Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 93 of 113
Found at i:19230730 original size:20 final size:20
Alignment explanation
Indices: 19230695--19230742 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
19230685 GTCAACCATG
*
19230695 ACTCGACCTGGGGTCCGCGC
1 ACTCGACCTGAGGTCCGCGC
* *
19230715 ACTCGACCTGATGTCCGTGC
1 ACTCGACCTGAGGTCCGCGC
*
19230735 ACTTGACC
1 ACTCGACC
19230743 CGTGACCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.21
Consensus pattern (20 bp):
ACTCGACCTGAGGTCCGCGC
Found at i:19239078 original size:14 final size:14
Alignment explanation
Indices: 19239059--19239097 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
19239049 TCTTTATTTT
19239059 TCTTTCCATTCTTC
1 TCTTTCCATTCTTC
* *
19239073 TCTTTCCATTATTT
1 TCTTTCCATTCTTC
*
19239087 TCTTGCCATTC
1 TCTTTCCATTC
19239098 CATTTTTGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.10, C:0.31, G:0.03, T:0.56
Consensus pattern (14 bp):
TCTTTCCATTCTTC
Found at i:19243458 original size:49 final size:47
Alignment explanation
Indices: 19243335--19243549 Score: 200
Period size: 47 Copynumber: 4.4 Consensus size: 47
19243325 CATATGAAAT
* * * **
19243335 TTTTAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTCCAAGATGGA
1 TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAA
* * *
19243382 TTTTAAAGTTGTT-AGGCCTCTACTGAGATGAGCTTTTTCAAGATAAGA
1 TTTTAAAATTGTTGA-GCCTCTGCTGAGAGGAGCTTTTTCAAGATAA-A
* * * *
19243430 TTTTAAAAATTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCAAAATGAA
1 TTTT-AAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAA
* * *
19243478 TTTTAAAGTTGTTGAGCATCTGCTAAGAGGAGCTTTTTTC-AGATTTTAAA
1 TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGA---TAAA
19243528 TTTTGAAAAATTGTTGAGCCTC
1 TTTT--AAAATTGTTGAGCCTC
19243550 AAGTGAAATG
Statistics
Matches: 136, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
46 1 0.01
47 63 0.46
48 16 0.12
49 34 0.25
50 8 0.06
52 14 0.10
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (47 bp):
TTTTAAAATTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATAAA
Found at i:19243511 original size:96 final size:96
Alignment explanation
Indices: 19243331--19243549 Score: 255
Period size: 96 Copynumber: 2.2 Consensus size: 96
19243321 AAAACATATG
* * *
19243331 AAATTTTTAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTCCAAGATGGATTTTAAAGTTGTTA
1 AAATTTTAAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTCCAAAATGAATTTTAAAGTTGTTA
* * *
19243396 GGCCTCTACTGAGATGAGC-TTTTTCAAGA-T
66 GGCATCTACTAAGAGGAGCTTTTTTC-AGATT
* * * * *
19243426 AAGATTTTAAAAATTGTTAAGCCTCTGTTGAGAGGAGCTTTTTCAAAATGAATTTTAAAGTTGTT
1 AA-ATTTTAAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTCCAAAATGAATTTTAAAGTTGTT
*
19243491 -GAGCATCTGCTAAGAGGAGCTTTTTTCAGATTTT
65 AG-GCATCTACTAAGAGGAGCTTTTTTCAGA--TT
19243525 AAATTTTGAAAAATTGTTGAGCCTC
1 AAATTTT-AAAAATTGTTGAGCCTC
19243550 AAGTGAAATG
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
95 3 0.03
96 71 0.68
97 6 0.06
98 5 0.05
99 19 0.18
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (96 bp):
AAATTTTAAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTCCAAAATGAATTTTAAAGTTGTTA
GGCATCTACTAAGAGGAGCTTTTTTCAGATT
Found at i:19243799 original size:20 final size:21
Alignment explanation
Indices: 19243743--19243823 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 21
19243733 CCGATCATAG
*
19243743 AAAAAA-AAAAATAATATTATTA
1 AAAAAATAAAAAAAATA-TA-TA
* *
19243765 AATACAATAATAAAAAT-TA-A
1 AA-AAAATAAAAAAAATATATA
19243785 ACAAAAATAAAAAAAATATATA
1 A-AAAAATAAAAAAAATATATA
19243807 AAAAAATATAACAAAAA
1 AAAAAATA-AA-AAAAA
19243824 AAAGAGGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
20 14 0.30
21 10 0.21
22 8 0.17
23 8 0.17
24 7 0.15
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAATAAAAAAAATATATA
Found at i:19243822 original size:12 final size:11
Alignment explanation
Indices: 19243771--19243824 Score: 58
Period size: 12 Copynumber: 4.9 Consensus size: 11
19243761 ATTAAATACA
*
19243771 ATAATAAAAAT
1 ATAAAAAAAAT
*
19243782 -TAAACAAAA-
1 ATAAAAAAAAT
19243791 ATAAAAAAAAT
1 ATAAAAAAAAT
19243802 ATATAAAAAAAT
1 ATA-AAAAAAAT
19243814 ATAACAAAAAA
1 ATAA-AAAAAA
19243825 AAGAGGGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 15 0.42
11 4 0.11
12 17 0.47
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (11 bp):
ATAAAAAAAAT
Found at i:19245774 original size:32 final size:32
Alignment explanation
Indices: 19245702--19245775 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
19245692 AGTTAATAAG
* *
19245702 ACCCTTAAAGCATTCAAGAACAAATTTACCTA
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
* * *
19245734 ACCCTTGAAGAATTCAAGAACAAGTTTGCCTG
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
*
19245766 ACCTTTGAAG
1 ACCCTTGAAG
19245776 CAAATTTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (32 bp):
ACCCTTGAAGAATTCAAGAACAAATTTACCTA
Found at i:19252189 original size:22 final size:23
Alignment explanation
Indices: 19252156--19252213 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
19252146 TTAATATTTA
*
19252156 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
19252179 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
19252201 TTTAATTTATCTG
1 TATAATTTATCTG
19252214 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:19253155 original size:17 final size:16
Alignment explanation
Indices: 19253089--19253233 Score: 76
Period size: 17 Copynumber: 9.2 Consensus size: 16
19253079 TGTACCAATT
19253089 TTTTTATA-TATTTTA
1 TTTTTATATTATTTTA
19253104 --TTTAT-TTATTATTA
1 TTTTTATATTATT-TTA
* * *
19253118 TTATTAGATTAAGTTTA
1 TTTTTATATT-ATTTTA
* *
19253135 -TTTAATATTCTTTTA
1 TTTTTATATTATTTTA
19253150 TTTTTATATTTATTTTA
1 TTTTTATA-TTATTTTA
*
19253167 TTTTTATATTTGTTTTA
1 TTTTTATA-TTATTTTA
*
19253184 CTTTTCTTTATT-TTTTA
1 -TTTT-TATATTATTTTA
*
19253201 TTTTCACT-TTA-TTT-
1 TTTTTA-TATTATTTTA
*
19253215 TGTTT-TATTATTTTA
1 TTTTTATATTATTTTA
19253230 TTTT
1 TTTT
19253234 CTTTAAATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
12 1 0.01
13 12 0.12
14 9 0.09
15 12 0.12
16 20 0.20
17 33 0.34
18 8 0.08
19 3 0.03
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTATATTATTTTA
Found at i:19253211 original size:28 final size:29
Alignment explanation
Indices: 19253180--19253234 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
19253170 TTATATTTGT
19253180 TTTACTTTT-CTTTATT-TTTTATTTTCAC
1 TTTA-TTTTGCTTTATTATTTTATTTTCAC
*
19253208 TTTATTTTGTTTTATTATTTTATTTTC
1 TTTATTTTGCTTTATTATTTTATTTTC
19253235 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 10 0.42
29 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.75
Consensus pattern (29 bp):
TTTATTTTGCTTTATTATTTTATTTTCAC
Found at i:19253222 original size:21 final size:19
Alignment explanation
Indices: 19253152--19253233 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 19
19253142 TTCTTTTATT
*
19253152 TTTATATTTATTTTATTTT-
1 TTTAT-TTTGTTTTATTTTC
*
19253171 TATA-TTTGTTTTACTTTTC
1 TTTATTTTGTTTTA-TTTTC
19253190 TTTA--TT-TTTTATTTTCAC
1 TTTATTTTGTTTTATTTT--C
*
19253208 TTTATTTTGTTTTATTAT-
1 TTTATTTTGTTTTATTTTC
19253226 TTTATTTT
1 TTTATTTT
19253234 CTTTAAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
16 4 0.08
17 13 0.25
18 19 0.37
19 6 0.12
20 2 0.04
21 8 0.15
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTATTTTGTTTTATTTTC
Found at i:19253361 original size:118 final size:116
Alignment explanation
Indices: 19253248--19253555 Score: 325
Period size: 118 Copynumber: 2.6 Consensus size: 116
19253238 AAATAAAATC
* * ** *
19253248 CAAAAGAAATATTTTTG-GGGAAAGTTGGAAGTATCAATTTTCCTTGAAA-ACAAGTTTTTGAAA
1 CAAAA-AAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTCGAAATA-AAAATTCT---A
** *
19253311 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
61 AAAAAATATTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTT
* * *
19253367 CAAAAAAGGT-TTTTCTGAGGGAAGGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCTAAA
1 CAAAAAA-ATATTTT-TGAGGGAAAGTTGAAAGTATCAATTTTCCTCGAAA-TAAAAATTCTAAA
19253431 AAAATATTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTT
63 AAAATATTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTT
** ** * *
19253485 CAAAAAAATATTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAA
1 CAAAAAAATA----TTTTTGAGGGAAAGTTGAAAGTATCAATTTTCC-TCGAAATAAAAATTCTA
19253550 AAAAAA
61 AAAAAA
19253556 AAAAGAGGGT
Statistics
Matches: 158, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
117 1 0.01
118 67 0.42
119 8 0.05
120 28 0.18
121 45 0.28
122 9 0.06
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (116 bp):
CAAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTCGAAATAAAAATTCTAAAAAA
ATATTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTT
Found at i:19253586 original size:70 final size:66
Alignment explanation
Indices: 19253437--19253634 Score: 215
Period size: 70 Copynumber: 3.0 Consensus size: 66
19253427 TAAAAAAATA
* * * *
19253437 TTTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTC----AAAAAAATATTT
1 TTTTTAG-AAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAAAGATTT
19253498 TT
65 TT
*
19253500 TTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAAAAGAGGG
1 TTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-AAAAAAAAAAAGA---
19253565 TTTTT
62 TTTTT
* * * * * * *
19253570 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAACACTAAAGTTTCCAAAAAAAAAATATTTT
1 TTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAAAGATTTT
19253635 GGGAAAAAGT
Statistics
Matches: 114, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
62 38 0.33
63 6 0.05
66 4 0.04
67 8 0.07
69 11 0.10
70 47 0.41
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (66 bp):
TTTTTAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAAAAAGATTTT
T
Found at i:19253645 original size:61 final size:59
Alignment explanation
Indices: 19253249--19253662 Score: 267
Period size: 59 Copynumber: 6.7 Consensus size: 59
19253239 AATAAAATCC
* * * * * * **
19253249 AAAAGAAATATTTTTGGGGAAAGTTGGAAGTATCAATTTTCCTTGAAAACAAGTTTTTGA
1 AAAAAAAATA-TTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
*
19253309 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC--
1 AAAAAAAATA-TTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
** * * * * ** * ** *
19253368 AAAAAAGGTTTTTCTGAGGGAAGGTTGAAAGTATCAATTTTTCTCGAAATTAAAAATTCTA
1 AAAAAAAATATTT-TG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
* ** * *
19253429 AAAAAATAT-TTTTAGAAAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTCAA
1 AAAAAAAATATTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
** * * *
19253488 AAAAATATTTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAA
1 AAAAA-A-AATATTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC---AA
* * * * * *
19253553 AAAAAAAGAGGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAACACTAAAGTTTC
1 AAAAAAA-A-------TATTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTT
19253618 CAA
57 CAA
*
19253621 AAAAAAAATATTTTGGGAAAAAGTTGAAAGTATCAAATTTCC
1 AAAAAAAATATTTTGGG-AAAAGTTGAAAGTATCAATTTTCC
19253663 CTTGTACAAA
Statistics
Matches: 279, Mismatches: 52, Indels: 45
0.74 0.14 0.12
Matches are distributed among these distances:
58 4 0.01
59 78 0.28
60 26 0.09
61 69 0.25
62 42 0.15
64 1 0.00
65 7 0.03
67 1 0.00
68 9 0.03
70 33 0.12
71 9 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAAAATATTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAA
Found at i:19255608 original size:49 final size:49
Alignment explanation
Indices: 19255489--19255679 Score: 149
Period size: 47 Copynumber: 3.9 Consensus size: 49
19255479 AAAACATATG
* * * ** * *
19255489 AGATTTTTAAAATTGTTGAGCCTCTGCTGAAAAAAGCTTTCTCAAAAT-
1 AGATTTTAAAAATTGTTAAGCCTCTACTGAAATGAGCTTTTTCAAGATA
* * * *
19255537 GGATTTT-AAAGTTGTTAGGCCTCTACTGAGATGAGCTTTTTCAAGATA
1 AGATTTTAAAAATTGTTAAGCCTCTACTGAAATGAGCTTTTTCAAGATA
* *
19255585 AGATTTTAAAAATTGTTAAGCCTCTGCT-AAGAGGAGCTTTTTTC-AGATTTTA
1 AGATTTTAAAAATTGTTAAGCCTCTACTGAA-ATGAGC-TTTTTCAAGA---TA
* * *
19255637 A-ATTTTGAAAAATTGTTAAGCCTCAAGTGAAATGAGCATTTTC
1 AGATTTT-AAAAATTGTTAAGCCTCTACTGAAATGAGCTTTTTC
19255680 GATTTGACGA
Statistics
Matches: 113, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
47 31 0.27
48 13 0.12
49 25 0.22
50 6 0.05
51 10 0.09
52 26 0.23
53 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (49 bp):
AGATTTTAAAAATTGTTAAGCCTCTACTGAAATGAGCTTTTTCAAGATA
Found at i:19255935 original size:21 final size:21
Alignment explanation
Indices: 19255854--19255936 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 21
19255844 CTGGTCATAG
* *
19255854 AAAAAAATA-ATAAATAAAAT
1 AAAAATATATATAAAAAAAAT
* *
19255874 AATAATAT-TATTAAATAAAAT
1 AAAAATATATA-TAAAAAAAAT
19255895 AATAAA-A-AT-TAAACAAAAAT
1 AA-AAATATATATAAA-AAAAAT
19255915 AAAAATATATATAAAAAAAAT
1 AAAAATATATATAAAAAAAAT
19255936 A
1 A
19255937 TAACAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
19 7 0.14
20 15 0.29
21 23 0.45
22 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATATATATAAAAAAAAT
Found at i:19256680 original size:23 final size:24
Alignment explanation
Indices: 19256644--19256695 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
19256634 CTTAATTTTT
19256644 AAAATAAACTTTAAAAATAATATA
1 AAAATAAACTTTAAAAATAATATA
***
19256668 AAAATAAAC-TTAATGTTAATATA
1 AAAATAAACTTTAAAAATAATATA
19256691 AAAAT
1 AAAAT
19256696 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATAAACTTTAAAAATAATATA
Found at i:19257887 original size:33 final size:31
Alignment explanation
Indices: 19257837--19257904 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 31
19257827 TTAATAAGAC
*
19257837 CCTTAAAGCATTCAGAACAAATTTTACCTAA
1 CCTTAAAGAATTCAGAACAAATTTTACCTAA
* * *
19257868 CCTTGAAAGAATTCAAGAACAAGTTTTGCCTGA
1 CCTT-AAAGAATTC-AGAACAAATTTTACCTAA
19257901 CCTT
1 CCTT
19257905 TGAAGTAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 4 0.13
32 8 0.26
33 19 0.61
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (31 bp):
CCTTAAAGAATTCAGAACAAATTTTACCTAA
Found at i:19261546 original size:16 final size:16
Alignment explanation
Indices: 19261504--19261556 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
19261494 TATTGATGAG
19261504 ATAAAAAA-ATTATAAA
1 ATAAAAAATATTA-AAA
*
19261520 ATATAATAATATTAAAA
1 ATA-AAAAATATTAAAA
*
19261537 ATAAAAAATA-TAAAT
1 ATAAAAAATATTAAAA
19261552 ATAAA
1 ATAAA
19261557 GATGTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.28
16 9 0.28
17 10 0.31
18 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATTAAAA
Found at i:19264186 original size:5 final size:5
Alignment explanation
Indices: 19264178--19264275 Score: 65
Period size: 5 Copynumber: 19.2 Consensus size: 5
19264168 CATTTTCTTT
* * * *
19264178 TTTTA TTTTA TTTTG TATT- TTGTA TTTTA TTTTA TTTTA TTTACA TTTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA
* * * * *
19264227 TATTA TTGTTA TTGTTT TTTTA TATATA TTTTC TTTTA TTTTA TCTTA
1 TTTTA TT-TTA TT-TTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
19264275 T
1 T
19264276 GTATTTATTA
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
4 5 0.07
5 49 0.68
6 18 0.25
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:19264295 original size:15 final size:16
Alignment explanation
Indices: 19264267--19264300 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19264257 TTCTTTTATT
19264267 TTATCTTATGTATTTA
1 TTATCTTATGTATTTA
*
19264283 TTAT-TTATTTATTTA
1 TTATCTTATGTATTTA
19264298 TTA
1 TTA
19264301 CTACTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATCTTATGTATTTA
Found at i:19264387 original size:22 final size:23
Alignment explanation
Indices: 19264354--19264411 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
19264344 TTAATATTTA
*
19264354 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
19264377 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
19264399 TTTAATTTATCTG
1 TATAATTTATCTG
19264412 TTAATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:19265358 original size:11 final size:11
Alignment explanation
Indices: 19265339--19265433 Score: 58
Period size: 11 Copynumber: 8.7 Consensus size: 11
19265329 TTAATATTCT
19265339 TTTATTTTTATA
1 TTTA-TTTTATA
19265351 TTTATTTTATA
1 TTTATTTTATA
*
19265362 TTTACTTTTGT-
1 TTTA-TTTTATA
* *
19265373 TTTACTTT-TC
1 TTTATTTTATA
19265383 TTTATTTTATA
1 TTTATTTTATA
19265394 -TT-TTTTAT-
1 TTTATTTTATA
*
19265402 TTTCACTTTAT-
1 TTT-ATTTTATA
*
19265413 TTTGTTTTATTA
1 TTTATTTTA-TA
19265425 TTTTATTTT
1 -TTTATTTT
19265434 CTTTAAATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 17
0.73 0.09 0.19
Matches are distributed among these distances:
9 9 0.14
10 16 0.24
11 25 0.38
12 9 0.14
13 7 0.11
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTATTTTATA
Found at i:19265359 original size:5 final size:5
Alignment explanation
Indices: 19265278--19265433 Score: 67
Period size: 5 Copynumber: 31.0 Consensus size: 5
19265268 AGTTGTACCA
* ** *
19265278 ATTTT -TTTT A-TAT ATTTT A-TTT A-TTT ATTATT ATTATT AGATT AGGTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATT-TT ATTTT A-TTTT
* * * *
19265327 ATTTA ATATT CTTTT ATTTTT ATATTT ATTTT ATATTT ACTTTT GTTTT
1 ATTTT ATTTT ATTTT A-TTTT AT-TTT ATTTT AT-TTT A-TTTT ATTTT
* * * *
19265376 ACTTTT -CTTT ATTTT ATATT -TTTT ATTTT CACTTT ATTTT GTTTT A--TT
1 A-TTTT ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
19265424 ATTTT ATTTT
1 ATTTT ATTTT
19265434 CTTTAAATAA
Statistics
Matches: 114, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
3 3 0.03
4 21 0.18
5 51 0.45
6 38 0.33
7 1 0.01
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (5 bp):
ATTTT
Found at i:19265410 original size:25 final size:24
Alignment explanation
Indices: 19265382--19265428 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
19265372 TTTTACTTTT
*
19265382 CTTTATTTTATATTTTTTATTTTCA
1 CTTTATTTTAT-TTTATTATTTTCA
*
19265407 CTTTATTTTGTTTTATTATTTT
1 CTTTATTTTATTTTATTATTTT
19265429 ATTTTCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (24 bp):
CTTTATTTTATTTTATTATTTTCA
Found at i:19265427 original size:13 final size:13
Alignment explanation
Indices: 19265278--19265433 Score: 50
Period size: 13 Copynumber: 10.8 Consensus size: 13
19265268 AGTTGTACCA
19265278 ATTTT-TTTTATAT
1 ATTTTATTTTAT-T
19265291 ATTTTA-TTTATTT
1 ATTTTATTTTA-TT
19265304 ATTATTATTATTAGATT
1 ATT-TTATT-TT--ATT
*
19265321 AGGTTTATTTAATATT
1 A-TTTTATTT--TATT
*
19265337 CTTTTA-TTT-TT
1 ATTTTATTTTATT
19265348 ATATTTATTTTATATTT
1 AT-TTTA-TTT-TA-TT
*
19265365 ACTTTTGTTTTACTT
1 A-TTTTATTTTA-TT
*
19265380 TTCTTTATTTTATAT
1 AT-TTTATTTTAT-T
*
19265395 TTTTTATTTTCACTTT
1 ATTTTATTTT-A--TT
*
19265411 ATTTTGTTTTATT
1 ATTTTATTTTATT
19265424 ATTTTATTTT
1 ATTTTATTTT
19265434 CTTTAAATAA
Statistics
Matches: 110, Mismatches: 11, Indels: 44
0.67 0.07 0.27
Matches are distributed among these distances:
11 3 0.03
12 5 0.05
13 24 0.22
14 18 0.16
15 23 0.21
16 18 0.16
17 15 0.14
18 4 0.04
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTTTATTTTATT
Found at i:19265513 original size:61 final size:58
Alignment explanation
Indices: 19265448--19265791 Score: 309
Period size: 61 Copynumber: 5.8 Consensus size: 58
19265438 AAATAAAATC
** *
19265448 CAAAAAAAATATTTTTTGGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTTTT
1 CAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA---TTTT
** *
19265509 CAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AATTTT
* * * *
19265568 CAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTAATCAATTTTCCTT-AAGAATAAATTT
1 CAAAAAAAATATTTTTTG-GAAAAAGTTGAAAGT-ATCAATTTTCCTTGAA-AATAATTTT
** * * * * * **
19265628 CAAAAAAGGT-TTTTATGAGGAAAGGTTGAAAGTATCAATTTTCCTCGAAATTAAAAATT
1 CAAAAAAAATATTTTTTG-GAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AATTTT
* * * * *
19265687 CTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCC-TCAACACTAAAGTTTC
1 CAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTCCTTGAA-AAT-AA-TTTT
*
19265747 CAAAAAGAAA-ATATTTTGGAAAAAAGTTGAAAGTATCAATTTTCC
1 CAAAAA-AAATATTTTTTGG-AAAAAGTTGAAAGTATCAATTTTCC
19265792 CTTGTACAAG
Statistics
Matches: 238, Mismatches: 34, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
58 16 0.07
59 82 0.34
60 48 0.20
61 90 0.38
62 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (58 bp):
CAAAAAAAATATTTTTTGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATTTT
Found at i:19276220 original size:13 final size:12
Alignment explanation
Indices: 19276201--19276243 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
19276191 ATGCTTGAAG
19276201 AAAAAAATAAAA
1 AAAAAAATAAAA
19276213 ATAAAAAAT-AAA
1 A-AAAAAATAAAA
19276225 AAAAAAATGAAAA
1 AAAAAAAT-AAAA
19276238 AAAAAA
1 AAAAAA
19276244 GTGAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.25
12 5 0.18
13 16 0.57
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.09
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:19276237 original size:7 final size:6
Alignment explanation
Indices: 19276203--19276243 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
19276193 GCTTGAAGAA
19276203 AAAAAT AAAAAT AAAAAAT AAAAA- AAAAAT GAAAAA- AAAAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
19276244 GTGAATGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.31
6 11 0.34
7 11 0.34
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:19276248 original size:13 final size:12
Alignment explanation
Indices: 19276196--19276248 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
19276186 ATACTATGCT
*
19276196 TGAAGAAAAAAA
1 TGAAAAAAAAAA
*
19276208 TAAAAATAAAAAA
1 TGAAAA-AAAAAA
19276221 T-AAAAAAAAAA
1 TGAAAAAAAAAA
19276232 TGAAAAAAAAAA
1 TGAAAAAAAAAA
19276244 GTGAA
1 -TGAA
19276249 TGAAAAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
11 7 0.19
