Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008480.1 Hibiscus syriacus cultivar Beakdansim tig00111311_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: 2515485
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:10274 original size:38 final size:38
Alignment explanation
Indices: 10223--10296 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
10213 TGAACAGAAT
*
10223 TTCTTACGTTTAAAATTTGAAATTTAGAGGCATTTGGC
1 TTCTTACGTTTAAAATTTGAAATTTAGAGACATTTGGC
* * *
10261 TTCTTACGTTTAAATTTTGGAGTTTAGAGACATTTG
1 TTCTTACGTTTAAAATTTGAAATTTAGAGACATTTG
10297 TCCGGTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (38 bp):
TTCTTACGTTTAAAATTTGAAATTTAGAGACATTTGGC
Found at i:10985 original size:11 final size:11
Alignment explanation
Indices: 10960--10998 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
10950 AAACTATAAC
10960 AAAAGTACAAA-
1 AAAA-TACAAAT
10971 AAAATACAAAT
1 AAAATACAAAT
10982 AAAATACAAAT
1 AAAATACAAAT
10993 AAAATA
1 AAAATA
10999 ATATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (11 bp):
AAAATACAAAT
Found at i:22243 original size:23 final size:22
Alignment explanation
Indices: 22207--22264 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
22197 TATCAAGCAC
*
22207 AATAATATATTAGGTAGCGCTT
1 AATAATATAATAGGTAGCGCTT
*
22229 ATATAATGTAATAGGTAGCGCTT
1 A-ATAATATAATAGGTAGCGCTT
22252 AATAATA-AATAGG
1 AATAATATAATAGG
22265 CATTTAACCG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 6 0.19
23 20 0.62
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (22 bp):
AATAATATAATAGGTAGCGCTT
Found at i:22494 original size:20 final size:20
Alignment explanation
Indices: 22448--22494 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
22438 ATTGGTAGCG
22448 CTTTACCGGTTTTATCATTT
1 CTTTACCGGTTTTATCATTT
** *
22468 CGATACCGGTTTTGTCATATT
1 CTTTACCGGTTTTATCAT-TT
22489 -TTTACC
1 CTTTACC
22495 TATTATATTG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTACCGGTTTTATCATTT
Found at i:22739 original size:182 final size:180
Alignment explanation
Indices: 22422--23068 Score: 775
Period size: 180 Copynumber: 3.6 Consensus size: 180
22412 ATTAAAGTAC
* * * * *
22422 CGACACTTTCAACATAAT-TGGTAGCGCTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCAT
1 CGACACTTTCAATAT-ATCCGGTAGCGTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCAT
* * * * * * *
22486 ATTTTTACCTATTATATTGTTATTGATCGATACATTTTCATAAAGTATCGACACTTTTTAGACGT
65 ATTTTTACATGTTATATTGCTATGGATCGATACATTTT-ATAAAGTATCGACACTTTATAGGCGC
*
22551 TATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
129 TATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATTAATTTAT
* ** *
22604 CGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACATGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
* *
22669 TTCTTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTATAGGCACT
66 TTTTTACATGTTATATTGCTATGGATCGATACATTT-TATAAAGTATCGACACTTTATAGGCGCT
**
22734 ATAACTTC-T-TCTTTTAAATTCAAAAAGTGTCGATACTTATATTAACGTAT
130 ATAACTTCTTCTCTTTTAAATTC-AAAAGTGTCGATACTTATATTAATTTAT
* * * * *
22784 CGACACTTTCAATATATCTGATAG-TTCTTTACCGGTTTTATCATTCCGTGACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGT-TTTACCGGTTTTATCATTTCGAGACCGGTTTTATCAT
* * * * *
22848 ACTTATACATGTTATATTGTTATAGATCGATACGTTTTTATAAAGTATCGACACTTTATAGGCGC
65 ATTTTTACATGTTATATTGCTATGGATCGATAC-ATTTTATAAAGTATCGACACTTTATAGGCGC
* *
22913 TATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAT-TTAAATCTAAT
129 TATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATT-AAT-TTAT
* * * * * * * *
22967 CGATACTTTCGATATATCCAGTAGCGGTTTACCGGTTTTATCATAAT-GAAACTGATTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCAT-TTCGAGACCGGTTTTATCAT
*
23031 ATTTTTACATGTTATATTGCTATGGAGCGATACATTTT
65 ATTTTTACATGTTATATTGCTATGGATCGATACATTTT
23069 TCATTTGTAT
Statistics
Matches: 397, Mismatches: 56, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
179 3 0.01
180 152 0.38
181 9 0.02
182 152 0.38
183 81 0.20
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (180 bp):
CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCGAGACCGGTTTTATCATA
TTTTTACATGTTATATTGCTATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGCGCTA
TAACTTCTTCTCTTTTAAATTCAAAAGTGTCGATACTTATATTAATTTAT
Found at i:22859 original size:180 final size:181
Alignment explanation
Indices: 22411--23068 Score: 765
Period size: 182 Copynumber: 3.6 Consensus size: 181
22401 TACGCGTACT
* * * * *
22411 TATTAAAGTACCGACACTTTCAACATAAT-TGGTAGCGCTTTACCGGTTTTATCATTTCGATACC
1 TATTAACGTATCGACACTTTCAATAT-ATCTGATAGCGCTTTACCGGTTTTATCATTTCGAGACC
* * * * *
22475 GGTTTTGTCATATTTTTACCTATTATATTGTTATTGATCGATACATTTTCATAAAGTATCGACAC
65 GGTTTTATCATATTTTTACATGTTATATTGCTATGGATCGATACATTTT-ATAAAGTATCGACAC
* * * *
22540 TTTTTAGACGTTATAACTTCTTCTCTTTTAAATT-ACGAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AAAAGTGTCGATACTTA
** * * ** **
22593 TATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTACCGGTTTTATCATTTCGAGACAT
1 TATTAACGTATCGACACTTTCAATATATCTGATAGCGCTTTACCGGTTTTATCATTTCGAGACCG
* *
22658 GTTTTGTCATATTCTTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACATGTTATATTGCTATGGATCGATACATTT-TATAAAGTATCGACACT
*
22723 TTATAGGCACTATAACTTC-T-TCTTTTAAATTCAAAAAGTGTCGATACTTA
130 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
** * *
22773 TATTAACGTATCGACACTTTCAATATATCTGATAGTTCTTTACCGGTTTTATCATTCCGTGACCG
1 TATTAACGTATCGACACTTTCAATATATCTGATAGCGCTTTACCGGTTTTATCATTTCGAGACCG
* * * * *
22838 GTTTTATCATACTTATACATGTTATATTGTTATAGATCGATACGTTTTTATAAAGTATCGACACT
66 GTTTTATCATATTTTTACATGTTATATTGCTATGGATCGATAC-ATTTTATAAAGTATCGACACT
* *
22903 TTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* * * * *
22955 T-TTAAATC-TAATCGATACTTTCGATATATC-CAGTAGCGGTTTACCGGTTTTATCATAAT-GA
1 TATT-AA-CGT-ATCGACACTTTCAATATATCTGA-TAGCGCTTTACCGGTTTTATCAT-TTCGA
* * * *
23016 AACTGATTTTATCATATTTTTACATGTTATATTGCTATGGAGCGATACATTTT
61 GACCGGTTTTATCATATTTTTACATGTTATATTGCTATGGATCGATACATTTT
23069 TCATTTGTAT
Statistics
Matches: 407, Mismatches: 58, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
180 153 0.38
181 10 0.02
182 163 0.40
183 81 0.20
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (181 bp):
TATTAACGTATCGACACTTTCAATATATCTGATAGCGCTTTACCGGTTTTATCATTTCGAGACCG
GTTTTATCATATTTTTACATGTTATATTGCTATGGATCGATACATTTTATAAAGTATCGACACTT
TATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
Found at i:25679 original size:14 final size:15
Alignment explanation
Indices: 25645--25679 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
25635 ATTCAACCAT
25645 ACAAAAATTCTAAAG
1 ACAAAAATTCTAAAG
25660 ACAAAAATTCTAAAG
1 ACAAAAATTCTAAAG
25675 A-AAAA
1 ACAAAA
25680 TATAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (15 bp):
ACAAAAATTCTAAAG
Found at i:25813 original size:27 final size:27
Alignment explanation
Indices: 25775--25838 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
25765 AAATGAATAT
*
25775 AATAATTTTTCCTAAGAATTTAAATTA
1 AATAATTTTTCCTAAGAATTCAAATTA
25802 AATAATTTTTCCTAAGAATTCAAATTA
1 AATAATTTTTCCTAAGAATTCAAATTA
25829 AATAATTTTT
1 AATAATTTTT
25839 ATTCAACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (27 bp):
AATAATTTTTCCTAAGAATTCAAATTA
Found at i:28102 original size:105 final size:105
Alignment explanation
Indices: 27966--28213 Score: 451
Period size: 105 Copynumber: 2.4 Consensus size: 105
27956 TTTGTCGGAT
*
27966 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGGGGTGAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
*
28031 GGAACATGTTCTTCTCATTACGAACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
28071 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
*
28136 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAG
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
28176 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGAT
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGAT
28214 CGGTTTATCC
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 138 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATTCACCTCCTTCTGCGGTGAATTTGAAA
GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:29388 original size:51 final size:53
Alignment explanation
Indices: 29193--29440 Score: 178
Period size: 52 Copynumber: 4.6 Consensus size: 53
29183 TTTTTAGTTG
* * * * **
29193 TCAAGGAACCCCTAAGAATTAGGCTTAGTTTCCTTTTAAAAACTCATTGAAAATCATCA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTT-C-TTT-CAAATTCATTTCAAA--A-CA
* * * ** ** ** * *
29252 TCAAGAAACCCTTGAAAATCAAACTTAGTTTC-TAAAAACACATTTGAAAATA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
* * *
29304 TCAAGAAATCCCTAAAAATTAGGCTTAATTTCTTTGAAATTCATTT-AAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
* * * *
29356 TTAAGAAACCCCT-AAAATTAGGTTTAGCTTCTTTCAAGTTCATTTCAAAACA
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
* * *
29408 TCGAGAAACCCCTGAAAATCAGGCTTAGTTTCT
1 TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCT
29441 AAAAGTCTTC
Statistics
Matches: 150, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
51 27 0.18
52 59 0.39
53 26 0.17
55 12 0.08
56 1 0.01
58 1 0.01
59 24 0.16
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
TCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTCAAATTCATTTCAAAACA
Found at i:29709 original size:36 final size:34
Alignment explanation
Indices: 29661--29759 Score: 99
Period size: 34 Copynumber: 2.8 Consensus size: 34
29651 GAAAAAAATG
* * * *
29661 TCTCAAGCGAGACAAAGTCTGTTTTAGGGGAAACTA
1 TCTCAAGGGAGACAAAATCTGTTTCA--AGAAACTA
* *
29697 TCTCAAGGGAGACAAAATTTGTTTCAAGAAACTG
1 TCTCAAGGGAGACAAAATCTGTTTCAAGAAACTA
* *
29731 TCTCAAGGGAGAAAAAATTTTGTTTCAAG
1 TCTCAAGGGAGACAAAA-TCTGTTTCAAG
29760 GGAAACCTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
34 22 0.40
35 11 0.20
36 22 0.40
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (34 bp):
TCTCAAGGGAGACAAAATCTGTTTCAAGAAACTA
Found at i:29735 original size:34 final size:35
Alignment explanation
Indices: 29690--29759 Score: 115
Period size: 34 Copynumber: 2.0 Consensus size: 35
29680 TGTTTTAGGG
*
29690 GAAACTATCTCAAGGGAGACAAAA-TTTGTTTCAA
1 GAAACTATCTCAAGGGAGAAAAAATTTTGTTTCAA
*
29724 GAAACTGTCTCAAGGGAGAAAAAATTTTGTTTCAA
1 GAAACTATCTCAAGGGAGAAAAAATTTTGTTTCAA
29759 G
1 G
29760 GGAAACCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (35 bp):
GAAACTATCTCAAGGGAGAAAAAATTTTGTTTCAA
Found at i:29942 original size:37 final size:37
Alignment explanation
