATTAAAAA
1 ATATTAAATTGATTATTAAAAA
9133348 AT
1 AT
9133350 TGATGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATTAAATTGATTATTAAAAA
Found at i:9133530 original size:19 final size:19
Alignment explanation
Indices: 9133517--9133557 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9133507 GGTTCAGAAG
9133517 TATTCATCTCGTTCAAAAA
1 TATTCATCTCGTTCAAAAA
9133536 TATTCATCTCGTTCAAAAA
1 TATTCATCTCGTTCAAAAA
9133555 TAT
1 TAT
9133558 CAAATCAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (19 bp):
TATTCATCTCGTTCAAAAA
Found at i:9136061 original size:59 final size:60
Alignment explanation
Indices: 9135994--9136114 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 60
9135984 TTACAGTGCA
* *
9135994 TCAAATATAAA-TTATATATACATATATTCAAATAAGTTTTGTTTCTTTAATCTAGTGGT
1 TCAAATATAAACTTATATATACACATATTCAAATAAGTTTTGTTTCCTTAATCTAGTGGT
*
9136053 TCAAATATAAACTTTATATATACACATATTCAAATAGGTTTTGTTTCCTTAATCTAGTGGT
1 TCAAATATAAAC-TTATATATACACATATTCAAATAAGTTTTGTTTCCTTAATCTAGTGGT
9136114 T
1 T
9136115 ATATGATCTT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 11 0.19
61 46 0.81
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (60 bp):
TCAAATATAAACTTATATATACACATATTCAAATAAGTTTTGTTTCCTTAATCTAGTGGT
Found at i:9136570 original size:13 final size:13
Alignment explanation
Indices: 9136552--9136599 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
9136542 ACATATATAT
9136552 AAATTAAAAATAA
1 AAATTAAAAATAA
**
9136565 AAATTATATATGTAA
1 AAATTA-A-AAATAA
9136580 AAATTAAAAATAA
1 AAATTAAAAATAA
9136593 AAATTAA
1 AAATTAA
9136600 GTTTAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.59
14 2 0.07
15 10 0.34
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:9136575 original size:28 final size:28
Alignment explanation
Indices: 9136544--9136598 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
9136534 TAATTCACAC
*
9136544 ATATATATAAATTAAAAATAAAAATTAT
1 ATATATAAAAATTAAAAATAAAAATTAT
*
9136572 ATATGTAAAAATTAAAAATAAAAATTA
1 ATATATAAAAATTAAAAATAAAAATTA
9136599 AGTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
ATATATAAAAATTAAAAATAAAAATTAT
Found at i:9136589 original size:7 final size:7
Alignment explanation
Indices: 9136552--9136599 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
9136542 ACATATATAT
9136552 AAATTAA
1 AAATTAA
9136559 AAA-TAA
1 AAATTAA
*
9136565 AAATTAT
1 AAATTAA
*
9136572 ATATGTAA
1 AAAT-TAA
9136580 AAATTAA
1 AAATTAA
9136587 AAA-TAA
1 AAATTAA
9136593 AAATTAA
1 AAATTAA
9136600 GTTTAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 12 0.35
7 17 0.50
8 5 0.15
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
AAATTAA
Found at i:9141176 original size:25 final size:25
Alignment explanation
Indices: 9141142--9141192 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9141132 AGGCAGACAC
*
9141142 TGCCATTTTTACACAGTAACGTGCT
1 TGCCATTTTTACACAGTAACATGCT
9141167 TGCCATTTTTACACAGTAACATGCT
1 TGCCATTTTTACACAGTAACATGCT
9141192 T
1 T
9141193 ATGTGTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (25 bp):
TGCCATTTTTACACAGTAACATGCT
Found at i:9146154 original size:3 final size:3
Alignment explanation
Indices: 9146148--9146173 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9146138 TGAAACTAAC
9146148 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
9146174 CTCGTATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9146525 original size:20 final size:20
Alignment explanation
Indices: 9146500--9146537 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9146490 ATTAATTATT
9146500 TTTTTATTGTTATTATTTAC
1 TTTTTATTGTTATTATTTAC
*
9146520 TTTTTATTGTTTTTATTT
1 TTTTTATTGTTATTATTT
9146538 TTTATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTATTGTTATTATTTAC
Found at i:9147120 original size:3 final size:3
Alignment explanation
Indices: 9147112--9147137 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9147102 TAAAAGAATG
9147112 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9147138 CAACAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9147142 original size:3 final size:3
Alignment explanation
Indices: 9147136--9147173 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9147126 TAATAATAAT
9147136 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
9147174 AAATCAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9148465 original size:40 final size:40
Alignment explanation
Indices: 9148393--9148555 Score: 152
Period size: 40 Copynumber: 4.1 Consensus size: 40
9148383 TTAAACAAGT
* * * * *
9148393 AATTCAAAAGGATCCTT-TCACTATAGGTAATGAAACTTCA
1 AATTCAAAAGGCT-CTTCTGACTAGAGGCAATGAAACTTTA
9148433 AATTCAAAAGGCTCTTCTGACTAGAGGCAATGAAACTTTA
1 AATTCAAAAGGCTCTTCTGACTAGAGGCAATGAAACTTTA
* * * * * *
9148473 AATTTAGAATGCTTTTTTGACCT-GTGGCAATGAAACTTTA
1 AATTCAAAAGGCTCTTCTGA-CTAGAGGCAATGAAACTTTA
* * *
9148513 AATTCAAAAGGCTCTTAC-AACTAGAGGCAATGTATCTTTA
1 AATTCAAAAGGCTCTT-CTGACTAGAGGCAATGAAACTTTA
9148553 AAT
1 AAT
9148556 GACTTTTTTT
Statistics
Matches: 99, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 5 0.05
40 92 0.93
41 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (40 bp):
AATTCAAAAGGCTCTTCTGACTAGAGGCAATGAAACTTTA
Found at i:9148623 original size:40 final size:40
Alignment explanation
Indices: 9148577--9148765 Score: 195
Period size: 40 Copynumber: 4.8 Consensus size: 40
9148567 CCAAAGGCAA
* *
9148577 CCTCTAACTAGAGGCAACAAAATTTTAAATTTAGAAGGCT
1 CCTCTAACTAGAGGCAACAAAATTTTAAATTCAAAAGGCT
* *
9148617 CTTCTAACTAGAGGCAA-AGAAACTTTAAATTCAAAAGGCT
1 CCTCTAACTAGAGGCAACA-AAATTTTAAATTCAAAAGGCT
* * ** *
9148657 CCTCTGACCAGAGGCAATGAAATTTTAAATTCAGAAGGCT
1 CCTCTAACTAGAGGCAACAAAATTTTAAATTCAAAAGGCT
*
9148697 CCTCTAA-TCAGAGGCAAC-AAATTTTAAATTTAAAAGGCT
1 CCTCTAACT-AGAGGCAACAAAATTTTAAATTCAAAAGGCT
* * * * * *
9148736 CATTTAACTAAAGGTAACGAAACTTTAAAT
1 CCTCTAACTAGAGGCAACAAAATTTTAAAT
9148766 GGCTTCTTTA
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 32 0.26
40 92 0.74
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (40 bp):
CCTCTAACTAGAGGCAACAAAATTTTAAATTCAAAAGGCT
Found at i:9149025 original size:40 final size:40
Alignment explanation
Indices: 9148953--9149032 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
9148943 CAAAGGCAAT
* * * * *
9148953 GAAACTTTAAATTTAAAAGGCTCCTATGACTAGAGGTAAC
1 GAAACTTTAAATTCAAAAGACTCATATAACTAGAAGTAAC
*
9148993 GAAACTTTAAATTCAAAAGACTCATTTAACTAGAAGTAAC
1 GAAACTTTAAATTCAAAAGACTCATATAACTAGAAGTAAC
9149033 ATTTTAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.28
Consensus pattern (40 bp):
GAAACTTTAAATTCAAAAGACTCATATAACTAGAAGTAAC
Found at i:9149119 original size:40 final size:40
Alignment explanation
Indices: 9149075--9149162 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
9149065 GTTATGAAAT
* * * * *
9149075 TTTAAATGGTTCATTTGACTAAAAGCAATAAAACTTTAAA
1 TTTAAAAGGCTCATATGACCAAAAGCAACAAAACTTTAAA
* *
9149115 TTTAAAAGGCTCATATGACCAAAGGTAACAAAACTTTAAA
1 TTTAAAAGGCTCATATGACCAAAAGCAACAAAACTTTAAA
*
9149155 TTCAAAAG
1 TTTAAAAG