12 18 0.50
13 11 0.31
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.11
Consensus pattern (12 bp):
TGAAAAAAAAAA
Found at i:19277297 original size:41 final size:41
Alignment explanation
Indices: 19277252--19277464 Score: 266
Period size: 41 Copynumber: 5.1 Consensus size: 41
19277242 ATGATTGTCA
* *
19277252 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAG
*
19277293 AGGAGCAATTTATTTTTTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAG
* *
19277334 AGGAGTAATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAG
* * * *
19277375 AGGAGCAATTTATTTTTTAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
19277416 AGGAGCCATTTA-TGTTTCTCAAAGTCATTGAGCCTCTGCTTAG
1 AGGAGCAATTTACT-TTT-T-AAAGTCGTGGTGCCTCTGTTTAG
19277459 AGGAGC
1 AGGAGC
19277465 TTTGATCAAA
Statistics
Matches: 154, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.01
41 125 0.81
42 1 0.01
43 27 0.18
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTTAAAGTCGTGGTGCCTCTGTTTAG
Found at i:19277389 original size:82 final size:82
Alignment explanation
Indices: 19277252--19277464 Score: 293
Period size: 82 Copynumber: 2.6 Consensus size: 82
19277242 ATGATTGTCA
* **
19277252 AGGAGCAATTTACTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTC
1 AGGAGCAATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTC
* *
19277317 GTGGTGCCTCTGTTTAG
66 GTGGAGCCTCTGATTAG
*
19277334 AGGAGTAATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTC
1 AGGAGCAATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTC
*
19277399 GTTGAGCCTCTGATTAG
66 GTGGAGCCTCTGATTAG
* * * *
19277416 AGGAGCCATTTA-TGTTTCTCAAAGTCATTGAGCCTCTGCTTAGAGGAGC
1 AGGAGCAATTTACT-TTT-T-AAAGTCATGGTGCCTCTGTTTAGAGGAGC
19277465 TTTGATCAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
81 1 0.01
82 88 0.76
83 1 0.01
84 26 0.22
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTTAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTAAAGTC
GTGGAGCCTCTGATTAG
Found at i:19277496 original size:14 final size:14
Alignment explanation
Indices: 19277477--19277523 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
19277467 TGATCAAATT
19277477 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
19277491 AAAAAAAAACAAAA
1 AAAAAAAAACAAAA
* *
19277505 GAAACAAAAATAAAA
1 -AAAAAAAAACAAAA
19277520 AAAA
1 AAAA
19277524 TTGCCTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.89, C:0.06, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAAAAAAACAAAA
Found at i:19277509 original size:23 final size:24
Alignment explanation
Indices: 19277478--19277523 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
19277468 GATCAAATTA
19277478 AAAAAAAACAAAAA-AAAAAAAAC
1 AAAAAAAACAAAAATAAAAAAAAC
*
19277501 AAAAGAAACAAAAATAAAAAAAA
1 AAAAAAAACAAAAATAAAAAAAA
19277524 TTGCCTCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (24 bp):
AAAAAAAACAAAAATAAAAAAAAC
Found at i:19277574 original size:43 final size:44
Alignment explanation
Indices: 19277526--19277631 Score: 126
Period size: 46 Copynumber: 2.4 Consensus size: 44
19277516 AAAAAAAATT
19277526 GCCTCT-ATTTAAAGGAGCCTGGTTTA-TTTTCAAAAGTCGTTGA
1 GCCTCTGA-TTAAAGGAGCCTGGTTTATTTTTCAAAAGTCGTTGA
* * *
19277569 GCCTCTGATTAGAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGA
1 GCCTCTGATTAAAGGAGCCTGGTTTA--TTTTTCAAAAGTCGTTGA
* *
19277615 GCCTCTGCTTAGAGGAG
1 GCCTCTGATTAAAGGAG
19277632 TTTTGATCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
43 21 0.38
44 1 0.02
46 33 0.60
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.37
Consensus pattern (44 bp):
GCCTCTGATTAAAGGAGCCTGGTTTATTTTTCAAAAGTCGTTGA
Found at i:19277809 original size:13 final size:12
Alignment explanation
Indices: 19277782--19277901 Score: 50
Period size: 12 Copynumber: 9.2 Consensus size: 12
19277772 GGGTAAGCCC
*
19277782 ATTTTCTTTTTT
1 ATTTTATTTTTT
19277794 ATTTTATTTTTGT
1 ATTTTATTTTT-T
19277807 ATTTTTATTTATTT
1 A-TTTTATTT-TTT
19277821 ACATTTTTATTATTGTT
1 --A-TTTTATT-TT-TT
19277838 A--TTATTTTTT
1 ATTTTATTTTTT
*
19277848 A-TATATATTTTT
1 ATTTTAT-TTTTT
*
19277860 CTTTTA-TTTTT
1 ATTTTATTTTTT
* *
19277871 ATCTTATGTATTT
1 ATTTTAT-TTTTT
19277884 ATTATTTATTTATTT
1 A-T-TTTATTT-TTT
19277899 ATT
1 ATT
19277902 ACTACTATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
10 3 0.04
11 14 0.17
12 20 0.24
13 11 0.13
14 12 0.14
15 11 0.13
16 10 0.12
17 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:19277858 original size:31 final size:30
Alignment explanation
Indices: 19277795--19277859 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
19277785 TTCTTTTTTA
* *
19277795 TTTTATTTTTGTATTTTTATTTATTTACAT
1 TTTTATTATTGTATTTTTATTTATATACAT
*
19277825 TTTTATTATTGTTATTATTT-TTTATATATAT
1 TTTTATTATTG-TATT-TTTATTTATATACAT
19277856 TTTT
1 TTTT
19277860 CTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 10 0.33
31 17 0.57
32 3 0.10
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.74
Consensus pattern (30 bp):
TTTTATTATTGTATTTTTATTTATATACAT
Found at i:19277864 original size:19 final size:18
Alignment explanation
Indices: 19277783--19277864 Score: 62
Period size: 19 Copynumber: 4.5 Consensus size: 18
19277773 GGTAAGCCCA
*
19277783 TTTTCTTTTTTATTTTAT
1 TTTTCTTTTTTATTATAT
*
19277801 TTTTGTATTTTTATT-TA-
1 TTTTCT-TTTTTATTATAT
* *
19277818 TTTACATTTTTATTAT-T
1 TTTTCTTTTTTATTATAT
*
19277835 GTTATTATTTTTTATATATAT
1 -TT-TTCTTTTTTAT-TATAT
19277856 TTTTCTTTT
1 TTTTCTTTT
19277865 ATTTTTATCT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
16 8 0.16
17 4 0.08
18 9 0.18
19 22 0.45
20 5 0.10
21 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTTTATTATAT
Found at i:19277892 original size:15 final size:16
Alignment explanation
Indices: 19277864--19277902 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
19277854 ATTTTTCTTT
19277864 TATTT-TTATCTTATG
1 TATTTATTATCTTATG
*
19277879 TATTTATTAT-TTATT
1 TATTTATTATCTTATG
19277894 TATTTATTA
1 TATTTATTA
19277903 CTACTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTATTATCTTATG
Found at i:19277973 original size:22 final size:21
Alignment explanation
Indices: 19277948--19277992 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
19277938 TTTTTTGTTA
19277948 ATAT-TTATATATTTATCTGATT
1 ATATGTTATA-ATTTATCT-ATT
19277970 ATATGTTATAATTTATCTATT
1 ATATGTTATAATTTATCTATT
19277991 AT
1 AT
19277993 TTAATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
ATATGTTATAATTTATCTATT
Found at i:19278948 original size:6 final size:6
Alignment explanation
Indices: 19278937--19279032 Score: 60
Period size: 6 Copynumber: 16.5 Consensus size: 6
19278927 TTTAATATTC
* * * *
19278937 TTTTAT TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTAC TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
19278983 TTAT-T TTTTATT TTTTAT TTTCA- CTTTAT TTTGT-T TTATTA- TTTTAT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTTTAT
19279030 TTT
1 TTT
19279033 CTTTAAATAA
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 18 0.26
6 43 0.62
7 8 0.12
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:19278957 original size:17 final size:17
Alignment explanation
Indices: 19278937--19278989 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
19278927 TTTAATATTC
19278937 TTTTATTTTTATCTTTA
1 TTTTATTTTTATCTTTA
* *
19278954 TTTTATTTTTATTTTTG
1 TTTTATTTTTATCTTTA
*
19278971 TTTTA-CTTT-TCTTTA
1 TTTTATTTTTATCTTTA
19278986 TTTT
1 TTTT
19278990 TTATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 8 0.26
16 3 0.10
17 20 0.65
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTATTTTTATCTTTA
Found at i:19278968 original size:28 final size:27
Alignment explanation
Indices: 19278937--19279032 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 27
19278927 TTTAATATTC
19278937 TTTTATTTTTATCTTTATTTTATTTTTA
1 TTTTATTTTTA-CTTTATTTTATTTTTA
19278965 TTTT-TGTTTTACTTT-TCTTTATTTTTTA
1 TTTTAT-TTTTACTTTAT-TTTA-TTTTTA
* *
19278993 TTTTTTATTTTCACTTTATTTTGTTTTATTA
1 --TTTTATTTTTACTTTATTTT-ATTT-TTA
19279024 TTTTATTTT
1 TTTTATTTT
19279033 CTTTAAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
26 1 0.02
27 9 0.16
28 15 0.26
29 9 0.16
30 18 0.32
31 5 0.09
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTTATTTTTACTTTATTTTATTTTTA
Found at i:19278991 original size:11 final size:10
Alignment explanation
Indices: 19278937--19278991 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
19278927 TTTAATATTC
19278937 TTTTATTTTT
1 TTTTATTTTT
19278947 ATCTTTATTTTAT
1 -T-TTTATTTT-T
19278960 TTTTATTTTT
1 TTTTATTTTT
*
19278970 GTTTTACTTTT
1 -TTTTATTTTT
*
19278981 CTTTATTTTT
1 TTTTATTTTT
19278991 T
1 T
19278992 ATTTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.24
11 18 0.49
12 9 0.24
13 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:19278997 original size:17 final size:18
Alignment explanation
Indices: 19278932--19279037 Score: 64
Period size: 17 Copynumber: 6.1 Consensus size: 18
19278922 GTTTATTTAA
* *
19278932 TATTCTTTTATTTTTATC
1 TATTCTTTTATTTTTCTT
* *
19278950 T-TTATTTTATTTTTATT
1 TATTCTTTTATTTTTCTT
* *
19278967 T-TTGTTTTACTTTTCTT
1 TATTCTTTTATTTTTCTT
19278984 TATT-TTTTATTTTT-TAT
1 TATTCTTTTATTTTTCT-T
*
19279001 T-TTCACTTTATTTTGT-TT
1 TATTC-TTTTATTTT-TCTT
*
19279019 TATTATTTTA-TTTTCTT
1 TATTCTTTTATTTTTCTT
19279036 TA
1 TA
19279038 AATAAAATCC
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.06
17 47 0.65
18 17 0.24
19 4 0.06
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TATTCTTTTATTTTTCTT
Found at i:19278998 original size:52 final size:52
Alignment explanation
Indices: 19278932--19279037 Score: 130
Period size: 52 Copynumber: 2.0 Consensus size: 52
19278922 GTTTATTTAA
* *
19278932 TATTCTTTTATTTTTATCTTT-ATTTTATTTT-TATTT-TTGTTTTACTTTTCTT
1 TATTCTTTTATTTTTAT-TTTCACTTTATTTTGT-TTTATTATTTTA-TTTTCTT
19278984 TATT-TTTTATTTTTTATTTTCACTTTATTTTGTTTTATTATTTTATTTTCTT
1 TATTCTTTTA-TTTTTATTTTCACTTTATTTTGTTTTATTATTTTATTTTCTT
19279036 TA
1 TA
19279038 AATAAAATCC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
51 8 0.17
52 32 0.67
53 8 0.17
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (52 bp):
TATTCTTTTATTTTTATTTTCACTTTATTTTGTTTTATTATTTTATTTTCTT
Found at i:19279171 original size:60 final size:60
Alignment explanation
Indices: 19279048--19279458 Score: 399
Period size: 59 Copynumber: 6.7 Consensus size: 60
19279038 AATAAAATCC
* * * *
19279048 AAAAAAAATATTTTTTGA-AAAAAGTTGAAAGTATCAATTTTCCTTGAA-AACAAGCTTTCCA
1 AAAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAA-ATTTTCA
*
19279109 AAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCA
1 AAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
** *
19279169 AAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAA-AAATTTTC-
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
** * *
19279227 AAAAAAGGTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT-A
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
* * * * * *