Indices: 29901--30094 Score: 154
Period size: 37 Copynumber: 5.4 Consensus size: 37
29891 CGAGACGATG
*
29901 TTTGTTTTGAGAGAAAAATATCTCAAGTGAAACAAAA
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
* * *
29938 TTTGTTTTAAGAGAAAAATGTCTCAAGCGAGACAAAA
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
* * *** *
29975 TTTGTTTTTA-AGAAAAA-----CAACT--TTGAAAT
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
**
30004 TGTTGTTCCGA-AGAAAAATGTCTCAAGTGAAACAAAA
1 T-TTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
* * * *
30041 TTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACGACAT
1 TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAAC-AAAA
*
30079 TTTGTTTCGAGAGAAA
1 TTTGTTTTGAGAGAAA
30095 CAACACCCAA
Statistics
Matches: 120, Mismatches: 27, Indels: 19
0.72 0.16 0.11
Matches are distributed among these distances:
29 4 0.03
30 13 0.11
31 3 0.03
35 4 0.03
36 13 0.11
37 67 0.56
38 16 0.13
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (37 bp):
TTTGTTTTGAGAGAAAAATGTCTCAAGTGAAACAAAA
Found at i:34595 original size:15 final size:15
Alignment explanation
Indices: 34575--34607 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34565 TCAACCATAC
*
34575 AAAAATTCTAAGGAA
1 AAAAATTCTAAAGAA
34590 AAAAATTCTAAAGAA
1 AAAAATTCTAAAGAA
34605 AAA
1 AAA
34608 TATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAATTCTAAAGAA
Found at i:35317 original size:30 final size:29
Alignment explanation
Indices: 35282--35338 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
35272 ATATCATGCT
* * *
35282 ATAATATTATATACAAAGTAATATATAATA
1 ATAATAATATAAACAAAATAA-ATATAATA
35312 ATAATAATATAAACAAAATAAATATAA
1 ATAATAATATAAACAAAATAAATATAA
35339 AAACACATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAATAATATAAACAAAATAAATATAATA
Found at i:39380 original size:18 final size:19
Alignment explanation
Indices: 39359--39399 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
39349 AAAATGAGAG
* *
39359 AAATTCAGAAAA-TGTCAA
1 AAATTAAGAAAATTCTCAA
39377 AAA-TAAGAAAATTCTCAA
1 AAATTAAGAAAATTCTCAA
39395 AAATT
1 AAATT
39400 TTATACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 7 0.37
18 11 0.58
19 1 0.05
ACGTcount: A:0.59, C:0.10, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATTAAGAAAATTCTCAA
Found at i:40422 original size:80 final size:77
Alignment explanation
Indices: 40291--40452 Score: 213
Period size: 80 Copynumber: 2.1 Consensus size: 77
40281 ACGGAATCCC
* * *
40291 TGCAAGTAATATGAAGGACAACTTCTCAATTTACATTGAGGTCAAATTTATAAC-AGATATTTAG
1 TGCAAGTAAAATGAAGGACAACTTCTCAATTTACATTCAGATCAAATTTATAACTA-ATATTTA-
40355 AGACCA-CTGCTAAT
64 AGA-CAGCTGCTAAT
40369 TGCAAGTAAAATGAAGGACTAAACTTCTCAAATTT-CATTCAGATCAAATTTATAACTAATATTT
1 TGCAAGTAAAATGAAGGAC--AACTTCTC-AATTTACATTCAGATCAAATTTATAACTAATATTT
*
40433 AAGACAGCTGCTCAT
63 AAGACAGCTGCTAAT
40448 TGCAA
1 TGCAA
40453 CATAATCTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
78 20 0.27
79 15 0.20
80 34 0.45
81 6 0.08
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (77 bp):
TGCAAGTAAAATGAAGGACAACTTCTCAATTTACATTCAGATCAAATTTATAACTAATATTTAAG
ACAGCTGCTAAT
Found at i:46033 original size:8 final size:8
Alignment explanation
Indices: 46020--46058 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
46010 CATTTTCAGG
46020 GAATTTGA
1 GAATTTGA
46028 GAATTT-A
1 GAATTTGA
* *
46035 GAGTTTGG
1 GAATTTGA
46043 GAATTTGA
1 GAATTTGA
46051 GAATTTGA
1 GAATTTGA
46059 AAGATTGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (8 bp):
GAATTTGA
Found at i:46354 original size:128 final size:128
Alignment explanation
Indices: 46126--46668 Score: 1005
Period size: 128 Copynumber: 4.2 Consensus size: 128
46116 CTATAATCGG
* *
46126 TTCACTATTCATATGAAGGCGCGTTACCGGGGACGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
46191 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
46254 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
46319 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
46382 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
46447 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *
46510 TTCACTATTCATTTGAAGGCGCGTTCCCGGGGGCGCGCATTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
46575 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGAGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
46638 TTCACTATTCATATGAATGCGCGTTCCCGGG
1 TTCACTATTCATATGAAGGCGCGTTCCCGGG
46669 AATATAGAAA
Statistics
Matches: 405, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 405 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (128 bp):
TTCACTATTCATATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:48273 original size:34 final size:31
Alignment explanation
Indices: 48228--48315 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 31
48218 TTAATAATTC
*
48228 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
48262 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
48293 TATAAAAATAATAACTATTTAAA
1 TAAAAAAATAATAATTATATAAA
48316 AAAATACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
31 22 0.48
33 2 0.04
34 22 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:48305 original size:31 final size:33
Alignment explanation
Indices: 48228--48306 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 33
48218 TTAATAATTC
* *
48228 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
48262 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
48293 TATAAAAATAATAA
1 TAAAAAAATAATAA
48307 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
31 16 0.40
33 2 0.05
34 22 0.55
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:48331 original size:33 final size:34
Alignment explanation
Indices: 48261--48336 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
48251 TATTATTTTA
* * *
48261 ATAAAAA-AATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAAAATACTAAC
48294 ATAAAAATAATAACTATTTA-A-AAAAATACTAAC
1 ATAAAAATAATAA-TATTTACATAAAAATACTAAC
48327 ATAAAAATAA
1 ATAAAAATAA
48337 ATTTATTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 26 0.68
34 6 0.16
35 6 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAAAATACTAAC
Found at i:49537 original size:17 final size:20
Alignment explanation
Indices: 49515--49552 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49505 ACATAGTATT
49515 AAATAA-AA-ATA-ATAGAA
1 AAATAAGAATATATATAGAA
49532 AAATAAGAATATATATAGAA
1 AAATAAGAATATATATAGAA
49552 A
1 A
49553 CATATAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 3 0.17
20 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAAGAATATATATAGAA
Found at i:49568 original size:11 final size:10
Alignment explanation
Indices: 49519--49569 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
49509 AGTATTAAAT
49519 AAAAATAATAG
1 AAAAAT-ATAG
49530 AAAAATA-AG
1 AAAAATATAG
*
49539 AATATATATAG
1 AA-AAATATAG
*
49550 AAACATATAG
1 AAAAATATAG
49560 AACAAATATA
1 AA-AAATATA
49570 ATAACAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 4 0.12
10 14 0.41
11 16 0.47
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAAATATAG
Found at i:49568 original size:21 final size:20
Alignment explanation
Indices: 49521--49569 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
49511 TATTAAATAA
*
49521 AAATAATAGAAAAATAAGAAT
1 AAAT-ATAGAAAAATAAGAAC
* *
49542 ATATATAGAAACATATAGAAC
1 AAATATAGAAAAATA-AGAAC
49563 AAATATA
1 AAATATA
49570 ATAACAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.22
Consensus pattern (20 bp):
AAATATAGAAAAATAAGAAC
Found at i:51311 original size:106 final size:107
Alignment explanation
Indices: 51119--51350 Score: 331
Period size: 106 Copynumber: 2.2 Consensus size: 107
51109 ATCTTCTGTC
* * * * ***
51119 GTGAAGTTGAAGTTGGTTCTGGAACTGGGAAATTGTTTTGTTGACAGTTAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
*
51184 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATGCCCTTCAAT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
*
51226 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTT-TTGACAACCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
* * * **
51290 TGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
51332 GTGAAGTTGAAATTGGCTC
1 GTGAAGTTGAAATTGGCTC
51351 TAGCTAAAAC
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
106 77 0.69
107 34 0.31
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (107 bp):
GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
Found at i:51843 original size:67 final size:67
Alignment explanation
Indices: 51663--51855 Score: 233
Period size: 67 Copynumber: 2.8 Consensus size: 67
51653 TGTCTTAAAA
* * * * * *
51663 AGACAGAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCA
51728 AGGG
64 AGGG
* * * * * *
51732 AGACAAAATTTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTTAAGAGAAACTGTCTCAA
1 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
51797 GGG
65 GGG
* *
51800 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
51856 ATTTTCAAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
67 43 0.41
68 29 0.28
69 10 0.10
70 23 0.22
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
GG
Found at i:51916 original size:36 final size:34
Alignment explanation
Indices: 51810--51925 Score: 166
Period size: 34 Copynumber: 3.4 Consensus size: 34
51800 AGACGAAATT
* *
51810 TGTTTCAAGGGAAACAATCTCAAAGG---TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
*
51841 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
51875 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG-TT-TTTTTG
51911 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
51926 TGTATCAAGG
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 23 0.30
34 30 0.39
35 2 0.03
36 21 0.28
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (34 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTG
Found at i:52022 original size:38 final size:36
Alignment explanation
Indices: 51965--52487 Score: 188
Period size: 37 Copynumber: 15.4 Consensus size: 36
51955 CAAGGATTGA
*
51965 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
52002 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
52039 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
52075 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * * *
52104 TGTTTCAAGGGAAACTATTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAATT
*
52133 ATGTTTCAATAGAAACTGTCTCAA-ATGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