9149163 TATGAAAGGC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (40 bp):
TTTAAAAGGCTCATATGACCAAAAGCAACAAAACTTTAAA
Found at i:9158945 original size:14 final size:14
Alignment explanation
Indices: 9158926--9158956 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9158916 ATTAATTAAT
9158926 TTTTATTGCTATTA
1 TTTTATTGCTATTA
*
9158940 TTTTATTGTTATTA
1 TTTTATTGCTATTA
9158954 TTT
1 TTT
9158957 ACTATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTATTGCTATTA
Found at i:9158968 original size:23 final size:23
Alignment explanation
Indices: 9158934--9158992 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
9158924 ATTTTTATTG
*
9158934 CTATTATTTTATTGTTATTATTTA
1 CTATTATATTATTGTTA-TATTTA
* *
9158958 CTATT-TATTATTTTTATATTTT
1 CTATTATATTATTGTTATATTTA
*
9158980 TTATTATATTATT
1 CTATTATATTATT
9158993 TTAAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 9 0.30
23 16 0.53
24 5 0.17
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (23 bp):
CTATTATATTATTGTTATATTTA
Found at i:9159590 original size:12 final size:12
Alignment explanation
Indices: 9159569--9159600 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9159559 AATGAATAAT
*
9159569 AATAATAACAAC
1 AATAACAACAAC
9159581 AATAACAACAAC
1 AATAACAACAAC
9159593 AATAACAA
1 AATAACAA
9159601 AAATCAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (12 bp):
AATAACAACAAC
Found at i:9161250 original size:368 final size:367
Alignment explanation
Indices: 9160571--9161300 Score: 1142
Period size: 368 Copynumber: 2.0 Consensus size: 367
9160561 TTTTAAAGAT
* * *
9160571 TAATAATAATAATAATATCAAAAAATATATATTTAAGTTAAAATAGAATCAGTCAAAGTTGCTGC
1 TAATAATAATAATAATATAAAAAAATATATATTTAAGTTAAAATAGAATCAATCAAAATTGCTGC
* * *
9160636 TTACATCAATAATGTTACATGACATATTCAATGATATTGTAATGCTACATGACTAAATGTTAGAT
66 TTACATCAATAATGTTACATGACATATTCAATAATATTGTAATGCCACATGACCAAATGTTAGAT
* * *
9160701 GGTGTGCCTGTTAGAAAATTTGAGAACATAGAAAGAATAAAAAATAAGAAATATGATTTTAAAGT
131 GGTATGCCTGTTAGAAAATTTGAGAACATAAAAAGAATAAAAAATAAGAAATATAATTTTAAAGT
*
9160766 GTGAAAAATACTATTTTAAAAGCAATTATGCTTACATGATACAAAAAGCCTTAAACTCTTCAAAT
196 GTGAAAAACACTATTTTAAAAGCAATTATGCTTACATGATACAAAAAGCCTTAAACTCTTCAAAT
* *
9160831 AAAAAATTAGAGAAATTGATCGTGTAGAAAAATCTATTTATGATAAATGAATAGCCATAAATTTC
261 AAAAAATTAGAGAAATTGATCATGTAGAAAAATATATTTATGATAAATGAATAGCCATAAATTTC
*
9160896 TATTCAAAATATTATGACAATATGACAATTTGTATAGTAATAA
326 TATTC-AAATATTATGACAATATGACAATTTGGATAGTAATAA
* * *
9160939 TAATAATAATAATAATATAAACAAAAT-TCTATTTAAGTTAAAATATAATCAATCAAAATTGGTG
1 TAATAATAATAATAATATAAA-AAAATATATATTTAAGTTAAAATAGAATCAATCAAAATTGCTG
*
9161003 CTTACATCAATAATGTTACATGACATATT-AGATAATGTTGTAATGCCACATGACCAAATGTTAG
65 CTTACATCAATAATGTTACATGACATATTCA-ATAATATTGTAATGCCACATGACCAAATGTTAG
*
9161067 ATGGTATGCCTGTTAGAAAATTTGAGAATATAAAAAGAATAAAAAATAAGAAATATAATTTTAAA
129 ATGGTATGCCTGTTAGAAAATTTGAGAACATAAAAAGAATAAAAAATAAGAAATATAATTTTAAA
* *
9161132 GTGTGAAAAACACTATTTTAAAAGCAATTATGCTTATATGATATAAAAAGCCTTAAACTC-TCTA
194 GTGTGAAAAACACTATTTTAAAAGCAATTATGCTTACATGATACAAAAAGCCTTAAACTCTTC-A
*** * * * *
9161196 AATTCGAAATTAGTGAAATTGGTCATGTAGAAAAATATATTTATGATGAATGAATAGCCATAATT
258 AATAAAAAATTAGAGAAATTGATCATGTAGAAAAATATATTTATGATAAATGAATAGCCATAAAT
* *
9161261 TTTTGTTCAAATATTATGACAATATGACAATTTGGATAGT
323 TTCTATTCAAATATTATGACAATATGACAATTTGGATAGT
9161301 CATGGTTTTT
Statistics
Matches: 330, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
367 34 0.10
368 291 0.88
369 5 0.02
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (367 bp):
TAATAATAATAATAATATAAAAAAATATATATTTAAGTTAAAATAGAATCAATCAAAATTGCTGC
TTACATCAATAATGTTACATGACATATTCAATAATATTGTAATGCCACATGACCAAATGTTAGAT
GGTATGCCTGTTAGAAAATTTGAGAACATAAAAAGAATAAAAAATAAGAAATATAATTTTAAAGT
GTGAAAAACACTATTTTAAAAGCAATTATGCTTACATGATACAAAAAGCCTTAAACTCTTCAAAT
AAAAAATTAGAGAAATTGATCATGTAGAAAAATATATTTATGATAAATGAATAGCCATAAATTTC
TATTCAAATATTATGACAATATGACAATTTGGATAGTAATAA
Found at i:9175899 original size:21 final size:21
Alignment explanation
Indices: 9175875--9175917 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9175865 TTACTCTAAA
9175875 AAAATTACAGGCTACTACTCG
1 AAAATTACAGGCTACTACTCG
**
9175896 AAAATTACAGTTTACTACTCG
1 AAAATTACAGGCTACTACTCG
9175917 A
1 A
9175918 GAGAGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (21 bp):
AAAATTACAGGCTACTACTCG
Found at i:9189191 original size:15 final size:16
Alignment explanation
Indices: 9189159--9189190 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
9189149 TTTTTTTTTC
9189159 TTAGTTTAGTTTTCTT
1 TTAGTTTAGTTTTCTT
9189175 TTAG-TTAG-TTTCTT
1 TTAGTTTAGTTTTCTT
9189189 TT
1 TT
9189191 TCATTTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (16 bp):
TTAGTTTAGTTTTCTT
Found at i:9195811 original size:19 final size:19
Alignment explanation
Indices: 9195783--9195828 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9195773 ACATGACACA
* *
9195783 ATTAATACGATTATA-CATG
1 ATTAACACGATTA-AGCACG
9195802 ATTAACACGATTAAGCACG
1 ATTAACACGATTAAGCACG
9195821 ATTAACAC
1 ATTAACAC
9195829 TAAAATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.28
Consensus pattern (19 bp):
ATTAACACGATTAAGCACG
Found at i:9195820 original size:10 final size:9
Alignment explanation
Indices: 9195778--9195828 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
9195768 ACACAACATG
*
9195778 ACACAATTA
1 ACACGATTA
*
9195787 ATACGATTA
1 ACACGATTA
*
9195796 TACATGATTA
1 -ACACGATTA
9195806 ACACGATTA
1 ACACGATTA
9195815 AGCACGATTA
1 A-CACGATTA
9195825 ACAC
1 ACAC
9195829 TAAAATATCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 19 0.54
10 16 0.46
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (9 bp):
ACACGATTA
Found at i:9197069 original size:17 final size:18
Alignment explanation
Indices: 9197043--9197076 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9197033 ATTGGTTTCT
*
9197043 TTAAG-TTTTTATTATTC
1 TTAAGCTTTTCATTATTC
9197060 TTAAGCTTTTCATTATT
1 TTAAGCTTTTCATTATT
9197077 GCAATTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (18 bp):
TTAAGCTTTTCATTATTC
Found at i:9198743 original size:129 final size:129
Alignment explanation
Indices: 9198229--9198910 Score: 434
Period size: 129 Copynumber: 5.3 Consensus size: 129
9198219 TAAATTTATT
* * ** * * ** * *
9198229 CATAATTATGAAAATATCTCTTCCCTT-CTAA-TATTTACTAAATAATCCCCCAAAAAATTACCA
1 CATAATTATGAAAATACCCCTTTTCTTAATAATTATTTACCAAATAATCCCTTATAAAATTACAA
* * * * ** * * **
9198292 AAATGCCATTTTCATTATTTGATAAG-ATTTTAGTATGTGATCAAACT-TACAATTACACCTACA
66 AAATACCATTTTCATTATATGATAAGAAATTGA-TATGTGGCCAAA-TAGACTATTATGCCT-CA
9198355 TA
128 TA
* * * * * *
9198357 TCATAATTATGAAAATACTCATTCT-TTAATAATTATTTACTAAATAATCCTTTATGAAATTACA
1 -CATAATTATGAAAATACCCCTTTTCTTAATAATTATTTACCAAATAATCCCTTATAAAATTACA
* * * * * *
9198421 AAAATACTATTTTTATTATATGATAAGAAATTGCTTTGTGGTCAAATAGACTATTAT-ACTCCAT
65 AAAATACCATTTTCATTATATGATAAGAAATTGATATGTGGCCAAATAGACTATTATGCCT-CAT
9198485 A
129 A
* * *
9198486 CCATCATTACGAAAATA-TCCTTTCTCTTAA-AATTATTT-CCTAAATAATCACC-TATAAAATT
1 -CATAATTATGAAAATACCCCTTT-TCTTAATAATTATTTACC-AAATAATC-CCTTATAAAATT
