Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003171.1 Hibiscus syriacus cultivar Beakdansim tig00006668_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: 166663
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:1199 original size:21 final size:21
Alignment explanation
Indices: 1174--1218 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1164 TCGTTGTCAA
1174 CATCCCCGGATTCAATGACAT
1 CATCCCCGGATTCAATGACAT
* * *
1195 CATCCCTGGATTCTATGCCAT
1 CATCCCCGGATTCAATGACAT
1216 CAT
1 CAT
1219 TCGATTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.29
Consensus pattern (21 bp):
CATCCCCGGATTCAATGACAT
Found at i:7816 original size:2 final size:2
Alignment explanation
Indices: 7809--7865 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
7799 CTCTTAAAAG
7809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7851 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
7866 AAAATTATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20282 original size:33 final size:34
Alignment explanation
Indices: 20217--20283 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
20207 TGTAATGGGG
* *
20217 AAAGGTTCTAGTTTAGCCTGTGAAAAGCTAGGGA
1 AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
* *
20251 AAAGGTTCTAGTTTATCCCGT-AAAAATTAGGGA
1 AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
20284 GTTGTAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 10 0.34
34 19 0.66
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (34 bp):
AAAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
Found at i:21618 original size:23 final size:23
Alignment explanation
Indices: 21575--21624 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
21565 ATAAATAACC
* *
21575 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATA
*
21598 AAAATAAAGTCTAAACA-ACCATA
1 AAAATAAACT-TAAACATACCATA
21621 AAAA
1 AAAA
21625 CAACCACCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATA
Found at i:22771 original size:10 final size:10
Alignment explanation
Indices: 22756--22794 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
22746 ACTTACTACA
22756 CTTTTTTTTT
1 CTTTTTTTTT
**
22766 CTTTTTTTCA
1 CTTTTTTTTT
22776 CTTTTTTTTT
1 CTTTTTTTTT
22786 CCTTTTTTT
1 -CTTTTTTT
22795 ACGTTGTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:22777 original size:20 final size:21
Alignment explanation
Indices: 22754--22794 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
22744 TCACTTACTA
22754 CACTTTTTTTTT-CTTTTTTT
1 CACTTTTTTTTTCCTTTTTTT
22774 CACTTTTTTTTTCCTTTTTTT
1 CACTTTTTTTTTCCTTTTTTT
22795 ACGTTGTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
CACTTTTTTTTTCCTTTTTTT
Found at i:31683 original size:41 final size:41
Alignment explanation
Indices: 31638--31892 Score: 226
Period size: 41 Copynumber: 6.2 Consensus size: 41
31628 TAACAGAGTA
* * * *
31638 GTACTTTAGCGACGTTTTTATACAAACGCCGCTAAAGACTC
1 GTACTTTAGCGGCATTTTTATACAAACGCCGCTATAGACTT
* *
31679 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTT
1 GTACTTTAGCGGCATTTTTATACAAACGCCGCTATAGACTT
** * * *
31720 GTACTTTAGTTGCATTTTTATAAAAACGCCGCTATACAATT
1 GTACTTTAGCGGCATTTTTATACAAACGCCGCTATAGACTT
* * * * * * *
31761 ATACTTTAGTGGCGTTTGTGTTTATAAACGCCGCTAAAGACTA
1 GTACTTTAGCGGCATTT-T-TATACAAACGCCGCTATAGACTT
* * *
31804 GTACATTAGCGGCATTTATATAC-AACTGCCGCTATACACTT
1 GTACTTTAGCGGCATTTTTATACAAAC-GCCGCTATAGACTT
* * * **
31845 GTA-TGTTAGCGACATTTTTATACGAACGCCACTATAGACCC
1 GTACT-TTAGCGGCATTTTTATACAAACGCCGCTATAGACTT
31886 GTACTTT
1 GTACTTT
31893 GTGGCGTTTG
Statistics
Matches: 173, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
40 3 0.02
41 135 0.78
42 5 0.03
43 30 0.17
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (41 bp):
GTACTTTAGCGGCATTTTTATACAAACGCCGCTATAGACTT
Found at i:31835 original size:84 final size:82
Alignment explanation
Indices: 31680--31841 Score: 209
Period size: 84 Copynumber: 2.0 Consensus size: 82
31670 TAAAGACTCG
* * * ** *
31680 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTTGCATTTTTATAAAA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATAAAA
31745 ACGCCGCTATACAATTA
66 ACGCCGCTATACAATTA
* *
31762 TACTTTAGTGGCGTTTGTGTTTATAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATAT-A
1 TACTTTAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATAA
*
31826 CAACTGCCGCTATACA
64 AAAC-GCCGCTATACA
31842 CTTGTATGTT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 16 0.24
83 5 0.07
84 47 0.69
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (82 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATAAAA
ACGCCGCTATACAATTA
Found at i:31835 original size:125 final size:124
Alignment explanation
Indices: 31658--31918 Score: 312
Period size: 125 Copynumber: 2.1 Consensus size: 124
31648 GACGTTTTTA
* * * * * *
31658 TACAAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTA
1 TACAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATACAAACGCCGCTATACACTTGTA
* * ** *
31723 CT-TTAGTTG-CATTTTTATAAAAACGCCGCTATACAATTATACTTTAGTGGCGTTTGTGTT
66 -TGTTAG-CGACATTTTTATAAAAACGCCACTATACAACCATACTTT-GTGGCGTTTGAGTT
*
31783 TATAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATAC-AACTGCCGCTATACACTTGT
1 TACAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATACAAAC-GCCGCTATACACTTGT
** * * *
31847 ATGTTAGCGACATTTTTATACGAACGCCACTATAGACCCGTACTTTGTGGCGTTTGAGTT
65 ATGTTAGCGACATTTTTATAAAAACGCCACTATACAACCATACTTTGTGGCGTTTGAGTT
31907 TACAAACGCCGC
1 TACAAACGCCGC
31919 AATTTTATAA
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
124 29 0.25
125 86 0.75
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (124 bp):
TACAAACGCCGCTAAAGACTAGTACATTAGCGGCATTTATATACAAACGCCGCTATACACTTGTA
TGTTAGCGACATTTTTATAAAAACGCCACTATACAACCATACTTTGTGGCGTTTGAGTT
Found at i:32176 original size:33 final size:33
Alignment explanation
Indices: 32132--32204 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
32122 TTTTGATTTT
* *
32132 GATTTTAATTTCGTGGCTTTGTGTTCTGCTTTG
1 GATTTTGATTTCGTGGCTTTGGGTTCTGCTTTG
32165 GATTTTGATTTCGTGGCTTTGGGTTCTGCTTTG
1 GATTTTGATTTCGTGGCTTTGGGTTCTGCTTTG
32198 GATTTTG
1 GATTTTG
32205 TATAGTGGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.08, C:0.11, G:0.27, T:0.53
Consensus pattern (33 bp):
GATTTTGATTTCGTGGCTTTGGGTTCTGCTTTG
Found at i:35118 original size:43 final size:43
Alignment explanation
Indices: 35047--35355 Score: 351
Period size: 43 Copynumber: 7.2 Consensus size: 43
35037 ATGGTGATTA
* * *
35047 GCGGCGTTTGTATCCAAAAATGCTGCTATAGATCTGACTTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
*
35090 GCGGCGTTTGTAT-CAAAACACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGTATCCAAAA-ACGCCGCTATAGATCTGACCTTTT
* * * *
35133 ACGGCGTTTGTATCCAAAAACACCTCTATAGATCTGTCCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
* * *
35176 -CTGGCGTTTGT-TACAAAAATGCCGCTATAGATCTAACCTTTT
1 GC-GGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
* * *
35218 GCGGCGTTTG-CTCAAAAAACGCCGCTATAGATCTCATCCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGA-CCTTTT
* * *
35261 GCGGCGTTTGTATCCAGAAATGCCGCAATAGATCTGACCTTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
** *
35304 GCGGCGTTT-T-TAAAACAAACGCCGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTATCCAA-AAACGCCGCTATAGATC-TGACCTTTT
35347 GCGGCGTTT
1 GCGGCGTTT
35356 TTATTTTACA
Statistics
Matches: 226, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.01
42 76 0.34
43 123 0.54
44 25 0.11
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:35292 original size:128 final size:128
Alignment explanation
Indices: 35047--35355 Score: 399
Period size: 128 Copynumber: 2.4 Consensus size: 128
35037 ATGGTGATTA
* * *
35047 GCGGCGTTTGTATCCAAAAATGCTGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAACACG
1 GCGGCGTTTGT-TACAAAAATGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAAAACG
* * * *
35112 CCGCTATAGATATGACCTTTTACGGCGTTTGTATCCAAAAACACCTCTATAGATCTGTCCTTTT
65 CCGCTATAGATATCACCTTTTACGGCGTTTGTATCCAAAAACACCGCAATAGATCTGACCTTTT
* * *
35176 -CTGGCGTTTGTTACAAAAATGCCGCTATAGATCTAACCTTTTGCGGCGTTTG-CTCAAAAAACG
1 GC-GGCGTTTGTTACAAAAATGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAAAACG
* * * **
35239 CCGCTATAGATCTCATCCTTTTGCGGCGTTTGTATCCAGAAATGCCGCAATAGATCTGACCTTTT
65 CCGCTATAGATATCA-CCTTTTACGGCGTTTGTATCCAAAAACACCGCAATAGATCTGACCTTTT
* *
35304 GCGGCGTTT-TTAAAACAAACGCCGCTATAGATCTTGACTTTTTGCGGCGTTT
1 GCGGCGTTTGTTACAA-AAATGCCGCTATAGATC-TGACTTTTTGCGGCGTTT
35356 TTATTTTACA
Statistics
Matches: 156, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
127 27 0.17
128 103 0.66
129 26 0.17
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (128 bp):
GCGGCGTTTGTTACAAAAATGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAAAACGC
CGCTATAGATATCACCTTTTACGGCGTTTGTATCCAAAAACACCGCAATAGATCTGACCTTTT
Found at i:35801 original size:2 final size:2
Alignment explanation
Indices: 35794--35862 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
35784 AAAGATTGTC
35794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35836 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
35863 GCTTGATCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36373 original size:39 final size:38
Alignment explanation
Indices: 36264--36376 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 38
36254 TTAAATTTTG
36264 AACGGGTACTAAAATGAAACAAAAACTAAAATTTTTAAC
1 AACGGGTACTAAAATGAAACAAAAACT-AAATTTTTAAC
* * * * *
36303 AACAGAGTACTAAAATAAAATAAAAGCTAAATGTTTTAAT
1 AAC-GGGTACTAAAATGAAACAAAAACTAAAT-TTTTAAC
** * *
36343 GGCGGGTACTAAAATGAAGCAAAAAATAAATTTT
1 AACGGGTACTAAAATGAAACAAAAACTAAATTTT
36377 AGGTGCAATT
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
38 3 0.05
39 29 0.49
40 27 0.46
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (38 bp):
AACGGGTACTAAAATGAAACAAAAACTAAATTTTTAAC
Found at i:40820 original size:30 final size:30
Alignment explanation
Indices: 40781--40840 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
40771 ATGCCTTCTC
** *
40781 AAAGACGTCATGTAATTCTGACGTCTTCCA
1 AAAGACGTCAAATAATTCAGACGTCTTCCA
* *
40811 AAAGTCGTCAAATAATTCAGGCGTCTTCCA
1 AAAGACGTCAAATAATTCAGACGTCTTCCA
40841 TAGTGTATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAGACGTCAAATAATTCAGACGTCTTCCA
Found at i:42226 original size:16 final size:16
Alignment explanation
Indices: 42194--42228 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
42184 AAGTGTCACT
* *
42194 CCTCAAAAGTGCTACC
1 CCTCAAAAGTACCACC
42210 CCTCAAAAGTACCACC
1 CCTCAAAAGTACCACC
42226 CCT
1 CCT
42229 GAGGCTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.43, G:0.09, T:0.17
Consensus pattern (16 bp):
CCTCAAAAGTACCACC
Found at i:54245 original size:209 final size:208
Alignment explanation
Indices: 53864--54281 Score: 811
Period size: 209 Copynumber: 2.0 Consensus size: 208
53854 ACAAATCATC
53864 CAAACAAAAGAAGATTCAAAGGAAAATGTAAATTACCTGAGTTTGCATGAATTTTGAATCGATGG
1 CAAACAAAAGAAGATTCAAAGGAAAATGTAAATTACCTGAGTTTGCATGAATTTTGAATCGATGG
53929 AGCCTGGTGGTATTGGAAGTGAGCACAAGGGAAAGCTGATGGGGATGATGAACACTTGGGTAAGA
66 AGCCTGGTGGTATTGGAAGTGAGCACAAGGGAAAGCTGATGGGGATGATGAACACTTGGGTAAGA
53994 GAGGAATCTGAGTAGTAAGAGAGGAAGAGATAGACACTTTGGCTGCCATTTTTTGTGAAC-AATT
131 GAGGAATCTGAGTAGTAAGAGAGGAAGAGATAGACACTTTGGCTGCCATTTTTTGTGAACAAATT
54058 TCAGCTATCTGTG
196 TCAGCTATCTGTG
54071 CAAACAAAAGAAGATTCAAAGGAAAATGTAAATTACCTGAGTTTGCATGAATTTTGAATCGATGG
