Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, 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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 64
Found at i:9027083 original size:24 final size:25
Alignment explanation
Indices: 9027032--9027089 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
9027022 ATAGTTGATA
* *
9027032 TTTACATA-TGAACTATATATATAG
1 TTTATATAGTGAACTATATAAATAG
9027056 TTTAT-TAGTGAACTATATAAACTA-
1 TTTATATAGTGAACTATATAAA-TAG
9027080 TTTATATAGT
1 TTTATATAGT
9027090 ATAAACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 21 0.72
25 6 0.21
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.45
Consensus pattern (25 bp):
TTTATATAGTGAACTATATAAATAG
Found at i:9027087 original size:2 final size:2
Alignment explanation
Indices: 9027082--9027172 Score: 51
Period size: 2 Copynumber: 43.0 Consensus size: 2
9027072 ATAAACTATT
* * *
9027082 TA TA TA GTA TA AA CTA TA TA TA TA TA T- TA TA GTT TA TA TT TA
1 TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
9027124 TA TA CTA CA TA CTA TA GTT TA TA TT TA TA TA CTA TA TA -A TA TA
1 TA TA -TA TA TA -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
9027167 TA TA TA
1 TA TA TA
9027173 AACTATAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
1 2 0.03
2 55 0.81
3 11 0.16
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9027094 original size:18 final size:18
Alignment explanation
Indices: 9027071--9027105 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9027061 TAGTGAACTA
*
9027071 TATAAACTATTTATATAG
1 TATAAACTATATATATAG
9027089 TATAAACTATATATATA
1 TATAAACTATATATATA
9027106 TATTATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
TATAAACTATATATATAG
Found at i:9027106 original size:20 final size:20
Alignment explanation
Indices: 9027071--9027179 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
9027061 TAGTGAACTA
*
9027071 TATAAACTAT-T-TATATAG
1 TATAAACTATATATATATAT
9027089 TATAAACTATATATATATAT
1 TATAAACTATATATATATAT
*** * *
9027109 TATAGTTTATATTTATATAC
1 TATAAACTATATATATATAT
* * *
9027129 TACATACTATAGTTTATAT-T
1 TATAAACTATA-TATATATAT
*
9027149 TATATACTATATA-ATATAT
1 TATAAACTATATATATATAT
9027168 ATATAAACTATA
1 -TATAAACTATA
9027180 AATACGATAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
18 14 0.19
19 3 0.04
20 48 0.67
21 7 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (20 bp):
TATAAACTATATATATATAT
Found at i:9027112 original size:7 final size:7
Alignment explanation
Indices: 9027081--9027169 Score: 53
Period size: 7 Copynumber: 13.1 Consensus size: 7
9027071 TATAAACTAT
9027081 TTATATA
1 TTATATA
* *
9027088 GTATAAA
1 TTATATA
*
9027095 CTATATA
1 TTATATA
9027102 -TATATA
1 TTATATA
9027108 TTATAGT-
1 TTATA-TA
9027115 TTATAT-
1 TTATATA
9027121 TTATATA
1 TTATATA
* *
9027128 CTACATA
1 TTATATA
*
9027135 CTATAGT-
1 TTATA-TA
9027142 TTATAT-
1 TTATATA
9027148 TTATATA
1 TTATATA
*
9027155 CTATATA
1 TTATATA
*
9027162 ATATATA
1 TTATATA
9027169 T
1 T
9027170 ATAAACTATA
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
6 20 0.30
7 44 0.67
8 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:9027119 original size:27 final size:27
Alignment explanation
Indices: 9027102--9027179 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
9027092 AAACTATATA
* **
9027102 TATATATTATAGTTTATATTTATATAC
1 TATATAATATAGTTTATAACTATATAC
* * **
9027129 TACATACTATAGTTTATATTTATATAC
1 TATATAATATAGTTTATAACTATATAC
*
9027156 TATATAATATA-TATATAAACTATA
1 TATATAATATAGTTTAT-AACTATA
9027180 AATACGATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (27 bp):
TATATAATATAGTTTATAACTATATAC
Found at i:9027255 original size:27 final size:27
Alignment explanation
Indices: 9027225--9027296 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
9027215 ATATAAACCA
* *
9027225 TATAAACTATATACTATAGTTGATATT
1 TATAAACTATATACTATAATTGATACT
* * *
9027252 TATATACTATATAATATAATTTATACT
1 TATAAACTATATACTATAATTGATACT
*
9027279 TATATAA-TTTATACTATA
1 TATA-AACTATATACTATA
9027297 TAAATTCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (27 bp):
TATAAACTATATACTATAATTGATACT
Found at i:9027285 original size:15 final size:14
Alignment explanation
Indices: 9027265--9027299 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
9027255 ATACTATATA
9027265 ATATAATTTATACTT
1 ATATAATTTATAC-T
9027280 ATATAATTTATACT
1 ATATAATTTATACT
9027294 ATATAA
1 ATATAA
9027300 ATTCAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATAATTTATACT
Found at i:9027386 original size:18 final size:16
Alignment explanation
Indices: 9027363--9027629 Score: 72
Period size: 18 Copynumber: 15.8 Consensus size: 16
9027353 ATAAATGATT
9027363 TATATAGTATATACTAC
1 TATATAGTATATA-TAC
9027380 ATATATAGTTTATATATAC
1 -TATATAG--TATATATAC
*
9027399 TATATAGTTTACATATGAAC
1 TATATAG--TATATAT--AC
*
9027419 TATATA-TA-A-AAAC
1 TATATAGTATATATAC
*
9027432 TATATA-TATAAAGTA-
1 TATATAGTATATA-TAC
* *
9027447 TATGATA-TATACAAAC
1 TAT-ATAGTATATATAC
*
9027463 TATATA-T-TATATAG
1 TATATAGTATATATAC
9027477 T-TATTAGTATATATAAAC
1 TATA-TAGTATATAT--AC
* *
9027495 TATATAGTATGTGTAAAC
1 TATATAGTA--TATATAC
* *
9027513 TATATATTATATAGTTC
1 TATATAGTATATA-TAC
*
9027530 -ATTAATA-TATATAAAC
1 TA-T-ATAGTATATATAC
*
9027546 TATATGGTATATATAAAC
1 TATATAGTATATAT--AC
* * *
9027564 TATACATTATATATAG
1 TATATAGTATATATAC
9027580 T-TCATTAGTATATATAAAC
1 TAT-A-TAGTATATAT--AC
9027599 TATATAGTATATATAAAC
1 TATATAGTATATAT--AC
*
9027617 TATATATTATATA
1 TATATAGTATATA
9027630 GTTCATTAGT
Statistics
Matches: 193, Mismatches: 27, Indels: 58
0.69 0.10 0.21
Matches are distributed among these distances:
13 12 0.06
14 8 0.04
15 14 0.07
16 33 0.17
17 19 0.10
18 81 0.42
19 8 0.04
20 18 0.09
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
TATATAGTATATATAC
Found at i:9027469 original size:13 final size:13
Alignment explanation
Indices: 9027416--9027449 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9027406 TTTACATATG
9027416 AACTATATATAAA
1 AACTATATATAAA
*
9027429 AACTATATATATA
1 AACTATATATAAA
*
9027442 AAGTATAT
1 AACTATAT
9027450 GATATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (13 bp):
AACTATATATAAA
Found at i:9027495 original size:32 final size:31
Alignment explanation
Indices: 9027420--9027500 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 31
9027410 CATATGAACT
9027420 ATATATAAAAACTATATATATAAAGTATATG
1 ATATATAAAAACTATATATATAAAGTATATG
* * *
9027451 ATATATACAAACTATATATTATATAGT-TATT
1 ATATATAAAAACTATATA-TATAAAGTATATG
*
9027482 AGTATATATAAACTATATA
1 A-TATATAAAAACTATATA
9027501 GTATGTGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 21 0.48
32 23 0.52
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (31 bp):
ATATATAAAAACTATATATATAAAGTATATG
Found at i:9027626 original size:104 final size:101
Alignment explanation
Indices: 9027433--9027654 Score: 336
Period size: 104 Copynumber: 2.2 Consensus size: 101
9027423 TATAAAAACT
* *
9027433 ATATATATAAAGTATATGATATATACAAACTATATATTATATAGTTATTAGTATATATAAACTAT
1 ATATATATAAACTATATGATATATACAAACTATACATTATATAGTTATTAGTATATATAAACTAT
* *
9027498 ATAGTATGTGTAAACTATATATTATATAGTTCATTA
66 ATAGTATATATAAACTATATATTATATAGTTCATTA
* *
9027534 ATATATATAAACTATATGGTATATATAAACTATACATTATATATAGTTCATTAGTATATATAAAC
1 ATATATATAAACTATATGATATATACAAACTATACA-T-TATATAGTT-ATTAGTATATATAAAC
9027599 TATATAGTATATATAAACTATATATTATATAGTTCATTA
63 TATATAGTATATATAAACTATATATTATATAGTTCATTA
* * *
9027638 GTCTATATAACCTATAT
1 ATATATATAAACTATAT
9027655 ATTAATTTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
101 32 0.29
102 1 0.01
103 9 0.08
104 67 0.61
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (101 bp):
ATATATATAAACTATATGATATATACAAACTATACATTATATAGTTATTAGTATATATAAACTAT
ATAGTATATATAAACTATATATTATATAGTTCATTA
Found at i:9027656 original size:53 final size:51
Alignment explanation
Indices: 9027434--9027655 Score: 322
Period size: 51 Copynumber: 4.3 Consensus size: 51
9027424 ATAAAAACTA
* *
9027434 TATATATAAAGTATAT-GATATATACAAACTATATATTATATAGTT-ATTAG
1 TATATATAAACTATATAG-TATATATAAACTATATATTATATAGTTCATTAG
* * *
9027484 TATATATAAACTATATAGTATGTGTAAACTATATATTATATAGTTCATTAA
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
* *
9027535 TATATATAAACTATATGGTATATATAAACTATACATTATATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATA-T-TATATAGTTCATTAG
9027588 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
1 TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
* *
9027639 TCTATATAACCTATATA
1 TATATATAAACTATATA
9027656 TTAATTTATT
Statistics
Matches: 154, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
50 39 0.25
51 66 0.43
52 2 0.01
53 47 0.31
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (51 bp):
TATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCATTAG
Found at i:9027707 original size:104 final size:104
Alignment explanation
Indices: 9027433--9027708 Score: 226
Period size: 104 Copynumber: 2.7 Consensus size: 104
9027423 TATAAAAACT
* * * * * * * *
9027433 ATATATATAAAGTATAT-GATATATACAAACTATATA-T-TATATAGTT-ATTAGTATATATAAA
1 ATATATATAAACTATATAG-TATATATAAACTAAACATTATATATAATTCATAAGAATATAGAAA
* * *
9027494 CTATATAGTATGTGTAAACTATATATTATATAGTTCATTA
65 ATATATAGTATATATAAACTATATATTATATAGTTCATTA
* * * * * * *
9027534 ATATATATAAACTATATGGTATATATAAACTATACATTATATATAGTTCATTAGTATATATAAAC
1 ATATATATAAACTATATAGTATATATAAACTAAACATTATATATAATTCATAAGAATATAGAAAA
9027599 TATATAGTATATATAAACTATATATTATATAGTTCATTA
66 TATATAGTATATATAAACTATATATTATATAGTTCATTA
* * * * * * *
9027638 GTCTATATAACCTATATATTAATTTATTAATA-TAAACA-TATATATTAATTGA-AAGAAT-TGG