* * * * * *
9198547 ACCAAAATACCCTTTTCGTTATA--ATAAAGAAATTGACATGTGACCAAATAGACTATGATGCCT
62 ACAAAAATACCATTTTCATTATATGAT-AAGAAATTGATATGTGGCCAAATAGACTATTATGCC-
9198610 TCATA
125 TCATA
*
9198615 CAATAATAATGAAAATACCCCTTTT-TTAATAATTATTTACCAAATAATCCCTTA-AAAATTTAC
1 C-ATAATTATGAAAATACCCCTTTTCTTAATAATTATTTACCAAATAATCCCTTATAAAA-TTAC
* * * * ** *
9198678 TAAAATGCCATTTCCATTATATGATAAGAAATTGATATATGGCCAAACGGAATATTATGCCTCAT
64 AAAAATACCATTTTCATTATATGATAAGAAATTGATATGTGGCCAAATAGACTATTATGCCTCAT
9198743 A
129 A
* ** * * *
9198744 TCATAATTATCAAAATACCCCTTTTCTT-ATAATTATTTA--TTA-AATCCCCTAAAAAATTACC
1 -CATAATTATGAAAATACCCCTTTTCTTAATAATTATTTACCAAATAATCCCTTATAAAATTACA
* * ** * * * * * * *
9198805 AAAAT-GCACTTTTTATTGCATGACAAAAAATTTACATTTTGCCAAATTGACTATTATGCCCTCA
65 AAAATACCA-TTTTCATTATATGATAAGAAATTGATATGTGGCCAAATAGACTATTATG-CCTCA
9198869 TA
128 TA
* *
9198871 TCATAATTA-CAAACATACCCCTTCTCTT-ATAATTTATTTA
1 -CATAATTATGAAA-ATACCCCTTTTCTTAATAA-TTATTTA
9198911 TATTATTATG
Statistics
Matches: 444, Mismatches: 83, Indels: 53
0.77 0.14 0.09
Matches are distributed among these distances:
125 2 0.00
126 57 0.13
127 40 0.09
128 52 0.12
129 179 0.40
130 109 0.25
131 5 0.01
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (129 bp):
CATAATTATGAAAATACCCCTTTTCTTAATAATTATTTACCAAATAATCCCTTATAAAATTACAA
AAATACCATTTTCATTATATGATAAGAAATTGATATGTGGCCAAATAGACTATTATGCCTCATA
Found at i:9199292 original size:14 final size:14
Alignment explanation
Indices: 9199273--9199312 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9199263 TGATTTTTAA
9199273 AAAAAAAAGGAAAG
1 AAAAAAAAGGAAAG
*
9199287 AAAAAAAAAGAAAG
1 AAAAAAAAGGAAAG
* *
9199301 GAAGAAAAGGAA
1 AAAAAAAAGGAA
9199313 TTAATTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGGAAAG
Found at i:9199295 original size:19 final size:18
Alignment explanation
Indices: 9199271--9199308 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9199261 TTTGATTTTT
9199271 AAAAAAAAAAGGAAAGAAA
1 AAAAAAAAAAGG-AAGAAA
*
9199290 AAAAAAGAAAGGAAGAAA
1 AAAAAAAAAAGGAAGAAA
9199308 A
1 A
9199309 GGAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGGAAGAAA
Found at i:9199308 original size:15 final size:15
Alignment explanation
Indices: 9199272--9199300 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9199262 TTGATTTTTA
9199272 AAAAAAAAAGGAAAG
1 AAAAAAAAAGGAAAG
9199287 AAAAAAAAA-GAAAG
1 AAAAAAAAAGGAAAG
9199301 GAAGAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGGAAAG
Found at i:9199861 original size:9 final size:8
Alignment explanation
Indices: 9199849--9199896 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
9199839 TTGAAAAGTA
9199849 AAAAAATT
1 AAAAAATT
*
9199857 GAAAAATT
1 AAAAAATT
*
9199865 AAAAAAATA
1 -AAAAAATT
*
9199874 AAAAAAAT
1 AAAAAATT
9199882 AAAAAATT
1 AAAAAATT
9199890 GAAAAAA
1 -AAAAAA
9199897 AATCTAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
8 20 0.62
9 12 0.38
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (8 bp):
AAAAAATT
Found at i:9199862 original size:17 final size:17
Alignment explanation
Indices: 9199842--9199896 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
9199832 GGAAATTTTG
*
9199842 AAAAGTAAAAAAATTGA
1 AAAAATAAAAAAATTGA
* **
9199859 AAAATTAAAAAAATAAA
1 AAAAATAAAAAAATTGA
9199876 AAAAAT-AAAAAATTGA
1 AAAAATAAAAAAATTGA
9199892 AAAAA
1 AAAAA
9199897 AATCTAAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 13 0.41
17 19 0.59
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAAATAAAAAAATTGA
Found at i:9200020 original size:25 final size:24
Alignment explanation
Indices: 9199966--9200118 Score: 182
Period size: 25 Copynumber: 6.2 Consensus size: 24
9199956 GCGTGTTTTA
9199966 CATTTCATGCATATTTTAA-TTGT
1 CATTTCATGCATATTTTAATTTGT
*
9199989 CATTTCATGCATATTTTTATTATGT
1 CATTTCATGCATATTTTAATT-TGT
* * *
9200014 CATTTCATGTACATTTTAATTTTAT
1 CATTTCATGCATATTTTAA-TTTGT
*
9200039 CATTTCATGCATATTTTAATTTTT
1 CATTTCATGCATATTTTAATTTGT
*
9200063 ACATTTCATGCATATTTTAATCATGT
1 -CATTTCATGCATATTTTAAT-TTGT
*
9200089 CATTTCATACATATTTTAATTGTGT
1 CATTTCATGCATATTTTAATT-TGT
*
9200114 TATTT
1 CATTT
9200119 ATTATATATT
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.16
24 5 0.05
25 84 0.76
26 4 0.04
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (24 bp):
CATTTCATGCATATTTTAATTTGT
Found at i:9200105 original size:75 final size:72
Alignment explanation
Indices: 9199961--9200109 Score: 217
Period size: 75 Copynumber: 2.0 Consensus size: 72
9199951 TGTGTGCGTG
* * **
9199961 TTTTACATTTCATGCATATTTTAATTGTCATTTCATGCATATTTTTATTATGTCATTTCATGTAC
1 TTTTACATTTCATGCATATTTTAATTGTCATTTCATGCATATTTTAATCATGTCATTTCATACAC
9200026 ATTTTAA
66 ATTTTAA
*
9200033 TTTTATCATTTCATGCATATTTTAATTTTTACATTTCATGCATATTTTAATCATGTCATTTCATA
1 TTTTA-CATTTCATGCATATTTTAA-TTGT-CATTTCATGCATATTTTAATCATGTCATTTCATA
*
9200098 CATATTTTAA
63 CACATTTTAA
9200108 TT
1 TT
9200110 GTGTTATTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
72 5 0.07
73 19 0.28
74 3 0.04
75 41 0.60
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (72 bp):
TTTTACATTTCATGCATATTTTAATTGTCATTTCATGCATATTTTAATCATGTCATTTCATACAC
ATTTTAA
Found at i:9200931 original size:20 final size:21
Alignment explanation
Indices: 9200903--9200945 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
9200893 TCCTTGTTAT
9200903 AAAAAAACCAAAA-AAA-AAA
1 AAAAAAACCAAAAGAAACAAA
9200922 AAAAAGAACCAAAAGAAACAAA
1 AAAAA-AACCAAAAGAAACAAA
9200944 AA
1 AA
9200946 CAATAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 3 0.14
22 5 0.24
ACGTcount: A:0.84, C:0.12, G:0.05, T:0.00
Consensus pattern (21 bp):
AAAAAAACCAAAAGAAACAAA
Found at i:9204046 original size:35 final size:35
Alignment explanation
Indices: 9203978--9204054 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
9203968 ATCATAAATG
** *
9203978 AGAAAAAAGTGCCTTGAAAATGAAAAAAAAAAAAA
1 AGAAAAAAGTGCCTAAAAAAAGAAAAAAAAAAAAA
*
9204013 AGAAAAAAGTGTCTAAAAAAAGAAGAAACAAAAAGAAA
1 AGAAAAAAGTGCCTAAAAAAAGAA-AAA-AAAAA-AAA
9204051 AGAA
1 AGAA
9204055 CGGTTTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 20 0.57
36 3 0.09
37 5 0.14
38 7 0.20
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.09
Consensus pattern (35 bp):
AGAAAAAAGTGCCTAAAAAAAGAAAAAAAAAAAAA
Found at i:9204736 original size:21 final size:21
Alignment explanation
Indices: 9204706--9204760 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9204696 CATGCAAAGG
* *
9204706 AAAAAGAAAAATGAAAGAGAA
1 AAAAAGAAAAATAAAAAAGAA
* *
9204727 AAAAATAAAAATAAAAAATAAA
1 AAAAAGAAAAATAAAAAA-GAA
9204749 AAAAAGAAAAAT
1 AAAAAGAAAAAT
9204761 TTTGATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAGAAAAATAAAAAAGAA
Found at i:9204742 original size:13 final size:13
Alignment explanation
Indices: 9204726--9204750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9204716 ATGAAAGAGA
9204726 AAAAAATAAAAAT
1 AAAAAATAAAAAT
9204739 AAAAAATAAAAA
1 AAAAAATAAAAA
9204751 AAAGAAAAAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:9205294 original size:47 final size:47