1 CAAACAAAAGAAGATTCAAAGGAAAATGTAAATTACCTGAGTTTGCATGAATTTTGAATCGATGG
54136 AGCCTGGTGGTATTGGAAGTGAGAGCACAAGGGAAAGCTGATGGGGATGATGAACACTTGGGTAA
66 AGCCTGGTGGTATTGGAAGT--GAGCACAAGGGAAAGCTGATGGGGATGATGAACACTTGGGTAA
54201 GAGAGGAATCTGAGTAGTAAGAGAGGAAGAGATAGACACTTTGGCTGCCATTTTTTGTGAACAAA
129 GAGAGGAATCTGAGTAGTAAGAGAGGAAGAGATAGACACTTTGGCTGCCATTTTTTGTGAACAAA
54266 TTTCAGCTATCTGTG
194 TTTCAGCTATCTGTG
54281 C
1 C
54282 TTGAGTATCA
Statistics
Matches: 208, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
207 85 0.41
209 105 0.50
210 18 0.09
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (208 bp):
CAAACAAAAGAAGATTCAAAGGAAAATGTAAATTACCTGAGTTTGCATGAATTTTGAATCGATGG
AGCCTGGTGGTATTGGAAGTGAGCACAAGGGAAAGCTGATGGGGATGATGAACACTTGGGTAAGA
GAGGAATCTGAGTAGTAAGAGAGGAAGAGATAGACACTTTGGCTGCCATTTTTTGTGAACAAATT
TCAGCTATCTGTG
Found at i:55413 original size:231 final size:231
Alignment explanation
Indices: 54489--55432 Score: 1388
Period size: 231 Copynumber: 4.0 Consensus size: 231
54479 AAGTAAGGGT
*
54489 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAATCATTAAATTTT
1 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAATCATTAAAATTT
*
54554 AACATAGAGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
66 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
*
54619 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAACCTAGAGGTG
131 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
* *
54684 ATACGTGCCAATACATGGTCATGGCACATGTCTTTA
196 ATACGTGACAATACATGGTCATGACACATGTCTTTA
* *
54720 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAGTCGTTAAAATTT
1 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAATCATTAAAATTT
*
54785 AACGTA-GGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
66 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
* *
54849 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTAAATCTAAAGGTG
131 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
54914 ATACGTGACAATACATGGTCATGACACATGTCTTTA
196 ATACGTGACAATACATGGTCATGACACATGTCTTTA
* * * * ** *
54950 GTGCCACCACCTAATTTGAGGTTGAAC-TTAAATTTAAGGTGGCTTTAAACTTGGTGTATTATTT
1 -----A--A-ATTATTTGA--ATGACCATCCAA-TT-A------TTTATA--T--TGTATTATTT
*
55014 AAGTCACTTATCATTAAAATTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTAC
44 AAGTCACTAATCATTAAAATTTAACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTAC
55079 ACATTTGATTCTCAATACTTGTATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAA
109 ACATTTGATTCTCAATACTTGTATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAA
* * * *
55144 TTAACCCTTCAATCTAGAGGTGATACATGCCGATACATGATCATGACACATGTCTTTA
174 TTAACCCTTCAATCTAGAGGTGATACGTGACAATACATGGTCATGACACATGTCTTTA
* * ** *
55202 AAATTATTTGAATGACTATCCAATTATTTATATTGTATTATTTAAGTCATTTGTCGTTAAAATTT
1 AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAATCATTAAAATTT
* * *
55267 AATATAGGGTGGTGTGGCAATCAATATAAATTTGTATAACTACACATTTGATTCTCAATACTTGT
66 AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
*
55332 ATATTCTATTAACTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
131 ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
*
55397 ATATGTGACAATACATGGTCATGACACATGTCTTTA
196 ATACGTGACAATACATGGTCATGACACATGTCTTTA
55433 GTGTCACCAC
Statistics
Matches: 642, Mismatches: 47, Indels: 48
0.87 0.06 0.07
Matches are distributed among these distances:
230 153 0.24
231 253 0.39
233 1 0.00
235 6 0.01
237 1 0.00
238 7 0.01
239 3 0.00
240 6 0.01
241 2 0.00
242 5 0.01
243 3 0.00
244 7 0.01
245 1 0.00
247 6 0.01
249 1 0.00
251 34 0.05
252 153 0.24
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (231 bp):
AAATTATTTGAATGACCATCCAATTATTTATATTGTATTATTTAAGTCACTAATCATTAAAATTT
AACATAGGGTGGTGTGGCAATCAACATAAATTTGTATAATTACACATTTGATTCTCAATACTTGT
ATATTCTATTAATTTAATCCTAATTTAAATTTAATTTTATAAATTAACCCTTCAATCTAGAGGTG
ATACGTGACAATACATGGTCATGACACATGTCTTTA
Found at i:55695 original size:20 final size:21
Alignment explanation
Indices: 55658--55699 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
55648 GTTTAATATT
*
55658 TTATTTTTAACACCAAATTTA
1 TTATTTTTAACACAAAATTTA
*
55679 TTATTTTTAA-ATAAAATTTA
1 TTATTTTTAACACAAAATTTA
55699 T
1 T
55700 GAAAGAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTTTTAACACAAAATTTA
Found at i:55782 original size:23 final size:25
Alignment explanation
Indices: 55733--55783 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
55723 ATAAAAATAT
*
55733 TTTTATAAATTTTAAAAAATTATAA
1 TTTTATAAATTTTAAAAAATTAGAA
* *
55758 TTTTAT-ATTTTTAAATAATT-GAA
1 TTTTATAAATTTTAAAAAATTAGAA
55781 TTT
1 TTT
55784 AATGTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTATAAATTTTAAAAAATTAGAA
Found at i:56029 original size:24 final size:24
Alignment explanation
Indices: 55997--56045 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
55987 TTTTAAAATA
*
55997 TAAAATTATAAAATTAATTTTATT
1 TAAAATTATAAAACTAATTTTATT
* *
56021 TAAATTTATAAAACTATTTTTATT
1 TAAAATTATAAAACTAATTTTATT
56045 T
1 T
56046 TTATATTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAATTATAAAACTAATTTTATT
Found at i:58358 original size:23 final size:23
Alignment explanation
Indices: 58332--58395 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
58322 ATGCGAGATA
58332 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
58355 GATACCTATTACA-TATATAAGG
1 GATACCTATTACATTATATAAAC
* *
58377 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
58396 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 19 0.53
23 17 0.47
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:58812 original size:23 final size:23
Alignment explanation
Indices: 58749--58820 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
58739 ACACTTTACA
* *
58749 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
58772 ATATAAACG-AACCTATTACATT
1 ATATAAACGCTACCTATTACATT
** *
58794 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
58817 ATAT
1 ATAT
58821 GTTTACCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.46
23 22 0.54
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:59423 original size:30 final size:29
Alignment explanation
Indices: 59383--59449 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
59373 TCATTTGCAC
* * *
59383 AAAAAATTATTT-GATTGTTTTATATTTTAT
1 AAAATATTATTTAGAAT-TTTTA-ATTTAAT
59413 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
59442 AATAATAT
1 AA-AATAT
59450 ATACCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:59444 original size:420 final size:428
Alignment explanation
Indices: 58334--59755 Score: 2585
Period size: 424 Copynumber: 3.4 Consensus size: 428
58324 GCGAGATAGA
58334 TACCTATTACATTATATAAACGATACCTATTACATATATAAGGGCTACCTATTACATCATATGTT
1 TACCTATTACATTATATAAACGATACCTATTACATATATAAGGGCTACCTATTACATCATATGTT
*
58399 TACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
66 TACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
58464 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTT-CACCTACAATATTGATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
58528 TTTCATTTGCACAAAAAATTATTTGA-TGTTTTTATATTTTATAAAATA-TATTTAGAATTTTAA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
58591 TTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTAT-ATTACTAAATTAA
261 TTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
58655 TATCTTAAAACTC-CTCAAAAGATAAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
326 TATCTTAAAACTCACTCAAAAGAT-AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
58719 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAC
390 CACTTTTAT-AAAAGGATAGACACTTTACAATATAACCAC
58759 TACCTATTACATTATATAAACGA-ACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACA-TATATAAGGGCTACCTATTACATCATATGT
58823 TTACCTATTTTATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
65 TTACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
58887 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCA-CTACAATA-TGATTTAATA
130 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
58950 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
195 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
*
59015 ATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTT
260 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
59078 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
325 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
59143 CAC-TTTATAAAAGGATAGACACTTTACAA-ATAACCAC
390 CACTTTTATAAAAGGATAGACACTTTACAATATAACCAC
59180 TACCTATTACATTATATAAACGATACCTATTACAT-TATAAGGGCTACCTATTAC-TCATATGTT
1 TACCTATTACATTATATAAACGATACCTATTACATATATAAGGGCTACCTATTACATCATATGTT
59243 TACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTAT
66 TACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
59307 GTAATTTA-GTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
59371 TTTCATTTGCACAAAAAATTATTTGATTG-TTTTATATTTTATAAAATATTATTTAGAATTTTTA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAA-TTTTA
59435 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACG-CTATAATTACTAAATTA
260 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
59499 ATTATCTT-AAACTCACTCAAAAGATAACCTTAAATTAATGTTTT-CACAGTGAAAAAAGTATGG
325 A-TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
59562 ACACTTTTATAAAAGGATAGACACTTTACAATATAACCAC
389 ACACTTTTATAAAAGGATAGACACTTTACAATATAACCAC
59602 TACCTATTACATTATATAAACGATACCTA-T---TATATAAGGGCTACCTATTACATC--ATGTT
1 TACCTATTACATTATATAAACGATACCTATTACATATATAAGGGCTACCTATTACATCATATGTT
59661 TACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAC-TAT
66 TACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
59725 GTAATTTATGTTTCAATTTTTTTAACAGTGT
131 GTAATTTATGTTTCAATTTTTTTAACAGTGT
59756 ATGCGAATTT
Statistics
Matches: 974, Mismatches: 3, Indels: 46
0.95 0.00 0.04
Matches are distributed among these distances:
418 101 0.10
419 148 0.15
420 120 0.12
421 113 0.12
422 108 0.11
423 81 0.08
424 187 0.19
425 116 0.12
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (428 bp):
TACCTATTACATTATATAAACGATACCTATTACATATATAAGGGCTACCTATTACATCATATGTT
TACCTATTTTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
TTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
ACTTTTATAAAAGGATAGACACTTTACAATATAACCAC
Found at i:62453 original size:181 final size:184
Alignment explanation
Indices: 62132--62604 Score: 857
Period size: 181 Copynumber: 2.6 Consensus size: 184
62122 TTTTAAATGG
* *
62132 TATGGACAT--AGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
62195 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
62260 GATGTATAAAATGTCGACAC-TTTTTAAATCGTATCGACACA-TTTTC-TCCAA
131 AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
62311 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
62376 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
62441 AATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
62495 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
62560 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
62605 TTATTAATAT
Statistics
Matches: 283, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
179 9 0.03
181 134 0.47
182 20 0.07
183 5 0.02
184 115 0.41
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
AATGTATAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:64076 original size:3 final size:3
Alignment explanation
