Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008596.1 Hibiscus syriacus cultivar Beakdansim tig00111545_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: 280553
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:6203 original size:2 final size:2
Alignment explanation
Indices: 6196--6222 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6186 ATGTAATTTG
6196 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
6223 TTAATAAAAT
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:6250 original size:24 final size:26
Alignment explanation
Indices: 6211--6269 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 26
6201 ATATATATAT
6211 ATATATATATATTTAATAA-AATAATA
1 ATATAT-TATATTTAATAATAATAATA
*
6237 ATATATTATA-TTAATAATAATTATA
1 ATATATTATATTTAATAATAATAATA
6262 AT-TATTAT
1 ATATATTAT
6270 TATGAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 13 0.42
25 12 0.39
26 6 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATATTATATTTAATAATAATAATA
Found at i:6254 original size:19 final size:22
Alignment explanation
Indices: 6230--6271 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
6220 TATTTAATAA
6230 AATAATAA-TAT-ATTA-TATT
1 AATAATAATTATAATTATTATT
6249 AATAATAATTATAATTATTATT
1 AATAATAATTATAATTATTATT
6271 A
1 A
6272 TGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
21 4 0.20
22 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATAATTATAATTATTATT
Found at i:6265 original size:16 final size:16
Alignment explanation
Indices: 6232--6261 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6222 TTTAATAAAA
6232 TAATAATATATTATAT
1 TAATAATATATTATAT
6248 TAATAATA-ATTATA
1 TAATAATATATTATA
6262 ATTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATATATTATAT
Found at i:6765 original size:73 final size:73
Alignment explanation
Indices: 6645--6995 Score: 616
Period size: 73 Copynumber: 4.8 Consensus size: 73
6635 AACTCGAAAT
6645 AACTGTCTCAAGCGAGACAAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
*
6710 TTCAAGTGA
65 TTCGAGTGA
* * *
6719 AACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGTT
6784 TCGAGTGA
66 TCGAGTGA
*
6792 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAG-AAAATAATCTCAAGTGAGATAAATTTTCTGT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTT-TGT
6856 TTCGAGTGA
65 TTCGAGTGA
*
6865 AACTGTCTCAAGCGAGACAAATTTTGTTTTAA-AAAAACAATCTCAAGTGAGATAAAGTTTTGTT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGTT
6929 TCGAGTGA
66 TCGAGTGA
6937 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
6996 GCTATTTGAA
Statistics
Matches: 263, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
72 68 0.26
73 174 0.66
74 21 0.08
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (73 bp):
AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGTT
TCGAGTGA
Found at i:6929 original size:145 final size:146
Alignment explanation
Indices: 6645--6995 Score: 634
Period size: 145 Copynumber: 2.4 Consensus size: 146
6635 AACTCGAAAT
6645 AACTGTCTCAAGCGAGACAAATCTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
1 AACTGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGT
6710 TTCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
65 TTCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
6775 AGTTCTGTTTCGAGTGA
130 AGTTCTGTTTCGAGTGA
*
6792 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAG-AAAATAATCTCAAGTGAGATAAATTTTCTGT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTT-TGT
* *
6856 TTCGAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAA-AAAAACAATCTCAAGTGAGATAA
65 TTCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAA
*
6920 AGTTTTGTTTCGAGTGA
130 AGTTCTGTTTCGAGTGA
6937 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
1 AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATT
6996 GCTATTTGAA
Statistics
Matches: 197, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
145 98 0.50
146 77 0.39
147 22 0.11
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (146 bp):
AACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTTGTT
TCAAGTGAAACTGTCTCAAGCGAGACAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA
GTTCTGTTTCGAGTGA
Found at i:7309 original size:163 final size:165
Alignment explanation
Indices: 7037--7359 Score: 506
Period size: 163 Copynumber: 2.0 Consensus size: 165
7027 TATGGATGTG
* * * *
7037 GGAAATAGTTTACTAAGTAAGATACTATGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTATAGAAATCATTTTCTTACTTTTCAACAATTTCATTTTC
** *
7102 AAAAAAGATTGAATGAGAAACTATGAAAATTGTTTTCTCATTATTTTTCAAAATAACAAGTTAAT
66 AAAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACAAGTTAAT
**
7167 TGGGTAACATGCCCCAATCTCAAGATAATGTTGTT
131 TGGGTAACATAACCCAATCTCAAGATAATGTTGTT
7202 GGAAATAGTTTACTAAGTAAAAAACTA-AGAAATCATTTTCTTACTTTTCAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTATAGAAATCATTTTCTTACTTTTCAACAATTTCATTTTC
* * * * *
7266 -GAAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATATCATGTTGAT
66 AAAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACAAGTTAAT
7330 TGGGTAACATAACCCAATCTCAAGATAATG
131 TGGGTAACATAACCCAATCTCAAGATAATG
7360 CTCATTCTTG
Statistics
Matches: 144, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
163 84 0.58
164 35 0.24
165 25 0.17
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAACTATAGAAATCATTTTCTTACTTTTCAACAATTTCATTTTC
AAAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACAAGTTAAT
TGGGTAACATAACCCAATCTCAAGATAATGTTGTT
Found at i:18837 original size:26 final size:26
Alignment explanation
Indices: 18802--18859 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
18792 ATTTCTCTTC
*
18802 TCTCTCTAGAGAAGAGAAATATTATT
1 TCTCTCTAGAGAAGAGAAATATAATT
18828 TCTCTCTAGAGAAGAGAAATATAATT
1 TCTCTCTAGAGAAGAGAAATATAATT
18854 TCTCTC
1 TCTCTC
18860 GCTTCTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (26 bp):
TCTCTCTAGAGAAGAGAAATATAATT
Found at i:19659 original size:2 final size:2
Alignment explanation
Indices: 19652--19679 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19642 GTAATTTGTA
19652 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
19680 TTAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19702 original size:25 final size:26
Alignment explanation
Indices: 19650--19729 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
19640 ATGTAATTTG
* *
19650 TAATATATATATATATAT-AT-AT-A
1 TAATATATTTATATAAATAATAATAA
19673 T-ATATATTTA-ATAAATAATAATAA
1 TAATATATTTATATAAATAATAATAA
* *
19697 TAATATA-TTATATTAATAATAATTA
1 TAATATATTTATATAAATAATAATAA
19722 TAAT-TATT
1 TAATATATT
19730 ATTATGAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
21 5 0.11
22 10 0.21
23 3 0.06
24 7 0.15
25 22 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATATATTTATATAAATAATAATAA
Found at i:19713 original size:16 final size:16
Alignment explanation
Indices: 19650--19723 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
19640 ATGTAATTTG
19650 TAATATA-TATA-TATA
1 TAATATATTATATTA-A
19665 TATATATATATATATTTAA
1 TA-ATATAT-TATA-TTAA
*
19684 TAA-ATA--ATAATAA
1 TAATATATTATATTAA
19697 TAATATATTATATTAA
1 TAATATATTATATTAA
19713 TAATA-ATTATA
1 TAATATATTATA
19724 ATTATTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
13 6 0.12
14 6 0.12
15 8 0.16
16 16 0.33
17 3 0.06
18 5 0.10
19 3 0.06
20 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATATTATATTAA
Found at i:19716 original size:22 final size:22
Alignment explanation
Indices: 19688--19733 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19678 ATTTAATAAA
19688 TAATAATAATAATATATTA-TAT
1 TAATAATAATAATA-ATTATTAT
*
19710 TAATAATAATTATAATTATTAT
1 TAATAATAATAATAATTATTAT
19732 TA
1 TA
19734 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATAATAATAATTATTAT
Found at i:23089 original size:24 final size:24
Alignment explanation
Indices: 23062--23153 Score: 68
Period size: 24 Copynumber: 4.0 Consensus size: 24
23052 TCTTATGTGG
23062 TTTTTATAAATAATATTAGTATAA
1 TTTTTATAAATAATATTAGTATAA
* **
23086 TTTTCATGGTATAA-ATATAG-AT--
1 TTTTTAT-AAATAATAT-TAGTATAA
* *
23108 TTTTTGTTAATAATA-TAGTATAA
1 TTTTTATAAATAATATTAGTATAA
* *
23131 TTTTTATAAATAAAACTAGTATA
1 TTTTTATAAATAATATTAGTATA
23154 TAGTTTTGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 14
0.68 0.13 0.19
Matches are distributed among these distances:
20 3 0.06
21 6 0.12
22 6 0.12
23 12 0.24
24 17 0.33
25 7 0.14
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (24 bp):
TTTTTATAAATAATATTAGTATAA
Found at i:24028 original size:25 final size:25
Alignment explanation
Indices: 23940--24015 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
23930 AAAACGAGCG
23940 AAAAGCTTTAGATCTAACAGATTCA
1 AAAAGCTTTAGATCTAACAGATTCA
23965 AAAAGCTTTAGATCTAACAGATTCA
1 AAAAGCTTTAGATCTAACAGATTCA
23990 AAAAGCTTTAGATCTAACAGATTCA
1 AAAAGCTTTAGATCTAACAGATTCA
24015 A
1 A
24016 GGTGCATGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.28
Consensus pattern (25 bp):
AAAAGCTTTAGATCTAACAGATTCA
Found at i:24308 original size:35 final size:35
Alignment explanation
Indices: 24262--24337 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
24252 AAAACAGTCC
* *
24262 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
24297 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
24332 TCAATT
1 TCAATT
24338 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:24891 original size:128 final size:128
Alignment explanation
Indices: 24734--24979 Score: 420
Period size: 128 Copynumber: 1.9 Consensus size: 128
24724 TTTTTATATA
* **
24734 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* *
24799 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTCATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTCATATGCT
24862 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
24927 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
24980 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 110 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (128 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTCATATGCT
Found at i:25338 original size:28 final size:26
Alignment explanation
Indices: 25306--25366 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
25296 AGTTGATACA
*
25306 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTT-AAA-AATAAATTTAAGAATT
* * *
25334 ATATTTTTAAACTAAATTTAATAATT
1 ATATTTTAAAAATAAATTTAAGAATT
25360 ATATTTT
1 ATATTTT
25367 TCATATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 20 0.69
27 2 0.07
28 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTTTAAAAATAAATTTAAGAATT
Found at i:28474 original size:3 final size:3
Alignment explanation
Indices: 28468--28494 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
28458 ATCGGAAATA
28468 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
28495 TTTCCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33621 original size:3 final size:3
Alignment explanation
Indices: 33613--33731 Score: 175
Period size: 3 Copynumber: 39.7 Consensus size: 3
33603 TTTTTATCCA
** * *
33613 TAT TAT TAT TAT TGG TAT TTT TAT TAT TTT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
33661 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
33709 CAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
33732 AATATATATT
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:34261 original size:19 final size:18
Alignment explanation
Indices: 34224--34258 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34214 ACAGAACCGG
34224 AGAGAAAGAAAAAAAAAC
1 AGAGAAAGAAAAAAAAAC
34242 AGAGAAAGAAAAAAAAA
1 AGAGAAAGAAAAAAAAA
34259 ACAACTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAAAAAAAAC
Found at i:35203 original size:24 final size:23
Alignment explanation
Indices: 35154--35203 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
35144 ATAGTATTTT
*
35154 TATTTTTTATATTATATATTAAA
1 TATTTTTTATATTATATAATAAA
*
