Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002542.1 Hibiscus syriacus cultivar Beakdansim tig00005161_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: 219698
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:128 original size:24 final size:24
Alignment explanation
Indices: 76--156 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
66 TTCCCTTGAA
*
76 GTGCATCGATACATTC--T-ACA-
1 GTGCATCGATGCATTCTTTAACAT
96 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
120 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
144 GTGCATCGATGCA
1 GTGCATCGATGCA
157 CTACCCATGC
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
20 15 0.27
22 1 0.02
23 3 0.05
24 37 0.66
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:295 original size:20 final size:21
Alignment explanation
Indices: 263--303 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
253 GTTCATTTAT
263 TTGAGAGTGCATCGATACACA
1 TTGAGAGTGCATCGATACACA
*
284 TTGAGA-TGCATCGATGCACA
1 TTGAGAGTGCATCGATACACA
304 CAACCCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
TTGAGAGTGCATCGATACACA
Found at i:15960 original size:21 final size:19
Alignment explanation
Indices: 15934--16028 Score: 73
Period size: 21 Copynumber: 4.6 Consensus size: 19
15924 TTCCATTTCG
*
15934 CGTTGCGATAGTCCAAGTTGT
1 CGTTGCGATAGTCCAA-AT-T
15955 CGTTGCGATAGTTTCCAAATT
1 CGTTGCGATAG--TCCAAATT
**
15976 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTC--CAAAT-T
* **
15998 CGTTGTGATTTTCCAAATT
1 CGTTGCGATAGTCCAAATT
16017 CGTTGCGATAGT
1 CGTTGCGATAGT
16029 AAAAAAAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
19 12 0.21
20 3 0.05
21 26 0.45
22 12 0.21
23 5 0.09
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCCAAATT
Found at i:15986 original size:42 final size:41
Alignment explanation
Indices: 15934--16028 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
15924 TTCCATTTCG
15934 CGTTGCGATAGTCCA-AGTTGTCGTTGCGATAGTTTCCAAATT
1 CGTTGCGATAGTCCACAGTTGTCGTTGCGAT--TTTCCAAATT
* *
15976 CGTTGCGATAGTCTACAGTTGTCGTTGTGATTTTCCAAATT
1 CGTTGCGATAGTCCACAGTTGTCGTTGCGATTTTCCAAATT
16017 CGTTGCGATAGT
1 CGTTGCGATAGT
16029 AAAAAAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
41 22 0.44
42 14 0.28
43 14 0.28
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCCACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:17169 original size:22 final size:21
Alignment explanation
Indices: 17141--17274 Score: 107
Period size: 22 Copynumber: 6.4 Consensus size: 21
17131 AATTTGGAAA
17141 ATCGCAACGAAAACTGTAGACT
1 ATCGCAACG-AAACTGTAGACT
** *
17163 ATCGCAACGAATTTGTAAACT
1 ATCGCAACGAAACTGTAGACT
*
17184 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGA-AACTGTAGACT
* *
17206 ATCGCAAC-AAA-TTTAGA-A
1 ATCGCAACGAAACTGTAGACT
* * **
17224 AGTCGCAAC-AAA-TTTGGAAA
1 A-TCGCAACGAAACTGTAGACT
17244 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGA-AACTGTAGACT
17266 ATCGCAACG
1 ATCGCAACG
17275 CGAATTTGCG
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.01
19 27 0.29
20 5 0.05
21 21 0.23
22 38 0.41
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.20
Consensus pattern (21 bp):
ATCGCAACGAAACTGTAGACT
Found at i:17215 original size:19 final size:19
Alignment explanation
Indices: 17152--17273 Score: 66
Period size: 19 Copynumber: 6.0 Consensus size: 19
17142 TCGCAACGAA
17152 AACTGTAGACTATCGCAAC
1 AACTGTAGACTATCGCAAC
* *
17171 GAATTTGTAAACTATCGCAACAAC
1 -AA-CTGTAGACTATCG---CAAC
17195 AACTGTAGACTATCGCAAC
1 AACTGTAGACTATCGCAAC
* * *
17214 AAATTTAGA-AAGTCGCAAC
1 AACTGTAGACTA-TCGCAAC
* * * **
17233 AAATTTGGAAAATCGCAACGAC
1 AACTGTAGACTATCGC-A--AC
17255 AACTGTAGACTATCGCAAC
1 AACTGTAGACTATCGCAAC
17274 GCGAATTTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 32 0.40
20 5 0.06
21 12 0.15
22 24 0.30
23 2 0.03
24 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (19 bp):
AACTGTAGACTATCGCAAC
Found at i:17450 original size:13 final size:13
Alignment explanation
Indices: 17432--17457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17422 TAATATGTGG
17432 TTTTTGAAAACAT
1 TTTTTGAAAACAT
17445 TTTTTGAAAACAT
1 TTTTTGAAAACAT
17458 ATATATTATA
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTTTGAAAACAT
Found at i:17460 original size:37 final size:38
Alignment explanation
Indices: 17401--17733 Score: 203
Period size: 40 Copynumber: 8.8 Consensus size: 38
17391 CTTTTTAAAA
* * *
17401 TGAAAACA-TTTTG-AAA-ATATATAATATGTGGTTTT
1 TGAAAACATTTTTGAAAACATATATATTATATAGTTTT
17436 TGAAAACATTTTTTGAAAACATATATATTATATAGTTTT
1 TGAAAACA-TTTTTGAAAACATATATATTATATAGTTTT
* * * *
17475 TGAAAATATTTGTAAAAACATATATATTATATAATTTTTT
1 TGAAAACATTTTTGAAAACATATATATTATAT-A-GTTTT
* * *
17515 TTAAAAAATATTTTG-AAATATATATATTATA-A-TTTT
1 TGAAAACAT-TTTTGAAAACATATATATTATATAGTTTT
* ** * * *
17551 TGAAAATATTTTAAAAAATATATATAATATATA-ATTT
1 TGAAAACATTTTTGAAAACATATATATTATATAGTTTT
* * *
17588 TGAAAAAATCAGTTTGAAAA-ATATTTATAATATATAGTTTT
1 TGAAAACAT--TTTTGAAAACATA--TATATTATATAGTTTT
* *
17629 T-AAAATCA-TTTTGAAAAC-TATATAGTATAT-GATTT
1 TGAAAA-CATTTTTGAAAACATATATATTATATAGTTTT
* * * *
17664 TGAAAACTTTTTTAGAAAGTATATATATAATATATA-ATTT
1 TGAAAACATTTTT-GAAA--ACATATATATTATATAGTTTT
*
17704 T-AAAACATTATTTG-AAA-ATATGTATTATAT
1 TGAAAACATT-TTTGAAAACATATATATTATAT
17734 GATTTTTTTT
Statistics
Matches: 241, Mismatches: 33, Indels: 48
0.75 0.10 0.15
Matches are distributed among these distances:
35 28 0.12
36 44 0.18
37 21 0.09
38 41 0.17
39 39 0.16
40 60 0.25
41 8 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TGAAAACATTTTTGAAAACATATATATTATATAGTTTT
Found at i:17501 original size:38 final size:37
Alignment explanation
Indices: 17446--17697 Score: 169
Period size: 38 Copynumber: 6.6 Consensus size: 37
17436 TGAAAACATT
*
17446 TTTTGAAAACATATATATTATATAGTTTTTGAAAATA
1 TTTTAAAAACATATATATTATATAGTTTTTGAAAATA
* *
17483 TTTGTAAAAACATATATATTATATAATTTTTTTTAAAAAATA
1 TTT-TAAAAACATATATATTATAT-A--GTTTTT-GAAAATA
* *
17525 TTTT-GAAATATATATATTATA-A-TTTTTGAAAATA
1 TTTTAAAAACATATATATTATATAGTTTTTGAAAATA
*
17559 TTTTAAAAA-ATATATATAATATATA-ATTTTGAAAAAATCA
1 TTTTAAAAACATATATAT--TATATAGTTTTTG--AAAAT-A
* * * *
17599 GTTTGAAAAATATTTATAATATATAGTTTTT-AAAATCA
1 -TTTTAAAAACATATATATTATATAGTTTTTGAAAAT-A
* * * *
17637 TTTTGAAAAC-TATATAGTATAT-GATTTTGAAAACTT
1 TTTTAAAAACATATATATTATATAGTTTTTGAAAA-TA
** *
17673 TTTTAGAAAGTATATATATAATATA
1 TTTTA-AAAACATATATATTATATA
17698 TAATTTTAAA
Statistics
Matches: 171, Mismatches: 24, Indels: 38
0.73 0.10 0.16
Matches are distributed among these distances:
34 18 0.11
35 13 0.08
36 22 0.13
37 20 0.12
38 37 0.22
39 6 0.04
40 22 0.13
41 18 0.11
42 15 0.09
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTAAAAACATATATATTATATAGTTTTTGAAAATA
Found at i:17557 original size:76 final size:78
Alignment explanation
Indices: 17432--17658 Score: 247
Period size: 78 Copynumber: 2.9 Consensus size: 78
17422 TAATATGTGG
* *
17432 TTTTTGAAAACATTTTTTGAAAACATATATATTATATAGTTTTTGAAAATATTTGTAAAAACATA
1 TTTTTGAAAAAATATTTTGAAAACATATATATTATATAGTTTTTGAAAATATTT-TAAAAA-ATA
17497 TATAT-TATATAATT
64 TATATATATATAATT
* *
17511 TTTTTTAAAAAATATTTTG-AAATATATATATTATA-A-TTTTTGAAAATATTTTAAAAAATATA
1 TTTTTGAAAAAATATTTTGAAAACATATATATTATATAGTTTTTGAAAATATTTTAAAAAATATA
17573 TATAATATATAA--
66 TAT-ATATATAATT
* * * *
17585 -TTTTGAAAAAATCAGTTTGAAAA-ATATTTATAATATATAGTTTTT-AAAATCATTTTGAAAAC
1 TTTTTGAAAAAAT-ATTTTGAAAACATA--TATATTATATAGTTTTTGAAAAT-ATTTTAAAAAA
17647 TATATAGTATAT
62 TATATA-TATAT
17659 GATTTTGAAA
Statistics
Matches: 129, Mismatches: 9, Indels: 21
0.81 0.06 0.13
Matches are distributed among these distances:
73 11 0.09
74 16 0.12
75 9 0.07
76 30 0.23
77 7 0.05
78 39 0.30
79 17 0.13
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (78 bp):
TTTTTGAAAAAATATTTTGAAAACATATATATTATATAGTTTTTGAAAATATTTTAAAAAATATA
TATATATATAATT
Found at i:17664 original size:76 final size:74
Alignment explanation
Indices: 17401--17704 Score: 235
Period size: 76 Copynumber: 4.0 Consensus size: 74
17391 CTTTTTAAAA
* * * ** * * *
17401 TGAAAACATTTTGAAAA-TATATAATATGTGGTTTTTGAAAACATTTTTTGAAAACATA-TATAT
1 TGAAAATATTTTAAAAACTATATAATATAT-AATTTTGAAAAAATATTTTGAAAA-ATATTATAA
17464 TATATAGTTTT
64 TATATAGTTTT
* * *
17475 TGAAAATATTTGTAAAAACATATATATTATATAATTTTTTTTAAAAAATATTTTGAAATATA-TA
1 TGAAAATATTT-TAAAAAC-TATATAATATATAA---TTTTGAAAAAATATTTTGAAAAATATTA
*
17539 T-AT-TATAATTTT
61 TAATATATAGTTTT
* *
17551 TGAAAATATTTTAAAAAATATATATAATATATAATTTTGAAAAAATCAGTTTGAAAAATATTTAT
1 TGAAAATATTTT-AAAAA-CTATATAATATATAATTTTGAAAAAAT-ATTTTGAAAAATA-TTAT
17616 AATATATAGTTTT
62 AATATATAGTTTT
* * * * * *
17629 T-AAAATCATTTTGAAAACTATATAGTATATGATTTTG-AAAACTTTTTTAGAAAGTATATATAT
1 TGAAAAT-ATTTTAAAAACTATATAATATATAATTTTGAAAAAATATTTT-GAAA-AATAT-TAT
*
17692 AATATATAATTTT
62 AATATATAGTTTT
17705 AAAACATTAT
Statistics
Matches: 186, Mismatches: 27, Indels: 32
0.76 0.11 0.13
Matches are distributed among these distances:
73 11 0.06
74 24 0.13
75 16 0.09
76 75 0.40
77 22 0.12
78 20 0.11
79 18 0.10
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (74 bp):
TGAAAATATTTTAAAAACTATATAATATATAATTTTGAAAAAATATTTTGAAAAATATTATAATA
TATAGTTTT
Found at i:17664 original size:114 final size:111
Alignment explanation
Indices: 17403--17747 Score: 312
Period size: 114 Copynumber: 3.0 Consensus size: 111
17393 TTTTAAAATG
* * * ** * *
17403 AAAA-CATTTTGAAAATATATAATATGTGGTTTTTGAAAACATTTTTTGAAAACATATATATTAT
1 AAAATCATTTTGAAAATATAT-ATATATGATTTTTGAAAATA-TTTTAAAAAATATATATAATAT
*
17467 ATAGTTTTTG--AAAATATTTGTAAAAACATATATATTATATAATTTTTTTT
64 ATA-ATTTTGAAAAAATATTTG--AAAA-ATATATATTATATAATTTTTTTT
*
17517 AAAAAAT-ATTTTG-AAATATATATATTATAATTTTTGAAAATATTTTAAAAAATATATATAATA
1 --AAAATCATTTTGAAAATATATATA-TATGATTTTTGAAAATATTTTAAAAAATATATATAATA
* * **
17580 TATAATTTTGAAAAAATCAGTTTGAAAAATATTTATAATAT-ATAGTTTTT
63 TATAATTTTGAAAAAAT-A-TTTGAAAAATATATATTATATAATTTTTTTT
* *
17630 AAAATCATTTTGAAAACTATATAGTATATGA-TTTTGAAAACTTTTTTAGAAAGTATATATATAA
1 AAAATCATTTTGAAAA-TATATA-TATATGATTTTTGAAAA-TATTTTA-AAA-AATATATATAA
* * *
17694 TATATAATTTT-AAAACATTATTTG-AAAATATGTATTATATGATTTTTTTT
61 TATATAATTTTGAAAA-AATATTTGAAAAATATATATTATATAATTTTTTTT
17744 AAAA
1 AAAA
17748 CCTATATATA
Statistics
Matches: 193, Mismatches: 21, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
111 5 0.03
112 6 0.03
113 38 0.20
114 66 0.34
115 40 0.21
116 34 0.18
117 4 0.02
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (111 bp):
AAAATCATTTTGAAAATATATATATATGATTTTTGAAAATATTTTAAAAAATATATATAATATAT
AATTTTGAAAAAATATTTGAAAAATATATATTATATAATTTTTTTT
Found at i:17802 original size:9 final size:10
Alignment explanation
Indices: 17777--17804 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17767 TTTTTTAAAA
17777 TATTTTTTAT
1 TATTTTTTAT
17787 TATTTTTTAT
1 TATTTTTTAT
17797 TATTTTTT
1 TATTTTTT
17805 TAATTCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TATTTTTTAT
Found at i:24554 original size:84 final size:81
Alignment explanation
Indices: 24282--25099 Score: 784