Alignment explanation
Indices: 9205203--9205296 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
9205193 TTCAAAAAAA
** * *
9205203 AAAGAAAAGAAGAAAGAAAGTAAAAAAATGATAATGGAAGAAAATGG
1 AAAGAAAAGAAGAAAGAAAGTAAAAAAAAAAGAAAGGAAGAAAATGG
*
9205250 AAAGAAATGAAGAAA-AAAGATAAAGAAAAAAAGAAAGGAA-AAAATGG
1 AAAGAAAAGAAGAAAGAAAG-TAAA-AAAAAAAGAAAGGAAGAAAATGG
9205297 GGAGAAACAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 4 0.10
47 25 0.62
48 11 0.28
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.09
Consensus pattern (47 bp):
AAAGAAAAGAAGAAAGAAAGTAAAAAAAAAAGAAAGGAAGAAAATGG
Found at i:9206920 original size:41 final size:40
Alignment explanation
Indices: 9206829--9206920 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 40
9206819 AATATTTGAA
* * *
9206829 AACTATGAATTGTTTACTCTCTGTGAATCTAAAGTCATCC
1 AACTTTGAATTGTTTACTCTCTATGAATCCAAAGTCATCC
* * ** *
9206869 AAATTGTGAATTGTTTACTCTACTATGAATCCAGAGTTTTTC
1 AACTT-TGAATTGTTTACTCT-CTATGAATCCAAAGTCATCC
9206911 AACTTTGAAT
1 AACTTTGAAT
9206921 CATTACCTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
40 3 0.07
41 20 0.49
42 18 0.44
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (40 bp):
AACTTTGAATTGTTTACTCTCTATGAATCCAAAGTCATCC
Found at i:9206931 original size:41 final size:42
Alignment explanation
Indices: 9206886--9206966 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 42
9206876 GAATTGTTTA
* *
9206886 CTCTACTATGAATCCAGAGTTTTTC-AACTTTGAATCATTAC
1 CTCTACTATGAATCCAGAGTTATTCAAACTGTGAATCATTAC
* * *
9206927 CTCTATTGTGAATCTAGAGTTATTCAAACTGTGAATCATT
1 CTCTACTATGAATCCAGAGTTATTCAAACTGTGAATCATT
9206967 TTTTTTGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (42 bp):
CTCTACTATGAATCCAGAGTTATTCAAACTGTGAATCATTAC
Found at i:9207227 original size:52 final size:51
Alignment explanation
Indices: 9207134--9207464 Score: 245
Period size: 52 Copynumber: 6.4 Consensus size: 51
9207124 AAACCTTTTA
* * * * *
9207134 TGAATCCCTAACCTTTAAAGAATCTTGGTGTGAATCTTAGCCCTTTTAGTG
1 TGAATCCCAAACCTTTAAAAAATCATAGTGTGAATCCTAGCCCTTTTAGTG
* * * *
9207185 TGAATCCCAAACCTTTTAAAAAATCCTAGTATGAATCCTAGCCTTTTTGGTG
1 TGAATCCCAAACC-TTTAAAAAATCATAGTGTGAATCCTAGCCCTTTTAGTG
* * * * **
9207237 TGAATCCTAAACCTTTAAAAGAATCATTGTATGAATCCTAGTCAATTTAGTG
1 TGAATCCCAAACCTTTAAAA-AATCATAGTGTGAATCCTAGCCCTTTTAGTG
*** * *
9207289 TGAATTGAAAACCTTTTGAAAAATCCTAGTGTGAA-CCTTAG-CCTTTTCAGTG
1 TGAATCCCAAACC-TTTAAAAAATCATAGTGTGAATCC-TAGCCCTTTT-AGTG
* * * * *
9207341 TGAATCCCAAACCTTTAAAGAATCATGGTGTGAATTCTAGCCTTTTTAGTA
1 TGAATCCCAAACCTTTAAAAAATCATAGTGTGAATCCTAGCCCTTTTAGTG
*** * * * * ** * *
9207392 TGAATCTTGAACCTTTGACAAATCTTGGTGCAAATCCTA-ACCTTTCAGTG
1 TGAATCCCAAACCTTTAAAAAATCATAGTGTGAATCCTAGCCCTTTTAGTG
**
9207442 TGAATCCTGAACCTTTGAAAAAA
1 TGAATCCCAAACCTTT-AAAAAA
9207465 CCTTTTATGA
Statistics
Matches: 221, Mismatches: 51, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
50 22 0.10
51 81 0.37
52 112 0.51
53 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (51 bp):
TGAATCCCAAACCTTTAAAAAATCATAGTGTGAATCCTAGCCCTTTTAGTG
Found at i:9207290 original size:104 final size:103
Alignment explanation
Indices: 9207134--9207397 Score: 309
Period size: 104 Copynumber: 2.6 Consensus size: 103
9207124 AAACCTTTTA
* ** *
9207134 TGAATCCCT-AACCTTTAAAGAATC-TTGGTGTGAATCTTAGCCCTTTTAGTGTGAATCCCAAAC
1 TGAAT-CCTAAACCTTTAAAGAATCATT-GTGTGAATCCTAGCCAATTTAGTGTGAATCCAAAAC
**
9207197 CTTTTAAAAAATCCTAGTATGAATCC-TAGCCTTTTTGGTG
64 CTTTTAAAAAATCCTAGTATGAA-CCTTAGCCTTTTCAGTG
* * **
9207237 TGAATCCTAAACCTTTAAAAGAATCATTGTATGAATCCTAGTCAATTTAGTGTGAATTGAAAACC
1 TGAATCCTAAACCTTT-AAAGAATCATTGTGTGAATCCTAGCCAATTTAGTGTGAATCCAAAACC
* *
9207302 TTTTGAAAAATCCTAGTGTGAACCTTAGCCTTTTCAGTG
65 TTTTAAAAAATCCTAGTATGAACCTTAGCCTTTTCAGTG
* * * ** *
9207341 TGAATCCCAAACCTTTAAAGAATCATGGTGTGAATTCTAGCCTTTTTAGTATGAATC
1 TGAATCCTAAACCTTTAAAGAATCATTGTGTGAATCCTAGCCAATTTAGTGTGAATC
9207398 TTGAACCTTT
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
102 3 0.02
103 47 0.35
104 84 0.62
105 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (103 bp):
TGAATCCTAAACCTTTAAAGAATCATTGTGTGAATCCTAGCCAATTTAGTGTGAATCCAAAACCT
TTTAAAAAATCCTAGTATGAACCTTAGCCTTTTCAGTG
Found at i:9207458 original size:50 final size:52
Alignment explanation
Indices: 9207330--9207461 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 52
9207320 TGAACCTTAG
** ** * *
9207330 CCTTTTCAGTGTGAATCCCAAACCTTT-AAAGAATCATGGTGTGAATTCTAG
1 CCTTTTCAGTGTGAATCCTGAACCTTTGAAAGAATCATGGTGCAAATCCTAA
* * * * *
9207381 CCTTTTTAGTATGAATCTTGAACCTTTGACA-AATCTTGGTGCAAATCCTAA
1 CCTTTTCAGTGTGAATCCTGAACCTTTGAAAGAATCATGGTGCAAATCCTAA
9207432 CC-TTTCAGTGTGAATCCTGAACCTTTGAAA
1 CCTTTTCAGTGTGAATCCTGAACCTTTGAAA
9207462 AAACCTTTTA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
50 24 0.37
51 39 0.60
52 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (52 bp):
CCTTTTCAGTGTGAATCCTGAACCTTTGAAAGAATCATGGTGCAAATCCTAA
Found at i:9207520 original size:30 final size:30
Alignment explanation
Indices: 9207442--9207520 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
9207432 CCTTTCAGTG
9207442 TGAATCCTGAACCTTTGAAAAAACCTTTTA
1 TGAATCCTGAACCTTTGAAAAAACCTTTTA
* * *
9207472 TGAA-CTTTAAAACTTTTGAAAAAACCTTTTA
1 TGAATC-CT-GAACCTTTGAAAAAACCTTTTA
9207503 TGAATCCTGAACCTTTGA
1 TGAATCCTGAACCTTTGA
9207521 TGAATCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 1 0.03
30 13 0.32
31 25 0.62
32 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (30 bp):
TGAATCCTGAACCTTTGAAAAAACCTTTTA
Found at i:9207747 original size:71 final size:71
Alignment explanation
Indices: 9207653--9207785 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
9207643 ACTTAAGAAT
* * *
9207653 TTTTTTTATGTGAATCCTAAACATTCAATAAAGATCTCGAAGACCTTTGGTATGAATCCTAAACT
1 TTTTTTGATGTAAATCCTAAACATTCAATAAAGATCTCAAAGACCTTTGGTATGAATCCTAAACT
9207718 CAAAAA
66 CAAAAA
* *
9207724 TTTTTTGATGTAAATCCTGAACATTCAATAAGGATCTCAAAGACCTTTGGTATGAATCCTAA
1 TTTTTTGATGTAAATCCTAAACATTCAATAAAGATCTCAAAGACCTTTGGTATGAATCCTAA
9207786 GCCCTTGAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (71 bp):
TTTTTTGATGTAAATCCTAAACATTCAATAAAGATCTCAAAGACCTTTGGTATGAATCCTAAACT
CAAAAA
Found at i:9207823 original size:1 final size:1
Alignment explanation
Indices: 9207817--9207878 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
9207807 GCAAAACTTG
* * * * * * * *
9207817 AAAAAAAAAAACAAAAAAATAAAAAAACATAAAACATAAAAAAAAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9207879 CGCCTTCTAA
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.05, G:0.03, T:0.05
Consensus pattern (1 bp):
A
Found at i:9208212 original size:20 final size:20
Alignment explanation
Indices: 9208189--9208234 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9208179 GGTCAAAAAA
*
9208189 GTCAAAACTAGTCAAATTTG
1 GTCAAAACTAGTCAAAATTG
* * *
9208209 GTCAACATTGGTCAAAATTG
1 GTCAAAACTAGTCAAAATTG
9208229 GTCAAA
1 GTCAAA
9208235 CTCGATAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (20 bp):
GTCAAAACTAGTCAAAATTG