Indices: 64068--64154 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
64058 ACTTGTTTGG
* * * **
64068 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
64116 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
64155 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:64091 original size:18 final size:18
Alignment explanation
Indices: 64068--64169 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
64058 ACTTGTTTGG
64068 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
64086 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
64104 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
64122 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
64140 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
64158 AGCTTCATCTTC
1 ATCATCATCTTC
64170 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:64135 original size:42 final size:42
Alignment explanation
Indices: 64076--64166 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
64066 GGATCATCAT
*
64076 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
64118 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
64160 CTTCATC
1 CTTCATC
64167 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:66215 original size:198 final size:198
Alignment explanation
Indices: 65616--67016 Score: 2457
Period size: 198 Copynumber: 7.1 Consensus size: 198
65606 TTTAAATTTG
* *
65616 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
65681 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65746 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCA-TCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTTAATTCATTCTGGAAAA
65808 AAAA
195 AAAA
65812 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
65877 ATTGTACC-GTTAGATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65940 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTTAATTCATTCTGGAAAA
66004 AAAA
195 AAAA
* *
66008 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
66073 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
66138 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACATGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTGTTTTTAATTCATTCTGGAAAAA
66203 AAA
196 AAA
* *
66206 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
66271 ATTGTA-CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66334 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCT-TGTTTTAATTCATTCTGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTGT-TTTTAATTCATTCTGGAAA
66398 AAAAA
194 AAAAA
66403 TATCGACACAAACTATA-T--TGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
66465 ATTGTACCGGTTAGATTG-AAAATTACAGATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66528 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTGTTTTT-ATTCATTCTGGAAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTGTTTTTAATTCATTCTGGAAAA
66592 AAAA
195 AAAA
66596 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
66661 ATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
66726 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCT-TGTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTGT-TTTTAATTCATTCTGGAAAA
66790 AAAA
195 AAAA
66794 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
66859 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66922 CGACACTTTTT-TATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTTAATTCATTCTGGAAAA
66985 AAAA
195 AAAA
*
66989 TATCGACACAAACTATA-TAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
67017 TGACCCTTAA
Statistics
Matches: 1168, Mismatches: 17, Indels: 42
0.95 0.01 0.03
Matches are distributed among these distances:
193 50 0.04
194 216 0.18
195 113 0.10
196 248 0.21
197 255 0.22
198 258 0.22
199 28 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTGTTTTTAATTCATTCTGGAAAAA
AAA
Found at i:66427 original size:392 final size:394
Alignment explanation
Indices: 65616--67016 Score: 2474
Period size: 392 Copynumber: 3.6 Consensus size: 394
65606 TTTAAATTTG
65616 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATATATTA-TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65681 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65746 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCA-TCTGG-AAA
129 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
65808 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
* * *
65873 TATAATTGTACCGTTAGATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGG
259 TATAATTGTACGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGG
65937 GATCGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGA
324 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGA
66001 AAAAAAA
388 AAAAAAA
66008 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATATATTA-TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66073 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
66138 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CATGTTTTTAATTCATTCTGGAAAA
129 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
* *
66202 AAAATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
66267 TATAATTGTACGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGA-TTTGG
259 TATAATTGTACGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGG
66331 GATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGA
324 GATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGA
66396 AAAAAAA
388 AAAAAAA
* *
66403 TATCGACACAAACTATA-T-TGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
1 TATCGACACAAAATATATTATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
* *
66466 TTGTACCGGTTAGATTGAAAATTACAGATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCG
66 TTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
66530 ACACTTTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTT-ATTCATTCTGGAAAAA
131 ACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
66593 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
66658 ATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTA-CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGG
* *
66723 GATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTGGAA
324 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGAA
66788 AAAAAA
389 AAAAAA
* *
66794 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATATATTA-TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66859 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGATC
65 ATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66923 GACACTTTTT-TATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
130 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
*
66986 AAATATCGACACAAACTATA-TAGTATCGACA
195 AAATATCGACACAAACTATATTAGTGTCGACA
67017 TGACCCTTAA
Statistics
Matches: 975, Mismatches: 18, Indels: 32
0.95 0.02 0.03
Matches are distributed among these distances:
390 117 0.12
391 200 0.21
392 257 0.26
393 78 0.08
394 222 0.23
395 69 0.07
396 32 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (394 bp):
TATCGACACAAAATATATTATGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAA
TTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
ACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGAAAA
AAAA
Found at i:66734 original size:588 final size:590
Alignment explanation
Indices: 65616--67016 Score: 2504
Period size: 588 Copynumber: 2.4 Consensus size: 590
65606 TTTAAATTTG
65616 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
65681 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
65746 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCA-TCTGG-AAA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
65808 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATA-TA-TGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
* *
65873 TATAATTGTACCGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTCGATGATTTTGGG
258 TATAATTGTACCGTTAGATTAAAAAATTACAGATTACATTATACTTTGGGTTCGATGATTTTGGG
65938 ATCGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
323 ATCGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
66003 AAAAATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
388 AAAAATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
*
66068 GTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
453 GTATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTT
*
66133 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACA-TGTTTTTAATTCATTCTG
518 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACATTG-TTTTAATTCATTCTG
66197 GAAAAAAAA
582 GAAAAAAAA
66206 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
66271 ATTGTA-CGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66335 GACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGAAAA
131 GACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
66399 AAAATATCGACACAAACTATAT-TGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
195 AAAATATCGACACAAACTATATATGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
*
66463 TAATTGTACCGGTTAGATT-GAAAATTACAGATTACATTATACTTTGGGTTCGATGATTTTGGGA
260 TAATTGTACC-GTTAGATTAAAAAATTACAGATTACATTATACTTTGGGTTCGATGATTTTGGGA
66527 TCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACC-TGTTTTT-ATTCATTCTGGAA
324 TCGACAC-TTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAA
* *
66590 AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACC
387 AAAAAATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
*
66655 GGTATAATTGTACCGGTTAGATTGAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTT
452 GGTATAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTT
* *
66720 TGGGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTAATTCATTCTG
517 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACATTGTTTTAATTCATTCTG
66785 GAAAAAAAA
582 GAAAAAAAA
* *
66794 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
66859 ATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66923 GACACTTTTT-TATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
*
66986 AAATATCGACACAAACTATATAGTATCGACA
196 AAATATCGACACAAACTATATA-TGTCGACA
67017 TGACCCTTAA
Statistics
Matches: 784, Mismatches: 15, Indels: 26
0.95 0.02 0.03
Matches are distributed among these distances:
585 16 0.02
586 57 0.07
587 5 0.01
588 449 0.57
589 90 0.11
590 143 0.18
591 24 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (590 bp):
TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
AAATATCGACACAAACTATATATGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTAT
AATTGTACCGTTAGATTAAAAAATTACAGATTACATTATACTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAA
AATATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTAAAAAATTACAGATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGATGCACATTGTTTTAATTCATTCTGGAAA
AAAAA
Found at i:67126 original size:18 final size:18
Alignment explanation
Indices: 67105--67139 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67095 AAAAAATATA
67105 AATCGTATACAAAATTAT
1 AATCGTATACAAAATTAT
*
67123 AATCTTATACAAAATTA
1 AATCGTATACAAAATTA
67140 ACTCGACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (18 bp):
AATCGTATACAAAATTAT
Found at i:71072 original size:24 final size:24
Alignment explanation
Indices: 71035--71087 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
71025 CCGTTCTATC
71035 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
