Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007911.1 Hibiscus syriacus cultivar Beakdansim tig00110307_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: 1972160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:258424 original size:21 final size:23
Alignment explanation
Indices: 258375--258427 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
258365 TTTCACATTT
*
258375 TCACATAAACACGTAGTTCACTT
1 TCACATAAACACGTAGTTCACTG
258398 TCACATAAA-ACGTAGATT-A-TG
1 TCACATAAACACGTAG-TTCACTG
258419 TCACATAAA
1 TCACATAAA
258428 TTGAATCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 10 0.36
22 7 0.25
23 11 0.39
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (23 bp):
TCACATAAACACGTAGTTCACTG
Found at i:258640 original size:2 final size:2
Alignment explanation
Indices: 258633--258665 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
258623 TTCATCTTCC
*
258633 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
258666 CATTTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:259945 original size:21 final size:21
Alignment explanation
Indices: 259920--259972 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
259910 TTACCCTTGA
* *
259920 TGCATCGGTGCATCTTGAATG
1 TGCATCGATGCACCTTGAATG
259941 TGCATCGATGCACCTTGAATG
1 TGCATCGATGCACCTTGAATG
259962 TGCATCGATGC
1 TGCATCGATGC
259973 TCATAGCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (21 bp):
TGCATCGATGCACCTTGAATG
Found at i:263327 original size:22 final size:22
Alignment explanation
Indices: 263270--263330 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
263260 CAAGCTGTAT
263270 AAATGCACAAAGTGCCACGTAG
1 AAATGCACAAAGTGCCACGTAG
* * **
263292 AATTTCACCTAGTGCCACGTAG
1 AAATGCACAAAGTGCCACGTAG
*
263314 AAATGCACGAAGTGCCA
1 AAATGCACAAAGTGCCA
263331 TATAAGGTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (22 bp):
AAATGCACAAAGTGCCACGTAG
Found at i:263574 original size:23 final size:23
Alignment explanation
Indices: 263544--263588 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
263534 CATTTCACAT
263544 TTTCACATAAACACGTAG-TTATC
1 TTTCACATAAA-ACGTAGATTATC
263567 TTTCACATAAAACGTAGATTAT
1 TTTCACATAAAACGTAGATTAT
263589 GTCATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
TTTCACATAAAACGTAGATTATC
Found at i:263806 original size:2 final size:2
Alignment explanation
Indices: 263799--263825 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
263789 TTCATCTTCT
263799 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
263826 CATTTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:264043 original size:17 final size:18
Alignment explanation
Indices: 264021--264058 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
264011 TCTTTATATA
264021 CTAATT-AATC-TATTTAC
1 CTAATTCAATCATA-TTAC
264038 CTAATTCAATCATATTAC
1 CTAATTCAATCATATTAC
264056 CTA
1 CTA
264059 TAACTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 11 0.58
19 2 0.11
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
CTAATTCAATCATATTAC
Found at i:265084 original size:21 final size:21
Alignment explanation
Indices: 265060--265111 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
265050 CGATGCACAA
265060 ATCGATGCACCTTGAATGTGC
1 ATCGATGCACCTTGAATGTGC
265081 ATCGATGCACCTTGAATGTGC
1 ATCGATGCACCTTGAATGTGC
265102 ATCGATGCAC
1 ATCGATGCAC
265112 ATAGCCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
ATCGATGCACCTTGAATGTGC
Found at i:271775 original size:21 final size:21
Alignment explanation
Indices: 271751--271801 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
271741 ATTTAAAATT
271751 CATCCTTTAGCCTTCCAACAA
1 CATCCTTTAGCCTTCCAACAA
271772 CATCCTTTAGCCTTCCAACAA
1 CATCCTTTAGCCTTCCAACAA
271793 CATCCTTTA
1 CATCCTTTA
271802 TGATTAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.37, G:0.04, T:0.31
Consensus pattern (21 bp):
CATCCTTTAGCCTTCCAACAA
Found at i:272234 original size:20 final size:21
Alignment explanation
Indices: 272182--272236 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
272172 GTTTTTTGAT
272182 TGTAGTATCGATA-TAGTTCA
1 TGTAGTATCGATATTAGTTCA
* *
272202 TGTAGCATTGATATTA-TTCA
1 TGTAGTATCGATATTAGTTCA
272222 TAG-AGTATCGATATT
1 T-GTAGTATCGATATT
272237 CCCTTTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (21 bp):
TGTAGTATCGATATTAGTTCA
Found at i:272330 original size:21 final size:21
Alignment explanation
Indices: 272306--272360 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
272296 TAGAGTACAA
*
272306 ATACTACTTGATGGAGTATCT
1 ATACTACCTGATGGAGTATCT
*
272327 ATACTACCT-AGTGGAGTATTT
1 ATACTACCTGA-TGGAGTATCT
272348 ATACTACCTGATG
1 ATACTACCTGATG
272361 ATTTACTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (21 bp):
ATACTACCTGATGGAGTATCT
Found at i:274786 original size:148 final size:149
Alignment explanation
Indices: 274483--274799 Score: 491
Period size: 148 Copynumber: 2.1 Consensus size: 149
274473 ACAATCTCCT
* *
274483 CCTTTTTGATATAACAAAACATTTGAAAAATTATTTTTGGCAAAATTCCTCCTTAATAAAATATT
1 CCTTTTTGATATAACAAAACATTTGAAAAATTATTTTTGACAAAACTCCTCCTTAATAAAATATT
* *
274548 TAATAAAAAAGAGGAATATTTGGAAAATGATAAAGCTTCCCTTTTTCATTCTTGAAATTGAATTT
66 TAAT-AAAAAGAGGAATATTGGGAAAATGATAAAGCTTCCCTTTTTCATTCTTGAAATTGAAATT
274613 TTCAAACTCATACTTCTTCC
130 TTCAAACTCATACTTCTTCC
*
274633 CCTTTTTGATATAACAAAACATTTGAAAAATTGTTTTTGACAAAACT-CTCCTTAATAAAATATT
1 CCTTTTTGATATAACAAAACATTTGAAAAATTATTTTTGACAAAACTCCTCCTTAATAAAATATT
274697 TAAT-AAAAGAGCG-ATATTGGGAAAATGATAAAGC-TCCCTTTTTTTCATTCTTGAAATTGAAA
66 TAATAAAAAGAG-GAATATTGGGAAAATGATAAAGCTTCCC--TTTTTCATTCTTGAAATTGAAA
274759 TTTTCAAACTCATACTTC-TCC
128 TTTTCAAACTCATACTTCTTCC
* *
274780 CACTTTTTGTTATATCAAAA
1 C-CTTTTTGATATAACAAAA
274800 TAATTCAACT
Statistics
Matches: 156, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
146 4 0.03
147 31 0.20
148 56 0.36
149 21 0.13
150 44 0.28
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (149 bp):
CCTTTTTGATATAACAAAACATTTGAAAAATTATTTTTGACAAAACTCCTCCTTAATAAAATATT
TAATAAAAAGAGGAATATTGGGAAAATGATAAAGCTTCCCTTTTTCATTCTTGAAATTGAAATTT
TCAAACTCATACTTCTTCC
Found at i:282364 original size:22 final size:22
Alignment explanation
Indices: 282318--282366 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
282308 TTCAGTAGAA
*
282318 GTCAAAGTCAATGGTAAGACTG
1 GTCAAAGTCAATGGTAAGACGG
282340 GTCAAAGTCAATGGTTAA-ACGG
1 GTCAAAGTCAATGG-TAAGACGG
282362 GTCAA
1 GTCAA
282367 CGGTTAAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (22 bp):
GTCAAAGTCAATGGTAAGACGG
Found at i:282371 original size:16 final size:16
Alignment explanation
Indices: 282346--282382 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
282336 ACTGGTCAAA
*
282346 GTCAATGGTTAAACGG
1 GTCAACGGTTAAACGG
282362 GTCAACGGTTAAACGG
1 GTCAACGGTTAAACGG
282378 GTCAA
1 GTCAA
282383 GCGGGTCGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (16 bp):
GTCAACGGTTAAACGG
Found at i:284384 original size:22 final size:22
Alignment explanation
Indices: 284356--284404 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
284346 GGTAAATTGG
*
284356 TTTATAACTGTTATGAATGTCT
1 TTTATAACTGTTATGAATGCCT
*
284378 TTTATAATTGTTATGAATGCCT
1 TTTATAACTGTTATGAATGCCT
284400 TTTAT
1 TTTAT
284405 TAAATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (22 bp):
TTTATAACTGTTATGAATGCCT
Found at i:285256 original size:34 final size:34
Alignment explanation
Indices: 285208--285287 Score: 151
Period size: 34 Copynumber: 2.3 Consensus size: 34
285198 GATGATTAGT
285208 ATATCTTCATAATTTTTTTAATTAATTAACAACAC
1 ATATCTT-ATAATTTTTTTAATTAATTAACAACAC
285243 ATATCTTATAATTTTTTTAATTAATTAACAACAC
1 ATATCTTATAATTTTTTTAATTAATTAACAACAC
285277 ATATCTTATAA
1 ATATCTTATAA
285288 ATATAATTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 38 0.84
35 7 0.16
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.46
Consensus pattern (34 bp):
ATATCTTATAATTTTTTTAATTAATTAACAACAC
Found at i:297300 original size:28 final size:29
Alignment explanation
Indices: 297260--297321 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
297250 TATATTAATA
* *
297260 CAAAAAACGAATCTAGTTTAACAAAT-ATT
1 CAAAAAACGAATC-ACTTAAACAAATCATT
*
297289 CAAAGAAC-AATCACTTAAACAAATCATT
1 CAAAAAACGAATCACTTAAACAAATCATT
297317 CAAAA
1 CAAAA
297322 TAAGAATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 10 0.36
28 11 0.39
29 7 0.25
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.23
Consensus pattern (29 bp):