1 ATATATATAAACTATATAGT-ATATA-TAA-ACTAAACATTATATA-TAATTCATAAGAATATAG
9027699 AAAATATATA
62 AAAATATATA
9027709 ATGATCAGAT
Statistics
Matches: 148, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
101 31 0.21
102 2 0.01
103 9 0.06
104 78 0.53
105 14 0.09
106 13 0.09
107 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (104 bp):
ATATATATAAACTATATAGTATATATAAACTAAACATTATATATAATTCATAAGAATATAGAAAA
TATATAGTATATATAAACTATATATTATATAGTTCATTA
Found at i:9027789 original size:61 final size:61
Alignment explanation
Indices: 9027717--9027851 Score: 189
Period size: 61 Copynumber: 2.2 Consensus size: 61
9027707 TAATGATCAG
* * * *
9027717 ATTGAATAAATTTTAAATATGAAGCTTAAATTAATAAATTGTAACATTAAATTTGGACGAA
1 ATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATTGCAACAATAAATTTGGACGAA
* * * *
9027778 ATTGAAGAAATTTGAAATATGAAGCTTAAATTAATATATTGCATCAATAAATTTGGACTAA
1 ATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATTGCAACAATAAATTTGGACGAA
*
9027839 ATTTAACAAATTT
1 ATTGAACAAATTT
9027852 AAAACTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (61 bp):
ATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAATTGCAACAATAAATTTGGACGAA
Found at i:9028271 original size:103 final size:104
Alignment explanation
Indices: 9028077--9028286 Score: 273
Period size: 103 Copynumber: 2.0 Consensus size: 104
9028067 AAAAACCCTC
* * **
9028077 ATTTGATCTTTATAAACACCAAAACTCAAACCATTTTTCATGTTTTTTTCGATCAAACACAAAAA
1 ATTTGATCTTCACAAACACCAAAACTCAAACCA-CGTTCATGTTTTTTTCGATCAAACACAAAAA
9028142 AAATCATCTCGTGTTCATCCCAGTTCTTCCCCAAACCATT
65 AAATCATCTCGTGTTCATCCCAGTTCTTCCCCAAACCATT
* **
9028182 ATTTGATCTTCACAAACACCAAAACTTAAACC-CGTTCATGTTTTTTTCGATCAAACACCCAAAA
1 ATTTGATCTTCACAAACACCAAAACTCAAACCACGTTCATGTTTTTTTCGATCAAACACAAAAAA
** * *
9028246 GTTCATC-CATTGTTCAT-CCATGTTCTTCCCCAAACCCTT
66 AATCATCTC-GTGTTCATCCCA-GTTCTTCCCCAAACCATT
9028285 AT
1 AT
9028287 AAACACCCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
102 4 0.04
103 59 0.64
105 29 0.32
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (104 bp):
ATTTGATCTTCACAAACACCAAAACTCAAACCACGTTCATGTTTTTTTCGATCAAACACAAAAAA
AATCATCTCGTGTTCATCCCAGTTCTTCCCCAAACCATT
Found at i:9028465 original size:6 final size:6
Alignment explanation
Indices: 9028458--9028594 Score: 130
Period size: 6 Copynumber: 22.7 Consensus size: 6
9028448 TCTAACCCCT
* * * * *
9028458 AACCCT AACCCT AACCAA AACCCA AACCTA AACCCA AACCCA AATCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * * *
9028506 AACCCG AACTCG AACCCG AACCCA AACCCA AACCCA AACCCA AACCCA
1 AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA AACCCA
* * ** * *
9028554 AACTCA AACCCG AACCTG AACCTTA AACCCA AACTCA AACC
1 AACCCA AACCCA AACCCA AACC-CA AACCCA AACCCA AACC
9028595 TGAACTTGAA
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
6 106 0.95
7 5 0.05
ACGTcount: A:0.45, C:0.44, G:0.04, T:0.07
Consensus pattern (6 bp):
AACCCA
Found at i:9030722 original size:22 final size:23
Alignment explanation
Indices: 9030694--9030740 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
9030684 GTATGCTTTC
*
9030694 TTAATGCA-AGATGCTTGTTGAA
1 TTAATGCAGAGATGCTTGCTGAA
*
9030716 TTAATGCAGTGATGCTTGCTGAA
1 TTAATGCAGAGATGCTTGCTGAA
9030739 TT
1 TT
9030741 GGCACAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (23 bp):
TTAATGCAGAGATGCTTGCTGAA
Found at i:9031512 original size:19 final size:22
Alignment explanation
Indices: 9031488--9031527 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
9031478 TCAATATACA
9031488 ATGAACA-A-TATCGA-ACTTT
1 ATGAACAGAGTATCGATACTTT
9031507 ATGAACAGAGTATCGATACTT
1 ATGAACAGAGTATCGATACTT
9031528 CCTAGACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 6 0.33
22 4 0.22
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (22 bp):
ATGAACAGAGTATCGATACTTT
Found at i:9032089 original size:19 final size:17
Alignment explanation
Indices: 9032046--9032093 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
9032036 GTATTATTTT
9032046 TAAAATTTTAATAAAAA
1 TAAAATTTTAATAAAAA
*
9032063 TATTAAATTTATAATTGAAAA
1 TA--AAATTT-TAA-TAAAAA
9032084 TAAAATTTTA
1 TAAAATTTTA
9032094 TTTCTTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 12 0.46
20 3 0.12
21 7 0.27
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAAATTTTAATAAAAA
Found at i:9033725 original size:27 final size:27
Alignment explanation
Indices: 9033695--9033759 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
9033685 ATGGTTATAT
*
9033695 TTTAGTGTTTAGAATTTAAGG-TCAGGG
1 TTTAGTGTTTAGAA-TTAAGGTTCAGAG
* *
9033722 TTTAGTGTTTAGTATTAAGGTTTAGAG
1 TTTAGTGTTTAGAATTAAGGTTCAGAG
9033749 TTTAGTGTTTA
1 TTTAGTGTTTA
9033760 TGTTTTATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.48
Consensus pattern (27 bp):
TTTAGTGTTTAGAATTAAGGTTCAGAG
Found at i:9033830 original size:7 final size:7
Alignment explanation
Indices: 9033799--9033946 Score: 68
Period size: 7 Copynumber: 20.4 Consensus size: 7
9033789 GTGTTTAGGT
9033799 TTTAAGG
1 TTTAAGG
* *
9033806 TGTAGGG
1 TTTAAGG
**
9033813 TTTAATC
1 TTTAAGG
9033820 TTTAAGG
1 TTTAAGG
9033827 TTTAAGG
1 TTTAAGG
9033834 TTTAAGG
1 TTTAAGG
* *
9033841 -ATGAGG
1 TTTAAGG
*
9033847 ATTTATTA-T
1 -TTTA--AGG
9033856 TTTAAGG
1 TTTAAGG
9033863 TTTAAGAG
1 TTTAAG-G
*
9033871 TTT-AGTT
1 TTTAAG-G
*
9033878 TTTTAGG
1 TTTAAGG
*
9033885 TTTAGGG
1 TTTAAGG
*
9033892 TTTAGGG
1 TTTAAGG
*
9033899 TTTAGGG
1 TTTAAGG
*
9033906 TTTTAGG
1 TTTAAGG
*
9033913 ATTTATGGG
1 -TTTA-AGG
9033922 TTTAAGG
1 TTTAAGG
*
9033929 TTTAAATG
1 TTT-AAGG
9033937 TTTAAGG
1 TTTAAGG
9033944 TTT
1 TTT
9033947 TATGATTTAA
Statistics
Matches: 105, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
6 5 0.05
7 73 0.70
8 24 0.23
9 2 0.02
10 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (7 bp):
TTTAAGG
Found at i:9033874 original size:15 final size:14
Alignment explanation
Indices: 9033856--9033946 Score: 74
Period size: 15 Copynumber: 6.2 Consensus size: 14
9033846 GATTTATTAT
*
9033856 TTTAAGGTTTAAGAG
1 TTTAGGGTTTAAG-G
** *
9033871 TTTAGTTTTTTAGG
1 TTTAGGGTTTAAGG
*
9033885 TTTAGGGTTTAGGG
1 TTTAGGGTTTAAGG
*
9033899 TTTAGGGTTTTAGG
1 TTTAGGGTTTAAGG
9033913 ATTTATGGGTTTAAGG
1 -TTTA-GGGTTTAAGG
**
9033929 TTTAAATGTTTAAGG
1 TTT-AGGGTTTAAGG
9033944 TTT
1 TTT
9033947 TATGATTTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
14 23 0.38
15 27 0.45
16 10 0.17
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:9033932 original size:22 final size:21
Alignment explanation
Indices: 9033856--9033932 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
9033846 GATTTATTAT
* **
9033856 TTTAAGGTTTAAGAGTTTAGTT
1 TTTAAGGTTTAGGA-TTTAGGG
* *
9033878 TTTTAGGTTTAGGGTTTAGGG
1 TTTAAGGTTTAGGATTTAGGG
*
9033899 TTTAGGGTTTTAGGATTTATGGG
1 TTTAAGG-TTTAGGATTTA-GGG
9033922 TTTAAGGTTTA
1 TTTAAGGTTTA
9033933 AATGTTTAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 10 0.23
22 25 0.57
23 9 0.20
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAGGATTTAGGG
Found at i:9034428 original size:36 final size:37
Alignment explanation
Indices: 9034361--9034433 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
9034351 ATTTATAATG
* * * *
9034361 TAGGGTTTATAGTTTATCATCTATGGTTTTAATGTTT
1 TAGGGTTTATAGTTTATCATATAGGGCTTTAAGGTTT
9034398 TAGGGTTTA-AGTTTAT-AGTATAGGGCTTTAAGGTTT
1 TAGGGTTTATAGTTTATCA-TATAGGGCTTTAAGGTTT
9034434 AGGTTTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 1 0.03
36 21 0.68
37 9 0.29
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.49
Consensus pattern (37 bp):
TAGGGTTTATAGTTTATCATATAGGGCTTTAAGGTTT
Found at i:9034436 original size:15 final size:14
Alignment explanation
Indices: 9034418--9034469 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
9034408 GTTTATAGTA
*
9034418 TAGGGCTTTAAGGTT
1 TAGGG-TTTAGGGTT
*
9034433 TAGGTTTTTAGGGTTT
1 TAGG-GTTTAGGG-TT
*
9034449 TATGGTTTAGGGTT
1 TAGGGTTTAGGGTT
9034463 TAGGGTT
1 TAGGGTT
9034470 CAAGTTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 8 0.27
15 17 0.57
16 5 0.17
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (14 bp):
TAGGGTTTAGGGTT
Found at i:9034450 original size:23 final size:22
Alignment explanation
Indices: 9034396--9034469 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
9034386 GTTTTAATGT
**
9034396 TTTAGGG-TTTAA-GTTTATAG
1 TTTAGGGTTTTAAGGTTTAGGG
* * *
9034416 TATAGGGCTTTAAGGTTTAGGTT
1 TTTAGGGTTTTAAGGTTTAGG-G
*
9034439 TTTAGGGTTTTATGGTTTAGGG
1 TTTAGGGTTTTAAGGTTTAGGG
9034461 TTTAGGGTT
1 TTTAGGGTT
9034470 CAAGTTTATG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.14
21 5 0.12
22 14 0.33
23 18 0.42
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTTAAGGTTTAGGG
Found at i:9034462 original size:7 final size:7
Alignment explanation
Indices: 9034396--9034469 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 7
9034386 GTTTTAATGT
9034396 TTTAGGG
1 TTTAGGG
*
9034403 TTTA-AG
1 TTTAGGG
**
9034409 TTTATAG
1 TTTAGGG
*
9034416 TATAGGG
1 TTTAGGG
*
9034423 CTTTAAGG
1 -TTTAGGG
*
9034431 TTTAGGTT
1 TTTAGG-G
9034439 TTTAGGG
1 TTTAGGG
*
9034446 TTTTATGG
1 -TTTAGGG
9034454 TTTAGGG
1 TTTAGGG
9034461 TTTAGGG
1 TTTAGGG
9034468 TT
1 TT
9034470 CAAGTTTATG
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
6 5 0.10
7 30 0.58
8 17 0.33
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:9034621 original size:29 final size:27
Alignment explanation
Indices: 9034589--9034664 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
9034579 TATTTAGTGT
9034589 TTTAAAGTTTATGGTTTT-GAGGTTTAATA
1 TTTAAAGTTTAT-GTTTTAG-GGTTT-ATA