71059 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
71083 TATTT
1 TATTT
71088 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:71279 original size:20 final size:19
Alignment explanation
Indices: 71232--71279 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
71222 TCCGGTATCA
*
71232 TTTTACCCGTTTTTATCATT
1 TTTTA-CCGGTTTTATCATT
*
71252 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
71273 TTTTACC
1 TTTTACC
71280 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:71427 original size:20 final size:20
Alignment explanation
Indices: 71401--71446 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
71391 CACTTTTAAA
71401 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
71420 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
71441 TTTACC
1 TTTACC
71447 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:73181 original size:22 final size:23
Alignment explanation
Indices: 73147--73200 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
73137 ATTCTAAGAA
73147 AATATA-TTA-ATTTTTATAAAT
1 AATATATTTATATTTTTATAAAT
73168 -ATATATTTATATTTTTATAAAT
1 AATATATTTATATTTTTATAAAT
*
73190 AAGATATTTAT
1 AATATATTTAT
73201 TTACTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.17
21 3 0.10
22 12 0.41
23 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AATATATTTATATTTTTATAAAT
Found at i:73285 original size:11 final size:11
Alignment explanation
Indices: 73257--73292 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
73247 TTCTTTTCTT
73257 AATATTAA-AA
1 AATATTAATAA
73267 AATA--AATAA
1 AATATTAATAA
73276 AATATTAATAA
1 AATATTAATAA
73287 AATATT
1 AATATT
73293 TCTCTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
8 2 0.09
9 6 0.26
10 4 0.17
11 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AATATTAATAA
Found at i:73339 original size:138 final size:136
Alignment explanation
Indices: 73192--73493 Score: 350
Period size: 133 Copynumber: 2.2 Consensus size: 136
73182 TTATAAATAA
* * * *
73192 GATATTTATTTACTTAGAAATATCAAAAAAATG-ACTTCTAGTTGCTTTAGGACAGTTCTTTTCT
1 GATATTTATTTA-TTA-AAATATC-AAAAAATGAACATCTAGTTACTTTAAGACAG-TCATTTCT
*** *
73256 TAATATTAAAAAATAAATAAAATATTAATAAAATATTT-CTCTAAAA-ATAATAAATATATATAA
62 TAATATTAAAAAATAAAT--AATATTAATAAAATATTTAAAATAAAATAAAAT-AATATATATAA
*
73319 TTTATATAA-TAT
124 TTTATAAAAGTAT
* * * *
73331 -TTATTTATTTA--AAAATATCAGAAAATGAACATCTAGTTATTTTAAGACTGTCATTTCTTAAT
1 GATATTTATTTATTAAAATATCAAAAAATGAACATCTAGTTACTTTAAGACAGTCATTTCTTAAT
73393 ATTAAAAAATAAATAATATTAATAAAATATTTAAAATAAAATAAAATAATATATATAATTTATAA
66 ATTAAAAAATAAATAATATTAATAAAATATTTAAAATAAAATAAAATAATATATATAATTTATAA
73458 AAGTAT
131 AAGTAT
* *
73464 GATATTTATTTATTTAAA-ATCAGAAAATGA
1 GATATTTATTTATTAAAATATCAAAAAATGA
73494 CAAGACAACC
Statistics
Matches: 141, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
131 18 0.13
132 24 0.17
133 39 0.28
134 34 0.24
135 13 0.09
136 3 0.02
138 10 0.07
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (136 bp):
GATATTTATTTATTAAAATATCAAAAAATGAACATCTAGTTACTTTAAGACAGTCATTTCTTAAT
ATTAAAAAATAAATAATATTAATAAAATATTTAAAATAAAATAAAATAATATATATAATTTATAA
AAGTAT
Found at i:73407 original size:133 final size:133
Alignment explanation
Indices: 73188--73493 Score: 352
Period size: 134 Copynumber: 2.3 Consensus size: 133
73178 ATTTTTATAA
* * * * * * * *
73188 ATAAGATATTTATTTACTTAGAAATATCAAAAAAATG-ACTTCTAGTTGCTTTAGGACAGTTCTT
1 ATAAAATATTTATTTATTTAAAAATATC-AGAAAATGAACATCTAGTTACTTTAAGACAGTTCAT
*** *
73252 TTCTTAATATTAAAAAATAAATAAAATATTAATAAAATATTT-CTCTAAAA-ATAATAAATATAT
65 TTCTTAATATTAAAAAATAAAT--AATATTAATAAAATATTTAAAATAAAATAAAAT-AATATAT
73315 ATAATTT
127 ATAATTT
* * *
73322 ATATAATATTTATTTATTTAAAAATATCAGAAAATGAACATCTAGTTATTTTAAGACTG-TCATT
1 ATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCTAGTTACTTTAAGACAGTTCATT
73386 TCTTAATATTAAAAAATAAATAATATTAATAAAATATTTAAAATAAAATAAAATAATATATATAA
66 TCTTAATATTAAAAAATAAATAATATTAATAAAATATTTAAAATAAAATAAAATAATATATATAA
73451 TTT
131 TTT
* *
73454 ATAAAAGTATGATATTTATTTATTTAAA-ATCAGAAAATGA
1 ATAAAA-TAT-TTATTTATTTA--AAAATATCAGAAAATGA
73494 CAAGACAACC
Statistics
Matches: 147, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
131 18 0.12
132 24 0.16
133 39 0.27
134 51 0.35
135 12 0.08
136 3 0.02
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (133 bp):
ATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCTAGTTACTTTAAGACAGTTCATT
TCTTAATATTAAAAAATAAATAATATTAATAAAATATTTAAAATAAAATAAAATAATATATATAA
TTT
Found at i:75268 original size:122 final size:123
Alignment explanation
Indices: 75035--75377 Score: 521
Period size: 123 Copynumber: 2.8 Consensus size: 123
75025 CTATAGTGAT
* * * *
75035 GAATCAAGC-TAAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAATT
1 GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
** * *
75099 CTTCTCATTATGAACTTTATCTGGAAATGTTGGTGCTGATATATCTCCTTCT-GGATA
66 CTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATATATCTCCTTCTGGGATA
* * **
75156 GAGTCAAGCAAAATGTTGAACAAGTTTCTTCTCATTATGAGTTTCTTC-TCCTCTTCAGATGAGT
1 GAATCAAGCAAAAGGTTGAACAAG-TTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGT
*
75220 TCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATTTATCTCCTTCTGGGATA
65 TCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATATATCTCCTTCTGGGATA
*
75279 GAATCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
1 GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
*
75344 CTTCTCATTATTAACTTCCTCTGGAAATGTTGAT
66 CTTCTCATTATGAACTTCCTCTGGAAATGTTGAT
75378 CCATCGAGTG
Statistics
Matches: 199, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
121 8 0.04
122 94 0.47
123 97 0.49
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (123 bp):
GAATCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTT
CTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATATATCTCCTTCTGGGATA
Found at i:75487 original size:37 final size:36
Alignment explanation
Indices: 75416--75542 Score: 128
Period size: 36 Copynumber: 3.5 Consensus size: 36
75406 AATGAAACTG
* ** * *
75416 TCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGTTTCAAGAAAAACAA
* ** *
75452 TCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACAG
1 TCTCAAGTGAGATAAATT-TTGTTTCAAGAAAAACAA
* * * *
75489 TCTCAAGCGAGATAAAGTTTGTTTTAAGAAAAATAA
1 TCTCAAGTGAGATAAATTTTGTTTCAAGAAAAACAA
75525 TCTCAAGTGAGATAAATT
1 TCTCAAGTGAGATAAATT
75543 ACTATTTGAA
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
36 42 0.59
37 29 0.41
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAGAAAAACAA
Found at i:75511 original size:73 final size:73
Alignment explanation
Indices: 75399--75542 Score: 218
Period size: 73 Copynumber: 2.0 Consensus size: 73
75389 TGGAAATTTC
* * *
75399 TGTTTCTAATGAAACTGTCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAATGAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
75464 TAAATTGT
66 TAAATTGT
* * *
75472 TGTTTCGAGTGAAACAGTCTCAAGCGAGATAAAGT-TTGTTTTAAGAAAAATAATCTCAAGTGAG
1 TGTTTCGAATGAAACAGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAATCTCAAGTGAG
75536 ATAAATT
65 ATAAATT
75543 ACTATTTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 63 0.98
74 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (73 bp):
TGTTTCGAATGAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
TAAATTGT
Found at i:76292 original size:22 final size:22
Alignment explanation
Indices: 76237--76293 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
76227 AATAAAGTTT
* *
76237 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
76259 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
76281 TCATCTTTGAAGA
1 TCATCTTTGAAGA
76294 ATGTAGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:76747 original size:54 final size:54
Alignment explanation
Indices: 76662--76765 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
76652 TAATTGGTTC
* *
76662 GTAAAACATTTGACAACACATTCATTATTTCCTGTGGTTTCTGCACAGATGTTT
1 GTAAAACATTTGACAACACATTCATTATTTCCTATGGCTTCTGCACAGATGTTT
* *
76716 GTAAAACATTTGACAGCACATTCATCT-TTTCCTATGGCTTCTGCCCAGAT
1 GTAAAACATTTGACAACACATTCAT-TATTTCCTATGGCTTCTGCACAGAT
76766 TTCTCATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATTATTTCCTATGGCTTCTGCACAGATGTTT
Found at i:79518 original size:17 final size:17
Alignment explanation
Indices: 79493--79531 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
79483 CTTGATTCAA
*
79493 TTTTCTTTTCTTTTCTC
1 TTTTTTTTTCTTTTCTC
*
79510 TTTTTTTTTCTTTTTTC
1 TTTTTTTTTCTTTTCTC
79527 TTTTT
1 TTTTT
79532 CCTTTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTCTTTTCTC
Found at i:79530 original size:24 final size:25
Alignment explanation
Indices: 79498--79556 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
79488 TTCAATTTTC
79498 TTTTC-TTTTCTCTTTTTT-TTTCTT
1 TTTTCTTTTTC-CTTTTTTGTTTCTT
*
79522 TTTTCTTTTTCCTTTTTTGTTTTTT
1 TTTTCTTTTTCCTTTTTTGTTTCTT
*
79547 TTTTGTTTTT
1 TTTTCTTTTT
79557 TTTGTCTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (25 bp):
TTTTCTTTTTCCTTTTTTGTTTCTT
Found at i:79537 original size:12 final size:13
Alignment explanation
Indices: 79496--79537 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
79486 GATTCAATTT
79496 TCTTTTC-TTTTC
1 TCTTTTCTTTTTC
79508 TCTTTT-TTTTTC
1 TCTTTTCTTTTTC
*
79520 TTTTTTCTTTTTC
1 TCTTTTCTTTTTC
79533 -CTTTT
1 TCTTTT
79538 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TCTTTTCTTTTTC
Found at i:79538 original size:7 final size:7
Alignment explanation
Indices: 79513--79559 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
79503 TTTTCTCTTT
79513 TTTTTTC
1 TTTTTTC
79520 TTTTTTC
1 TTTTTTC
*
79527 TTTTTCC
1 TTTTTTC
*
79534 TTTTTTG
1 TTTTTTC
79541 TTTTTT-
1 TTTTTTC
79547 TTTTGTT-
1 TTTT-TTC
79554 TTTTTT
1 TTTTTT
79560 GTCTGATGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (7 bp):
TTTTTTC
Found at i:81541 original size:19 final size:19
Alignment explanation
Indices: 81512--81560 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
81502 AAGCAAACAT
81512 AAAAGTACAAATGCTAAATG
1 AAAA-TACAAATGCTAAATG
*
81532 AAAATACAAATGCTAACTG
1 AAAATACAAATGCTAAATG
*
81551 AAAATGCAAA
1 AAAATACAAA
81561 GATGCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (19 bp):
AAAATACAAATGCTAAATG
Found at i:81718 original size:43 final size:44
Alignment explanation
Indices: 81654--81740 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
81644 CGGTGCATCA
* *
81654 AACAAAACTTTTACATGTAGGGGACAACTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
81698 AACAAAAC-TTTACATATAGGGGATAACTTTCTCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
81741 TCTAAATCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 31 0.79
44 8 0.21
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:82930 original size:123 final size:123
Alignment explanation
Indices: 82758--83445 Score: 629
Period size: 123 Copynumber: 5.4 Consensus size: 123
82748 GTTGAATAAG
* * * *
82758 TTCTTCATTTTCAGATGAGTTCTTCTTATTATGAAC-TCTATCTGGAAATGTTGATGCTGATTTA
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTC-CTCTGGAAATGTTGATGCTGATTTA
* * *
82822 TCTCCTTCTGAGATAGAATCGAGAAAAAGGTTGAATAAGTTCTTCTCATTATGAAATTC
65 TCTCCTTCTGTGATAGAATCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
* * * *
82881 TTCTTCCTCTTCAGATGAGTTTTTCTCATTATGAACTTCCTCTTGAAATGCTGATCCTCAAAAGA