CAAAAAACGAATCACTTAAACAAATCATT
Found at i:300672 original size:54 final size:54
Alignment explanation
Indices: 300606--301032 Score: 638
Period size: 54 Copynumber: 7.9 Consensus size: 54
300596 TTTATTAAGA
* * * * *
300606 TGCACACGTAGTGCCTATACGGTAGTTCATCAACTCATGATGAATTTCGTGGGT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
300660 TGCACACATAGTGCCTTTACAGTTGTTCATCAACTCATGATGAATTCCATGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
300714 TGCACATATAGTGCCTGTACGGTTGTTCATCAACTCATGATAAATTCCTTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
** * *
300768 TATACACATAGTGCTTGTACGATTGTTCATCAACTCATGATGAATTCCGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
300822 TGCACACATAGTGCTTGTACAGTTGTTCATCAACTCATGATGAATTCCGTGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
300876 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * * *
300930 TGCACACATAGTGCATGTACGGTTGTTCATAAACTCATGATGAATTCCATGAAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* *
300984 TGAACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCCG
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCG
301033 CACATAGTGC
Statistics
Matches: 339, Mismatches: 34, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 339 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
Found at i:306701 original size:54 final size:54
Alignment explanation
Indices: 306616--306735 Score: 172
Period size: 54 Copynumber: 2.2 Consensus size: 54
306606 TACCTCTAAG
*
306616 GGGGTATCGG-ACCCATTGGGCATTCTGTTTTTCTC-GTAGCCAAAATTGGCATA
1 GGGGTATCGGTACCCATTGGGCATTCTATTTTTCTCAG-AGCCAAAATTGGCATA
* *
306669 GGGGTATCGGTACCCATTTGGCATTCTATTTTTCTCAGAGCCAAAATTGTCATA
1 GGGGTATCGGTACCCATTGGGCATTCTATTTTTCTCAGAGCCAAAATTGGCATA
* *
306723 AGGGTATTGGTAC
1 GGGGTATCGGTAC
306736 ACCCTATGAG
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
53 10 0.17
54 49 0.82
55 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (54 bp):
GGGGTATCGGTACCCATTGGGCATTCTATTTTTCTCAGAGCCAAAATTGGCATA
Found at i:307075 original size:13 final size:14
Alignment explanation
Indices: 307057--307089 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
307047 GATTTTCTTA
307057 TTGAAAATC-ATTT
1 TTGAAAATCAATTT
307070 TTG-AAATCAATTT
1 TTGAAAATCAATTT
307083 TTGAAAA
1 TTGAAAA
307090 ACTACTCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 5 0.28
13 10 0.56
14 3 0.17
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (14 bp):
TTGAAAATCAATTT
Found at i:315150 original size:20 final size:20
Alignment explanation
Indices: 315127--315167 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
315117 TAAATGACTA
*
315127 GGGGTATCGGTACCTATAAG
1 GGGGTATCGATACCTATAAG
315147 GGGGTATCGATACCTATAAG
1 GGGGTATCGATACCTATAAG
315167 G
1 G
315168 CATTCTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (20 bp):
GGGGTATCGATACCTATAAG
Found at i:315225 original size:74 final size:75
Alignment explanation
Indices: 315125--315288 Score: 197
Period size: 74 Copynumber: 2.2 Consensus size: 75
315115 GTTAAATGAC
* * **
315125 TAGGGGTATCGGTA-CCTATAAGGGGGTATCGATACCTATAAGGCATTCTGTTTTTCTTGGAGCC
1 TAGGGGTATCGGTACCCTATAAGGGGGTATCGATACCCATAAGACATTCTGTTTTTCTCAGAGCC
* *
315189 AAATTTGGCA
66 AAAATTAGCA
* * * * **
315199 TAGGGGTATTGGTACCCTATGA-GGGGTATCGGTGCCCATTTGACATTCTGTTTTTCTCAGAGCC
1 TAGGGGTATCGGTACCCTATAAGGGGGTATCGATACCCATAAGACATTCTGTTTTTCTCAGAGCC
*
315263 AAAATTATCA
66 AAAATTAGCA
315273 TAGGGGTATCGGTACC
1 TAGGGGTATCGGTACC
315289 TCCCTATTTA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
74 69 0.92
75 6 0.08
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (75 bp):
TAGGGGTATCGGTACCCTATAAGGGGGTATCGATACCCATAAGACATTCTGTTTTTCTCAGAGCC
AAAATTAGCA
Found at i:327822 original size:156 final size:154
Alignment explanation
Indices: 327535--327843 Score: 548
Period size: 156 Copynumber: 2.0 Consensus size: 154
327525 TCCCACAAGA
* *
327535 TTGAAAAAGCATAATGATGAAGTTCAGTTCAATAATTCGTGGACATTCTTGATCAGCTCCATAAC
1 TTGAAAAAGCATAATGATGAAGTTCAATTCAAGAATTCGTGGACATTCTTGATCAGCTCCATAAC
*
327600 AATGACCTCTCTTGGAAGCTATTGAACAGATGCGATGTATGCCAAATTTCTGAAGACAATCTGTA
66 AATGACCTCTCTTGGAAGCTATTGAACAGATGCGATGTATGCCAAATTTCTGAAGAAAATCTGTA
327665 CCAAGAAGAGAAAAGTA-AGACTT
131 CCAAGAAGAGAAAAGTAGAGACTT
327688 TTGAAAAAGCATAATGATGAAGTTCAATTCAAGAAGTTCGTGGACATTCTTGATCAGCTCCATAA
1 TTGAAAAAGCATAATGATGAAGTTCAATTCAAGAA-TTCGTGGACATTCTTGATCAGCTCCATAA
327753 CAATGTACCTCTCTTGGAAGCTATTGAACAGATGCCGATGTATGCCAAATTTCTGAAGAAAATCT
65 CAATG-ACCTCTCTTGGAAGCTATTGAACAGATG-CGATGTATGCCAAATTTCTGAAGAAAATCT
*
327818 GTACCAAGAAGAGGAAAGTAGAGACT
128 GTACCAAGAAGAGAAAAGTAGAGACT
327844 GTTGCCACAA
Statistics
Matches: 148, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
153 33 0.22
154 34 0.23
155 28 0.19
156 48 0.32
157 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (154 bp):
TTGAAAAAGCATAATGATGAAGTTCAATTCAAGAATTCGTGGACATTCTTGATCAGCTCCATAAC
AATGACCTCTCTTGGAAGCTATTGAACAGATGCGATGTATGCCAAATTTCTGAAGAAAATCTGTA
CCAAGAAGAGAAAAGTAGAGACTT
Found at i:335391 original size:11 final size:11
Alignment explanation
Indices: 335375--335404 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
335365 TTCTTTTCAT
*
335375 TTTATTTGCTG
1 TTTATTTACTG
335386 TTTATTTACTG
1 TTTATTTACTG
335397 TTTATTTA
1 TTTATTTA
335405 TCATTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (11 bp):
TTTATTTACTG
Found at i:336609 original size:2 final size:2
Alignment explanation
Indices: 336602--336637 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
336592 TACAAACTAC
336602 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
336638 GCAATATAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:337503 original size:14 final size:14
Alignment explanation
Indices: 337484--337512 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
337474 ATTCTAATTT
337484 GCACCATATCTAGG
1 GCACCATATCTAGG
337498 GCACCATATCTAGG
1 GCACCATATCTAGG
337512 G
1 G
337513 GACGAATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (14 bp):
GCACCATATCTAGG
Found at i:345188 original size:21 final size:21
Alignment explanation
Indices: 345137--345189 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
345127 AATATGATAG
* * * *
345137 AAGGTCATCATTAGCTAATAC
1 AAGGTCATCATAAACCAAAAC
* *
345158 AAGTTTATCATAAACCAAAAC
1 AAGGTCATCATAAACCAAAAC
345179 AAGGTCATCAT
1 AAGGTCATCAT
345190 CGATCGAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.26
Consensus pattern (21 bp):
AAGGTCATCATAAACCAAAAC
Found at i:345692 original size:32 final size:32
Alignment explanation
Indices: 345656--345716 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
345646 AGCTAACCTA
* * * *
345656 AGGGAATATCTTGGGGCCTGAGAGCCTACACG
1 AGGGAATACCTTAGGGACTAAGAGCCTACACG
*
345688 AGGGAGTACCTTAGGGACTAAGAGCCTAC
1 AGGGAATACCTTAGGGACTAAGAGCCTAC
345717 CCAATGAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.18
Consensus pattern (32 bp):
AGGGAATACCTTAGGGACTAAGAGCCTACACG
Found at i:346809 original size:17 final size:18
Alignment explanation
Indices: 346773--346811 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
346763 AGATTTATTC
346773 ATTCAAGAGCTTAAAGGGT
1 ATTCAAGAGCTT-AAGGGT
*
346792 ATTCTAGAGCTT-AGGGT
1 ATTCAAGAGCTTAAGGGT
346809 ATT
1 ATT
346812 TTAGGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (18 bp):
ATTCAAGAGCTTAAGGGT
Found at i:349689 original size:21 final size:21
Alignment explanation
Indices: 349665--349725 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
349655 AACTTTGAAA
349665 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
349686 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
349700 AAATGGTTTTTAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
349721 AAATG
1 AAATG
349726 TTTCTTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 3 0.10
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.44
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:349703 original size:35 final size:35
Alignment explanation
Indices: 349664--349773 Score: 159
Period size: 35 Copynumber: 3.1 Consensus size: 35
349654 CAACTTTGAA
349664 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
*
349699 AAAATGGTTTTTAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
349734 AAAAATAGTTTTTCAAAGTTTGGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
349770 AAAA
1 AAAA
349774 ATGATAATGG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
35 38 0.56