**
9034618 TTTAGGGTTTATAGTTTTAGGGTTTATA
1 TTTAAAGTTTAT-GTTTTAGGGTTTATA
* *
9034646 TTTTATGTTTATGTTTTAG
1 TTTAAAGTTTATGTTTTAG
9034665 TATTTAAGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 7 0.17
28 12 0.30
29 20 0.50
30 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.21, T:0.57
Consensus pattern (27 bp):
TTTAAAGTTTATGTTTTAGGGTTTATA
Found at i:9034638 original size:15 final size:15
Alignment explanation
Indices: 9034618--9034745 Score: 74
Period size: 15 Copynumber: 8.7 Consensus size: 15
9034608 AGGTTTAATA
9034618 TTTAGGGTTTATAGT
1 TTTAGGGTTTATAGT
9034633 TTTAGGGTTTATA-T
1 TTTAGGGTTTATAGT
*
9034647 TTTA-TGTTTAT-GT
1 TTTAGGGTTTATAGT
** *
9034660 TTTAGTATTTA-AGGC
1 TTTAGGGTTTATA-GT
*
9034675 TTTAGGGTTT-TAAT
1 TTTAGGGTTTATAGT
*
9034689 GTATA-GGTTT-TAGT
1 -TTTAGGGTTTATAGT
9034703 GTTTAGGGTTTATTA-T
1 -TTTAGGGTTTA-TAGT
* *
9034719 TTTATGGCTTTATGGT
1 TTTA-GGGTTTATAGT
*
9034735 TTTAGTGTTTA
1 TTTAGGGTTTA
9034746 AAGTCTATGG
Statistics
Matches: 88, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
13 11 0.12
14 22 0.25
15 41 0.47
16 12 0.14
17 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.23, T:0.56
Consensus pattern (15 bp):
TTTAGGGTTTATAGT
Found at i:9034657 original size:13 final size:14
Alignment explanation
Indices: 9034609--9034664 Score: 62
Period size: 15 Copynumber: 4.0 Consensus size: 14
9034599 ATGGTTTTGA
9034609 GGTTTA-ATATTTAG
1 GGTTTATAT-TTTAG
9034623 GGTTTATAGTTTTAG
1 GGTTTATA-TTTTAG
9034638 GGTTTATATTTTA-
1 GGTTTATATTTTAG
* *
9034651 TGTTTATGTTTTAG
1 GGTTTATATTTTAG
9034665 TATTTAAGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
13 11 0.30
14 11 0.30
15 14 0.38
16 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (14 bp):
GGTTTATATTTTAG
Found at i:9034761 original size:7 final size:7
Alignment explanation
Indices: 9034719--9034902 Score: 74
Period size: 7 Copynumber: 25.6 Consensus size: 7
9034709 GGTTTATTAT
9034719 TTTATGG
1 TTTATGG
9034726 CTTTATGG
1 -TTTATGG
9034734 TTT-TAGTG
1 TTTAT-G-G
**
9034742 TTTAAAG
1 TTTATGG
*
9034749 TCTATGG
1 TTTATGG
9034756 TTTATGG
1 TTTATGG
9034763 TTTATGG
1 TTTATGG
9034770 CTTTA-GG
1 -TTTATGG
9034777 ATTT-TAGTG
1 -TTTAT-G-G
*
9034786 TTTATTG
1 TTTATGG
*
9034793 TTTAAGG
1 TTTATGG
*
9034800 TTTATTG
1 TTTATGG
*
9034807 TTTATGAT
1 TTTATG-G
*
9034815 TTTAGGG
1 TTTATGG
*
9034822 TTTAAGG
1 TTTATGG
9034829 TTTA-GG
1 TTTATGG
**
9034835 TTTTATTA
1 -TTTATGG
*
9034843 TTTATGA
1 TTTATGG
*
9034850 TTTAAGG
1 TTTATGG
9034857 TTTA-GG
1 TTTATGG
*
9034863 TTTTATTG
1 -TTTATGG
*
9034871 TTTATGA
1 TTTATGG
*
9034878 TTTAAGG
1 TTTATGG
9034885 TTTA-GTG
1 TTTATG-G
*
9034892 TTTAAGG
1 TTTATGG
9034899 TTTA
1 TTTA
9034903 AGTGTTTGAT
Statistics
Matches: 134, Mismatches: 27, Indels: 31
0.70 0.14 0.16
Matches are distributed among these distances:
6 6 0.04
7 100 0.75
8 26 0.19
9 2 0.01
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.55
Consensus pattern (7 bp):
TTTATGG
Found at i:9034819 original size:44 final size:43
Alignment explanation
Indices: 9034697--9034895 Score: 138
Period size: 44 Copynumber: 4.6 Consensus size: 43
9034687 ATGTATAGGT
* * *
9034697 TTTAGTGTTTAGGGTTTATTATTTTATGGCTTTATGGTTTTAGTG
1 TTTAATGTTTAAGGTTTATT-GTTTATGGCTTTA-GGTTTTAGTG
* * * *
9034742 TTTAAAGTCTATGGTTTATGGTTTATGGCTTTAGGATTTTAGTG
1 TTTAATGTTTAAGGTTTATTGTTTATGGCTTTAGG-TTTTAGTG
* ** *
9034786 TTTATTGTTTAAGGTTTATTGTTTATGATTTTAGGGTTTAAG-G
1 TTTAATGTTTAAGGTTTATTGTTTATGGCTTTA-GGTTTTAGTG
* *** * *
9034829 TTT-AGGTTTTATTATTTA-TGATTTAAGG-TTTAGGTTTTATTG
1 TTTAATG-TTTAAGGTTTATTG-TTTATGGCTTTAGGTTTTAGTG
*
9034871 TTT-ATGATTTAAGGTTTAGTGTTTA
1 TTTAATG-TTTAAGGTTTATTGTTTA
9034896 AGGTTTAAGT
Statistics
Matches: 120, Mismatches: 28, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
41 6 0.05
42 25 0.21
43 21 0.17
44 51 0.43
45 17 0.14
ACGTcount: A:0.20, C:0.02, G:0.23, T:0.56
Consensus pattern (43 bp):
TTTAATGTTTAAGGTTTATTGTTTATGGCTTTAGGTTTTAGTG
Found at i:9034895 original size:28 final size:28
Alignment explanation
Indices: 9034755--9034894 Score: 133
Period size: 28 Copynumber: 4.9 Consensus size: 28
9034745 AAAGTCTATG
* * *
9034755 GTTTATGGTTTATGGCTTTAGGATTTTAGT
1 GTTTATGATTTAAGG-TTTAGG-TTTTATT
*
9034785 GTTTATTG-TTTAAGGTTTA-TTGTTTA-T
1 GTTTA-TGATTTAAGGTTTAGGT-TTTATT
* *
9034812 GATTTTAGGGTTTAAGGTTTAGGTTTTATT
1 G--TTTATGATTTAAGGTTTAGGTTTTATT
*
9034842 ATTTATGATTTAAGGTTTAGGTTTTATT
1 GTTTATGATTTAAGGTTTAGGTTTTATT
9034870 GTTTATGATTTAAGGTTTAGTGTTT
1 GTTTATGATTTAAGGTTTAG-GTTT
9034895 AAGGTTTAAG
Statistics
Matches: 94, Mismatches: 8, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.03
28 49 0.52
29 27 0.29
30 13 0.14
31 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.23, T:0.56
Consensus pattern (28 bp):
GTTTATGATTTAAGGTTTAGGTTTTATT
Found at i:9038564 original size:22 final size:22
Alignment explanation
Indices: 9038534--9038576 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9038524 AAAGAAGAAG
9038534 TATGAAAACTCTTTAGTCCTAC
1 TATGAAAACTCTTTAGTCCTAC
*
9038556 TATGCAAACTCTTTAGTCCTA
1 TATGAAAACTCTTTAGTCCTA
9038577 ATAATGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.37
Consensus pattern (22 bp):
TATGAAAACTCTTTAGTCCTAC
Found at i:9042087 original size:23 final size:23
Alignment explanation
Indices: 9042057--9042105 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9042047 TGGTGGTTAG
*
9042057 TTTAATGG-ATGTTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
9042080 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
9042103 TTT
1 TTT
9042106 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:9045131 original size:21 final size:20
Alignment explanation
Indices: 9045080--9045135 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
9045070 TATGGAGTTT
9045080 TCAAAACAACATAA--TTAAA
1 TCAAAACAA-ATAATTTTAAA
9045099 TCAAAA-ACAATAATTTTAAAA
1 TCAAAACA-AATAATTTT-AAA
9045120 TCAAAACAAAT-ATTTT
1 TCAAAACAAATAATTTT
9045136 TTTATTTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.16
19 7 0.22
20 7 0.22
21 12 0.38
22 1 0.03
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
TCAAAACAAATAATTTTAAA
Found at i:9051509 original size:65 final size:64
Alignment explanation
Indices: 9051399--9051553 Score: 195
Period size: 65 Copynumber: 2.4 Consensus size: 64
9051389 ACACTTGGGG
* * * * * * *
9051399 TGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGTCAGGAGTGTATTGATGCATGGTTTG
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAATCAGGAGTGCATCGATGCATGG-TTA
* * *
9051464 TGCATTGGTACATAAAATGCATTCGATGTTTCAATAA-AATTAGGAGTGCATCGATGCATGGTTA
1 TGCATCGGTACACAAAATGCATTCGATGTTTCAA-AAGAATCAGGAGTGCATCGATGCATGGTTA
9051528 TGCATCGGTACACAAAATGCATTCGA
1 TGCATCGGTACACAAAATGCATTCGA
9051554 ATTAGGGTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 26 0.34
65 49 0.64
66 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (64 bp):
TGCATCGGTACACAAAATGCATTCGATGTTTCAAAAGAATCAGGAGTGCATCGATGCATGGTTA
Found at i:9051970 original size:22 final size:23
Alignment explanation
Indices: 9051894--9051971 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 23
9051884 AGTATTATGG
* * *
9051894 TTTATGGTTTGTGATC-TAAGGT
1 TTTATGGTTTATTATCTTAGGGT
*
9051916 TTTAAGGTTTTATTATCTTAGGGT
1 TTTATGG-TTTATTATCTTAGGGT
* *
9051940 TTAAT-GTTTATTGT-TTAGGGT
1 TTTATGGTTTATTATCTTAGGGT
9051961 TTTATGGTTTA
1 TTTATGGTTTA
9051972 AGGTTTATTA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 11 0.24
22 18 0.40
23 8 0.18
24 8 0.18
ACGTcount: A:0.19, C:0.03, G:0.23, T:0.55
Consensus pattern (23 bp):
TTTATGGTTTATTATCTTAGGGT
Found at i:9051970 original size:29 final size:27
Alignment explanation
Indices: 9051933--9052025 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 27
9051923 TTTTATTATC
* *
9051933 TTAGGGTTTAATGTTTATTGTTTAGGGTT
1 TTAGGGTTTAAGGTTTATTATTTA-GG-T
*
9051962 TTATGGTTTAAGGTTTATTATTTAGGT
1 TTAGGGTTTAAGGTTTATTATTTAGGT
* *
9051989 TTAGGGTTTAAGGTATATGATTTAAGGT
1 TTAGGGTTTAAGGTTTATTATTT-AGGT
*
9052017 TTAGTGTTT
1 TTAGGGTTT
9052026 TATGATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
27 21 0.38
28 14 0.25
29 21 0.38
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.53
Consensus pattern (27 bp):
TTAGGGTTTAAGGTTTATTATTTAGGT
Found at i:9052002 original size:14 final size:14
Alignment explanation
Indices: 9051933--9052111 Score: 85
Period size: 14 Copynumber: 12.6 Consensus size: 14
9051923 TTTTATTATC
*
9051933 TTAGGGTTTAATGT
1 TTAGGGTTTAAGGT
** *
9051947 TTATTGTTTAGGGTT
1 TTAGGGTTTAAGG-T
*
9051962 TTATGGTTTAAGGT
1 TTAGGGTTTAAGGT
***
9051976 TTATTATTT-AGGT
1 TTAGGGTTTAAGGT
9051989 TTAGGGTTTAAGGT
1 TTAGGGTTTAAGGT
* * *
9052003 ATATGATTTAAGGT
1 TTAGGGTTTAAGGT
* * *
9052017 TTAGTGTTTTATGATT
1 TTAG-GGTTTAAG-GT
* *
9052033 TTTGGGTTTATGGT
1 TTAGGGTTTAAGGT
* *
9052047 TTAGGTTTTAAGGC
1 TTAGGGTTTAAGGT
9052061 TTAGTGG-TTAAGGT
1 TTAG-GGTTTAAGGT
**
9052075 TTATGGG-TTGGGGT
1 TTA-GGGTTTAAGGT
**
9052089 TTAAAGTTTAAGGT
1 TTAGGGTTTAAGGT
*
9052103 TTAAGGTTT
1 TTAGGGTTT
9052112 TTAGGCTTTA
Statistics
Matches: 123, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
13 11 0.09
14 81 0.66
15 27 0.22
16 4 0.03
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTAAGGT
Found at i:9052049 original size:22 final size:21
Alignment explanation
Indices: 9051988--9052049 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
9051978 ATTATTTAGG
* *
9051988 TTTAGGGTTTAAGGTATATGA
1 TTTAGGGTTTATGGTTTATGA
* *
9052009 TTTAAGGTTTAGTGTTTTATGA
1 TTTAGGGTTTA-TGGTTTATGA
*
9052031 TTTTTGGGTTTATGGTTTA