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCT-----GA
** * *** * ** ** *
82946 GGTGTCGTTGATATGTGAT-GAATTAAG-GCAAGGTTGAACAAGTTCTTCTCATTAAGAACTTC
61 TTTATC-TCCTTCTGTGATAGAATCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
* * * ** *
83008 CTCTTTCTCTTCAGACGAGTTCTTCTCATTATGAAC-T-CTCTAAAAATGTTGATCCTCAAGGGA
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCT-----GA
* * * *
83071 GGTTCT-TCTTTCATTCAACTCT-ATAG-GT-GATGAATCAAGCTAAGGTCGAACAAGTTCTTCT
61 --TT-TATC--TCCTT---CTGTGATAGAATCGA-G-A--AA---AAGGTTGAACAAGTTCTTCT
83132 CATTATGAACTTC
111 CATTATGAACTTC
* * ** * *
83145 TTCTTCCTCTTCAGATAAATTCTTCTCATTATGAACTTTATCTGGAAATGTTGGTGCTGATATAT
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATTTAT
* * * * **
83210 CTCCTTCTGTGATAGAGTCAAGCAAAATGTTGAACAAGTTCTTCTCATTATGAGTTTC
66 CTCCTTCTGTGATAGAATCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
*
83268 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTAATTTAT
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATTTAT
* *
83333 CTCCTTCTGGGATAGAATCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
66 CTCCTTCTGTGATAGAATCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
*
83391 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATTAACTTCCTCTGGAAATGTTGAT
1 TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGAT
83446 CCATCGAGTG
Statistics
Matches: 457, Mismatches: 79, Indels: 58
0.77 0.13 0.10
Matches are distributed among these distances:
123 240 0.53
124 2 0.00
125 21 0.05
126 3 0.01
127 67 0.15
128 18 0.04
129 11 0.02
130 9 0.02
131 4 0.01
132 3 0.01
134 2 0.00
137 62 0.14
138 1 0.00
139 14 0.03
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (123 bp):
TTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATTTAT
CTCCTTCTGTGATAGAATCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
Found at i:83555 original size:37 final size:36
Alignment explanation
Indices: 83484--83610 Score: 128
Period size: 36 Copynumber: 3.5 Consensus size: 36
83474 AATGAAACTG
* ** * *
83484 TCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGTTTCAAGAAAAACAA
* ** *
83520 TCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACAG
1 TCTCAAGTGAGATAAATT-TTGTTTCAAGAAAAACAA
* * * *
83557 TCTCAAGCGAGATAAAGTTTGTTTTAAGAAAAATAA
1 TCTCAAGTGAGATAAATTTTGTTTCAAGAAAAACAA
83593 TCTCAAGTGAGATAAATT
1 TCTCAAGTGAGATAAATT
83611 ACTATTTGAA
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
36 42 0.59
37 29 0.41
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTCAAGTGAGATAAATTTTGTTTCAAGAAAAACAA
Found at i:83579 original size:73 final size:73
Alignment explanation
Indices: 83467--83610 Score: 218
Period size: 73 Copynumber: 2.0 Consensus size: 73
83457 TGGAAATTTC
* * *
83467 TGTTTCTAATGAAACTGTCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
1 TGTTTCGAATGAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
83532 TAAATTGT
66 TAAATTGT
* * *
83540 TGTTTCGAGTGAAACAGTCTCAAGCGAGATAAAGT-TTGTTTTAAGAAAAATAATCTCAAGTGAG
1 TGTTTCGAATGAAACAGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAATCTCAAGTGAG
83604 ATAAATT
65 ATAAATT
83611 ACTATTTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 63 0.98
74 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (73 bp):
TGTTTCGAATGAAACAGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAGA
TAAATTGT
Found at i:84361 original size:22 final size:22
Alignment explanation
Indices: 84306--84362 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
84296 AATAAAGTTT
* *
84306 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
84328 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
84350 TCATCTTTGAAGA
1 TCATCTTTGAAGA
84363 ATGTAGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:84816 original size:54 final size:54
Alignment explanation
Indices: 84731--84834 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
84721 TAATTGGTTC
* *
84731 GTAAAACATTTGACAACACATTCATTATTTCCTGTGGTTTCTGCACAGATGTTT
1 GTAAAACATTTGACAACACATTCATTATTTCCTATGGCTTCTGCACAGATGTTT
* *
84785 GTAAAACATTTGACATCACATTCATCT-TTTCCTATGGCTTCTGCCCAGAT
1 GTAAAACATTTGACAACACATTCAT-TATTTCCTATGGCTTCTGCACAGAT
84835 TTCTCATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATTATTTCCTATGGCTTCTGCACAGATGTTT
Found at i:87598 original size:7 final size:7
Alignment explanation
Indices: 87583--87643 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
87573 TTCAATTTTC
87583 TTTTCTT
1 TTTTCTT
*
87590 TTCTCTT
1 TTTTCTT
87597 TTTTCTT
1 TTTTCTT
87604 TTTTCTT
1 TTTTCTT
*
87611 TTTCCTT
1 TTTTCTT
87618 TTTT-TGT
1 TTTTCT-T
87625 TTTT-TT
1 TTTTCTT
*
87631 TTTTTTT
1 TTTTCTT
87638 TTTTCT
1 TTTTCT
87644 GATGAATGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
6 6 0.13
7 41 0.87
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:87620 original size:14 final size:13
Alignment explanation
Indices: 87578--87643 Score: 62
Period size: 13 Copynumber: 4.9 Consensus size: 13
87568 CTTGATTCAA
87578 TTTTC-TTTTCTT
1 TTTTCTTTTTCTT
*
87590 TTCTCTTTTTTCTT
1 TTTTC-TTTTTCTT
87604 TTTTCTTTTTCCTTT
1 TTTTCTTTTT-C-TT
* *
87619 TTTTGTTTTTTTT
1 TTTTCTTTTTCTT
*
87632 TTTTTTTTTTCT
1 TTTTCTTTTTCT
87644 GATGAATGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 4 0.09
13 17 0.39
14 12 0.27
15 11 0.25
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.85
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:89626 original size:19 final size:19
Alignment explanation
Indices: 89597--89645 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
89587 AAGCAAACAT
89597 AAAAGTACAAATGCTAAATG
1 AAAA-TACAAATGCTAAATG
*
89617 AAAATACAAATGCTAACTG
1 AAAATACAAATGCTAAATG
*
89636 AAAATGCAAA
1 AAAATACAAA
89646 GATGCAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (19 bp):
AAAATACAAATGCTAAATG
Found at i:89803 original size:43 final size:44
Alignment explanation
Indices: 89739--89825 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
89729 CGGTGCATCA
* * *
89739 AACAAAACTTTTACATGTAGGGGACAGCTTTCAGTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
* *
89783 AACAAAAC-TTTACATATAGGGGATAACTTTCTCTCCTAACTTC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
89826 TCTAAATCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 30 0.79
44 8 0.21
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTTC
Found at i:90351 original size:36 final size:36
Alignment explanation
Indices: 90281--90352 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
90271 TCTTATCGTA
* * *
90281 GAATGCTTTTGGTATCAATCGAACATGATATTTGTG
1 GAATACTTTTGGTATCAATAGAACAGGATATTTGTG
* *
90317 GAATACTTTTGGTATCAATATAACAGGATCTTTGTG
1 GAATACTTTTGGTATCAATAGAACAGGATATTTGTG
90353 TGCATAGCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (36 bp):
GAATACTTTTGGTATCAATAGAACAGGATATTTGTG
Found at i:91735 original size:22 final size:23
Alignment explanation
Indices: 91701--91754 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
91691 ATTCCAAGAA
91701 AATATA-TTA-ATTTTTATAAAT
1 AATATATTTATATTTTTATAAAT
91722 -ATATATTTATATTTTTATAAAT
1 AATATATTTATATTTTTATAAAT
*
91744 AAGATATTTAT
1 AATATATTTAT
91755 TTACTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 5 0.17
21 3 0.10
22 12 0.41
23 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
AATATATTTATATTTTTATAAAT
Found at i:91905 original size:138 final size:138
Alignment explanation
Indices: 91715--92109 Score: 523
Period size: 138 Copynumber: 2.8 Consensus size: 138
91705 TATTAATTTT
* * * *
91715 TATAAATATATATTTATATTTTTATAAA-TAAGATATTTATTTACTTAGAAATATCAGAAAAAGA
1 TATAAATATATA--TA-ATTTATA-AAAGTAGGATATTTATTTATTTAAAAATATCAGAAAAAGA
*
91779 CTTCTAGTTGCTTTAAGACATCCCGTTTCTTAATATTAAAAAATAAATAAATATTAATAAAACAT
62 CTTCTAGTTGCTTTAAGACATCCC-TTTCTTAATATTTAAAAATAAATAAATATTAATAAAACAT
****
91844 TTCTCTAAAA-AA
126 TAAAATAAAATAA
*
91856 TATAAATATATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCA-AACAAATGACA
1 TATAAATATATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCAGAA-AAA-GACT
* * *
91920 TCTACTTACTTTAAGA-ATGCCCTTTCTTAATATTTAAAAATAAATAAATATTAATAAAATATTA
64 TCTAGTTGCTTTAAGACAT-CCCTTTCTTAATATTTAAAAATAAATAAATATTAATAAAACATTA
91984 AAATAAAATAA
128 AAATAAAATAA
* *
91995 -ATTAATATATATAATTTATAAAAGTAGGATATTTATTTATTT-AAAATATCAGAAAATGACTTC
1 TATAAATATATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCAGAAAAAGACTTC
*
92058 TAGTTGCTTTAAGACAACCCCTTTCTTAATATTTAAAAATAAATAAATATTA
66 TAGTTGCTTTAAGAC-ATCCCTTTCTTAATATTTAAAAATAAATAAATATTA
92110 TTATTTAATC
Statistics
Matches: 227, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
136 17 0.07
137 50 0.22
138 124 0.55
139 24 0.11
141 12 0.05
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (138 bp):
TATAAATATATATAATTTATAAAAGTAGGATATTTATTTATTTAAAAATATCAGAAAAAGACTTC
TAGTTGCTTTAAGACATCCCTTTCTTAATATTTAAAAATAAATAAATATTAATAAAACATTAAAA
TAAAATAA
Found at i:99434 original size:16 final size:17
Alignment explanation
Indices: 99413--99445 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
99403 TTACTGTTCA
99413 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
99429 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
99446 TTTCGGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:104866 original size:58 final size:58
Alignment explanation
Indices: 104804--104918 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
104794 ACAACTATAA
*
104804 TAATAAATTATTTAAAATAAATCAA-TCTATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATTC-ATACAACTACAATAATAAAGCAATCCATAC
104862 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAAGCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAAGCAATCCATA
104919 TTTTAAAATA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 53 0.96
59 2 0.04
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (58 bp):
TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAAGCAATCCATAC
Found at i:104918 original size:26 final size:26
Alignment explanation
Indices: 104819--104918 Score: 94
Period size: 26 Copynumber: 3.6 Consensus size: 26
104809 AATTATTTAA
*
104819 AATAAATCAATCTATACAACTACAAT
1 AATAAATCAATCCATACAACTACAAT
*
104845 AATAAATCAATCCATACTAA-TAAATTATTT
1 AATAAATCAATCCATAC-AACTACA--A--T
*
104875 AAAATAAATCAATTCATACAACTACAAT
1 --AATAAATCAATCCATACAACTACAAT
*
104903 AATAAAGCAATCCATA
1 AATAAATCAATCCATA
104919 TTTTAAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
26 33 0.55
27 2 0.03
28 2 0.03
30 2 0.03
31 2 0.03
32 19 0.32
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (26 bp):
AATAAATCAATCCATACAACTACAAT
Found at i:104968 original size:54 final size:54
Alignment explanation
Indices: 104903--105017 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
104893 CAACTACAAT
* *
104903 AATAAAGCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
104957 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
105011 AATAAAT
1 AATAAAT
105018 TATTTTAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:104978 original size:22 final size:22
Alignment explanation
Indices: 104952--104994 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
104942 TAATAAATTA
104952 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
104974 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
104995 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:105026 original size:15 final size:15
Alignment explanation
Indices: 104997--105099 Score: 118