Found at i:9209125 original size:21 final size:23
Alignment explanation
Indices: 9209101--9209145 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
9209091 CTGGAAACAC
* *
9209101 AGAAA-AAAATAA-AGGAGAAAA
1 AGAAAGAAAAAAAGAGGAAAAAA
9209122 AGAAAGAAAAAAAGAGGAAAAAA
1 AGAAAGAAAAAAAGAGGAAAAAA
9209145 A
1 A
9209146 TTCTTTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 6 0.30
23 9 0.45
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (23 bp):
AGAAAGAAAAAAAGAGGAAAAAA
Found at i:9210157 original size:14 final size:14
Alignment explanation
Indices: 9210120--9210159 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9210110 AAAAACAAAG
*
9210120 TTGAAACCCAAAAC
1 TTGAAACCCTAAAC
* *
9210134 TTGAGACCCTAAAT
1 TTGAAACCCTAAAC
9210148 TTGAAACCCTAA
1 TTGAAACCCTAA
9210160 GGCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (14 bp):
TTGAAACCCTAAAC
Found at i:9210198 original size:13 final size:13
Alignment explanation
Indices: 9210182--9210216 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9210172 TTTTAAAAAA
9210182 TATTTTTTGTTTT
1 TATTTTTTGTTTT
*
9210195 TATTTTTTATTTT
1 TATTTTTTGTTTT
*
9210208 CATTTTTTG
1 TATTTTTTG
9210217 GAAAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.03, G:0.06, T:0.80
Consensus pattern (13 bp):
TATTTTTTGTTTT
Found at i:9210656 original size:13 final size:14
Alignment explanation
Indices: 9210634--9210682 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
9210624 AATCTTCCTT
9210634 CAAACCTTAAATC-
1 CAAACCTTAAATCA
*
9210647 CAAACGTTAAATCA
1 CAAACCTTAAATCA
**
9210661 CAAACCCCAAATC-
1 CAAACCTTAAATCA
9210674 CAAACCTTA
1 CAAACCTTA
9210683 TATGCAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (14 bp):
CAAACCTTAAATCA
Found at i:9210744 original size:13 final size:13
Alignment explanation
Indices: 9210699--9210757 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
9210689 AACTTGAAAC
*
9210699 CCTTAAATCTAAA
1 CCTTAAATCCAAA
*
9210712 -CTCTAAA-CCCAA
1 CCT-TAAATCCAAA
9210724 CCTCTAAATCCAAA
1 CCT-TAAATCCAAA
* *
9210738 TCTTAAATCCTAA
1 CCTTAAATCCAAA
9210751 CCTTAAA
1 CCTTAAA
9210758 CTTAAAAACC
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 5 0.14
13 26 0.70
14 6 0.16
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (13 bp):
CCTTAAATCCAAA
Found at i:9210744 original size:26 final size:26
Alignment explanation
Indices: 9210699--9210757 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
9210689 AACTTGAAAC
*
9210699 CCTTAAATCTAAACTCTAAA-CCCAA
1 CCTTAAATCCAAACTCTAAATCCCAA
*
9210724 CCTCTAAATCCAAA-TCTTAAATCCTAA
1 CCT-TAAATCCAAACTC-TAAATCCCAA
9210751 CCTTAAA
1 CCTTAAA
9210758 CTTAAAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 5 0.17
26 17 0.59
27 7 0.24
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.27
Consensus pattern (26 bp):
CCTTAAATCCAAACTCTAAATCCCAA
Found at i:9211942 original size:130 final size:130
Alignment explanation
Indices: 9211747--9213387 Score: 464
Period size: 130 Copynumber: 12.7 Consensus size: 130
9211737 GCTCTAATAT
* * ** ** *
9211747 TATAATTATGAAAATACATGTTCTCTTATAATTATTTACTTTATAATCCCTTATGAATTTA-TAA
1 TATAATTACGAAAATAC-TTTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTAA
* * * * *
9211811 AAATACCCTTTCTACTATATGATAAGAAATTGACATATGGTTAAATGGAGTATTATGCCCTTAC-
65 AAATACCATTTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTAT-CCCTTACT
9211875 AC
129 AC
* *
9211877 TATAA-TACGAAAATACCTTTTCTATTATAATTATTTACAAAATAAT-CCTTCAAAAAATTATT-
1 TATAATTACGAAAATA-CTTTTCTCTTATAATTATTTACTAAATAATCCCTT-AAAAAATTATTA
* * * *
9211939 AAAATACCATTTCCATTATATGATAAGAAATTGACATGTGATCAAATGAAGTATTATTCCTTTCT
64 AAAATACCATTTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTATCCCTTACT
9212004 AC
129 AC
* * * * *
9212006 CATAATTACTAAAATA-TTGCATCTCTTATAATTATTTATTAAATAATCCCTTAAAAAATTA-TC
1 TATAATTACGAAAATACTT--TTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTA
** * * * * ** * *
9212069 AAAATAATATTTCCATTATATAATAAG-AATTCAACATGTGGCCAAATTAACTATTA-CGCCTTT
64 AAAATACCATTTCCACTATATGATAAGAAATT-GACATATGATCAAATGAAGTATTATC-CC-TT
9212132 A-TAC
126 ACTAC
* * * * * * **
9212136 CATAA--ACATAAAATTACGCTTTGTCTTATAATTGTTTACAAAATAAT-CCTCTATTAAATTA-
1 TATAATTAC-GAAAA-TAC-TTTTCTCTTATAATTATTTACTAAATAATCCCT-TAAAAAATTAT
* * * * * ** * *
9212197 TCAAAATAGCATTTTCATTATATGATAAGAAAATTGAC--ATGCAGCCAAATTTACTATTATACT
62 TAAAAATACCATTTCCACTATATGATAAG-AAATTGACATATG-A-TCAAATGAAGTATTAT-CC
9212260 CTTA-TAC
123 CTTACTAC
* * * * * ** *
9212267 TATTATTATGAAAATACCCATTTC-ATTATAATTATTTATTAAATAATCGCC-TATGAAATTA-G
1 TATAATTACGAAAATA--CTTTTCTCTTATAATTATTTACTAAATAATC-CCTTAAAAAATTATT
* * * * * * * * *
9212329 CAAAATACCTTTTTCAATATATGATAAGAAATTGACATGT-AGCCAAATGGACTATTATACCTTT
63 AAAAATACCATTTCCACTATATGATAAGAAATTGACATATGA-TCAAATGAAGTATTAT-CCCTT
9212393 A-TA-
126 ACTAC
* * *** * * * ** * *
9212396 TCATAATTATGAAAATGCCCCATGTTTTATAATAATTTACTAAATAATCCCCCAAGAAATTA--C
1 T-ATAATTACGAAAAT-ACTTTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTA
* * * * * ** * * * *
9212459 CAAATACC-TATTCCATTCTATGATAAGAAATTTACATAAGGCCAAATGGATTATTATTCCAT-C
64 AAAATACCAT-TTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTATCCCTTAC
9212522 ATAC
128 -TAC
* * * * ** **
9212526 CATAATTATGAAACTA-TTCATCTCTTATAATTA-TTA-TAAATAATCCC-TATTTAAATTA-CC
1 TATAATTACGAAAATACTT-TTCTCTTATAATTATTTACTAAATAATCCCTTA-AAAAATTATTA
* * * * * ** * *
9212586 AAAACACCTTTTCCATTATATGAT-A-ATATT-ACATGTGGCCAAATGGACTATTATGCCC-T-C
64 AAAATACCATTTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTAT-CCCTTAC
9212646 TAAC
128 T-AC
* * * * * *
9212650 AAATAGTTATGAAAATACTTATTTTTTTTTATAATTATTTACTAAATAATCCCTTAAAAATTTA-
1 -TATAATTACGAAAATAC---TTTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTAT
** * ** *
9212714 CCAAAATGACC-TTTTCACTATATGATAAGAAATTGACATATGCCCAAATTG-ACTATTA-CACC
62 TAAAAAT-ACCATTTCCACTATATGATAAGAAATTGACATATGATCAAA-TGAAGTATTATC-CC
9212776 TT-CATAAC
124 TTAC-T-AC
* * * **
9212784 -ATAATTACAAAAATA-TGATTTGTCTTATAATTATTTACTAAATAATTTCC-TATGAAATTA-T
1 TATAATTACGAAAATACT--TTTCTCTTATAATTATTTACTAAATAA-TCCCTTAAAAAATTATT
* * * * * * * * ** * * * *
9212845 CAAAATGTCCTTTTTC-TTATATGATAAGAACTTGACGTGTGGCCAAATGGACTATTATGCGCTC
63 AAAAAT-ACCATTTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTAT-CCCTT
*
9212909 A-TAG
126 ACTAC
* * * * * ** **
9212913 TATTATTACAAAAATACTCTATCTCTTATAATAATTTACTAAATAATTCCTTATGAAATTA-CCA
1 TATAATTACGAAAATACT-TTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTAA
* * * * * * * **
9212977 AAATTCTC-TTTCCATTATATGATAAAAAATTAACATGT-AGCCAAATTG-ACTATTATGTCTCT
65 AAATAC-CATTTCCACTATATGATAAGAAATTGACATATGA-TCAAA-TGAAGTATTATCCCT-T
9213039 A-TA-
126 ACTAC
* * * * ** *
9213042 TCATAATTACCAAAATATCTCTTCCCTTATAATTATTTACCAAATAATCCCTTATGAAATTA--C
1 T-ATAATTACGAAAATA-CTTTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTA
* ** * * * ** * *
9213105 AAAATATGC-TTTTTATTAAATGATAAGAAATTAACATGA-GGCCAAAT-AGATTATTATTACCT
64 AAAATA-CCATTTCCACTATATGATAAGAAATTGACAT-ATGATCAAATGA-AGTATTA-TCCCT
*
9213167 CA-TA-
125 TACTAC
* ** * ** *