1 -TTTAGGGTTTATGGTTTA
9052050 GGTTTTAAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 10 0.31
22 13 0.41
23 9 0.28
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTATGGTTTATGA
Found at i:9052227 original size:22 final size:21
Alignment explanation
Indices: 9052195--9052239 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
9052185 GTATAGGGAC
*
9052195 TAGGGTTTATGGTTTTAGTGTT
1 TAGGGTATATGGTTTTAG-GTT
9052217 TAGGGTATATGGTTTTAGGTT
1 TAGGGTATATGGTTTTAGGTT
9052238 TA
1 TA
9052240 AGGTTGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (21 bp):
TAGGGTATATGGTTTTAGGTT
Found at i:9052724 original size:26 final size:28
Alignment explanation
Indices: 9052669--9052727 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
9052659 TTAAAAAATT
*
9052669 AAATTATATACTCAAACCTTAAATTTCC
1 AAATTATATACTCAAACCTTAAATTCCC
* *
9052697 AAATTATATTCT-AAATCTTAAA-TCCC
1 AAATTATATACTCAAACCTTAAATTCCC
9052723 AAATT
1 AAATT
9052728 TAAATCCTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.29
27 9 0.32
28 11 0.39
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (28 bp):
AAATTATATACTCAAACCTTAAATTCCC
Found at i:9052987 original size:30 final size:30
Alignment explanation
Indices: 9052953--9053043 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
9052943 CATCTTATTA
*
9052953 TCTCAACGGCAGCACGACAACACCTTCTTC
1 TCTCAACAGCAGCACGACAACACCTTCTTC
* *
9052983 TCTCAACAACAACACGACAACACCTTCTTC
1 TCTCAACAGCAGCACGACAACACCTTCTTC
* * * *
9053013 TCTTAACAGTAGCACGGCAACTCCTTCTTC
1 TCTCAACAGCAGCACGACAACACCTTCTTC
9053043 T
1 T
9053044 TATTGGAACA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (30 bp):
TCTCAACAGCAGCACGACAACACCTTCTTC
Found at i:9053636 original size:10 final size:10
Alignment explanation
Indices: 9053621--9053654 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
9053611 GGGTATTTTA
9053621 TTTTCTCTTT
1 TTTTCTCTTT
9053631 TTTTCTCTTT
1 TTTTCTCTTT
9053641 TCTTTCTACTTT
1 T-TTTCT-CTTT
9053653 TT
1 TT
9053655 CCCTCCCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.50
11 6 0.27
12 5 0.23
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:9053949 original size:17 final size:19
Alignment explanation
Indices: 9053927--9053963 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
9053917 GTTCAAATGA
9053927 TTAAAT-TTATTTT-TATT
1 TTAAATGTTATTTTATATT
*
9053944 TTAAATGTTGTTTTATATT
1 TTAAATGTTATTTTATATT
9053963 T
1 T
9053964 ACTATATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTAAATGTTATTTTATATT
Found at i:9054348 original size:3 final size:3
Alignment explanation
Indices: 9054334--9054413 Score: 110
Period size: 3 Copynumber: 27.0 Consensus size: 3
9054324 AGTCCAAACT
* *
9054334 TTA TTT TTA TTA TTA TTA -TA TT- TTA TTTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
*
9054378 ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9054414 AATAATAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 61 0.90
4 3 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9056360 original size:143 final size:143
Alignment explanation
Indices: 9056067--9056340 Score: 374
Period size: 143 Copynumber: 1.9 Consensus size: 143
9056057 AAATCATATT
9056067 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCCTAAAGCACCTAGAAGTCCTTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCCTAAAGCACCTAGAAGTCCTTTTC
* * * * * *
9056132 TGATATTCTTAAATAAATAAATATCCTATTTTTATAAATTATATATTAATTTATTATTATTTTTA
66 TGATATTCTTAAATAAATAAATATCCTATTTATAAAAATAATATATTAATATATTAATATTATTA
* **
9056197 GAAAAATGTTTTA
131 GAAAAATCTTAAA
* * *
9056210 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGTTGTCTTAAAGCACCTAGAAGTCGTTTTC
1 TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCCTAAAGCACCTAGAAGTCCTTTTC
*
9056275 TGATATT-TCTAAATAAATAAATATCTTATTTATAAAAATAA-ATA-TATATATATATAGATATT
66 TGATATTCT-TAAATAAATAAATATCCTATTTATAAAAATAATATATTA-ATATAT-TA-ATATT
9056337 ATTA
127 ATTA
9056341 TATTTTCTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
141 2 0.02
142 9 0.08
143 99 0.85
144 7 0.06
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (143 bp):
TTAATATTTATTTATTTTTTAATATTAAGAAATGGGCTGTCCTAAAGCACCTAGAAGTCCTTTTC
TGATATTCTTAAATAAATAAATATCCTATTTATAAAAATAATATATTAATATATTAATATTATTA
GAAAAATCTTAAA
Found at i:9056899 original size:24 final size:28
Alignment explanation
Indices: 9056832--9056889 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
9056822 TAAACCTTTC
* *
9056832 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATACTTATTA
9056860 TTTTCATAATATTTATATATA-TTATT-
1 TTTTCATAATATTTATATATACTTATTA
9056886 TTTT
1 TTTT
9056890 ATATCTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTCATAATATTTATATATACTTATTA
Found at i:9058352 original size:43 final size:44
Alignment explanation
Indices: 9058291--9058377 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
9058281 TGGCTTTAGA
* *
9058291 GAAGTTAGGAGGGAAAGTTATCCCCTATATGT-AAAGTTTTGTT
1 GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
* *
9058334 GAAGTTAGGACTGAAAGTTGTCCCCTACATGTAAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
9058378 TGATGCACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.72
44 11 0.28
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTGTT
Found at i:9061047 original size:72 final size:76
Alignment explanation
Indices: 9060922--9061108 Score: 211
Period size: 72 Copynumber: 2.4 Consensus size: 76
9060912 TACCCCCTAA
* *** * *
9060922 AGCAATTGGTTAATAGCTCCGGCTTTATGGATAATATTCACCTAGTTTGTTATA-CT-TG-AAT-
1 AGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCACCTAACCTATTATATATATGCAATA
9060983 TGTCCCTCTAG
66 TGTCCCTCTAG
* *
9060994 AGCAATTGGTTAATTGCCCCGGCTTTATGGATAATATTCAGCTAACCTATTATATTATATGCAAT
1 AGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCACCTAACCTATTATA-TATATGCAAT
9061059 AAAACTGTCCCTCTAG
65 ---A-TGTCCCTCTAG
* *
9061075 AGCAATTAGTTAATCGCCCCGGCTTTATGGATAA
1 AGCAATTGGTTAATAGCCCCGGCTTTATGGATAA
9061109 GTTTCAACTA
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
72 47 0.49
74 1 0.01
75 2 0.02
76 3 0.03
81 43 0.45
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (76 bp):
AGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCACCTAACCTATTATATATATGCAATA
TGTCCCTCTAG
Found at i:9065548 original size:22 final size:21
Alignment explanation
Indices: 9065517--9065589 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 21
9065507 TCTACATTCC
9065517 TCAAAGATGATAGATTCTCTCT
1 TCAAAGATGATAGATTCTCT-T
*
9065539 TCAAAAATGATAGATTCTCTT
1 TCAAAGATGATAGATTCTCTT
9065560 TCCAAAGATGATAGATTCTCTTT
1 T-CAAAGATGATAGATTCTC-TT
9065583 TCAAAGA
1 TCAAAGA
9065590 CGAAAGCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
21 2 0.04
22 42 0.89
23 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (21 bp):
TCAAAGATGATAGATTCTCTT
Found at i:9066151 original size:17 final size:17
Alignment explanation
Indices: 9066106--9066155 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9066096 CCAGGTAGAG
*
9066106 TTCATAATGAGAAGAAC
1 TTCATAATGAGAAGAAA
** * *
9066123 TGAAGAAGGAGAAGAAA
1 TTCATAATGAGAAGAAA
9066140 TTCATAATGAGAAGAA
1 TTCATAATGAGAAGAA
9066156 TTTGTTCAAC
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.52, C:0.06, G:0.24, T:0.18
Consensus pattern (17 bp):
TTCATAATGAGAAGAAA
Found at i:9066154 original size:107 final size:110
Alignment explanation
Indices: 9065989--9066284 Score: 413
Period size: 107 Copynumber: 2.7 Consensus size: 110
9065979 CATTTCCAAA
9065989 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAA--CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGT
* *
9066054 TCAACCTTTTGCTCGAATTCATCACTTGATGGATCAGCATTGCCAGG
64 TCAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGG
* *
9066101 TAGAGTTCATAATGAGAAG-A-A-CTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTT
1 -AGAGTTCATAATGAGAAGAACATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * **
9066162 CAACCTTTTGCTTGAATTCATCACTCGATGGATCAACTTTTTCAGG
65 CAACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGG
* *
9066208 GGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACATG
1 AG-AGTTCATAATGAGAAGAA--CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
9066272 TTCAACCTTTTGC
63 TTCAACCTTTTGC
9066285 CTGACTCTAT
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
106 1 0.01
107 84 0.51
108 11 0.07
109 1 0.01
111 4 0.02
112 45 0.27
113 18 0.11
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (110 bp):
AGAGTTCATAATGAGAAGAACATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCGAATTCATCACTCGATGGATCAACATTGCCAGG
Found at i:9066274 original size:20 final size:20
Alignment explanation
Indices: 9066212--9066275 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
9066202 TTCAGGGGAA
9066212 GTTCATAATGAGAAGAAC-T
1 GTTCATAATGAGAAGAACAT
** * *
9066231 CATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACAT
9066251 GTTCATAATGAGAAGAACAT
1 GTTCATAATGAGAAGAACAT
9066271 GTTCA
1 GTTCA
9066276 ACCTTTTGCC
Statistics
Matches: 32, Mismatches: 8, Indels: 9
0.65 0.16 0.18
Matches are distributed among these distances:
18 3 0.09
19 10 0.31
20 16 0.50
21 3 0.09
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACAT
Found at i:9066702 original size:116 final size:116
Alignment explanation
Indices: 9066489--9066721 Score: 403
Period size: 116 Copynumber: 2.0 Consensus size: 116
9066479 TAATGAGAAG
* * *
9066489 AACTTATCTGAAGAAGGAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCA
1 AACTCATCTGAAAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCA
* *