19279286 AAAAAAAGGTTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAA-ATTAAAGTGTC
1 AAAAAAA-----ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAATTTTC
19279350 -
60 A
* * *
19279350 CAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAA
1 AAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC--A
* *
19279412 AAAAAAAGAGGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAA-A---TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
19279459 CTTGTACAAA
Statistics
Matches: 299, Mismatches: 28, Indels: 41
0.81 0.08 0.11
Matches are distributed among these distances:
58 52 0.17
59 63 0.21
60 54 0.18
61 42 0.14
62 6 0.02
63 1 0.00
64 48 0.16
65 2 0.01
66 29 0.10
67 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCA
Found at i:19279219 original size:29 final size:29
Alignment explanation
Indices: 19279187--19279276 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
19279177 TTTTTTTGAG
19279187 GAAAAGTTGAAAGTATCAATTTTCCTTAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAA
* * *
19279216 GAAAAATTTTCAAA--A--AAGGTTTT-TTTAA
1 G-AAAA-GTTGAAAGTATCAA--TTTTCCTTAA
19279244 GGAAAAGTTGAAAGTATCAATTTTCCTTAA
1 -GAAAAGTTGAAAGTATCAATTTTCCTTAA
19279274 GAA
1 GAA
19279277 TAAATTTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 20
0.63 0.08 0.28
Matches are distributed among these distances:
27 7 0.16
28 8 0.18
29 15 0.33
30 8 0.18
31 7 0.16
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (29 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:19279223 original size:59 final size:60
Alignment explanation
Indices: 19279047--19279458 Score: 428
Period size: 60 Copynumber: 6.8 Consensus size: 60
19279037 AAATAAAATC
* * * * * *
19279047 CAAAAAAAATATTTTTTGA-AAAAAGTTGAAAGTATCAATTTTCCTTGAA-AACAAGCTTTC
1 CAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAA-ATTTT
** * *
19279107 CAAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTT
1 CAAAAAAAGTTTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
19279167 CAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAA-AAATTTT
1 CAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
* *
19279226 C-AAAAAAGGTTTTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 CAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
* * * *
19279285 AAAAAAAAGGTTTTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAA-ATTAAAGTGT
1 CAAAAAAA-G---TTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAATAAA-TTT
*
19279349 C
60 T
* * *
19279350 CAAAAAAA--TATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT
1 CAAAAAAAGTTTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
*
19279408 CAAAAAAAAAAGAGGTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
1 C----AAAAAA-A-GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
19279459 CTTGTACAAA
Statistics
Matches: 300, Mismatches: 29, Indels: 40
0.81 0.08 0.11
Matches are distributed among these distances:
58 55 0.18
59 54 0.18
60 69 0.23
61 33 0.11
62 6 0.02
63 1 0.00
64 40 0.13
65 11 0.04
66 29 0.10
67 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.37
Consensus pattern (60 bp):
CAAAAAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTT
Found at i:19279267 original size:28 final size:28
Alignment explanation
Indices: 19279178--19279267 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
19279168 AAAAAAAGTT
*
19279178 TTTTTTGAGGAAAAGTTGAAAGTATCAA
1 TTTTTTAAGGAAAAGTTGAAAGTATCAA
* * * * ****
19279206 TTTTCCTTAAGAAAAATTTTCAAA-AAAGGT
1 TTTT--TTAAGGAAAA-GTTGAAAGTATCAA
19279236 TTTTTTAAGGAAAAGTTGAAAGTATCAA
1 TTTTTTAAGGAAAAGTTGAAAGTATCAA
19279264 TTTT
1 TTTT
19279268 CCTTAAGAAT
Statistics
Matches: 41, Mismatches: 17, Indels: 8
0.62 0.26 0.12
Matches are distributed among these distances:
27 5 0.12
28 18 0.44
30 13 0.32
31 5 0.12
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.39
Consensus pattern (28 bp):
TTTTTTAAGGAAAAGTTGAAAGTATCAA
Found at i:19281156 original size:8 final size:8
Alignment explanation
Indices: 19281143--19281167 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19281133 CAAAAATAAT
19281143 TATAAATA
1 TATAAATA
19281151 TATAAATA
1 TATAAATA
19281159 TATAAATA
1 TATAAATA
19281167 T
1 T
19281168 GCAATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TATAAATA
Found at i:19281569 original size:23 final size:25
Alignment explanation
Indices: 19281534--19281579 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
19281524 GATGAGATAA
*
19281534 AAAAATTATAAAATAT-AATATATT
1 AAAAATTAAAAAATATAAATATATT
19281558 AAAAA-TAAAAAATATAAATATA
1 AAAAATTAAAAAATATAAATATA
19281580 AAGATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAATTAAAAAATATAAATATATT
Found at i:19285771 original size:16 final size:16
Alignment explanation
Indices: 19285724--19285777 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19285714 TATTGATGAG
19285724 ATAAAAAAAT-TATAAA
1 ATAAAAAAATATA-AAA
* *
19285740 ATATAATAATATTAAAA
1 ATAAAAAAATA-TAAAA
*
19285757 ATAAAAAAATATAAAT
1 ATAAAAAAATATAAAA
19285773 ATAAA
1 ATAAA
19285778 GATGTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 17 0.55
17 12 0.39
18 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAAATATAAAA
Found at i:19288923 original size:13 final size:13
Alignment explanation
Indices: 19288905--19288930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19288895 ACAAGCTCTG
19288905 AAAATTTGAAAAA
1 AAAATTTGAAAAA
19288918 AAAATTTGAAAAA
1 AAAATTTGAAAAA
19288931 CTCAAAGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATTTGAAAAA
Found at i:19288995 original size:12 final size:12
Alignment explanation
Indices: 19288978--19289002 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19288968 TTTGGTCACA
19288978 AAAAAAAATAAT
1 AAAAAAAATAAT
19288990 AAAAAAAATAAT
1 AAAAAAAATAAT
19289002 A
1 A
19289003 TTATTAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAATAAT
Found at i:19301329 original size:47 final size:47
Alignment explanation
Indices: 19301249--19301430 Score: 195
Period size: 47 Copynumber: 3.8 Consensus size: 47
19301239 CATATGAAAT
* *
19301249 TTTTAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGGA
1 TTTTAAAATTGTTGAGCCTCTACTGAAATGAGCTTTTTCAAGATGGA
* * *
19301296 TTTTAAAGTTGTT-AGGCCTCTACTGAGATGAGCTTTTTCAAGATAAGA
1 TTTTAAAATTGTTGA-GCCTCTACTGAAATGAGCTTTTTCAAGAT-GGA
* * * * * *
19301344 TTTTAAAAATTGTTAAGCCTCTACTGAGAGGAGCTTTTTTAAAATGAA
1 TTTT-AAAATTGTTGAGCCTCTACTGAAATGAGCTTTTTCAAGATGGA
* * *
19301392 TTTTAAAGTTGTTGAGCCTCAAGTGAAATGAGCATTTTT
1 TTTTAAAATTGTTGAGCCTCTACTGAAATGAGC-TTTTT
19301431 GATTTGACGA
Statistics
Matches: 113, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
46 1 0.01
47 61 0.54
48 16 0.14
49 34 0.30
50 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (47 bp):
TTTTAAAATTGTTGAGCCTCTACTGAAATGAGCTTTTTCAAGATGGA
Found at i:19301378 original size:96 final size:97
Alignment explanation
Indices: 19301247--19301430 Score: 246
Period size: 96 Copynumber: 1.9 Consensus size: 97
19301237 AACATATGAA
* * * * *
19301247 ATTTTTAAAATTGTTGAGCCTCTGCTGAAAAGAGCTTTTTCAAGATGGATTTTAAAGTTGTT-AG
1 ATTTTAAAAATTGTTAAGCCTCTACTGAAAAGAGCTTTTTCAAAATGAATTTTAAAGTTGTTGA-
* *
19301311 GCCTCTACTGAGATGAGC-TTTTTCAAGATAAG
65 GCCTCAACTGAAATGAGCATTTTTCAAGATAAG
* * *
19301343 ATTTTAAAAATTGTTAAGCCTCTACTGAGAGGAGCTTTTTTAAAATGAATTTTAAAGTTGTTGAG
1 ATTTTAAAAATTGTTAAGCCTCTACTGAAAAGAGCTTTTTCAAAATGAATTTTAAAGTTGTTGAG
*
19301408 CCTCAAGTGAAATGAGCATTTTT
66 CCTCAACTGAAATGAGCATTTTT
19301431 GATTTGACGA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
96 69 0.92
97 6 0.08
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (97 bp):
ATTTTAAAAATTGTTAAGCCTCTACTGAAAAGAGCTTTTTCAAAATGAATTTTAAAGTTGTTGAG
CCTCAACTGAAATGAGCATTTTTCAAGATAAG
Found at i:19301681 original size:17 final size:17
Alignment explanation
Indices: 19301642--19301684 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19301632 ATTATTAAAT
* *
19301642 ACAATAAAAAAAATTAA
1 ACAAAAAAAAAAAATAA
*
19301659 ACAAAAAAAAAAAATAT
1 ACAAAAAAAAAAAATAA
*
19301676 ATAAAAAAA
1 ACAAAAAAA
19301685 TATAACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (17 bp):
ACAAAAAAAAAAAATAA
Found at i:19303656 original size:32 final size:32
Alignment explanation
Indices: 19303584--19303657 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
19303574 AGTTAATTAG
* *
19303584 ACCCTTAAAGCATTCAAGAACAAATTTACCTA
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
* * *
19303616 ACCCTTGAAGAATTCAAGAACAAGTTTGCCTG
1 ACCCTTGAAGAATTCAAGAACAAATTTACCTA
*
19303648 ACCTTTGAAG
1 ACCCTTGAAG
19303658 CAGATTTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (32 bp):
ACCCTTGAAGAATTCAAGAACAAATTTACCTA
Found at i:19305349 original size:16 final size:16
Alignment explanation
Indices: 19305307--19305359 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
19305297 TATTGATGAG
19305307 ATAAAAAA-ATTATAAA
1 ATAAAAAATATTA-AAA
*
19305323 ATATAATAATATTAAAA
1 ATA-AAAAATATTAAAA
*
19305340 ATAAAAAATA-TAAAT
1 ATAAAAAATATTAAAA
19305355 ATAAA
1 ATAAA
19305360 GATGTAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 9 0.28
16 9 0.28
17 10 0.31
18 4 0.12
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATTAAAA
Found at i:19308038 original size:20 final size:20
Alignment explanation
Indices: 19307997--19308038 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
19307987 TTTATTTACA
*
19307997 TTTTTATTATTGTTATTGTT
1 TTTTTATTATTGTTATTCTT
*
19308017 TTTTTATATATT-TTTTTCTT
1 TTTTTAT-TATTGTTATTCTT
19308037 TT
1 TT
19308039 ATTTTTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTATTATTGTTATTCTT
Found at i:19308051 original size:28 final size:26
Alignment explanation
Indices: 19307968--19308068 Score: 78
Period size: 28 Copynumber: 3.6 Consensus size: 26
19307958 GGGTAAGCCC
* *
19307968 ATTTTTTTTTGTATTTTTATTTATTTAC
1 ATTTTTTTTTTTATTTTTATTTA--TAT
*
19307996 ATTTTTATTATTGTTATTGTTTTTTTATAT
1 ATTTTT-TT-TT-TTATT-TTTATTTATAT
*
19308026 ATTTTTTTCTTTTATTTTTATCTTATGT
1 ATTTTTTT-TTTTATTTTTAT-TTATAT
*
19308054 A-TTTATTTTTTATTT
1 ATTTTTTTTTTTATTT
19308069 ATTTATTACT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
26 8 0.13
27 9 0.15
28 17 0.28
29 6 0.10
30 10 0.16
31 4 0.07
32 7 0.11
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.75
Consensus pattern (26 bp):
ATTTTTTTTTTTATTTTTATTTATAT
Found at i:19308073 original size:15 final size:15
Alignment explanation
Indices: 19307981--19308075 Score: 61
Period size: 15 Copynumber: 6.1 Consensus size: 15
19307971 TTTTTTTGTA
*
19307981 TTTTTATTTATTTACA
1 TTTTTATTTATTTA-T
19307997 TTTTTA-TTATTGTTAT
1 TTTTTATTTA-T-TTAT
*
19308013 TGTTTT-TTTATATATT
1 T-TTTTATTTATTTA-T
*
19308029 TTTTTCTTTTATTT-T
1 TTTTT-ATTTATTTAT
* *
19308044 TATCTTATGTATTTAT
1 T-TTTTATTTATTTAT
19308060 TTTTTATTTATTTAT
1 TTTTTATTTATTTAT
19308075 T
1 T
19308076 ACTACTATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
15 30 0.48
16 16 0.26
17 16 0.26