Period size: 15 Copynumber: 6.5 Consensus size: 15
104987 AATCCATACT
104997 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
105011 AATAAATTATTTTAAAATA
1 AATAAATTATTTT---A-A
*
105030 AATAAATCTATATTTTAT
1 AATAAA--T-TATTTTAA
*
105048 AATAAATTATTTTAT
1 AATAAATTATTTTAA
105063 AATAAATTATTTTAA
1 AATAAATTATTTTAA
105078 AATAAATTATTTTAA
1 AATAAATTATTTTAA
105093 AATAAAT
1 AATAAAT
105100 AACCTTATTA
Statistics
Matches: 79, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
14 9 0.11
15 47 0.59
16 1 0.01
18 7 0.09
19 8 0.10
21 1 0.01
22 6 0.08
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:105043 original size:69 final size:67
Alignment explanation
Indices: 104943--105101 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
104933 AATCTATACT
*
104943 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATAAATCCATATTTTAAAATAAAT-AAT-CATA-TAATAAATTAT
105006 TTTAA
63 TTTAA
* * * **
105011 AATAAATTATTTTAAAATAAATAAATCTATATTTTATAATAAATTATTTTATAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATAAATCCATATTTTAAAATAAATAATCATATAATAAATTATTTT
105076 AA
66 AA
105078 AATAAATTATTTTAAAATAAATAA
1 AATAAATTATTTTAAAATAAATAA
105102 CCTTATTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
66 10 0.12
67 31 0.37
68 11 0.13
69 31 0.37
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATAAATCCATATTTTAAAATAAATAATCATATAATAAATTATTTT
AA
Found at i:105046 original size:22 final size:22
Alignment explanation
Indices: 104952--105054 Score: 80
Period size: 22 Copynumber: 4.5 Consensus size: 22
104942 TAATAAATTA
*
104952 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATAAATCCATAT
*
104974 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATAAATCCATA-T
** * ** **
104997 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-AAATCCA-TAT
*
105021 TTTAAAATAAATAAATCTATAT
1 TTTAAAATAAATAAATCCATAT
*
105043 TTTATAATAAAT
1 TTTAAAATAAAT
105055 TATTTTATAA
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
22 35 0.56
23 13 0.21
24 12 0.19
25 2 0.03
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:108898 original size:14 final size:15
Alignment explanation
Indices: 108879--108912 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
108869 ATGACTTAAG
108879 ATAATAAT-AAAAAA
1 ATAATAATGAAAAAA
*
108893 ATAATAATGAAAATA
1 ATAATAATGAAAAAA
108908 ATAAT
1 ATAAT
108913 TTAAACTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
ATAATAATGAAAAAA
Found at i:108907 original size:12 final size:12
Alignment explanation
Indices: 108881--108969 Score: 58
Period size: 12 Copynumber: 7.4 Consensus size: 12
108871 GACTTAAGAT
108881 AATAATAA-AAA
1 AATAATAATAAA
*
108892 AATAATAATGAA
1 AATAATAATAAA
*
108904 AATAATAATTTAA
1 AATAATAA-TAAA
* *
108917 ACTCAT-ATAAAA
1 AATAATAAT-AAA
108929 AATAATAATAAA
1 AATAATAATAAA
* * *
108941 ACAAAACAA-AAT
1 A-ATAATAATAAA
*
108953 AATAATAATCAA
1 AATAATAATAAA
108965 AATAA
1 AATAA
108970 AAGAAATTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
11 14 0.24
12 30 0.52
13 14 0.24
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:108976 original size:24 final size:24
Alignment explanation
Indices: 108925--108971 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
108915 AAACTCATAT
108925 AAAA-AATAATAATAAAACAAAAC
1 AAAATAATAATAATAAAACAAAAC
*
108948 AAAATAATAATAATCAAAATAAAA
1 AAAATAATAATAAT-AAAACAAAA
108972 GAAATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 9 0.43
25 8 0.38
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAATAATAATAATAAAACAAAAC
Found at i:109010 original size:17 final size:17
Alignment explanation
Indices: 108975--109022 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
108965 AATAAAAGAA
*
108975 ATTAAAA-GCAATA-AT
1 ATTAAAATGCAAAATAT
108990 ATTAAAATGCAAAATAT
1 ATTAAAATGCAAAATAT
*
109007 ATT-AAATGAAAAATAT
1 ATTAAAATGCAAAATAT
109023 CAAACTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 17 0.59
17 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTAAAATGCAAAATAT
Found at i:110239 original size:3 final size:3
Alignment explanation
Indices: 110231--110281 Score: 77
Period size: 3 Copynumber: 16.7 Consensus size: 3
110221 CTCTTTTATT
110231 TAA TAA TAA TATA TATA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110277 TAA TA
1 TAA TA
110282 TGAAAATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 37 0.80
4 7 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:110473 original size:45 final size:45
Alignment explanation
Indices: 110405--110729 Score: 501
Period size: 45 Copynumber: 7.3 Consensus size: 45
110395 GATGGAAGTG
*
110405 TTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
110450 TTGAAAACATCATGCACTGAAGGGCTT-CAGATGGCCCAAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
**
110494 TTGAAAACATCATGCACTGAAGGATTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
110539 TTGAAAACATCATGCACTTAAGGGCTTACAGATGACTCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * *
110584 TTGAAAATATTATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
110629 TTGAAAATATCATGCACTGAAGGGCTTACATATGACCCGAAGGTT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * *
110674 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGCT
1 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
110719 TTG-AAACATCA
1 TTGAAAACATCA
110730 AAAAGCTCCC
Statistics
Matches: 255, Mismatches: 24, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
44 48 0.19
45 207 0.81
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:110516 original size:25 final size:25
Alignment explanation
Indices: 110488--110561 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
110478 AGATGGCCCA
110488 AAGGTTTTGAAAACATCATGCACTG
1 AAGGTTTTGAAAACATCATGCACTG
* * *
110513 AAGGATTT----ACA-GATG-ACCCG
1 AAGGTTTTGAAAACATCATGCA-CTG
*
110533 AAGGTTTTGAAAACATCATGCACTT
1 AAGGTTTTGAAAACATCATGCACTG
110558 AAGG
1 AAGG
110562 GCTTACAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 14
0.62 0.12 0.25
Matches are distributed among these distances:
19 1 0.03
20 12 0.34
21 3 0.09
24 3 0.09
25 15 0.43
26 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (25 bp):
AAGGTTTTGAAAACATCATGCACTG
Found at i:110695 original size:25 final size:25
Alignment explanation
Indices: 110622--110696 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
110612 CAGATGACCC
*
110622 GAAGGTTTTGAAAATATCATGCACT
1 GAAGGTTTTGAAAACATCATGCACT
** *
110647 GAAGGGCTT----ACAT-ATG-ACCC
1 GAAGGTTTTGAAAACATCATGCA-CT
110667 GAAGGTTTTGAAAACATCATGCACT
1 GAAGGTTTTGAAAACATCATGCACT
110692 GAAGG
1 GAAGG
110697 ACTTACAGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 3 0.08
24 4 0.11
25 16 0.44
26 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (25 bp):
GAAGGTTTTGAAAACATCATGCACT
Found at i:110765 original size:75 final size:74
Alignment explanation
Indices: 110664--110805 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 74
110654 TTACATATGA
110664 CCCGAAGGTTTTGAAAACATCATGCACTGA-AGGACTTACAGATGACCCAAAGGCTTTGAAA-CA
1 CCCGAAGGTTTTGAAAACATCATGCACT-ACAGGACTTACAGATGACCCAAAGGCTTTGAAAGCA
110727 TCAAAAAGCT
65 TCAAAAAGCT
* * * ** * *
110737 CCCGAAGGCTTTTTGAAAATATCCTGCACTACAGGTCTTATGGATGACCCGAAGGTTTTGAAAGC
1 CCCGAAGG--TTTTGAAAACATCATGCACTACAGGACTTACAGATGACCCAAAGGCTTTGAAAGC
110802 ATCA
64 ATCA
110806 TGCACTGAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
73 8 0.14
74 1 0.02
75 44 0.76
76 5 0.09
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (74 bp):
CCCGAAGGTTTTGAAAACATCATGCACTACAGGACTTACAGATGACCCAAAGGCTTTGAAAGCAT
CAAAAAGCT
Found at i:110810 original size:45 final size:45
Alignment explanation
Indices: 110737--110844 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 45
110727 TCAAAAAGCT
* * ***
110737 CCCGAAGGCTTTTTGAAAATATCCTGCACT-ACAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGA-AGGTCTTACAAATGA
*
110784 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTTACAAATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAAATGA
*
110829 CCCGAAGGCTTTGAAA
1 CCCGAAGGTTTTGAAA
110845 CATTAAAACT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 44 0.83
46 1 0.02
47 8 0.15
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAAATGA
Found at i:110965 original size:119 final size:120
Alignment explanation
Indices: 110660--111066 Score: 645
Period size: 120 Copynumber: 3.4 Consensus size: 120
110650 GGGCTTACAT
* *
110660 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAA
* * *
110725 CATCAAAAAGCTCCCGAAGGCTTTTTGAAAATATCCTGCACTACAGGTCTTATGG
66 CATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAGGTCTTATGG
* *
110780 ATGACCCGAAGGTTTTGAAAGCATCATGCACTGAAGGTCTTACAAATGACCCGAAGGCTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAA
* ** * * *
110845 CATTAAAACTCTTCCGAAGGCTTTTTAAAAACATCTTGCACTGCATGTCTTATGG
66 CATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAGGTCTTATGG
* *
110900 ATGACCCGAA-GTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAA
* *
110964 CATCAAAAAGCTCCCAAAGGCTTTTTAAAAACATCCTACACTGCAGGTCTTATGG
66 CATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAGGTCTTATGG
*
111019 ATGACCCGAAGATTTTGAAAACATCATGCACTGAAGGTCTTACAGATG
1 ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATG
111067 TGGGAAATAA
Statistics
Matches: 260, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
119 109 0.42
120 151 0.58
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (120 bp):
ATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGCTTTGAAA
CATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCCTGCACTGCAGGTCTTATGG
Found at i:111747 original size:19 final size:19
Alignment explanation
Indices: 111720--111772 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 19
111710 AATAAAGCTT
* *
111720 ATCTCTGAAGAAATCTATC
1 ATCTTTGAAGAAATATATC
111739 ATCTTTGAAGAGAAAATATATC
1 ATCTTTG-A-AG-AAATATATC
111761 ATCTTTGAAGAA
1 ATCTTTGAAGAA
111773 TGTAGATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 8 0.28
20 3 0.10
21 3 0.10
22 15 0.52
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (19 bp):
ATCTTTGAAGAAATATATC
Found at i:111760 original size:22 final size:22
Alignment explanation
Indices: 111730--111771 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
111720 ATCTCTGAAG
*
111730 AAATCTATCATCTTTGAAGAGA
1 AAATATATCATCTTTGAAGAGA
111752 AAATATATCATCTTTGAAGA
1 AAATATATCATCTTTGAAGA
111772 ATGTAGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (22 bp):
AAATATATCATCTTTGAAGAGA
Found at i:112236 original size:54 final size:54
Alignment explanation
Indices: 112136--112246 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 54
112126 ATAATAACTG
* * *** *
112136 GTTCATAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTGCCCAGAT
1 GTTCATAAAACATTTAACAACACATTCATCATCTCATATAACTTCTGCACAGAT
* * * *
112190 GTTCGTAAAGCATTTAACAACACATTCATCATTTCCTATAACTTCTGCACAGAT
1 GTTCATAAAACATTTAACAACACATTCATCATCTCATATAACTTCTGCACAGAT
112244 GTT
1 GTT
112247 TTGGTCAGGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (54 bp):
GTTCATAAAACATTTAACAACACATTCATCATCTCATATAACTTCTGCACAGAT
Found at i:113215 original size:75 final size:75
Alignment explanation
Indices: 113081--113234 Score: 182
Period size: 75 Copynumber: 2.1 Consensus size: 75
113071 CATACCCTAC
* * * * * * * *
113081 CATTTGCTGATACAAGCGTTCAAAATGCGTCAACATTCTTTATTCTTATTGAAAGGGGCTTTCAA