Period size: 84 Copynumber: 9.9 Consensus size: 81
24272 ATTTTTTAAG
* * *
24282 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAATAAAATACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC---CAAAAGACCTTCGAGTTCGA
*
24347 TTACGCTCAGCTCCAAGGC
63 TTACACTCAGCTCCAAGGC
* * * * ** *
24366 ACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGACAAAAGACCCCCGAGTTTGATTA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTCGAGTTCGATTA
* *
24431 CACTCAGCTTCGAGGGC
66 CACTCAGC-TCCAAGGC
* *
24448 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCCAATAAACGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-A-AAA-GACCTTCGAGTTCGA
* *
24513 CTACGCTCAGCTCCAAGGC
63 TTACACTCAGCTCCAAGGC
* * * * * ** *
24532 ACATTATTTGTAGCATAGCTTAAGTCGAGAATGGCTATCTGCC-AAAGACCCCCGAGTTTGATTA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTCGAGTTCGATTA
* * *
24596 CACTCAGCTTCGAGGGT
66 CACTCAGC-TCCAAGGC
* ** * * * * ** *
24613 ATATCATTCACATCATAACTCAAGGCTAGAAGGGTTATCTGTAAACAAAGACCTTCGAGTTCGAC
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CCA-AAAGACCTTCGAGTTCGAT
*
24678 TACGCTCAGCTCCAAGGC
64 TACACTCAGCTCCAAGGC
* * * * *
24696 ATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--CAAAAGACCTTCGAGTTCGA
* *
24761 CTACGCTCAGCTCCAAGGC
63 TTACACTCAGCTCCAAGGC
* * ** *
24780 ACATCATTTACAGCATAGCTTAAGTCGAGAAGGACTATATGCC-AAAGACTCTT-GAGTTCGATT
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGAC-CTTCGAGTTCGATT
* * *
24843 ACACACAGCTTCGAGGGC
65 ACACTCAGC-TCCAAGGC
* * * * *
24861 ACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATATGTCAATCAAATACCTTCGAGTTTGA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CCA--AAAGACCTTCGAGTTCGA
* ** *
24926 CTACGTTCAACTCCAAGGC
63 TTACACTCAGCTCCAAGGC
* * * *
24945 ACATAATTTACAGCATAACTTAAGTCGATAAGGGCTATCTGCC-AAAGA-CTCTCGAGTTCGATT
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCT-TCGAGTTCGATT
* *
25008 ACACTCAGCTTCGAGGGC
65 ACACTCAGC-TCCAAGGC
*
25026 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-AAAGACCTACGAGTTCGATTA
1 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTCGAGTTCGATTA
25090 CACTCAGCTC
66 CACTCAGCTC
25100 AGAGGCAAAC
Statistics
Matches: 591, Mismatches: 123, Indels: 44
0.78 0.16 0.06
Matches are distributed among these distances:
79 2 0.00
80 65 0.11
81 178 0.30
82 46 0.08
83 42 0.07
84 218 0.37
85 40 0.07
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (81 bp):
ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAAGACCTTCGAGTTCGATTA
CACTCAGCTCCAAGGC
Found at i:24752 original size:248 final size:247
Alignment explanation
Indices: 24282--25098 Score: 867
Period size: 248 Copynumber: 3.3 Consensus size: 247
24272 ATTTTTTAAG
* * * * * **
24282 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAATAAAATACCTTCGAGTTCGA
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAA-GGCTATCTGC----CAAAGACCCACGAGTTCGA
* * * * ** * * * *
24347 TTACGCTCAGC-TCCAAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTG-ACA
61 TTACACTCAGCTTCGAGGGCACATCATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTAAA
** * * * *
24410 -AAAGACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTC
126 CAAAGACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * *
24474 AAGAAGGGTTATCTTCCAATAAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
190 AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * *
24532 ACATTATTTGTAGCATAGCTTAAGTCGAGAATGGCTATCTGCCAAAGACCCCCGAGTTTGATTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAA-GGCTATCTGCCAAAGACCCACGAGTTCGATTAC
* * * *
24597 ACTCAGCTTCGAGGGTATATCATTCACATCATAACTCAAGGCTAGAAGGGTTATCTGTAAACAAA
65 ACTCAGCTTCGAGGGCACATCATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTAAACAAA
* * * * *
24662 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAA
130 GACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAA
*
24727 GGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
195 GGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * **
24780 ACATCATTTACAGCATAGCTTAAGTCGAGAAGGACTATATGCCAAAGACTCTTGAGTTCGATTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGG-CTATCTGCCAAAGACCCACGAGTTCGATTAC
* ** * * * *
24845 ACACAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATATGTCAATCAA
65 ACTCAGCTTCGAGGGCACATCATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGT-AAACAA
* * * * * * *
24910 ATACCTTCGAGTTTGACTACGTTCAACTCCAAGGCACATAATTTACAGCATAACTTAAGTCGATA
129 AGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGA
* * * * *
24975 AGGGCTATCTG-C--C-AAAGA-CTCTCGAGTTCGATTACACTCAGCTTCGAGGGC
194 AGGGTTATCTGCCAACAAAAGACCT-TCGAGTTCGACTACGCTCAGC-TCCAAGGC
* * *
25026 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTACGAGTTCGATTAC
1 ACATCATTTGCAGCATAGCTTAAGTCGAGAA-GGCTATCTGCCAAAGACCCACGAGTTCGATTAC
25091 ACTCAGCT
65 ACTCAGCT
25099 CAGAGGCAAA
Statistics
Matches: 474, Mismatches: 85, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
244 2 0.00
245 24 0.05
246 92 0.19
247 41 0.09
248 187 0.39
249 92 0.19
250 36 0.08
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (247 bp):
ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGCTATCTGCCAAAGACCCACGAGTTCGATTACA
CTCAGCTTCGAGGGCACATCATTCACAACATAACTCAAGGCGAGAAGGGTTATCTGTAAACAAAG
ACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAG
GGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
Found at i:25059 original size:413 final size:411
Alignment explanation
Indices: 24284--25099 Score: 1134
Period size: 413 Copynumber: 2.0 Consensus size: 411
24274 TTTTTAAGAC
* * * * * *
24284 ATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAATAAAATACCTTCGAGTTCGATT
1 ATCATTTGCAACACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* ** *
24349 ACGCTCAGCTCCAAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGACAAAAG
66 ACGCTCAGCTCCAAGGCACATAATTTACAACATAGCTTAAGTCGAGAAGGACTATATGACAAAAG
* * *
24414 ACCCCCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCAAGAA
131 ACCCCCGAGTTCGATTACACACAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCAAGAA
* * * **
24479 GGGTTATCTTCCAATAAACGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATTATTTGTA
196 GGGTTATATTCCAATAAACGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATAATTTACA
* * *
24544 GCATAGCTTAAGTCGAGAATGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCAGCTTCGA
261 GCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGA
* * * * *
24609 GGGTATATCATTCACATCATAACTCAAGGCTAGAAGGGTTATCTGTAAACAAAGACCTTCGAGTT
326 GGGCACATCATTCACAGCATAACTCAAGGCGAGAAGGGTTATCTG---ACAAAGACCTACGAGTT
*
24674 CGACTACGCTCAGCTCCAAGGCAT
388 CGACTACACTCAGCTCCAAGGCAT
* *
24698 ATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAACACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
* * *
24763 ACGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGAGAAGGACTATATG-CCAAAG
66 ACGCTCAGCTCCAAGGCACATAATTTACAACATAGCTTAAGTCGAGAAGGACTATATGACAAAAG
* ** *
24827 ACTCTTGAGTTCGATTACACACAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCGAGAA
131 ACCCCCGAGTTCGATTACACACAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCAAGAA
* * *
24892 GGGTTATATGT-CAATCAAA-TACCTTCGAGTTTGACTACGTTCAACTCCAAGGCACATAATTTA
196 GGGTTATAT-TCCAAT-AAACGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATAATTTA
* * *
24955 CAGCATAACTTAAGTCGATAAGGGCTATCTGCCAAAGACTCTCGAGTTCGATTACACTCAGCTTC
259 CAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
** * * *
25020 GAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTACGAGTTC
324 GAGGGCACATCATTCACAGCATAACTCAAGGCGAGAAGGGTTATCTGACAAAGACCTACGAGTTC
*
25085 GATTACACTCAGCTC
389 GACTACACTCAGCTC
25100 AGAGGCAAAC
Statistics
Matches: 352, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
410 29 0.08
413 210 0.60
414 113 0.32
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (411 bp):
ATCATTTGCAACACAACTTAAGTCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGCACATAATTTACAACATAGCTTAAGTCGAGAAGGACTATATGACAAAAG
ACCCCCGAGTTCGATTACACACAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCAAGAA
GGGTTATATTCCAATAAACGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATAATTTACA
GCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGA
GGGCACATCATTCACAGCATAACTCAAGGCGAGAAGGGTTATCTGACAAAGACCTACGAGTTCGA
CTACACTCAGCTCCAAGGCAT
Found at i:25167 original size:165 final size:162
Alignment explanation
Indices: 24282--25183 Score: 798
Period size: 165 Copynumber: 5.5 Consensus size: 162
24272 ATTTTTTAAG
* *
24282 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCTAATAAAATACCTTCGAGTTCGA
1 ACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAT-AAA-A-CTTCGAGTTCGA
* * * *
24347 TTACGCTCAGCTCCAAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGACAAA
63 TTACACTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGACCAA
*
24412 AGACCCCCGAGTTTGATTACACTCAGCTTC-GAGGGC
128 AGACCTCCGAGTTTGATTACACTCAGC-TCAGA-GGC
* *
24448 ACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCCAATAAACGACCTTCGAGTTCGA
1 ACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATAAA--A-CTTCGAGTTCGA
* * * * * * * *
24513 CTACGCTCAGCTCCAAGGCACATTATTTGTAGCATAGCTTAAGTCGAGAATGGCTATCTG-CCAA
63 TTACACTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGACCAA
* *
24577 AGACCCCCGAGTTTGATTACACTCAGCTTC-GAGGGT
128 AGACCTCCGAGTTTGATTACACTCAGC-TCAGA-GGC
* * * * * * ** * *
24613 ATATCATTCACATCATAACTCAAGGCTAGAAGGGTTATCTGTAAACAAAGACCTTCGAGTTCGAC
1 ACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATAAA-A-CTTCGAGTTCGAT
* * * * * *
24678 TACGCTCAGCTCCAAGGCATATCATTTGCAACACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
64 TACACTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTG---ACC
* * * *
24743 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCA-AGGC
126 AAAGACCTCCGAGTTTGATTACACTCAGCT-CAGAGGC
* * ** * * *
24780 ACATCATTTACAGCATAGCTTAAGTCGAGAAGGACTATATGCC-A-AAGACTCTTGAGTTCGATT
1 ACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATAAAACT-TCGAGTTCGATT
* * * * *
24843 ACACACAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATATGTCAATC
65 ACACTCAGC-TCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTG---ACC
* * * ** *
24908 AAATACCTTCGAGTTTGACTACGTTCAACTCCA-AGGC
126 AAAGACCTCCGAGTTTGATTACACTCAGCT-CAGAGGC
* * * * *
24945 ACATAATTTACAGCATAACTTAAGTCGATAAGGGCTATCTGCC-A-AAGACTCTCGAGTTCGATT
1 ACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATAAAACT-TCGAGTTCGATT
* * *
25008 ACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-CCAAA
65 ACACTCAGC-TCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGACCAAA
* *
25072 GACCTACGAGTTCGATTACACTCAGCTCAGAGGC
129 GACCTCCGAGTTTGATTACACTCAGCTCAGAGGC
* * * * * * * *
25106 AAACCAAATTTATAGAATAACTCAAGGCAAGAAGGGTTATTTGCCAATAAAATTGTCGAGTTCGA
1 ACATC--ATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATAAAACT-TCGAGTTCGA
* *
25171 TTTCATTCAGCTC
63 TTACACTCAGCTC
25184 GATGACATCT
Statistics
Matches: 619, Mismatches: 103, Indels: 30
0.82 0.14 0.04