9213171 TCATAGTTACGAAAATACACCTTCTCTTATAATTA-TTA-TAAATAATCTC-TATTTAAATTA-C
1 T-ATAATTACGAAAATAC-TTTTCTCTTATAATTATTTACTAAATAATCCCTTA-AAAAATTATT
* * * * ** * ** * * *
9213232 CAAAATACCTTTTCCATTATATCATAAGATGTTTACATATGGCCAAATGGACTATTATGCCCTCA
63 AAAAATACCATTTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTAT-CCCTTA
9213297 -TAC
127 CTAC
* ** * *
9213300 TATAATTACGAAAATACTATTTTTCTTATAATTATTTACTAAATAATCCCTTCTAAAATGACT-A
1 TATAATTACGAAAATACT-TTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTAA
* *
9213364 AAATACCATTTTCATTATATGATA
65 AAATACCATTTCCACTATATGATA
9213388 TACATTAAAA
Statistics
Matches: 1200, Mismatches: 212, Indels: 198
0.75 0.13 0.12
Matches are distributed among these distances:
123 1 0.00
124 25 0.02
125 20 0.02
126 20 0.02
127 42 0.04
128 122 0.10
129 275 0.23
130 522 0.44
131 109 0.09
132 33 0.03
133 25 0.02
134 6 0.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (130 bp):
TATAATTACGAAAATACTTTTCTCTTATAATTATTTACTAAATAATCCCTTAAAAAATTATTAAA
AATACCATTTCCACTATATGATAAGAAATTGACATATGATCAAATGAAGTATTATCCCTTACTAC
Found at i:9212944 original size:260 final size:256
Alignment explanation
Indices: 9211748--9213387 Score: 1080
Period size: 260 Copynumber: 6.3 Consensus size: 256
9211738 CTCTAATATT
* * * ** * *
9211748 ATAATTATGAAAATACATGTTCTCTTATAATTATTTACTTTATAA-TCCCTTATGAATTTATAAA
1 ATAATTACGAAAATATATCTTCTCTTATAATTATTTACTAAATAATTCCC-TATGAAATTA-CAA
* * * ** * * *
9211812 AATACC-CTTTCTACTATATGATAAGAAATTGACATATGGTTAAATGGAGTATTATGCC-CTTA-
64 AATACCTTTTTC-ATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATACCTCATAT
* * * * * *
9211874 CACTATA-ATACGAAAATACCTTTTCTATTATAATTATTTACAAAATAAT-CCTTCAAAAAATTA
128 CA-T-TAGTTACGAAAATACCCTATCTCTTATAATAATTTACTAAATAATCCCTT--AAAAATTA
** * * ** * * *
9211937 TTAAAATACCATTTCCATTATATGATAAGAAATTGACATGTGATCAAATGAAGTATTATTCCTTT
189 CCAAAATACC-TTTCCATTATATGATAAGAAATTTACATATGGCCAAATGGACTATTATGCC--T
*
9212002 C-TACC
251 CATAAC
* * * **
9212007 ATAATTACTAAAATAT-TGCATCTCTTATAATTATTTATTAAATAA-TCCCTTAAAAAATTATCA
1 ATAATTACGAAAATATAT-CTTCTCTTATAATTATTTACTAAATAATTCCC-TATGAAATTA-CA
* * * * ** ** *
9212070 AAATA-ATATTTCCATTATATAATAAG-AATTCAACATGTGGCCAAATTAACTATTACGCCTTTA
63 AAATACCT-TTTTCATTATATGATAAGAAATT-GACATGTGGCCAAATGGACTATTATACC-TCA
* * * * * * ** * *
9212133 TACCA-TA--AACATAAAATTACGCTTTGTCTTATAATTGTTTACAAAATAAT-CCTCTATTAAA
125 TATCATTAGTTAC-GAAAA-TACCCTATCTCTTATAATAATTTACTAAATAATCCCT-TA-AAAA
* * * * *** ** *
9212194 TTATCAAAATAGCATTTTCATTATATGATAAGAAAATTGACATGCAGCCAAATTTACTATTAT-A
186 TTACCAAAATA-CCTTTCCATTATATGATAAG-AAATTTACATATGGCCAAATGGACTATTATGC
*
9212258 CTCTTATAC
249 CTCATA-AC
* * * * *
9212267 TATTATTATGAAAATACCCAT-TTC-ATTATAATTATTTATTAAATAA-TCGCCTATGAAATTAG
1 -ATAATTACGAAAATA--TATCTTCTCTTATAATTATTTACTAAATAATTC-CCTATGAAATTA-
* * *
9212329 CAAAATACCTTTTTCAATATATGATAAGAAATTGACATGTAGCCAAATGGACTATTATACCTTTA
61 CAAAATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATACC-TCA
* * * * * * **
9212394 TATCA-TAATTATGAAAATGCCCCATGTTTTATAATAATTTACTAAATAATCCCCCAAGAAATTA
125 TATCATTAGTTACGAAAATACCCTATCTCTTATAATAATTTACTAAATAATCCCTTAA-AAATTA
* * * *
9212458 CC-AAATACCTATTCCATTCTATGATAAGAAATTTACATAAGGCCAAATGGATTATTATTCCATC
189 CCAAAATACCT-TTCCATTATATGATAAGAAATTTACATATGGCCAAATGGACTATTATGCC-TC
*
9212522 ATACC
252 ATAAC
* * * *
9212527 ATAATTATGAAACTAT-TCATCTCTTATAATTA-TTA-TAAATAA-TCCCTATTTAAATTACCAA
1 ATAATTACGAAAATATATCTTCTCTTATAATTATTTACTAAATAATTCCCTA-TGAAATTA-CAA
* * * * *
9212588 AACACCTTTTCCATTATATGAT-A-ATATT-ACATGTGGCCAAATGGACTATTATGCCCTC-TAA
64 AATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTAT-ACCTCATAT
* * * * * *
9212649 CAAATAGTTATGAAAATA-CTTATTTTTTTTTATAATTATTTACTAAATAATCCCTTAAAAATTT
128 C-ATTAGTTACGAAAATACCCTA---TCTCTTATAATAATTTACTAAATAATCCCTTAAAAA-TT
* * * * * **
9212713 ACCAAAATGACCTTTTCACTATATGATAAGAAATTGACATATGCCCAAATTGACTATTACACCTT
188 ACCAAAAT-ACCTTTCCATTATATGATAAGAAATTTACATATGGCCAAATGGACTATTATGCC-T
9212778 CATAAC
251 CATAAC
* * *
9212784 ATAATTACAAAAATATGAT-TTGTCTTATAATTATTTACTAAATAATTTCCTATGAAATTATCAA
1 ATAATTACGAAAATAT-ATCTTCTCTTATAATTATTTACTAAATAATTCCCTATGAAATTA-CAA
* * * *
9212848 AATGTCCTTTTTC-TTATATGATAAGAACTTGACGTGTGGCCAAATGGACTATTATGCGCTCATA
64 AAT-ACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATAC-CTCATA
* * * *
9212912 GT-ATTA-TTACAAAAATACTCTATCTCTTATAATAATTTACTAAATAATTCCTTATGAAATTAC
127 -TCATTAGTTACGAAAATACCCTATCTCTTATAATAATTTACTAAATAATCCCTTA-AAAATTAC
* * * * * * *
9212975 CAAAATTCTCTTTCCATTATATGATAAAAAATTAACATGTAGCCAAATTGACTATTATGTCTCTA
190 CAAAATAC-CTTTCCATTATATGATAAGAAATTTACATATGGCCAAATGGACTATTATGCCTC-A
*
9213040 TATC
253 TAAC
* * * *
9213044 ATAATTACCAAAATATCTCTTCCCTTATAATTATTTACCAAATAA-TCCCTTATGAAATTACAAA
1 ATAATTACGAAAATATATCTTCTCTTATAATTATTTACTAAATAATTCCC-TATGAAATTACAAA
* * * * * *
9213108 ATATGCTTTTT-ATTAAATGATAAGAAATTAACATGAGGCCAAATAGATTATTATTACCTCATAT
65 ATA-CCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTA-TACCTCATAT
* * **
9213172 CA-TAGTTACGAAAATACACCT-TCTCTTATAATTA-TTA-TAAATAATCTCTATTTAAATTACC
128 CATTAGTTACGAAAATAC-CCTATCTCTTATAATAATTTACTAAATAATCCCT-TAAAAATTACC
* **
9213233 AAAATACCTTTTCCATTATATCATAAGATGTTTACATATGGCCAAATGGACTATTATGCCCTCAT
191 AAAATACC-TTTCCATTATATGATAAGAAATTTACATATGGCCAAATGGACTATTATG-CCTCAT
9213298 -AC
254 AAC
* * * *
9213300 TATAATTACGAAAATACTAT-TTTTCTTATAATTATTTACTAAATAA-TCCCTTCTAAAATGACT
1 -ATAATTACGAAAATA-TATCTTCTCTTATAATTATTTACTAAATAATTCCC-TATGAAATTAC-
*
9213363 AAAATACCATTTTCATTATATGATA
62 AAAATACCTTTTTCATTATATGATA
9213388 TACATTAAAA
Statistics
Matches: 1096, Mismatches: 213, Indels: 145
0.75 0.15 0.10
Matches are distributed among these distances:
252 3 0.00
253 27 0.02
254 18 0.02
255 8 0.01
256 75 0.07
257 190 0.17
258 62 0.06
259 219 0.20
260 252 0.23
261 177 0.16
262 30 0.03
263 32 0.03
264 3 0.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (256 bp):
ATAATTACGAAAATATATCTTCTCTTATAATTATTTACTAAATAATTCCCTATGAAATTACAAAA
TACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATACCTCATATCAT
TAGTTACGAAAATACCCTATCTCTTATAATAATTTACTAAATAATCCCTTAAAAATTACCAAAAT
ACCTTTCCATTATATGATAAGAAATTTACATATGGCCAAATGGACTATTATGCCTCATAAC
Found at i:9213244 original size:647 final size:645
Alignment explanation
Indices: 9212029--9213387 Score: 1600
Period size: 647 Copynumber: 2.1 Consensus size: 645
9212019 ATATTGCATC
* * * *
9212029 TCTTATAATTATTTATTAAATAATCCCTTAAAAAATTATCAAAATA-ATATTTCCATTATATAAT
1 TCTTATAATTATTTACTAAATAATCCCTT-AAAAATTACCAAAATACCT-TTT-CATTATATGAT
* * * * * *
9212093 AAGAATTCAACATGTGGCCAAATTAACTATTACGCCTTTATACCATAAACATAAAATTACGCTTT
63 AAGAATTCAACATATGCCCAAATTAACTATTACACCTTCATAACATAAACATAAAATTACGATTT
* *
9212158 GTCTTATAATTGTTTACAAAATAATCCTCTATTAAATTATCAAAATAGCATTTTCATTATATGAT
128 GTCTTATAATTATTTACAAAATAATCCTCTATGAAATTATCAAAATAGCATTTTCATTATATGAT
** * * **
9212223 AAGAAAATTGACATGCAGCCAAATTTACTATTATACTCTTATACTATTATTATGAAAATACCCAT
193 AAGAAAATTGACATGCAGCCAAATGGACTATTATACGCTCATACTATTATTACAAAAATACCCAT
* * * * *
9212288 TTCATTATAATTATTTATTAAATAATCGCCTATGAAATTAGCAAAATACCTTTTTCAATATATGA