36 8 0.12
37 22 0.32
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:349764 original size:37 final size:37
Alignment explanation
Indices: 349657--349775 Score: 165
Period size: 36 Copynumber: 3.3 Consensus size: 37
349647 TGGTAACCAA
*
349657 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAAATGTTT
*
349694 CTTTG-AAAATGGTTTTT-AAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
349729 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
349766 -GTTGAAAAAT
1 CTTTGAAAAAT
349776 GATAATGGGA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 23 0.31
36 29 0.39
37 22 0.30
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (37 bp):
CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:350204 original size:16 final size:16
Alignment explanation
Indices: 350183--350216 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
350173 TTACTATTCA
*
350183 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
350199 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
350215 CG
1 CG
350217 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:354186 original size:21 final size:21
Alignment explanation
Indices: 354162--354222 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
354152 AACTTTGAAA
354162 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
354183 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
354197 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
354218 AAATG
1 AAATG
354223 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:354268 original size:36 final size:36
Alignment explanation
Indices: 354154--354273 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
354144 TGGTAACCAA
354154 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
354191 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
354226 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
354263 -GTTGAAAAATG
1 CTTTGAAAAATG
354274 ATAATGGGAT
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 27 0.35
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:357349 original size:21 final size:22
Alignment explanation
Indices: 357325--357376 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
357315 CCTTCCAAAT
* *
357325 TCCC-AATTTCCTGACTCGTAA
1 TCCCTAATTTCCTGACCCCTAA
*
357346 TCCCTAA-TTCTTGACCCCTAA
1 TCCCTAATTTCCTGACCCCTAA
357367 TCCCTAATTT
1 TCCCTAATTT
357377 TTCCTCCAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.37
Consensus pattern (22 bp):
TCCCTAATTTCCTGACCCCTAA
Found at i:367023 original size:71 final size:70
Alignment explanation
Indices: 366864--367117 Score: 188
Period size: 71 Copynumber: 3.6 Consensus size: 70
366854 TGTCCACTCT
* * * * * * * * * * * *
366864 ATGATTGAGGCTCGGGGTTGCGTTCGGCTTCCTCCATGGTTGAGGTTTCGCTTACTAACGGGATG
1 ATGACTGAGGCTTGGGGTT-TGTTTGACTTCCTCTATGGCTGAGGGTTCACCTACTAATGGGGTG
*
366929 TCCTCT
65 TCCTCA
* * * * **
366935 ATGATTAAGGATCGGGGTTATGTTT-ATCTTCCTCTATGGCTGAGGGTTTGCCTACTAATGGGGT
1 ATGACTGAGGCTTGGGGTT-TGTTTGA-CTTCCTCTATGGCTGAGGGTTCACCTACTAATGGGGT
* *
366999 TTTCTCA
64 GTCCTCA
** *
367006 ATGACTGAGGCTTGGGGTTGTGTTTGACTTCCT-TCATGATTAAGGGTTCACCTACTAATGGGGT
1 ATGACTGAGGCTTGGGGTT-TGTTTGACTTCCTCT-ATGGCTGAGGGTTCACCTACTAATGGGGT
**
367070 GTCCTGT
64 GTCCTCA
* * *
367077 ATGATTGAGGCTTGGGGTTGGTTTGACTTCCTCCATGGCTG
1 ATGACTGAGGCTTGGGGTTTGTTTGACTTCCTCTATGGCTG
367118 GGGATGTTTA
Statistics
Matches: 143, Mismatches: 36, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
70 17 0.12
71 125 0.87
72 1 0.01
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.37
Consensus pattern (70 bp):
ATGACTGAGGCTTGGGGTTTGTTTGACTTCCTCTATGGCTGAGGGTTCACCTACTAATGGGGTGT
CCTCA
Found at i:367626 original size:36 final size:36
Alignment explanation
Indices: 367372--367660 Score: 274
Period size: 36 Copynumber: 8.0 Consensus size: 36
367362 TGAGGATTCT
* *
367372 TAGGGAGACGATCTTAAGGAAGACTAAGTTGGTTTC
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
* * * * *
367408 TAAGGAAACAATCTTAAGAAAGTCTAGATTGGTTTC
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
* * * * *
367444 TAGTGAAAAGATCTTAAAGAAGACTAGGTTGGATTA
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
* *
367480 TAAGGAAAC-TTCCTTAAGGAAGACTAGGTTGGTTTC
1 TAGGGAAACGAT-CTTAAGGAAGACTAGGTTGGTTTC
* * * *
367516 TATGGAAACGACCTTAAGTAAGACAAGGTTGGTTTC
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
* * * * *
367552 TATGGAAACAACCTTAAAGAAGACTGGGTTGGTTTC
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
* *
367588 TAGGGAAATGGTCTTAAGGAAGACTAGGTTGGTTTC
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
* * * * * * *
367624 TAGGTAAATGGTATCAAGAAAGACTATGTTGGTTTC
1 TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
367660 T
1 T
367661 TAAAAGAGAC
Statistics
Matches: 205, Mismatches: 46, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
35 1 0.00
36 204 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.30
Consensus pattern (36 bp):
TAGGGAAACGATCTTAAGGAAGACTAGGTTGGTTTC
Found at i:367647 original size:108 final size:106
Alignment explanation
Indices: 367383--367660 Score: 310
Period size: 108 Copynumber: 2.6 Consensus size: 106
367373 AGGGAGACGA
* * * *
367383 TCTTAAGGAAGACTAAGTTGGTTTCTAAGGAAACAATCTTAAGAAAGTCTAGATTGGTTTCTAGT
1 TCTTAAGGAAGACTAGGTTGGTTTCT-AGGAAACGATCTTAAGAAAGACTAGGTTGGTTTCTAGT
*
367448 GAAAAGATCTTAAAGAAGACTAGGTTGGATTATAAGGAAACT
65 GAAAAGACCTTAAAGAAGACTAGGTTGGATTATAAGGAAACT
* * *
367490 TCCTTAAGGAAGACTAGGTTGGTTTCTATGGAAACGACCTTAAGTAAGACAAGGTTGGTTTCTA-
1 T-CTTAAGGAAGACTAGGTTGGTTTCTA-GGAAACGATCTTAAGAAAGACTAGGTTGGTTTCTAG
* * * *
367554 TGGAAACA-ACCTTAAAGAAGACTGGGTTGGTTTCTAGGGAAA-T
64 T-GAAA-AGACCTTAAAGAAGACTAGGTTGGATTATAAGGAAACT
* * * * *
367597 GGTCTTAAGGAAGACTAGGTTGGTTTCTAGGTAAATGGTATCAAGAAAGACTATGTTGGTTTCT
1 --TCTTAAGGAAGACTAGGTTGGTTTCTAGG-AAACGATCTTAAGAAAGACTAGGTTGGTTTCT
367661 TAAAAGAGAC
Statistics
Matches: 144, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
107 6 0.04
108 136 0.94
109 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (106 bp):
TCTTAAGGAAGACTAGGTTGGTTTCTAGGAAACGATCTTAAGAAAGACTAGGTTGGTTTCTAGTG
AAAAGACCTTAAAGAAGACTAGGTTGGATTATAAGGAAACT
Found at i:369274 original size:10 final size:10
Alignment explanation
Indices: 369261--369307 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
369251 TCTTCTTCTG
*
369261 TCTTTTCTTT
1 TCTTTTCCTT
*
369271 TCTTTGCCTT
1 TCTTTTCCTT
369281 TCTTTTCCTT
1 TCTTTTCCTT
*
369291 TCCTTTCCTT
1 TCTTTTCCTT
*
369301 TCCTTTC
1 TCTTTTC
369308 TTTTTCTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (10 bp):
TCTTTTCCTT
Found at i:369282 original size:15 final size:14
Alignment explanation
Indices: 369249--369307 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
369239 ACCCTTCCTT
* *
369249 TTTCTTCTTCTGTCT
1 TTTCTT-TTCTTTCC
369264 TTTCTTTTCTTTGCC
1 TTTCTTTTCTTT-CC
369279 TTTCTTTTCCTTTCC
1 TTTCTTTT-CTTTCC
*
369294 TTTCCTTTCCTTTC
1 TTT-CTTTTCTTTC
369308 TTTTTCTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 5 0.13
15 25 0.66
16 8 0.21
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTCTTTTCTTTCC
Found at i:369708 original size:20 final size:20
Alignment explanation
Indices: 369667--369709 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
369657 AGAATTGAAT
* *
369667 ATTTTTTTTACTATTGTGAC
1 ATTTTTTTTACAATTATGAC
369687 ATTTTTTTTACAATATAT-AC
1 ATTTTTTTTACAAT-TATGAC
369707 ATT
1 ATT
369710 ATCTAAGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTTTTTTTACAATTATGAC
Found at i:370484 original size:3 final size:3
Alignment explanation
Indices: 370450--370512 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
370440 CAATTTACTT
* * * *
370450 TTA TTA TTG TTA TTT TTA TTTA TTA ATA TTA TTA TTA TACA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
370497 TTA TTTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA
370513 AATAAATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
3 41 0.84
4 8 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:370493 original size:13 final size:13
Alignment explanation
Indices: 370477--370512 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
370467 ATTTATTAAT
370477 ATTATTATTATAC
1 ATTATTATTATAC
**
370490 ATTATTATTATTT
1 ATTATTATTATAC
370503 ATTATTATTA
1 ATTATTATTA
370513 AATAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATTATTATAC
Found at i:370512 original size:16 final size:16
Alignment explanation