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTTATTTATTTAT
Found at i:19308161 original size:22 final size:23
Alignment explanation
Indices: 19308129--19308186 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
19308119 TTAATATTTA
*
19308129 TATATATTTATCTGATTATAT-GT
1 TATA-ATTTATCTGATTATATAAT
*
19308152 TATAATTTATCT-ATTATTTAAT
1 TATAATTTATCTGATTATATAAT
*
19308174 TTTAATTTATCTG
1 TATAATTTATCTG
19308187 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (23 bp):
TATAATTTATCTGATTATATAAT
Found at i:19309076 original size:9 final size:9
Alignment explanation
Indices: 19309058--19309211 Score: 59
Period size: 9 Copynumber: 16.4 Consensus size: 9
19309048 AGCTGTACCA
19309058 ATTT-TTTT
1 ATTTATTTT
*
19309066 ATATATTTT
1 ATTTATTTT
19309075 ATTTATTTT
1 ATTTATTTT
19309084 ATTTATTATT
1 ATTTATT-TT
**
19309094 A-TTAGATT
1 ATTTATTTT
* *
19309102 AGGTTCATTTA
1 A--TTTATTTT
19309113 ATATTATTTT
1 AT-TTATTTT
*
19309123 ATTT-TTAT
1 ATTTATTTT
19309131 ATTT-TTTAT
1 ATTTATTT-T
19309140 ATTTATTTTT
1 ATTTA-TTTT
*
19309150 GTTTTACTTTT
1 -ATTTA-TTTT
*
19309161 CTTTATTTT
1 ATTTATTTT
*
19309170 -TTATTTTTT
1 ATT-TATTTT
*
19309179 ATTTTCACTTT
1 A-TTT-ATTTT
*
19309190 ATTTTGTTTT
1 A-TTTATTTT
19309200 A-TTATTTT
1 ATTTATTTT
19309208 ATTT
1 ATTT
19309212 TCTTTAAATA
Statistics
Matches: 110, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
8 24 0.22
9 41 0.37
10 20 0.18
11 25 0.23
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (9 bp):
ATTTATTTT
Found at i:19309144 original size:32 final size:34
Alignment explanation
Indices: 19309108--19309173 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
19309098 GATTAGGTTC
19309108 ATTTAATATTATTTTA-TTTT-TATATTTTTTAT
1 ATTTAATATTATTTTACTTTTCTATATTTTTTAT
* * * *
19309140 ATTTATTTTTGTTTTACTTTTCTTTATTTTTTAT
1 ATTTAATATTATTTTACTTTTCTATATTTTTTAT
19309174 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 13 0.46
33 4 0.14
34 11 0.39
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (34 bp):
ATTTAATATTATTTTACTTTTCTATATTTTTTAT
Found at i:19309174 original size:7 final size:7
Alignment explanation
Indices: 19309114--19309183 Score: 59
Period size: 7 Copynumber: 8.9 Consensus size: 7
19309104 GTTCATTTAA
19309114 TATTATTT
1 TATT-TTT
19309122 TATTTTT
1 TATTTTT
19309129 ATATTTTT
1 -TATTTTT
19309137 TATATTTAT
1 TAT-TTT-T
*
19309146 TTTTGTTT
1 TATT-TTT
19309154 TACTTTTCTT
1 TA--TTT-TT
19309164 TATTTTT
1 TATTTTT
19309171 TATTTTT
1 TATTTTT
19309178 TATTTT
1 TATTTT
19309184 CACTTTATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
7 21 0.40
8 20 0.38
9 6 0.11
10 6 0.11
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:19309208 original size:18 final size:17
Alignment explanation
Indices: 19309114--19309217 Score: 74
Period size: 17 Copynumber: 6.1 Consensus size: 17
19309104 GTTCATTTAA
*
19309114 TATTATTTTA-TTTTTA
1 TATTATTTTATTTTTTT
*
19309130 TATT-TTTTATATTTATT
1 TATTATTTTAT-TTTTTT
* *
19309147 T-TTGTTTTACTTTTCTT
1 TATTATTTTA-TTTTTTT
19309164 TATT-TTTTATTTTTTAT
1 TATTATTTTATTTTTT-T
*
19309181 T-TTCACTTTATTTTGTTT
1 TATT-ATTTTATTTT-TTT
*
19309199 TATTATTTTATTTTCTT
1 TATTATTTTATTTTTTT
19309216 TA
1 TA
19309218 AATAAAATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
15 5 0.07
16 13 0.18
17 27 0.38
18 22 0.31
19 4 0.06
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTATTTTATTTTTTT
Found at i:19309440 original size:59 final size:60
Alignment explanation
Indices: 19309228--19309630 Score: 448
Period size: 59 Copynumber: 6.7 Consensus size: 60
19309218 AATAAAATCC
* ** *
19309228 AAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTTTCAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAA-ATTTTC-A
** *
19309289 AAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAATTCC
1 AAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTCA
* *
19309349 AAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCT-TAAGAATAAATTTTC-
1 AAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAA-ATTAAATTTTCA
** * * **
19309408 AAAAAAGGTTTTTTTGAGGAAAGGTTGAAAGTATCAATTTTCCTCGAAATTAAAAATTC-
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTCA
* *
19309467 TAAAAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTTCA
1 AAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAA-TTTTCA
* * *
19309528 AAAAAATAT-TTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTC-AACACTAAAGTTTCCAA
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAA-ATTAAA-TTTTC-A
**
19309588 AAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
19309631 CTTGTACAAA
Statistics
Matches: 294, Mismatches: 35, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.01
59 127 0.43
60 75 0.26
61 33 0.11
62 55 0.19
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (60 bp):
AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAATTTTCA
Found at i:19309505 original size:118 final size:116
Alignment explanation
Indices: 19309221--19309630 Score: 506
Period size: 118 Copynumber: 3.4 Consensus size: 116
19309211 TTCTTTAAAT
** * *
19309221 AAAA-TCCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAACAAGTTTT
1 AAAATTCCAAAAAAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAA-ATTT
*
19309285 TCAAAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
64 TC---AAAAAAATTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
*
19309341 AAAATTCCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTT
1 AAAATTCCAAAAAAAATATTTTT-GAAAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAATTT
* *
19309406 TCAAAAAAGGTTTTTTTGAGGAAAGGTTGAAAGTATCAATTTTCCTCGAAATTA
64 TCAAAAAA-ATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
* * *
19309460 AAAATT-CTAAAAAAATATTTTTAGAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTT
1 AAAATTCCAAAAAAAATATTTTT-GAAAAAAGTTGAAAGTATCAATTTTCCT-TAAAATAAA-TT
*
19309524 TTCAAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTC-AACACTA
63 TTCAAAAAAAT-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAA-ATTA
**
19309578 AAGTTTCCAAAAAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCC
1 AAAATTCC--AAAAAAAATATTTTTG-AAAAAAGTTGAAAGTATCAATTTTCC
19309631 CTTGTACAAA
Statistics
Matches: 261, Mismatches: 16, Indels: 25
0.86 0.05 0.08
Matches are distributed among these distances:
117 2 0.01
118 89 0.34
119 65 0.25
120 8 0.03
121 65 0.25
122 32 0.12
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (116 bp):
AAAATTCCAAAAAAAATATTTTTGAAAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTTC
AAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTA
Found at i:19318317 original size:21 final size:20
Alignment explanation
Indices: 19318280--19318318 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19318270 AAGGATAATT
*
19318280 TTATAATATAATGAATAAGA
1 TTATAATATAATAAATAAGA
*
19318300 TTATATATATCATAAATAA
1 TTATA-ATATAATAAATAA
19318319 TGTGGAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATAATATAATAAATAAGA
Found at i:19319942 original size:20 final size:20
Alignment explanation
Indices: 19319917--19319954 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19319907 ACCCATGACT
19319917 CGACCCGAGGTCCGTGCACC
1 CGACCCGAGGTCCGTGCACC
* *
19319937 CGACCCGATGTTCGTGCA
1 CGACCCGAGGTCCGTGCA
19319955 TTTGACCCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.39, G:0.29, T:0.16
Consensus pattern (20 bp):
CGACCCGAGGTCCGTGCACC
Found at i:19333904 original size:60 final size:59
Alignment explanation
Indices: 19333831--19334120 Score: 262
Period size: 59 Copynumber: 4.7 Consensus size: 59
19333821 CTTTTGTACA
* *
19333831 AGGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTTTGAAAACTTTAGTTTCG
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTTGAAAACTTTAATTTCG
*
19333891 AGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAACTTTAATTTCG
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTCG
* * * * ** *
19333950 AGAAAAATTGATACTTTCAACTTTTCCTCATAAAAAAAAAAAAAACCTTTTTTTGAAAATTT-AT
1 AGGAAAATTGATACTTTCAACTTTTCC-C--------CAAAAATA-TTTTTTTGAAAACTTTAAT
**
19334014 TCTTA
56 T-TCG
* * * **
19334019 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAA-TTT-ATTCTTA
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAACTTTAATT-TCG
* *
19334078 AGGAAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTT
1 AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
19334121 TTGGATTTTA
Statistics
Matches: 196, Mismatches: 23, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
58 6 0.03
59 91 0.46
60 51 0.26
68 9 0.05
69 39 0.20
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (59 bp):
AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTAATTTCG
Found at i:19334023 original size:128 final size:129
Alignment explanation
Indices: 19333868--19334102 Score: 336
Period size: 128 Copynumber: 1.8 Consensus size: 129
19333858 CCAAAATATT
* * *
19333868 TTTTTTTGAAAACTTTAGTTTCGAGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTT
1 TTTTTTTGAAAACTTTAGTTTCAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAAAACCTTT
*
19333931 TTTGAAAACTTTAATT-TCGAGAAAAATTGATACTTTCAACTTTTCCTCATAAAAAAAAAAAAAA
65 TTTGAAAA-TTT-ATTCTCAAGAAAAATTGATACTTTCAACTTTTCCTCATAAAAAAAAAAAAAA
19333995 CC
128 CC
*
19333997 TTTTTTTGAAAA-TTTA-TTCTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTT
1 TTTTTTTGAAAACTTTAGTT-TCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTT
* *
19334060 TTTGAAAATTTATTCTTAAGGAAAATTGATACTTTCAACTTTT
65 TTTGAAAATTTATTCTCAAGAAAAATTGATACTTTCAACTTTT
19334103 TCCAAAAAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
127 11 0.12
128 61 0.64
129 23 0.24
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (129 bp):
TTTTTTTGAAAACTTTAGTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTT
TTGAAAATTTATTCTCAAGAAAAATTGATACTTTCAACTTTTCCTCATAAAAAAAAAAAAAACC
Found at i:19334171 original size:24 final size:25
Alignment explanation
Indices: 19334137--19334189 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 25
19334127 TTTATTTAAA
19334137 GAAAATAAAATAATAAAACAAAATAAAGT
1 GAAAATAAAA-AAT--AA-AAAATAAAGT
19334166 GAAAATAAAAAATAAAAAATAAAG
1 GAAAATAAAAAATAAAAAATAAAG
19334190 AAAAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.38
26 2 0.08
28 3 0.12
29 10 0.42
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (25 bp):
GAAAATAAAAAATAAAAAATAAAGT
Found at i:19334182 original size:6 final size:6
Alignment explanation
Indices: 19334138--19334233 Score: 60
Period size: 6 Copynumber: 16.5 Consensus size: 6
19334128 TTATTTAAAG
* *
19334138 AAAAT- AAAATA ATAAA-A CAAAAT- AAAGTG AAAATAA AAAATA AAAA-A
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAAT-A AAAATA AAAATA
* * * * *
19334185 TAAAGA AAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
19334231 AAA
1 AAA
19334234 GAATATTAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
5 21 0.30
6 40 0.57
7 9 0.13