258 CTCATTATAATAATTTACTAAATAATCGCCTATGAAATTACCAAAATACCTTTTCCAATATATGA
* * * ** *
9212353 TAAGAAATTGACATGTAGCCAAATGGACTATTATACCTTTATATCATAATTATGAAAATGCCCCA
323 TAAAAAATTAACATGTAGCCAAATGGACTATTATACCTCTATATCATAATTACCAAAATACCCCA
*** * * **
9212418 TGTTTTATAATAATTTACTAAATAATCCCCCAAGAAATTACCAAATACCTATTCCATTCTATGAT
388 TCCCTTATAATAATTTACCAAATAATCCCCCAAGAAATTACAAAATACCTATTCCATTAAATGAT
* * * * **
9212483 AAGAAATTTACATAAGGCCAAATGGATTATTATTCCATCATACCATAATTATGAAACTATTCATC
453 AAGAAATTAACATAAGGCCAAATAGATTATTATTCCATCATACCATAATTACGAAAATAACCATC
*
9212548 TCTTATAATTATTATAAATAATCCCTATTTAAATTACCAAAACACCTTTTCCATTATATGAT-A-
518 TCTTATAATTATTATAAATAATCCCTATTTAAATTACCAAAACACCTTTTCCATTATATCATAAG
* * *
9212611 AT-ATTACATGTGGCCAAATGGACTATTATGCCCTC-TAACAAATAGTTATGAAAATACTTATTT
583 ATGATTACATATGGCCAAATGGACTATTATGCCCTCAT-AC-AATAATTACGAAAATAC-TA-TT
9212674 TT
644 TT
* *
9212676 TTTTATAATTATTTACTAAATAATCCCTTAAAAATTTACCAAAATGACCTTTTCACTATATGATA
1 TCTTATAATTATTTACTAAATAATCCCTTAAAAA-TTACCAAAAT-ACCTTTTCATTATATGATA
* * *
9212741 AGAAATT-GACATATGCCCAAATTGACTATTACACCTTCATAACATAATTACA-AAAA-TATGAT
64 AG-AATTCAACATATGCCCAAATTAACTATTACACCTTCATAACATAA--ACATAAAATTACGAT
* * *
9212803 TTGTCTTATAATTATTTACTAAATAAT-TTCCTATGAAATTATCAAAAT-GTCCTTTTTC-TTAT
126 TTGTCTTATAATTATTTACAAAATAATCCT-CTATGAAATTATCAAAATAG--CATTTTCATTAT
* * ** * *
9212865 ATGATAAG-AACTTGACGTGTGGCCAAATGGACTATTATGCGCTCATAGTATTATTACAAAAATA
188 ATGATAAGAAAATTGACATGCAGCCAAATGGACTATTATACGCTCATACTATTATTACAAAAATA
* * *
9212929 CTCTATCTC-TTATAATAATTTACTAAATAATTC-CTTATGAAATTACCAAAAT-TCTCTTTCCA
253 C-CCATCTCATTATAATAATTTACTAAATAA-TCGCCTATGAAATTACCAAAATACCT-TTTCCA
* * **
9212991 TTATATGATAAAAAATTAACATGTAGCCAAATTGACTATTATGTCTCTATATCATAATTACCAAA
315 ATATATGATAAAAAATTAACATGTAGCCAAATGGACTATTATACCTCTATATCATAATTACCAAA
* * * * ** * * **
9213056 ATATCTCTTCCCTTATAATTATTTACCAAATAATCCCTTATGAAATTACAAAATATGCT-TTTTA
380 ATACCCCATCCCTTATAATAATTTACCAAATAATCCCCCAAGAAATTACAAAATA-CCTATTCCA
* * *
9213120 TTAAATGATAAGAAATTAACATGAGGCCAAATAGATTATTATTACC-TCATATCATAGTTACGAA
444 TTAAATGATAAGAAATTAACATAAGGCCAAATAGATTATTATT-CCATCATACCATAATTACGAA
* * *
9213184 AATACACCTTCTCTTATAATTATTATAAATAATCTCTATTTAAATTACCAAAATACCTTTTCCAT
508 AATA-ACCATCTCTTATAATTATTATAAATAATCCCTATTTAAATTACCAAAACACCTTTTCCAT
* *
9213249 TATATCATAAGATGTTTACATATGGCCAAATGGACTATTATGCCCTCATACTATAATTACGAAAA
572 TATATCATAAGATGATTACATATGGCCAAATGGACTATTATGCCCTCATACAATAATTACGAAAA
9213314 TACTATTTT
637 TACTATTTT
* * *
9213323 TCTTATAATTATTTACTAAATAATCCCTTCTAAAATGACTAAAATACCATTTTCATTATATGATA
1 TCTTATAATTATTTACTAAATAATCCCTT-AAAAATTACCAAAATACC-TTTTCATTATATGATA
9213388 TACATTAAAA
Statistics
Matches: 601, Mismatches: 90, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
645 2 0.00
646 253 0.42
647 267 0.44
648 25 0.04
649 20 0.03
650 33 0.05
651 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (645 bp):
TCTTATAATTATTTACTAAATAATCCCTTAAAAATTACCAAAATACCTTTTCATTATATGATAAG
AATTCAACATATGCCCAAATTAACTATTACACCTTCATAACATAAACATAAAATTACGATTTGTC
TTATAATTATTTACAAAATAATCCTCTATGAAATTATCAAAATAGCATTTTCATTATATGATAAG
AAAATTGACATGCAGCCAAATGGACTATTATACGCTCATACTATTATTACAAAAATACCCATCTC
ATTATAATAATTTACTAAATAATCGCCTATGAAATTACCAAAATACCTTTTCCAATATATGATAA
AAAATTAACATGTAGCCAAATGGACTATTATACCTCTATATCATAATTACCAAAATACCCCATCC
CTTATAATAATTTACCAAATAATCCCCCAAGAAATTACAAAATACCTATTCCATTAAATGATAAG
AAATTAACATAAGGCCAAATAGATTATTATTCCATCATACCATAATTACGAAAATAACCATCTCT
TATAATTATTATAAATAATCCCTATTTAAATTACCAAAACACCTTTTCCATTATATCATAAGATG
ATTACATATGGCCAAATGGACTATTATGCCCTCATACAATAATTACGAAAATACTATTTT
Found at i:9213384 original size:517 final size:509
Alignment explanation
Indices: 9211747--9213387 Score: 1427
Period size: 517 Copynumber: 3.2 Consensus size: 509
9211737 GCTCTAATAT
* * ** *
9211747 TATAATTATGAAAATAC-ATGTTCTCTTATAATTATTTACTTTATAATCCCTTATGAATTTATAA
1 TATAATTACGAAAATACTAT-TTTTCTTATAATTATTTACTAAATAATCCC-TATGAAATTATAA
* * * ** * *
9211811 AAATACC-CTTTCTACTATATGATAAGAAATTGACATATGGTTAAATGGAGTATTATGCCCTTAC
64 AAATACCTTTTTC-ATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATG-CCTTAT
* * * * * *
9211875 ACTA-TAATACGAAAATACCTTTTCTATTATAATTATTTACAAAATAA-TCCTTCAAAAAATTAT
127 A-TATTATTACGAAAATACC-TATCTATTATAATAATTTACTAAATAATTCCTT-AAGAAATTAC
* * * * *
9211938 TAAAATACCATTTCCATTATATGATAAGAAATTGACATGT-GATCAAA-TGAAGTATTATTCCTT
189 CAAAATACC-TTTCCATTATATGATAAGAAATTAACATGTAG-CCAAATTG-ACTATTATT-CTC
* * *
9212001 TCTACCATAATTACTAAAATATTGCATCTCTTATAATTATTTATTAAATAATCCCTTAAAAAATT
250 TATACCATAATTACCAAAATATT-CATCTCTTATAATTATTTA-TAAATAATCCCTTATAAAATT
* * * * *
9212066 ATCAAAATAATATTTCCATTATATAATAAG-AATTCAACATGTGGCCAAATTA-ACTATTA-CGC
313 ACCAAAAT-ATCTTTTCATTATATGATAAGAAATT-AACATGTGGCCAAA-TAGACTATTATCAC
* * * * * * * *
9212128 CTTTATACCATA--AACATAAAATTACGCTTTGTCTTATAATTGTTTACAAAATAATCCTCTA-T
375 C-TCATAACATAGTTAC-GAAAA-TACACTTTCTCTTATAATT-ATTACTAAATAAT-CTCTATT
* * *** *
9212190 TAAATTATCAAAATAGCATTTTCATTATATGATAAGAAAATTGACATGCAGCCAAATTTACTATT
435 TAAATTACCAAAATA-CCTTTTCATTATATGATAAG-AAATTGACATATGGCCAAATTGACTATT
* *
9212255 ATACTCTTATAC
498 ATACCCTCATAC
* * * * **
9212267 TATTATTATGAAAATACCCA--TTTCATTATAATTATTTATTAAATAATCGCCTATGAAATTAGC
1 TATAATTACGAAAATA-CTATTTTTC-TTATAATTATTTACTAAATAATC-CCTATGAAATTATA
* * *
9212330 AAAATACCTTTTTCAATATATGATAAGAAATTGACATGTAGCCAAATGGACTATTATACCTTTAT
63 AAAATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATGCC-TTAT
* * * * * * * **
9212395 ATCATAATTATGAAAATGCCCCATGTTTTATAATAATTTACTAAATAATCCCCCAAGAAATTACC
127 AT-ATTATTACGAAAAT-ACCTATCTATTATAATAATTTACTAAATAATTCCTTAAGAAATTACC
* * * * *
9212460 -AAATACCTATTCCATTCTATGATAAGAAATTTACAT-AAGGCCAAATGGATTATTATTC-CATC
190 AAAATACCT-TTCCATTATATGATAAGAAATTAACATGTA-GCCAAATTGACTATTATTCTC-T-
** * *
9212522 ATACCATAATTATGAAACTATTCATCTCTTATAATTA-TTATAAATAATCCC-TATTTAAATTAC
251 ATACCATAATTACCAAAATATTCATCTCTTATAATTATTTATAAATAATCCCTTA-TAAAATTAC
* * * *
9212585 CAAAACACCTTTTCCATTATATGAT-A-ATATT-ACATGTGGCCAAATGGACTATTATGC-CCTC
315 CAAAATATCTTTT-CATTATATGATAAGAAATTAACATGTGGCCAAATAGACTATTAT-CACCTC
* * * * * **
9212646 -TAACAAATAGTTATGAAAATACTTATTTTTTTTTATAATTATTTACTAAATAATCCCT-TAAAA
378 ATAAC--ATAGTTACGAAAATAC--ACTTTCTCTTATAATTA-TTACTAAATAATCTCTATTTAA
* * *
9212709 ATTTACCAAAATGACCTTTTCACTATATGATAAGAAATTGACATATGCCCAAATTGACTATTACA
438 A-TTACCAAAAT-ACCTTTTCATTATATGATAAGAAATTGACATATGGCCAAATTGACTATTATA
*
9212774 CCTTCATAAC
501 CCCTCAT-AC
* * * *
9212784 -ATAATTACAAAAATA-TGATTTGTCTTATAATTATTTACTAAATAATTTCCTATGAAATTATCA
1 TATAATTACGAAAATACT-ATTTTTCTTATAATTATTTACTAAATAA-TCCCTATGAAATTATAA
* * * *
9212847 AAATGTCCTTTTTC-TTATATGATAAGAACTTGACGTGTGGCCAAATGGACTATTATGCGCTCAT
64 AAAT-ACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATGC-CTTAT
* * *
9212911 AGTATTATTACAAAAATACTCTATCTCTTATAATAATTTACTAAATAATTCCTTATGAAATTACC
127 A-TATTATTACGAAAATAC-CTATCTATTATAATAATTTACTAAATAATTCCTTAAGAAATTACC
* *
9212976 AAAATTCTCTTTCCATTATATGATAAAAAATTAACATGTAGCCAAATTGACTATTATGTCTCTAT
190 AAAATAC-CTTTCCATTATATGATAAGAAATTAACATGTAGCCAAATTGACTATTAT-TCTCTAT