52170 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
52206 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
52234 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
52272 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
52306 TATTTCAAGGGAAA-TGCTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
52334 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
52372 TGTTCCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
52400 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
52438 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
52474 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
52488 TGTTTTCAAT
Statistics
Matches: 368, Mismatches: 64, Indels: 109
0.68 0.12 0.20
Matches are distributed among these distances:
28 7 0.02
29 64 0.17
30 32 0.09
31 1 0.00
32 6 0.02
33 5 0.01
34 21 0.06
35 7 0.02
36 95 0.26
37 107 0.29
38 23 0.06
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:52148 original size:30 final size:30
Alignment explanation
Indices: 52093--52149 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
52083 GTAAAACATA
*
52093 TTCAAAGATTTTGTTTCAAGGGAAACTATT
1 TTCAAAGATTTTGTTTCAAGAGAAACTATT
*
52123 TTCAAAG-TTTATGTTTCAATAGAAACT
1 TTCAAAGATTT-TGTTTCAAGAGAAACT
52150 GTCTCAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (30 bp):
TTCAAAGATTTTGTTTCAAGAGAAACTATT
Found at i:52340 original size:100 final size:99
Alignment explanation
Indices: 52039--52385 Score: 456
Period size: 100 Copynumber: 3.5 Consensus size: 99
52029 AGACAAAATT
* **
52039 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-AATGTAAAACATAT-TC-A-A-A
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-GGGAAAC-TATCTCAAGAGA
* * * *
52099 G--ATTTTGTTTCAAGGGAAACTATTTTCAAAGTTTA
64 GACAATTTATTTCAAGGGAAA-TGTTTTCAATGTTTA
* **
52134 TGTTTCAATAGAAACTGTCTCAAATGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
52199 CAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 C--AATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
52235 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
52300 ACAATTTATTTCAAGGGAAATGCTTTCAATGTTTA
65 ACAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
52335 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAA
52386 TGTTTTCAAT
Statistics
Matches: 224, Mismatches: 18, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
94 3 0.01
95 45 0.20
96 3 0.01
97 1 0.00
98 2 0.01
100 80 0.36
101 43 0.19
102 47 0.21
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (99 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:52403 original size:166 final size:166
Alignment explanation
Indices: 52170--52555 Score: 605
Period size: 166 Copynumber: 2.3 Consensus size: 166
52160 AGACAAAATT
* * *
52170 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
* *
52234 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
52299 GAC-AATTTATTTCAAGGGAAATGCTTTCAATGTTTA
130 GACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
*
52335 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT-CAAGGGAAATGTTTTCAATGTTT
52400 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
52465 GACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
130 GAC-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* * *
52503 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTGTTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT-TG-TTCAAGGGAAA
52556 CTATCTCAAG
Statistics
Matches: 203, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
164 1 0.00
165 35 0.17
166 89 0.44
168 63 0.31
169 3 0.01
170 10 0.05
171 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (166 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:52406 original size:66 final size:65
Alignment explanation
Indices: 52272--52451 Score: 276
Period size: 66 Copynumber: 2.8 Consensus size: 65
52262 GACAAAATTT
* *
52272 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTAT-TTCAAGGGAAATGCTTTCAATGTTT
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAATGCTTTCAATGTTT
52334 A
65 A
* *
52335 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTT-CAAGGGAAATGCTTTCAATGTTT
52400 A
65 A
52401 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAA
52452 CTATCTCAAG
Statistics
Matches: 107, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
63 27 0.25
64 1 0.01
65 7 0.07
66 70 0.65
67 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:52513 original size:102 final size:105
Alignment explanation
Indices: 52335--52576 Score: 357
Period size: 102 Copynumber: 2.3 Consensus size: 105
52325 TCAATGTTTA
* * * *
52335 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
*
52400 ATGTTTCAAGAGAAACTATCTCAAGGGAGACAAAA-TTT-
66 ATGTTTAAAGAGAAACTATCTCAAGGGAGACAAAACTTTC
52438 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TT-CAAGGGAAATGTTTTCAATGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-ATGTTCCAAGGGAAATGTTTTCAATGTT
* *
52501 TATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTC
65 TATGTTTAAAGAGAAACTATCTCAAGGGAGACAAAACTTTC
* * *
52542 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
52577 CTTGTTTTAA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
102 55 0.44
103 38 0.30
104 33 0.26
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (105 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
ATGTTTAAAGAGAAACTATCTCAAGGGAGACAAAACTTTC
Found at i:54083 original size:183 final size:183
Alignment explanation
Indices: 53775--54124 Score: 637
Period size: 183 Copynumber: 1.9 Consensus size: 183
53765 GGTTTAACTA
53775 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGCCA
* **
53840 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
53905 CTATAACCAATTGACTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGACTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
* *
53958 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGCCA
*
54023 AGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
*
54088 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGACTTAGTGGAATAGCTCAGCTTTA
54125 CGGATTTAAT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCAAATTGCCA
AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGACTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
Found at i:58103 original size:21 final size:21
Alignment explanation
Indices: 58065--58115 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
58055 ACATAGTATT
58065 AAATAA-AAATAATAATAGAA
1 AAATAAGAAATAATAATAGAA
58085 AAATAAGAAAT-ATATATAGAA
1 AAATAAGAAATAATA-ATAGAA
*
58106 ACATATAGAA
1 AAATA-AGAA
58116 CAACATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAGAAATAATAATAGAA
Found at i:58294 original size:2 final size:2
Alignment explanation
Indices: 58287--58330 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
58277 GTATACTTAA
58287 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58328 AT A
1 AT A
58331 ATAAAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60435 original size:19 final size:20
Alignment explanation
Indices: 60411--60461 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
60401 AATGACCAAT
60411 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
60430 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
60450 AAAATCGCAACG
1 AAAATCGCAACG
60462 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:60455 original size:20 final size:20
Alignment explanation
Indices: 60411--60665 Score: 147
Period size: 20 Copynumber: 12.6 Consensus size: 20
60401 AATGACCAAT
* *
60411 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
60430 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
60450 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
60470 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
60490 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
60511 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
60534 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
60554 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
60574 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* *
60594 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
60614 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * ***
60634 AGAATCGCAACGCTAAAAAG
1 AAAATCGCAACGCGATTTAG
60654 AAAATCGCAACG
1 AAAATCGCAACG
60666 GTCAAAAGAA
Statistics
Matches: 191, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
19 17 0.09
20 146 0.76
21 14 0.07
23 14 0.07
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:60587 original size:40 final size:40
Alignment explanation
Indices: 60515--60646 Score: 192
Period size: 40 Copynumber: 3.2 Consensus size: 40
60505 GCTTCCAAGT
*
60515 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGA-TT-G-AGAGAATCGCAATGCGATTGATAGAA
* *
60558 TCGCAATGCGATTGAGAGAATCGCAATGCGATTTATAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
* *
60598 TCGCAACGCGATTGAGAGAATCGCAACGCGATTGAGAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
60638 TCGCAACGC
1 TCGCAACGC
60647 TAAAAAGAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 69 0.84
41 1 0.01
42 2 0.02
43 10 0.12
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (40 bp):
TCGCAACGCGATTGAGAGAATCGCAATGCGATTGATAGAA
Found at i:60660 original size:40 final size:40
Alignment explanation
Indices: 60411--60665 Score: 171
Period size: 40 Copynumber: 6.3 Consensus size: 40
60401 AATGACCAAT
* *
60411 AAAATCGCAACGCGA-T-ATCAAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAT-AGAATCGCAACGCGATTAAG
** *** * * *
60450 AAAATCGCAACGTTAAAAAGAAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGATTGATAGAATCGCAACGCGAT--TAAG
* *
60490 AAAATCGCAACGCGAGCTTCCA-AG-TTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA--TT-GATAGAATCGCAACGCGA-TT--AAG
* * *
60534 AAAATCGCAATGCGATTGATAGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGATAGAATCGCAACGCGATTAAG
* * * *
60574 AGAATCGCAATGCGATTTATAGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTGATAGAATCGCAACGCGATTAAG
* * * **
60614 AGAATCGCAACGCGATTGAGAGAATCGCAACGCTAAAAAG
1 AAAATCGCAACGCGATTGATAGAATCGCAACGCGATTAAG
60654 AAAATCGCAACG
1 AAAATCGCAACG
60666 GTCAAAAGAA
Statistics
Matches: 172, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 110 0.64
41 10 0.06
42 8 0.05
43 11 0.06
44 18 0.10
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATTGATAGAATCGCAACGCGATTAAG
Found at i:60660 original size:60 final size:61
Alignment explanation