35177 TATTTTTATATATTCATA-AATATA
1 TATTTTT-TATATT-ATATAATAAA
35201 TAT
1 TAT
35204 ATAAATAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 13 0.57
25 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTTATATTATATAATAAA
Found at i:47984 original size:84 final size:84
Alignment explanation
Indices: 47670--48403 Score: 1342
Period size: 84 Copynumber: 8.8 Consensus size: 84
47660 ATCTTAGTCC
*
47670 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTATTCTTT-AGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
47734 ATCTGATTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
*
47753 ATCATTGAATTTGGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTT
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
47817 ATCTGATTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
47836 ATCATTGAATTTGGAAGATGAA-TTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
47900 ATCTGATTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
47919 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
*
47984 ATCTGA-TTGGCAAAAACCA
66 ATCTGATTTGGC-AGAACCA
48003 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
48068 ATCTGATTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
48087 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
48152 ATCTGATTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
*
48171 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
48236 ATCTGATTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
48255 ATCA-TGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
*
48319 ATCTGGTTTGGCAGAACCA
66 ATCTGATTTGGCAGAACCA
*
48338 ATCATTGAATTTGGAAGATGAA-TTGC-C-ATAGCATCTTCTGGAAGT-TTCTTTGAGTTATATG
1 ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
48399 ATCTG
66 ATCTG
48404 GTTTAGTAGG
Statistics
Matches: 636, Mismatches: 9, Indels: 15
0.96 0.01 0.02
Matches are distributed among these distances:
80 20 0.03
81 18 0.03
82 31 0.05
83 243 0.38
84 319 0.50
85 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (84 bp):
ATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGATTTGGCAGAACCA
Found at i:49238 original size:113 final size:113
Alignment explanation
Indices: 49028--49307 Score: 449
Period size: 113 Copynumber: 2.5 Consensus size: 113
49018 TAGCAAAGAT
* *
49028 TCAAATCTATCATTTGATGGATTATCATTGCCAG-GTAGGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCATTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGA
*
49092 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
** *
49140 TTGAAT-TCATCACTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACCCATCTG
1 TCAAATCT-ATCATTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACCCATCTG
*
49204 AAGAAGGAAGGAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
49253 TCAAATCTATCATTTGATGGATTAACATTCCCAGAGAA-GTTCATAATGAGAAGAA
1 TCAAATCTATCATTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAA
49308 TTTGATCAAC
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
111 1 0.01
112 46 0.30
113 105 0.69
114 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (113 bp):
TCAAATCTATCATTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:49331 original size:72 final size:73
Alignment explanation
Indices: 49214--49381 Score: 257
Period size: 72 Copynumber: 2.3 Consensus size: 73
49204 AAGAAGGAAG
* *
49214 GAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCTATCATTTGATGGATTA-A
1 GAGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATCTATCACTTGATGGATTATA
49278 CATTCCCA
66 CATTCCCA
*
49286 GAGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATCTATCACTTGATGGATTATT
1 GAGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATCTATCACTTGATGGATTATA
** **
49351 TTTTTTCA
66 CATTCCCA
49359 GAGAAAGTTCATAATGAGAAGAA
1 GAG-AAGTTCATAATGAGAAGAA
49382 CTTATCTGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 61 0.70
73 7 0.08
74 19 0.22
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (73 bp):
GAGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATCTATCACTTGATGGATTATA
CATTCCCA
Found at i:49415 original size:186 final size:185
Alignment explanation
Indices: 49102--49494 Score: 549
Period size: 186 Copynumber: 2.1 Consensus size: 185
49092 AGAAGGAAGA
* * **
49102 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCA
1 AGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATTCATCACTTGATGGATTATCA
* *
49167 TTGCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGGAGAAGTTCATAATGAGA
66 TTGCCAGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *
49232 AGAATTTGTTCAACCTTTTGCTCAAA-TCTATCATTTGATGGATTAACATTCCCAG
131 AGAACTTGTTCAACCTTTTGCTCAAATTC-ATCATTTGATGAATCAACATTCCCAG
49287 AGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAA-TCTATCACTTGATGGATTATT
1 AGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATTC-ATCACTTGATGGATTA-T
** ** **
49351 TTTTTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGA
64 CATTGCCAGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* ** *
49416 GAAGAACTTGTTCAATCTTTTGCTTGAATTCATCATTTGATGAATCAACATTGCCAG
129 GAAGAACTTGTTCAACCTTTTGCTCAAATTCATCATTTGATGAATCAACATTCCCAG
49473 -GTAGAGTTCATAATGAGAAGAA
1 AG-A-AGTTCATAATGAGAAGAA
49495 CTCGTCATCT
Statistics
Matches: 184, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
184 2 0.01
185 56 0.30
186 106 0.58
187 20 0.11
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (185 bp):
AGAAGTTCATAATGAGAAGAATTTGATCAACCTTTTGCTCAAATTCATCACTTGATGGATTATCA
TTGCCAGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTGCTCAAATTCATCATTTGATGAATCAACATTCCCAG
Found at i:49535 original size:116 final size:114
Alignment explanation
Indices: 49363--49670 Score: 447
Period size: 116 Copynumber: 2.8 Consensus size: 114
49353 TTTTCAGAGA
49363 AAGTTCATAATGAGAAGAACT-T-ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1 AAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* *
49426 TTCAATCTTTTGCTTGAATTCATCATTTGATGAATCAACATTGCCAGGTAG
66 TTCAATCTTTTGCATGAATTCATCAATTGATGAATCAACATT-CCAGG-AG
49477 -AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
1 AAGTTCATAATGAGAAGAACTC-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTT
* * *
49541 GTTCAATCTTTTGCATGAATTCATCAATTGATGGATCAACATTTCTGGAG
65 GTTCAATCTTTTGCATGAATTCATCAATTGATGAATCAACATTCCAGGAG
* *
49591 AAGTTCATAATGAGAAG-A--CTCATCTG-AGAAGAAAGAAGAAG-TCATAATAAGAAGAACTTG
1 AAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
49651 TTCAA-CTTTTTGCAT-AATTC
66 TTCAATC-TTTTGCATGAATTC
49671 TATCGCAGAA
Statistics
Matches: 182, Mismatches: 7, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
108 6 0.03
109 31 0.17
110 14 0.08
111 7 0.04
112 1 0.01
113 20 0.11
114 3 0.02
115 20 0.11
116 80 0.44
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (114 bp):
AAGTTCATAATGAGAAGAACTCTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAATCTTTTGCATGAATTCATCAATTGATGAATCAACATTCCAGGAG
Found at i:49984 original size:3 final size:3
Alignment explanation
Indices: 49976--50061 Score: 113
Period size: 3 Copynumber: 28.7 Consensus size: 3
49966 TTTTTATCCA
* * *
49976 TAT TAT TAT TGGT TTT TAT TAT TAT TAT TA- TAT TATT TAC T-T TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
50021 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
50062 AATATATAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
2 3 0.04
3 66 0.89
4 5 0.07
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:50584 original size:19 final size:18
Alignment explanation
Indices: 50547--50581 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
50537 CAGAAACCGG
50547 AGAGAAAGAAAAAAAAAC
1 AGAGAAAGAAAAAAAAAC
50565 AGAGAAAGAAAAAAAAA
1 AGAGAAAGAAAAAAAAA
50582 ACAACTAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAAAAAAAAC
Found at i:54282 original size:41 final size:41
Alignment explanation
Indices: 54237--54325 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
54227 ACTTTAGCGA
** *
54237 CGTTTGTAT-AAAAACGCCACAATATGTTTCGACTATAGTGG
1 CGTTT-TATAAAAAACAACACAATAGGTTTCGACTATAGTGG
* * *
54278 CGTTTTTTCAAAAAACAACGCAATAGGTTTGGACTATAGTGG
1 CGTTTTAT-AAAAAACAACACAATAGGTTTCGACTATAGTGG
54320 CGTTTT
1 CGTTTT
54326 TTCAACAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.05
41 5 0.12
42 33 0.82
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (41 bp):
CGTTTTATAAAAAACAACACAATAGGTTTCGACTATAGTGG
Found at i:54302 original size:42 final size:42
Alignment explanation
Indices: 54256--54335 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
54246 AAAAACGCCA
*
54256 CAATATGTTTCGACTATAGTGGCGTTTTTTCAAAAAACAACG
1 CAATAGGTTTCGACTATAGTGGCGTTTTTTCAAAAAACAACG
* *
54298 CAATAGGTTTGGACTATAGTGGCGTTTTTTCAACAAAC
1 CAATAGGTTTCGACTATAGTGGCGTTTTTTCAAAAAAC
54336 GCCACTAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (42 bp):
CAATAGGTTTCGACTATAGTGGCGTTTTTTCAAAAAACAACG
Found at i:57099 original size:84 final size:84
Alignment explanation
Indices: 56926--57141 Score: 267
Period size: 84 Copynumber: 2.5 Consensus size: 84
56916 ATGGTAATTA
* *
56926 GCGGCGTTTGTATCCAAAAACACCGCTATATATCTGACATTTTGCGGCGTTTGTGTCCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCT-AC-TTTTGCGGCGCTTGTGTCCAAAAACG
* *
56991 CCGTTATAGATCTGACCTTTT
64 CCGCTATAGATCTGACATTTT
* * ** *
57012 GCGGCTTTTGTATCTAAAAACGCCGCTATATATCTAACTTTTGTTGTGCTTGT-TCCAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATATATCT-ACTTTTGCGGCGCTTGTGTCCAAAAACGC
* *
57076 CGCTATAGGTTTGACATTTT
65 CGCTATAGATCTGACATTTT
57096 GCGGCGTTTGT-TCCAAAAACGCCGCTAT-TGATCTACTTTTTGCGGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAT-ATCTAC-TTTTGCGGC
57142 ATTTTATTTC
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
82 3 0.03
83 26 0.23
84 37 0.33
85 11 0.10
86 34 0.31
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (84 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATATATCTACTTTTGCGGCGCTTGTGTCCAAAAACGCC
GCTATAGATCTGACATTTT
Found at i:57109 original size:42 final size:43
Alignment explanation
Indices: 56926--57141 Score: 251
Period size: 43 Copynumber: 5.1 Consensus size: 43
56916 ATGGTAATTA
* *
56926 GCGGCGTTTGTATCCAAAAACACCGCTATATATCTGACATTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
* * *
56969 GCGGCGTTTGTGTCCAAAAACGCCGTTATAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
* * * *
57012 GCGGCTTTTGTATCTAAAAACGCCGCTATATATCTAAC-TTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
** * * * *
57054 GTTGTGCTTGT-TCCAAAAACGCCGCTATAGGTTTGACATTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
* *
57096 GCGGCGTTTGT-TCCAAAAACGCCGCTATTGATCT-ACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
57137 GCGGC
1 GCGGC
57142 ATTTTATTTC
Statistics
Matches: 143, Mismatches: 29, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
41 32 0.22
42 41 0.29
43 70 0.49
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (43 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACATTTT
Found at i:59913 original size:33 final size:35
Alignment explanation
Indices: 59871--59953 Score: 82
Period size: 37 Copynumber: 2.3 Consensus size: 35
59861 GAAATAAAAA
* *
59871 AAATCTTATATTCATTTT-TAAA-AATCAACA-TAT
1 AAATGTTATATTCATTTTAAAAACAATCAACACT-T
*
59904 AAATGTTATAACTACATTTTAAAAACAATCAACACTT
1 AAATGTTAT-A-TTCATTTTAAAAACAATCAACACTT
59941 AAATGTTAATATT
1 AAATGTT-ATATT
59954 ATTAATAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
33 8 0.20
34 1 0.03
35 7 0.17
36 4 0.10
37 17 0.43
38 3 0.08
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (35 bp):
AAATGTTATATTCATTTTAAAAACAATCAACACTT
Found at i:62947 original size:18 final size:16
Alignment explanation
Indices: 62926--62980 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
62916 GAAAATGCTA
62926 AATTTTTTAATTTTTTAT
1 AATTTTTTAA--TTTTAT
* *
62944 AATTTATTCATTTTAT
1 AATTTTTTAATTTTAT
*
62960 AA-TTTTTATTTTTA-
1 AATTTTTTAATTTTAT
62974 AATTTTT
1 AATTTTT