9066554 TCACATATTGAAGCCAAATTAACAACCTCTCTTTTGAAGATCAGCATTTCC
66 TCACATATTGAAGCCAAATTAACAACCCCTCTTTTGAAAATCAGCATTTCC
* *
9066605 AACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAATAACTTGTTCAACCTTGCCTTAATTCA
1 AACTCATCTGAAAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCA
9066670 TCACATATTGAAGCCAAATTAACAACCCCTCTTTTGAAAATCAGCATTTCC
66 TCACATATTGAAGCCAAATTAACAACCCCTCTTTTGAAAATCAGCATTTCC
9066721 A
1 A
9066722 GAAGGAGTTC
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (116 bp):
AACTCATCTGAAAAAGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCCTTAATTCA
TCACATATTGAAGCCAAATTAACAACCCCTCTTTTGAAAATCAGCATTTCC
Found at i:9067031 original size:7 final size:6
Alignment explanation
Indices: 9067005--9067045 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
9066995 TTGTCCCAAC
*
9067005 TTTATT TTTATT TTTA-T TATA-T TTTATT TATTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT T-TTATT TTTATT
9067046 ATTAATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 8 0.26
6 17 0.55
7 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:9067038 original size:23 final size:22
Alignment explanation
Indices: 9067005--9067047 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
9066995 TTGTCCCAAC
9067005 TTTATTTTTATTTTTATTATAT
1 TTTATTTTTATTTTTATTATAT
9067027 TTTATTTATTATTTTTATTAT
1 TTTATTT-TTATTTTTATTAT
9067048 TAATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTATAT
Found at i:9067076 original size:9 final size:9
Alignment explanation
Indices: 9067006--9067079 Score: 80
Period size: 9 Copynumber: 8.3 Consensus size: 9
9066996 TGTCCCAACT
*
9067006 TTATTTTTA
1 TTATTATTA
*
9067015 TTTTTATTA
1 TTATTATTA
9067024 -TATT-TTA
1 TTATTATTA
*
9067031 TTTATTATTT
1 -TTATTATTA
9067041 TTATTATTA
1 TTATTATTA
*
9067050 ATATTATTA
1 TTATTATTA
*
9067059 TTAATATTA
1 TTATTATTA
9067068 TTATTATTA
1 TTATTATTA
9067077 TTA
1 TTA
9067080 AATAATAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
7 3 0.06
8 3 0.06
9 45 0.85
10 2 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTATTA
Found at i:9067078 original size:12 final size:12
Alignment explanation
Indices: 9067006--9067079 Score: 80
Period size: 12 Copynumber: 6.2 Consensus size: 12
9066996 TGTCCCAACT
* *
9067006 TTATTTTTATTT
1 TTATTATTATTA
9067018 TTATTA-TATT-
1 TTATTATTATTA
*
9067028 TTATTTATTATTT
1 TTA-TTATTATTA
*
9067041 TTATTATTAATA
1 TTATTATTATTA
*
9067053 TTATTATTAATA
1 TTATTATTATTA
9067065 TTATTATTATTA
1 TTATTATTATTA
9067077 TTA
1 TTA
9067080 AATAATAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
10 3 0.05
11 7 0.13
12 42 0.76
13 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:9068359 original size:13 final size:13
Alignment explanation
Indices: 9068341--9068365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9068331 TTAATTTAAT
9068341 TTAATTTGATATC
1 TTAATTTGATATC
9068354 TTAATTTGATAT
1 TTAATTTGATAT
9068366 ATATTCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
TTAATTTGATATC
Found at i:9080617 original size:31 final size:31
Alignment explanation
Indices: 9080581--9080657 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
9080571 AAGTGACGTA
9080581 ATTGGAATCTAGCAACGTTTTACACCATTAG
1 ATTGGAATCTAGCAACGTTTTACACCATTAG
*
9080612 ATTGGAATCTAACAACGTTTTACACCATTAG
1 ATTGGAATCTAGCAACGTTTTACACCATTAG
9080643 ATTGGAATCTAGCAA
1 ATTGGAATCTAGCAA
9080658 TGTTCCACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (31 bp):
ATTGGAATCTAGCAACGTTTTACACCATTAG
Found at i:9085537 original size:24 final size:24
Alignment explanation
Indices: 9085510--9085622 Score: 95
Period size: 24 Copynumber: 4.7 Consensus size: 24
9085500 TATATCAAAA
* *
9085510 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAATCAGAATTCAAGTCAAGT
* *
9085534 ATCAGATCAGAATTCATGTCAAGT
1 ATCAAATCAGAATTCAAGTCAAGT
** * *
9085558 ATCGGATCAGAATCCAGGTCAAGT
1 ATCAAATCAGAATTCAAGTCAAGT
* * *
9085582 ATCAAATCAAAATCCATGTC-AGAT
1 ATCAAATCAGAATTCAAGTCAAG-T
9085606 ATCATAA-CAGAATTCAA
1 ATCA-AATCAGAATTCAA
9085623 ATCGGAAATC
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
23 2 0.03
24 69 0.95
25 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (24 bp):
ATCAAATCAGAATTCAAGTCAAGT
Found at i:9085617 original size:48 final size:48
Alignment explanation
Indices: 9085527--9085618 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
9085517 CATAATTCAA
* * * * *
9085527 GTCAAGTATCAGATCAGAATTCATGTCAAGTATCGGATCAGAATCCAG
1 GTCAAGTATCAAATCAAAATCCATGTCAAGTATCAGAACAGAATCCAG
*
9085575 GTCAAGTATCAAATCAAAATCCATGTC-AGATATCATAACAGAAT
1 GTCAAGTATCAAATCAAAATCCATGTCAAG-TATCAGAACAGAAT
9085619 TCAAATCGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
47 2 0.05
48 35 0.95
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAAATCAAAATCCATGTCAAGTATCAGAACAGAATCCAG
Found at i:9090033 original size:24 final size:24
Alignment explanation
Indices: 9090006--9090099 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 24
9089996 TATATCAAAA
* *
9090006 ATCAAAACATAATTCAAGTCAAGT
1 ATCAGAACAGAATTCAAGTCAAGT
** *
9090030 ATCAGATTAGAATTCATGTCAAGT
1 ATCAGAACAGAATTCAAGTCAAGT
* * * * *
9090054 ATCAGATCAAAATCCATGTCAGGT
1 ATCAGAACAGAATTCAAGTCAAGT
* *
9090078 ATCATAACAGAATTCAAATCAA
1 ATCAGAACAGAATTCAAGTCAA
9090100 AAATCAGATA
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (24 bp):
ATCAGAACAGAATTCAAGTCAAGT
Found at i:9093651 original size:3 final size:3
Alignment explanation
Indices: 9093643--9093702 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
9093633 ATGTTTCTAT
9093643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9093691 TTA TTA TTA TTA
1 TTA TTA TTA TTA
9093703 ATATGATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9094976 original size:20 final size:22
Alignment explanation
Indices: 9094953--9094998 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
9094943 TCCTATTTTA
*
9094953 AAATTATATTATAA-TTATA-T
1 AAATTAAATTATAAGTTATATT
9094973 AAATTAAATTATAAGTTATATT
1 AAATTAAATTATAAGTTATATT
9094995 AAAT
1 AAAT
9094999 AATAATCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATTAAATTATAAGTTATATT
Found at i:9094995 original size:12 final size:11
Alignment explanation
Indices: 9094954--9094995 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
9094944 CCTATTTTAA
9094954 AATTATATTAT
1 AATTATATTAT
9094965 AATTATA-TA-
1 AATTATATTAT
*
9094974 AATTAAATTAT
1 AATTATATTAT
9094985 AAGTTATATTA
1 AA-TTATATTA
9094996 AATAATAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.23
10 4 0.15
11 9 0.35
12 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (11 bp):
AATTATATTAT
Found at i:9095047 original size:14 final size:14
Alignment explanation
Indices: 9095028--9095054 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9095018 TACTAATATA
9095028 AATTAATGATTAAT
1 AATTAATGATTAAT
9095042 AATTAATGATTAA
1 AATTAATGATTAA
9095055 AACATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTAATGATTAAT
Found at i:9096873 original size:183 final size:184
Alignment explanation
Indices: 9096659--9097023 Score: 536
Period size: 183 Copynumber: 2.0 Consensus size: 184
9096649 ATTGCTTCAT
* * *
9096659 TACTCTTCCGTGAAGGTTTCATATTTTGCTGAAAAATTCGTTCCACTACTCTTTCGTGGAGAGCA
1 TACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGAGCA
* * *
9096724 AATTTTGATCTTGCTCTTACTCTTGCTTTACTAATCTTCCGTGAAGGTTTCATGCTTTGCTGAAA
66 AATTTTGATCTTGCTCTTACTCTTCCTTCACTAATCTTCCGTGAAGGTTTCATACTTTGCT-AAA
* ** *
9096789 -AATCTGTT-CTACTCTTTTGTGGAGAGCGAATTTTGATCTTGCTCTTGTTGCAC
130 CAATCCGTTCCTACTCTTCCGTGGAGAACGAATTTTGATCTTGCTCTTGTTGCAC
* **
9096842 TACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGTAGAGTG
1 TACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGAGCA
* * *
9096907 AATTTTGATCTTGCTCTTGCTCTTCCTTCACTACTCTTTCGTGAAGGTTTCATACTTTGCTAAAC
66 AATTTTGATCTTGCTCTTACTCTTCCTTCACTAATCTTCCGTGAAGGTTTCATACTTTGCTAAAC
*
9096972 AATCCGTTCCACTACTCTTCCGTGTAGAACGAATTTTGATCTTGCTCTTGTT
131 AATCCGTT-C-CTACTCTTCCGTGGAGAACGAATTTTGATCTTGCTCTTGTT
9097024 ATTGCTTCAC
Statistics
Matches: 161, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
182 3 0.02
183 121 0.75
186 37 0.23
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (184 bp):
TACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCGTGGAGAGCA
AATTTTGATCTTGCTCTTACTCTTCCTTCACTAATCTTCCGTGAAGGTTTCATACTTTGCTAAAC
AATCCGTTCCTACTCTTCCGTGGAGAACGAATTTTGATCTTGCTCTTGTTGCAC
Found at i:9096944 original size:50 final size:50
Alignment explanation
Indices: 9096885--9097054 Score: 131
Period size: 50 Copynumber: 3.5 Consensus size: 50
9096875 AAATCCGTTC
*
9096885 CACTACTCTTCCGTGTAGAGTGAATTTTGATCTTGCTCTTGCTCTTCCTT
1 CACTACTCTTCCGTGTAGAGTGAATTTTGATCTTGCTCTTGCTATTCCTT
* * *** *
9096935 CACTACTCTTTCGTG-A-AG-G---TTTCATACTTTGCT-AAAC-AATCCGTT
1 CACTACTCTTCCGTGTAGAGTGAATTTTGAT-C-TTGCTCTTGCTATTCC-TT
** * *
9096980 CCACTACTCTTCCGTGTAGAACGAATTTTGATCTTGCTCTTGTTATTGCTT
1 -CACTACTCTTCCGTGTAGAGTGAATTTTGATCTTGCTCTTGCTATTCCTT
* *
9097031 CACTACTCTTCCGTGAAGACTGAA
1 CACTACTCTTCCGTGTAGAGTGAA
9097055 AATTACTAAC
Statistics
Matches: 89, Mismatches: 19, Indels: 24
0.67 0.14 0.18
Matches are distributed among these distances:
44 8 0.09
45 4 0.04
46 19 0.21
47 2 0.02
48 3 0.03
49 2 0.02
50 40 0.45
51 3 0.03
52 8 0.09
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.39
Consensus pattern (50 bp):
CACTACTCTTCCGTGTAGAGTGAATTTTGATCTTGCTCTTGCTATTCCTT
Found at i:9096955 original size:96 final size:96
Alignment explanation
Indices: 9096650--9097048 Score: 539
Period size: 96 Copynumber: 4.2 Consensus size: 96
9096640 CAGAATTGGA
* * * *