Indices: 60411--60665 Score: 202
Period size: 60 Copynumber: 4.2 Consensus size: 61
60401 AATGACCAAT
* * * *
60411 AAAATCGCAACGCGATATCA-A-AATCGCAACGCGATTTAGAAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATATGAGAGAATCGCAACGCGATTGAGAGAATCGCAACGCTAAAAAG
** * * * * *
60470 AAAATCGCAACG-G-TCAAAAGAAAATCGCAACGCGAGCTTCCA-AG-TTCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-ATGAGAGAATCGCAACGCGA--TT-GAGAGAATCGCAACGC---TAAA
60531 AAG
59 AAG
* * * * * *** *
60534 AAAATCGCAATGCGAT-TGATAGAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATATGAGAGAATCGCAACGCGATTGAGAGAATCGCAACGCTAAAAAG
*
60594 AGAATCGCAACGCGAT-TGAGAGAATCGCAACGCGATTGAGAGAATCGCAACGCTAAAAAG
1 AAAATCGCAACGCGATATGAGAGAATCGCAACGCGATTGAGAGAATCGCAACGCTAAAAAG
60654 AAAATCGCAACG
1 AAAATCGCAACG
60666 GTCAAAAGAA
Statistics
Matches: 149, Mismatches: 34, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
57 1 0.01
58 3 0.02
59 13 0.09
60 75 0.50
61 9 0.06
62 7 0.05
63 9 0.06
64 30 0.20
65 1 0.01
66 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.17
Consensus pattern (61 bp):
AAAATCGCAACGCGATATGAGAGAATCGCAACGCGATTGAGAGAATCGCAACGCTAAAAAG
Found at i:60672 original size:20 final size:20
Alignment explanation
Indices: 60636--60675 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60626 CGATTGAGAG
60636 AATCGCAACGCTAAAAAGAA
1 AATCGCAACGCTAAAAAGAA
* *
60656 AATCGCAACGGTCAAAAGAA
1 AATCGCAACGCTAAAAAGAA
60676 TAGTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.20, G:0.17, T:0.10
Consensus pattern (20 bp):
AATCGCAACGCTAAAAAGAA
Found at i:60764 original size:6 final size:6
Alignment explanation
Indices: 60753--60844 Score: 177
Period size: 6 Copynumber: 15.5 Consensus size: 6
60743 GACACGTATT
60753 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
60801 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
60845 CGAGACGAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.06
6 81 0.94
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:61543 original size:6 final size:6
Alignment explanation
Indices: 61532--61594 Score: 126
Period size: 6 Copynumber: 10.5 Consensus size: 6
61522 TCTCGTCTCG
61532 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
61580 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
61595 AATACGTGTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:61727 original size:20 final size:20
Alignment explanation
Indices: 61704--61811 Score: 144
Period size: 20 Copynumber: 5.4 Consensus size: 20
61694 ATTTTCAACG
*
61704 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
* * *
61724 TTGCGATTCTCTCAGTCGCG
1 TTGCGATTCTATCAATCGCA
* *
61744 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
* *
61764 TTGCGATTATATAAATCGCA
1 TTGCGATTCTATCAATCGCA
61784 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
61804 TTGCGATT
1 TTGCGATT
61812 TTCTTCTAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:61833 original size:25 final size:25
Alignment explanation
Indices: 61805--61854 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61795 TCAATCGCAT
61805 TGCGATTTTCTTCTAAATCGCGTTG
1 TGCGATTTTCTTCTAAATCGCGTTG
61830 TGCGATTTTCTTCTAAATCGCGTTG
1 TGCGATTTTCTTCTAAATCGCGTTG
61855 CGAACTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (25 bp):
TGCGATTTTCTTCTAAATCGCGTTG
Found at i:61934 original size:20 final size:20
Alignment explanation
Indices: 61702--61961 Score: 121
Period size: 20 Copynumber: 12.6 Consensus size: 20
61692 TTATTTTCAA
* *
61702 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
61722 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * *
61742 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
61762 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
61782 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
61802 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
61825 CGTTGTGCGATTTTCTTCTAAATCG
1 CG-T-TGCGA--TT-TTCTAAATCG
** ** *
61850 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
61871 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
61889 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
61911 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
61931 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
61950 CGTTGCGATTTT
1 CGTTGCGATTTT
61962 ATTGGTCATT
Statistics
Matches: 192, Mismatches: 38, Indels: 21
0.76 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
19 17 0.09
20 119 0.62
21 13 0.07
22 4 0.02
23 13 0.07
24 2 0.01
25 22 0.11
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:61951 original size:19 final size:20
Alignment explanation
Indices: 61911--61961 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
61901 TTCTTTTTAA
*
61911 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
61931 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
61950 CGTTGCGATTTT
1 CGTTGCGATTTT
61962 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:62125 original size:28 final size:29
Alignment explanation
Indices: 62088--62143 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
62078 CTTAAGGGGA
*
62088 AAAATGAAATAACGGCACTTAA-AAAAAG
1 AAAATAAAATAACGGCACTTAAGAAAAAG
62116 AAAATAAAATAACGGCACTTAAGAAAAA
1 AAAATAAAATAACGGCACTTAAGAAAAA
62144 AAGAAAGCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.62, C:0.11, G:0.12, T:0.14
Consensus pattern (29 bp):
AAAATAAAATAACGGCACTTAAGAAAAAG
Found at i:67283 original size:25 final size:25
Alignment explanation
Indices: 67249--67315 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
67239 AACTCGATTG
* *
67249 AAGCTTGATTGAAGCTCAAAAATTT
1 AAGCTAGATTGAAACTCAAAAATTT
* *
67274 GAGCTCGATTGAAACTCAAAAATTT
1 AAGCTAGATTGAAACTCAAAAATTT
*
67299 AAGCTAGATTCAAACTC
1 AAGCTAGATTGAAACTC
67316 GAAGATTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (25 bp):
AAGCTAGATTGAAACTCAAAAATTT
Found at i:68052 original size:2 final size:2
Alignment explanation
Indices: 68045--68102 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
68035 ATCGATTTTA
68045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68087 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
68103 CTCATACTCG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68493 original size:14 final size:14
Alignment explanation
Indices: 68474--68510 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
68464 ATGAGGTAAG
*
68474 TATGATTTAGGGTT
1 TATGATTTAGAGTT
68488 TATGATTTAGAGTT
1 TATGATTTAGAGTT
68502 TATGATTTA
1 TATGATTTA
68511 AGATTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TATGATTTAGAGTT
Found at i:68517 original size:14 final size:14
Alignment explanation
Indices: 68474--68518 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
68464 ATGAGGTAAG
* *
68474 TATGATTTAGGGTT
1 TATGATTTAAGATT
68488 TATGATTT-AGAGTT
1 TATGATTTAAGA-TT
68502 TATGATTTAAGATT
1 TATGATTTAAGATT
68516 TAT
1 TAT
68519 TTTTTATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 23 0.85
15 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (14 bp):
TATGATTTAAGATT
Found at i:68524 original size:28 final size:28
Alignment explanation
Indices: 68474--68541 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
68464 ATGAGGTAAG
* *
68474 TATGATTTAGGGTTTATGATTTA-GAGTT
1 TATGATTTAAGATTTATGATTTATG-GTT
**
68502 TATGATTTAAGATTTATTTTTTATGGTT
1 TATGATTTAAGATTTATGATTTATGGTT
* *
68530 TAGGGTTTAAGA
1 TATGATTTAAGA
68542 CTAATTGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.51
Consensus pattern (28 bp):
TATGATTTAAGATTTATGATTTATGGTT
Found at i:69207 original size:19 final size:19
Alignment explanation
Indices: 69180--69216 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
69170 ATGACTAACA
*
69180 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
69199 AAATTGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
69217 CAGTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:69527 original size:22 final size:22
Alignment explanation
Indices: 69502--69544 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
69492 GGCGACATCC
69502 GTCCCCATCTCCGACGAAATCT
1 GTCCCCATCTCCGACGAAATCT
*
69524 GTCCCCATCTCCGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
69545 CGTCTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCT
Found at i:69996 original size:20 final size:20
Alignment explanation
Indices: 69938--70023 Score: 104
Period size: 20 Copynumber: 4.4 Consensus size: 20
69928 AAATCGCAAC
*
69938 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
69957 GCGATTTTCA-TTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
** *
69976 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
* *
69996 GTGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
70016 GCGATTTT
1 GCGATTTT
70024 AAGTTTCAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
19 25 0.43
20 33 0.57
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.50
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:71957 original size:20 final size:20
Alignment explanation
Indices: 71934--72002 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
71924 GAAACTTAAA
71934 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
71954 ATCGCAACGTGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
71974 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
71994 ATCGCAACG
1 ATCGCAACG
72003 GGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:72255 original size:14 final size:14
Alignment explanation
Indices: 72236--72272 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
72226 GCTTGTTTAA
72236 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
72250 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
72264 TTGATTTGT
1 TTGATTTGT
72273 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:72417 original size:20 final size:20
Alignment explanation
Indices: 72392--72469 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
72382 AGGTACACTT
*
72392 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
** *
72412 TCGCAATACGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
*
72432 TCGCAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
*
72452 TCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
72470 TTCGCGTTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:72436 original size:40 final size:40
Alignment explanation
Indices: 72392--72469 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
72382 AGGTACACTT
* *