Indices: 370453--370512 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
370443 TTTACTTTTA
* *
370453 TTATTGTTATTTTTAT
1 TTATTATTATTATTAT
*
370469 TTATTAATATTATTA-
1 TTATTATTATTATTAT
*
370484 TTATACATTATTATTAT
1 TTAT-TATTATTATTAT
370501 TTATTATTATTA
1 TTATTATTATTA
370513 AATAAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.11
16 28 0.78
17 4 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:371862 original size:3 final size:3
Alignment explanation
Indices: 371850--371918 Score: 70
Period size: 3 Copynumber: 22.3 Consensus size: 3
371840 TTATTTGTAA
* *
371850 TAT TATT TAT TAT TAT TAT TAT TAT TTT TATT TAT T-T GTTT TAAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT T-AT TAT
371898 TAT T-T TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
371919 TATATAAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
2 3 0.05
3 45 0.79
4 9 0.16
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:372286 original size:7 final size:7
Alignment explanation
Indices: 372276--372301 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
372266 AATTAAATAT
372276 ATTTTGA
1 ATTTTGA
372283 ATTTTGA
1 ATTTTGA
372290 ATTTTGA
1 ATTTTGA
372297 ATTTT
1 ATTTT
372302 TAATAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
ATTTTGA
Found at i:374969 original size:43 final size:44
Alignment explanation
Indices: 374922--375004 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
374912 AATAGAGAAA
* *
374922 TTAGGAGTGAAAGTTATTCCCTATATGT-AAAGTTTTGTTGAAG
1 TTAGGACTGAAAGTTATCCCCTATATGTAAAAGTTTTGTTGAAG
*
374965 TTAGGACTGAAAGTTGTCCCCTATATGTAAAAGTTTTGTT
1 TTAGGACTGAAAGTTATCCCCTATATGTAAAAGTTTTGTT
375005 TAATACACGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 25 0.69
44 11 0.31
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (44 bp):
TTAGGACTGAAAGTTATCCCCTATATGTAAAAGTTTTGTTGAAG
Found at i:375114 original size:7 final size:7
Alignment explanation
Indices: 375079--375119 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
375069 TTTTCATATA
375079 TGCATTT
1 TGCATTT
375086 T-CATTT
1 TGCATTT
375092 TGCATCTT
1 TGCAT-TT
375100 TGCATTT
1 TGCATTT
*
375107 TTCATTT
1 TGCATTT
375114 TGCATT
1 TGCATT
375120 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:377574 original size:130 final size:130
Alignment explanation
Indices: 377368--377627 Score: 502
Period size: 130 Copynumber: 2.0 Consensus size: 130
377358 CACAGATCAA
377368 GTACGCCAACTCAGTGTCATATCGCCCAAAGATGAATGGGGCATTTGCAGTAGCAAATAAGAACC
1 GTACGCCAACTCAGTGTCATATCGCCCAAAGATGAATGGGGCATTTGCAGTAGCAAATAAGAACC
* *
377433 TTAAGAGGATCATTGCAAAGACCACTGAAGCTTACAAGGATGACACGAGAAGCTACCTTTTGCCT
66 TTAAGAGGATCACTGCAAAGACCACTGAAGCTTACAAGGATGAAACGAGAAGCTACCTTTTGCCT
377498 GTACGCCAACTCAGTGTCATATCGCCCAAAGATGAATGGGGCATTTGCAGTAGCAAATAAGAACC
1 GTACGCCAACTCAGTGTCATATCGCCCAAAGATGAATGGGGCATTTGCAGTAGCAAATAAGAACC
377563 TTAAGAGGATCACTGCAAAGACCACTGAAGCTTACAAGGATGAAACGAGAAGCTACCTTTTGCCT
66 TTAAGAGGATCACTGCAAAGACCACTGAAGCTTACAAGGATGAAACGAGAAGCTACCTTTTGCCT
377628 TATATGCATA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (130 bp):
GTACGCCAACTCAGTGTCATATCGCCCAAAGATGAATGGGGCATTTGCAGTAGCAAATAAGAACC
TTAAGAGGATCACTGCAAAGACCACTGAAGCTTACAAGGATGAAACGAGAAGCTACCTTTTGCCT
Found at i:381132 original size:76 final size:76
Alignment explanation
Indices: 381005--381181 Score: 207
Period size: 76 Copynumber: 2.3 Consensus size: 76
380995 TAACAAGAAA
* * * * *
381005 CAAATGTTGGGGCATGCTGAAA-ACCCTTGTCAATCAGAATCAGGAATGTTGATGTATCCTGAAT
1 CAAATATTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAAC
* *
381069 GTTTATATCAG
66 GCTCATATCAG
* **
381080 CAAA-ATGCTAGGGCATGCTGAAAGCCCCTT-TCAATCAGAATGAAGAATGTTGATGTATTTTGA
1 CAAATAT--TAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGA
381143 ACGCTCATATCAG
64 ACGCTCATATCAG
* *
381156 CAAATATTGGGGCATGCTGAAGGCCC
1 CAAATATTAGGGCATGCTGAAAGCCC
381182 ACAACATCTT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
74 1 0.01
75 21 0.24
76 57 0.66
77 7 0.08
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (76 bp):
CAAATATTAGGGCATGCTGAAAGCCCCTTGTCAATCAGAATCAAGAATGTTGATGTATCCTGAAC
GCTCATATCAG
Found at i:382140 original size:54 final size:54
Alignment explanation
Indices: 382053--382368 Score: 515
Period size: 54 Copynumber: 5.9 Consensus size: 54
382043 AAATCTTGGT
* * * *
382053 AGAAGCCACATGAAAAGATGAATGTGTTGTCAAACGTTTTACGAACATCTGAAC
1 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
382107 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
1 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
*
382161 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAACGTTTTACGAACATCTGAAC
1 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
*
382215 AGAAACCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
1 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
* * *
382269 AGAAACCACAGGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTTAGC
1 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
* * * *
382323 AGAAGCCACAGGAAAGGTTGAATGCGCTGTCAAATGTTTTACGAAC
1 AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
382369 CTGCTATTCT
Statistics
Matches: 246, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 246 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (54 bp):
AGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAAC
Found at i:382762 original size:22 final size:22
Alignment explanation
Indices: 382734--382807 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
382724 TGCACTTTTT
382734 AAAGATGATAGATTTTCACTTC
1 AAAGATGATAGATTTTCACTTC
* * * ** *
382756 AGAGATGACAAATTTTCTTTTT
1 AAAGATGATAGATTTTCACTTC
* **
382778 AAAGATGATAGATTCTCTTTTC
1 AAAGATGATAGATTTTCACTTC
382800 AAAGATGA
1 AAAGATGA
382808 AAGCTTTATG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (22 bp):
AAAGATGATAGATTTTCACTTC
Found at i:383890 original size:3 final size:3
Alignment explanation
Indices: 383856--383918 Score: 63
Period size: 3 Copynumber: 20.0 Consensus size: 3
383846 CAATTTACTT
* * * *
383856 TTA TTA TTG TTA TTT TTA TTTA TTA ATA TTA TTA TTA TACA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
383903 TTA TTTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA
383919 AATAAATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
3 41 0.84
4 8 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:383899 original size:13 final size:13
Alignment explanation
Indices: 383883--383918 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
383873 ATTTATTAAT
383883 ATTATTATTATAC
1 ATTATTATTATAC
**
383896 ATTATTATTATTT
1 ATTATTATTATAC
383909 ATTATTATTA
1 ATTATTATTA
383919 AATAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTATTATTATAC
Found at i:383918 original size:16 final size:16
Alignment explanation
Indices: 383859--383918 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
383849 TTTACTTTTA
* *
383859 TTATTGTTATTTTTAT
1 TTATTATTATTATTAT
*
383875 TTATTAATATTATTA-
1 TTATTATTATTATTAT
*
383890 TTATACATTATTATTAT
1 TTAT-TATTATTATTAT
383907 TTATTATTATTA
1 TTATTATTATTA
383919 AATAAATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.11
16 28 0.78
17 4 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:385168 original size:18 final size:18
Alignment explanation
Indices: 385127--385162 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
385117 TATAATTTTA
385127 CATTTTAATCATTAATTT
1 CATTTTAATCATTAATTT
385145 CATTTTAATCATTAATTT
1 CATTTTAATCATTAATTT
385163 TTTTTTGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
CATTTTAATCATTAATTT
Found at i:385236 original size:12 final size:12
Alignment explanation
Indices: 385219--385303 Score: 83
Period size: 12 Copynumber: 7.4 Consensus size: 12
385209 TTATTTCCTT
*
385219 TTATTTTAATCA
1 TTATTTTAATTA
385231 TTATTTGTAA-TA
1 TTATTT-TAATTA
385243 TTATTTT-ATTA
1 TTATTTTAATTA
385254 TTA-TTT--TTA
1 TTATTTTAATTA
*
385263 TTATTTTATTTA
1 TTATTTTAATTA
*
385275 TTTGTTTTAATTA
1 -TTATTTTAATTA
385288 TTATTTT-ATTA
1 TTATTTTAATTA
385299 TTATT
1 TTATT
385304 ATTATTTATA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
9 6 0.10
10 7 0.11
11 15 0.24
12 22 0.35
13 13 0.21
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (12 bp):
TTATTTTAATTA
Found at i:385254 original size:3 final size:3
Alignment explanation
Indices: 385241--385309 Score: 65
Period size: 3 Copynumber: 23.3 Consensus size: 3
385231 TTATTTGTAA
* *