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:19334190 original size:52 final size:52
Alignment explanation
Indices: 19334133--19334238 Score: 130
Period size: 52 Copynumber: 2.0 Consensus size: 52
19334123 GGATTTTATT
* *
19334133 TAAAGAAAA-TAAAATAATAAA-ACAAAATAAAGTGAAA-ATAAAAAATAAAA-AA
1 TAAAGAAAAGTAAAACAA-AAATA-AAAATAAAAT-AAAGAT-AAAAATAAAAGAA
19334185 TAAAGAAAAGTAAAACAAAAATAAAAATAAAATAAAGATAAAAATAAAAGAA
1 TAAAGAAAAGTAAAACAAAAATAAAAATAAAATAAAGATAAAAATAAAAGAA
19334237 TA
1 TA
19334239 TTAAATAAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
51 13 0.27
52 27 0.56
53 8 0.17
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (52 bp):
TAAAGAAAAGTAAAACAAAAATAAAAATAAAATAAAGATAAAAATAAAAGAA
Found at i:19334193 original size:11 final size:10
Alignment explanation
Indices: 19334179--19334233 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
19334169 AATAAAAAAT
19334179 AAAAAATAAA
1 AAAAAATAAA
* *
19334189 GAAAAGTAAA
1 AAAAAATAAA
19334199 ACAAAAATAAA
1 A-AAAAATAAA
19334210 AATAAAATAAA
1 AA-AAAATAAA
19334221 GATAAAAATAAA
1 -A-AAAAATAAA
19334233 A
1 A
19334234 GAATATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
10 9 0.24
11 18 0.49
12 9 0.24
13 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.13
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:19334193 original size:17 final size:18
Alignment explanation
Indices: 19334173--19334238 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 18
19334163 AGTGAAAATA
19334173 AAAAATAAAA-AATAAAG
1 AAAAATAAAACAATAAAG
* *
19334190 AAAAGTAAAACAA-AAAT
1 AAAAATAAAACAATAAAG
* * *
19334207 AAAAATAAAATAA-AGAT
1 AAAAATAAAACAATAAAG
*
19334224 AAAAATAAAAGAATA
1 AAAAATAAAACAATA
19334239 TTAAATAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
17 38 0.93
18 3 0.07
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.14
Consensus pattern (18 bp):
AAAAATAAAACAATAAAG
Found at i:19334233 original size:28 final size:29
Alignment explanation
Indices: 19334141--19334233 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 29
19334131 TTTAAAGAAA
* *
19334141 ATAAAATAATAAAACAAAATAAAGTGAAAAT
1 ATAAAATAA-AAAATAAAATAAAGT-AAAAC
*
19334172 AAAAAATAAAAAATAAAGA-AAAGTAAAAC
1 ATAAAATAAAAAATAAA-ATAAAGTAAAAC
19334201 A-AAAAT-AAAAATAAAATAAAGATAAAA-
1 ATAAAATAAAAAATAAAATAAAG-TAAAAC
19334228 ATAAAA
1 ATAAAA
19334234 GAATATTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
26 1 0.02
27 14 0.25
28 14 0.25
29 5 0.09
30 12 0.22
31 9 0.16
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.15
Consensus pattern (29 bp):
ATAAAATAAAAAATAAAATAAAGTAAAAC
Found at i:19335636 original size:11 final size:11
Alignment explanation
Indices: 19335622--19335667 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
19335612 TTTCATTCAC
*
19335622 TTTTCTTTTTT
1 TTTTCATTTTT
19335633 TTTTCA--TTT
1 TTTTCATTTTT
19335642 TTTT-ATTTTT
1 TTTTCATTTTT
19335652 TTTTCATTTTT
1 TTTTCATTTTT
19335663 TTTTC
1 TTTTC
19335668 TTCAAGCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
8 1 0.03
9 7 0.23
10 7 0.23
11 16 0.52
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:19335642 original size:10 final size:10
Alignment explanation
Indices: 19335629--19335665 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
19335619 CACTTTTCTT
19335629 TTTTTTTTCA
1 TTTTTTTTCA
19335639 -TTTTTTT-A
1 TTTTTTTTCA
19335647 TTTTTTTTTCA
1 -TTTTTTTTCA
19335658 TTTTTTTT
1 TTTTTTTT
19335666 TCTTCAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
8 1 0.04
9 7 0.29
10 15 0.62
11 1 0.04
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:19335644 original size:19 final size:19
Alignment explanation
Indices: 19335628--19335664 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
19335618 TCACTTTTCT
19335628 TTTTTTTTTCATTTTTTTA
1 TTTTTTTTTCATTTTTTTA
19335647 TTTTTTTTTCATTTTTTT
1 TTTTTTTTTCATTTTTTT
19335665 TTCTTCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTCATTTTTTTA
Found at i:19335644 original size:30 final size:30
Alignment explanation
Indices: 19335610--19335667 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
19335600 TGAGTCCTCC
*
19335610 TTTTTCATTCACTTTTCTTTTTTTTTTCAT
1 TTTTTCATTCACTTTTCATTTTTTTTTCAT
* ***
19335640 TTTTTTATTTTTTTTTCATTTTTTTTTC
1 TTTTTCATTCACTTTTCATTTTTTTTTC
19335668 TTCAAGCATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTTCATTCACTTTTCATTTTTTTTTCAT
Found at i:19346280 original size:121 final size:118
Alignment explanation
Indices: 19346095--19346503 Score: 506
Period size: 121 Copynumber: 3.4 Consensus size: 118
19346085 TTTGTACAAG
* * ** * *
19346095 GGAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTTTGGAAACTTTAGTGTTGAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTTGGAATTTTTAATTTTGAGAAAA
19346160 ATTGATACTTTCAACTTTTCCTCAAAAAAAATATTTTTTTGAAAATTTATTCTTAA
65 ATTGATACTTTCAACTTTTCCTC--AAAAAATATTTTTTTGAAAATTTATTCTTAA
* * * *
19346216 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTAGAATTTTTAATTTTGAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTTTAATTTTGAGAAAAA
* **
19346281 TTGATACTTTCAACCTTTCCTCAGAAAAA-CCTTTTTTGAAAATTTATTCTTAA
66 TTGATACTTTCAACTTTTCCTCA-AAAAATATTTTTTTGAAAATTTATTCTTAA
*
19346334 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAATTTTTAATTTTGAGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA---TTTTTTTGGAATTTTTAATTTTGAGAA
** * * *
19346399 AAATTGATACTTTCAACTTTTTCCT--AAATTTTTTTTTTTGAAAAACTTGTT-TTCAA
63 AAATTGATACTTTCAAC-TTTTCCTCAAAAAATATTTTTTTG-AAAATTTATTCTT-AA
19346455 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAATATTTTTTTTGG-ATTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAATTTT
19346504 ATTTAAAGAA
Statistics
Matches: 258, Mismatches: 22, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
117 5 0.02
118 67 0.26
119 8 0.03
120 69 0.27
121 103 0.40
122 6 0.02
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAATTTTTAATTTTGAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAAATTTATTCTTAA
Found at i:19346281 original size:59 final size:57
Alignment explanation
Indices: 19346095--19346516 Score: 370
Period size: 59 Copynumber: 7.1 Consensus size: 57
19346085 TTTGTACAAG
* * * * *
19346095 GGAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTTTGGAAACTTTAGTGTTGA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAA-ATATTTTTTT-GAAATTTTA-TTTTAA
* *
19346155 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAAAAATATTTTTTTGAAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCT----AAAAATATTTTTTTGAAATTTTATT-TTAA
* *
19346216 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTAGAATTTTTAATTTTGA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTT-GAAATTTT-ATTTTAA
* * *
19346275 GGAAAATTGATACTTTCAAC-CTTTCCTCAGAAAA-ACCTTTTTTGAAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCT-A-AAAATA-TTTTTTTGAAATTTTATT-TTAA
* * *
19346334 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAATTTTTAATTTTGA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATA---TTTTTTT-GAAATTTT-ATTTTAA
* ** * ** *
19346396 GAAAAATTGATACTTTCAACTTTTTCCTAAATTTTTTTTTTTGAAAAACTTGTTTTCAA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTG-AAATTTTATTTT-AA
* * *
19346455 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAATATTTTTTTTG-GATTTTA-TTTAA
1 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTTGAAATTTTATTTTAA
*
19346510 AGAAAAT
1 GGAAAAT
19346517 AAAATAATAA
Statistics
Matches: 298, Mismatches: 43, Indels: 47
0.77 0.11 0.12
Matches are distributed among these distances:
55 8 0.03
56 3 0.01
57 3 0.01
58 41 0.14
59 107 0.36
60 38 0.13
61 36 0.12
62 55 0.18
63 7 0.02
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTGAAATTTTATTTTAA
Found at i:19346318 original size:180 final size:180
Alignment explanation
Indices: 19346095--19346426 Score: 440
Period size: 180 Copynumber: 1.8 Consensus size: 180
19346085 TTTGTACAAG
* *** * * *
19346095 GGAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTTTGGAAACTTTAGTGTTGAGAAAA
1 GGAAAATTGATACTTTCAACTCTTTCCCAAAATAACCTTTTTT-GAAAATTTAGTCTTAAGAAAA
*
19346160 ATTGATACTTTCAACTTTT-CCTCAAAAAAAATATTTTTTT-GAAAATTT-ATTCTTAAGGAAAA
65 ATTGATACTTTCAACTTTTCCCT-AAAAAAAATATTTTTTTGGAAAATTTAATT-TTAAGAAAAA
19346222 TTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTAGAATTTTTAATTTTGA
128 TTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTAGAATTTTTAATTTTGA
* *
19346275 GGAAAATTGATACTTTCAAC-CTTTCCTCAGAAA-AACCTTTTTTGAAAATTTATTCTTAAGGAA
1 GGAAAATTGATACTTTCAACTCTTTCC-CA-AAATAACCTTTTTTGAAAATTTAGTCTTAAGAAA
* * * ** *
19346338 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAATTTTTAATTTTGAGAAAAAT
64 AATTGATACTTTCAACTTTTCCCTAAAAAAAATATTTTTTTGGAAAATTTAATTTTAAGAAAAAT
19346403 TGATACTTTCAACTTTTTCCTAAA
129 TGATACTTTCAACTTTTTCCTAAA
19346427 TTTTTTTTTT
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
179 54 0.41
180 71 0.54
181 6 0.05
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (180 bp):
GGAAAATTGATACTTTCAACTCTTTCCCAAAATAACCTTTTTTGAAAATTTAGTCTTAAGAAAAA
TTGATACTTTCAACTTTTCCCTAAAAAAAATATTTTTTTGGAAAATTTAATTTTAAGAAAAATTG
ATACTTTCAACTTTTTCCTAAAAATATTTTTTTAGAATTTTTAATTTTGA
Found at i:19346437 original size:180 final size:178
Alignment explanation
Indices: 19346095--19346485 Score: 434
Period size: 180 Copynumber: 2.2 Consensus size: 178
19346085 TTTGTACAAG
* *** * * *
19346095 GGAAAATTGATACTTTCAACTTTTTCCCAAAATATTTTTTTTTGGAAACTTTAGTGTTGAGAAAA
1 GGAAAATTGATACTTTCAAC-CTTTCCCAAAATAACCTTTTTTGGAAAATTTAGTCTTAAGAAAA
*
19346160 ATTGATACTTTCAACTTTTCCTCAAAAAAAATATTTTTTTGAAAATTTATTCTTAAGGAAAATTG
65 ATTGATACTTTCAACTTTTCCTCAAAAAAAATATTTTTTTGAAAATTTATTCTTAAGAAAAATTG
* * * **
19346225 ATACTTTCAACTTTTTCCTAAAAATATTTTTTT-AGAATTTTTAATTTTGA
130 ATACTTTCAACTTTTTCCTAAAAATATTTTTTTAAAAACTTGT--TTTCAA
* *
19346275 GGAAAATTGATACTTTCAACCTTTCCTCAGAAA-AACCTTTTTT-GAAAATTTATTCTTAAGGAA
1 GGAAAATTGATACTTTCAACCTTTCC-CA-AAATAACCTTTTTTGGAAAATTTAGTCTTAAGAAA
* * * ** *
19346338 AATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTTGGAATTTTTAATT-TTGAGAAAA
64 AATTGATACTTTCAACTTTTCCTC-AAAAAAAATATTTTTTT-GAAAATTT-ATTCTTAAGAAAA
** *
19346401 ATTGATACTTTCAACTTTTTCCTAAATTTTTTTTTTTGAAAAACTTGTTTTCAA
126 ATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTT-AAAAACTTGTTTTCAA
19346455 GGAAAATTGATACTTTCAA-CTTTCCCCAAAA
1 GGAAAATTGATACTTTCAACCTTT-CCCAAAA
19346486 ATATTTTTTT
Statistics
Matches: 179, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
178 4 0.02
179 62 0.35
180 101 0.56
181 6 0.03
182 6 0.03
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (178 bp):
GGAAAATTGATACTTTCAACCTTTCCCAAAATAACCTTTTTTGGAAAATTTAGTCTTAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAAAAATATTTTTTTGAAAATTTATTCTTAAGAAAAATTGA
TACTTTCAACTTTTTCCTAAAAATATTTTTTTAAAAACTTGTTTTCAA
Found at i:19346535 original size:18 final size:17
Alignment explanation
Indices: 19346507--19346612 Score: 67
Period size: 17 Copynumber: 6.1 Consensus size: 17
19346497 GGATTTTATT
*
19346507 TAAAGAAAATAAAATAA