* * * * *
9213041 ATCATAATTACCAAAATATCTCTTCCCTTATAATTATTTACCAAATAATCCCTTATGAAATTA-C
253 ACCATAATTACCAAAATAT-TCATCTCTTATAATTATTTA-TAAATAATCCCTTATAAAATTACC
* * * * *
9213105 AAAATATGCTTTTTATTAAATGATAAGAAATTAACATGAGGCCAAATAGATTATTATTACCTCAT
316 AAAATAT-CTTTTCATTATATGATAAGAAATTAACATGTGGCCAAATAGACTATTATCACCTCAT
* *
9213170 ATCATAGTTACGAAAATACACCTTCTCTTATAATTATTA-TAAATAATCTCTATTTAAATTACCA
380 AACATAGTTACGAAAATACACTTTCTCTTATAATTATTACTAAATAATCTCTATTTAAATTACCA
* ** * * *
9213234 AAATACCTTTTCCATTATATCATAAGATGTTTACATATGGCCAAATGGACTATTATGCCCTCATA
445 AAATACCTTTT-CATTATATGATAAGAAATTGACATATGGCCAAATTGACTATTATACCCTCATA
9213299 C
509 C
* * *
9213300 TATAATTACGAAAATACTATTTTTCTTATAATTATTTACTAAATAATCCCTTCTAAAATGACT-A
1 TATAATTACGAAAATACTATTTTTCTTATAATTATTTACTAAATAATCCC-TATGAAATTA-TAA
*
9213364 AAATACCATTTTCATTATATGATA
64 AAATACCTTTTTCATTATATGATA
9213388 TACATTAAAA
Statistics
Matches: 901, Mismatches: 157, Indels: 129
0.76 0.13 0.11
Matches are distributed among these distances:
513 4 0.00
514 21 0.02
515 10 0.01
516 211 0.23
517 286 0.32
518 33 0.04
519 56 0.06
520 179 0.20
521 68 0.08
522 30 0.03
523 3 0.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (509 bp):
TATAATTACGAAAATACTATTTTTCTTATAATTATTTACTAAATAATCCCTATGAAATTATAAAA
ATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATGGACTATTATGCCTTATATAT
TATTACGAAAATACCTATCTATTATAATAATTTACTAAATAATTCCTTAAGAAATTACCAAAATA
CCTTTCCATTATATGATAAGAAATTAACATGTAGCCAAATTGACTATTATTCTCTATACCATAAT
TACCAAAATATTCATCTCTTATAATTATTTATAAATAATCCCTTATAAAATTACCAAAATATCTT
TTCATTATATGATAAGAAATTAACATGTGGCCAAATAGACTATTATCACCTCATAACATAGTTAC
GAAAATACACTTTCTCTTATAATTATTACTAAATAATCTCTATTTAAATTACCAAAATACCTTTT
CATTATATGATAAGAAATTGACATATGGCCAAATTGACTATTATACCCTCATAC
Found at i:9213604 original size:130 final size:127
Alignment explanation
Indices: 9213470--9214220 Score: 567
Period size: 129 Copynumber: 5.8 Consensus size: 127
9213460 AAATGTATTG
*
9213470 TTATGCCGAT-ATATCATAATTAAGAAAATACCCCCTCTTTTATAATTATTTACTAAATAATTCC
1 TTATGCC-ATCATA-CATAATTAAGAAAATA-CCCTTCTTTTATAATTATTTACTAAATAATTCC
** * ** * * *
9213534 ATAAAAAATTACCAAAATGCCTTTTTCATTATACAATAAAAAATTGACATGTGGCAAAATTAACA
63 -TATGAAATTACCAAAATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATTAACT
9213599 A
127 A
* *** *
9213600 TTATGCCATCATATCATAATTACGAAAATTTTTCTT-TTCTTATAAATATTTACTAAATAATCTC
1 TTATGCCATCATA-CATAATTAAGAAAA-TACCCTTCTT-TTATAATTATTTACTAAATAAT-TC
* * * * * ** *
9213664 CTATGAAATTACCAAAATACCCTTTCCATTATATAATAAGAAATTGACATGTGACCAAGTGGACC
62 CTATGAAATTACCAAAATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATTAACT
9213729 A
127 A
* * * * * * *
9213730 TTATGCCCTTATACTAAAATTACGAAAATGCCATT-TTCTTATAATTGTTTACTAAATAA-TCGC
1 TTATGCCATCATAC-ATAATTAAGAAAATACCCTTCTT-TTATAATTATTTACTAAATAATTC-C
* * * * * *
9213793 TCATTATATTACCAAAATACAC-TTTCCATTATATGATAAAAAATTGATATGTGGCCAAATGAAC
63 T-ATGAAATTACCAAAATAC-CTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATTAAC
9213857 TA
126 TA
* * * * *
9213859 TTATTCTC-TCATAGCATAATTAAGAAAATACCCTTCCTTTAAAATTATTTATTAAATAATCCCT
1 TTATGC-CATCATA-CATAATTAAGAAAATACCCTTCTTTTATAATTATTTACTAAATAATTCC-
* * ** ** ****
9213923 TAAGAAATCACTGAAAT-GGTATTTT-ATTATATGATAAGAAATTGACATGCAATCAAATTAACT
63 TATGAAATTACCAAAATACCT-TTTTCATTATATGATAAGAAATTGACATGTGGCCAAATTAACT
9213986 A
127 A
* *
9213987 TTATGCCATCATACTATAATTACGAAAATATCTCTTCTTTTATAATTATTTACTAAATAA-TCCT
1 TTATGCCATCATAC-ATAATTAAGAAAATA-CCCTTCTTTTATAATTATTTACTAAATAATTCC-
* * * * * *
9214051 TTATGAAATTACCAACATA-TTATTTTCAATATATGATAAGAAATTGATATGTAGCCAAATTGAC
63 -TATGAAATTACCAAAATACCT-TTTTCATTATATGATAAGAAATTGACATGTGGCCAAATTAAC
9214115 TA
126 TA
* * * *
9214117 TTATACC-GCACACCATAATTACAG-AAATACCTCTTCTCTTATAATTATTTACTAAATAATTCT
1 TTATGCCATCATA-CATAATTA-AGAAAATACC-CTTCTTTTATAATTATTTACTAAATAATTC-
* * * * *
9214180 TTATTATATTACCAAAATACCTTGTCCATTATA-GA-AAGAAA
62 CTATGAAATTACCAAAATACCTTTTTCATTATATGATAAGAAA
9214221 ATAATATTTT
Statistics
Matches: 497, Mismatches: 97, Indels: 57
0.76 0.15 0.09
Matches are distributed among these distances:
127 10 0.02
128 63 0.13
129 248 0.50
130 172 0.35
131 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (127 bp):
TTATGCCATCATACATAATTAAGAAAATACCCTTCTTTTATAATTATTTACTAAATAATTCCTAT
GAAATTACCAAAATACCTTTTTCATTATATGATAAGAAATTGACATGTGGCCAAATTAACTA
Found at i:9214305 original size:19 final size:19
Alignment explanation
Indices: 9214281--9214348 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 19
9214271 TAATTTTTTT
9214281 ATTTTTAAAATGATATTGA
1 ATTTTTAAAATGATATTGA
*
9214300 ATTTTTCAAAAAAGA-ATTTGA
1 ATTTTT--AAAATGATA-TTGA
* *
9214321 ATTTTTAAATTAAT-TTGA
1 ATTTTTAAAATGATATTGA
*
9214339 AATTTTAAAA
1 ATTTTTAAAA
9214349 AACTATTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 12 0.31
19 10 0.26
20 1 0.03
21 16 0.41
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (19 bp):
ATTTTTAAAATGATATTGA
Found at i:9215029 original size:129 final size:128
Alignment explanation
Indices: 9214736--9215171 Score: 341
Period size: 129 Copynumber: 3.4 Consensus size: 128
9214726 ACCATTTATT
* * ** * ** * *
9214736 TTATAATTATTTACTAAATAATCTCCTATGAAAA-CATTAAAATACCTTTTCCACCATATGATAA
1 TTATAATTATTTACTAAATAATCTTCTAT-AAAATTACCAAAATACCATTT-CAATAAATAATAA
* * * * * * ** * *
9214800 GAAATTGACATTTGGCTAAATGGATTATTATGCCCTCATATAATAATTACAAAAATA-CCACTT-
64 GAAATTAACA-CTGGCAAAATGGACTATTATGCCATCAAACCATAACTACGAAAATACCCA-TTC
9214863 TAC
127 T-C
* * *
9214866 TTGTAATTATTTACTAAATAATC-TCTTATAAAATTACTAAAATACCATTTCATTAAATAATAA-
1 TTATAATTATTTACTAAATAATCTTC-TATAAAATTACCAAAATACCATTTCAATAAATAATAAG
** *
9214929 AAAGTTAACA-TGTAGTCAAAAT-GACTATTATTTCATCAAACCATAACTACGAAAATACTCATT
65 AAA-TTAACACTG--G-CAAAATGGACTATTATGCCATCAAACCATAACTACGAAAATACCCATT
9214992 C-C
126 CTC
* * * *
9214994 ATTATAATTATTTACTAAATAATCTTCTATGAAATTACCAAAATAACCTTTTCAATATATGATAA
1 -TTATAATTATTTACTAAATAATCTTCTATAAAATTACCAAAAT-ACCATTTCAATAAATAATAA
* * * * * * * *
9215059 GAAATTGACACTGGCTAAATGGACTATTATGCCCTCATACTATAATTATGAAAATGCCCATTCTC
64 GAAATTAACACTGGCAAAATGGACTATTATGCCATCAAACCATAACTACGAAAATACCCATTCTC
* *
9215124 TTATAATTATTTACTAAATAATCCTT-TATTATATTACCAAAATACCAT
1 TTATAATTATTTACTAAATAAT-CTTCTATAAAATTACCAAAATACCAT
9215172 ATACATTATT
Statistics
Matches: 248, Mismatches: 42, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
127 2 0.01
128 13 0.05
129 156 0.63
130 72 0.29
131 5 0.02
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (128 bp):
TTATAATTATTTACTAAATAATCTTCTATAAAATTACCAAAATACCATTTCAATAAATAATAAGA
AATTAACACTGGCAAAATGGACTATTATGCCATCAAACCATAACTACGAAAATACCCATTCTC
Found at i:9215305 original size:20 final size:21
Alignment explanation
Indices: 9215263--9215305 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
9215253 TAAAATGATA
*
9215263 TTGAATTTTTCAAAAAAGAAT
1 TTGAATTTTTCAAAAAACAAT
*
9215284 TTGAATTTTT-AAAAAACTAT
1 TTGAATTTTTCAAAAAACAAT
9215304 TT
1 TT
9215306 TCTATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (21 bp):
TTGAATTTTTCAAAAAACAAT
Done.