62981 GACAGAGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.06
15 13 0.42
16 8 0.26
18 8 0.26
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
AATTTTTTAATTTTAT
Found at i:78667 original size:12 final size:12
Alignment explanation
Indices: 78652--78684 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
78642 ATTTTTATTC
78652 TCTTTTTTCTTT
1 TCTTTTTTCTTT
78664 TCTTTTTTCTTT
1 TCTTTTTTCTTT
*
78676 TATTTTTTC
1 TCTTTTTTC
78685 GATTTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTTCTTT
Found at i:81409 original size:12 final size:12
Alignment explanation
Indices: 81392--81422 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
81382 CAAAATCATG
81392 GAGCATTTTGGT
1 GAGCATTTTGGT
81404 GAGCATTTTGGT
1 GAGCATTTTGGT
81416 GAGCATT
1 GAGCATT
81423 GAGTGAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.39
Consensus pattern (12 bp):
GAGCATTTTGGT
Found at i:82149 original size:23 final size:23
Alignment explanation
Indices: 82123--82174 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
82113 AATAACATAT
*
82123 TAGGTAACGCTTATATAATGTAA
1 TAGGTAACGCTTATATAATGAAA
*
82146 TAGGTAGCGCTTATATAATGAAA
1 TAGGTAACGCTTATATAATGAAA
82169 TAGGTA
1 TAGGTA
82175 TTTAACCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (23 bp):
TAGGTAACGCTTATATAATGAAA
Found at i:82270 original size:87 final size:86
Alignment explanation
Indices: 82086--82246 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 86
82076 TATGTTATAT
* * *
82086 TATTTAACCAGAAATATTATTAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
1 TATTAAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
82151 AGCGCTTATATAATGAAATAGG
66 AGCGCTTATAT-ATGAAATAGG
*
82173 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGT-A-GCTTATATAATGTAATAGGT
1 TATTAAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
82236 AGCGCTTATAT
66 AGCGCTTATAT
82247 TGACCTATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
85 31 0.43
86 1 0.01
87 40 0.56
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (86 bp):
TATTAAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGGT
AGCGCTTATATATGAAATAGG
Found at i:82426 original size:20 final size:18
Alignment explanation
Indices: 82401--82439 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
82391 CATTCTGGAC
82401 AAAAAGTATCGGCACACATT
1 AAAAAGTATC-G-ACACATT
*
82421 AAAAAGTGTCGACACATT
1 AAAAAGTATCGACACATT
82439 A
1 A
82440 TGTACCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (18 bp):
AAAAAGTATCGACACATT
Found at i:82822 original size:193 final size:191
Alignment explanation
Indices: 82247--82944 Score: 698
Period size: 193 Copynumber: 3.6 Consensus size: 191
82237 GCGCTTATAT
* * * *
82247 TGACCTATTTTATAAGTAAACCGGTATATTTATACCGGTAACATTACAAATTTACCTATTACATT
1 TGACCTATTTTCTAA-TAAAACGGTATATTTATACCAGTTACATTACAAATTTACCTATTACATT
* *
82312 ATAATTATCGGTTTCAATGTTTTTTGGATCGATACTTTT-ATAAATGTATCGACACTATATGCAT
65 ATAATTATCGGTTTCAATG-TTTTTGGATCGATACTTTTAATAAATGTAT----ACTTTATGCGT
* * * *
82376 TCA-CC-TTTGGGCATTCATTCTGGACAAAAAGTATCGGCACACATTAAAAAGTGTCGACACATT
125 GCACCCGTTTGGGCATTCATTCTGGAC-AAAAGTATCGACACAAATTAAAAAGTGTCGATACATT
82439 ATG
189 ATG
* ** * *
82442 T-ACCTATTCTC-ACATAAAACCGGTATAAATATACCAGTTATATTACAAAATTACCTATTACAT
1 TGACCTATTTTCTA-ATAAAA-CGGTATATTTATACCAGTTACATTACAAATTTACCTATTACAT
* * *
82505 TATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTAA-AAATGTATCGACACTTTATGA
64 TATAATTATCGGTTTCAATGTTTTT-GGATCGATAC-TTTTAATAAATGTAT----ACTTTATGC
* * ** **
82569 GTGCACCCGTCT-GGCATTCATTATGGACAAAATGTATCGACACTTATTAAATTTGTGTCGATAC
123 GTGCACCCGTTTGGGCATTCATTCTGGACAAAA-GTATCGACACAAATTAAA-AAGTGTCGATAC
*
82633 TTTATG
186 ATTATG
* ** * *
82639 ATGACCTATTTTCTCATAAAACGGTATATTTATACCAGTTACATTGTAAATTTACATATTATATT
1 -TGACCTATTTTCTAATAAAACGGTATATTTATACCAGTTACATTACAAATTTACCTATTACATT
*
82704 ATAATTATCGGTTTCAAT-TTTATT-GATCGATACTTTTAATAATTGTAT-CTTTATGCGTGCAC
65 ATAATTATCGGTTTCAATGTTT-TTGGATCGATACTTTTAATAAATGTATACTTTATGCGTGCA-
*
82766 CCCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTAT
128 CCCGTTTGGGCATTCATTCTGGACAA-AAGTATCGACACAAATTA-AAAAGTGTCGATACATTAT
82831 G
191 G
* * * * ***
82832 TTGACCTGTTTTCTAATTAACCGATATATTTATACCAGTTACATTGTTAATTTACCTATTACATT
1 -TGACCTATTTTCTAATAAAACGGTATATTTATACCAGTTACATTACAAATTTACCTATTACATT
* * * * *
82897 ATAATTATTGGTTTCGATTTTTTTTGGGTTGATACTTTTAGA-AAATGT
65 ATAATTATCGGTTTC-AATGTTTTTGGATCGATACTTTTA-ATAAATGT
82945 GACACATATT
Statistics
Matches: 421, Mismatches: 60, Indels: 44
0.80 0.11 0.08
Matches are distributed among these distances:
191 12 0.03
192 6 0.01
193 126 0.30
194 81 0.19
195 57 0.14
196 50 0.12
197 19 0.05
198 55 0.13
199 15 0.04
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (191 bp):
TGACCTATTTTCTAATAAAACGGTATATTTATACCAGTTACATTACAAATTTACCTATTACATTA
TAATTATCGGTTTCAATGTTTTTGGATCGATACTTTTAATAAATGTATACTTTATGCGTGCACCC
GTTTGGGCATTCATTCTGGACAAAAGTATCGACACAAATTAAAAAGTGTCGATACATTATG
Found at i:86550 original size:12 final size:12
Alignment explanation
Indices: 86519--86544 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
86509 CTGGTTATAT
86519 TACAAAATTAAC
1 TACAAAATTAAC
86531 TACAAAATTAAC
1 TACAAAATTAAC
86543 TA
1 TA
86545 TTAAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (12 bp):
TACAAAATTAAC
Found at i:87338 original size:198 final size:194
Alignment explanation
Indices: 86886--87366 Score: 565
Period size: 197 Copynumber: 2.4 Consensus size: 194
86876 CATAAAACCG
*
86886 TATATTACAAAATTACCTATTACATTATATTTATGGATTTCGATGTTTCTGGGATCGATACTATT
1 TATATTACAAAATTACCTATTACATTATATTTATGGTTTTCGATGTTTCTGGGATCGATACT-TT
* * * * * * * *
86951 TAAAAATGCATCGACACTTTATGGGTGCACCCTTTTTGGATTTTCCTTGTGGACCAAAAGTATCG
65 T-TAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGA-TTTCATTATGGACAAAAAGTATCG
* * * * * * *
87016 ACACAAATTCTACAAGTGTCGATACATTATGTATATCTATTTTCTCAAAAAATTTATTTATACCG
128 ACACAAATTCAACAAGTGTCGACACATTATGTAGACCTATTCTCACAAAAAATATATTTATACCG
87081 GT
193 GT
* ** * * * *
87083 TACATTGTAAATTTACCTATTACATTATAATTATCGGTTTT-GATATTTTTGGGATCGATACTTT
1 TATATTACAAAATTACCTATTACATTATATTTAT-GGTTTTCGATGTTTCTGGGATCGATACTTT
* *
87147 TTATAATTGTATCGACACTTTATGCGTTCACTCGTTTGGGCA-TTCATTATGG-CAAAAAGTATC
65 TTA-AA-TGTATCGACACTTTATGCGTGCACCCGTTTGGG-ATTTCATTATGGACAAAAAGTATC
* *
87210 GACACACATT-AACAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGATATATTTT
127 GACACAAATTCAACAAGTGTCGACACATTATGTAGACCTATTCTCACA-AAAA---ATATATTTA
87274 TACCGGT
188 TACCGGT
* *
87281 TATATTACAAAATTACCTATTACATTATATTTATTGTTTTCGATGTTTCTAGGATCGATACTTTT
1 TATATTACAAAATTACCTATTACATTATATTTATGGTTTTCGATGTTTCTGGGATCGATACTTTT
*
87346 TAAATGTATCAACACTTTATG
66 TAAATGTATCGACACTTTATG
87367 GGAAACTTTA
Statistics
Matches: 238, Mismatches: 37, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
194 31 0.13
195 24 0.10
196 29 0.12
197 82 0.34
198 72 0.30
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (194 bp):
TATATTACAAAATTACCTATTACATTATATTTATGGTTTTCGATGTTTCTGGGATCGATACTTTT
TAAATGTATCGACACTTTATGCGTGCACCCGTTTGGGATTTCATTATGGACAAAAAGTATCGACA
CAAATTCAACAAGTGTCGACACATTATGTAGACCTATTCTCACAAAAAATATATTTATACCGGT
Found at i:87389 original size:15 final size:15
Alignment explanation
Indices: 87369--87405 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
87359 ACTTTATGGG
*
87369 AAACTTTAAGTTTGA
1 AAACTTTAAGTATGA
*
87384 AAACTTTATGTATGA
1 AAACTTTAAGTATGA
87399 AAACTTT
1 AAACTTT
87406 GTTGTGGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (15 bp):
AAACTTTAAGTATGA
Found at i:87685 original size:11 final size:11
Alignment explanation
Indices: 87667--87733 Score: 73
Period size: 11 Copynumber: 5.9 Consensus size: 11
87657 AGAAATTATA
87667 CAAA-AATGTT
1 CAAATAATGTT
87677 CAAATAATGTT
1 CAAATAATGTT
*
87688 CAAATAATTTAT
1 CAAATAATGT-T
*
87700 ACATAACAATGTT
1 -CA-AATAATGTT
*
87713 CAAATAATATT
1 CAAATAATGTT
87724 CAAATAATGT
1 CAAATAATGT
87734 ACCCACAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 4 0.09
11 31 0.66
12 3 0.06
13 3 0.06
14 6 0.13
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.34
Consensus pattern (11 bp):
CAAATAATGTT
Found at i:87713 original size:36 final size:34
Alignment explanation
Indices: 87662--87731 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 34
87652 ACACAAGAAA
*
87662 TTATACAAAAATGTTCAAATAATGTTCAAATAAT
1 TTATACAAAAATGTTCAAATAATATTCAAATAAT
87696 TTATACATAACAATGTTCAAATAATATTCAAATAAT
1 TTATACA-AA-AATGTTCAAATAATATTCAAATAAT
87732 GTACCCACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 7 0.21
35 2 0.06
36 24 0.73
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.36
Consensus pattern (34 bp):
TTATACAAAAATGTTCAAATAATATTCAAATAAT
Found at i:87744 original size:36 final size:36
Alignment explanation
Indices: 87666--87744 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
87656 AAGAAATTAT
* * * *
87666 ACAAAAATGTTCAAATAATGTTCAAATAATTTATAC
1 ACAACAATGTTCAAATAATATTCAAATAATGTACAC
* *
87702 ATAACAATGTTCAAATAATATTCAAATAATGTACCC
1 ACAACAATGTTCAAATAATATTCAAATAATGTACAC
87738 ACAACAA
1 ACAACAA
87745 AAATAATTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (36 bp):
ACAACAATGTTCAAATAATATTCAAATAATGTACAC
Found at i:88688 original size:6 final size:6
Alignment explanation
Indices: 88670--88722 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
88660 ACTTGTTTGG
* * * *
88670 ATCATC ATAATC ATCATC ATCATC ATCATC TTCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
*
88718 TTCAT
1 ATCAT
88723 TGACCTCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (6 bp):
ATCATC
Found at i:90892 original size:199 final size:199
Alignment explanation
Indices: 90185--91525 Score: 1701
Period size: 199 Copynumber: 6.8 Consensus size: 199
90175 TATTAAAATG
* * * * * * *
90185 GTATCGACACAAATTTAACAATTGTCGATAC-TTTTG-ATGACCTATT-TCACATAAAATCGATA
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTA-GACCTATTCTCACATAAAACCGGTA
* * ** * * *
90247 TATTTATACCGATTACATTGGAAATTTACCTATTACATTATAATTATC-GTTTCAATGTTATTGG
65 TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTT-TTTG
* * * * *
90311 GATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCTGG
129 GATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCTGG
90373 AC-AAAA
193 ACAAAAA
* * * * * *
90379 GTATCGACACAAATTCCACAAA-TTTCGATACATGT-TGTAGACCTATTCTCTCATAAAATCGGT
1 GTATCGACACAAAAT-AAAAAAGTGTCGATACAT-TATGTAGACCTATTCTCACATAAAACCGGT
* * ** * * ** *
90442 AT-TGTCATACCGGTTACATTGTAAATTTACCTA-TACATTATATTTATGGGTTTCGATGTTTCT
64 ATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT
* **
90505 GGTATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTGCATAAATTCTG
128 GG-ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTG
90570 GACAAAAA
192 GACAAAAA
* * * * ***
90578 GTTTTGACACAAAATAAAAAAGCGTCGATAC---AT-TAGACCTATTCTTACATAAAACCAAAAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
*
90639 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAGA
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGA
* * *
90704 TCGACACTTTTTATAAATGTATCGACACTGTATTCATTCATCATTTTTGGCATTCATTCTGAACA
131 TCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACA
90769 AAAA
196 AAAA
* *
90773 GTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTTACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
90838 ATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTTTG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATG-TTTTTGG
90903 ATCGACAC-TTTTATAAATGTATCGACACTTTATTCGTTCATCA-TTTTGGCATTCATTCTGGAC
130 ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
90966 AAAAA
195 AAAAA
* * *
90971 GTATCGACACAACATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-CTGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * *
91035 A-TT-TACC-GTTATATTACAAAATTACCTATTACATTATATTTAT-GGATTTTGATGTTTTTTG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTG-TTTCGATG-TTTTT-
* *
91096 GGATCGACACTTTCTA-AAACTGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATG
128 GGATCGACACTTTTTATAAA-TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTG
*
91160 GACAAAAC
192 GACAAAAA
*
91168 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATAT-TCACATAAAACCGATA
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTAT-TCTCACATAAAACCGGTA
* * * *
91232 TATTTATATCTGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTTGATGTTTTTGG
65 TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT-G
* * *
91297 GATCGACACTTTTTATATATGTATCAACACTTTATTCGTTCATCATTTTTGGCATTCATTTTGGA
129 GATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGA
91362 CAAAAA
194 CAAAAA
91368 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACAT-AAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * *
91432 ATATATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATGTTTTTTGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATG-TTTTTGG
91497 ATCGACA-TATTTTATAAATGTATCGACAC
130 ATCGACACT-TTTTATAAATGTATCGACAC
91526 ATATACTTAC
Statistics
Matches: 1013, Mismatches: 98, Indels: 67
0.86 0.08 0.06
Matches are distributed among these distances:
193 1 0.00
194 70 0.07
195 184 0.18
196 152 0.15
197 83 0.08
198 106 0.10
199 227 0.22
200 144 0.14
201 45 0.04
202 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (199 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGA
TCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACA
AAAA
Found at i:91179 original size:395 final size:396
Alignment explanation
Indices: 90185--91525 Score: 1697
Period size: 395 Copynumber: 3.4 Consensus size: 396
90175 TATTAAAATG
* * * * *
90185 GTATCGACACAAATTTAACAATTGTCGATACTTTTG-ATGACCTATT-TCACATAAAA-TCGATA
1 GTATCGACACAAAATAAAAAAGTGTCGATACTTATGTA-GACCTATTCTCACATAAAACT-G-TA
* ** * *
90247 TATTTATACCGATTACATTGGAAATTTACCTATTACATTATAATTATC-GTTTCAATGTTATTGG
63 TATTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATGTT-TTTG
* * * * *
90311 GATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCTGG
127 GATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCTGG
* * * *
90373 ACAAAAGTATCGACACAAATTCCACAAA-TTTCGATACATGT-TGTAGACCTATTCTCT-CATAA
191 ACAAAAGTATCGACACAAAAT-AAAAAAGTATCGATACAT-TATGTAGACCTATTCT-TACATAA
* * * * * * **
90435 AATCGGTAT-TGTCATACCGGTTACATTGTAAATTTACCTA-TACATTATATTTATGGGTTTCGA
253 AACCGGTATAT-TTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATATGTTTCGA
* *
90498 TG-TTTCTGGTATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTTGCAT
317 TGTTTTTTGG-ATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCAT
**
90562 AAATTCTGGACAAAAA
381 TCATTCTGGACAAAAA
* * * * ***
90578 GTTTTGACACAAAATAAAAAAGCGTCGATAC--AT-TAGACCTATTCTTACATAAAACCAAAATA
1 GTATCGACACAAAATAAAAAAGTGTCGATACTTATGTAGACCTATTCTCACATAAAA-CTGTATA
* * *
90640 TTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTAGAT
65 TTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATGTTTTTGGAT
* * *
90705 CGACACTTTTTATAAATGTATCGACACTGTATTCATTCATCATTTTTGGCATTCATTCTGAACAA
130 CGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC-A
90770 AAAGTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTTACATAAAACCGG
194 AAAGTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTTACATAAAACCGG
*
90835 TATATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTT
259 TATATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTT
*
90900 TTGATCGACAC-TTTTATAAATGTATCGACACTTTATTCGTTCATCA-TTTTGGCATTCATTCTG
324 TGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTG
90963 GACAAAAA
389 GACAAAAA
* *
90971 GTATCGACACAACATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACTGTATA
1 GTATCGACACAAAATAAAAAAGTGTCGATAC-TTATGTAGACCTATTCTCACATAAAACTGTATA
* * **
91036 -TT-TACCG-TTATATTACAAAATTACCTATTACATTATATTTAT-GGATTTTGATGTTTTTTGG
65 TTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTG-TTTCAATG-TTTTT-G
* *
91097 GATCGACACTTTCTA-AAACTGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGG
127 GATCGACACTTTTTATAAA-TGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGG
* *
91161 ACAAAACGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATAT-TCACATAAA
191 ACAAAA-GTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTAT-TCTTACATAAA
* * * * *
91225 ACCGATATATTTATATCTGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTTGATG
254 ACCGGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATATGTTTCGATG
* * *
91290 TTTTTGGGATCGACACTTTTTATATATGTATCAACACTTTATTCGTTCATCATTTTTGGCATTCA
319 TTTTTTGGATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCA
*
91355 TTTTGGACAAAAA
384 TTCTGGACAAAAA
* *
91368 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAACCGGTATA
1 GTATCGACACAAAATAAAAAAGTGTCGATAC-TTATGTAGACCTATTCTCACATAAAACTGTATA
*
91433 TATATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATGTTTTTTGGA
65 TTTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATG-TTTTTGGA
91498 TCGACA-TATTTTATAAATGTATCGACAC
129 TCGACACT-TTTTATAAATGTATCGACAC
91526 ATATACTTAC
Statistics
Matches: 829, Mismatches: 86, Indels: 60
0.85 0.09 0.06
Matches are distributed among these distances:
390 8 0.01
391 94 0.11
392 11 0.01
393 136 0.16
394 133 0.16
395 216 0.26
396 45 0.05
397 105 0.13
398 2 0.00
399 29 0.03
400 49 0.06
401 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (396 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACTTATGTAGACCTATTCTCACATAAAACTGTATAT
TTATACCGATTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCAATGTTTTTGGATC
GACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGACAAA
AGTATCGACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTTACATAAAACCGGTA
TATTTATACCGGTTATATTATAAAATTACCTATTACATTATAATTATATGTTTCGATGTTTTTTG
GATCGACACTTTTTATAAATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGA
CAAAAA
Found at i:91812 original size:19 final size:19
Alignment explanation
Indices: 91788--91836 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
91778 TTACATCCAC
91788 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
91807 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
91826 ATACAAAATTA
1 ATACAAAATTA
91837 ACTATACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:93409 original size:18 final size:18
Alignment explanation
Indices: 93386--93455 Score: 108
Period size: 18 Copynumber: 4.0 Consensus size: 18
93376 TCCTCCTCAT
* *
93386 TTCCTCCATATTTTCTTC
1 TTCCTCCCTCTTTTCTTC
93404 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
93422 TTCCTCCCTC-TTT-TTC
1 TTCCTCCCTCTTTTCTTC
93438 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
93456 ATATTTTTTC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
16 13 0.27
17 6 0.12
18 29 0.60
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:93440 original size:16 final size:16
Alignment explanation
Indices: 93401--93455 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
93391 CCATATTTTC
93401 TTCTTCCTCCCTCTTTT
1 TTCTTCCTCCCTC-TTT
93418 CTTCTTCCTCCCTCTTT
1 -TTCTTCCTCCCTCTTT
93435 TTCTTCCTCCCTC-TT
1 TTCTTCCTCCCTCTTT
93450 TTCTTC
1 TTCTTC
93456 ATATTTTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
15 8 0.22
16 13 0.35
17 3 0.08
18 13 0.35
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCTTCCTCCCTCTTT
Found at i:93648 original size:20 final size:20
Alignment explanation
Indices: 93608--93650 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
93598 CCATCAATTT
* * *
93608 TTCACCCTCACCATCTTAAC
1 TTCACCCTCAACACCTCAAC
93628 TTCACCCTCAACACCTCAAC
1 TTCACCCTCAACACCTCAAC
93648 TTC
1 TTC
93651 TTTCACAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.47, G:0.00, T:0.28
Consensus pattern (20 bp):
TTCACCCTCAACACCTCAAC
Found at i:93655 original size:24 final size:23
Alignment explanation
Indices: 93628--93681 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
93618 CCATCTTAAC
93628 TTCACCCTCAACACCTCAACTTCT
1 TTCACCCTC-ACACCTCAACTTCT
** *
93652 TTCACAATTCACCCCTCAACTTCT
1 TTCAC-CCTCACACCTCAACTTCT
93676 TTCACC
1 TTCACC
93682 ACTCCATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.31
Consensus pattern (23 bp):
TTCACCCTCACACCTCAACTTCT
Found at i:93753 original size:20 final size:21
Alignment explanation
Indices: 93718--93760 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
93708 CCCATTATGC
93718 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
93739 CTCTCAAGT-TCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
93759 CT
1 CT
93761 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.14, C:0.35, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:93865 original size:15 final size:15
Alignment explanation
Indices: 93845--93876 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
93835 CTCTATTTTT
93845 CCTCACCGTCATCCC
1 CCTCACCGTCATCCC
93860 CCTCACCGTCATCCC
1 CCTCACCGTCATCCC
93875 CC
1 CC
93877 AATACAACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.62, G:0.06, T:0.19
Consensus pattern (15 bp):
CCTCACCGTCATCCC
Found at i:96593 original size:182 final size:182
Alignment explanation
Indices: 96023--96877 Score: 1092
Period size: 182 Copynumber: 4.7 Consensus size: 182
96013 TACTCGTACG
* * * * * * *
96023 TATTAAAGTATCGACACTTTG-AATACATCCGGTAGCGCTTTACCGGTTTTGTCATTTAGAGACT
1 TATTAAAGTATCGACAC-TTGCAATATATCCGATAGCGCTTTACCGATTTTGTCTTTTCGTGACC
* * * * * *
96087 GGTTTTATCGTATTTTTACCTATTATATCGTTATGGATCGATATATTTTTATAAAGTATCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
* * * * *
96152 TTTATAGGCGCGAAAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * *
96205 TATTAAATTATCAACACTTTCAATATATCCGATAGCGCTTTATCGATTTTATCTTTTCGAGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGATAGCGCTTTACCGATTTTGTCTTTTCGTGACCG
*
96270 GTTTTATCATATTTTTACCTGTTATATCGTCGTGGATCGATACAT-TTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
*
96334 TTATA-GCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATGCTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * *
96385 TATTAAAATATTGACACTTACAATATATCCGATATCTCTTTACCGATTTTGTCTTTTCCTGACCA
1 TATTAAAGTATCGACACTTGCAATATATCCGATAGCGCTTTACCGATTTTGTCTTTTCGTGACC-
* *
96450 GATTTT-TCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAAT-TAGCA
65 GGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGA-CA
96513 CTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
129 CTTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * *
96567 TATTAAAGTATCGACACTTGCAATATATCC-AGTATCTCTTTATCGGTTTTGTCTTTTCCTGACT
1 TATTAAAGTATCGACACTTGCAATATATCCGA-TAGCGCTTTACCGATTTTGTCTTTTCGTGACC
* * *
96631 GGTTTTGTGATATTTTTACTTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
65 GGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
* ** *
96696 TTTATAGGCGCTAAAACTTCTTCTCCTTTAAATTCATTATATGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
96749 TATTAAAGTATCGACACATGCAATATATCCGGTAGCGCTGTACCGATTTTATCTTTTCGTGACCG
1 TATTAAAGTATCGACACTTGCAATATATCCGATAGCGCTTTACCGATTTTGTCTTTTCGTGACCG
* * *** * * *
96814 GTTTTGTCATATTTTTTCCTGTTATATTAATGTGGATTGATACATTTTTTATAAAGTATCGACA
66 GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACA-TATTTATAAAGAATCGACA
96878 TAAACCGACA
Statistics
Matches: 593, Mismatches: 70, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
180 133 0.22
181 57 0.10
182 385 0.65
183 18 0.03
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTGCAATATATCCGATAGCGCTTTACCGATTTTGTCTTTTCGTGACCG
GTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:98391 original size:190 final size:191
Alignment explanation
Indices: 98068--98438 Score: 703
Period size: 190 Copynumber: 1.9 Consensus size: 191
98058 TCGTTCAGTC
98068 ATGCCATGCTTTTTCATTAGAGTTTCAATGACTCGATTGATGAAATATGTTCCCCTATCGCATAT
1 ATGCCATGCTTTTTCATTAGAGTTTCAATGACTCGATTGATGAAATATGTTCCCCTATCGCATAT
98133 GATTTCTTTTGGAGTGCCGAATCTAGAAAAAATGTAATCACGAAGAATTTGTAGTCATTTTAGCA
66 GATTTCTTTTGGAGTGCCGAATCTAGAAAAAATGTAATCACGAAGAATTTGTAGTCATTTTAGCA
98198 TCATTGTTTCAGG-ATCCTTTGCCTCTACCCATTTAGAAACATAATCATTGAATTCGTTCA