Matches are distributed among these distances:
160 2 0.00
161 30 0.05
163 32 0.05
164 86 0.14
165 295 0.48
166 113 0.18
167 34 0.05
168 27 0.04
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (162 bp):
ACATCATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAATAAAACTTCGAGTTCGATTA
CACTCAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGA
CCTCCGAGTTTGATTACACTCAGCTCAGAGGC
Found at i:25749 original size:24 final size:22
Alignment explanation
Indices: 25722--25825 Score: 56
Period size: 24 Copynumber: 4.6 Consensus size: 22
25712 TTTGAAATCA
25722 TTTTGAAAACTATATAATATATGG
1 TTTTGAAAA--ATATAATATATGG
* * *
25746 TTTTCTAAAAAGA-AA-ACAT--
1 TTTT-GAAAAATATAATATATGG
25765 TT-TGAAAATATATAATATATGG
1 TTTTGAAAA-ATATAATATATGG
*
25787 ATTTTGAAAACATATATATCATATAG
1 -TTTTGAAAA-ATATA-AT-ATATGG
*
25813 TTTTTAAAAATAT
1 TTTTGAAAAATAT
25826 TTGTGAAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.07
18 3 0.05
19 4 0.07
20 3 0.05
21 3 0.05
22 2 0.03
23 4 0.07
24 19 0.31
25 14 0.23
26 5 0.08
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
TTTTGAAAAATATAATATATGG
Found at i:25812 original size:101 final size:100
Alignment explanation
Indices: 25697--25884 Score: 235
Period size: 101 Copynumber: 1.9 Consensus size: 100
25687 TTTTTATTAT
* *
25697 ATATATATATTATAG-TTT-GAAATCATTT-TGAAAAC-TATATAATATATGGTTTTCTAAAAAG
1 ATATATATATTATAGTTTTAAAAAT-ATTTGTGAAAACATATATAATATATAGTTTT-T---AA-
25758 AAAACATTTTGAAA-ATATATAATATATGGATTTTGAAAAC
60 AAAACATTTTGAAATATATATAATATATGGATTTTGAAAAC
*
25798 ATATATATCA-TATAGTTTTTAAAAATATTTGTGAAAACATATATATTATATAGTTTTTAAAAAA
1 ATATATAT-ATTATAG-TTTTAAAAATATTTGTGAAAACATATATAATATATAGTTTTTAAAAAA
25862 CATTTTGAAATATATATAATATA
64 CATTTTGAAATATATATAATATA
25885 ATTTTCGAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
100 14 0.18
101 27 0.35
102 1 0.01
103 7 0.09
104 12 0.16
105 16 0.21
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (100 bp):
ATATATATATTATAGTTTTAAAAATATTTGTGAAAACATATATAATATATAGTTTTTAAAAAACA
TTTTGAAATATATATAATATATGGATTTTGAAAAC
Found at i:25817 original size:26 final size:23
Alignment explanation
Indices: 25763--25825 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 23
25753 AAAAGAAAAC
*
25763 ATTTTGAAAATATATAATATATGG
1 ATTTTGAAAA-ATATAATATATAG
25787 ATTTTGAAAACATATATATCATATAG
1 ATTTTGAAAA-ATATA-AT-ATATAG
*
25813 -TTTTTAAAAATAT
1 ATTTTGAAAAATAT
25826 TTGTGAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 19 0.56
25 10 0.29
26 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (23 bp):
ATTTTGAAAAATATAATATATAG
Found at i:25876 original size:33 final size:32
Alignment explanation
Indices: 25836--25918 Score: 94
Period size: 34 Copynumber: 2.5 Consensus size: 32
25826 TTGTGAAAAC
*
25836 ATATATATTATATAGTTTTTAAAAAACATTTTGAA
1 ATATATA-TATATA-ATTTTAAAAAACATTTT-AA
**
25871 ATATATATAATATAATTTTCGAAAACATTTTAA
1 ATATATAT-ATATAATTTTAAAAAACATTTTAA
*
25904 AAATATATATATAAT
1 ATATATATATATAAT
25919 ATATAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
32 7 0.16
33 9 0.21
34 15 0.35
35 12 0.28
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (32 bp):
ATATATATATATAATTTTAAAAAACATTTTAA
Found at i:25912 original size:37 final size:37
Alignment explanation
Indices: 25787--25990 Score: 175
Period size: 38 Copynumber: 5.4 Consensus size: 37
25777 TAATATATGG
* * * *
25787 ATTTTGAAAACATATATATCATATAGTTTTTAAAAAT
1 ATTTTGAAAACATATATATAATATAATTTTAAAAAAC
* *
25824 ATTTGTGAAAACATATATATTATATAGTTTTTAAAAAAC
1 ATTT-TGAAAACATATATATAATATA-ATTTTAAAAAAC
**
25863 ATTTTG--AA-ATATATATAATATAATTTTCGAAAAC
1 ATTTTGAAAACATATATATAATATAATTTTAAAAAAC
* *
25897 ATTTTAAAAATATATATATAATATATAATTTTGAAAAAATC
1 ATTTTGAAAACATATATAT-A-ATATAATTTT-AAAAAA-C
* * * *
25938 AGTTTGAAAA-ATATTTATAATATATAGTTTTTAAAATC
1 ATTTTGAAAACATATATATAATATA-A-TTTTAAAAAAC
25976 ATTTTGAAAAC-TATA
1 ATTTTGAAAACATATA
25991 CAGTATATGA
Statistics
Matches: 137, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
34 14 0.10
35 13 0.09
36 4 0.03
37 12 0.09
38 41 0.30
39 29 0.21
40 15 0.11
41 9 0.07
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (37 bp):
ATTTTGAAAACATATATATAATATAATTTTAAAAAAC
Found at i:25963 original size:40 final size:38
Alignment explanation
Indices: 25789--26047 Score: 137
Period size: 38 Copynumber: 6.8 Consensus size: 38
25779 ATATATGGAT
* *
25789 TTTGAAAACATATATATCATATAGT--TTTTAAAAAT-AT
1 TTTGAAAA-ATATATATAATATA-TAATTTTAAAAATCAG
* * *
25826 TTGTGAAAACATATATAT--TATATAGTTTTTAAAAAACAT
1 TT-TGAAAA-ATATATATAATATATA-ATTTTAAAAATCAG
* *
25865 TTTG--AAATATATAT-A-ATATAATTTTCGAAAA-CAT
1 TTTGAAAAATATATATAATATATAATTTT-AAAAATCAG
*
25899 TTTAAAAATATATATATAATATATAATTTTGAAAAAATCAG
1 TTTGAAAA-ATATATATAATATATAATTTT--AAAAATCAG
* * * *
25940 TTTGAAAAATATTTATAATATATAGTTTTTAAAATCAT
1 TTTGAAAAATATATATAATATATAATTTTAAAAATCAG
* * * * * * **
25978 TTTG-AAAA-CTATACAGTATATGATTTTGAAAACCTTT
1 TTTGAAAAATATATATAATATATAATTTTAAAAATC-AG
*
26015 TTTAGAAAGTATATATATAATATATAATTTTAA
1 TTT-GAAA-AATATATATAATATATAATTTTAA
26048 TACATTATTT
Statistics
Matches: 176, Mismatches: 27, Indels: 34
0.74 0.11 0.14
Matches are distributed among these distances:
34 10 0.06
35 18 0.10
36 26 0.15
37 18 0.10
38 39 0.22
39 16 0.09
40 24 0.14
41 25 0.14
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (38 bp):
TTTGAAAAATATATATAATATATAATTTTAAAAATCAG
Found at i:26065 original size:114 final size:113
Alignment explanation
Indices: 25829--26045 Score: 278
Period size: 114 Copynumber: 1.9 Consensus size: 113
25819 AAAATATTTG
* * *
25829 TGAAAACATATATATTATATAGTTTTTAAAAAACATTTTGAAATATATATAATATAATTTTCGAA
1 TGAAAATATATATAATATATAGTTTTTAAAAAACATTTTGAAATATACATAATATAATTTTCGAA
25894 AACATTTTAAAAATATATATATAATATATAATTTTGAAAAAATCAGTT
66 AACATTTTAAAAATATATATATAATATATAATTTTGAAAAAATCAGTT
* * *
25942 TGAAAAATATTTATAATATATAGTTTTT-AAAATCATTTTGAAAACTATACAGT-ATATGATTTT
1 TG-AAAATATATATAATATATAGTTTTTAAAAAACATTTTG-AAA-TATACA-TAATATAATTTT
* *
26005 -GAAAACCTTTTTTAGAAAGTATATATATAATATATAATTTT
62 CGAAAA-C-ATTTTA-AAAATATATATATAATATATAATTTT
26046 AATACATTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
113 13 0.15
114 30 0.34
115 15 0.17
116 6 0.07
117 25 0.28
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (113 bp):
TGAAAATATATATAATATATAGTTTTTAAAAAACATTTTGAAATATACATAATATAATTTTCGAA
AACATTTTAAAAATATATATATAATATATAATTTTGAAAAAATCAGTT
Found at i:26106 original size:2 final size:2
Alignment explanation
Indices: 26101--26134 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
26091 TAAAAAAACC
26101 TA TA TA -A 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 TA T
26135 TTAAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27474 original size:32 final size:32
Alignment explanation
Indices: 27413--27474 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
27403 TTTAATTTTG
27413 TTTTCTATTTTACTTTATTTCATTTTTTTTAT
1 TTTTCTATTTTACTTTATTTCATTTTTTTTAT
*
27445 TTTTTTATTCTTA-TTTATTT-ATTTGTTTTT
1 TTTTCTATT-TTACTTTATTTCATTT-TTTTT
27475 TAAAACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (32 bp):
TTTTCTATTTTACTTTATTTCATTTTTTTTAT
Found at i:31221 original size:16 final size:17
Alignment explanation
Indices: 31191--31222 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31181 TCAATATTCC
31191 TATTGAATCTAATGAAA
1 TATTGAATCTAATGAAA
31208 TATTGAAT-TAATGAA
1 TATTGAATCTAATGAA
31223 TGAGAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
TATTGAATCTAATGAAA
Found at i:39145 original size:24 final size:24
Alignment explanation
Indices: 39100--39145 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
39090 AATATATTTA
* *
39100 TAAAAAATATATATTATCAATAAT
1 TAAAAAATATATATAATAAATAAT
39124 TAAAAAATATCATA-AATAAATA
1 TAAAAAATAT-ATATAATAAATA
39146 CCATCGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAAATATATATAATAAATAAT
Found at i:56894 original size:134 final size:134
Alignment explanation
Indices: 56654--56920 Score: 525
Period size: 134 Copynumber: 2.0 Consensus size: 134
56644 TCCCATCATT
56654 ATTAGTATTTTATATTGGTTATTCAGATATATCAAATTAAAGTCTTCAACATAAATTATCAATAA
1 ATTAGTATTTTATATTGGTTATTCAGATATATCAAATTAAAGTCTTCAACATAAATTATCAATAA
56719 TCTTTATAGTAAGTGATTAAAAAATTTCAGTTGACATTTCTTCTCTACCTTAAATTATGAGTTTA
66 TCTTTATAGTAAGTGATTAAAAAATTTCAGTTGACATTTCTTCTCTACCTTAAATTATGAGTTTA
56784 ATAA
131 ATAA
56788 ATTAGTATTTTATATTGGTTATTCAGATATATCAAATTAAAGTCTTCAACATAAATTATCAATAA
1 ATTAGTATTTTATATTGGTTATTCAGATATATCAAATTAAAGTCTTCAACATAAATTATCAATAA
*
56853 TCTTTATAGTAAGTGATTAAAAATTTTCAGTTGACATTTCTTCTCTACCTTAAATTATGAGTTTA
66 TCTTTATAGTAAGTGATTAAAAAATTTCAGTTGACATTTCTTCTCTACCTTAAATTATGAGTTTA
56918 ATA
131 ATA
56921 CTTATTAAAA
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.43
Consensus pattern (134 bp):
ATTAGTATTTTATATTGGTTATTCAGATATATCAAATTAAAGTCTTCAACATAAATTATCAATAA
TCTTTATAGTAAGTGATTAAAAAATTTCAGTTGACATTTCTTCTCTACCTTAAATTATGAGTTTA
ATAA
Found at i:58675 original size:16 final size:16
Alignment explanation
Indices: 58654--58686 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58644 TAATAAATAA
58654 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58670 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
58686 A
1 A
58687 ATTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:58779 original size:16 final size:16
Alignment explanation
Indices: 58755--58815 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
58745 TAATAAATAA
58755 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
58771 ACAAACATAAACAAAC
1 ACGAACATAAACGAAC
*
58787 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
58803 ACGAACATAAACG
1 ACGAACATAAACG
58816 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.59, C:0.23, G:0.10, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:59719 original size:26 final size:26
Alignment explanation
Indices: 59683--59735 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
59673 TCAGCGATCA
59683 TCTCCACTCTCTAGTGAACACTAGGG
1 TCTCCACTCTCTAGTGAACACTAGGG
59709 TCTCCACTCTCTAGTGAACACTAGGG
1 TCTCCACTCTCTAGTGAACACTAGGG
59735 T
1 T
59736 TTGGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (26 bp):
TCTCCACTCTCTAGTGAACACTAGGG
Found at i:59951 original size:24 final size:24
Alignment explanation
Indices: 59924--59970 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
59914 TAAATGAATG
59924 AACATAAACGAACATAACCGAACA
1 AACATAAACGAACATAACCGAACA
59948 AACATAAACGAACATAACCGAAC
1 AACATAAACGAACATAACCGAAC
59971 GTTCACGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.26, G:0.09, T:0.09
Consensus pattern (24 bp):
AACATAAACGAACATAACCGAACA
Found at i:60906 original size:35 final size:34
Alignment explanation
Indices: 60867--60981 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 34
60857 CAACTTTGAA
60867 AAAATGATTTTCAAAGTTTGGTAAATGTTTATTTG
1 AAAATGATTTTCAAAGTTTGGTAAATGTTT-TTTG
* * *
60902 AAAATGGTTTTTAAAGTTTGGTAAATGTTTCTTTAA
1 AAAATGATTTTCAAAGTTTGGTAAATGTTT-TTT-G
* * *
60938 AAAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTG
1 AAAAT-GATTTTCAAAGTTTGGTAAATGTTTTTTG
60973 AAAAATGAT
1 -AAAATGAT
60982 AATGAGATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
35 33 0.49
36 12 0.18
37 22 0.33
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (34 bp):
AAAATGATTTTCAAAGTTTGGTAAATGTTTTTTG
Found at i:60967 original size:37 final size:36
Alignment explanation
Indices: 60860--60977 Score: 141
Period size: 37 Copynumber: 3.2 Consensus size: 36
60850 TGGTAACCAA
*
60860 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTT-AAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
* *
60897 ATTT-GAAAATGGTTTTT-AAAGTTTGGTAAATGTTT
1 CTTTAAAAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
*
60932 CTTTAAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTAAAAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
* *
60969 GTTGAAAAA
1 CTTTAAAAA
60978 TGATAATGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
35 26 0.38
36 16 0.23
37 27 0.39
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTAAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:65515 original size:21 final size:21
Alignment explanation
Indices: 65491--65551 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
65481 AACTTTGAAA
65491 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
65512 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
65526 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
65547 AAATG
1 AAATG
65552 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:65597 original size:36 final size:36
Alignment explanation
Indices: 65483--65602 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
65473 TGGTAACCAA
65483 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
65520 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
65555 CTTTGAAAAATAGTTTTTTAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
65592 -GTTGAAAAATG
1 CTTTGAAAAATG
65603 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:70157 original size:10 final size:9
Alignment explanation
Indices: 70141--70205 Score: 62
Period size: 10 Copynumber: 6.9 Consensus size: 9
70131 CTTGAATTTA
70141 AAAAAAATC
1 AAAAAAATC
70150 ATAAAAAAT-
1 A-AAAAAATC
70159 ATAAAAAATAC
1 A-AAAAAAT-C
70170 AAAAAAATAC
1 AAAAAAAT-C
70180 AAAAAAAT-
1 AAAAAAATC
70188 ACAAAAAATC
1 A-AAAAAATC
*
70198 AGAAAAAT
1 AAAAAAAT
70206 TATAAAATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
8 1 0.02
9 23 0.46
10 25 0.50
11 1 0.02
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAAAATC
Found at i:70166 original size:20 final size:19
Alignment explanation
Indices: 70141--70205 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
70131 CTTGAATTTA
70141 AAAAAAAT-CATAAAAAAT-
1 AAAAAAATACA-AAAAAATC
70159 ATAAAAAATACAAAAAAATAC
1 A-AAAAAATACAAAAAAAT-C
70180 AAAAAAATAC-AAAAAATC
1 AAAAAAATACAAAAAAATC
*
70198 AGAAAAAT
1 AAAAAAAT
70206 TATAAAATAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
18 9 0.21
19 21 0.50
20 11 0.26
21 1 0.02
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAAATACAAAAAAATC
Found at i:80575 original size:51 final size:51
Alignment explanation
Indices: 80514--80823 Score: 158
Period size: 51 Copynumber: 6.3 Consensus size: 51
80504 ACCAACTCAG
** * * ** *
80514 CAAGGTGGAAACACAAAGTCCCTGATATTTTCTCGGCTCCCACAACAGCAA
1 CAAGGTGGAAACACAAAGTCCCAAACATATAATCAGCTCCCACAACAGCAA
* * *
80565 CAAGGTGGAAACACAGAGTCCCAAACATATAATCAGCTGCCACAACAGCAG
1 CAAGGTGGAAACACAAAGTCCCAAACATATAATCAGCTCCCACAACAGCAA
*** *
80616 CAAGGTGGAAACA-TTGGATCCCAAACATATAATCA------ACATCAG---
1 CAAGGTGGAAACACAAAG-TCCCAAACATATAATCAGCTCCCACAACAGCAA
*** * * *
80658 CAAGGTGGAAACA-TTGGATCCCAAACATATACTCAGCTACCACAACAGCAG
1 CAAGGTGGAAACACAAAG-TCCCAAACATATAATCAGCTCCCACAACAGCAA
* *** * * * *
80709 CTAGGTGGAAACA-TTGGATCCCAAACATTTACTCAACTACCACAACAGCAA
1 CAAGGTGGAAACACAAAG-TCCCAAACATATAATCAGCTCCCACAACAGCAA
*** * * * * * * *
80760 CAAGGTGGAAACATTGATTCCCAAACATTTACTCAACTACCACAACAACAG
1 CAAGGTGGAAACACAAAGTCCCAAACATATAATCAGCTCCCACAACAGCAA
*
80811 CAAGGTAGAAACA
1 CAAGGTGGAAACA
80824 TTGGTTCCCA
Statistics
Matches: 221, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
42 34 0.15
45 6 0.03
48 6 0.03
50 1 0.00
51 173 0.78
52 1 0.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.17
Consensus pattern (51 bp):
CAAGGTGGAAACACAAAGTCCCAAACATATAATCAGCTCCCACAACAGCAA
Found at i:80666 original size:42 final size:42
Alignment explanation
Indices: 80607--80745 Score: 161
Period size: 42 Copynumber: 3.1 Consensus size: 42
80597 TCAGCTGCCA
80607 CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATAAT
1 CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATAAT
*
80649 CAACATCAGCAAGGTGGAAACATTGGATCCCAAACATATACTCAGCT
1 CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATA---A--T
* * *
80696 ACCACAACAGCAGCTAGGTGGAAACATTGGATCCCAAACATTTACT
1 ----CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATAAT
80742 CAAC
1 CAAC
80746 TACCACAACA
Statistics
Matches: 83, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
42 43 0.52
45 1 0.01
46 1 0.01
47 1 0.01
51 37 0.45
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.18
Consensus pattern (42 bp):
CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATAAT
Found at i:80682 original size:93 final size:98
Alignment explanation
Indices: 80555--80837 Score: 362
Period size: 93 Copynumber: 2.9 Consensus size: 98
80545 CTCGGCTCCC
** * *
80555 ACAACAGCAACAAGGTGGAAACACAGAGTCCCAAACATATAATCAGCTGCCACAACAGCAGCAAG
1 ACAACAGCAACAAGGTGGAAACATTGAGTCCCAAACATATACTCAGCTACCACAACAGCAGCAAG
80620 GTGGAAACATTGGATCCCAAACA-TA-T-AA-T
66 GTGGAAACATTGGATCCCAAACATTACTCAACT
* * *
80649 -CAACATCAGCAAGGTGGAAACATTG-GATCCCAAACATATACTCAGCTACCACAACAGCAGCTA
1 ACAACAGCAACAAGGTGGAAACATTGAG-TCCCAAACATATACTCAGCTACCACAACAGCAGCAA
80712 GGTGGAAACATTGGATCCCAAACATTTACTCAACT
65 GGTGGAAACATTGGATCCCAAACA-TTACTCAACT
* * * *
80747 ACCACAACAGCAACAAGGTGGAAACATTGATTCCCAAACATTTACTCAACTACCACAACAACAGC
1 ---ACAACAGCAACAAGGTGGAAACATTGAGTCCCAAACATATACTCAGCTACCACAACAGCAGC
* *
80812 AAGGTAGAAACATTGGTTCCCAAACA
63 AAGGTGGAAACATTGGATCCCAAACA
80838 CATACTCAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
92 1 0.01
93 78 0.48
95 2 0.01
96 1 0.01
97 2 0.01
98 1 0.01
102 77 0.48
ACGTcount: A:0.41, C:0.26, G:0.16, T:0.17
Consensus pattern (98 bp):
ACAACAGCAACAAGGTGGAAACATTGAGTCCCAAACATATACTCAGCTACCACAACAGCAGCAAG
GTGGAAACATTGGATCCCAAACATTACTCAACT
Found at i:80824 original size:51 final size:51
Alignment explanation
Indices: 80649--80857 Score: 294
Period size: 51 Copynumber: 4.1 Consensus size: 51
80639 AACATATAAT
* *
80649 CAACATCAGCAAGGTGGAAACATTGGATCCCAAACATATACTCAGCTACCA
1 CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATACTCAACTACCA
* *
80700 CAACAGCAGCTAGGTGGAAACATTGGATCCCAAACATTTACTCAACTACCA
1 CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATACTCAACTACCA
* *
80751 CAACAGCAACAAGGTGGAAACATT-GATTCCCAAACATTTACTCAACTACCA
1 CAACAGCAGCAAGGTGGAAACATTGGA-TCCCAAACATATACTCAACTACCA
* * * * *
80802 CAACAACAGCAAGGTAGAAACATTGGTTCCCAAACACATACTCAGCTACCA
1 CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATACTCAACTACCA
*
80853 TAACA
1 CAACA
80858 TCTCTTAATG
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
50 2 0.01
51 139 0.98
52 1 0.01
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (51 bp):
CAACAGCAGCAAGGTGGAAACATTGGATCCCAAACATATACTCAACTACCA
Found at i:81674 original size:50 final size:50
Alignment explanation
Indices: 81599--81699 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
81589 TGTATTTTCT
81599 TAGATAACCCTCAAGGATCGTAAAACCCTGAACTCAGAGAAAGTGTTGTC
1 TAGATAACCCTCAAGGATCGTAAAACCCTGAACTCAGAGAAAGTGTTGTC
81649 TAGATAACCCTCAAGGATCGTAAAACCCTGAACTCAGAGAAAGTGTTGTC
1 TAGATAACCCTCAAGGATCGTAAAACCCTGAACTCAGAGAAAGTGTTGTC
81699 T
1 T
81700 GGCAAAATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (50 bp):
TAGATAACCCTCAAGGATCGTAAAACCCTGAACTCAGAGAAAGTGTTGTC
Found at i:82154 original size:90 final size:90
Alignment explanation
Indices: 81971--82233 Score: 233
Period size: 90 Copynumber: 2.9 Consensus size: 90
81961 GATTTTTATT
* * *
81971 TATATATACATATCTATATATTATATAGTTTACAA--ATGTTTTAAAATACATATA-ATATATAT
1 TATATATATATATATATATA-TATATA-TTTAAAAGCAT-TTTTAAAA-ACATATATA-ATATAT
* * * *
82033 AATTTTGAGAATAGC-TTTTTGAAAAGTAT-A
61 AGTTTTGA-AA-AACATTTTGGAAATGTATAA
* * *
82063 TAT-TATGATATATATATATGT-T-TTTTTCGAAAA-CA-TTTTAAAAATATATATAATATATAG
1 TATATAT-ATATATATATATATATATATTT--AAAAGCATTTTTAAAAACATATATAATATATAG
82123 TCTTTG-AAAACATTTTGGAAATGTATAA
63 T-TTTGAAAAACATTTTGGAAATGTATAA
* *
82151 TATATATATATATATATATATATATATTTAAAAGCATTTTTGAAAACGTATATAATATATAGTTT
1 TATATATATATATATATATATATATATTTAAAAGCATTTTTAAAAACATATATAATATATAGTTT
*
82216 TGAAAAACATTTTTGAAA
66 TGAAAAACATTTTGGAAA
82234 ATTTATATGA
Statistics
Matches: 141, Mismatches: 16, Indels: 30
0.75 0.09 0.16
Matches are distributed among these distances:
86 2 0.01
87 14 0.10
88 38 0.27
89 24 0.17
90 45 0.32
91 5 0.04
92 13 0.09
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (90 bp):
TATATATATATATATATATATATATATTTAAAAGCATTTTTAAAAACATATATAATATATAGTTT
TGAAAAACATTTTGGAAATGTATAA
Found at i:82157 original size:2 final size:2
Alignment explanation
Indices: 82146--82177 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
82136 TTTGGAAATG
82146 TA TA -A 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
82178 TTAAAAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82202 original size:53 final size:50
Alignment explanation
Indices: 82106--82211 Score: 126
Period size: 53 Copynumber: 2.1 Consensus size: 50
82096 CATTTTAAAA
* * *
82106 ATATATATAATATATAGTCTTTGAAAACATTTTGGAAATGTATAATATATAT
1 ATATATATAATATATAGTATTTGAAAACATTTTGAAAACGTAT-ATA-ATAT
82158 ATATATATATATATATA-TATTT-AAAAGCATTTTTGAAAACGTATATAATAT
1 ATATATATA-ATATATAGTATTTGAAAA-CA-TTTTGAAAACGTATATAATAT
82209 ATA
1 ATA
82212 GTTTTGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
51 11 0.23
52 18 0.38
53 19 0.40
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (50 bp):
ATATATATAATATATAGTATTTGAAAACATTTTGAAAACGTATATAATAT
Found at i:82227 original size:38 final size:38
Alignment explanation
Indices: 82161--82298 Score: 158
Period size: 38 Copynumber: 3.6 Consensus size: 38
82151 TATATATATA
* *
82161 TATATATATATATA-TATTT-AAAAGCATTTTTGAAAACG
1 TATATA-ATATATAGT-TTTGAAAAACATTTTTGAAAACT
*
82199 TATATAATATATAGTTTTGAAAAACATTTTTGAAAATT
1 TATATAATATATAGTTTTGAAAAACATTTTTGAAAACT
*
82237 TATATGATATATAGTTTTG-AAAACA-TTTTGAAAACATT
1 TATATAATATATAGTTTTGAAAAACATTTTTGAAAAC--T
* *
82275 TATATATTATATAGTTTTTAAAAA
1 TATATAATATATAGTTTTGAAAAA
82299 TATATATATA
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
36 9 0.10
37 16 0.18
38 58 0.67
39 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (38 bp):
TATATAATATATAGTTTTGAAAAACATTTTTGAAAACT
Found at i:82267 original size:11 final size:11
Alignment explanation
Indices: 82251--82275 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
82241 TGATATATAG
82251 TTTTGAAAACA
1 TTTTGAAAACA