1 CATTGGCTAATACAAACGTTCAAAATACGTCAACATTCCTGATTATGATTGAAAGGGGCTTTCAA
113146 CATGCTCCAG
66 CATGCTCCAG
* * * *
113156 CATTGGCTAATACAAACGTTCAAAATATGTCAATATTCCTGATTATGATTGAAATGGGCTTTCAG
1 CATTGGCTAATACAAACGTTCAAAATACGTCAACATTCCTGATTATGATTGAAAGGGGCTTTCAA
* *
113221 TATGCTCCAT
66 CATGCTCCAG
113231 CATT
1 CATT
113235 TGCTTCTTGT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (75 bp):
CATTGGCTAATACAAACGTTCAAAATACGTCAACATTCCTGATTATGATTGAAAGGGGCTTTCAA
CATGCTCCAG
Found at i:116683 original size:9 final size:9
Alignment explanation
Indices: 116669--116712 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
116659 CTTGAATCAA
116669 TTTTTTCCT
1 TTTTTTCCT
116678 TTTTTTCCT
1 TTTTTTCCT
116687 TTTTTTCC-
1 TTTTTTCCT
116695 -TTTTTCC-
1 TTTTTTCCT
116702 TTTTTTCCT
1 TTTTTTCCT
116711 TT
1 TT
116713 ATTTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 7 0.21
9 19 0.58
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:116698 original size:15 final size:15
Alignment explanation
Indices: 116669--116712 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 15
116659 CTTGAATCAA
116669 TTTTTTCCTTTTTTTCC
1 TTTTTTCC--TTTTTCC
116686 TTTTTTTCCTTTTTCC
1 -TTTTTTCCTTTTTCC
116702 TTTTTTCCTTT
1 TTTTTTCCTTT
116713 ATTTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.42
16 7 0.27
18 8 0.31
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTCCTTTTTCC
Found at i:117020 original size:2 final size:2
Alignment explanation
Indices: 117013--117050 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
117003 ACGACAAGGG
*
117013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117051 TTAAAAGGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:125970 original size:23 final size:23
Alignment explanation
Indices: 125926--125970 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
125916 ATTATTATAT
*
125926 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
125949 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
125971 AGCTGTAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:130206 original size:17 final size:16
Alignment explanation
Indices: 130165--130206 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
130155 TTTGACAAAC
*
130165 AAATAAAAATAAAATTT
1 AAATAAAAATAAAA-TA
*
130182 AATTAAAAATAAAATA
1 AAATAAAAATAAAATA
130198 AAATAAAAA
1 AAATAAAAA
130207 CATTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAAATAAAATA
Found at i:130224 original size:2 final size:2
Alignment explanation
Indices: 130219--130258 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
130209 TTAAAAAATA
*
130219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
130259 TATGAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:131138 original size:2 final size:2
Alignment explanation
Indices: 131131--131160 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
131121 ACTGGAATAA
131131 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
131161 GACTTAAGAT
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:131177 original size:3 final size:3
Alignment explanation
Indices: 131169--131239 Score: 55
Period size: 3 Copynumber: 24.7 Consensus size: 3
131159 ATGACTTAAG
* *
131169 ATA ATA ATA A-A ATA ATA ATA AT- TTA A-A CATA TATCA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A ATA ATA ATA
131214 ATA A-A ATA A-A ATA A-A ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
131240 CAAAATAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
2 10 0.18
3 40 0.73
4 4 0.07
5 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:131185 original size:11 final size:11
Alignment explanation
Indices: 131169--131238 Score: 63
Period size: 11 Copynumber: 5.9 Consensus size: 11
131159 ATGACTTAAG
131169 ATAATAATAAA
1 ATAATAATAAA
131180 ATAATAATAATTTA
1 ATAATAATAA---A
131194 A-ACATATATCAAAA
1 ATA-ATA-AT--AAA
131208 ATAATAATAAA
1 ATAATAATAAA
131219 ATAA-AATAAA
1 ATAATAATAAA
131229 ATAATAATAA
1 ATAATAATAA
131239 TCAAAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
10 10 0.20
11 22 0.44
13 3 0.06
14 10 0.20
15 3 0.06
17 2 0.04
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:131223 original size:5 final size:5
Alignment explanation
Indices: 131205--131259 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
131195 ACATATATCA
*
131205 AAAAT AATAAT AAAAT AAAAT AAAAT --AAT AATAAT CAAAAT AAATT
1 AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AA-AAT -AAAAT AAAAT
*
131251 AAATT AAAA
1 AAAAT AAAA
131260 GCAATAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.07
5 27 0.63
6 11 0.26
7 2 0.05
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (5 bp):
AAAAT
Found at i:131253 original size:25 final size:23
Alignment explanation
Indices: 131174--131254 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 23
131164 TTAAGATAAT
131174 AATAAAATAATAATAATTTAAACATA
1 AATAAAATAATAATAA--TAAA-ATA
* *
131200 TATCAAA-AATAATAATAAAATAA
1 AATAAAATAATAATAATAAAAT-A
131223 AATAAAATAATAATAATCAAAATA
1 AATAAAATAATAATAAT-AAAATA
*
131247 AATTAAAT
1 AATAAAAT
131255 TAAAAGCAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
22 2 0.04
23 10 0.21
24 17 0.36
25 13 0.28
26 5 0.11
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AATAAAATAATAATAATAAAATA
Found at i:131288 original size:17 final size:17
Alignment explanation
Indices: 131253--131300 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
131243 AATAAATTAA
*
131253 ATTAAAA-GCAATA-AT
1 ATTAAAATGCAAAATAT
131268 ATTAAAATGCAAAATAT
1 ATTAAAATGCAAAATAT
*
131285 ATT-AAATGAAAAATAT
1 ATTAAAATGCAAAATAT
131301 CAAACTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 17 0.59
17 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTAAAATGCAAAATAT
Found at i:138579 original size:24 final size:23
Alignment explanation
Indices: 138552--138599 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
138542 TTTTTGGATG
138552 AAATGAATTAACTATTTTTCATGA
1 AAAT-AATTAACTATTTTTCATGA
*
138576 AAATACTTAACTATTTTTCATGA
1 AAATAATTAACTATTTTTCATGA
138599 A
1 A
138600 TAGAGATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (23 bp):
AAATAATTAACTATTTTTCATGA
Found at i:142948 original size:18 final size:18
Alignment explanation
Indices: 142925--142959 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
142915 ACAGGGCAAC
*
142925 TCTTCTTACGTCAACTCT
1 TCTTCTTAAGTCAACTCT
142943 TCTTCTTAAGTCAACTC
1 TCTTCTTAAGTCAACTC
142960 CTCCTCCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.31, G:0.06, T:0.43
Consensus pattern (18 bp):
TCTTCTTAAGTCAACTCT
Found at i:151916 original size:18 final size:18
Alignment explanation
Indices: 151895--151939 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
151885 CTACCTTGGT
*
151895 TATCGATACTCCCTTGAG
1 TATCAATACTCCCTTGAG
151913 TATCAATACTCCCTTGAG
1 TATCAATACTCCCTTGAG
151931 TATCAATAC
1 TATCAATAC
151940 CAAAATAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (18 bp):
TATCAATACTCCCTTGAG
Found at i:159816 original size:56 final size:55
Alignment explanation
Indices: 159749--159857 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 55
159739 TAGTAACTAA
159749 AATAAAGAAAAA-GAAGAAAAAATATATAAATAA-AACAAATAAATAAAATAATAAT
1 AATAAAGAAAAATG-A-AAAAAATATATAAATAATAACAAATAAATAAAATAATAAT
* * * * *
159804 AATAAAGTAAAAATGATATATATATATATATAATAATAAATAAATAAAATAATA
1 AATAAAG-AAAAATGAAAAAAATATATAAATAATAACAAATAAATAAAATAATA
159858 TAAATATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
55 20 0.43
56 25 0.54
57 1 0.02
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.25
Consensus pattern (55 bp):
AATAAAGAAAAATGAAAAAAATATATAAATAATAACAAATAAATAAAATAATAAT
Found at i:159859 original size:34 final size:34
Alignment explanation
Indices: 159769--159910 Score: 94
Period size: 36 Copynumber: 3.9 Consensus size: 34
159759 AAGAAGAAAA
* * * *
159769 AATATATAAATAAAACAA-ATAAATA-AAATAAT
1 AATAAATAAATAAAATAATATATATATATATAAT
159801 AAT-AATAAAGTAAAAATGATATATATATATATATAAT
1 AATAAATAAA-T-AAAAT-A-ATATATATATATATAAT
*
159838 AATAAATAAATAAAATAATATAAATATATGTATAAATT
1 AATAAATAAATAAAATAATAT--ATATATATAT-AA-T
*
159876 AATAAACTGATATAATAA-AATATATAATATATATA
1 AATAAA-T-AAATAA-AATAATATAT-ATATATATA
159911 TATATATATA
Statistics
Matches: 88, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
31 5 0.06
32 4 0.05
33 4 0.05
34 5 0.06
35 2 0.02
36 20 0.23
37 12 0.14
38 16 0.18
39 8 0.09
40 10 0.11
41 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (34 bp):
AATAAATAAATAAAATAATATATATATATATAAT
Found at i:159865 original size:38 final size:39
Alignment explanation
Indices: 159775--159935 Score: 114
Period size: 41 Copynumber: 4.3 Consensus size: 39
159765 AAAAAATATA
* * *
159775 TAAATAAAACAA-ATAAATA-AAATA-ATAATAATAAAG
1 TAAATAAAATAATATAAATATATATATATAATAATAAAC
*
159811 T--A-AAAATGATAT--ATATATATATATAATAATAAA-
1 TAAATAAAATAATATAAATATATATATATAATAATAAAC
*
159844 TAAATAAAATAATATAAATATATGTATA-AATTAATAAAC
1 TAAATAAAATAATATAAATATATATATATAA-TAATAAAC
* *
159883 TGATATAATAA-AATATATAATATATATATAT-ATATATATATC
1 T-AAATAA-AATAATATA-AATATATATATATAATA-ATA-AAC
159925 TAAA-AAAATAA
1 TAAATAAAATAA
159936 AGATATATAC
Statistics
Matches: 99, Mismatches: 9, Indels: 30
0.72 0.07 0.22
Matches are distributed among these distances:
32 3 0.03
33 10 0.10
34 14 0.14
35 1 0.01
36 10 0.10
37 2 0.02
38 17 0.17
39 3 0.03
40 17 0.17
41 19 0.19
42 3 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (39 bp):
TAAATAAAATAATATAAATATATATATATAATAATAAAC
Found at i:159872 original size:22 final size:21
Alignment explanation
Indices: 159791--159914 Score: 61
Period size: 20 Copynumber: 6.1 Consensus size: 21
159781 AAACAAATAA
* *
159791 ATAAAATAATA-ATAATAAAGT
1 ATAAAATAATATA-AATATATT
* *
159812 A-AAAATGATATATATATA-T
1 ATAAAATAATATAAATATATT
*
159831 ATATAAT-A-ATAAATA-A--
1 ATAAAATAATATAAATATATT
159847 ATAAAATAATATAAATATATGT
1 ATAAAATAATATAAATATAT-T
* * *
159869 ATAAATTAATA-AACTGATATA
1 ATAAAATAATATAAAT-ATATT
159890 ATAAAAT-ATATAATATATATAT
1 ATAAAATAATATAA-ATATAT-T
159912 ATA
1 ATA
159915 TATATATATC
Statistics
Matches: 79, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
16 6 0.08
17 2 0.03
18 13 0.16
19 4 0.05
20 19 0.24
21 17 0.22
22 18 0.23
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAAAATAATATAAATATATT
Found at i:159902 original size:30 final size:30
Alignment explanation
Indices: 159767--159902 Score: 84
Period size: 30 Copynumber: 4.4 Consensus size: 30
159757 AAAAGAAGAA
*
159767 AAAATATATAAATAAA-ACAAATAAATAAAAT
1 AAAATATATAAATAAATA-AAAT-AATATAAT
159798 AATAATA-ATAAAGTAAA-AATGATATATATATATAT
1 AA-AATATATAAA-TAAATAA--A-ATA-ATATA-AT
*
159833 ATAATA-ATAAATAAATAAAATAATATAA-
1 AAAATATATAAATAAATAAAATAATATAAT
* * * * *
159861 ATATATGTATAAATTAATAAACTGATATAAT
1 A-AAATATATAAATAAATAAAATAATATAAT
159892 AAAATATATAA
1 AAAATATATAA
159903 TATATATATA
Statistics
Matches: 84, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
28 1 0.01
29 3 0.04
30 32 0.38
31 12 0.14
32 10 0.12
33 6 0.07
34 17 0.20
35 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (30 bp):
AAAATATATAAATAAATAAAATAATATAAT
Found at i:159943 original size:2 final size:2
Alignment explanation
Indices: 159819--159923 Score: 57
Period size: 2 Copynumber: 56.0 Consensus size: 2
159809 AGTAAAAATG
* * *
159819 AT AT AT AT AT AT AT AT A- AT A- AT AA AT AA AT A- AA AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