131 TCATTGTTTCAGGCATCCTTTGCCTCTACCCATTTAGAAACATAATCATTGAATTCGTTCA
98258 ATGCCATGCTTTTTCATTAGAGTTTCAATGACTCGATTGATG-AATATGTT-CCCTATCGCATAT
1 ATGCCATGCTTTTTCATTAGAGTTTCAATGACTCGATTGATGAAATATGTTCCCCTATCGCATAT
98321 GATTTCTTTTGGAGTGCCGAATCTAGAAAAAATGTAATCACGAAGAAAATTTGTAGTCATTTTAG
66 GATTTCTTTTGGAGTGCCGAATCTAGAAAAAATGTAATCACGAAG--AATTTGTAGTCATTTTAG
98386 CATCATTGTTTCAGGCATCCTTTGCCTCTACCCATTTAGAAACATAATCATTG
129 CATCATTGTTTCAGGCATCCTTTGCCTCTACCCATTTAGAAACATAATCATTG
98439 TTTCAGGCAT
Statistics
Matches: 178, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
188 58 0.33
189 8 0.04
190 75 0.42
191 37 0.21
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (191 bp):
ATGCCATGCTTTTTCATTAGAGTTTCAATGACTCGATTGATGAAATATGTTCCCCTATCGCATAT
GATTTCTTTTGGAGTGCCGAATCTAGAAAAAATGTAATCACGAAGAATTTGTAGTCATTTTAGCA
TCATTGTTTCAGGCATCCTTTGCCTCTACCCATTTAGAAACATAATCATTGAATTCGTTCA
Found at i:111211 original size:29 final size:29
Alignment explanation
Indices: 111158--111221 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
111148 CTCCATACCG
* * *
111158 ATTTAGTGATCAAATTATGAGAATTTAAA
1 ATTTAGTGACCAAATTATGAAAATTGAAA
111187 ATTTAGTGACCAAATTA-GATAAATTGAAA
1 ATTTAGTGACCAAATTATGA-AAATTGAAA
111216 AGTTTA
1 A-TTTA
111222 AGGACTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 2 0.07
29 24 0.80
30 4 0.13
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (29 bp):
ATTTAGTGACCAAATTATGAAAATTGAAA
Found at i:112350 original size:23 final size:23
Alignment explanation
Indices: 112320--112399 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 23
112310 CTTATATGGC
*
112320 ACTTCGGTGCATTTCTACGCGGT
1 ACTTCGGTGCAATTCTACGCGGT
* *
112343 ACTTCGGTGCAATTCTATGCGGC
1 ACTTCGGTGCAATTCTACGCGGT
* *
112366 ACTTCGGTGTAATTCTACGTGGT
1 ACTTCGGTGCAATTCTACGCGGT
*
112389 ACTTTGGTGCA
1 ACTTCGGTGCA
112400 TTTATACAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (23 bp):
ACTTCGGTGCAATTCTACGCGGT
Found at i:119197 original size:23 final size:23
Alignment explanation
Indices: 119129--119189 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
119119 ACATCTTATA
* *
119129 TGGCACTTTGGTGCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
119152 CGACACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
119175 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
119190 CTTATACGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.31
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:120163 original size:21 final size:20
Alignment explanation
Indices: 120139--120177 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
120129 CATCAAGGCC
* *
120139 TTTGTTGAAGCCATGAAATAT
1 TTTGTCGAAACCAT-AAATAT
120160 TTTGTCGAAACCATAAAT
1 TTTGTCGAAACCATAAAT
120178 TCTTGTAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TTTGTCGAAACCATAAATAT
Found at i:122258 original size:54 final size:53
Alignment explanation
Indices: 122192--122522 Score: 402
Period size: 54 Copynumber: 6.2 Consensus size: 53
122182 TTATTAAGAC
* * * * *
122192 GCACACGTAGTGCCTATACGGTTGTTCATCAACACATGATGAATTCTATGGTTT
1 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCTGTGG-TT
* ** *
122246 GCACACACAGTGCATGTACAATTTTTCATCAACTCATGATGAATTCTGTGGGTT
1 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCTGT-GGTT
* *
122300 ACACACATAGTGCATGTATGGTTGTTCATCAACTCATGATGAATTC--T-G-T
1 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCTGTGGTT
* *
122349 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATAAATTATGTGGGTT
1 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCTGT-GGTT
* * *
122403 GCACATATAGTTCTTGTACGGTTGTTCATCAACTCATGATGAATTCTGTGAGTT
1 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCTGTG-GTT
* *
122457 GCACACATAGTTCCTGTACGGTTGTTCATCAACTCATGATGAATT-TCGTGGGTT
1 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCT-GT-GGTT
*
122511 GCGCACATAGTG
1 GCACACATAGTG
122523 ATTATAGTAC
Statistics
Matches: 240, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
49 43 0.18
50 1 0.00
51 1 0.00
52 1 0.00
53 3 0.01
54 188 0.78
55 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (53 bp):
GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCTGTGGTT
Found at i:122480 original size:157 final size:157
Alignment explanation
Indices: 122192--122501 Score: 440
Period size: 157 Copynumber: 2.0 Consensus size: 157
122182 TTATTAAGAC
* * * * *
122192 GCACACGTAGTGCCTATACGGTTGTTCATCAACACATGATGAATTCTATGGTTTGCACACACAGT
1 GCACACATAGTGCATATACGGTTGTTCATCAACACATGATAAATTATATGGGTTGCACACACAGT
* * *
122257 GCATGTACAATTTTTCATCAACTCATGATGAATTCTGTGGGTTACACACATAGTGCATGTATGGT
66 GCATGTACAATTGTTCATCAACTCATGATGAATTCTGTGAGTTACACACATAGTGCATGTACGGT
122322 TGTTCATCAACTCATGATGAATTCTGT
131 TGTTCATCAACTCATGATGAATTCTGT
* * * * *
122349 GCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATAAATTATGTGGGTTGCACATATAGT
1 GCACACATAGTGCATATACGGTTGTTCATCAACACATGATAAATTATATGGGTTGCACACACAGT
* * ** * * *
122414 TCTTGTACGGTTGTTCATCAACTCATGATGAATTCTGTGAGTTGCACACATAGTTCCTGTACGGT
66 GCATGTACAATTGTTCATCAACTCATGATGAATTCTGTGAGTTACACACATAGTGCATGTACGGT
122479 TGTTCATCAACTCATGATGAATT
131 TGTTCATCAACTCATGATGAATT
122502 TCGTGGGTTG
Statistics
Matches: 133, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
157 133 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (157 bp):
GCACACATAGTGCATATACGGTTGTTCATCAACACATGATAAATTATATGGGTTGCACACACAGT
GCATGTACAATTGTTCATCAACTCATGATGAATTCTGTGAGTTACACACATAGTGCATGTACGGT
TGTTCATCAACTCATGATGAATTCTGT
Found at i:126054 original size:15 final size:15
Alignment explanation
Indices: 126034--126070 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
126024 AACACCATTG
126034 GAGCCATTCAATACA
1 GAGCCATTCAATACA
* *
126049 GAGCCATTCGATACG
1 GAGCCATTCAATACA
126064 GAGCCAT
1 GAGCCAT
126071 AGAAACTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (15 bp):
GAGCCATTCAATACA
Found at i:128668 original size:54 final size:54
Alignment explanation
Indices: 128610--128927 Score: 435
Period size: 54 Copynumber: 5.9 Consensus size: 54
128600 CTATATGTTC
* * * * * * *
128610 GTTCATCAACACATGATGAATTATGTGGTTTGTATACATAGTACCTGTACGGTT
1 GTTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTT
* * *
128664 GTTCATCAACTCAAGATGAATT-TCGTGGGTTGCACACATAGTGCATGTACTGCT
1 GTTCATCAACTCATGATGAATTCT-GTGGGTTGCACACATAGTGCATGTACGGTT
*
128718 GTTCATCAACTCATGATGAATTCCGTGGGTTGCACTA-ATAGTGCATGTACGGTT
1 GTTCATCAACTCATGATGAATTCTGTGGGTTGCAC-ACATAGTGCATGTACGGTT
* * *
128772 GTTCATCAACTCATGATGAATTTTGTGGGTTCCACACATAGTGCATGTACGATT
1 GTTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTT
* * *
128826 -TTCATCAACTAATGATAAATTCTGTGGGTTGCACACATAGTGCATGTATGGTT
1 GTTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTT
*
128879 GTTCATCAACTCATGATGAATTCCGTGGGTTGCACACATAGTGCATGTA
1 GTTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTA
128928 GTACACATAG
Statistics
Matches: 233, Mismatches: 26, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
53 49 0.21
54 183 0.79
55 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (54 bp):
GTTCATCAACTCATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTT
Found at i:128873 original size:161 final size:162
Alignment explanation
Indices: 128610--128927 Score: 466
Period size: 161 Copynumber: 2.0 Consensus size: 162
128600 CTATATGTTC
* ** * * *
128610 GTTCATCAACACATGATGAATTATGTGGTTTGTATACATAGTACCTGTACGGTTGTTCATCAACT
1 GTTCATCAACACATGATGAATTATGTGGGTTCCACACATAGTACATGTACGATTGTTCATCAACT
*
128675 CAAGATGAATTTCGTGGGTTGCACACATAGTGCATGTACT-GCTGTTCATCAACTCATGATGAAT
66 CAAGATAAATTTCGTGGGTTGCACACATAGTGCATGTA-TGGCTGTTCATCAACTCATGATGAAT
128739 TCCGTGGGTTGCACTA-ATAGTGCATGTACGGTT
130 TCCGTGGGTTGCAC-ACATAGTGCATGTACGGTT
* * *
128772 GTTCATCAACTCATGATGAATTTTGTGGGTTCCACACATAGTGCATGTACGATT-TTCATCAACT
1 GTTCATCAACACATGATGAATTATGTGGGTTCCACACATAGTACATGTACGATTGTTCATCAACT
*
128836 -AATGATAAA-TTCTGTGGGTTGCACACATAGTGCATGTATGGTTGTTCATCAACTCATGATGAA
66 CAA-GATAAATTTC-GTGGGTTGCACACATAGTGCATGTATGGCTGTTCATCAACTCATGATGAA
128899 TTCCGTGGGTTGCACACATAGTGCATGTA
129 TTCCGTGGGTTGCACACATAGTGCATGTA
128928 GTACACATAG
Statistics
Matches: 141, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
160 7 0.05
161 89 0.63
162 45 0.32
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (162 bp):
GTTCATCAACACATGATGAATTATGTGGGTTCCACACATAGTACATGTACGATTGTTCATCAACT
CAAGATAAATTTCGTGGGTTGCACACATAGTGCATGTATGGCTGTTCATCAACTCATGATGAATT
CCGTGGGTTGCACACATAGTGCATGTACGGTT
Found at i:128887 original size:107 final size:108
Alignment explanation
Indices: 128610--128927 Score: 453
Period size: 107 Copynumber: 3.0 Consensus size: 108
128600 CTATATGTTC
* * * * * *
128610 GTTCATCAAC-ACATGATGAATTATGTGGTTTGTATACATAGTACCTGTACGGTTGTTCATCAAC
1 GTTCATCAACTA-ATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTTGTTCATCAAC
* *
128674 TCAAGATGAATTTCGTGGGTTGCACACATAGTGCATGTACTGCT
65 TCATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACTGAT
* *
128718 GTTCATCAACTCATGATGAATTCCGTGGGTTGCACTA-ATAGTGCATGTACGGTTGTTCATCAAC
1 GTTCATCAACTAATGATGAATTCTGTGGGTTGCAC-ACATAGTGCATGTACGGTTGTTCATCAAC
* *
128782 TCATGATGAATTTTGTGGGTTCCACACATAGTGCATGTAC-GAT
65 TCATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACTGAT
* * *
128825 TTTCATCAACTAATGATAAATTCTGTGGGTTGCACACATAGTGCATGTATGGTTGTTCATCAACT
1 GTTCATCAACTAATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTTGTTCATCAACT
*
128890 CATGATGAATTCCGTGGGTTGCACACATAGTGCATGTA
66 CATGATGAATTTCGTGGGTTGCACACATAGTGCATGTA
128928 GTACACATAG
Statistics
Matches: 187, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
106 1 0.01
107 95 0.51
108 90 0.48
109 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (108 bp):
GTTCATCAACTAATGATGAATTCTGTGGGTTGCACACATAGTGCATGTACGGTTGTTCATCAACT
CATGATGAATTTCGTGGGTTGCACACATAGTGCATGTACTGAT
Found at i:129292 original size:19 final size:19
Alignment explanation
Indices: 129265--129305 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
129255 GTATCGATAC
**
129265 TACTATATTATGGTACCGA
1 TACTATATTACAGTACCGA
*
129284 TACTCTATTACAGTACCGA
1 TACTATATTACAGTACCGA
129303 TAC
1 TAC
129306 CATTTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (19 bp):
TACTATATTACAGTACCGA
Found at i:142321 original size:24 final size:24
Alignment explanation
Indices: 142294--142387 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 24
142284 CACCACAGCT
*
142294 CGTATAAATTGCACCAAAGTGCCA
1 CGTAGAAATTGCACCAAAGTGCCA
* *
142318 CGTAGAAATTGTC-CCGAAAG-ACCG
1 CGTAGAAATTG-CACC-AAAGTGCCA
*
142342 CGTAGAAA-TGCACCGAAGTGCCA
1 CGTAGAAATTGCACCAAAGTGCCA
* **
142365 CATAG-AATTGCACCGTAGTGCCA
1 CGTAGAAATTGCACCAAAGTGCCA
142388 TATAAGATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
22 6 0.11
23 24 0.42
24 22 0.39
25 5 0.09
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (24 bp):
CGTAGAAATTGCACCAAAGTGCCA
Found at i:148789 original size:24 final size:24
Alignment explanation
Indices: 148762--148850 Score: 105
Period size: 23 Copynumber: 3.8 Consensus size: 24
148752 CAGCTCGTAT
148762 AAATTGCACCGAAGTGCCACATAG
1 AAATTGCACCGAAGTGCCACATAG
* *
148786 AAATTGTC-CCGAAG-GACCGCGTAG
1 AAATTG-CACCGAAGTG-CCACATAG
148810 AAA-TGCACCGAAGTGCCACATAG
1 AAATTGCACCGAAGTGCCACATAG
*
148833 -AATTGCACCGTAGTGCCA
1 AAATTGCACCGAAGTGCCA
148851 TCTAAGATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
22 3 0.05
23 29 0.53
24 22 0.40
25 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.17
Consensus pattern (24 bp):
AAATTGCACCGAAGTGCCACATAG
Found at i:160255 original size:46 final size:46
Alignment explanation
Indices: 160188--160275 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
160178 TAATCTTTAA
160188 ATTTTGTGTCGTACCATTTAATTATATAGATAATGTCAATCAAATC
1 ATTTTGTGTCGTACCATTTAATTATATAGATAATGTCAATCAAATC
*
160234 ATTTTGTGTTGTACCATTTAATTATATAGATAATGTCAATCA
1 ATTTTGTGTCGTACCATTTAATTATATAGATAATGTCAATCA