1 TAAAAAAAATAAAATAA
*
19346524 TAAAACAAAATAAAGTGAA
1 TAAAA-AAAATAAAAT-AA
19346543 -AATAAAAAATAAAA-AA
1 TAA-AAAAAATAAAATAA
* *
19346559 TAAAGAAAAGTAAAACAA
1 TAAA-AAAAATAAAATAA
*
19346577 -AAATAAATATAAAATAA
1 TAAA-AAAAATAAAATAA
* *
19346594 -ATATAAAAATAAAAGAA
1 TA-AAAAAAATAAAATAA
19346611 TA
1 TA
19346613 TTAAATAAAC
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
16 3 0.04
17 40 0.57
18 23 0.33
19 4 0.06
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (17 bp):
TAAAAAAAATAAAATAA
Found at i:19346545 original size:24 final size:25
Alignment explanation
Indices: 19346511--19346563 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 25
19346501 TTTATTTAAA
19346511 GAAAATAAAATAATAAAACAAAATAAAGT
1 GAAAATAAAA-AAT--AA-AAAATAAAGT
19346540 GAAAATAAAAAATAAAAAATAAAG
1 GAAAATAAAAAATAAAAAATAAAG
19346564 AAAAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.38
26 2 0.08
28 3 0.12
29 10 0.42
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (25 bp):
GAAAATAAAAAATAAAAAATAAAGT
Found at i:19346567 original size:11 final size:11
Alignment explanation
Indices: 19346513--19346606 Score: 68
Period size: 11 Copynumber: 8.3 Consensus size: 11
19346503 TATTTAAAGA
19346513 AAATAAAATAAT
1 AAATAAAA-AAT
*
19346525 AAA-ACAAAAT
1 AAATAAAAAAT
*
19346535 AAAGTGAAAATAAA
1 AAA-T-AAAA-AAT
19346549 AAATAAAAAAT
1 AAATAAAAAAT
* *
19346560 AAA-GAAAAGT
1 AAATAAAAAAT
19346570 AAA-ACAAAAAT
1 AAATA-AAAAAT
*
19346581 AAATATAAAAT
1 AAATAAAAAAT
19346592 AAATATAAAAAT
1 AAATA-AAAAAT
19346604 AAA
1 AAA
19346607 AGAATATTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
10 14 0.22
11 26 0.40
12 16 0.25
13 4 0.06
14 5 0.08
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:19346567 original size:17 final size:16
Alignment explanation
Indices: 19346507--19346594 Score: 54
Period size: 18 Copynumber: 5.2 Consensus size: 16
19346497 GGATTTTATT
*
19346507 TAAAGAAAATAAAATAA
1 TAAAAAAAATAAAA-AA
19346524 TAAAACAAAATAAAGTGAAA
1 TAAAA-AAAATAAA---AAA
*
19346544 -ATAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
* *
19346559 TAAAGAAAAGTAAAACA
1 TAAA-AAAAATAAAAAA
* *
19346576 -AAAATAAATATAAAA
1 TAAAAAAAATAAAAAA
19346591 TAAA
1 TAAA
19346595 TATAAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
15 11 0.20
16 8 0.15
17 14 0.25
18 16 0.29
19 3 0.05
20 2 0.04
21 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:19346573 original size:29 final size:27
Alignment explanation
Indices: 19346508--19346583 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
19346498 GATTTTATTT
* *
19346508 AAAG-AAAATAAAATAATAAAACAAAAT
1 AAAGTAAAATAAAA-AATAAAAAAAAAA
19346535 AAAGTGAAAATAAAAAATAAAAAATAAAGA
1 AAAGT-AAAATAAAAAATAAAAAA-AAA-A
*
19346565 AAAGTAAAA-CAAAAATAAA
1 AAAGTAAAATAAAAAATAAA
19346584 TATAAAATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 4 0.10
28 17 0.40
29 16 0.38
30 5 0.12
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.13
Consensus pattern (27 bp):
AAAGTAAAATAAAAAATAAAAAAAAAA
Found at i:19346589 original size:52 final size:52
Alignment explanation
Indices: 19346507--19346612 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 52
19346497 GGATTTTATT
* *
19346507 TAAAGAAAATAAAATAATAAAACAAAATAAAGTGAAA-ATAAAAAATAAAA-AA
1 TAAAGAAAATAAAACAATAAAACAAAATAAAAT-AAATAT-AAAAATAAAAGAA
*
19346559 TAAAGAAAAGTAAAACAA-AAATA-AATATAAAATAAATATAAAAATAAAAGAA
1 TAAAGAAAA-TAAAACAATAAA-ACAAAATAAAATAAATATAAAAATAAAAGAA
19346611 TA
1 TA
19346613 TTAAATAAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
51 13 0.28
52 26 0.55
53 8 0.17
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (52 bp):
TAAAGAAAATAAAACAATAAAACAAAATAAAATAAATATAAAAATAAAAGAA
Found at i:19347590 original size:22 final size:21
Alignment explanation
Indices: 19347535--19347604 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
19347525 ATAAACCAAA
19347535 AAAT-TAA-CAGATAAATTA-
1 AAATATAATCAGATAAATTAT
19347553 AAATTAAATAAT-AGATAAATTAT
1 AAA-T--ATAATCAGATAAATTAT
19347576 AACATATAATCAGATAAATATAT
1 AA-ATATAATCAGATAAAT-TAT
19347599 AAATAT
1 AAATAT
19347605 TAACAAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
18 3 0.07
19 1 0.02
21 5 0.12
22 25 0.58
23 8 0.19
24 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
AAATATAATCAGATAAATTAT
Found at i:19347668 original size:11 final size:11
Alignment explanation
Indices: 19347652--19347676 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19347642 TAAATAGTAG
19347652 TAATAAATAAA
1 TAATAAATAAA
19347663 TAATAAATAAA
1 TAATAAATAAA
19347674 TAA
1 TAA
19347677 GATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:19347689 original size:5 final size:5
Alignment explanation
Indices: 19347667--19347791 Score: 62
Period size: 5 Copynumber: 23.8 Consensus size: 5
19347657 AATAAATAAT
* *
19347667 AAAT- AAATA AGATAA AAATA AAAGAA AAATA TATATATA AAA-A ACAATA
1 AAATA AAATA AAAT-A AAATA AAA-TA AAATA -A-A-ATA AAATA A-AATA
* * *
19347716 ACAATA ATA-A AAATGT AAATA AAATAA AAATA AAATA CAAA-A TACA-A
1 A-AATA AAATA AAAT-A AAATA AAAT-A AAATA AAATA -AAATA -AAATA
*
19347763 AAATA AAATA AAATA AAATA AAAAA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAAT
19347792 GGGCTTACCC
Statistics
Matches: 95, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
4 11 0.12
5 49 0.52
6 30 0.32
7 2 0.02
8 3 0.03
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:19347722 original size:61 final size:61
Alignment explanation
Indices: 19347656--19347790 Score: 152
Period size: 61 Copynumber: 2.2 Consensus size: 61
19347646 TAGTAGTAAT
* * * *
19347656 AAATAAATAATAAA-TAAATAAGATAAAAATAAAAGA-AAAATATATATATAAAA-AACAATA
1 AAATAAATAA-AAAGTAAATAAAATAAAAATAAAAGACAAAATACAAAAATAAAATAA-AATA
*
19347716 ACAAT-AATAAAAATGTAAATAAAATAAAAATAAAATACAAAATACAAAAATAAAATAAAATA
1 A-AATAAATAAAAA-GTAAATAAAATAAAAATAAAAGACAAAATACAAAAATAAAATAAAATA
*
19347778 AAATAAAAAAAAA
1 AAATAAATAAAAA
19347791 TGGGCTTACC
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
59 3 0.05
60 6 0.10
61 26 0.41
62 26 0.41
63 2 0.03
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (61 bp):
AAATAAATAAAAAGTAAATAAAATAAAAATAAAAGACAAAATACAAAAATAAAATAAAATA
Found at i:19347749 original size:15 final size:15
Alignment explanation
Indices: 19347653--19347791 Score: 71
Period size: 15 Copynumber: 9.2 Consensus size: 15
19347643 AAATAGTAGT
19347653 AATAAAT-AAATAATA
1 AATAAATAAAATAA-A
*
19347668 AATAAATAAGATAAA
1 AATAAATAAAATAAA
19347683 AATAAA-AGAAA-AATA
1 AATAAATA-AAATAA-A
* * *
19347698 TATATATAAAA-AAC
1 AATAAATAAAATAAA
*
19347712 AATAACA-ATAATAAA
1 AATAA-ATAAAATAAA
19347727 AATGTAAATAAAATAAA
1 AA--TAAATAAAATAAA
*
19347744 AATAAAATACAAA-ATAC
1 AAT-AAATA-AAATA-AA
19347761 AA-AAATAAAAT-AA
1 AATAAATAAAATAAA
19347774 AATAAAATAAAA-AAA
1 AAT-AAATAAAATAAA
19347789 AAT
1 AAT
19347792 GGGCTTACCC
Statistics
Matches: 96, Mismatches: 12, Indels: 32
0.69 0.09 0.23
Matches are distributed among these distances:
13 3 0.03
14 12 0.12
15 50 0.52
16 13 0.14
17 18 0.19
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (15 bp):
AATAAATAAAATAAA
Found at i:19347759 original size:7 final size:6
Alignment explanation
Indices: 19347656--19347790 Score: 54
Period size: 6 Copynumber: 22.3 Consensus size: 6
19347646 TAGTAGTAAT
* * *
19347656 AAATAA ATAATAA ATAA-ATA AGATAA AAATAA AAGA-AA AATATAT ATATAA
1 AAATAA A-AATAA A-AATA-A AAATAA AAATAA AA-ATAA AA-ATAA AAATAA
* * **
19347707 AAA-ACA ATAACAA TAATAA AAATGT AAAT-A AAATAA AAAT-A AAATACA
1 AAATA-A A-AATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A
19347755 AAATACA AAA-ATA AAAT-A AAAT-A AAATAA AAA-AA AA
1 AAATA-A AAATA-A AAATAA AAATAA AAATAA AAATAA AA
19347791 TGGGCTTACC
Statistics
Matches: 102, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
5 24 0.24
6 48 0.47
7 29 0.28
8 1 0.01
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:19350436 original size:16 final size:16
Alignment explanation
Indices: 19350411--19350464 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
19350401 ATATTACATC
*
19350411 TTTATATTTATATTTT
1 TTTATTTTTATATTTT
*
19350427 TTTATTTTTA-ATATT
1 TTTATTTTTATATTTT
*
19350442 ATTATATTTTATAATTTT
1 TTTAT-TTTTAT-ATTTT
19350460 TTTAT
1 TTTAT
19350465 CTCATCAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 8 0.27
16 14 0.47
18 8 0.27
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTATTTTTATATTTT
Found at i:19356528 original size:8 final size:8
Alignment explanation
Indices: 19356515--19356539 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19356505 CTTATATTGC
19356515 ATATTTAT
1 ATATTTAT
19356523 ATATTTAT
1 ATATTTAT
19356531 ATATTTAT
1 ATATTTAT
19356539 A
1 A
19356540 ATTATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTTAT
Found at i:19363298 original size:32 final size:32
Alignment explanation
Indices: 19363243--19363305 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
19363233 GTAAAATCTG
*
19363243 CTTCAAAGGTCAGGCAAACTTGTTTTTGAATT
1 CTTCAAAGGTCAGGCAAACTTGTTCTTGAATT
* * * *
19363275 CTTCAAGGGTTAGGTAAATTTGTTCTTGAAT
1 CTTCAAAGGTCAGGCAAACTTGTTCTTGAAT
19363306 GTTTTAAGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.40
Consensus pattern (32 bp):
CTTCAAAGGTCAGGCAAACTTGTTCTTGAATT
Found at i:19366522 original size:16 final size:16
Alignment explanation
Indices: 19366497--19366548 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19366487 ATATTACATC
*
19366497 TTTATATTTATATTTT
1 TTTATTTTTATATTTT
*
19366513 TTTATTTTTA-ATATT
1 TTTATTTTTATATTTT
*
19366528 ATTATATTTTATAATTTT
1 TTTAT-TTTTAT-ATTTT
19366546 TTT
1 TTT
19366549 TATCTCATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 8 0.29
16 14 0.50
18 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATTTTTATATTTT
Found at i:19366913 original size:8 final size:8
Alignment explanation
Indices: 19366900--19366924 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19366890 CTTACATTGC
19366900 ATATTTAT
1 ATATTTAT
19366908 ATATTTAT
1 ATATTTAT
19366916 ATATTTAT
1 ATATTTAT
19366924 A
1 A
19366925 ATTATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTTAT
Found at i:19371115 original size:8 final size:8
Alignment explanation
Indices: 19371102--19371126 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19371092 CTTATATTGC
19371102 ATATTTAT
1 ATATTTAT
19371110 ATATTTAT
1 ATATTTAT
19371118 ATATTTAT
1 ATATTTAT
19371126 A
1 A
19371127 ATTATTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTTAT
Found at i:19372883 original size:61 final size:59
Alignment explanation
Indices: 19372808--19373279 Score: 386
Period size: 61 Copynumber: 7.7 Consensus size: 59
19372798 TTTGTACAAG
** **
19372808 GGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTTTTGAAAACTTTAGTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCAAAAAATATTTTTTTTTTGAAAA-TTTA-TTTTAA
*
19372869 GGAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAACCTCTTTTTTTTTTGAAAATTTATTTTT