72392 TCGCAACGCTAAA-CTCAAAATCGCAATACGAAAGTCAAAA
1 TCGCAACGCGAAAGC-CAAAATCGCAACACGAAAGTCAAAA
* *
72432 TCGCAATGCGAAAGCCAAAATCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAAGCCAAAATCGCAACACGAAAGTCAA
72470 TTCGCGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.45, C:0.26, G:0.17, T:0.13
Consensus pattern (40 bp):
TCGCAACGCGAAAGCCAAAATCGCAACACGAAAGTCAAAA
Found at i:72533 original size:20 final size:20
Alignment explanation
Indices: 72508--72564 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
72498 GCGATTTTCT
72508 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCC
*
72528 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCC
*
72548 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
72565 GAATGTGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCC
Found at i:72730 original size:20 final size:20
Alignment explanation
Indices: 72705--72758 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
72695 ATTTTTGCGT
72705 TGCGATAGTCAAATTCGCGA
1 TGCGATAGTCAAATTCGCGA
*
72725 TGCGATAGTCAAATTCGCGT
1 TGCGATAGTCAAATTCGCGA
*
72745 TGCGATATTCAAAT
1 TGCGATAGTCAAAT
72759 GAATTTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAAATTCGCGA
Found at i:72825 original size:194 final size:194
Alignment explanation
Indices: 72481--72890 Score: 723
Period size: 194 Copynumber: 2.1 Consensus size: 194
72471 TCGCGTTGCG
* * * *
72481 ATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAGTCAAATT
1 ATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCGATGCGATAGTCAAATT
*
72546 CGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAGCAATGTTC
66 CGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGCAATGTTC
*
72611 AAACTCAATTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACATA
131 AAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACATA
*
72675 ATAGTCAAATTCGCGTTGCGATTTT-TGCGTTGCGATAGTCAAATTCGCGATGCGATAGTCAAAT
1 ATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAATTCCCGATGCGATAGTCAAAT
*
72739 TCGCGTTGCGATATTCAAATGAATTTGTAATAAGTGATAACAACTGAACAGATCATAGCAATGTT
65 TCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGCAATGTT
*
72804 CAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTATACATAAAATACACATA
130 CAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACATA
72869 ATAGTCAAATTCGCGTTGCGAT
1 ATAGTCAAATTCGCGTTGCGAT
72891 ATTCAAATGA
Statistics
Matches: 206, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
193 1 0.00
194 205 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (194 bp):
ATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCCCGATGCGATAGTCAAATT
CGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCATAGCAATGTTC
AAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAATACACATA
Found at i:72899 original size:140 final size:140
Alignment explanation
Indices: 72729--73011 Score: 539
Period size: 140 Copynumber: 2.0 Consensus size: 140
72719 TCGCGATGCG
*
72729 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATTTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
72794 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTATACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
72859 AATACACATA
131 AATACACATA
*
72869 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
72934 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
72999 AATACACATA
131 AATACACATA
73009 ATA
1 ATA
73012 CAATGTTTGC
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:73092 original size:18 final size:18
Alignment explanation
Indices: 73069--73103 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73059 AAGCCGGTTG
73069 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
73087 TGATTGCGATTTTGATT
1 TGATTGAGATTTTGATT
73104 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.54
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:74038 original size:20 final size:20
Alignment explanation
Indices: 73989--74133 Score: 125
Period size: 20 Copynumber: 7.2 Consensus size: 20
73979 GAAATTCAGT
* *
73989 GTTGCGACAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCGC
74009 GTTG-GATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* * *
74028 GTTGCGATAGTAATAATCGA
1 GTTGCGATAGTCAGAATCGC
**
74048 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
* * *
74069 ATTGCGATAATTAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
74089 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
74110 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
74130 GTTG
1 GTTG
74134 TGATTTTCTA
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
19 20 0.20
20 49 0.49
21 29 0.29
22 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:74073 original size:21 final size:21
Alignment explanation
Indices: 74023--74117 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 21
74013 GATAGTCAGA
*
74023 ATCGCGTTGCGA-TA-GTAATA
1 ATCGCGTTGCGATTATGT-ATT
*
74043 ATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
* * **
74064 ATCGCATTGCGATAAT-TAGA
1 ATCGCGTTGCGATTATGTATT
74084 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
74105 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
74118 AGTCAGAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
20 27 0.44
21 32 0.52
22 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:74087 original size:41 final size:41
Alignment explanation
Indices: 74023--74138 Score: 169
Period size: 41 Copynumber: 2.8 Consensus size: 41
74013 GATAGTCAGA
* *
74023 ATCGCGTTGCGATAGTAATAATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
* * *
74064 ATCGCATTGCGATAATTAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
* *
74105 ATCGCGTTGCGATAGTCAGAATCGCGTTGTGATT
1 ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATT
74139 TTCTAAAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
Found at i:74129 original size:61 final size:59
Alignment explanation
Indices: 73989--74129 Score: 142
Period size: 61 Copynumber: 2.3 Consensus size: 59
73979 GAAATTCAGT
* * * *
73989 GTTGCGACAGTCAGAATCACGTTGGATAGTCAGAATCGCGTTGCGATAGTAATAATCGA
1 GTTGCGATAGTCAGAATCGCATTGGATAATCAGAATCGCGTTGCGATAGTAATAATCGA
** * * *
74048 GTTGCGATTATGT-ATTATCGCATTGCGATAATTAGAATCGCGTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGCATTG-GATAATCAGAATCGCGTTGCGA-TA-GTAATAATCGA
74110 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
74130 GTTGTGATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
59 7 0.11
60 11 0.17
61 30 0.46
62 15 0.23
63 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (59 bp):
GTTGCGATAGTCAGAATCGCATTGGATAATCAGAATCGCGTTGCGATAGTAATAATCGA
Found at i:74150 original size:41 final size:41
Alignment explanation
Indices: 73989--74150 Score: 150
Period size: 41 Copynumber: 4.0 Consensus size: 41
73979 GAAATTCAGT
* * *
73989 GTTGCGACAGTCAGAATCACGTTG-GA-TAGTC-AGAATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTA-TCTATAATCGC
* * * * *
74028 GTTGCGATAGTAATAATCGAGTTGCGATTATGTATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATCTATAATCGC
* * * * *
74069 ATTGCGATAATTAGAATCGCGTTGCGATTATGTATTATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATCTATAATCGC
* * *
74110 GTTGCGATAGTCAGAATCGCGTTGTGATTTTCTAAAATCGC
1 GTTGCGATAGTCAGAATCGCGTTGCGATTATCTATAATCGC
74151 AACGCGAATT
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 19 0.19
40 3 0.03
41 77 0.78
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
GTTGCGATAGTCAGAATCGCGTTGCGATTATCTATAATCGC
Found at i:74248 original size:19 final size:19
Alignment explanation
Indices: 74224--74260 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
74214 TGCGATACTG
* *
74224 GAGATCGCGTTGTGATTTA
1 GAGATCGCATTGCGATTTA
74243 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
74261 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:75075 original size:22 final size:22
Alignment explanation
Indices: 75044--75086 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
75034 GCTTTAGTAT
* *
75044 ATATATGTATGTACGTACGTAC
1 ATATACGTATGTACATACGTAC
75066 ATATACGTATGTACATACGTA
1 ATATACGTATGTACATACGTA
75087 TGTATCACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (22 bp):
ATATACGTATGTACATACGTAC
Found at i:86448 original size:29 final size:29
Alignment explanation
Indices: 86416--86477 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
86406 ATTTTATTAG
* *
86416 ATTAAATTTAGAATTTTAATAATTGTT-TT
1 ATTAAATTTA-AATATTAATAATTATTATT
* *
86445 ATTAATTTTAAATATTAATTATTATTATT
1 ATTAAATTTAAATATTAATAATTATTATT
86474 ATTA
1 ATTA
86478 TTATTATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTAAATTTAAATATTAATAATTATTATT
Found at i:86470 original size:3 final size:3
Alignment explanation
Indices: 86457--86490 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
86447 TAATTTTAAA
86457 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86491 GATAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:86714 original size:21 final size:20
Alignment explanation
Indices: 86690--86729 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
86680 TTAATAAATT
86690 TATTTTTATTAAATATTTTTC
1 TATTTTTATTAAAT-TTTTTC
*
86711 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
86730 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TATTTTTATTAAATTTTTTC
Found at i:97537 original size:22 final size:22
Alignment explanation
Indices: 97463--97543 Score: 94
Period size: 23 Copynumber: 3.7 Consensus size: 22
97453 TAGAACCCTT
*
97463 GGGGGTATCGATTCCCC-T-AA
1 GGGGGAATCGATTCCCCTTCAA
*
97483 GGGGGAATCGATTCCCATTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
* *
97506 GGGGGAATCGGTTCCCCTTCAC
1 GGGGGAATCGATTCCCCTTCAA
*
97528 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
97544 TCTGCCCTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
20 15 0.29
21 1 0.02
22 15 0.29
23 20 0.39
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:111332 original size:27 final size:23
Alignment explanation
Indices: 111282--111326 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
111272 CGAGCTAACT
*
111282 AACTTGTTTAACAAACTTGAAAC
1 AACTTGCTTAACAAACTTGAAAC
111305 AACTTGCTTAACAAACTTGAAA
1 AACTTGCTTAACAAACTTGAAA
111327 TAAACACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (23 bp):
AACTTGCTTAACAAACTTGAAAC
Found at i:112647 original size:24 final size:24
Alignment explanation
Indices: 112587--112659 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 24
112577 ACATTTATTT
* * *
112587 TTCATTTATGTTTGTTTACGTTCA