9096650 TTGCTTCATTACTCTTCCGTGAAGGTTTCATATTTTGCTGAAAAATTCGTTCCACTACTCTTTCG
1 TTGCTTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCG
* *
9096715 TGGAGAGCAAATTTTGATCTTGCTCTTACTC
66 TGGAGAGCGAATTTTGATCTTGCTCTTGCTC
* * * * **
9096746 TTGCTTTACTAATCTTCCGTGAAGGTTTCATGCTTTGCTGAAAAATCTGTT---CTACTCTTTTG
1 TTGCTTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCG
9096808 TGGAGAGCGAATTTTGATCTTGCTCTTG---
66 TGGAGAGCGAATTTTGATCTTGCTCTTGCTC
9096836 TTG---CACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCG
1 TTGCTTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCG
* *
9096898 TGTAGAGTGAATTTTGATCTTGCTCTTGCTC
66 TGGAGAGCGAATTTTGATCTTGCTCTTGCTC
* *
9096929 TTCCTTCACTACTCTTTCGTGAAGGTTTCATACTTTGCT-AAACAATCCGTTCCACTACTCTTCC
1 TTGCTTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAA-AATCCGTTCCACTACTCTTCC
* * * *
9096993 GTGTAGAACGAATTTTGATCTTGCTCTTGTTA
65 GTGGAGAGCGAATTTTGATCTTGCTCTTGCTC
9097025 TTGCTTCACTACTCTTCCGTGAAG
1 TTGCTTCACTACTCTTCCGTGAAG
9097049 ACTGAAAATT
Statistics
Matches: 267, Mismatches: 26, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
87 41 0.15
90 38 0.14
93 38 0.14
95 3 0.01
96 147 0.55
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.41
Consensus pattern (96 bp):
TTGCTTCACTACTCTTCCGTGAAGGTTTCATACTTTGCTGAAAAATCCGTTCCACTACTCTTCCG
TGGAGAGCGAATTTTGATCTTGCTCTTGCTC
Found at i:9097215 original size:20 final size:20
Alignment explanation
Indices: 9097192--9097276 Score: 136
Period size: 20 Copynumber: 4.3 Consensus size: 20
9097182 CGAAAGACTG
*
9097192 ACAAATGACCCGAAGGATTT
1 ACAAATGACCCGAAGGCTTT
9097212 ACAAATGACCC-AAGGCTTT
1 ACAAATGACCCGAAGGCTTT
*
9097231 ACAAATAACCCGAAGGCTTT
1 ACAAATGACCCGAAGGCTTT
*
9097251 ACAAATGACCCAAAGGCTTT
1 ACAAATGACCCGAAGGCTTT
9097271 ACAAAT
1 ACAAAT
9097277 TTGTGGGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.28
20 43 0.72
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (20 bp):
ACAAATGACCCGAAGGCTTT
Found at i:9097236 original size:39 final size:40
Alignment explanation
Indices: 9097192--9097276 Score: 145
Period size: 39 Copynumber: 2.1 Consensus size: 40
9097182 CGAAAGACTG
*
9097192 ACAAATGACCCGAAGGATTTACAAATGACCC-AAGGCTTT
1 ACAAATAACCCGAAGGATTTACAAATGACCCAAAGGCTTT
*
9097231 ACAAATAACCCGAAGGCTTTACAAATGACCCAAAGGCTTT
1 ACAAATAACCCGAAGGATTTACAAATGACCCAAAGGCTTT
9097271 ACAAAT
1 ACAAAT
9097277 TTGTGGGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 29 0.67
40 14 0.33
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (40 bp):
ACAAATAACCCGAAGGATTTACAAATGACCCAAAGGCTTT
Found at i:9111551 original size:25 final size:21
Alignment explanation
Indices: 9111523--9111597 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 21
9111513 GGTAAATACT
9111523 AAATAATATTATTAATCCTATTATA
1 AAATAATATTA-TAAT--TA-TATA
*
9111548 AAATTATATTATAATTATATA
1 AAATAATATTATAATTATATA
*
9111569 AATTAA-ATTATAATTTATATA
1 AAATAATATTATAA-TTATATA
9111590 AAATAATA
1 AAATAATA
9111598 ATCCTATAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.16
21 20 0.45
22 3 0.07
24 4 0.09
25 10 0.23
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATAATATTATAATTATATA
Found at i:9111570 original size:21 final size:22
Alignment explanation
Indices: 9111544--9111593 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
9111534 TTAATCCTAT
*
9111544 TATAAAATTATATTATAA-TTA
1 TATAAAATTAAATTATAATTTA
9111565 TAT-AAATTAAATTATAATTTA
1 TATAAAATTAAATTATAATTTA
9111586 TATAAAAT
1 TATAAAAT
9111594 AATAATCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.50
21 9 0.35
22 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATAAAATTAAATTATAATTTA
Found at i:9111638 original size:15 final size:15
Alignment explanation
Indices: 9111618--9111657 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9111608 ATAAATACTA
*
9111618 ATAATAATTAATCAT
1 ATAATAATTAATAAT
9111633 ATAATAATTAATAAT
1 ATAATAATTAATAAT
*
9111648 -TAATGATTAA
1 ATAATAATTAA
9111658 AACATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (15 bp):
ATAATAATTAATAAT
Found at i:9111644 original size:7 final size:7
Alignment explanation
Indices: 9111619--9111657 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
9111609 TAAATACTAA
9111619 TAATAAT
1 TAATAAT
*
9111626 TAATCAT
1 TAATAAT
9111633 ATAATAAT
1 -TAATAAT
9111641 TAATAAT
1 TAATAAT
*
9111648 TAATGAT
1 TAATAAT
9111655 TAA
1 TAA
9111658 AACATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 22 0.79
8 6 0.21
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (7 bp):
TAATAAT
Found at i:9115893 original size:27 final size:27
Alignment explanation
Indices: 9115859--9115919 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
9115849 ATATATAAAA
* *
9115859 ATAT-TTTTAT-ACATATTATTTATATT
1 ATATATTTTATCA-ATAATATTTATAAT
9115885 ATATATTTTATCAATAATATTTATAAT
1 ATATATTTTATCAATAATATTTATAAT
*
9115912 ATAAATTT
1 ATATATTT
9115920 GAATTGTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 4 0.13
27 25 0.83
28 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (27 bp):
ATATATTTTATCAATAATATTTATAAT
Found at i:9129208 original size:21 final size:21
Alignment explanation
Indices: 9129174--9129221 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9129164 CAACATTTTC
*
9129174 ATTTTAGGACAAAAAGT-TCTT
1 ATTTTAGGACAAAAGGTCT-TT
**
9129195 ATTTTAGGGTAAAAGGTCTTT
1 ATTTTAGGACAAAAGGTCTTT
9129216 ATTTTA
1 ATTTTA
9129222 AACTGTCTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (21 bp):
ATTTTAGGACAAAAGGTCTTT
Found at i:9135941 original size:20 final size:21
Alignment explanation
Indices: 9135918--9135957 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9135908 AATGAGTTAG
*
9135918 ATAATAAT-GAATGAGCTAAC
1 ATAATAATAAAATGAGCTAAC
*
9135938 ATAATCATAAAATGAGCTAA
1 ATAATAATAAAATGAGCTAA
9135958 GTATGAATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
ATAATAATAAAATGAGCTAAC
Found at i:9136319 original size:38 final size:38
Alignment explanation
Indices: 9136265--9136343 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
9136255 TTAAATAAAG
*
9136265 CAAGATGTAAATAAGTAGGTGCAGAAGTAAGATCAAAT
1 CAAGATGTAAAGAAGTAGGTGCAGAAGTAAGATCAAAT
*
9136303 CAAGATGTAAAGAAGTAGGTGCAGAAGTAGGATCAAAT
1 CAAGATGTAAAGAAGTAGGTGCAGAAGTAAGATCAAAT
9136341 CAA
1 CAA
9136344 TATATCAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (38 bp):
CAAGATGTAAAGAAGTAGGTGCAGAAGTAAGATCAAAT
Found at i:9141578 original size:2 final size:2
Alignment explanation
Indices: 9141571--9141645 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
9141561 GACTTTACTC
9141571 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9141613 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9141646 TTATTTATTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9143841 original size:36 final size:35
Alignment explanation
Indices: 9143761--9143874 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
9143751 TGGCAACCAA
9143761 CTTTGAAAATGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
9143796 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATGTTTTTCAAAGTTTGGTAAATGTTT
9143831 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAA-GTTT
1 CTTTG-AAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
9143866 -GTTGAAAAT
1 CTTTGAAAAT
9143875 ATGAATGGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
33 5 0.07
34 3 0.04
35 43 0.57
36 24 0.32
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (35 bp):
CTTTGAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:9148250 original size:21 final size:20
Alignment explanation
Indices: 9148226--9148289 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
9148216 CCAACTTTGA
9148226 AAATAGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
*
9148247 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
9148261 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
9148282 AAATGTTT
1 AAATGTTT
9148290 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 8 0.24
21 9 0.26
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:9148259 original size:35 final size:35
Alignment explanation
Indices: 9148220--9148320 Score: 168
Period size: 35 Copynumber: 2.9 Consensus size: 35
9148210 TGGCAACCAA
9148220 CTTTGAAAATAGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATAGTTTTCAAAGTTTGGTAAATGTTT
*
9148255 CTTTGAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAATAGTTTTCAAAGTTTGGTAAATGTTT
9148290 CTTTGAAAA-ATGTTTTTCAAAGTTTGGTAAA
1 CTTTGAAAATA-G-TTTTCAAAGTTTGGTAAA
9148321 ATTTGGTAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 44 0.71
36 18 0.29
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.45
Consensus pattern (35 bp):
CTTTGAAAATAGTTTTCAAAGTTTGGTAAATGTTT
Found at i:9152090 original size:8 final size:7
Alignment explanation
Indices: 9152040--9152094 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
9152030 TTATAGAATC
9152040 TAAAA-A
1 TAAAATA
9152046 TAAAATA
1 TAAAATA
9152053 TAAAATA
1 TAAAATA
9152060 TAAAAAATA
1 T--AAAATA
9152069 TAAAA-A
1 TAAAATA
9152075 TAAAATA
1 TAAAATA
*
9152082 -AAATTA
1 TAAAATA
9152088 TAAAATA
1 TAAAATA
9152095 CAACTAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
6 16 0.38
7 19 0.45
9 7 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAAATA
Found at i:9152092 original size:27 final size:28
Alignment explanation
Indices: 9152027--9152092 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
9152017 TTATAAATTC
* *
9152027 AAATTAT-AGAATCTAAAAATAAAATAT
1 AAATTATAAAAATATAAAAATAAAATAT
*
9152054 AAAATATAAAAAATATAAAAATAAAATA-