159857 AT AA AT AT AT GT AT AA AT -T A- AT AA ACT GAT AT A- AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T -AT AT AT AT AT AT AT
159897 AT AT A- 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
159924 CTAAAAAAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 22
0.68 0.12 0.19
Matches are distributed among these distances:
1 9 0.12
2 67 0.86
3 1 0.01
4 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (2 bp):
AT
Found at i:160988 original size:84 final size:84
Alignment explanation
Indices: 160865--161079 Score: 259
Period size: 84 Copynumber: 2.6 Consensus size: 84
160855 ATAATTTTAT
* * * * * * *
160865 TGACATATAGCCCTTCTTGTCTTGAGTTATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGTC
1 TGACAGATAGCCCTTCTAGACTTGAGTTACGCTGTAAATGATGTGCCTTAGAGCTGAGCATAGTC
*
160930 AAACTCGAAGGTCTTTAGT
66 AAACTCGAAGGTCTTTAGG
** * * * * *
160949 TGGTAGATAGCCCTTCTCGACTTAAGCTACGCTGCAAATGATGTCCCTTAGAGCTGAGCATAGTC
1 TGACAGATAGCCCTTCTAGACTTGAGTTACGCTGTAAATGATGTGCCTTAGAGCTGAGCATAGTC
* *
161014 GAACTCGAAGGTCTTTTGG
66 AAACTCGAAGGTCTTTAGG
* *
161033 TGACAGATAACCCTTCTAGCCTTGAGTTACGCTGTAAATGATGTGCC
1 TGACAGATAGCCCTTCTAGACTTGAGTTACGCTGTAAATGATGTGCC
161080 CTCGAAGCTG
Statistics
Matches: 106, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 106 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (84 bp):
TGACAGATAGCCCTTCTAGACTTGAGTTACGCTGTAAATGATGTGCCTTAGAGCTGAGCATAGTC
AAACTCGAAGGTCTTTAGG
Found at i:161232 original size:36 final size:35
Alignment explanation
Indices: 161181--161251 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 35
161171 AAAGGTTGAA
161181 GTTTCAAGGAAACTGTCTCAAGAGAGACAAAACTT
1 GTTTCAAGGAAACTGTCTCAAGAGAGACAAAACTT
161216 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 GTTTCAAG-GAAACTGTCTCAAGAGAGACAAAACTT
161252 CCAGAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 8 0.23
36 27 0.77
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (35 bp):
GTTTCAAGGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:161269 original size:33 final size:34
Alignment explanation
Indices: 161190--161277 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 34
161180 AGTTTCAAGG
* *
161190 AAACTGTCTCAAGAGAGACAAAACTTGTTTCAAGAG
1 AAACTGTCTCAAGAGAGACAAAAC-T-TTCCAAGAA
161226 AAACTGTCTCAAGAGAGACAAAAC-TTCC-AGAAA
1 AAACTGTCTCAAGAGAGACAAAACTTTCCAAG-AA
* *
161259 AAACTATCTCAAGGGAGAC
1 AAACTGTCTCAAGAGAGAC
161278 GAAATTTGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.04
33 21 0.45
36 24 0.51
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.18
Consensus pattern (34 bp):
AAACTGTCTCAAGAGAGACAAAACTTTCCAAGAA
Found at i:161400 original size:37 final size:36
Alignment explanation
Indices: 161345--161428 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
161335 AAGTTTATGC
* * **
161345 TTCAAGAGAAACTGTCTCAATG-GAGACAAAATTTTGT
1 TTCAAGGGAAACTATCTCAA-GAGAGACAAAA-TTCAT
*
161382 TTCAAGGGAACCTATCTCAAGAGAGACAAAATTCAT
1 TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
161418 TTCAAGGGAAA
1 TTCAAGGGAAA
161429 TGTTTTCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 14 0.35
37 26 0.65
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (36 bp):
TTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
Found at i:161518 original size:100 final size:101
Alignment explanation
Indices: 161327--161572 Score: 394
Period size: 100 Copynumber: 2.5 Consensus size: 101
161317 CAAATAAAAT
* * *
161327 TGTTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTTGTTTCAAGGGAA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAATTTTGTTTCAAGGGAA
161392 CCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
65 CCTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
161429 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AATTTTGTTTCAAGGGAAC
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAC
* *
161493 CTATCTCAAGAGATACAAAATTCATTTCATGGGAAA
66 CTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
*
161529 TGTTTT-AATGTTTATGTTTCAA-AGAAACTATCTCAA--GAGACAAA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAA
161573 ACTTAGTTCC
Statistics
Matches: 137, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
96 5 0.04
97 2 0.01
98 13 0.09
99 16 0.12
100 59 0.43
102 42 0.31
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (101 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAC
CTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
Found at i:161844 original size:36 final size:36
Alignment explanation
Indices: 161804--162391 Score: 385
Period size: 36 Copynumber: 17.0 Consensus size: 36
161794 ATTCAAAGAT
*
161804 TTTGTTTCAAGGGAAACTGTCTCAAGAAAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
161840 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
161876 TTTGTTTCTAGAGAAACTGTCTCAAGAGAGA-AAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * **
161911 CTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGGAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * ** *
161948 TTAGTTTCAAGGAAAACAGAT-TC-----A-A-TTAT
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
161977 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
162013 TTTGTTTCAAGGGAAA-TGTATCAAGGGAGAAAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
162048 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * * ***
162084 CTTAGTTCCAAAAGAAATTGTCTAAAGGGAGATGGAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * **
162121 TTAGTTTCAAGGAAAACATAT-TC-------A-ATTA
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
* *
162149 TTTTTTTCCAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
162185 TTTGATTCAAGGGAAACTGTCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
162221 TTTG-TTCAAGAGAAACTGTCTCAAGAGAGACAAAC
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
162256 TTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
162292 TTTGTTTCAAGTGAAACAGAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
*
162321 TTTGTTTCAAGGGAAACTATCTC-A-AGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
162355 TTTGTTGTTTCAATGGAAAC--TCTCAAGAGAGACAAAA
1 --T-TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
162392 CTTGGAAAAT
Statistics
Matches: 428, Mismatches: 88, Indels: 71
0.73 0.15 0.12
Matches are distributed among these distances:
27 2 0.00
28 18 0.04
29 39 0.09
30 2 0.00
31 2 0.00
32 1 0.00
33 1 0.00
34 3 0.01
35 72 0.17
36 230 0.54
37 58 0.14
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:162089 original size:137 final size:137
Alignment explanation
Indices: 161840--162090 Score: 369
Period size: 137 Copynumber: 1.8 Consensus size: 137
161830 AAAGACAAAA
* *
161840 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCTAGAGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGA
* * * **
161905 GAAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAGACGGAATTAGTTTCAAGGAAAACAGATT
66 GAAAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGAAAACAGATT
161970 CAATTAT
131 CAATTAT
* * *
161977 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA-TGTATCAAGGGA
1 TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGA
* * *
162041 GAAAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
66 GAAAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTAGTT
162091 CCAAAAGAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
136 45 0.45
137 55 0.55
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (137 bp):
TTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTATCAAGAGA
GAAAAAATTAGTTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGGAAAACAGATT
CAATTAT
Found at i:162170 original size:172 final size:174
Alignment explanation
Indices: 161704--162391 Score: 1036
Period size: 173 Copynumber: 4.0 Consensus size: 174
161694 TCAATGTTTA
* * * *
161704 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTCTAAAAGAAAATGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAG
* * *
161769 ACGAAATTAGTTTCAAAGAAAACAGATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAAAG
66 ACGAAATTAGTTTCAAGGAAAACAGATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* *
161834 ACAAAATTTGTTTCAAGGAAAACTGTCTCAAGAGAGACAAAATT
131 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
161878 TGTTTCTAGAGAAACTGTCTCAAGAGAGA-AAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAG
* *
161942 ACGGAATTAGTTTCAAGGAAAACAGATTCAATTATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
66 ACGAAATTAGTTTCAAGGAAAACAGATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
* *
162007 ACAAAATTTGTTTCAAGGGAAA-TGTATCAAGGGAGAAAAAATT
131 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
162050 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTAAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAG
* * * * *
162115 ATGGAATTAGTTTCAAGGAAAACATATTCAATTATTTT-TTTCCAGGGAAACTGTCTCAAGAGAG
66 ACGAAATTAGTTTCAAGGAAAACAGATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
*
162179 ACAAAATTTGATTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
131 ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
*
162223 TG-TTCAAGAGAAACTGTCTCAAGAGAGAC-AAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAG
* *
162286 ACGAAATTTGTTTCAAGTG-AAACAGATTCAAATATTTTGTTTCAAGGGAAACTATCTC-A-AGA
66 ACGAAATTAGTTTCAAG-GAAAACAGATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGA
* *
162348 GACAAAATTTGTTGTTTCAATGGAAAC--TCTCAAGAGAGACAAAA
130 GACAAAA--T-TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA
162392 CTTGGAAAAT
Statistics
Matches: 473, Mismatches: 34, Indels: 17
0.90 0.06 0.03
Matches are distributed among these distances:
170 10 0.02
171 80 0.17
172 138 0.29
173 218 0.46
174 27 0.06
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (174 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGGAG
ACGAAATTAGTTTCAAGGAAAACAGATTCAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
ACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
Found at i:163590 original size:31 final size:32
Alignment explanation
Indices: 163507--163618 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
163497 TTTGCATCAG
* * * *
163507 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTT
163539 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
* *
163571 GATGTTAAATCT-AAAAAATGCCCAAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTT
163602 GATGTTGAATCTTCAAA
1 GATGTTGAATC-TCAAA
163619 GATGCCCTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.40
32 38 0.54
33 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTT
Found at i:164643 original size:66 final size:67
Alignment explanation
Indices: 164533--164665 Score: 191
Period size: 66 Copynumber: 2.0 Consensus size: 67
164523 TGTCTCTCTC
*
164533 TTGATGCTCCATGATCTTCGAGTGAGTGATTCAGTAATTCAGAAATGATTGTGCTTGATCAATCT
1 TTGATGCTCCATGATCTTCGAGTGAGTGATTCAGTAATTCAGAAATGATTGTGCTTCATC-ATCT
164598 CAT
65 CAT
* * *
164601 TTGATGCTCTATGAT-TTC-AGTGAAGTGGTTC-GTGATTCAGAAATGATTGTGCTTCATCATCT
1 TTGATGCTCCATGATCTTCGAGTG-AGTGATTCAGTAATTCAGAAATGATTGTGCTTCATCATCT
164663 CAT
65 CAT
164666 GGTTTGAATC
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
65 7 0.12
66 29 0.48
67 10 0.17
68 14 0.23
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (67 bp):
TTGATGCTCCATGATCTTCGAGTGAGTGATTCAGTAATTCAGAAATGATTGTGCTTCATCATCTC
AT
Done.