1 TTCATTTGTGTTCGTTTACGTTCG
* *
112611 TTTA-TTGTGTTCGTTAACGTTCG
1 TTCATTTGTGTTCGTTTACGTTCG
*
112634 TTCATTTGTGTTCGTTTATGTTCG
1 TTCATTTGTGTTCGTTTACGTTCG
112658 TT
1 TT
112660 TATCATTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 18 0.45
24 22 0.55
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.58
Consensus pattern (24 bp):
TTCATTTGTGTTCGTTTACGTTCG
Found at i:112786 original size:24 final size:24
Alignment explanation
Indices: 112754--112799 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
112744 TTTATGTTCG
112754 TGTTCGTTCATTTATTTGGTTAAA
1 TGTTCGTTCATTTATTTGGTTAAA
*
112778 TGTTCGTTCATTTGTTTGGTTA
1 TGTTCGTTCATTTATTTGGTTA
112800 GAGTTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.09, G:0.20, T:0.57
Consensus pattern (24 bp):
TGTTCGTTCATTTATTTGGTTAAA
Found at i:117916 original size:161 final size:162
Alignment explanation
Indices: 117711--118227 Score: 651
Period size: 161 Copynumber: 3.1 Consensus size: 162
117701 GTCACGAAAA
* * *
117711 GACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGCGACCGGATATATTGAAAGCGTCGATACTTTAATATAAGTATCGACA
* * *
117776 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCCTATAAAGTATTGATACTTTATAACAATGTA
66 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTATAACAATATA
*
117841 TCGATCCACAACGATATAACAAGTAAAAATAT
131 TCGATCCACAAAGATATAACAAGTAAAAATAT
* *
117873 GA-AAAACCGGTATAGAGCGACCGTATATATTGAAAGCGTCGATACTTTAATATAAGTATCGACA
1 GACAAAACCGGTAAAGAGCGACCGGATATATTGAAAGCGTCGATACTTTAATATAAGTATCGACA
117937 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTATAACAATATA
66 CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTATAACAATATA
118002 TCGATCCACAAAGATATAACAAGTAAAAATAT
131 TCGATCCACAAAGATATAACAAGTAAAAATAT
* * *
118034 GACAAAATCGATCTCTAAAGGACAAAATCGGTATAGAACGACCGAATATATTGAAAGTGTCGATA
1 GAC-AAA---A-C-C----GG--TAAA---G---AG--CGACCGGATATATTGAAAGCGTCGATA
* * *
118099 CTTTAATATAAGTATCGACACTTTGCGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGT
46 CTTTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTAT
* * * **
118164 CGATACTTTATAAAAATGTATCGATCCATAACA-ATATAACTGGTAAAAATAT
111 CGATACTTTATAACAATATATCGATCCACAA-AGATATAACAAGTAAAAATAT
118216 GACAAAACCGGT
1 GACAAAACCGGT
118228 CTCGAAATGA
Statistics
Matches: 311, Mismatches: 22, Indels: 36
0.84 0.06 0.10
Matches are distributed among these distances:
161 152 0.49
162 2 0.01
163 3 0.01
166 1 0.00
167 1 0.00
168 1 0.00
172 4 0.01
174 2 0.01
176 1 0.00
177 2 0.01
178 1 0.00
180 2 0.01
181 3 0.01
182 135 0.43
183 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (162 bp):
GACAAAACCGGTAAAGAGCGACCGGATATATTGAAAGCGTCGATACTTTAATATAAGTATCGACA
CTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTATAACAATATA
TCGATCCACAAAGATATAACAAGTAAAAATAT
Found at i:118188 original size:182 final size:182
Alignment explanation
Indices: 117875--118287 Score: 607
Period size: 182 Copynumber: 2.3 Consensus size: 182
117865 AAAAATATGA
* * *
117875 AAAACCGGTATAGAGCGACCGTATATATTGAAAGCGTCGATACTTTAATATAAGTATCGACACTT
1 AAAATCGGTATAGAGCGACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
* * *
117940 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTATAACAATATATCG
66 TGCGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTATCGATACTTTATAAAAATATATCG
* *
118005 ATCCACAA-AGATATAACAAGTAAAAATATGACAAAATCGATCTCTAAAGGAC
131 ATCCACAACA-ATATAACAAGTAAAAATATGACAAAACCGATCTCGAAAGGAC
*
118057 AAAATCGGTATAGAACGACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
1 AAAATCGGTATAGAGCGACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
* *
118122 TGCGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTATAAAAATGTATCG
66 TGCGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTATCGATACTTTATAAAAATATATCG
* ** * *
118187 ATCCATAACAATATAACTGGTAAAAATATGACAAAACCGGTCTCGAAATGAC
131 ATCCACAACAATATAACAAGTAAAAATATGACAAAACCGATCTCGAAAGGAC
* * * *
118239 AAAATC-GTAAAGTGCTACC-AGATATATTGAAATTGTCGATACTTTAATA
1 AAAATCGGTATAGAGCGACCGA-ATATATTGAAAGTGTCGATACTTTAATA
118288 AGTATGCGTA
Statistics
Matches: 208, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
180 1 0.00
181 36 0.17
182 170 0.82
183 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAATCGGTATAGAGCGACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
TGCGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTATCGATACTTTATAAAAATATATCG
ATCCACAACAATATAACAAGTAAAAATATGACAAAACCGATCTCGAAAGGAC
Found at i:124547 original size:200 final size:198
Alignment explanation
Indices: 124198--124675 Score: 596
Period size: 200 Copynumber: 2.4 Consensus size: 198
124188 ACCTAAATAT
* * * *
124198 GTGTCGATAC-ATTTTCTAAAAGTATCGA-CCCAAAAAACATCAAAACCAATAATTATAATATAA
1 GTGTCGATACAATTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAA
** * **
124261 TAAGTAAA-TTACCAATGTAACCGGTATAAATATACCGGTTACTTAGAAAGCAAGTCAACATATT
64 TAAGTAAATTTA-CAATGTAACCAATATAAATATACCGGTTACTTAGAAAACAAGTCAACATAAA
* *
124325 GTATCGACACTTGTGTAATTTGTGTCGATAC-TTATTGTCCA-GAATGAATGCCCAAACGAGGTG
128 GTATCAACACTTGTGTAATTTGTGTCGATACATT-TTGTCCATG-ATGAATG-CCAAACG-GATG
124388 CACGCATAAA
189 CACGCATAAA
*
124398 GTGTCGATACAATTATTAAAAATATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACAATTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* ** * * *
124462 ATGTAAATTTACAATGTAACCAATAT-AATATACCGGTTTTTTGAGAAAATATGTCATCATAAAG
65 AAGTAAATTTACAATGTAACCAATATAAATATACCGGTTACTT-AGAAAACAAGTCAACATAAAG
* *
124526 TATTAACACTTGT-TAAATTTGTGTCGATACATTTTGTCCATGATGAATGCCAAACGGATGCATG
129 TATCAACACTTGTGT-AATTTGTGTCGATACATTTTGTCCATGATGAATGCCAAACGGATGCACG
124590 CATAAA
193 CATAAA
* *
124596 GTGTCGATACATTTATTAAAAGTATCGAT-CCAAAAACATCGAAACCGATAATTACAATGTAATA
1 GTGTCGATACAATTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
*
124660 GGTAAATTTACAATGT
66 AGTAAATTTACAATGT
124676 GATAGGTAAA
Statistics
Matches: 245, Mismatches: 24, Indels: 21
0.84 0.08 0.07
Matches are distributed among these distances:
196 3 0.01
197 45 0.18
198 39 0.16
199 22 0.09
200 120 0.49
201 16 0.07
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.30
Consensus pattern (198 bp):
GTGTCGATACAATTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
AGTAAATTTACAATGTAACCAATATAAATATACCGGTTACTTAGAAAACAAGTCAACATAAAGTA
TCAACACTTGTGTAATTTGTGTCGATACATTTTGTCCATGATGAATGCCAAACGGATGCACGCAT
AAA
Found at i:124672 original size:20 final size:20
Alignment explanation
Indices: 124647--124696 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
124637 AAACCGATAA
124647 TTACAATGTAATAGGTAAAT
1 TTACAATGTAATAGGTAAAT
*
124667 TTACAATGTGATAGGTAAAT
1 TTACAATGTAATAGGTAAAT
124687 TTACAATGTA
1 TTACAATGTA
124697 CCTGATAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (20 bp):
TTACAATGTAATAGGTAAAT
Found at i:125034 original size:23 final size:23
Alignment explanation
Indices: 125008--125068 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
124998 TCTGGTTAAA
*
125008 TACCTATTTTATTATATAAGTGC
1 TACCTATTTTATTATATAAGCGC
**
125031 TACCTATTACATTATATAAGCGC
1 TACCTATTTTATTATATAAGCGC
* *
125054 TACCTAATTTGTTAT
1 TACCTATTTTATTAT
125069 TGTACTTGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.44
Consensus pattern (23 bp):
TACCTATTTTATTATATAAGCGC
Found at i:125034 original size:87 final size:87
Alignment explanation
Indices: 124934--125095 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
124924 AAATAGGTCA
*
124934 ATATAAGCACTACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
124999 C-TGGTTAAATACCTATTTTATT
66 CAT-GTTAAATACCTATTTTATT
** *
125021 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
125086 CATGTTAAAT
66 CATGTTAAAT
125096 GATATAATAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 69 0.99
88 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CATGTTAAATACCTATTTTATT
Found at i:128044 original size:13 final size:13
Alignment explanation
Indices: 128028--128052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128018 TAATTATAAA
128028 ATAAAAATTTTAT
1 ATAAAAATTTTAT
128041 ATAAAAATTTTA
1 ATAAAAATTTTA
128053 ATTAATTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTTTAT
Found at i:128347 original size:188 final size:185
Alignment explanation
Indices: 127958--128349 Score: 599
Period size: 187 Copynumber: 2.1 Consensus size: 185
127948 TTTTCTAATT
* * *
127958 TATATAA-AAATTAAATA-TTTTATAATTAAAAAACAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTATAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAA
* * *
128021 TTATAAAATAAAAATTTTATATAAAAATTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
66 TTATAAAATAAAAAATTTATACAAAAATTTTAATTAATTAATACTGATTTAAGTTTAAAAGTTAT
* * *
128086 TGTATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCTATATGTTA
131 TGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTAA
*
128141 TATATAATATATTTAATATTTTTTTAATTCAGAAAAACAGTTTACAATTAATTTAAATAATATAT
1 TATATAATATATTTAATATTTTTATAATT-A-AAAAACAGTTTACAATTAATTTAAATAATATAT
*** *
128206 AATTATAAAATAAAAAATTTATACAATTTTTTTAATTAATTAATACTGATTTAGGTTTAAAAAGT
64 AATTATAAAATAAAAAATTTATACAAAAATTTTAATTAATTAATACTGATTTAAGTTT-AAAAGT
* *
128271 TATTGGATTTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTAA
128 TATTGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTAA
128329 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
128350 AAAATTTTAT
Statistics
Matches: 188, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
183 7 0.04
184 8 0.04
185 9 0.05
186 1 0.01
187 83 0.44
188 80 0.43
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTTATAATTAAAAAACAGTTTACAATTAATTTAAATAATATATAA
TTATAAAATAAAAAATTTATACAAAAATTTTAATTAATTAATACTGATTTAAGTTTAAAAGTTAT
TGGATCTTAAATTATTAATTGGGTTTTAAATGGTATGGGCTGAGCCCATATGTAA
Found at i:132185 original size:3 final size:3
Alignment explanation
Indices: 132177--132246 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
132167 CGAGACTATA
* * * *
132177 TAT TAT TAT TA- TAA TAT TAC AAT TAT TAT TAT TAT CA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
132223 TAT ATAT TAA TA- TATT TAT TAT TA
1 TAT -TAT TAT TAT TA-T TAT TAT TA
132247 CAAATAATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 5 0.09
3 44 0.81
4 5 0.09
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:132195 original size:14 final size:14
Alignment explanation
Indices: 132176--132244 Score: 54
Period size: 14 Copynumber: 4.9 Consensus size: 14
132166 CCGAGACTAT
132176 ATATTATTATTATA
1 ATATTATTATTATA
**
132190 ATATTACAATTAT-