1 AAATTAT-AAAAATATAAAAATAAAATAT
9152082 AAATTATAAAA
1 AAATTATAAAA
9152093 TACAACTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 10 0.30
28 6 0.18
29 17 0.52
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (28 bp):
AAATTATAAAAATATAAAAATAAAATAT
Found at i:9157331 original size:24 final size:23
Alignment explanation
Indices: 9157304--9157357 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
9157294 AACGAATGCT
* * *
9157304 AACGAATATGTTCGCAAACATTTA
1 AACGAACACGTTCACAAACA-TTA
*
9157328 AACGAACACGTTCACGAACATTA
1 AACGAACACGTTCACAAACATTA
9157351 AACGAAC
1 AACGAAC
9157358 GAACACGAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (23 bp):
AACGAACACGTTCACAAACATTA
Found at i:9161161 original size:9 final size:9
Alignment explanation
Indices: 9161149--9161198 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
9161139 GTTTATCAAG
9161149 TTTGACCAA
1 TTTGACCAA
9161158 TTTGA-CAA
1 TTTGACCAA
9161166 GTTTGACCAA
1 -TTTGACCAA
*
9161176 TTT-AACAA
1 TTTGACCAA
*
9161184 GTTTGACAAA
1 -TTTGACCAA
9161194 TTTGA
1 TTTGA
9161199 TGTGCAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 7 0.21
9 21 0.62
10 6 0.18
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (9 bp):
TTTGACCAA
Found at i:9161168 original size:18 final size:18
Alignment explanation
Indices: 9161145--9161198 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
9161135 ACAAGTTTAT
9161145 CAAGTTTGACCAATTTGA
1 CAAGTTTGACCAATTTGA
*
9161163 CAAGTTTGACCAATTTAA
1 CAAGTTTGACCAATTTGA
*
9161181 CAAGTTTGACAAATTTGA
1 CAAGTTTGACCAATTTGA
9161199 TGTGCAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (18 bp):
CAAGTTTGACCAATTTGA
Found at i:9167716 original size:23 final size:23
Alignment explanation
Indices: 9167690--9167743 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
9167680 ATTCGTGTTC
*
9167690 GTTCATTTAAGGTTCGTAAACGT
1 GTTCATTTAAGGTTCGTAAACAT
* * *
9167713 GTTCGTTTAATGTTCGTGAACAT
1 GTTCATTTAAGGTTCGTAAACAT
9167736 GTTCATTT
1 GTTCATTT
9167744 TGATGTTTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.44
Consensus pattern (23 bp):
GTTCATTTAAGGTTCGTAAACAT
Found at i:9168370 original size:20 final size:20
Alignment explanation
Indices: 9168345--9168384 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9168335 TAAATCTTAT
* *
9168345 ATATTTTTAAATTTATAAAA
1 ATATTTTAAAATATATAAAA
9168365 ATATTTTAAAATATATAAAA
1 ATATTTTAAAATATATAAAA
9168385 CTAGAAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTTTAAAATATATAAAA
Found at i:9168876 original size:32 final size:32
Alignment explanation
Indices: 9168840--9168901 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
9168830 AATAATCAAC
* **
9168840 ACTAAATAACTCCCACCCATGTAACCCTTCTT
1 ACTAAAGAACTCCCACCCAAATAACCCTTCTT
*
9168872 ACTAAAGAACTCCTACCCAAATAACCCTTC
1 ACTAAAGAACTCCCACCCAAATAACCCTTC
9168902 CTCCACTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.35, C:0.37, G:0.03, T:0.24
Consensus pattern (32 bp):
ACTAAAGAACTCCCACCCAAATAACCCTTCTT
Found at i:9169923 original size:27 final size:27
Alignment explanation
Indices: 9169886--9169939 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9169876 CATAAACGAA
9169886 TATTATATGAACTGTTCACAAGCAATT
1 TATTATATGAACTGTTCACAAGCAATT
9169913 TATTATATGAACTGTTCACAAGCAATT
1 TATTATATGAACTGTTCACAAGCAATT
9169940 CATCGAACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (27 bp):
TATTATATGAACTGTTCACAAGCAATT
Found at i:9171747 original size:21 final size:22
Alignment explanation
Indices: 9171721--9171773 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
9171711 TTCGTTGAAC
*
9171721 ATCCATACTCTCGAA-ATGAGT
1 ATCCATACTCTCCAAGATGAGT
*
9171742 ATCCATACTC-CCAAGTTGAGT
1 ATCCATACTCTCCAAGATGAGT
9171763 ATCCATACTCT
1 ATCCATACTCT
9171774 TCAACATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 25 0.89
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCCATACTCTCCAAGATGAGT
Found at i:9177648 original size:81 final size:81
Alignment explanation
Indices: 9177553--9177790 Score: 308
Period size: 81 Copynumber: 2.9 Consensus size: 81
9177543 ATATCCTAAT
9177553 ATATATA-TGGCGTTTTTGTGAAAAAGCCGCTAAAAACTCACACTTTAGTGGCTTTTATGTAAAA
1 ATATATAGTGGCGTTTTTGTGAAAAAGCCGCTAAAAACTCACACTTTAGTGGCTTTTATGTAAAA
*
9177617 ACGCCGATATAG-CTAG
66 ACGCCGCTATAGTC-AG
*
9177633 ATATATAGTGGCGTTTTTGTGAAAAAGCCGCTAAAGACTCACACTTTAGTGG-TGTTTATGTAAA
1 ATATATAGTGGCGTTTTTGTGAAAAAGCCGCTAAAAACTCACACTTTAGTGGCT-TTTATGTAAA
*
9177697 CAA-GTCGCTATAGTCAG
65 -AACGCCGCTATAGTCAG
* * ** *
9177714 ATATATAGTGGTGTTTATGTGAAAACA-CCGCTAAAAA-TGCGTACTTTAGTGGCGTTTATGTTA
1 ATATATAGTGGCGTTTTTGTGAAAA-AGCCGCTAAAAACT-CACACTTTAGTGGCTTTTATG-TA
9177777 AAAACGCCGCTATA
63 AAAACGCCGCTATA
9177791 AACGCAAACA
Statistics
Matches: 139, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
80 9 0.06
81 114 0.82
82 16 0.12
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (81 bp):
ATATATAGTGGCGTTTTTGTGAAAAAGCCGCTAAAAACTCACACTTTAGTGGCTTTTATGTAAAA
ACGCCGCTATAGTCAG
Found at i:9177683 original size:41 final size:41
Alignment explanation
Indices: 9177560--9177788 Score: 163
Period size: 41 Copynumber: 5.6 Consensus size: 41
9177550 AATATATATA
* *
9177560 TGGCGTTTTTGTGAAAAAGCCGCTAAAAACTCACACTTTAG
1 TGGCGTTTATGTGAAAAAGCCGCTAAAGACTCACACTTTAG
* * * *
9177601 TGGCTTTTATGT-AAAAACGCCGATATAG-CT-AGA-TATATAG
1 TGGCGTTTATGTGAAAAA-GCCGCTAAAGACTCACACT-T-TAG
*
9177641 TGGCGTTTTTGTGAAAAAGCCGCTAAAGACTCACACTTTAG
1 TGGCGTTTATGTGAAAAAGCCGCTAAAGACTCACACTTTAG
* * * *
9177682 TGGTGTTTATGT-AAACAAGTCGCTATAG--TCAGA-TATATAG
1 TGGCGTTTATGTGAAA-AAGCCGCTAAAGACTCACACT-T-TAG
* * **
9177722 TGGTGTTTATGTGAAAACA-CCGCTAAA-AATGCGTACTTTAG
1 TGGCGTTTATGTGAAAA-AGCCGCTAAAGACT-CACACTTTAG
*
9177763 TGGCGTTTATGTTAAAAACGCCGCTA
1 TGGCGTTTATGTGAAAAA-GCCGCTA
9177789 TAAACGCAAA
Statistics
Matches: 148, Mismatches: 22, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
38 2 0.01
39 8 0.05
40 54 0.36
41 70 0.47
42 12 0.08
43 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (41 bp):
TGGCGTTTATGTGAAAAAGCCGCTAAAGACTCACACTTTAG
Found at i:9177746 original size:40 final size:41
Alignment explanation
Indices: 9177598--9177746 Score: 118
Period size: 40 Copynumber: 3.7 Consensus size: 41
9177588 ACTCACACTT
* *
9177598 TAGTGGCT-TTTATGTAAAAAC-GCCGATATAG-CTAGATATA
1 TAGTGG-TGTTTATGTGAAAACAGCCGCTATAGTC-AGATATA
* * * *
9177638 TAGTGGCGTTTTTGTGAAAA-AGCCGCTAAAGACTCACACT-T-
1 TAGTGGTGTTTATGTGAAAACAGCCGCTATAG--TCAGA-TATA
*
9177679 TAGTGGTGTTTATGT--AAACAAGTCGCTATAGTCAGATATA
1 TAGTGGTGTTTATGTGAAAAC-AGCCGCTATAGTCAGATATA
9177719 TAGTGGTGTTTATGTGAAAACA-CCGCTA
1 TAGTGGTGTTTATGTGAAAACAGCCGCTA
9177747 AAAATGCGTA
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
38 1 0.01
39 8 0.09
40 44 0.52
41 23 0.27
42 7 0.08
43 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (41 bp):
TAGTGGTGTTTATGTGAAAACAGCCGCTATAGTCAGATATA
Found at i:9182480 original size:21 final size:21
Alignment explanation
Indices: 9182455--9182523 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
9182445 ACTGCATCGG
9182455 TGCACTTTCATAGTGTATCAA
1 TGCACTTTCATAGTGTATCAA
* * *
9182476 TGCACATTCA-AGGGATGCATCAG
1 TGCACTTTCATA--G-TGTATCAA
* *
9182499 TACACTATCATAGTGTATCAA
1 TGCACTTTCATAGTGTATCAA
9182520 TGCA
1 TGCA
9182524 TTACGCATAA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
22 2 0.06
23 13 0.37
24 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (21 bp):
TGCACTTTCATAGTGTATCAA
Found at i:9182495 original size:44 final size:44
Alignment explanation
Indices: 9182408--9182523 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
9182398 CAACATGTGT
* * *
9182408 ATCAGTACACT-GCAGAGTGTATCGAT--ACATTTCAAGGACTGC
1 ATCAGTACACTATCATAGTGTATCAATGCACA-TTCAAGGACTGC
* * *
9182450 ATCGGTGCACTTTCATAGTGTATCAATGCACATTCAAGGGA-TGC
1 ATCAGTACACTATCATAGTGTATCAATGCACATTCAA-GGACTGC
9182494 ATCAGTACACTATCATAGTGTATCAATGCA
1 ATCAGTACACTATCATAGTGTATCAATGCA
9182524 TTACGCATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
42 9 0.15
43 12 0.19
44 35 0.56
45 6 0.10
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCAGTACACTATCATAGTGTATCAATGCACATTCAAGGACTGC
Found at i:9188406 original size:65 final size:63
Alignment explanation
Indices: 9188287--9188442 Score: 179
Period size: 65 Copynumber: 2.4 Consensus size: 63
9188277 TACACTTGGG
* * * * * *
9188287 GTGCATCGGTACACTAATTACATTCGATGTTTCAAAAGAGCCAGGAGTATATCGATTCATGGTCT
1 GTGCATCGGTACA-TAAATGCATTCGATGTTTCAAAAGAACCAAGAGTACATCGATGCATGGT-T
* *
9188352 GTGCATCGGTACATACAATGCATTCGATGTTTCAATAA-AATCAAGAGTGCATCGATGCATGGTT
1 GTGCATCGGTACATA-AATGCATTCGATGTTTCAA-AAGAACCAAGAGTACATCGATGCATGGTT
*
9188416 GTGCATCGGAACATAAAATGCATTCGA
1 GTGCATCGGTACAT-AAATGCATTCGA
9188443 ATTAGGGTGT
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 27 0.34
65 50 0.63
66 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (63 bp):
GTGCATCGGTACATAAATGCATTCGATGTTTCAAAAGAACCAAGAGTACATCGATGCATGGTT
Found at i:9190528 original size:20 final size:20
Alignment explanation
Indices: 9190503--9190647 Score: 175
Period size: 20 Copynumber: 7.1 Consensus size: 20
9190493 AATCAGATTG
*
9190503 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGAACAGATTCCC
9190523 CCCAGGGGGAACAGATTCCC
1 CCCAGGGGGAACAGATTCCC
* * *
9190543 CCCTATGGGGTACCGATTCTCC
1 CCC-AGGGGGAACAGATTC-CC
9190565 CCCAGGGGGGAACAGATT-CC
1 CCCA-GGGGGAACAGATTCCC
* *
9190585 CCTAGGAGGAACAGATTCCC
1 CCCAGGGGGAACAGATTCCC
* *
9190605 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGAACAGATT-CCC
9190626 CCCAGGGGGAACAGATTCCC
1 CCCAGGGGGAACAGATTCCC
9190646 CC
1 CC