385241 TAT TAT T-T TAT TAT TAT TTT TAT TAT T-T TATT TAT T-T GTTT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT T-AT
385286 TAT TAT T-T TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
385310 TATATAAATA
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
2 7 0.12
3 43 0.77
4 6 0.11
ACGTcount: A:0.26, C:0.00, G:0.01, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:385255 original size:20 final size:20
Alignment explanation
Indices: 385230--385300 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
385220 TATTTTAATC
385230 ATTATTTGTAATATTATTTT
1 ATTATTTGTAATATTATTTT
**
385250 ATTATTAT-TTTTATTATTTT
1 ATTATT-TGTAATATTATTTT
385270 ATTTATTTGTTTTAATTATTATTTT
1 A-TTATTTG---TAA-TATTATTTT
385295 ATTATT
1 ATTATT
385301 ATTATTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 18 0.45
21 6 0.15
24 6 0.15
25 10 0.25
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTATTTGTAATATTATTTT
Found at i:385258 original size:45 final size:45
Alignment explanation
Indices: 385219--385309 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
385209 TTATTTCCTT
385219 TTATTTTAATCATTAT-TTGTAA-TATTATTTTATTATTATTTTTA
1 TTATTTTAATCATT-TGTTGTAATTATTATTTTATTATTATTTTTA
* * * *
385263 TTATTTTATTTATTTGTTTTAATTATTATTTTATTATTATTATTA
1 TTATTTTAATCATTTGTTGTAATTATTATTTTATTATTATTTTTA
385308 TT
1 TT
385310 TATATAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 17 0.41
45 23 0.56
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (45 bp):
TTATTTTAATCATTTGTTGTAATTATTATTTTATTATTATTTTTA
Found at i:385263 original size:17 final size:18
Alignment explanation
Indices: 385243--385310 Score: 76
Period size: 17 Copynumber: 4.0 Consensus size: 18
385233 ATTTGTAATA
385243 TTATT-TTATTATTATTT
1 TTATTATTATTATTATTT
385260 TTATTATT-TTATTTATTT
1 TTATTATTATTA-TTATTT
385278 GTT-TTA--ATTATTA-TT
1 -TTATTATTATTATTATTT
385293 TTATTATTATTATTATTT
1 TTATTATTATTATTATTT
385311 ATATAAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.05
15 5 0.12
16 3 0.07
17 18 0.42
18 13 0.30
19 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.74
Consensus pattern (18 bp):
TTATTATTATTATTATTT
Found at i:385403 original size:15 final size:15
Alignment explanation
Indices: 385383--385419 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
385373 ATTTCATAAA
385383 ATATTTTTAATA-AT
1 ATATTTTTAATATAT
385397 CATA-TTTTAATATAT
1 -ATATTTTTAATATAT
385412 ATATTTTT
1 ATATTTTT
385420 TTTAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATTTTTAATATAT
Found at i:385521 original size:20 final size:19
Alignment explanation
Indices: 385496--385537 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
385486 CTATTTTATA
385496 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
385516 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
385535 AAT
1 AAT
385538 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:385621 original size:113 final size:111
Alignment explanation
Indices: 385401--385622 Score: 236
Period size: 112 Copynumber: 2.0 Consensus size: 111
385391 AATAATCATA
* * *
385401 TTTTAATATATATATTTTTTTTAATATTAAGAAAAAGACTGTCTTAAAACACCTAGAAGTCTGTT
1 TTTTAATATATATATTTTTTTTAATATAAAGAAAAAGACCGTCTTAAAACACCTAGAAGTCTATT
* ** * * *
385466 TTCTGATATTTTTAAATATCCTATTTTATAAATTATATATTAATTG
66 TTCTGATATTTCTAAATATAATAATATATAAATTATAAATTAATTG
* **
385512 TTTTAAT-TATTTATTTATTTTTTAATATCAAAG-AAAAGAGCCGTCTTAAGGCACCTAGAAGTC
1 TTTTAATATATATA-TT-TTTTTTAATAT-AAAGAAAAAGA-CCGTCTTAAAACACCTAGAAGTC
* *
385575 -ATTTTCTGATATTTCTAAATA-AATAAATATCTTAATGTATAAATTAAT
62 TATTTTCTGATATTTCTAAATATAAT-AATATATAAAT-TATAAATTAAT
385623 AGATTTTCTT
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
110 5 0.05
111 10 0.11
112 43 0.47
113 33 0.36
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (111 bp):
TTTTAATATATATATTTTTTTTAATATAAAGAAAAAGACCGTCTTAAAACACCTAGAAGTCTATT
TTCTGATATTTCTAAATATAATAATATATAAATTATAAATTAATTG
Found at i:388404 original size:20 final size:20
Alignment explanation
Indices: 388379--388425 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
388369 TGGGATATAT
*
388379 CATCAACCTATACTTCAAAC
1 CATCAACCTATACCTCAAAC
388399 CATCAACCTATACCTCAAAC
1 CATCAACCTATACCTCAAAC
388419 CATCAAC
1 CATCAAC
388426 ACCAATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (20 bp):
CATCAACCTATACCTCAAAC
Found at i:398194 original size:3 final size:3
Alignment explanation
Indices: 398178--398244 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
398168 CACTAAATTT
* * * * * *
398178 TTA TTA GTA GTA TTA TTT TTA TTT TTA TTA ATA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
398226 -TG TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
398245 AATAATAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
2 3 0.06
3 47 0.94
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:399655 original size:18 final size:18
Alignment explanation
Indices: 399632--399669 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
399622 ATTAGTCATA
*
399632 TAAATA-TATATATTTGTT
1 TAAATATTAT-TATTTATT
399650 TAAATATTATTATTTATT
1 TAAATATTATTATTTATT
399668 TA
1 TA
399670 TTTTTCGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TAAATATTATTATTTATT
Found at i:408598 original size:75 final size:75
Alignment explanation
Indices: 408493--408637 Score: 218
Period size: 75 Copynumber: 1.9 Consensus size: 75
408483 GCAAATGCTA
* * *
408493 GGGCATGCTGAAAGCCCATTTCAATTAGAATCAAGAATATTGACTCATTTTGAACATTTGTATCA
1 GGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACGCATTTTGAACATTCGTATCA
*
408558 GTAAATACTG
66 ATAAATACTG
* * * *
408568 GGGCATGTTGAAAGCTCATTTCAATCAGAATCAGGAATGTTGACGCATTTTGAACATTCGTATCA
1 GGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACGCATTTTGAACATTCGTATCA
408633 ATAAA
66 ATAAA
408638 CGTTGGGGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (75 bp):
GGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACGCATTTTGAACATTCGTATCA
ATAAATACTG
Found at i:408645 original size:75 final size:75
Alignment explanation
Indices: 408493--408654 Score: 216
Period size: 75 Copynumber: 2.2 Consensus size: 75
408483 GCAAATGCTA
* * * *
408493 GGGCATGCTGAAAGCCCATTTCAATTAGAATCAAGAATATTGACTCATTTTGAACATTTGTATCA
1 GGGCATGATGAAAGCCCATTTCAATCAGAATCAAGAATATTGACGCATTTTGAACATTCGTATCA
* *
408558 GTAAATACTG
66 ATAAACACTG
* * * *
408568 GGGCATGTTGAAAGCTCATTTCAATCAGAATCAGGAATGTTGACGCATTTTGAACATTCGTATCA
1 GGGCATGATGAAAGCCCATTTCAATCAGAATCAAGAATATTGACGCATTTTGAACATTCGTATCA
**
408633 ATAAACGTTG
66 ATAAACACTG
408643 GGGCATGATGAA
1 GGGCATGATGAA
408655 GATCCATATC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (75 bp):
GGGCATGATGAAAGCCCATTTCAATCAGAATCAAGAATATTGACGCATTTTGAACATTCGTATCA
ATAAACACTG
Found at i:409593 original size:44 final size:42
Alignment explanation
Indices: 409510--409595 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 42
409500 CAGAAAATAC
* * * *
409510 AAGAAATGATGAATGTTTGTCAATGCTTTACGAATATCTGGG
1 AAGAAAGGATGAATGGTTGTAAATGCTTTACGAACATCTGGG
409552 AAGAAAGGATGAATGCGTTGTAAAATGCTTTACGAACATCTGGG
1 AAGAAAGGATGAATG-GTTGT-AAATGCTTTACGAACATCTGGG
409596 TAAAAACCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 14 0.37
43 4 0.11
44 20 0.53
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (42 bp):
AAGAAAGGATGAATGGTTGTAAATGCTTTACGAACATCTGGG
Found at i:410033 original size:22 final size:22
Alignment explanation
Indices: 410005--410130 Score: 150
Period size: 22 Copynumber: 5.7 Consensus size: 22
409995 ACATCTACAT
410005 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
410027 TCTTCAAAGATGATAGCTACAT-
1 TCTTCAAAGATGATAGATTC-TC
410049 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
410071 TCTTCAAAGATGATA-ACTACAT-
1 TCTTCAAAGATGATAGA-TTC-TC
* *
410093 TCTTCAAAGATGACAGGTTCTC
1 TCTTCAAAGATGATAGATTCTC
*
410115 TCTTTAAAGATGATAG
1 TCTTCAAAGATGATAG
410131 TTTTATTGGA
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.03
22 83 0.94
23 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:410049 original size:44 final size:44
Alignment explanation
Indices: 409999--410130 Score: 228
Period size: 44 Copynumber: 3.0 Consensus size: 44
409989 ATATCTACAT
409999 CTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAG
1 CTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAG
*
410043 CTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAA
1 CTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAG
* * *
410087 CTACATTCTTCAAAGATGACAGGTTCTCTCTTTAAAGATGATAG
1 CTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAG
410131 TTTTATTGGA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 83 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (44 bp):
CTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAG
Found at i:410679 original size:112 final size:112
Alignment explanation
Indices: 410482--411260 Score: 892
Period size: 112 Copynumber: 6.9 Consensus size: 112
410472 GATTCAGATC
* * * *
410482 CATCATTCGATGGATCAATATT-CTCAGATAGAGTTCATAATGAGAAGAACTCATATGAAG-AGG
1 CATCACTCGATGGATCAACATTGC-CGGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
*
410545 AA-AAAGAAGTTCTTAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
64 AAGAAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
*
410594 CATCACTCGATGGATCAACATTGCCGGAAGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAA
1 CATCACTCGATGGATCAACATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
410659 GAAAAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCGAATT
66 GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * *
410706 CATCACTCGATGGATCAACATTGCCGGAAGGGTTCATAACGAGAAGAACTCATCTGAAGAACGAA
1 CATCACTCGATGGATCAACATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
410771 GAAAAAGTTTATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
66 GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * *
410818 CATCACTCAATGGATCAGCATTGCCGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 CATCACTCGATGGATCAACATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
410883 TAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
66 GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
** * *
410930 CATCACTCGATGGATCAGTATTGCTAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GA
1 CATCACTCGATGGATCAACATTGC-CGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
410994 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTAG--C---TT
65 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * * * * *
411036 GATCA----ATGGATCAACTTTTCCATGTAGAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
1 CATCACTCGATGGATCAACATTGCC-GGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
411096 AGAAGAAA-TTCATAATGAGAAGAGCTTGTTCAACCTTTTGCAT-GACACTAT
65 AGAA-AAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGA-A-T-T
* * * ** * *
411147 CATAGAAGAAGATAGATCAACATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTG
1 CAT-----CA-CTCGAT--GGATCAACATTGCCGGAA-GAGTTCATAATGAGAAGAACTCATCTG
* * * *
411212 AA-AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCT
57 AAGAAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCT
411261 AGATTACATT
Statistics
Matches: 580, Mismatches: 55, Indels: 54
0.84 0.08 0.08
Matches are distributed among these distances:
101 1 0.00
102 73 0.13
103 7 0.01
106 6 0.01
109 1 0.00
110 1 0.00
111 37 0.06
112 332 0.57
113 38 0.07
116 1 0.00
121 2 0.00
122 5 0.01
123 76 0.13
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (112 bp):
CATCACTCGATGGATCAACATTGCCGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATT
Found at i:411083 original size:31 final size:33
Alignment explanation
Indices: 411000--411083 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 33
410990 AAGAAGAAGA
*
411000 AGTTCATAATGAGAAGAACTTGTTCAACTTTAG
1 AGTTCATAATGAGAAGAACTTGTTCAACTGTAG
* * ** *
411033 -CTTGATCAATG-GATCAACTT-TTCCA-TGTAG
1 AGTTCAT-AATGAGAAGAACTTGTTCAACTGTAG
411063 AGTTCATAATGAGAAGAACTT
1 AGTTCATAATGAGAAGAACTT
411084 ATCTGAAGAG
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
30 8 0.21
31 15 0.39
32 11 0.29
33 4 0.11
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (33 bp):
AGTTCATAATGAGAAGAACTTGTTCAACTGTAG
Found at i:411655 original size:22 final size:22
Alignment explanation
Indices: 411621--411675 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
411611 AGTTTACATC
*
411621 CCAGCTGCCGCCGCCACAGCTT
1 CCAGCCGCCGCCGCCACAGCTT
* *
411643 CCAGCCGCTGCCGCCTCAGCTT
1 CCAGCCGCCGCCGCCACAGCTT
*
411665 CTAGCCGCCGC
1 CCAGCCGCCGC
411676 TGCCGATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.11, C:0.51, G:0.24, T:0.15
Consensus pattern (22 bp):
CCAGCCGCCGCCGCCACAGCTT
Found at i:417179 original size:2 final size:2
Alignment explanation
Indices: 417174--417231 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
417164 TGGTTATACA
417174 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
417216 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
417232 CCCTTCATAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:417452 original size:81 final size:81
Alignment explanation
Indices: 417304--417454 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
417294 TCAACAGTGT
* * ** * *
417304 TTAACCCTTTATCTAACTGGCATAATTGACACATTTCTGCCAATTGCATAGTTAGACCATTATTC
1 TTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAACTAGACCATCAATC
417369 TTTTACTCAACGGTAC
66 TTTTACTCAACGGTAC
* * * * *
417385 TTAACCGTTCATCTAACTGGCATAGTTGACAC-TTTTTGTCAATTGCACAACTAGGCCATCACAT
1 TTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAACTAGACCATCA-AT
417449 CTTTTA
65 CTTTTA
417455 TTTTGGAATA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 22 0.38
81 36 0.62
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (81 bp):
TTAACCCTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAACTAGACCATCAATC
TTTTACTCAACGGTAC
Found at i:417914 original size:57 final size:57
Alignment explanation
Indices: 417786--418327 Score: 662
Period size: 57 Copynumber: 9.5 Consensus size: 57
417776 GTCCAATACA
* * * ** *
417786 GAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCCATCT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
* * *
417844 GGAAATTCATACACTTAG-ATGATTTCCTTATCATTTTAGCGTACGAAACGCCCTATAT
1 -GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCATACGAAACGCCCTATCT
* * * * *
417902 GAAATTCATACACTTGGTATGATTTTTTAAAATTTTAGCGTACGAAACACCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
* * *
417959 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACACTCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
* * * *
418016 GAAATTCATACACTTAGTATAATTTCTTAACATTTTAGCGTACGAAATC-CAC-ATAT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAA-CGCCCTATCT
* * * * * * *
418072 GAAATTAATACACTTAGTTTGAGTTCTTAACATTTTAGCGTACAAAACACCTTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
* *
418129 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAG-ATTACAAAAC-ACCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCA-TACGAAACGCCCTATCT
* * *
418185 GAAATTCATACACTTAATATGATTTCTTAACATTTTAGCATACAAAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
* * * * *
418242 AAAATTCATACACTTAGTATGATTTCCTAACTTTTTGGCATACAAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
418299 GAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
418328 TATTTTTCAC
Statistics
Matches: 426, Mismatches: 49, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.00
56 96 0.23
57 276 0.65
58 36 0.08
59 17 0.04
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCTATCT
Found at i:418120 original size:113 final size:113
Alignment explanation
Indices: 417786--418327 Score: 660
Period size: 113 Copynumber: 4.8 Consensus size: 113
417776 GTCCAATACA
* * * *
417786 GAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCC-ATCTGGAAAT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCATACGAA--ACCCCTATCT-GAAAT
* * * * *
417850 TCATACACTTAG-ATGATTTCCTTATCATTTTAGCGTACGAAACGCCCTATAT
62 TCATACACTTAGTATGATTT-CTTAACATTTTAGCATACAAAACACCCTATCT
* * * *
417902 GAAATTCATACACTTGGTATGATTTTTTAAAATTTTAGCGTACGAAACACCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAAC-CCCTATCTGAAATTCA
** *
417967 TACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACACTCTATCT
65 TACACTTAGTATGATTTCTTAACATTTTAGCATACAAAACACCCTATCT
* * * * *
418016 GAAATTCATACACTTAGTATAATTTCTTAACATTTTAGCGTACGAAATCCAC-ATATGAAATTAA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAA-CCCCTATCTGAAATTCA
* * * *
418080 TACACTTAGTTTGAGTTCTTAACATTTTAGCGTACAAAACACCTTATCT
65 TACACTTAGTATGATTTCTTAACATTTTAGCATACAAAACACCCTATCT
* *
418129 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAG-ATTACAAAACACCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCA-TACGAAACCCCTATCTGAAATTCA
* **
418193 TACACTTAATATGATTTCTTAACATTTTAGCATACAAAATGCCCTATCT