82262 TTTTGAAAACA
1 TTTTGAAAACA
82273 TTT
1 TTT
82276 ATATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:82312 original size:20 final size:20
Alignment explanation
Indices: 82276--82329 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 20
82266 GAAAACATTT
82276 ATATATTATATAGTTTTTAAAA
1 ATATA-TATATA-TTTTTAAAA
82298 ATATATATATA-TTTTAAAA
1 ATATATATATATTTTTAAAA
82317 ATATATAATATAT
1 ATATAT-ATATAT
82330 AATTTTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.47
20 5 0.17
21 6 0.20
22 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATATATATATATTTTTAAAA
Found at i:82384 original size:37 final size:38
Alignment explanation
Indices: 82343--82444 Score: 109
Period size: 37 Copynumber: 2.7 Consensus size: 38
82333 TTTTTTAAAG
82343 CATTTTTTAATA-TATATATTATATAATTTAAAAAAAA
1 CATTTTTTAATATTATATATTATATAATTTAAAAAAAA
* ** *
82380 CATTTTTGAA-ATTATATATTATATGTTTTTAAAAAAA
1 CATTTTTTAATATTATATATTATATAATTTAAAAAAAA
* *
82417 TATTTATATATATATTATACTATTATAT
1 CATTT-TTTA-ATATTATA-TATTATAT
82445 TATTATTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.02
37 35 0.66
38 2 0.04
39 1 0.02
40 6 0.11
41 8 0.15
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (38 bp):
CATTTTTTAATATTATATATTATATAATTTAAAAAAAA
Found at i:82444 original size:19 final size:17
Alignment explanation
Indices: 82420--82509 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 17
82410 AAAAAAATAT
82420 TTATATATATATTA-TA
1 TTATATATATATTATTA
*
82436 CTAT-TATATTATTATTA
1 TTATATATA-TATTATTA
*
82453 TTAT-TATTTATTATTA
1 TTATATATATATTATTA
* *
82469 TCATTTAT-TATTAGTGTAA
1 TTATATATATATTA-T-T-A
* *
82488 TTATTTTATTTATTATTA
1 TTA-TATATATATTATTA
82506 TTAT
1 TTAT
82510 TTCTTATTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.07
16 24 0.39
17 13 0.21
18 5 0.08
19 4 0.07
20 6 0.10
21 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATATATATATTATTA
Found at i:82450 original size:3 final size:3
Alignment explanation
Indices: 82437--82510 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
82427 TATATTATAC
* *
82437 TAT TA- TAT TAT TAT TAT TAT TATT TAT TAT TAT CATT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* *
82483 TGT AAT TAT T-T TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
82511 TCTTATTTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 4 0.07
3 46 0.79
4 8 0.14
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:82463 original size:13 final size:13
Alignment explanation
Indices: 82417--82517 Score: 93
Period size: 13 Copynumber: 7.8 Consensus size: 13
82407 TTTAAAAAAA
82417 TATTTATATATATAT
1 TATTTAT-TAT-TAT
*
82432 TATACTATTA-TAT
1 TAT-TTATTATTAT
82445 TA-TTATTATTAT
1 TATTTATTATTAT
82457 TATTTATTATTAT
1 TATTTATTATTAT
* *
82470 CATTTATTATTAG
1 TATTTATTATTAT
* *
82483 T-GTAATTATT-T
1 TATTTATTATTAT
82494 TATTTATTATTAT
1 TATTTATTATTAT
*
82507 TATTTCTTATT
1 TATTTATTATT
82518 TAATTATTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
11 6 0.09
12 19 0.27
13 37 0.53
15 5 0.07
16 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:82529 original size:13 final size:12
Alignment explanation
Indices: 82437--82532 Score: 63
Period size: 13 Copynumber: 7.8 Consensus size: 12
82427 TATATTATAC
*
82437 TATTATATTA-T
1 TATTATTTTATT
82448 TATTATTATTATT
1 TATTATT-TTATT
*
82461 TATTATTATCATT
1 TATTATT-TTATT
82474 TATTA--TTAGTGT
1 TATTATTTTA-T-T
*
82486 AATTATTTTATT
1 TATTATTTTATT
82498 TATTATTATTATT
1 TATTATT-TTATT
* *
82511 TCTTATTTAATT
1 TATTATTTTATT
*
82523 ATTTTATTTT
1 -TATTATTTT
82533 TGGTTTTTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
10 2 0.03
11 7 0.10
12 19 0.28
13 37 0.54
14 3 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:82529 original size:20 final size:20
Alignment explanation
Indices: 82437--82531 Score: 83
Period size: 20 Copynumber: 4.9 Consensus size: 20
82427 TATATTATAC
*
82437 TATTATATTATTATTA-TTAT
1 TATT-TATTATTATTATTTCT
* *
82457 TATTTATTATTATCATTTAT
1 TATTTATTATTATTATTTCT
* * *
82477 TA-TTAGTGTAATTA-TT-T
1 TATTTATTATTATTATTTCT
82494 TATTTATTATTATTATTTCT
1 TATTTATTATTATTATTTCT
82514 TATTTAATTATT-TTATTT
1 TATTT-ATTATTATTATTT
82532 TTGGTTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
17 3 0.05
18 11 0.18
19 20 0.32
20 22 0.35
21 6 0.10
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTATTATTATTATTTCT
Found at i:83737 original size:17 final size:17
Alignment explanation
Indices: 83700--83740 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
83690 CCTTTTTTAG
83700 TTTTTCTATTTTAATAT
1 TTTTTCTATTTTAATAT
83717 TTTTT-TATTTTCAAT-T
1 TTTTTCTATTTT-AATAT
83733 CTTTTTCT
1 -TTTTTCT
83741 TCATGTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.33
17 13 0.62
18 1 0.05
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCTATTTTAATAT
Found at i:85759 original size:19 final size:19
Alignment explanation
Indices: 85725--85769 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
85715 ATTTAGACAT
85725 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
85743 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
85762 TTTGCATT
1 TTTGCATT
85770 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:89556 original size:84 final size:82
Alignment explanation
Indices: 89162--89833 Score: 694
Period size: 84 Copynumber: 8.2 Consensus size: 82
89152 ACCTGCCACC
* * *
89162 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
* *
89227 AAGGGCTA--TATGCCA
66 AAGGGTTATCTGTGCCA
* * * * * * * * *
89242 AAGACCCTCAAGTTCGATTA--CTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
89305 GAAGGGTTATCTGCTAG-CA
65 GAAGGGTTATCTG-T-GCCA
* * * *
89324 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAA-GCACATCATTTGCAGAATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCC-AAGGCACATCATTTGCAGCATAACTTAAGTCTA
*
89388 GAAGGGCTATC--TGCCA
65 GAAGGGTTATCTGTGCCA
* * * * * * * * * *
89404 AAGACCCTT-AAGTTGGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCT
1 AAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCT
89468 AGAAGGGTTATCTGTGACCAA
64 AGAAGGGTTATCTGTG-CC-A
* *
89489 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
89554 AAGGGTTATC--TGCCA
66 AAGGGTTATCTGTGCCA
*
89569 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGC-G-ATACAACTTAAGTCT
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT--AACTTAAGTCT
* *
89632 AGAAGGGTTGTCTG-CCAACAA
64 AGAAGGGTTATCTGTGC--C-A
* * * *
89653 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCTA
89717 GAAGGGTTATCTGTGACCAA
65 GAAGGGTTATCTGTG-CC-A
* * *
89737 AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
*
89802 AAGGGTTAT-T-TGCTA
66 AAGGGTTATCTGTGCCA
*
89817 AAGACCTTTGAGTTCGA
1 AAGACCTTCGAGTTCGA
89834 TTATATTCAA
Statistics
Matches: 487, Mismatches: 75, Indels: 60
0.78 0.12 0.10
Matches are distributed among these distances:
78 12 0.02
79 35 0.07
80 125 0.26
81 41 0.08
82 23 0.05
83 40 0.08
84 178 0.37
85 30 0.06
86 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (82 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCTAG
AAGGGTTATCTGTGCCA
Found at i:89636 original size:164 final size:164
Alignment explanation
Indices: 89162--89833 Score: 796
Period size: 164 Copynumber: 4.1 Consensus size: 164
89152 ACCTGCCACC
*
89162 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * * *
89227 AAGGGCTATATGCCAAAGACCCTCAAGTTCGATTA--CTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGGCATAACATTTACAG
89290 CATAACTCAAGGCTAGAAGGGTTATCTGCT-AGC-A
131 CATAACTCAAGGCTAGAAGGGTTATCTG-TGA-CAA
89324 AAGACCTTTGAGTTCGACTACGCTCAGCTCCTAA-GCACATCATTTGCAGAATAGCTTAAGTCGA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCC-AAGGCACATCATTTGCAGAATAGCTTAAGTCGA
* * * *
89388 GAAGGGCTATCTGCCAAAGACCCTT-AAGTTGGATTACACTCAGCTTCAAGGGCATAACATTTAC
65 GAAGGGCTATCTGCCAAAGA-CCTTCAAGTTCGACTACGCTCAGCTCCAAGGGCATAACATTTAC
89452 AGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
129 AGCATAACTCAAGGCTAGAAGGGTTATCTGTGA-CAA
* *
89489 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
* * * *
89554 AAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCATTTGC-G
66 AAGGGCTATCTGCCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGGCATAACATTTACAG
* * * **
89617 -ATACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
131 CAT--AACTCAAGGCTAGAAGGGTTATCTG-TGACAA
* * * * * *
89653 AAGACCTTTGAGTTCGACTACGCTCAGCT-CAATGGCACATCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGAATAGCTTAAGTCGA
* * * * *
89717 GAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAA-GGCACATCATT
65 GAAGGGCTATC--TG-CC-AAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGGCATAACATT
* * * * * *
89781 TGCAGCATAGCTTAAGTCAAGAAGGGTTAT-T-TG-CTA
126 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACAA
89817 AAGACCTTTGAGTTCGA
1 AAGACCTTTGAGTTCGA
89834 TTATATTCAA
Statistics
Matches: 458, Mismatches: 34, Indels: 34
0.87 0.06 0.06
Matches are distributed among these distances:
162 91 0.20
163 10 0.02
164 185 0.40
165 99 0.22
166 2 0.00
167 3 0.01
168 65 0.14
169 1 0.00
170 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (164 bp):
AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCTTCAAGTTCGACTACGCTCAGCTCCAAGGGCATAACATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTGACAA
Found at i:89734 original size:248 final size:243
Alignment explanation
Indices: 89143--89833 Score: 831
Period size: 248 Copynumber: 2.8 Consensus size: 243
89133 GCTCAAGGCC
* * *
89143 AGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
1 AGAAGGGCTATCTGCCA--AAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACATCATTTA
* * * * * * * * * *
89208 CAGAATAGCTTAAGTCGAGAAGGGCTA--TATG-CC-AAAGACCCTCAAGTTCGATTA--CTCAG
63 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * * * *
89267 CTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCTAGCAAAGACCTT
128 CTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGC---CAAAGACCTT
* *
89332 TGAGTTCGACTACGCTCAGCTCCTAAGCACATCATTTGCAGAATAGCTTAAGTCG
189 TGAGTTCGACTACGCTCAGCTCCTAAGCACATCATTTGCAGAACAACTTAAGTCG
* * * * * * *
89387 AGAAGGGCTATCTGCCAAAGACCCTTAAGTTGGATTACACTCAGCTTCAAGGGCATAACATTTAC
1 AGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAA-GGCACATCATTTAC
89452 AGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
64 AGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
89517 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGT
129 TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTTGAGT
* *
89582 TCGACTACGCTCAGCTCC-AAGGCATATCATTTGC-GATACAACTTAAGTCT
194 TCGACTACGCTCAGCTCCTAA-GCACATCATTTGCAGA-ACAACTTAAGTCG
* *
89632 AGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAATGGCACATCATT
1 AGAAGGGCTATCTG-C--C-AAAGACCTTTGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
*
89697 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTC
61 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTC
* *
89762 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATTTGCTAAAGACCTTTG
126 AGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTTG
89827 AGTTCGA
191 AGTTCGA
89834 TTATATTCAA
Statistics
Matches: 385, Mismatches: 48, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
242 25 0.06
243 32 0.08
244 20 0.05
245 69 0.18
246 3 0.01
247 18 0.05
248 184 0.48
249 34 0.09
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (243 bp):
AGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
CAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCTTTGAGTTC
GACTACGCTCAGCTCCTAAGCACATCATTTGCAGAACAACTTAAGTCG
Found at i:89917 original size:248 final size:249
Alignment explanation
Indices: 89134--89904 Score: 714
Period size: 248 Copynumber: 3.1 Consensus size: 249
89124 TGCAGTTTAG
* * * * * *
89134 CTCAAGGCCAGAAGGGCTACCTGCC-AC-CAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-G
1 CTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGG
* * * * * * * * * * *
89196 GCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTA--TATG-CC-AAAGACCCTCAAGTTC
66 GCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
* * * * * * * * *
89257 GATTA--CTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCT
131 GACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGC-
* * * * * * * *
89320 AGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCTAA-GCACATCATTTGCAGA-ATAG
194 --CAAAGACCTTCGAGTTCGACTACACTCAACTCC-AAGGCAAATCACTTAC-GATACAA
* * * * * * * * *
89378 CTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTTAAGTTGGATTACACTCAGCTTCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGG
*
89439 GCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
66 GCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
*
89504 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCA
131 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCA
* * * * *
89569 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCGATACAA
196 AAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCAAATCACTTACGATACAA
* * * * *
89623 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAATG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGG
*
89687 GCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
66 GCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
* * *
89752 GACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATTTGCTA
131 GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCA
* * * * * * *
89817 AAGACCTTTGAGTTCGATTATATTCAACT-TAGAGGCAAATCAAGCTTACAGA-ATAG
196 AAGACCTTCGAGTTCGACTACACTCAACTCCA-AGGCAAATC-A-CTTAC-GATACAA
* *
89873 CTCAAGGCAAGAAGGGTTATCTGTCAATAAAA
1 CTCAAGGCAAGAAGGGTTATCTGCCAACAAAA
89905 TTGTTGAGTT
Statistics
Matches: 440, Mismatches: 70, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
242 27 0.06
243 32 0.07
244 23 0.05
245 69 0.16
246 3 0.01
247 19 0.04
248 199 0.45
249 35 0.08
250 31 0.07
251 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (249 bp):
CTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTTCAAGG
GCACAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
GACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCA
AAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCAAATCACTTACGATACAA
Found at i:90625 original size:2 final size:2
Alignment explanation
Indices: 90614--90649 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
90604 TTTGGAAATG
90614 TA TA -A 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 TA TA T
90650 TTAAAAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90664 original size:57 final size:55
Alignment explanation
Indices: 90577--90683 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 55
90567 CATTTTAAAA
* * *
90577 ATATATATATATAGTCTTTGAAAACATTTTGGAAATGTATAATATATATATATATAT
1 ATATATATATATAGTATTTGAAAACATTTTGAAAACGTAT-ATA-ATATATATATAT
90634 ATATATATATATA-TATTT-AAAAGCATTTTTGAAAACGTATATAATATATA
1 ATATATATATATAGTATTTGAAAA-CA-TTTTGAAAACGTATATAATATATA
90684 GTTTTGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
55 11 0.24
56 9 0.20
57 25 0.56
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (55 bp):
ATATATATATATAGTATTTGAAAACATTTTGAAAACGTATATAATATATATATAT
Found at i:90699 original size:38 final size:38
Alignment explanation
Indices: 90633--90764 Score: 155
Period size: 38 Copynumber: 3.5 Consensus size: 38
90623 TATATATATA
* *
90633 TATATATATATATA-TATTT-AAAAGCATTTTTGAAAACG
1 TATATA-ATATATAGT-TTTGAAAAACATTTTTGAAAACT
*
90671 TATATAATATATAGTTTTGAAAAACATTTTTGAAAATT
1 TATATAATATATAGTTTTGAAAAACATTTTTGAAAACT
*
90709 TATATGATATATAGTTTTG-AAAACA-TTTTGAAAACATT
1 TATATAATATATAGTTTTGAAAAACATTTTTGAAAAC--T
*
90747 TATATATTATATAGTTTT
1 TATATAATATATAGTTTT
90765 TTAAAAATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
36 9 0.11
37 16 0.19
38 58 0.70
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.45
Consensus pattern (38 bp):
TATATAATATATAGTTTTGAAAAACATTTTTGAAAACT
Found at i:90739 original size:11 final size:11
Alignment explanation
Indices: 90723--90747 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90713 TGATATATAG
90723 TTTTGAAAACA
1 TTTTGAAAACA
90734 TTTTGAAAACA
1 TTTTGAAAACA
90745 TTT
1 TTT
90748 ATATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:90785 original size:19 final size:20
Alignment explanation
Indices: 90763--90802 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
90753 TTATATAGTT
90763 TTTTAAAAATATAT-ATATA
1 TTTTAAAAATATATAATATA
90782 TTTTAAAAATATATAATATA
1 TTTTAAAAATATATAATATA
90802 T
1 T
90803 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTAAAAATATATAATATA
Found at i:90917 original size:19 final size:17
Alignment explanation
Indices: 90893--90982 Score: 53
Period size: 16 Copynumber: 5.2 Consensus size: 17
90883 TAAAAAATAT
90893 TTATATATATATTA-TA
1 TTATATATATATTATTA
*
90909 CTAT-TATATTATTATTA
1 TTATATATA-TATTATTA
*
90926 TTAT-TATTTATTATTA
1 TTATATATATATTATTA
* *
90942 TCATTTAT-TATTAGTGTAA
1 TTATATATATATTA-T-T-A
* *
90961 TTATTTTATTTATTATTA
1 TTA-TATATATATTATTA
90979 TTAT
1 TTAT
90983 TTCTTATTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
15 4 0.07
16 24 0.39
17 13 0.21
18 5 0.08
19 4 0.07
20 6 0.10
21 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATATATATATTATTA
Found at i:90923 original size:3 final size:3
Alignment explanation
Indices: 90910--90983 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
90900 TATATTATAC
* *
90910 TAT TA- TAT TAT TAT TAT TAT TATT TAT TAT TAT CATT TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT
* *
90956 TGT AAT TAT T-T TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
90984 TCTTATTTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 4 0.07
3 46 0.79
4 8 0.14
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:90936 original size:13 final size:13
Alignment explanation
Indices: 90890--90990 Score: 93
Period size: 13 Copynumber: 7.8 Consensus size: 13
90880 TTTTAAAAAA
90890 TATTTATATATATAT
1 TATTTAT-TAT-TAT
*
90905 TATACTATTA-TAT
1 TAT-TTATTATTAT
90918 TA-TTATTATTAT
1 TATTTATTATTAT
90930 TATTTATTATTAT
1 TATTTATTATTAT
* *
90943 CATTTATTATTAG
1 TATTTATTATTAT
* *
90956 T-GTAATTATT-T
1 TATTTATTATTAT
90967 TATTTATTATTAT
1 TATTTATTATTAT
*
90980 TATTTCTTATT
1 TATTTATTATT
90991 TAATTATTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
11 6 0.09
12 19 0.27
13 37 0.53
15 5 0.07
16 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:92586 original size:12 final size:12
Alignment explanation
Indices: 92569--92598 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92559 TCGAATCGAA
*
92569 TAATTTAAATTT
1 TAATTTAAATTC
92581 TAATTTAAATTC
1 TAATTTAAATTC
92593 TAATTT
1 TAATTT
92599 TCGCAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TAATTTAAATTC
Found at i:106069 original size:17 final size:18
Alignment explanation
Indices: 106047--106080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106037 TTTTCCGGTC
106047 CGGTTC-GAACGGTTCAG
1 CGGTTCTGAACGGTTCAG
*
106064 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
106081 CTAATAGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAG
Found at i:108157 original size:34 final size:34
Alignment explanation
Indices: 108109--108174 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
108099 TAATAGACCA
* * *
108109 GAATTACATAAGATACACATTACATTCTAACCTT
1 GAATAACATAAGATACACATAACACTCTAACCTT
*
108143 GAATAACATAAGATAGACATAACACTCTAACC
1 GAATAACATAAGATACACATAACACTCTAACC
108175 CTCGATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (34 bp):
GAATAACATAAGATACACATAACACTCTAACCTT
Found at i:117846 original size:6 final size:6
Alignment explanation
Indices: 117806--117877 Score: 90
Period size: 6 Copynumber: 12.0 Consensus size: 6
117796 TCAAGCTGTA
* * * *
117806 TAGGAA TAGGAG TAGGAG TAGGAG TAGGAA TAGGAG CAGGAG CAGGAG
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG
* *
117854 CAGGAG TAGGAG TAGGAG CAGGAG
1 TAGGAG TAGGAG TAGGAG TAGGAG
117878 AAGGGAATGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.36, C:0.06, G:0.47, T:0.11
Consensus pattern (6 bp):
TAGGAG
Found at i:134432 original size:3 final size:3
Alignment explanation
Indices: 134424--134491 Score: 100
Period size: 3 Copynumber: 22.0 Consensus size: 3
134414 AAATTTAAAT
**
134424 TTA TTA TTA TTA TTA AAA 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
134472 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
134492 AATATTACAA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:134551 original size:21 final size:21
Alignment explanation
Indices: 134513--134552 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
134503 CCCAAGACCC
*
134513 GGAGGCCCGTTTTACAAATCT
1 GGAGGCCCGTTATACAAATCT
134534 GGAGGCCCAGTTAT-CAAAT
1 GGAGGCCC-GTTATACAAAT
134553 TCCAGACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
GGAGGCCCGTTATACAAATCT
Found at i:135983 original size:13 final size:12
Alignment explanation
Indices: 135965--136000 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
135955 TTATTTTAAG
135965 TTAATAATATATT
1 TTAATAATAT-TT
135978 TTAATAATATTT
1 TTAATAATATTT
135990 TT-ATAATATTT
1 TTAATAATATTT
136001 AAGAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.39
12 4 0.17
13 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTAATAATATTT
Found at i:137005 original size:20 final size:21
Alignment explanation
Indices: 136982--137033 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
136972 AGAAATTAAA
136982 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
137002 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
137024 -ATT-ATTTATT
1 AATTCATTTATT
137034 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:143533 original size:88 final size:88
Alignment explanation
Indices: 143384--143560 Score: 309
Period size: 88 Copynumber: 2.0 Consensus size: 88
143374 GGAGCCCCAA
*
143384 TAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATA
1 TAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATA
*
143449 AGTGGATTTGAAAGATGAATTTG
66 AGTAGATTTGAAAGATGAATTTG
*