9190648 TGTCTAACGG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
19 12 0.11
20 47 0.45
21 31 0.30
22 15 0.14
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.14
Consensus pattern (20 bp):
CCCAGGGGGAACAGATTCCC
Found at i:9190544 original size:21 final size:21
Alignment explanation
Indices: 9190503--9190647 Score: 163
Period size: 21 Copynumber: 7.0 Consensus size: 21
9190493 AATCAGATTG
*
9190503 CCCAGGGGGTACAGATT-CCC
1 CCCAGGGGGAACAGATTCCCC
9190523 CCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGAACAGATTCCCC
* * * * *
9190544 CCTATGGGGTACCGATTCTCC
1 CCCAGGGGGAACAGATTCCCC
9190565 CCCAGGGGGGAACAGATT--CC
1 CCCA-GGGGGAACAGATTCCCC
* *
9190585 CCTAGGAGGAACAGATT-CCC
1 CCCAGGGGGAACAGATTCCCC
* *
9190605 CCCAGGGGGTACCGATTCCCC
1 CCCAGGGGGAACAGATTCCCC
9190626 CCCAGGGGGAACAGATTCCCC
1 CCCAGGGGGAACAGATTCCCC
9190647 C
1 C
9190648 TGTCTAACGG
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
19 12 0.12
20 36 0.35
21 45 0.44
22 10 0.10
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGAACAGATTCCCC
Found at i:9190554 original size:41 final size:40
Alignment explanation
Indices: 9190508--9190647 Score: 167
Period size: 41 Copynumber: 3.4 Consensus size: 40
9190498 GATTGCCCAG
*
9190508 GGGGTACAGATTCCCCCCAGGGGGAACAGATTCCCCCCTA
1 GGGGAACAGATTCCCCCCAGGGGGAACAGATTCCCCCCTA
* *
9190548 TGGGGTACCGATTCTCCCCCAGGGGGGAACAGATT--CCCCTA
1 -GGGGAACAGATTC-CCCCCA-GGGGGAACAGATTCCCCCCTA
* * *
9190589 GGAGGAACAGATTCCCCCCAGGGGGTACCGATTCCCCCCCA
1 GG-GGAACAGATTCCCCCCAGGGGGAACAGATTCCCCCCTA
9190630 GGGGGAACAGATTCCCCC
1 -GGGGAACAGATTCCCCC
9190648 TGTCTAACGG
Statistics
Matches: 87, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
39 11 0.13
40 8 0.09
41 47 0.54
42 8 0.09
43 13 0.15
ACGTcount: A:0.21, C:0.35, G:0.29, T:0.15
Consensus pattern (40 bp):
GGGGAACAGATTCCCCCCAGGGGGAACAGATTCCCCCCTA
Found at i:9194022 original size:22 final size:22
Alignment explanation
Indices: 9193986--9194115 Score: 142
Period size: 22 Copynumber: 6.0 Consensus size: 22
9193976 AATCAGATTG
9193986 CCCA-GGGGTACAGATTCCCCC
1 CCCAGGGGGTACAGATTCCCCC
*
9194007 CCCAGGGGGTATAGATT--CCC
1 CCCAGGGGGTACAGATTCCCCC
*
9194027 CCCAGGGGGAACAGATT-CCCC
1 CCCAGGGGGTACAGATTCCCCC
* *
9194048 CCCATGGGGTACCGATTCTCCCC
1 CCCAGGGGGTACAGATTC-CCCC
* * * *
9194071 CCCATGGGGAACAAATTCCCTC
1 CCCAGGGGGTACAGATTCCCCC
*
9194093 CCCAGGGGGTACCGATTCCCCC
1 CCCAGGGGGTACAGATTCCCCC
9194115 C
1 C
9194116 TGTCTAACGG
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
20 18 0.20
21 21 0.23
22 32 0.36
23 19 0.21
ACGTcount: A:0.19, C:0.40, G:0.25, T:0.16
Consensus pattern (22 bp):
CCCAGGGGGTACAGATTCCCCC
Found at i:9199573 original size:21 final size:21
Alignment explanation
Indices: 9199515--9199573 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
9199505 TGATTTATTA
*
9199515 TTATGGATTTCAAGTTGGTTG
1 TTATGGATTTCAAGTTTGTTG
9199536 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
*
9199557 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
9199574 ATTGGATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.20, C:0.05, G:0.25, T:0.49
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:9200644 original size:2 final size:2
Alignment explanation
Indices: 9200637--9200679 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9200627 ATATTAAACT
9200637 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9200679 T
1 T
9200680 TCTCAATCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9202811 original size:22 final size:22
Alignment explanation
Indices: 9202780--9202823 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9202770 TAAAAAAACC
* * *
9202780 AATAACAAATTAAAATTTCAAT
1 AATAAAAAATCAAAAATTCAAT
9202802 AATAAAAAATCAAAAATTCAAT
1 AATAAAAAATCAAAAATTCAAT
9202824 TGTTCCCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (22 bp):
AATAAAAAATCAAAAATTCAAT
Found at i:9203566 original size:22 final size:21
Alignment explanation
Indices: 9203538--9203578 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
9203528 CTGAAAAAGT
9203538 AAAAAAAAAGAATGTTAAATTG
1 AAAAAAAAAG-ATGTTAAATTG
9203560 AAAAAAAAAGATGTTAAAT
1 AAAAAAAAAGATGTTAAAT
9203579 AAAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (21 bp):
AAAAAAAAAGATGTTAAATTG
Found at i:9203589 original size:22 final size:21
Alignment explanation
Indices: 9203538--9203599 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
9203528 CTGAAAAAGT
**
9203538 AAAAAAAAAGAATGTTAAATTG
1 AAAAAAAAAG-ATGTTAAATAA
9203560 AAAAAAAAAGATGTTAAATAA
1 AAAAAAAAAGATGTTAAATAA
* *
9203581 AAAAGAAAAAAAGGTTAAA
1 AAAA-AAAAAGATGTTAAA
9203600 AATAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (21 bp):
AAAAAAAAAGATGTTAAATAA
Found at i:9204542 original size:38 final size:39
Alignment explanation
Indices: 9204489--9204727 Score: 249
Period size: 38 Copynumber: 6.5 Consensus size: 39
9204479 GGTTCGATCT
* * *
9204489 ATGTGTTTAAAAACTATATATTAAATATATGTTTTC-AAA
1 ATGT-TTTCAAAACTATATATTATATATATATTTTCAAAA
* * *
9204528 ATGTTTTCAAAACTATATAATATAGATATGTTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATATATTTTCAAAA
9204567 ATGTTTTCAAAAC---------TATATAT-TTTTCAAAA
1 ATGTTTTCAAAACTATATATTATATATATATTTTCAAAA
9204596 ATGTTTTCAAAACTATATATTATATATATATTTT-AAAA
1 ATGTTTTCAAAACTATATATTATATATATATTTTCAAAA
*
9204634 TAT-TTTCCAAAACTATATATTATATATATATTTTC-AAA
1 -ATGTTTTCAAAACTATATATTATATATATATTTTCAAAA
* *
9204672 ATGTTTTTAAAACTATATA--ATATATATTTTTTCGAAAA
1 ATGTTTTCAAAACTATATATTATATATATATTTTC-AAAA
*
9204710 CTGTTTTCAAAACTATAT
1 ATGTTTTCAAAACTATAT
9204728 GAAGAAAAAG
Statistics
Matches: 173, Mismatches: 11, Indels: 33
0.80 0.05 0.15
Matches are distributed among these distances:
29 22 0.13
30 6 0.03
36 13 0.08
37 2 0.01
38 104 0.60
39 26 0.15
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (39 bp):
ATGTTTTCAAAACTATATATTATATATATATTTTCAAAA
Found at i:9204572 original size:12 final size:12
Alignment explanation
Indices: 9204555--9204607 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 12
9204545 TAATATAGAT
9204555 ATGTTTTCAAAA
1 ATGTTTTCAAAA
9204567 ATGTTTTCAAAACTA
1 ATGTTTTC-AAA--A
*
9204582 TATATTTTTCAAAA
1 -AT-GTTTTCAAAA
9204596 ATGTTTTCAAAA
1 ATGTTTTCAAAA
9204608 CTATATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
12 17 0.50
13 5 0.15
14 1 0.03
15 1 0.03
16 5 0.15
17 5 0.15
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:9204598 original size:29 final size:29
Alignment explanation
Indices: 9204553--9204616 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
9204543 TATAATATAG
9204553 ATATGTTTTCAAAAATGTTTTCAAAACTAT
1 ATAT-TTTTCAAAAATGTTTTCAAAACTAT
9204583 ATATTTTTCAAAAATGTTTTCAAAACTAT
1 ATATTTTTCAAAAATGTTTTCAAAACTAT
9204612 ATATT
1 ATATT
9204617 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (29 bp):
ATATTTTTCAAAAATGTTTTCAAAACTAT
Found at i:9204614 original size:106 final size:106
Alignment explanation
Indices: 9204489--9204690 Score: 300
Period size: 106 Copynumber: 1.9 Consensus size: 106
9204479 GGTTCGATCT
* *
9204489 ATGTGTTTAAAAACTATATATTAAATATATGTTTTCAAAATGTTTT-CAAAACTATATAATATAG
1 ATGTGTTTAAAAACTATATATTAAATATATATTTT-AAAATATTTTCCAAAACTATATAATATAG
*
9204553 ATATGTTTTCAAAAATGTTTTCAAAACTATATATTTTTCAAAA
65 ATATATTTTC-AAAATGTTTTCAAAACTATATATTTTTCAAAA
* * * *
9204596 ATGT-TTTCAAAACTATATATTATATATATATTTTAAAATATTTTCCAAAACTATATATTATATA
1 ATGTGTTTAAAAACTATATATTAAATATATATTTTAAAATATTTTCCAAAACTATATAATATAGA
*
9204660 TATATTTTCAAAATGTTTTTAAAACTATATA
66 TATATTTTCAAAATGTTTTCAAAACTATATA
9204691 ATATATATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
105 30 0.35
106 52 0.60
107 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (106 bp):
ATGTGTTTAAAAACTATATATTAAATATATATTTTAAAATATTTTCCAAAACTATATAATATAGA
TATATTTTCAAAATGTTTTCAAAACTATATATTTTTCAAAA
Found at i:9204650 original size:27 final size:27
Alignment explanation
Indices: 9204620--9204672 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9204610 ATATATTATA
*
9204620 TATATATTTTA-AAATATTTTCCAAAAC
1 TATATATTATATAAATATTTT-CAAAAC
*
9204647 TATATATTATATATATATTTTCAAAA
1 TATATATTATATAAATATTTTCAAAA
9204673 TGTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (27 bp):
TATATATTATATAAATATTTTCAAAAC
Found at i:9204754 original size:16 final size:16
Alignment explanation
Indices: 9204733--9204768 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9204723 TATATGAAGA
9204733 AAAAGGTTAAAAAAGG
1 AAAAGGTTAAAAAAGG
9204749 AAAAGGTTAAAAAAGG
1 AAAAGGTTAAAAAAGG
9204765 AAAA
1 AAAA
9204769 AATGAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (16 bp):
AAAAGGTTAAAAAAGG
Found at i:9205624 original size:15 final size:15
Alignment explanation
Indices: 9205604--9205644 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9205594 GAAAATGTTG
* *
9205604 GCGCGTGGCTTTCAC
1 GCGCGTGACCTTCAC
9205619 GCGCGTGACCTTCAC
1 GCGCGTGACCTTCAC
*
9205634 GCGCGCGACCT
1 GCGCGTGACCT
9205645 GTTCCTCGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.39, G:0.32, T:0.20
Consensus pattern (15 bp):
GCGCGTGACCTTCAC
Found at i:9205802 original size:23 final size:24
Alignment explanation
Indices: 9205774--9205840 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
9205764 TAAAAAAGGA
*
9205774 ATAATAAATAATAATAAAATAAAT
1 ATAATAAATAAAAATAAAATAAAT
* *
9205798 A-AATAAATAAAAATAATATTAAT
1 ATAATAAATAAAAATAAAATAAAT
*
9205821 ATAATATATAAAAAATAAAA
1 ATAATAAAT-AAAAATAAAA
9205841 AATTTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.56
24 7 0.19
25 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
ATAATAAATAAAAATAAAATAAAT
Done.