65 TACACTTAGTATGATTTCTTAACATTTTAGCATACAAAACACCCTATCT
* * * * *
418242 AAAATTCATACACTTAGTATGATTTCCTAACTTTTTGGCATACAAAACGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAAC-CCCTATCTGAAATTCA
418307 TACACTTAGTATGATTTCTTA
65 TACACTTAGTATGATTTCTTA
418328 TATTTTTCAC
Statistics
Matches: 370, Mismatches: 48, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
112 2 0.01
113 190 0.51
114 127 0.34
115 31 0.08
116 20 0.05
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (113 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACCCCTATCTGAAATTCAT
ACACTTAGTATGATTTCTTAACATTTTAGCATACAAAACACCCTATCT
Found at i:418122 original size:170 final size:169
Alignment explanation
Indices: 417786--418327 Score: 714
Period size: 170 Copynumber: 3.2 Consensus size: 169
417776 GTCCAATACA
* * * * *
417786 GAAATTCATACACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGC-CCCATCTGGAAAT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCATACGAA--ACACCTATCT-GAAAT
* *
417850 TCATACACTTAG-ATGATTTCCTTATCATTTTAGCGTACGAAACGCCCTATATGAAATTCATACA
62 TCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAA-TCCCTATATGAAATTCATACA
* * * *
417914 CTTGGTATGATTTTTTAAAATTTTAGCGTACGAAACACCCTATCT
125 CTTAGTATGATTTCTTAACATTTTAGCGTACAAAACACCCTATCT
*
417959 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACACTCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACAC-CTATCTGAAATTCA
* *
418024 TACACTTAGTATAATTTCTTAACATTTTAGCGTACGAAATCCAC-ATATGAAATTAATACACTTA
65 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATCC-CTATATGAAATTCATACACTTA
* * *
418088 GTTTGAGTTCTTAACATTTTAGCGTACAAAACACCTTATCT
129 GTATGATTTCTTAACATTTTAGCGTACAAAACACCCTATCT
*
418129 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAG-ATTACAAAACACCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCA-TACGAAACACCTATCTGAAATTCA
* * * * *
418193 TACACTTAATATGATTTCTTAACATTTTAGCATACAAAATGCCCTATCTAAAATTCATACACTTA
65 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAAT-CCCTATATGAAATTCATACACTTA
* * * * *
418258 GTATGATTTCCTAACTTTTTGGCATACAAAACGCCCTATCT
129 GTATGATTTCTTAACATTTTAGCGTACAAAACACCCTATCT
418299 GAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
418328 TATTTTTCAC
Statistics
Matches: 328, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
169 52 0.16
170 183 0.56
171 40 0.12
172 32 0.10
173 21 0.06
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (169 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACACCTATCTGAAATTCAT
ACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAATCCCTATATGAAATTCATACACTTAGT
ATGATTTCTTAACATTTTAGCGTACAAAACACCCTATCT
Found at i:422451 original size:22 final size:22
Alignment explanation
Indices: 422423--422935 Score: 782
Period size: 22 Copynumber: 23.5 Consensus size: 22
422413 CATTTAAATC
* *
422423 TATTTTAAAATCTGAATTGATT
1 TATTTTAAAATATGGATTGATT
422445 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
* **
422467 TACTTTAAAATATGGGA-AAATT
1 TATTTTAAAATAT-GGATTGATT
422489 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
**
422511 TATTTTAAAATATGGA-AAATT
1 TATTTTAAAATATGGATTGATT
422532 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
422554 TATTTTAAAATATGGAATGATT
1 TATTTTAAAATATGGATTGATT
422576 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
422598 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
** *
422620 TATTTTAAAATAT-GA-AAAAT
1 TATTTTAAAATATGGATTGATT
*
422640 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
* *
422662 TATTTTAAAATATGAAATGATT
1 TATTTTAAAATATGGATTGATT
422684 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
422706 TATTTTAAAATATGGATTCATT
1 TATTTTAAAATATGGATTGATT
* * *
422728 TAGTTTAAAATATAGATTGGTT
1 TATTTTAAAATATGGATTGATT
422750 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
422772 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
422794 TAATTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
422816 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
422838 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
***
422860 TATTTTAAAATATGGAAAAATT
1 TATTTTAAAATATGGATTGATT
422882 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGGATTGATT
*
422904 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGGATTGATT
422926 TATTTTAAAA
1 TATTTTAAAA
422936 AAATTATTAT
Statistics
Matches: 445, Mismatches: 41, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
20 15 0.03
21 25 0.06
22 402 0.90
23 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.48
Consensus pattern (22 bp):
TATTTTAAAATATGGATTGATT
Found at i:423016 original size:31 final size:31
Alignment explanation
Indices: 422959--423017 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
422949 AGTTGTATGG
* *
422959 ATTATTTAAATTTTAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
422990 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
423018 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:424243 original size:59 final size:57
Alignment explanation
Indices: 424173--424547 Score: 246
Period size: 57 Copynumber: 6.5 Consensus size: 57
424163 GTCCAATACA
* * *
424173 GAAATTGATACACTTAGTATGAATTTCTTATTATGTTAGCACATGAAGTA-ACT-CATCT
1 GAAATTCATACACTTAGTATG-ATTTCTTATCATGTTAGCACACGAA--ACACTGCATCT
* * ** *
424231 GGAAATTCATACACTTAGTATGTTTTCCTTATCATTTTAGCGTACGAAACACTGTATCT
1 -GAAATTCATACACTTAGTATGATTT-CTTATCATGTTAGCACACGAAACACTGCATCT
* * * * *
424290 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGA-ACAAAACGC-CCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGC-ACACGAAACACTGC-ATCT
* * ** * *
424347 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGGAACGACCTAG-A--T
1 GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGCACACGAAAC-A-CT-GCATCT
* * * * * ** * * * *
424404 GAAATTAATACACTTATTATGATTTCTGAACATTTTAGCGTACAAAACGC-CCTATAT
1 GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGCACACGAAACACTGC-ATCT
* * * ** *
424461 GAAATTCATACACTCAGTATGATTTCTTAACATTTTAGCGTACGAAACAC-CCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGCACACGAAACACTGC-ATCT
*
424518 AAAATTCATACACTTAGTATGATTTCTTAT
1 GAAATTCATACACTTAGTATGATTTCTTAT
424548 ATTTTGCACA
Statistics
Matches: 263, Mismatches: 39, Indels: 30
0.79 0.12 0.09
Matches are distributed among these distances:
55 2 0.01
57 189 0.72
58 30 0.11
59 42 0.16
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTATCATGTTAGCACACGAAACACTGCATCT
Found at i:424351 original size:57 final size:57
Alignment explanation
Indices: 424227--424546 Score: 442
Period size: 57 Copynumber: 5.6 Consensus size: 57
424217 GAAGTAACTC
* * * **
424227 ATCTGGAAATTCATACACTTAGTATGTTTTCCTTATCATTTTAGCGTACGAAACACTGT
1 ATCT-GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCT
* *
424286 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGAACAAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * *
424343 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTATGGAACGACCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
** * * * *
424400 AGATGAAATTAATACACTTATTATGATTTCTGAACATTTTAGCGTACAAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * *
424457 ATATGAAATTCATACACTCAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
*
424514 ATCTAAAATTCATACACTTAGTATGATTTCTTA
1 ATCTGAAATTCATACACTTAGTATGATTTCTTA
424547 TATTTTGCAC
Statistics
Matches: 230, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
57 202 0.88
58 24 0.10
59 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (57 bp):
ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
Found at i:424468 original size:171 final size:172
Alignment explanation
Indices: 424232--424546 Score: 488
Period size: 171 Copynumber: 1.8 Consensus size: 172
424222 AACTCATCTG
* * * * * ** *
424232 GAAATTCATACACTTAGTATGTTTTCCTTATCATTTTAGCGTACGAAACACTGTATCTGAAATTC
1 GAAATTAATACACTTAGTATGATTTCCTGAACATTTTAGCGTACAAAACACCCTATATGAAATTC
* * *
424297 ATACACTTAGTATGATTTCTTAACATTTTAGCGAACAAAACGCCCTATCTGAAATTCATACACTT
66 ATACACTCAGTATGATTTCTTAACATTTTAGCGAACAAAACACCCTATCTAAAATTCATACACTT
424362 AGTATGATTTCTTAACATTTTAGCGTATGGAACGACCTAGAT
131 AGTATGATTTCTTAACATTTTAGCGTATGGAACGACCTAGAT
* *
424404 GAAATTAATACACTTATTATGATTT-CTGAACATTTTAGCGTACAAAACGCCCTATATGAAATTC
1 GAAATTAATACACTTAGTATGATTTCCTGAACATTTTAGCGTACAAAACACCCTATATGAAATTC
* *
424468 ATACACTCAGTATGATTTCTTAACATTTTAGCGTACGAAACACCCTATCTAAAATTCATACACTT
66 ATACACTCAGTATGATTTCTTAACATTTTAGCGAACAAAACACCCTATCTAAAATTCATACACTT