143472 TAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATC
1 TAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATA
* *
143537 ATTAGATTTGAAAGATTAATTTG
66 AGTAGATTTGAAAGATGAATTTG
143560 T
1 T
143561 TCATAGTAGA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (88 bp):
TAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAATA
AGTAGATTTGAAAGATGAATTTG
Found at i:145749 original size:54 final size:54
Alignment explanation
Indices: 145666--145816 Score: 221
Period size: 54 Copynumber: 2.8 Consensus size: 54
145656 GAAATCTTAG
* *
145666 CAGAAGCCACAGGAAAGGATAAATATGTTGTCAAATGTTTTACAAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGAA
* ** *
145720 CAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGAG
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGAA
***
145774 CAGAAGCCACAGGAAAGGATGAATGCACTGTCAAATGTTTTAC
1 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
145817 GAACCTGCTA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (54 bp):
CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGAA
Found at i:147023 original size:165 final size:167
Alignment explanation
Indices: 146708--147035 Score: 491
Period size: 165 Copynumber: 2.0 Consensus size: 167
146698 AAAATGAGCA
*
146708 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAAATAACAGAATGAGAA
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAAT---A-AATGAGAA
* **
146773 AACGATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACAA
62 AACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACAA
* *
146838 TTTTCTTAGTTTTTTTACTTAGTAAACTATTTCTAACAGCC
127 TTTTCATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
* * **
146879 TTATCTTGAGATTGGGGCATTTTACCCAATCAACATGTTATTT-TGAAAAAT-AATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAAATGAGAAAACG
*
146942 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACAATTT
147007 TCATAG-TTTCTTACTTAGTAAACTATTTC
130 TCATAGTTTTCTTACTTAGTAAACTATTTC
147036 CCACATCTGT
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
165 61 0.42
166 38 0.26
170 6 0.04
171 40 0.28
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (167 bp):
TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAATAAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACAATTTT
CATAGTTTTCTTACTTAGTAAACTATTTCTAACAGCC
Found at i:147298 original size:3 final size:3
Alignment explanation
Indices: 147290--147363 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
147280 AAATTTAAAT
* * *
147290 TTA TTA TTA TTA TTA TAA TAA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
147338 ATA TTA ATA ATA TATA TTA TTTA TTA
1 TTA TTA TTA TTA T-TA TTA -TTA TTA
147364 AATATTACAA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 55 0.90
4 6 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:147423 original size:21 final size:21
Alignment explanation
Indices: 147385--147424 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
147375 CCCAAGACCC
*
147385 GGAGGCCCGTTTTACAAATCT
1 GGAGGCCCGTTATACAAATCT
147406 GGAGGCCCAGTTAT-CAAAT
1 GGAGGCCC-GTTATACAAAT
147425 TCCAGACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
GGAGGCCCGTTATACAAATCT
Found at i:148855 original size:11 final size:11
Alignment explanation
Indices: 148835--148869 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
148825 TTATTTTAAG
*
148835 TTTAACAATAT
1 TTTAATAATAT
148846 TTTAATAATAT
1 TTTAATAATAT
*
148857 TTTTATAATAT
1 TTTAATAATAT
148868 TT
1 TT
148870 AAGAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAATAATAT
Found at i:156389 original size:37 final size:35
Alignment explanation
Indices: 156338--156561 Score: 117
Period size: 35 Copynumber: 6.1 Consensus size: 35
156328 TAGTTAATGT
156338 TTTTGAAAACTTATATACAATATATGAGTTTT-AAAACA
1 TTTTG-AAACTTATAT--AATATAT-AGTTTTGAAAACA
* * *
156376 TTTTGAAAGTTATATAATATATATTTTTGAAATCA
1 TTTTGAAACTTATATAATATATAGTTTTGAAAACA
* *
156411 TTTTGAAA---ATATAATGTATAGTTTTTTTAAAAAAAAACA
1 TTTTGAAACTTATATAATATATAG---TTTT----GAAAACA
* *
156450 TTTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 -TTTTG--AAACTTATATAATATATAGTTTT-GAAAACA
156489 TTTTGAAAAACTTATAT--TATAT--TTTT-AAAATCA
1 TTTTG--AAACTTATATAATATATAGTTTTGAAAA-CA
* *
156522 TTTTTGAAAAC-TATATAATATATAGCTTTGAAAACG
1 -TTTTG-AAACTTATATAATATATAGTTTTGAAAACA
156558 TTTT
1 TTTT
156562 TAAGTATAAT
Statistics
Matches: 154, Mismatches: 11, Indels: 45
0.73 0.05 0.21
Matches are distributed among these distances:
32 20 0.13
33 7 0.05
34 19 0.12
35 28 0.18
36 9 0.06
37 13 0.08
38 21 0.14
39 13 0.08
40 5 0.03
42 7 0.05
45 12 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (35 bp):
TTTTGAAACTTATATAATATATAGTTTTGAAAACA
Found at i:156527 original size:34 final size:36
Alignment explanation
Indices: 156442--156545 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 36
156432 TTTTTTTAAA
*
156442 AAAAAACATTTTTGAAAAATTTATATAATATATAGTTTT
1 AAAAAACATTTTTGAAAAACTTATAT--TATATA-TTTT
156481 AAAAAACA-TTTTGAAAAACTTATATTATAT-TTTT
1 AAAAAACATTTTTGAAAAACTTATATTATATATTTT
* *
156515 -AAAATCATTTTTG-AAAACTATATAATATATA
1 AAAAAACATTTTTGAAAAACT-TATATTATATA
156546 GCTTTGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
33 12 0.20
34 18 0.31
36 5 0.08
38 16 0.27
39 8 0.14
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (36 bp):
AAAAAACATTTTTGAAAAACTTATATTATATATTTT
Found at i:156621 original size:3 final size:3
Alignment explanation
Indices: 156613--156647 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
156603 ATATACGCTA
156613 TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
156648 TCTTTTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:156634 original size:16 final size:16
Alignment explanation
Indices: 156615--156648 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
156605 ATACGCTATA
156615 TTATTATTATTATTAT
1 TTATTATTATTATTAT
156631 TTATTATTATTATTAT
1 TTATTATTATTATTAT
156647 TT
1 TT
156649 CTTTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:158015 original size:2 final size:2
Alignment explanation
Indices: 158008--158040 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
157998 ATTTATCTTT
158008 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
158041 TTTTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:158149 original size:25 final size:24
Alignment explanation
Indices: 158121--158168 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
158111 TCCTTTTAAT
*
158121 TTATCCAATATTTGTTTACTATTTG
1 TTATCCAACATTTGTTTAC-ATTTG
* *
158146 TTATCTAACATTTTTTTACATTT
1 TTATCCAACATTTGTTTACATTT
158169 TTTAGAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (24 bp):
TTATCCAACATTTGTTTACATTTG
Found at i:159849 original size:19 final size:19
Alignment explanation
Indices: 159815--159859 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
159805 ATTTAGACAT
159815 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
159833 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
159852 TTTGCATT
1 TTTGCATT
159860 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:163420 original size:84 final size:85
Alignment explanation
Indices: 163208--163810 Score: 511
Period size: 84 Copynumber: 7.3 Consensus size: 85
163198 TGCAGCTTAG
* * ** * * *
163208 CTCAAGGCCAGAAGGGCTATCTGCCACC--AAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-G
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAGG
* * *
163270 GCACATCATTTGCAGTATAG
66 GCACATCATTTACAGCATAA
* * * * * * * *
163290 CTTAAGTCGAGAAGAGCTATC--TG-CC-AAAGACCCTT-AAGTTCAATTACACTCAGCTTCAAG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA-CCTTCGAGTTCGACTACACTCAGCTTCAAG
* *
163350 GGCATAACATTTACAGCATAA
65 GGCACATCATTTACAGCATAA
* * ** * *
163371 CTCAAGGCTAGAAGGGTTATCTGTTAGC-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAGG
163435 GCACATCATTTACAGCATAA
66 GCACATCATTTACAGCATAA
* * * *
163455 CTCAAGGCTAGAAGGGTTATCTGTGATCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAA-G
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAGG
* *
163519 GCACATCATTTGCAGCATAG
66 GCACATCATTTACAGCATAA
* * * * * * * *
163539 CTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGATCC-CCAAGTTCGATTACACTCAGCTTCGAG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGA-CCTTCGAGTTCGACTACACTCAGCTTCAAG
* * *
163599 GGCACATCATTTGCAGTACAA
65 GGCACATCATTTACAGCATAA
* * * ** * * * * *
163620 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACATTTGAGTTCGACTACGCTCAGC-TCAACG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAGG
*
163684 ACACATCATTTACAGCATAA
66 GCACATCATTTACAGCATAA
* * *
163704 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAA-G
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAGG
* *
163768 GCACATCATTTGCAGCATAG
66 GCACATCATTTACAGCATAA
* * *
163788 CTTAAGTCAAGAAGGGTTATCTG
1 CTCAAGGCTAGAAGGGTTATCTG
163811 CTAAAGACCT
Statistics
Matches: 415, Mismatches: 90, Indels: 30
0.78 0.17 0.06
Matches are distributed among these distances:
79 2 0.00
80 47 0.11
81 75 0.18
82 19 0.05
83 3 0.01
84 218 0.53
85 51 0.12
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (85 bp):
CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAGG
GCACATCATTTACAGCATAA
Found at i:163581 original size:165 final size:166
Alignment explanation
Indices: 163208--163811 Score: 539
Period size: 165 Copynumber: 3.6 Consensus size: 166
163198 TGCAGCTTAG
* ** * * * *
163208 CTCAAGGCCAGAAGGGCTATC-TG-CCACCAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAG
1 CTCAAGGCGAGAAGGGCTATCGTGACCA--AAGACC-CCGAGTTCGATTACACTCAGCTTCGAGG
* * * * * * *
163270 GCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTG-C--C-AAAGACCCTT-AAGTT
63 GCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGA-CATTCGAGTT
* * * * * * *
163330 CAATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAA
127 CGACTACGCTCAGC-TCAACGACACATCATTTACAGCATAA
* * * *
163371 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGG
1 CTCAAGGCGAGAAGGGCTATC-GTGACCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCGAGGG
* * * ** * * *
163436 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGATCAAAAGACCTTCGAGTTTG
64 CACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCG
* * *
163501 ACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAG
129 ACTACGCTCAGCT-CAACGACACATCATTTACAGCATAA
* * *
163539 CTTAAGTCGAGAAGGGCTATC-TG-CCAAAGATCCCCAAGTTCGATTACACTCAGCTTCGAGGGC
1 CTCAAGGCGAGAAGGGCTATCGTGACCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCGAGGGC
* * * *
163602 ACATCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACATTTGAGTTCGA
65 ACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGA
163667 CTACGCTCAGCTCAACGACACATCATTTACAGCATAA
130 CTACGCTCAGCTCAACGACACATCATTTACAGCATAA
* * * * * * * *
163704 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGC-TCCAAG
1 CTCAAGGCGAGAAGGGCTATC-GTGACC-AAAGACC-CCGAGTTCGATTACACTCAGCTTCGAGG
* *
163768 GCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGC
63 GCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGC
163812 TAAAGACCTT
Statistics
Matches: 357, Mismatches: 67, Indels: 29
0.79 0.15 0.06
Matches are distributed among these distances:
163 19 0.05
164 24 0.07
165 179 0.50
166 3 0.01
167 2 0.01
168 87 0.24
169 43 0.12
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (166 bp):
CTCAAGGCGAGAAGGGCTATCGTGACCAAAGACCCCGAGTTCGATTACACTCAGCTTCGAGGGCA
CATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACATTCGAGTTCGAC
TACGCTCAGCTCAACGACACATCATTTACAGCATAA
Found at i:163691 original size:249 final size:249
Alignment explanation
Indices: 163208--163819 Score: 854
Period size: 249 Copynumber: 2.5 Consensus size: 249
163198 TGCAGCTTAG
* * ** *
163208 CTCAAGGCCAGAAGGGCTATCTGCCACC--AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * *
163271 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCAATTA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCAATTA
* * ** *
163336 CACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAA
131 CACTCAGCTTCAAGGGCACAACATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCCAACAA
* * * * *
163401 AGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAA
196 AGACACCCGAGTTCGACTACACTCAGCTTCAACGACACATCATTTACAGCATAA
* *
163455 CTCAAGGCTAGAAGGGTTATCTGTGATCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
*
163520 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGATCCC-CAAGTTCGATT
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCCTCAAGTTCAATT
* * * * * * *
163584 ACACTCAGCTTCGAGGGCACATCATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
130 ACACTCAGCTTCAAGGGCACAACATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCCAAC-
*** *
163649 AAAGACATTTGAGTTCGACTACGCTCAGC-TCAACGACACATCATTTACAGCATAA
194 AAAGACACCCGAGTTCGACTACACTCAGCTTCAACGACACATCATTTACAGCATAA
*
163704 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * *
163769 CACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCTAAAGACC
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
163820 TTTGAGTTCG
Statistics
Matches: 323, Mismatches: 38, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
247 23 0.07
248 2 0.01
249 272 0.84
250 26 0.08
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (249 bp):
CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCAAGTTCAATTA
CACTCAGCTTCAAGGGCACAACATTTACAGCACAACTCAAGGCTAGAAGGGTTATCTGCCAACAA
AGACACCCGAGTTCGACTACACTCAGCTTCAACGACACATCATTTACAGCATAA
Found at i:164443 original size:8 final size:9
Alignment explanation
Indices: 164430--164461 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
164420 CATTTTCGTC
164430 TATATATA-
1 TATATATAG
164438 TATATATAG
1 TATATATAG
164447 TA-ATATAG
1 TATATATAG
164455 TATATAT
1 TATATAT
164462 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (9 bp):
TATATATAG
Found at i:164597 original size:37 final size:35
Alignment explanation
Indices: 164546--164770 Score: 110
Period size: 35 Copynumber: 6.1 Consensus size: 35
164536 TAGTTAATGT
164546 TTTTGAAAACTTATATACAATATATGAGTTTT-AAAACA
1 TTTTG-AAACTTATAT--AATATAT-AGTTTTGAAAACA
* * *
164584 TTTTGAAAGTTATATAATATATATTTTTGAAATCA
1 TTTTGAAACTTATATAATATATAGTTTTGAAAACA
* *
164619 TTTTGAAA---ATATAATGTATAGTTTTTTTAAAAAAAAAACA
1 TTTTGAAACTTATATAATATATAG---TTTT-----GAAAACA
* *
164659 TTTTTGAAAAATTTATATAATATATAGTTTTAAAAAACA
1 -TTTTG--AAACTTATATAATATATAGTTTT-GAAAACA
164698 TTTTGAAAAACTTATAT--TATAT--TTTT-AAAATCA
1 TTTTG--AAACTTATATAATATATAGTTTTGAAAA-CA
* *
164731 TTTTTGAAAAC-TATATAATATATAGCTTTGAAAACG
1 -TTTTG-AAACTTATATAATATATAGTTTTGAAAACA
164767 TTTT
1 TTTT
164771 TAAGTATAAT
Statistics
Matches: 154, Mismatches: 11, Indels: 47
0.73 0.05 0.22
Matches are distributed among these distances:
32 20 0.13
33 7 0.05
34 19 0.12
35 28 0.18
36 9 0.06
37 13 0.08
38 21 0.14
39 8 0.05
40 5 0.03
41 5 0.03
43 7 0.05
46 12 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (35 bp):
TTTTGAAACTTATATAATATATAGTTTTGAAAACA
Found at i:164736 original size:34 final size:36
Alignment explanation
Indices: 164651--164754 Score: 117
Period size: 34 Copynumber: 2.9 Consensus size: 36
164641 TTTTTTAAAA
*
164651 AAAAAACATTTTTGAAAAATTTATATAATATATAGTTTT
1 AAAAAACATTTTTGAAAAACTTATAT--TATATA-TTTT
164690 AAAAAACA-TTTTGAAAAACTTATATTATAT-TTTT
1 AAAAAACATTTTTGAAAAACTTATATTATATATTTT
* *
164724 -AAAATCATTTTTG-AAAACTATATAATATATA
1 AAAAAACATTTTTGAAAAACT-TATATTATATA
164755 GCTTTGAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
33 12 0.20
34 18 0.31
36 5 0.08
38 16 0.27
39 8 0.14
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (36 bp):
AAAAAACATTTTTGAAAAACTTATATTATATATTTT
Found at i:164830 original size:3 final size:3
Alignment explanation
Indices: 164822--164853 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
164812 ATATACGCTA
164822 TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
164854 TCTTTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:164845 original size:13 final size:13
Alignment explanation
Indices: 164822--164854 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
164812 ATATACGCTA
164822 TATTA-TTATTAT
1 TATTATTTATTAT
164834 TATTATTTATTAT
1 TATTATTTATTAT
164847 TATTATTT
1 TATTATTT
164855 CTTTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:166225 original size:2 final size:2
Alignment explanation
Indices: 166218--166244 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
166208 ATTTATCTTT
166218 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 T
166245 TATTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:166357 original size:25 final size:24
Alignment explanation
Indices: 166329--166376 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
166319 TCCTTTTAAT
*
166329 TTATCCAATATTTGTTTACTATTTG
1 TTATCCAACATTTGTTTAC-ATTTG
* *
166354 TTATCTAACATTTTTTTACATTT
1 TTATCCAACATTTGTTTACATTT
166377 TTTAGAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (24 bp):
TTATCCAACATTTGTTTACATTTG
Found at i:167856 original size:2 final size:2
Alignment explanation
Indices: 167851--167882 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
167841 CGAAATTAAC
167851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
167883 GTTTAACCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:168074 original size:2 final size:2
Alignment explanation
Indices: 168067--168149 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
168057 ACTCAAGAAT
168067 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
168109 TA TA TA TA 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 TA TA TA TA T
168150 CAAATGTAAG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:184340 original size:42 final size:42
Alignment explanation
Indices: 184281--184364 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
184271 AGAAAGAGTT
*
184281 GGATTGGATGGGGAAAGAAAAACATCCCTGACAACTAGCTTC
1 GGATTGGATGGGGAAAGAAAAACATCCCCGACAACTAGCTTC
*
184323 GGATTGGATGGGGAAAGAAAAACATCCCCGACAACTGGCTTC
1 GGATTGGATGGGGAAAGAAAAACATCCCCGACAACTAGCTTC
184365 CACCCAGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (42 bp):
GGATTGGATGGGGAAAGAAAAACATCCCCGACAACTAGCTTC
Found at i:185125 original size:25 final size:25
Alignment explanation
Indices: 185091--185140 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
185081 AAAAATGCTT
*
185091 CAAATTTCAACAATTGTTGACCACC
1 CAAATTTCAACAATGGTTGACCACC
*
185116 CAAATTTCAACAATGGTTGGCCACC
1 CAAATTTCAACAATGGTTGACCACC
185141 TGTCTTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (25 bp):
CAAATTTCAACAATGGTTGACCACC
Found at i:191334 original size:23 final size:22
Alignment explanation
Indices: 191308--191383 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
191298 TGTTTGTTTA
191308 TTTATTGTTCGCAAACATGTTC
1 TTTATTGTTCGCAAACATGTTC
* *
191330 GTTTAATGTTCGCGAAC-TGTTC
1 -TTTATTGTTCGCAAACATGTTC
** *
191352 ATTTAGAGTTCACAAACATGTTC
1 -TTTATTGTTCGCAAACATGTTC
191375 TTTATTGTT
1 TTTATTGTT
191384 TGTTTATCGT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
22 24 0.56
23 19 0.44
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (22 bp):
TTTATTGTTCGCAAACATGTTC
Found at i:192222 original size:8 final size:8
Alignment explanation
Indices: 192208--192319 Score: 54
Period size: 8 Copynumber: 13.4 Consensus size: 8
192198 TCAATGATTA
192208 AAATTATT
1 AAATTATT
*
192216 GAATTATT
1 AAATTATT
192224 AAATTATTT
1 AAATTA-TT
*
192233 TAA--ATT
1 AAATTATT
*
192239 AAATTAAT
1 AAATTATT
*
192247 AATATTTTT
1 AA-ATTATT
192256 AAA-TATT
1 AAATTATT
192263 AAAAATTATT
1 --AAATTATT
192273 AAATTATTTT
1 AAATTA--TT
192283 AAATTATAATT
1 AAA-T-T-ATT
*
192294 AAATTAATA
1 AAATT-ATT
192303 AAATT-TT
1 AAATTATT
192310 AAATT-TT
1 AAATTATT
192317 AAA
1 AAA
192320 GATTAAAACT
Statistics
Matches: 82, Mismatches: 10, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
6 4 0.05
7 15 0.18
8 23 0.28
9 22 0.27
10 10 0.12
11 6 0.07
12 1 0.01
13 1 0.01
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (8 bp):
AAATTATT
Found at i:192237 original size:10 final size:10
Alignment explanation
Indices: 192222--192299 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
192212 TATTGAATTA
192222 TTAAATTATT
1 TTAAATTATT
**
192232 TTAAATTAAA
1 TTAAATTATT
*
192242 TTAATAATATTT
1 TTAA-ATTA-TT
192254 TTAAA-TATT
1 TTAAATTATT
**
192263 AAAAATTA--
1 TTAAATTATT
192271 TTAAATTATT
1 TTAAATTATT
*
192281 TTAAATTATAA
1 TTAAATTAT-T
192292 TTAAATTA
1 TTAAATTA
192300 ATAAAATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
8 6 0.12
9 5 0.10
10 25 0.48
11 12 0.23
12 4 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TTAAATTATT
Found at i:192308 original size:27 final size:28
Alignment explanation
Indices: 192217--192318 Score: 88
Period size: 27 Copynumber: 3.6 Consensus size: 28
192207 AAAATTATTG
192217 AATTATTAAATTATTTTAAATTAAATTAATAA
1 AATT-TTAAATTA--TT-AATTAAATTAATAA
* *
192249 TATTTTTAAA-TATTAA--AAATTATTAA
1 -AATTTTAAATTATTAATTAAATTAATAA
192275 ATTATTTTAAATTA-TAATTAAATTAATAA
1 A--ATTTTAAATTATTAATTAAATTAATAA
192304 AATTTTAAATT-TTAA
1 AATTTTAAATTATTAA
192319 AGATTAAAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 9 0.15
27 23 0.39
28 4 0.07
29 12 0.20
31 2 0.03
32 5 0.08
33 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTTTAAATTATTAATTAAATTAATAA
Found at i:204136 original size:6 final size:6
Alignment explanation
Indices: 204125--204149 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
204115 GGGAGTATAC
204125 GAGACA GAGACA GAGACA GAGACA G
1 GAGACA GAGACA GAGACA GAGACA G
204150 TGGGTGGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.36, T:0.00
Consensus pattern (6 bp):
GAGACA
Found at i:213810 original size:2 final size:2
Alignment explanation
Indices: 213803--213849 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
213793 ACTCTGCTGA
* * *
213803 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT AA AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
213844 AT AT AT
1 AT AT AT
213850 TTAATTGGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.