160276 GATAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (46 bp):
ATTTTGTGTCGTACCATTTAATTATATAGATAATGTCAATCAAATC
Found at i:165549 original size:16 final size:16
Alignment explanation
Indices: 165528--165560 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
165518 TAATAAATAA
165528 ACGAACAAAAACGAAC
1 ACGAACAAAAACGAAC
*
165544 ACGAACATAAACGAAC
1 ACGAACAAAAACGAAC
165560 A
1 A
165561 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.24, G:0.12, T:0.03
Consensus pattern (16 bp):
ACGAACAAAAACGAAC
Found at i:165651 original size:16 final size:16
Alignment explanation
Indices: 165630--165678 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
165620 TAATAAATAA
165630 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
**
165646 ACGAACATAATTGAAC
1 ACGAACATAAACGAAC
*
165662 ACGATCATAAACGAAC
1 ACGAACATAAACGAAC
165678 A
1 A
165679 TAAACGTTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.53, C:0.22, G:0.12, T:0.12
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:166629 original size:14 final size:14
Alignment explanation
Indices: 166612--166643 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
166602 AATGAACATA
166612 AACGAACATAACCG
1 AACGAACATAACCG
*
166626 AACGAACATAATCG
1 AACGAACATAACCG
166640 AACG
1 AACG
166644 TTCACGAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:173641 original size:111 final size:111
Alignment explanation
Indices: 173504--173836 Score: 621
Period size: 111 Copynumber: 3.0 Consensus size: 111
173494 ATTACAAAAA
173504 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
173569 AATTAAAACGTTAAAATGTTATCGTATCAGTAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
173615 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
173680 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
173726 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
173791 AATTAAAACGTTAAAATGTTACCATATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
173837 ATGATTTTCA
Statistics
Matches: 217, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 217 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:173941 original size:17 final size:18
Alignment explanation
Indices: 173898--173938 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
173888 GAATTATATT
173898 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
173915 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
173933 ATTAAA
1 AGTAAA
173939 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:174211 original size:50 final size:50
Alignment explanation
Indices: 174157--174269 Score: 163
Period size: 50 Copynumber: 2.3 Consensus size: 50
174147 TAGCGCGGAT
* *
174157 CAGGGGGCGCGCTATACCCACGTGATGCCAAATCACCGTATATCGCGGGG
1 CAGGGGGCGCGCTATACCCACGTGATGCCAAATCACCATATAACGCGGGG
* * **
174207 CAGGGGGCGCGCTATACCCACGTGGTGCCAAATCAGCATATAACGCGGTT
1 CAGGGGGCGCGCTATACCCACGTGATGCCAAATCACCATATAACGCGGGG
*
174257 CGGGGGGCGCGCT
1 CAGGGGGCGCGCT
174270 TTACTGCTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.20, C:0.29, G:0.35, T:0.16
Consensus pattern (50 bp):
CAGGGGGCGCGCTATACCCACGTGATGCCAAATCACCATATAACGCGGGG
Found at i:178451 original size:77 final size:77
Alignment explanation
Indices: 178324--178466 Score: 234
Period size: 77 Copynumber: 1.9 Consensus size: 77
178314 ACATCTTGTT
*
178324 ATAGGGTGATGTTAGGTTTGCGTTCTTTTGCTATATCTATCAACATTATGAAGTTATTCTGTTTT
1 ATAGGGTGATGTTAGGTTTGCGTTCTTTTGCTATATCTATAAACATTATGAAGTTATTCTGTTTT
178389 TCTCGTCTGGAA
66 TCTCGTCTGGAA
* * *
178401 ATAGGGTG-TGTTAGGTTTGCGTTTGTTTTTCTATATCTATAAACATTATGAATTTATTCTGTTT
1 ATAGGGTGATGTTAGGTTTGCG-TTCTTTTGCTATATCTATAAACATTATGAAGTTATTCTGTTT
178465 TT
65 TT
178467 TCCTGTATTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
76 13 0.21
77 48 0.79
ACGTcount: A:0.21, C:0.10, G:0.20, T:0.49
Consensus pattern (77 bp):
ATAGGGTGATGTTAGGTTTGCGTTCTTTTGCTATATCTATAAACATTATGAAGTTATTCTGTTTT
TCTCGTCTGGAA
Found at i:186234 original size:21 final size:21
Alignment explanation
Indices: 186210--186314 Score: 77
Period size: 21 Copynumber: 4.9 Consensus size: 21
186200 AAAGCAAGAA
* *
186210 AAGCACAGAGAGCAGTAGTGG
1 AAGCACAGAGAGCAGCAGAGG
*
186231 AAGCAGCAGCAGAAGCAGCAGAAG
1 AAGCA-CAG-AG-AGCAGCAGAGG
** *
186255 AAGCAGTGAGAGCAGCAGCGG
1 AAGCACAGAGAGCAGCAGAGG
* * *
186276 AAGCAGAGAGAGAAGCA-ACG
1 AAGCACAGAGAGCAGCAGAGG
*
186296 ACAGCACAGAGAGAAGCAG
1 A-AGCACAGAGAGCAGCAG
186315 CATATCAGCA
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.03
21 44 0.66
22 5 0.07
23 3 0.04
24 13 0.19
ACGTcount: A:0.43, C:0.18, G:0.36, T:0.03
Consensus pattern (21 bp):
AAGCACAGAGAGCAGCAGAGG
Found at i:186245 original size:12 final size:12
Alignment explanation
Indices: 186230--186281 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
186220 AGCAGTAGTG
186230 GAAGCAGCAGCA
1 GAAGCAGCAGCA
*
186242 GAAGCAGCAGAA
1 GAAGCAGCAGCA
*
186254 GAAGCAG-TG-A
1 GAAGCAGCAGCA
*
186264 G-AGCAGCAGCG
1 GAAGCAGCAGCA
186275 GAAGCAG
1 GAAGCAG
186282 AGAGAGAAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 5 0.15
10 3 0.09
11 2 0.06
12 23 0.70
ACGTcount: A:0.40, C:0.19, G:0.38, T:0.02
Consensus pattern (12 bp):
GAAGCAGCAGCA
Found at i:186290 original size:33 final size:33
Alignment explanation
Indices: 186210--186292 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
186200 AAAGCAAGAA
* * *
186210 AAGCACAGAGAGCAGTAGTGGAAGCAGCAGCAG
1 AAGCAGAGAGAGAAGCAGTGGAAGCAGCAGCAG
*
186243 AAGCAGCAGA-AGAAGCAGT-GAGAGCAGCAGCGG
1 AAGCAG-AGAGAGAAGCAGTGGA-AGCAGCAGCAG
186276 AAGCAGAGAGAGAAGCA
1 AAGCAGAGAGAGAAGCA
186293 ACGACAGCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
32 5 0.12
33 35 0.81
34 3 0.07
ACGTcount: A:0.42, C:0.17, G:0.37, T:0.04
Consensus pattern (33 bp):
AAGCAGAGAGAGAAGCAGTGGAAGCAGCAGCAG
Found at i:186312 original size:33 final size:34
Alignment explanation
Indices: 186232--186316 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 34
186222 CAGTAGTGGA
* ** *
186232 AGCAGCAG-CAGAAGCAGCAGAAGAAGCAGTGAG
1 AGCAGCAGAGAGAAGCAGCAGAAGAAGCAACGAC
*
186265 AGCAGCAGCG-GAAGCAG-AGAGAGAAGCAACGAC
1 AGCAGCAGAGAGAAGCAGCAGA-AGAAGCAACGAC
186298 AGCA-CAGAGAGAAGCAGCA
1 AGCAGCAGAGAGAAGCAGCA
186317 TATCAGCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 7 0.16
33 35 0.81
34 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.35, T:0.01
Consensus pattern (34 bp):
AGCAGCAGAGAGAAGCAGCAGAAGAAGCAACGAC
Found at i:186697 original size:22 final size:22
Alignment explanation
Indices: 186656--186697 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
186646 AAATGCCACA
* *
186656 ATATACCATACATTTTGCGGTT
1 ATATACCAGACATTTAGCGGTT
*
186678 ATATACCAGACCTTTAGCGG
1 ATATACCAGACATTTAGCGG
186698 CGTTTGTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (22 bp):
ATATACCAGACATTTAGCGGTT
Found at i:186782 original size:43 final size:43
Alignment explanation
Indices: 186735--186943 Score: 240
Period size: 43 Copynumber: 4.9 Consensus size: 43
186725 ACATAAGCAT
* * *
186735 TTGCGGCGTTTGTGGGAAAAACGTCGCTAAATCTCAACTCCTA
1 TTGCGGCGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTA
* * * * *
186778 TTGCGGCGTTTGCGATAAAAACGTCGCTAAATATCAAAACCTA
1 TTGCGGCGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTA
* * * *
186821 TTGCGGCATTTATGTGAAAAACGCCGCTACATCTCAACACCTA
1 TTGCGGCGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTA
* * *
186864 CTACGACGTTTGTGAG-AAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTA
* * * *
186906 TTGTGGTGTTTGTCAGAAAAACGCCGCTAAAACTCAAC
1 TTGCGGCGTTTGTGAGAAAAACGCCGCTAAATCTCAAC
186944 TACAAACGCC
Statistics
Matches: 136, Mismatches: 29, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
42 35 0.26
43 101 0.74
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (43 bp):
TTGCGGCGTTTGTGAGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:186925 original size:85 final size:86
Alignment explanation
Indices: 186750--186943 Score: 219
Period size: 85 Copynumber: 2.3 Consensus size: 86
186740 GCGTTTGTGG
* * * * * *
186750 GAAAAACGTCGCTAAATCTCAACTCCTATTGCGGCGTTTGCGATAAAAACGTCGCTAAATATCAA
1 GAAAAACGCCGCTAAATCTCAACACCTACTACGACGTTTGCGATAAAAACGCCGCTAAATATCAA
**
186815 AACCTATTGCGGCATTTATGT
66 AACCTATTGCGGCATTTATCA
* * * *
186836 GAAAAACGCCGCTACATCTCAACACCTACTACGACGTTTGTGA-GAAAACGCCGCTAAATCTCAA
1 GAAAAACGCCGCTAAATCTCAACACCTACTACGACGTTTGCGATAAAAACGCCGCTAAATATCAA
* * ** *
186900 CACCTATTGTGGTGTTTGTCA
66 AACCTATTGCGGCATTTATCA
*
186921 GAAAAACGCCGCTAAAACTCAAC
1 GAAAAACGCCGCTAAATCTCAAC
186944 TACAAACGCC
Statistics
Matches: 89, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 53 0.60
86 36 0.40
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (86 bp):
GAAAAACGCCGCTAAATCTCAACACCTACTACGACGTTTGCGATAAAAACGCCGCTAAATATCAA
AACCTATTGCGGCATTTATCA
Found at i:188372 original size:43 final size:44
Alignment explanation
Indices: 188325--188507 Score: 194
Period size: 43 Copynumber: 4.2 Consensus size: 44
188315 TGACAACATA
* * * *
188325 TAGCGGTGTTTGTTC-CACAAACGCCACAATAGGTGTTGTTATT
1 TAGCGGCGTTTGTTCAGAAAAACGCCGCAATAGGTGTTGTTATT
188368 TAGCGGCGTTTG-TCAGAAAAACGCCGCAATAGGTGTTGTTATT
1 TAGCGGCGTTTGTTCAGAAAAACGCCGCAATAGGTGTTGTTATT
* * * **
188411 TAGTGGCGTTT-TTCAGAAAAACGTCGCAATAGGTGTTGATGCT
1 TAGCGGCGTTTGTTCAGAAAAACGCCGCAATAGGTGTTGTTATT
* ** * * **
188454 TAGCTGCGTTT-TTCCTAAAAATGCCGCAGTAGGTGTTGAGATT
1 TAGCGGCGTTTGTTCAGAAAAACGCCGCAATAGGTGTTGTTATT
188497 TAGCGGCGTTT
1 TAGCGGCGTTT
188508 TACTTAAAAA
Statistics
Matches: 118, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.02
43 116 0.98
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (44 bp):
TAGCGGCGTTTGTTCAGAAAAACGCCGCAATAGGTGTTGTTATT
Found at i:188508 original size:43 final size:43
Alignment explanation
Indices: 188354--188636 Score: 216
Period size: 43 Copynumber: 6.6 Consensus size: 43
188344 AACGCCACAA
** * * *
188354 TAGGTGTTGTTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAA
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCAGAAAAACGTCGCAG
** * *
188397 TAGGTGTTGTTATTTAGTGGCGTTTTTCAGAAAAACGTCGCAA
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCAGAAAAACGTCGCAG
* * ** * *
188440 TAGGTGTTGATG-CTTAGCTGCGTTTTTCCTAAAAATGCCGCAG
1 TAGGTGTTGA-GATTTAGCGGCGTTTTTCAGAAAAACGTCGCAG
* ** *
188483 TAGGTGTTGAGATTTAGCGGCGTTTTACTTAAAAATGTCGCAG
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCAGAAAAACGTCGCAG
* * * ** * *
188526 TAGGTTTTGATATTTTGCGGCGTTTTTCCCACAAACGTCACAG
1 TAGGTGTTGAGATTTAGCGGCGTTTTTCAGAAAAACGTCGCAG
* * *
188569 TAGGTTTTCAGATTTAGCGGCGTTTGTATC-G-AAAACGAT-GCAA
1 TAGGTGTTGAGATTTAGCGGCGTTT-T-TCAGAAAAACG-TCGCAG
*
188612 TAAGG-GTTGAGAATTAGCGGCGTTT
1 T-AGGTGTTGAGATTTAGCGGCGTTT
188637 CTGGTATACA
Statistics
Matches: 197, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.01
43 189 0.96
44 5 0.03
45 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TAGGTGTTGAGATTTAGCGGCGTTTTTCAGAAAAACGTCGCAG
Found at i:188517 original size:86 final size:86
Alignment explanation
Indices: 188351--188636 Score: 265
Period size: 86 Copynumber: 3.3 Consensus size: 86
188341 ACAAACGCCA
* * ** * ** *
188351 CAATAGGTGTTGTTATTTAGCGGCGTTTGTCAGAAAAACGCCGCAATAGGTGTTGTTATTTAGTG
1 CAATAGGTGTTGATATTTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTGTTGAGATTTAGCG
*
188416 GCGTTTTTCAGAAAAACGTCG
66 GCGTTTTACAGAAAAACGTCG
** * * *
188437 CAATAGGTGTTGATGCTTAGCTGCGTTTTTCCTAAAAATGCCGCAGTAGGTGTTGAGATTTAGCG
1 CAATAGGTGTTGATATTTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTGTTGAGATTTAGCG
** *
188502 GCGTTTTACTTAAAAATGTCG
66 GCGTTTTACAGAAAAACGTCG
* * * * * * * *
188523 CAGTAGGTTTTGATATTTTGCGGCGTTTTTCCCACAAACGTCACAGTAGGTTTTCAGATTTAGCG
1 CAATAGGTGTTGATATTTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTGTTGAGATTTAGCG
188588 GCGTTTGTATC-G-AAAACGAT-G
66 GCGTTT-TA-CAGAAAAACG-TCG
* *
188609 CAATAAGG-GTTGAGAATTAGCGGCGTTT
1 CAAT-AGGTGTTGATATTTAGCGGCGTTT
188637 CTGGTATACA
Statistics