1 ATATTATTATTATA
*
132203 -TATTATTATCATA
1 ATATTATTATTATA
*
132216 TTATTATTATATATTA
1 ATATTATTAT-TA-TA
132232 ATA-TATTTATTAT
1 ATATTA-TTATTAT
132245 TACAAATAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
12 9 0.21
14 21 0.49
15 5 0.12
16 8 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATTATTATA
Found at i:132203 original size:20 final size:20
Alignment explanation
Indices: 132176--132244 Score: 78
Period size: 17 Copynumber: 3.6 Consensus size: 20
132166 CCGAGACTAT
132176 ATATTATTATTATAATATTAC
1 ATATTATTATTAT-ATATTAC
132197 A-ATTATTATTAT-TA-T-C
1 ATATTATTATTATATATTAC
132213 ATATTATTATTATATATTA-
1 ATATTATTATTATATATTAC
132232 ATA-TATTTATTAT
1 ATATTA-TTATTAT
132245 TACAAATAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.05
17 12 0.28
18 6 0.14
19 11 0.26
20 11 0.26
21 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTATTATTATATATTAC
Found at i:132207 original size:23 final size:23
Alignment explanation
Indices: 132177--132236 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
132167 CGAGACTATA
132177 TATTATTATTATAATATTACAAT
1 TATTATTATTATAATATTACAAT
* **
132200 TATTATTATTATCATATTATTAT
1 TATTATTATTATAATATTACAAT
*
132223 TATATATTAATATA
1 TAT-TATTATTATA
132237 TTTATTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 23 0.74
24 8 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATTATTATAATATTACAAT
Found at i:132235 original size:8 final size:7
Alignment explanation
Indices: 132173--132238 Score: 57
Period size: 8 Copynumber: 9.1 Consensus size: 7
132163 GTTCCGAGAC
132173 TATATAT
1 TATATAT
132180 TAT-TAT
1 TATATAT
132186 TATAATAT
1 TAT-ATAT
*
132194 TACA-AT
1 TATATAT
132200 TATTATTAT
1 TA-TA-TAT
132209 TATCATAT
1 TAT-ATAT
132217 TAT-TAT
1 TATATAT
132223 TATATAT
1 TATATAT
132230 TAATATAT
1 T-ATATAT
132238 T
1 T
132239 TATTATTACA
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
6 16 0.33
7 9 0.18
8 19 0.39
9 5 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:140603 original size:40 final size:39
Alignment explanation
Indices: 140488--140612 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 39
140478 TTGGGATATC
* *
140488 TTGAAGGCTCGCATCAACAAGAAGAAAATGTTAGGGCATT
1 TTGAAGGCTC-CATTAACAAGAAGAAAATGTTGGGGCATT
* *
140528 TTGAAGAC-CCATTCCAACCAGAA-ATAGAATG-TGGGGCATT
1 TTGAAGGCTCCATT--AACAAGAAGA-A-AATGTTGGGGCATT
* * *
140568 TTGAAGGCTCACATTAACAAGAAGCAAATGTTGGGGTATG
1 TTGAAGGCTC-CATTAACAAGAAGAAAATGTTGGGGCATT
140608 TTGAA
1 TTGAA
140613 AACCTATATC
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
38 3 0.04
39 6 0.09
40 50 0.74
41 5 0.07
42 4 0.06
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (39 bp):
TTGAAGGCTCCATTAACAAGAAGAAAATGTTGGGGCATT
Found at i:141935 original size:20 final size:20
Alignment explanation
Indices: 141907--141955 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
141897 TCAAGAAAAT
* * *
141907 TAAATCCTCCAGGTGATTTG
1 TAAAACCTCCAGGTCATCTG
**
141927 TAAAACCTCTGGGTCATCTG
1 TAAAACCTCCAGGTCATCTG
141947 TAAAACCTC
1 TAAAACCTC
141956 AGGGTAGGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (20 bp):
TAAAACCTCCAGGTCATCTG
Found at i:142057 original size:20 final size:20
Alignment explanation
Indices: 142032--142081 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
142022 AAAATTATAT
*
142032 CCTCCGGGTAATTTGTAAAA
1 CCTCCGGGTAATCTGTAAAA
*
142052 CCTCCGGGTCATCTGTAAAA
1 CCTCCGGGTAATCTGTAAAA
*
142072 CCTCAGGGTA
1 CCTCCGGGTA
142082 GGATGTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (20 bp):
CCTCCGGGTAATCTGTAAAA
Found at i:142173 original size:20 final size:20
Alignment explanation
Indices: 142145--142199 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
142135 TTCAAGAAAT
* * *
142145 TAAATCCTCCGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
* *
142165 TAAAACCTCTGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
142185 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
142200 GGATTTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:142198 original size:118 final size:119
Alignment explanation
Indices: 141871--142316 Score: 734
Period size: 118 Copynumber: 3.8 Consensus size: 119
141861 AAGTAAGCTT
* *
141871 GATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCAGGTGATTTGTAAAACCTC
1 GATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAAACCTC
* ** *
141936 TGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGAATGAAAATGAGAAAAT
66 CGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCTCATGAAAATGAGAAAAC
* *
141990 GATTTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTATATCCTCCGGGTAATTTGTAAAACCT
1 GA-TTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAAACCT
142055 CCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCTCATGAAAATGAGAAAAC
65 CCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCTCATGAAAATGAGAAAAC
142110 GATTTTCAAAGTTTCTCATTTAATGTTCAAG-AAATTAAATCCTCCGGGTAATTTGTAAAACCTC
1 GATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAAACCTC
* *
142174 TGGGTCATCTGTAAAACCTCAGGGTAGGAT-TTTTCTCATGAAAATGAGAAAGC
66 CGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCTCATGAAAATGAGAAAAC
* *
142227 GATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGGTGATTTGTAAAACCTC
1 GATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAAACCTC
* * *
142292 CGGGTCATCTATAAATCCTCCGGGT
66 CGGGTCATCTGTAAAACCTCAGGGT
142317 GATTTGTAAA
Statistics
Matches: 307, Mismatches: 18, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
117 52 0.17
118 114 0.37
119 30 0.10
120 111 0.36
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (119 bp):
GATTTTCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTAATTTGTAAAACCTC
CGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCTCATGAAAATGAGAAAAC
Found at i:142291 original size:20 final size:20
Alignment explanation
Indices: 142263--142396 Score: 133
Period size: 20 Copynumber: 6.7 Consensus size: 20
142253 TCTAGAAAAT
* * *
142263 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCCGGGTCATCTG
*
142283 TAAAACCTCCGGGTCATCTA
1 TAAAACCTCCGGGTCATCTG
* * *
142303 TAAATCCTCCGGGTGATTTG
1 TAAAACCTCCGGGTCATCTG
* * *
142323 TAAAACCTCTGGATCATCTA
1 TAAAACCTCCGGGTCATCTG
* * * *
142343 TAAATCCTCCAGGTAATTTG
1 TAAAACCTCCGGGTCATCTG
142363 TAAAACCTCCGGGTCATCTG
1 TAAAACCTCCGGGTCATCTG
*
142383 TAAAACCTCTGGGT
1 TAAAACCTCCGGGT
142397 ATGATGTTTT
Statistics
Matches: 88, Mismatches: 26, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCTG
Found at i:142318 original size:40 final size:40
Alignment explanation
Indices: 142263--142396 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
142253 TCTAGAAAAT
142263 TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGTCATCTA
1 TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGTCATCTA
* *
142303 TAAATCCTCCGGGTGATTTGTAAAACCTCTGGATCATCTA
1 TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGTCATCTA
* * *
142343 TAAATCCTCCAGGTAATTTGTAAAACCTCCGGGTCATCTG
1 TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGTCATCTA
* *
142383 TAAAACCTCTGGGT
1 TAAATCCTCCGGGT
142397 ATGATGTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (40 bp):
TAAATCCTCCGGGTGATTTGTAAAACCTCCGGGTCATCTA
Found at i:142550 original size:3 final size:3
Alignment explanation
Indices: 142542--142608 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
142532 TGAGACTATA
* * *
142542 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
142588 ATAT TAA TA- TATT TAT TAT TA
1 -TAT TAT TAT TA-T TAT TAT TA
142609 CAAATAATAC
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
2 5 0.10
3 42 0.81
4 5 0.10
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:142559 original size:14 final size:14
Alignment explanation
Indices: 142540--142608 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
142530 TCTGAGACTA
142540 TATATTATTATTAT
1 TATATTATTATTAT
142554 TATATTACAATTATTAT
1 TATATT---ATTATTAT
142571 TATCA-TATTATTAT
1 TAT-ATTATTATTAT
*
142585 TATA-TATTAATA-
1 TATATTATTATTAT
142597 TAT-TTATTATTA
1 TATATTATTATTA
142609 CAAATAATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
12 10 0.21
13 8 0.17
14 17 0.35
17 12 0.25
18 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTATTATTAT
Found at i:147511 original size:20 final size:21
Alignment explanation
Indices: 147483--147522 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
147473 GGTTATAGTC
*
147483 ATTTTTAGTC-GTTGGGGATA
1 ATTTCTAGTCAGTTGGGGATA
*
147503 ATTTCTAGTCATTTGGGGAT
1 ATTTCTAGTCAGTTGGGGAT
147523 GTTTTCTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (21 bp):
ATTTCTAGTCAGTTGGGGATA
Found at i:157049 original size:16 final size:16
Alignment explanation
Indices: 157028--157058 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
157018 TAATAAATAA
157028 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
157044 ACGAACATAAACGAA
1 ACGAACATAAACGAA
157059 TAAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:157156 original size:16 final size:16
Alignment explanation
Indices: 157130--157174 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
157120 TAATAAATAA
157130 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
** *
157146 ACGGGCATAAATGAAC
1 ACGAACATAAACGAAC
157162 ACGAACATAAACG
1 ACGAACATAAACG
157175 TTGGATACCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.22, G:0.18, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:158282 original size:14 final size:14
Alignment explanation
Indices: 158265--158320 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
158255 AATGAACATA
158265 AACGAACATAACCG
1 AACGAACATAACCG
158279 AACGAACAT-A---
1 AACGAACATAACCG
158289 AACGAACATAACCG
1 AACGAACATAACCG
* *
158303 TATGAACATAACCG
1 AACGAACATAACCG
158317 AACG
1 AACG
158321 TTCACGAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 23 0.68
ACGTcount: A:0.50, C:0.25, G:0.14, T:0.11
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:158285 original size:24 final size:24
Alignment explanation
Indices: 158258--158319 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
158248 ATAAATGAAT
158258 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
* *
158282 GAACATAAACGAACATAACCGTAT
1 GAACATAAACGAACATAACCGAAC
*
158306 GAACATAACCGAAC
1 GAACATAAACGAAC
158320 GTTCACGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.52, C:0.24, G:0.13, T:0.11
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:158380 original size:43 final size:40