1 GGAAAATTGATACTTTCAACTTTTCC-----AAAAAA--TATTTTTTTTTTGAAAATTTA-TTTT
19372934 AA
58 AA
* * * * * *
19372936 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATA--TTTTTTTGGAAACTTTAATTT-C
1 GGAAAATTGATACTTTCAAC-TTTTCCAAAAAATATTTTTTTTTTGAAAATTTATTTTAA
* **** *
19372993 GAGAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAAACCTTTTTTAAAAATTTATTCTTAA
1 G-GAAAATTGATACTTTCAAC-TTTTC-C--AAAAAATATTTTTTTTTTGAAAATTTATT-TTAA
**
19373058 GGAAAATTGATACTTTCAACTTTTCCTTAAAAAA-A--CCTTTTTTGAAAATTT-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCC--AAAAAATATTTTTTTTTTGAAAATTTATT-TTAA
* **
19373116 GGAAAATTGATACTTTTAACTTTTCCTCAAAAAA-A-ACTTTTTTTGAAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTT-C-CAAAAAATATTTTTTTTTTGAAAATTTATT-TTAA
* * * ** *
19373176 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGGAAAGCTTGTTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCAAAAAATATTTTTTTTTTGAAAATTTATTTT-AA
*
19373237 GGAAAATTGATACTTTCAACTTTTTTCAAAAAATATTTTTTTT
1 GGAAAATTGATACTTTCAAC-TTTTCCAAAAAATATTTTTTTT
19373280 GGATTTTATT
Statistics
Matches: 347, Mismatches: 40, Indels: 48
0.80 0.09 0.11
Matches are distributed among these distances:
57 1 0.00
58 64 0.18
59 53 0.15
60 30 0.09
61 94 0.27
62 7 0.02
63 23 0.07
64 21 0.06
65 1 0.00
66 4 0.01
67 27 0.08
68 22 0.06
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCAAAAAATATTTTTTTTTTGAAAATTTATTTTAA
Found at i:19373000 original size:58 final size:59
Alignment explanation
Indices: 19372809--19373299 Score: 348
Period size: 59 Copynumber: 8.1 Consensus size: 59
19372799 TTGTACAAGG
* * * * * *
19372809 GAAAATTGATACTTTCAACTTTTCCCCAAAATAT-TTTTTTTTTGAAAACTTTAGTTTCGAG
1 GAAAATTGATACTTTCAACTTTTTCCAAAAAAATACTTTTTTTGGAAAA-TTTA-TTTC-AA
* * *
19372870 GAAAATTGATACTTTCAAC-TTTTCCTAAAAAAAAAACCTCTTTTTTTTTTGAAAATTTATTTTT
1 GAAAATTGATACTTTCAACTTTTTCC--AAAAAAATA---C--TTTTTTTGGAAAATTTA-TTTC
19372934 AA
58 AA
* * *
19372936 GAAAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTTGGAAACTTTAATTTCGA
1 G-AAAATTGATACTTTCAACTTTTTCCAAAAAAATACTTTTTTTGGAAAATTT-ATTTCAA
* * * *
19372995 GAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAAACCTTTTTT-AAAAATTTATTCTTAA
1 GAAAATTGATACTTTCAACTTTTTC-C---AAAAAAATACTTTTTTTGGAAAATTTATT-TCAA
* * *
19373058 GGAAAATTGATACTTTCAAC-TTTTCCTTAAAAAA-ACCTTTTTT-GAAAATTT-TTCTTAA
1 -GAAAATTGATACTTTCAACTTTTTCC-AAAAAAATACTTTTTTTGGAAAATTTATT-TCAA
* * *
19373116 GGAAAATTGATACTTTTAACTTTTCCTCAAAAAAA-ACTTTTTTT-GAAAATTTATTCTTAA
1 -GAAAATTGATACTTTCAACTTTTTC-CAAAAAAATACTTTTTTTGGAAAATTTATT-TCAA
* * *
19373176 GAAAAATTGATACTTTCAACTTTTTCC-TAAAAATATTTTTTTTTGGAAAGCTTGT-TTTCAA
1 G-AAAATTGATACTTTCAACTTTTTCCAAAAAAATA-CTTTTTTTGGAAA-ATT-TATTTCAA
* * * *
19373237 GGAAAATTGATACTTTCAACTTTTTTC-AAAAAATATTTTTTTTGG--ATTTTATTTAAA
1 -GAAAATTGATACTTTCAACTTTTTCCAAAAAAATACTTTTTTTGGAAAATTTATTTCAA
19373294 GAAAAT
1 GAAAAT
19373300 AAAATAATAA
Statistics
Matches: 362, Mismatches: 38, Indels: 65
0.78 0.08 0.14
Matches are distributed among these distances:
56 7 0.02
57 7 0.02
58 56 0.15
59 65 0.18
60 59 0.16
61 57 0.16
62 14 0.04
63 20 0.06
64 25 0.07
65 6 0.02
66 2 0.01
67 25 0.07
68 19 0.05
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTTCCAAAAAAATACTTTTTTTGGAAAATTTATTTCAA
Found at i:19373328 original size:24 final size:25
Alignment explanation
Indices: 19373294--19373392 Score: 71
Period size: 25 Copynumber: 3.8 Consensus size: 25
19373284 TTTATTTAAA
19373294 GAAAATAAAATAATAAAACAAAATAAAGT
1 GAAAATAAAA-AAT--AA-AAAATAAAGT
19373323 GAAAATAAAAAATAAAAAATAAA--
1 GAAAATAAAAAATAAAAAATAAAGT
* *
19373346 GAAAAGTAAAACAAAAATAAAAATAAAAT
1 GAAAA-T-AAA-AAATA-AAAAATAAAGT
19373375 -AAAGAT-AAAAATAAAAAA
1 GAAA-ATAAAAAATAAAAAA
19373393 ATATTAAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
23 5 0.08
24 6 0.10
25 15 0.25
26 8 0.13
27 9 0.15
28 7 0.11
29 11 0.18
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (25 bp):
GAAAATAAAAAATAAAAAATAAAGT
Found at i:19373339 original size:6 final size:6
Alignment explanation
Indices: 19373295--19373391 Score: 62
Period size: 6 Copynumber: 16.7 Consensus size: 6
19373285 TTATTTAAAG
* *
19373295 AAAAT- AAAATA ATAAA-A CAAAAT- AAAGTG AAAATAA AAAATA AAAA-A
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAAT-A AAAATA AAAATA
* * * * *
19373342 TAAAGA AAAGT- AAAACA AAAATA AAAAT- AAAATA AAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
19373388 AAAA
1 AAAA
19373392 AATATTAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
5 21 0.30
6 41 0.58
7 9 0.13
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:19373350 original size:17 final size:17
Alignment explanation
Indices: 19373330--19373392 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
19373320 AGTGAAAATA
19373330 AAAAATAAAAAATAAAG
1 AAAAATAAAAAATAAAG
* *
19373347 AAAAGTAAAACAA-AAAT
1 AAAAATAAAA-AATAAAG
19373364 AAAAAT--AAAATAAAG
1 AAAAATAAAAAATAAAG
19373379 ATAAAAATAAAAAA
1 --AAAAATAAAAAA
19373393 ATATTAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 2 0.06
15 5 0.14
17 23 0.64
18 2 0.06
19 4 0.11
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAAATAAAG
Found at i:19373390 original size:28 final size:29
Alignment explanation
Indices: 19373298--19373390 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 29
19373288 TTTAAAGAAA
* *
19373298 ATAAAATAATAAAACAAAATAAAGTGAAAAT
1 ATAAAATAA-AAAATAAAATAAAGT-AAAAC
*
19373329 AAAAAATAAAAAATAAAGA-AAAGTAAAAC
1 ATAAAATAAAAAATAAA-ATAAAGTAAAAC
19373358 A-AAAAT-AAAAATAAAATAAAGATAAAA-
1 ATAAAATAAAAAATAAAATAAAG-TAAAAC
19373385 ATAAAA
1 ATAAAA
19373391 AAATATTAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
26 1 0.02
27 14 0.25
28 14 0.25
29 5 0.09
30 12 0.22
31 9 0.16
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.15
Consensus pattern (29 bp):
ATAAAATAAAAAATAAAATAAAGTAAAAC
Found at i:19373395 original size:52 final size:52
Alignment explanation
Indices: 19373290--19373392 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
19373280 GGATTTTATT
* *
19373290 TAAAGAAAATAAAATAATAAAACAAAATAAAGTGAAAATAAAAAATAAAAAA
1 TAAAGAAAATAAAACAATAAAACAAAATAAAATGAAAATAAAAAATAAAAAA
19373342 TAAAGAAAAGTAAAACAA-AAATA-AAAATAAAAT-AAAGAT-AAAAATAAAAAA
1 TAAAGAAAA-TAAAACAATAAA-ACAAAATAAAATGAAA-ATAAAAAATAAAAAA
19373393 ATATTAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 15 0.33
52 23 0.50
53 8 0.17
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (52 bp):
TAAAGAAAATAAAACAATAAAACAAAATAAAATGAAAATAAAAAATAAAAAA
Found at i:19373400 original size:17 final size:17
Alignment explanation
Indices: 19373338--19373390 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
19373328 TAAAAAATAA
*
19373338 AAAATAAAG--AAAAGT
1 AAAATAAAGATAAAAAT
* *
19373353 AAAACAAAAATAAAAAT
1 AAAATAAAGATAAAAAT
19373370 AAAATAAAGATAAAAAT
1 AAAATAAAGATAAAAAT
19373387 AAAA
1 AAAA
19373391 AAATATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 7 0.23
17 24 0.77
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (17 bp):
AAAATAAAGATAAAAAT
Found at i:19374426 original size:15 final size:15
Alignment explanation
Indices: 19374406--19374505 Score: 66
Period size: 15 Copynumber: 6.5 Consensus size: 15
19374396 TAAATAGTAG
19374406 TAATAAATAAATAAA
1 TAATAAATAAATAAA
*
19374421 TAATAAATACATAAGA
1 TAATAAATAAATAA-A
19374437 TAA-AAATAAA-AGAA
1 TAATAAATAAATA-AA
* *
19374451 AAATATATATAAAAAAA
1 TAATA-A-ATAAATAAA
19374468 TAATAACA-ATAATAAA
1 TAATAA-ATA-AATAAA
19374484 -AATGTAAATAAATAAA
1 TAA--TAAATAAATAAA
19374500 -AATAAA
1 TAATAAA
19374506 AAAAGAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.12
15 24 0.35
16 21 0.30
17 15 0.22
18 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (15 bp):
TAATAAATAAATAAA
Found at i:19374769 original size:43 final size:45
Alignment explanation
Indices: 19374661--19374771 Score: 163
Period size: 46 Copynumber: 2.5 Consensus size: 45
19374651 GACATTTGAT
* *
19374661 CAAAACTCCTCTAAGCAGAGGCTCAACGACTTTTGAAAAACATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTG-AAAACATAAA
*
19374707 CAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTG-AAA-ATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAACATAAA
*
19374750 CAAAGCTCCTTTAAACAGAGGC
1 CAAAGCTCCTCTAAACAGAGGC
19374772 AATTTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 25 0.41
44 3 0.05
46 33 0.54
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (45 bp):
CAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAAACATAAA
Found at i:19374796 original size:9 final size:9
Alignment explanation
Indices: 19374784--19374822 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
19374774 TTTTTTTTGT
*
19374784 TTTTGTTTC
1 TTTTATTTC
19374793 TTTTATTTC
1 TTTTATTTC
19374802 TTTTATTTC
1 TTTTATTTC
19374811 TTTTATTT-
1 TTTTATTTC
19374819 TTTT
1 TTTT
19374823 TGTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (9 bp):
TTTTATTTC
Found at i:19374823 original size:9 final size:9
Alignment explanation
Indices: 19374774--19374837 Score: 60
Period size: 9 Copynumber: 7.3 Consensus size: 9
19374764 ACAGAGGCAA
19374774 TTTTTT-TT
1 TTTTTTATT
* *
19374782 GTTTTTGTT
1 TTTTTTATT
*
19374791 TCTTTTATT
1 TTTTTTATT
*
19374800 TCTTTTATT
1 TTTTTTATT
*
19374809 TCTTTTATT
1 TTTTTTATT
*
19374818 TTTTTTGTT
1 TTTTTTATT
19374827 TTTTTT-TT
1 TTTTTTATT
19374835 TTT
1 TTT
19374838 AAATTTGATC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
8 10 0.20
9 39 0.80
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.86
Consensus pattern (9 bp):
TTTTTTATT
Found at i:19374832 original size:18 final size:17
Alignment explanation
Indices: 19374775--19374837 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
19374765 CAGAGGCAAT
19374775 TTTTTTTGTTTTTGTTTC
1 TTTTTTT-TTTTTGTTTC
* *
19374793 TTTTATTTCTTTTATTTC
1 TTTT-TTTTTTTTGTTTC
19374811 TTTTATTTTTTTTGTTT-
1 TTTT-TTTTTTTTGTTTC
19374828 TTTTTTTTTT
1 TTTTTTTTTT
19374838 AAATTTGATC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.15
17 4 0.10
18 27 0.68
19 3 0.08
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTTTGTTTC
Found at i:19374944 original size:41 final size:41
Alignment explanation
Indices: 19374851--19375088 Score: 316
Period size: 41 Copynumber: 5.8 Consensus size: 41
19374841 TTTGATCAAA
* * * *
19374851 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-ATAAATT
* * * *
19374894 GCTCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
19374935 GCTTCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
19374976 GCTCCTCTAAACAGAGGCACCACGACTTT-AAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATT
* *
19375017 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
*
19375058 GCTCCTCTAAACAGAGGCACCACAACTTTGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA
19375089 GTCACCAAAA
Statistics
Matches: 180, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 4 0.02
41 140 0.78
42 7 0.04
43 29 0.16
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
Done.