Matches: 160, Mismatches: 36, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
86 153 0.96
87 6 0.04
88 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (86 bp):
CAATAGGTGTTGATATTTAGCGGCGTTTTTCCCAAAAACGCCGCAGTAGGTGTTGAGATTTAGCG
GCGTTTTACAGAAAAACGTCG
Found at i:189040 original size:21 final size:21
Alignment explanation
Indices: 189015--189078 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
189005 ATTCTTCACA
*
189015 TCTCTGCTGAT-ATGCTGCTTC
1 TCTCTG-TGATGACGCTGCTTC
* *
189036 TCTCTGTGTTGCCGCTGCTTC
1 TCTCTGTGATGACGCTGCTTC
* *
189057 TCTCTGTGATGCCACTGCTTC
1 TCTCTGTGATGACGCTGCTTC
189078 T
1 T
189079 TTCTCTGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 3 0.08
21 34 0.92
ACGTcount: A:0.06, C:0.31, G:0.20, T:0.42
Consensus pattern (21 bp):
TCTCTGTGATGACGCTGCTTC
Found at i:189095 original size:21 final size:20
Alignment explanation
Indices: 189028--189101 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
189018 CTGCTGATAT
189028 GCTGCTTCTCTCTGTGTTGCC
1 GCTGCTTCTCTCTGTGTT-CC
*
189049 GCTGCTTCTCTCTGTGATGCC
1 GCTGCTTCTCTCTGTG-TTCC
* * *
189070 ACTGCTTCTTTCTCTGCTTCC
1 GCTGCTTCTCTCTGTG-TTCC
*
189091 GCTGCTGCTCT
1 GCTGCTTCTCT
189102 GGCTGCTTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
21 42 0.98
22 1 0.02
ACGTcount: A:0.03, C:0.35, G:0.20, T:0.42
Consensus pattern (20 bp):
GCTGCTTCTCTCTGTGTTCC
Found at i:192449 original size:2 final size:2
Alignment explanation
Indices: 192442--192471 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
192432 TTCTCTAACA
192442 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
192472 TCTTATTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:196068 original size:2 final size:2
Alignment explanation
Indices: 196063--196266 Score: 64
Period size: 2 Copynumber: 112.5 Consensus size: 2
196053 TTTTTTTAAG
*
196063 TA TA TA -A TA CA T- TA TA TA GTA TA TA TA T- TA TA -A T- TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * *
196101 T- TA TA TA GTA TA TA TA T- TA TA TA TG TA TG T- TT TG T- TA T-
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
196139 TA CA -A T- TA TA T- TT TA TA TA GT- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
196178 TA TA T- TA TA GT- TA TA -A T- TA TA TT TA TA TA T- TA T- TA TT
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
196215 TA TA TG TT TA T- TA TA TA T- TA T- TA TA TT TA T- TA T- TA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
196253 TT TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA T
196267 TTATTGTATT
Statistics
Matches: 152, Mismatches: 19, Indels: 62
0.65 0.08 0.27
Matches are distributed among these distances:
1 26 0.17
2 118 0.78
3 8 0.05
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (2 bp):
TA
Found at i:196105 original size:27 final size:26
Alignment explanation
Indices: 196065--196121 Score: 96
Period size: 27 Copynumber: 2.2 Consensus size: 26
196055 TTTTTAAGTA
196065 TATAATACATTATATAGTATATATAT
1 TATAATACATTATATAGTATATATAT
*
196091 TATAATTATATTATATAGTATATATAT
1 TATAA-TACATTATATAGTATATATAT
196118 TATA
1 TATA
196122 TATGTATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
TATAATACATTATATAGTATATATAT
Found at i:196112 original size:25 final size:25
Alignment explanation
Indices: 196065--196293 Score: 130
Period size: 25 Copynumber: 9.3 Consensus size: 25
196055 TTTTTAAGTA
*
196065 TATAA-TACATTATATAGTATATATAT
1 TATAATTATATTATATA-T-TATATAT
*
196091 TATAATTATATTATATAGTATATA-
1 TATAATTATATTATATATTATATAT
* * * *
196115 TATTA-TATATGTATGTTTTGT-TAT
1 TATAATTATAT-TATATATTATATAT
*
196139 TACAATTATATTTTATATAGTTATATA-
1 TATAATTATA--TTATATA-TTATATAT
*
196166 TAT-A-TATATATATATATTATA-GT
1 TATAATTATAT-TATATATTATATAT
196189 TATAATTATATTTATATATTAT-TAT
1 TATAATTATA-TTATATATTATATAT
*
196214 T-TATATGTTTATTATATATTATTATATT
1 TATA-AT-TATATTATATATTA-TATA-T
*
196242 TATTATTACTATT-TATATTATATAT
1 TATAATTA-TATTATATATTATATAT
*
196267 T-T-ATTGTATTAT-T-TTATATAT
1 TATAATTATATTATATATTATATAT
196288 T-TAATT
1 TATAATT
196294 TGTTTTTGTC
Statistics
Matches: 161, Mismatches: 19, Indels: 50
0.70 0.08 0.22
Matches are distributed among these distances:
21 10 0.06
22 8 0.05
23 20 0.12
24 23 0.14
25 44 0.27
26 19 0.12
27 26 0.16
28 10 0.06
29 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (25 bp):
TATAATTATATTATATATTATATAT
Found at i:196164 original size:8 final size:7
Alignment explanation
Indices: 196063--196288 Score: 126
Period size: 7 Copynumber: 32.9 Consensus size: 7
196053 TTTTTTTAAG
*
196063 TATATAA
1 TATATTA
*
196070 TACATTA
1 TATATTA
196077 TATAGTATA
1 TATA-T-TA
196086 TATATTA
1 TATATTA
196093 TA-A-T-
1 TATATTA
196097 TATATTA
1 TATATTA
196104 TATAGTATA
1 TATA-T-TA
196113 TATATTA
1 TATATTA
196120 TATATGTA
1 TATAT-TA
* * *
196128 TGTTTTG
1 TATATTA
196135 T-TATTA
1 TATATTA
*
196141 CA-ATTA
1 TATATTA
*
196147 TATTTTA
1 TATATTA
196154 TATAGTTA
1 TATA-TTA
196162 TATATATA
1 TATAT-TA
196170 TATATATA
1 TATAT-TA
196178 TATATTA
1 TATATTA
*
196185 TA-GTTA
1 TATATTA
196191 TA-ATTA
1 TATATTA
196197 TAT-TTA
1 TATATTA
196203 TATATTA
1 TATATTA
196210 T-TATT-
1 TATATTA
196215 TATATGT-
1 TATAT-TA
196222 T-TATTA
1 TATATTA
196228 TATATTA
1 TATATTA
196235 TTATATT-
1 -TATATTA
196242 TATTATTA
1 TA-TATTA
*
196250 -CTATT-
1 TATATTA
196255 TATATTA
1 TATATTA
196262 TATATT-
1 TATATTA
196268 TAT-TGTA
1 TATAT-TA
*
196275 TTATTTTA
1 -TATATTA
196283 TATATT
1 TATATT
196289 TAATTTGTTT
Statistics
Matches: 175, Mismatches: 17, Indels: 54
0.71 0.07 0.22
Matches are distributed among these distances:
4 2 0.01
5 5 0.03
6 51 0.29
7 62 0.35
8 42 0.24
9 13 0.07
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:196169 original size:12 final size:11
Alignment explanation
Indices: 196152--196287 Score: 95
Period size: 12 Copynumber: 12.3 Consensus size: 11
196142 AATTATATTT
196152 TATATAGTTATA
1 TATATA-TTATA
196164 TATATATATATA
1 TATATAT-TATA
196176 TATATATTATA
1 TATATATTATA
196187 GT-TATAATTATA
1 -TATAT-ATTATA
*
196199 TTTATA-TAT-
1 TATATATTATA
196208 TAT-TATTTATA
1 TATATA-TTATA
* *
196219 TGTTTATTATA
1 TATATATTATA
196230 TAT-TATTATA
1 TATATATTATA
*
196240 TTTATTATTACTA
1 TATA-TATTA-TA
*
196253 TTTATATTATA
1 TATATATTATA
* *
196264 TATTTATTGTA
1 TATATATTATA
*
196275 T-TATTTTATA
1 TATATATTATA
196285 TAT
1 TAT
196288 TTAATTTGTT
Statistics
Matches: 102, Mismatches: 10, Indels: 25
0.74 0.07 0.18
Matches are distributed among these distances:
8 2 0.02
9 2 0.02
10 22 0.22
11 31 0.30
12 39 0.38
13 6 0.06
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:196175 original size:27 final size:27
Alignment explanation
Indices: 196074--196240 Score: 93
Period size: 29 Copynumber: 6.2 Consensus size: 27
196064 ATATAATACA
*
196074 TTATATAG-TATATATAT-TATAATTATA
1 TTATATAGTTATATATATATAT-A-TATT
* *
196101 TTATATAGTATATATATTATATATGTATG
1 TTATATAGT-TATATA-TATATATATATT
*
196130 TT-T-T-GTTAT-TACA-AT-TATATT
1 TTATATAGTTATATATATATATATATT
196151 TTATATAGTTATATATATATATATATAT
1 TTATATAGTTATATATATATATATAT-T
* * *
196179 ATATTATAGTTATA-ATTATATTTATATA
1 TTA-TATAGTTATATA-TATATATATATT
* * *
196207 TTAT-TATTTATATGTTTATTATATATT
1 TTATATAGTTATATATATA-TATATATT
196234 ATTATAT
1 -TTATAT
196241 TTATTATTAC
Statistics
Matches: 108, Mismatches: 15, Indels: 32
0.70 0.10 0.21
Matches are distributed among these distances:
21 6 0.06
22 3 0.03
23 2 0.02
24 7 0.06
25 6 0.06
26 14 0.13
27 21 0.19
28 11 0.10
29 32 0.30
30 3 0.03
31 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.56
Consensus pattern (27 bp):
TTATATAGTTATATATATATATATATT
Found at i:196279 original size:34 final size:34
Alignment explanation
Indices: 196195--196287 Score: 106
Period size: 34 Copynumber: 2.8 Consensus size: 34
196185 TAGTTATAAT
196195 TATATTTA-TATATTATTATTTATATGTTTATTA
1 TATATTTATTATATTATTATTTATATGTTTATTA
196228 TATA-TTATTATATTTATTA-TTACTAT-TTATATTA
1 TATATTTATTATA-TTATTATTTA-TATGTT-TATTA
*
196262 TATATTTATTGTATTATT-TTATATAT
1 TATATTTATTATATTATTATT-TATAT
196288 TTAATTTGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 13
0.79 0.02 0.20
Matches are distributed among these distances:
32 3 0.06
33 13 0.25
34 27 0.52
35 9 0.17
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (34 bp):
TATATTTATTATATTATTATTTATATGTTTATTA
Found at i:196288 original size:12 final size:13
Alignment explanation
Indices: 196074--196288 Score: 131
Period size: 13 Copynumber: 15.7 Consensus size: 13
196064 ATATAATACA
196074 TTATATAGTATATAT
1 TTATATA-T-TATAT
196089 ATTATA-ATTATA-
1 -TTATATATTATAT
196101 TTATATAGTATATAT
1 TTATATA-T-TATAT
*
196116 ATTATATATGTATGT
1 -TTATATAT-TATAT
* * *
196131 TT-TGTTATTACAA
1 TTAT-ATATTATAT
*
196144 TTATATTTTATAT
1 TTATATATTATAT
196157 AGTTATATATATATAT
1 --TTATATAT-TATAT
*
196173 ATATATATATTATAG
1 -T-TATATATTATAT
196188 TTATA-ATTATAT
1 TTATATATTATAT
196200 TTATATATTATTAT
1 TTATATATTA-TAT
*
196214 TTATATGTT-TAT
1 TTATATATTATAT
196226 TATATATTATTATAT
1 T-TATA-TATTATAT
196241 TTAT-TATTACTAT
1 TTATATATTA-TAT
196254 TTATAT-TATATAT
1 TTATATAT-TATAT
*
196267 TTATTGTATTAT-T
1 TTA-TATATTATAT
196280 TTATATATT
1 TTATATATT
196289 TAATTTGTTT
Statistics
Matches: 160, Mismatches: 18, Indels: 46
0.71 0.08 0.21
Matches are distributed among these distances:
11 5 0.03
12 26 0.16
13 45 0.28
14 37 0.23
15 23 0.14
16 24 0.15
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (13 bp):
TTATATATTATAT
Found at i:197569 original size:54 final size:56
Alignment explanation
Indices: 197450--197569 Score: 126
Period size: 54 Copynumber: 2.2 Consensus size: 56
197440 AACATTTGAC
* * *
197450 ATTTT-TTATTTTATTTTTTTATTTCTTTTGAAAAAAATAACATTTTCTTCATTTTT
1 ATTTTATTTTTTTATTTTTTTATTTCTTTTG-AAAAAATAACATTTTATGCATTTTT
* **
197506 -TCTTA-TTTTTTA-TTTTTTATTTCTTTTG-AAATTTAACA-TTTATGCATTTTTT
1 ATTTTATTTTTTTATTTTTTTATTTCTTTTGAAAAAATAACATTTTATGCA-TTTTT
197558 ATTTTATTTTTT
1 ATTTTATTTTTT
197570 CTTTTAAAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
51 6 0.11
52 13 0.25
53 4 0.08
54 21 0.40
55 9 0.17
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (56 bp):
ATTTTATTTTTTTATTTTTTTATTTCTTTTGAAAAAATAACATTTTATGCATTTTT
Found at i:197643 original size:42 final size:39
Alignment explanation
Indices: 197511--197645 Score: 112
Period size: 41 Copynumber: 3.3 Consensus size: 39
197501 TTTTTTCTTA
* * *
197511 TTTTTTATTTT-TTATTTCTTTTGAAA-TTTAACATTTATGCA
1 TTTTTTATTTTATTTTTTCTTTT-AAAGTTT-A-ATTT-TTCC
*
197552 TTTTTTATTTTATTTTTTCTTTTAAAGTTTAATTTTTTC
1 TTTTTTATTTTATTTTTTCTTTTAAAGTTTAATTTTTCC
* * *
197591 TTCATCTTATTTTATTTTTCTCTTTTAACATTTTTATTTTTACC
1 TT--TTTTATTTTATTTTT-TCTTTTAA-AGTTTAATTTTT-CC
197635 TTTTTTATTTT
1 TTTTTTATTTT
197646 CTTAATTTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
39 3 0.04
40 4 0.05
41 29 0.37
42 29 0.37
43 10 0.13
44 3 0.04
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.70
Consensus pattern (39 bp):
TTTTTTATTTTATTTTTTCTTTTAAAGTTTAATTTTTCC
Found at i:201933 original size:2 final size:2
Alignment explanation
Indices: 201921--202116 Score: 105
Period size: 2 Copynumber: 107.5 Consensus size: 2
201911 TGAAATACAT
201921 TA TA TA GTA TA TA TA T- TA TA -A T- TA TA T- TA TA TA GTA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * * *
201961 TA T- TA TA T- TT TA TA TA TG TA TG T- TT TG T- TA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
201997 T- TA TA T- TT TC TA TA GT- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
202037 TA TA TA TA TA TA TA TA T- TT TT TT TA GT- TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
202077 -A TA TA TA T- TA TA TA -A TA T- TA TA TA -A T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
202112 TA TA T
1 TA TA T
202117 TATTATTTAT
Statistics
Matches: 159, Mismatches: 8, Indels: 54
0.72 0.04 0.24
Matches are distributed among these distances:
1 23 0.14
2 130 0.82
3 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (2 bp):
TA