Alignment explanation
Indices: 158331--158431 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 40
158321 TTCACGAACG
* * *
158331 TAAATGAACGAACGAGACCTATGTTCATGTTCGTTCATTTAA
1 TAAATGAACG-ACAAAACCT-TGTTCATGCTCGTTCATTTAA
*
158373 TTAAATGAAC-ACAAAATCTTGTTCATGCTCGTTCATTTAA
1 -TAAATGAACGACAAAACCTTGTTCATGCTCGTTCATTTAA
*
158413 TAAATAAACGCACATAAAC
1 TAAATGAACG-ACA-AAAC
158432 GAACTTCCTG
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 8 0.16
40 20 0.41
41 9 0.18
42 3 0.06
43 9 0.18
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (40 bp):
TAAATGAACGACAAAACCTTGTTCATGCTCGTTCATTTAA
Found at i:158901 original size:29 final size:29
Alignment explanation
Indices: 158867--158925 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
158857 CCTAAATTAA
158867 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
158896 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
158925 T
1 T
158926 AGGTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:163577 original size:29 final size:29
Alignment explanation
Indices: 163543--163601 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
163533 CCTAAATTAA
163543 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
163572 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
163601 T
1 T
163602 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:166347 original size:30 final size:30
Alignment explanation
Indices: 166293--166387 Score: 145
Period size: 30 Copynumber: 3.1 Consensus size: 30
166283 AAATGATATT
*
166293 CTCTCAACTCGTAAACATTCACACAACAATC
1 CTCTCAACCCGTAAACA-TCACACAACAATC
166324 CTCTCAACCCGTAAACATCACACAACAATC
1 CTCTCAACCCGTAAACATCACACAACAATC
* * *
166354 TTCTGAACCCGTAAACATCACCCAACAATC
1 CTCTCAACCCGTAAACATCACACAACAATC
166384 CTCT
1 CTCT
166388 TATCTTTGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 43 0.73
31 16 0.27
ACGTcount: A:0.37, C:0.38, G:0.04, T:0.21
Consensus pattern (30 bp):
CTCTCAACCCGTAAACATCACACAACAATC
Found at i:172467 original size:5 final size:5
Alignment explanation
Indices: 172420--172693 Score: 383
Period size: 5 Copynumber: 56.2 Consensus size: 5
172410 AACTGCAAAA
* * * *
172420 AATAT ATATAT AAAAT AAT-T AA-AT AAAAT ACTAA AATATT AATAT AATAT
1 AATAT A-ATAT AATAT AATAT AATAT AATAT AATAT AATA-T AATAT AATAT
172470 AATAT -A-AT AATAT AATAT -A-AT AATAAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT AATAT
172517 AATAT AATAT AATAT -A-AT AATAT AATAT AATAT -ATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
172564 AATAT AATAT AATAT AATAT AATAT AATAT -A-AT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
172612 AATAT AATAT AATAT AATAT AATAT -ATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
172661 AATAAAT AATAT AATAT AATAT AATAT AATAT A
1 AAT--AT AATAT AATAT AATAT AATAT AATAT A
172694 TACCTTCTAA
Statistics
Matches: 245, Mismatches: 7, Indels: 34
0.86 0.02 0.12
Matches are distributed among these distances:
3 8 0.03
4 22 0.09
5 196 0.80
6 14 0.06
7 5 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:173261 original size:2 final size:2
Alignment explanation
Indices: 173256--173282 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
173246 ACTATATAAC
173256 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
173283 TAAAATGCTC
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:189859 original size:12 final size:12
Alignment explanation
Indices: 189824--189861 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
189814 GAACCCCAAC
189824 ATAATATAAATTCA
1 ATAAT-TAAATT-A
189838 ATAATT-AATTA
1 ATAATTAAATTA
189849 ATAATTAAATTA
1 ATAATTAAATTA
189861 A
1 A
189862 ATCATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 10 0.43
13 1 0.04
14 5 0.22
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATTAAATTA
Found at i:190200 original size:2 final size:2
Alignment explanation
Indices: 190193--190224 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
190183 AAATTTTAAT
190193 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
190225 AGAATAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:191360 original size:2 final size:2
Alignment explanation
Indices: 191355--191386 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
191345 AACTTTTTTA
191355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
191387 TCTTATTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192752 original size:84 final size:84
Alignment explanation
Indices: 192599--193373 Score: 648
Period size: 84 Copynumber: 9.3 Consensus size: 84
192589 AATTTATTGA
* * * * * * * ** *
192599 CAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCT-GAGCTGAATGTAATC
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAA--TGATATGCCT-TGGAGCTGAGCGTAGTC
*
192663 GAACTCGGAGGTCTTCGGTTGG
63 GAACTCGAAGGTCTTCGGTTGG
* * * *
192685 CAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
*
192750 CTCGAAGGTC-TCTGG-TGA
66 CTCGAAGGTCTTC-GGTTGG
* * * * * * * * * *
192768 CAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
*
192833 ACTCGAGGGTCTTC----GG
65 ACTCGAAGGTCTTCGGTTGG
* * * * *
192849 CAGATAGCACTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGTTGTGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
**
192914 CTCGAAGGTCTTTTGTTGG
66 CTCGAAGGTCTTCGGTTGG
* * *
192933 CAGATAACCCTTCTCGACTTAAGTTATGCTACAAATAATATGCCTTGGAGCTGAGGGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
* *
192998 CTCGAAGGTCTTTTGG-TGA
66 CTCGAAGGTC-TTCGGTTGG
* * * * * * * * * * * * *
193017 CAAATAACCCTTCTAGCCTTGAGTTATGTTGTAACTGATGTGCCCTCGAAGCCGAGTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
*
193082 ACTCGAGGGTC-T---TTGG
65 ACTCGAAGGTCTTCGGTTGG
* * * * *
193098 CAAATAGCTCTTCTCGACTTAAGTTATACTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
*
193163 CTCGAAGATCTT-GTGTTGG
66 CTCGAAGGTCTTCG-GTTGG
* * * * ** *
193182 CATATAACCCTTCTCTACTTAAGTTATGATGCAAATGATATGCCCTTGAAGCTGATTGTAATCGA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
*
193247 ACTCGAGGGTCTTC----GG
65 ACTCGAAGGTCTTCGGTTGG
* * * * * *
193263 CATATAGCCCTTTTCGACTTAAGCTATGCTACAAATGATACGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
** *
193328 CTCGAAGGTCTTTTGTTAG
66 CTCGAAGGTCTTCGGTTGG
* *
193347 CAGATAATCATTCTCGACTTAAGTTAT
1 CAGATAACCCTTCTCGACTTAAGTTAT
193374 ACAACAAAAG
Statistics
Matches: 548, Mismatches: 120, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
80 84 0.15
81 107 0.20
83 40 0.07
84 226 0.41
85 62 0.11
86 29 0.05
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (84 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTCGGTTGG
Found at i:192886 original size:164 final size:164
Alignment explanation
Indices: 192596--193009 Score: 474
Period size: 164 Copynumber: 2.5 Consensus size: 164
192586 GATAATTTAT
* * * * *
192596 TGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCTGAGCTGAATGTAA
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA--TGATATGCCTC-GAGCTGAGTGTAA
* *
192661 TCGAACTCG-GAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATG
63 TCGAACTCGAG-GGTCTTC-G--GGCAGATAACACTTCTCGACTTAAGCTATACTACAAATGATA
192725 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TCTGG
124 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTCTGG
* *
192765 TGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCTCG-AGCTGAGTGTAAT
* * *
192830 CGAACTCGAGGGTCTTC-GGCAGATAGCACTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
64 CGAACTCGAGGGTCTTCGGGCAGATAACACTTCTCGACTTAAGCTATACTACAAATGATATGCCT
* * * *
192894 TGGAGTTGTGCGTAGTCGAACTCGAAGGTCTTTTGT
129 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTCTGG
* * * * ** * * * *
192930 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATAATATGCCTTGGAGCTGAGGGTAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCC-TCGAGCTGAGTGTAATC
*
192995 GAACTCGAAGGTCTT
65 GAACTCGAGGGTCTT
193010 TTGGTGACAA
Statistics
Matches: 212, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
164 98 0.46
165 41 0.19
167 6 0.03
168 31 0.15
169 36 0.17
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (164 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTCGAGCTGAGTGTAATCG
AACTCGAGGGTCTTCGGGCAGATAACACTTCTCGACTTAAGCTATACTACAAATGATATGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTCTGG
Found at i:193113 original size:249 final size:249
Alignment explanation
Indices: 192661--193260 Score: 905
Period size: 249 Copynumber: 2.4 Consensus size: 249
192651 CTGAATGTAA
* * * * *
192661 TCGAACTCGGAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATGT
1 TCGAACTCGAAGGTCTTCTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATAT
*
192726 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TCTGGTGACAGATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTCTGGTGACAAATAACCCTTCTAGCCTTGA
* *
192790 GTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTCGGCAGATA
131 GTTATGTTGTAAATGATGTGCCCTCGAAGCCGAGTGTAATCGAACTCGAGGGTCTTCGGCAAATA
* * *
192855 GCACTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGTTGTGCGTAG
196 GCACTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* *
192909 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATAATAT
1 TCGAACTCGAAGGTCTTCTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATAT
* *
192974 GCCTTGGAGCTGAGGGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTCTGGTGACAAATAACCCTTCTAGCCTTGA
* *
193039 GTTATGTTGTAACTGATGTGCCCTCGAAGCCGAGTGTAATCGAACTCGAGGGTCTTTGGCAAATA
131 GTTATGTTGTAAATGATGTGCCCTCGAAGCCGAGTGTAATCGAACTCGAGGGTCTTCGGCAAATA
* * *
193104 GCTCTTCTCGACTTAAGTTATACTGTAAATGATATGCCTTGGAGCTGAGCGTAG
196 GCACTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAG
* * * * * *
193158 TCGAACTCGAAGATCTTGTGTTGGCATATAACCCTTCTCTACTTAAGTTATGATGCAAATGATAT
1 TCGAACTCGAAGGTCTTCTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATAT
* ** * *
193223 GCCCTTGAAGCTGATTGTAATCGAACTCGAGGGTCTTC
66 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTC
193261 GGCATATAGC
Statistics
Matches: 317, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
248 91 0.29
249 196 0.62
250 30 0.09
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (249 bp):
TCGAACTCGAAGGTCTTCTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATAT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTCTGGTGACAAATAACCCTTCTAGCCTTGA
GTTATGTTGTAAATGATGTGCCCTCGAAGCCGAGTGTAATCGAACTCGAGGGTCTTCGGCAAATA
GCACTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAG
Done.