Found at i:201940 original size:16 final size:15
Alignment explanation
Indices: 201919--202165 Score: 145
Period size: 14 Copynumber: 17.0 Consensus size: 15
201909 GATGAAATAC
201919 ATTATATAGTATATAT
1 ATTATATA-TATATAT
201935 ATTATAATTATATTATAT
1 ATTAT-A-TATA-TATAT
*
201953 AGTATATATAT-TAT
1 ATTATATATATATAT
* *
201967 ATTTTATATATGTAT
1 ATTATATATATATAT
* * *
201982 GTTTTGT-TAT-TAT
1 ATTATATATATATAT
* *
201995 AATTATAT-TTTCTAT
1 -ATTATATATATATAT
202010 AGTTATATATATATAT
1 A-TTATATATATATAT
202026 A-TATATATATATAT
1 ATTATATATATATAT
202040 A-TATATATATATAT
1 ATTATATATATATAT
* *
202054 -TT-TTTTTAGT-TAT
1 ATTATATATA-TATAT
202067 ATTATATATA-ATAT
1 ATTATATATATATAT
202081 A-TAT-TATATA-AT
1 ATTATATATATATAT
202093 ATTATATA-ATTATAT
1 ATTATATATA-TATAT
202108 ATTATATAT-TAT-T
1 ATTATATATATATAT
* *
202121 ATT-TATTAAACATAT
1 ATTATA-TATATATAT
*
202136 ATTATGTAT-TATAT
1 ATTATATATATATAT
202150 AGTTATAGT-TATATAT
1 A-TTATA-TATATATAT
202166 TTTAGGGTGA
Statistics
Matches: 184, Mismatches: 21, Indels: 52
0.72 0.08 0.20
Matches are distributed among these distances:
12 9 0.05
13 24 0.13
14 71 0.39
15 43 0.23
16 22 0.12
17 4 0.02
18 11 0.06
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (15 bp):
ATTATATATATATAT
Found at i:201953 original size:18 final size:18
Alignment explanation
Indices: 201930--202166 Score: 96
Period size: 18 Copynumber: 12.4 Consensus size: 18
201920 TTATATAGTA
201930 TATATATTATAATTATAT
1 TATATATTATAATTATAT
*
201948 TATATAGTAT-A-TATAT
1 TATATATTATAATTATAT
* *
201964 TATATTTTATATATGTATGT
1 TATATATTATA-AT-TATAT
* *
201984 TTTGTTATTATAATTATATTT
1 TAT-ATATTATAATTATA--T
*
202005 TCTATAGTTAT-ATATATAT
1 TATATA-TTATAAT-TATAT
202024 ATATATATATATATATATATAT
1 -TATATAT-TATA-AT-TATAT
* *
202046 ATATATATT-T-TTTTTAGT
1 -TATATATTATAATTATA-T
202064 TATATTATATATAATATATAT
1 TATA-TAT-TATAAT-TATAT
* *
202085 TATATAATATTA-TATAAT
1 TATATATTATAATTAT-AT
202103 TATATATTAT-A-TATTAT
1 TATATATTATAATTA-TAT
* *
202120 TATTTATTA-AACATATAT
1 TATATATTATAA-TTATAT
*
202138 TATGTATTATATAGTTATAGT
1 TATATATTATA-A-TTATA-T
202159 TATATATT
1 TATATATT
202167 TTAGGGTGAT
Statistics
Matches: 169, Mismatches: 23, Indels: 51
0.70 0.09 0.21
Matches are distributed among these distances:
16 13 0.08
17 25 0.15
18 38 0.22
19 13 0.08
20 29 0.17
21 32 0.19
22 19 0.11
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.56
Consensus pattern (18 bp):
TATATATTATAATTATAT
Found at i:202778 original size:5 final size:5
Alignment explanation
Indices: 202768--202792 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
202758 CATTTATACA
202768 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
202793 TCTCTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:204955 original size:66 final size:66
Alignment explanation
Indices: 204875--205007 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 66
204865 AAATAAACTT
*
204875 ATCCTAGTGATTAAAGGAATCAGGTGATTAAACGTTCATTGTCAAACGGTTAAGAGTACTTAGAA
1 ATCCTAGTGATTAAAAGAATCAGGTGATTAAACGTTCATTGTCAAACGGTTAAGAGTACTTAGAA
204940 C
66 C
* * *
204941 ATCCTAGT-AGTTAAAAGAATCAGGTGATTGAGCGTTCATTGTCAAATGGTTAAGAGTACTTAGA
1 ATCCTAGTGA-TTAAAAGAATCAGGTGATTAAACGTTCATTGTCAAACGGTTAAGAGTACTTAGA
205005 AC
65 AC
205007 A
1 A
205008 GATACTACTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 61 0.98
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (66 bp):
ATCCTAGTGATTAAAAGAATCAGGTGATTAAACGTTCATTGTCAAACGGTTAAGAGTACTTAGAA
C
Found at i:206232 original size:28 final size:28
Alignment explanation
Indices: 206201--206254 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
206191 GTCACAACCC
206201 AATTTA-AAGAAATTATAATAAAATTTAA
1 AATTTAGAAGAAATT-TAATAAAATTTAA
* *
206229 AATTTAGAAGCAATTTAATGAAATTT
1 AATTTAGAAGAAATTTAATAAAATTT
206255 GGGGATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (28 bp):
AATTTAGAAGAAATTTAATAAAATTTAA
Found at i:207155 original size:14 final size:14
Alignment explanation
Indices: 207136--207184 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
207126 ACCCGAACCA
207136 AGTCAAATCATCCG
1 AGTCAAATCATCCG
* *
207150 AGTCAACTCATCTG
1 AGTCAAATCATCCG
*
207164 AGTCTAAT-AGTCCG
1 AGTCAAATCA-TCCG
207178 AGTCAAA
1 AGTCAAA
207185 CTGTTGACTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 1 0.04
14 27 0.96
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (14 bp):
AGTCAAATCATCCG
Found at i:207210 original size:13 final size:13
Alignment explanation
Indices: 207187--207224 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
207177 GAGTCAAACT
207187 GTTGACTTTGACC
1 GTTGACTTTGACC
207200 GTT-AGCTTTGACC
1 GTTGA-CTTTGACC
207213 GTTGACTTTGAC
1 GTTGACTTTGAC
207225 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:214964 original size:31 final size:29
Alignment explanation
Indices: 214926--214997 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
214916 GGGGGTTACA
**
214926 TTAACCCTTAAATTTTAAATAGAATACTAAT
1 TTAACCC-TAAAAGTTAAATA-AATACTAAT
* *
214957 TTAACCCTAAAAGTTAGATAAATATTAAT
1 TTAACCCTAAAAGTTAAATAAATACTAAT
214986 TTAACCCCTAAA
1 TTAA-CCCTAAA
214998 CTATATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 12 0.33
30 17 0.47
31 7 0.19
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (29 bp):
TTAACCCTAAAAGTTAAATAAATACTAAT
Found at i:215008 original size:30 final size:29
Alignment explanation
Indices: 214948--215012 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
214938 TTTTAAATAG
* *
214948 AATACTAATTTAACCCTAAAAGTTAGATA
1 AATATTAATTTAACCCTAAAACTTAGATA
*
214977 AATATTAATTTAACCCCT-AAACTATATATA
1 AATATTAATTTAA-CCCTAAAACT-TAGATA
215007 AATATT
1 AATATT
215013 TATCTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (29 bp):
AATATTAATTTAACCCTAAAACTTAGATA
Found at i:216778 original size:54 final size:55
Alignment explanation
Indices: 216681--216879 Score: 334
Period size: 54 Copynumber: 3.7 Consensus size: 55
216671 AAGAGAGCAA
216681 CAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCAT
1 CAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCAT
* *
216736 CAGGGCTAATCTTGAT-CAAAAATAAAACTAAATCATAATAGAATAAGAGG-CAT
1 CAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCAT
*
216789 CAGGGTTAATCTTGATAAAAAAATAAAACT-AATCATAATATAATAAGAGGCCAT
1 CAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCAT
*
216843 CAGGGTTAATCTTGAT-CAAAAATAAAACTAAATCATA
1 CAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATA
216880 TAGCATTCAT
Statistics
Matches: 135, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
53 49 0.36
54 71 0.53
55 15 0.11
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.25
Consensus pattern (55 bp):
CAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCAT
Found at i:216845 original size:107 final size:109
Alignment explanation
Indices: 216670--216879 Score: 379
Period size: 107 Copynumber: 1.9 Consensus size: 109
216660 TTGAATTTTT
216670 TAAGAGAGCAACAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCA
1 TAAGAGAGCAACAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCA
216735 TCAGGGCTAATCTTGATCAAAAATAAAACTAAATCATAATAGAA
66 TCAGGGCTAATCTTGATCAAAAATAAAACTAAATCATAATAGAA
* *
216779 TAAGAG-GCATCAGGGTTAATCTTGATAAAAAAATAAAACT-AATCATAATATAATAAGAGGCCA
1 TAAGAGAGCAACAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCA
*
216842 TCAGGGTTAATCTTGATCAAAAATAAAACTAAATCATA
66 TCAGGGCTAATCTTGATCAAAAATAAAACTAAATCATA
216880 TAGCATTCAT
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
107 59 0.60
108 33 0.34
109 6 0.06
ACGTcount: A:0.50, C:0.12, G:0.14, T:0.24
Consensus pattern (109 bp):
TAAGAGAGCAACAGGGTTAATCTTGATAAAAAAATAAAACTAAATCATAATAGAATAAGAGGCCA
TCAGGGCTAATCTTGATCAAAAATAAAACTAAATCATAATAGAA
Found at i:226195 original size:177 final size:178
Alignment explanation
Indices: 225899--226254 Score: 705
Period size: 177 Copynumber: 2.0 Consensus size: 178
225889 GTTTACTCTT
225899 TGGTCCCAAATCATTACTCTAACATAAAATTCAACATTCCGCAATTAATATTTAACATTGAATAC
1 TGGTCCCAAATCATTACTCTAACATAAAATTCAACATTCCGCAATTAATATTTAACATTGAATAC
225964 CCCAATTTACACATTCATACATCAATATTTCAAAATTCTCAAAACTTAAAAATAACCCTTTTTCT
66 CCCAATTTACACATTCATACATCAATATTTCAAAATTCTCAAAACTTAAAAATAACCCTTTTTCT
226029 ATTTCAAGCTTCCAATTTGATCCAAATCAATCTCCAAAACATG-AGAA
131 ATTTCAAGCTTCCAATTTGATCCAAATCAATCTCCAAAACATGTAGAA
226076 TGGTCCCAAATCATTACTCTAACATAAAATTCAACATTCCGCAATTAATATTTAACATTGAATAC
1 TGGTCCCAAATCATTACTCTAACATAAAATTCAACATTCCGCAATTAATATTTAACATTGAATAC
226141 CCCAATTTACACATTCATACATCAATATTTCAAAATTCTCAAAACTTAAAAATAACCCTTTTTCT
66 CCCAATTTACACATTCATACATCAATATTTCAAAATTCTCAAAACTTAAAAATAACCCTTTTTCT
226206 ATTTCAAGCTTCCAATTTGATCCAAATCAATCTCCAAAACATGTAGAA
131 ATTTCAAGCTTCCAATTTGATCCAAATCAATCTCCAAAACATGTAGAA
226254 T
1 T
226255 ACTTATAATA
Statistics
Matches: 178, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
177 173 0.97
178 5 0.03
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (178 bp):
TGGTCCCAAATCATTACTCTAACATAAAATTCAACATTCCGCAATTAATATTTAACATTGAATAC
CCCAATTTACACATTCATACATCAATATTTCAAAATTCTCAAAACTTAAAAATAACCCTTTTTCT
ATTTCAAGCTTCCAATTTGATCCAAATCAATCTCCAAAACATGTAGAA
Found at i:228628 original size:21 final size:20
Alignment explanation
Indices: 228573--228624 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
228563 ATTGAATATT
*
228573 TGTCCCGAAGGACA--ACTA
1 TGTCCCGAAGGACACTAATA
*
228591 TGTTCCGAAGGATCACTAATA
1 TGTCCCGAAGGA-CACTAATA
228612 TGTCCCGAAGGAC
1 TGTCCCGAAGGAC
228625 CACTGATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 11 0.39
19 2 0.07
20 1 0.04
21 14 0.50
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (20 bp):
TGTCCCGAAGGACACTAATA
Found at i:229292 original size:64 final size:64
Alignment explanation
Indices: 229204--229341 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 64
229194 CCCTTGACGG
*
229204 GTGCATCGATGCACTATCTATGCATCGGTACA-TAA-ATCCAATTCGATGTTTGTATTTT-AAGG
1 GTGCATCGATGCACTATCTATGCATCGATACACTAATA-CC-ATTCGATGTTTGTATTTTAAAGG
*
229266 G
64 A
* * * *
229267 GATGCATCGATGCACTA-CTTGTGCATCGATACACTGATAGCATTCGATGTTTTTATTTTAAAGG
1 G-TGCATCGATGCACTATC-TATGCATCGATACACTAATACCATTCGATGTTTGTATTTTAAAGG
229331 A
64 A
229332 GTGCATCGAT
1 GTGCATCGAT
229342 ACACCTTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
63 2 0.03
64 53 0.83
65 8 0.12
66 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (64 bp):
GTGCATCGATGCACTATCTATGCATCGATACACTAATACCATTCGATGTTTGTATTTTAAAGGA
Found at i:229473 original size:21 final size:21
Alignment explanation
Indices: 229376--229466 Score: 173
Period size: 21 Copynumber: 4.3 Consensus size: 21
229366 TTACCCTTGA
229376 TGCATCGGTACACATTGAATG
1 TGCATCGGTACACATTGAATG
229397 TGCATCGGTACACATTGAATG
1 TGCATCGGTACACATTGAATG
229418 TGCATCGGTACACATTGAATG
1 TGCATCGGTACACATTGAATG
*
229439 TGTATCGGTACACATTGAATG
1 TGCATCGGTACACATTGAATG
229460 TGCATCG
1 TGCATCG
229467 ATGCACAGAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (21 bp):
TGCATCGGTACACATTGAATG
Found at i:234615 original size:16 final size:16
Alignment explanation
Indices: 234594--234631 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
234584 CTCCAGAGGG
234594 TGCCTGATCTCTACTC
1 TGCCTGATCTCTACTC
234610 TGCCTGATCTCTACTC
1 TGCCTGATCTCTACTC
234626 TGCCTG
1 TGCCTG
234632 GCCAGGGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.11, C:0.37, G:0.16, T:0.37
Consensus pattern (16 bp):
TGCCTGATCTCTACTC
Found at i:235525 original size:21 final size:18
Alignment explanation
Indices: 235485--235556 Score: 99
Period size: 18 Copynumber: 3.8 Consensus size: 18
235475 TGAATATTTA
235485 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
235503 TCCCGAAGGACCACTGATATG
1 TCCCGAAGGACCAC---TATG
*
235524 TCTCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
*
235542 TCCTGAAGGACCACT
1 TCCCGAAGGACCACT
235557 GATAATCCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 31 0.65
21 17 0.35
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Done.