424533 AGTATGATTTCTTA
131 AGTATGATTTCTTA
424547 TATTTTGCAC
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
171 106 0.83
172 22 0.17
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (172 bp):
GAAATTAATACACTTAGTATGATTTCCTGAACATTTTAGCGTACAAAACACCCTATATGAAATTC
ATACACTCAGTATGATTTCTTAACATTTTAGCGAACAAAACACCCTATCTAAAATTCATACACTT
AGTATGATTTCTTAACATTTTAGCGTATGGAACGACCTAGAT
Found at i:424822 original size:2 final size:2
Alignment explanation
Indices: 424815--424845 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
424805 GGTTATACAT
424815 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
424846 TATCCATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:425881 original size:56 final size:57
Alignment explanation
Indices: 425457--426115 Score: 937
Period size: 57 Copynumber: 11.6 Consensus size: 57
425447 GAAGTAACCC
* * *
425457 ATCTGGAAATTCATACACTTAGGATGATTTACTTATCATTTTAGCGTACGAAACGACCT
1 ATCT-GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCT
* ** *
425516 ATCTGAAATTCATACACTTGGTATGATTTCTTAACATTTTAGCGTATAAAACACCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * * *
425573 ATATGAAATTGATACACTTGGTATGATTTTTTAACATTTTAGCGTACGAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * *
425630 ATTTGAAATTCAAACACTTAGTATGATTTCTTAACATTTTAACGTACGAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
** *
425687 ATCTGAAATGGATACACTTAGTATGATTTCTTAACATTTTAGCATACGAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
** * *
425744 ATCTGAAATGGATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAAACGCCAT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * *
425801 ATCTGAAATTCATACACTTTGTATGATTTCTTAACACTTTAGCGTA-AAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
*
425857 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAAC-CCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * * * *
425913 ATATGAAATTCACACACTTACTATAATTTCTTAACATTTTAGCGTACGAAACGCCTT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * *
425970 ATCTGAAATTCATA-AATTAGTAGGATTTCTTAACATTTTAGCGTACAAAACGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
* * * *
426026 ATCTGAAATTCATACAGTTAGTATGATTTCTCAACATTTTAACGTACGAAATGCCCT
1 ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
*
426083 ATCTGAAATTCATACACTTATTATGATTTCTTA
1 ATCTGAAATTCATACACTTAGTATGATTTCTTA
426116 TATTTTGCAC
Statistics
Matches: 538, Mismatches: 59, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
56 153 0.28
57 358 0.67
58 23 0.04
59 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (57 bp):
ATCTGAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCT
Found at i:426593 original size:95 final size:93
Alignment explanation
Indices: 426446--426671 Score: 213
Period size: 95 Copynumber: 2.4 Consensus size: 93
426436 TTTAGTCCTT
* * * * * *
426446 TGGTATCGATACCCAATCTATGGTATTGATTCTACCCTATTAGGGTATCGATACCCCCT-TAATG
1 TGGTATCGATACCC-TTCCATGGTATCGATAC--CCCTATTAGGGTACCGATACCCCCTCT-AGG
* * *
426510 TATCAATACCGAAATTAGCTTC-TATATAGCC
62 TATCAATACCCAAATTAGATTCATATATAGAC
*
426541 TGGTATCGATACCCTCTCCATGGTATCGATACCCCTATGTTATGGTACCGATACCCCCTCTAGGT
1 TGGTATCGATACCCT-TCCATGGTATCGATACCCCTA--TTAGGGTACCGATACCCCCTCTAGGT
* * * * **
426606 ATCGATACCCAATTTATATTCGATATTTTTAC
63 ATCAATACCCAAATTAGATTC-ATATATAGAC
426638 TGGTATCGATACCCTTACCATGGTATCGATACCC
1 TGGTATCGATACCCTT-CCATGGTATCGATACCC
426672 TTACCATGGT
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
93 5 0.05
95 64 0.59
96 2 0.02
97 37 0.34
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (93 bp):
TGGTATCGATACCCTTCCATGGTATCGATACCCCTATTAGGGTACCGATACCCCCTCTAGGTATC
AATACCCAAATTAGATTCATATATAGAC
Found at i:426663 original size:20 final size:20
Alignment explanation
Indices: 426638--426691 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
426628 ATATTTTTAC
426638 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
426658 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
*
426678 TGGTATCCATACCC
1 TGGTATCGATACCC
426692 CATTTCTTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCCTTACCA
Found at i:429020 original size:2 final size:2
Alignment explanation
Indices: 429013--429043 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
429003 CCATAAAAGC
429013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
429044 CTTTCTGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:431478 original size:57 final size:57
Alignment explanation
Indices: 431307--431906 Score: 763
Period size: 57 Copynumber: 10.5 Consensus size: 57
431297 GTCCAATACA
* * * ** ** *
431307 GAAATTCATAAACTTAGTATGAATTTCTTATCATGTTAGCACACGAAGTGCCCCATCT
1 GAAATTCATACACTTAGTATG-ATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
431365 AGAAATTTATACACTTAGTATGATTTCCTTATCATTTAAGCGTACGAAATGCCCTATCT
1 -GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
431424 AAAATTCATACACTTAGTATGATTTATTAACATTTTAGCGTACGGAATGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * * * * * * *
431481 GAAATTCATACACATGGTATGATTTTTTAACATATTAGCATATGAAATGACATATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * * *
431538 GAAATGCATACACTTAGTATGATTTATTAACATTTTAGCGTACGAAATGCTCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *** *
431595 GAAATTTAGACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGTATTATTT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
431652 GAAATTTATACACTTAGTATGATTTCTTAACATTTTAGCGTATGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
431709 GAAATTCATACACTTAGTATG-TTTTTTAACATTTTAGCGTACAAAACGTCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
431765 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCTTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
431822 GAAATTCATACACTTAGTATG-TTTTTTAACATTTTAGCGTACGATACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
431878 GAAATTCATACACTTAGTATGATTTCTTA
1 GAAATTCATACACTTAGTATGATTTCTTA
431907 TATTTTGCAC
Statistics
Matches: 476, Mismatches: 62, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
56 104 0.22
57 300 0.63
58 27 0.06
59 45 0.09
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:432269 original size:20 final size:20
Alignment explanation
Indices: 432244--432302 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 20
432234 TCTGGTCCTT
432244 TGGTATCGATACCCCTTTTA
1 TGGTATCGATACCCCTTTTA
* *
432264 TGGTATCGATACTATCCTATTA
1 TGGTATCGATAC--CCCTTTTA
*
432286 GGGTATCGATACCCCTT
1 TGGTATCGATACCCCTT
432303 AAGGTATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (20 bp):
TGGTATCGATACCCCTTTTA
Found at i:432310 original size:18 final size:18
Alignment explanation
Indices: 432245--432316 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
432235 CTGGTCCTTT
*
432245 GGTATCGATACCCCTTTTAT
1 GGTATCGATACCCC--TTAA
* *
432265 GGTATCGATACTATCCTATTAG
1 GGTATCGATAC---CC-CTTAA
432287 GGTATCGATACCCCTTAA
1 GGTATCGATACCCCTTAA
*
432305 GGTATCAATACC
1 GGTATCGATACC
432317 GAAATTAGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
18 14 0.33
19 2 0.05
20 11 0.26
22 14 0.33
23 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (18 bp):
GGTATCGATACCCCTTAA
Found at i:433822 original size:29 final size:30
Alignment explanation
Indices: 433791--433854 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
433781 CTGTATGTTA
433791 TTTAGACC-CTTAAGTTTCTATTTTTATTAT
1 TTTAG-CCTCTTAAGTTTCTATTTTTATTAT
* *
433821 TTTAGCCTTTTAAGTTTCT-TTTTTTTTCAT
1 TTTAGCCTCTTAAGTTTCTATTTTTATT-AT
433851 TTTA
1 TTTA
433855 TTCTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.19, C:0.12, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTAGCCTCTTAAGTTTCTATTTTTATTAT
Found at i:440624 original size:19 final size:19
Alignment explanation
Indices: 440602--440653 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
440592 AGAAAATGAT
*
440602 AAAAAAAGGGAAAAAAAGA
1 AAAAAAAGAGAAAAAAAGA
* *
440621 AAAAAAAAAGAAAGAAAGA
1 AAAAAAAGAGAAAAAAAGA
440640 AAGAAAAAGA-AAAA
1 AA-AAAAAGAGAAAA
440654 GTGAAAATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAGAAAAAAAGA
Found at i:440659 original size:18 final size:18
Alignment explanation
Indices: 440611--440651 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
440601 TAAAAAAAGG
* *
440611 GAAAAAAAGAAAAAAAAAA
1 GAAAGAAAG-AAAGAAAAA
440630 GAAAGAAAGAAAGAAAAA
1 GAAAGAAAGAAAGAAAAA
440648 GAAA
1 GAAA
440652 AAGTGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAGAAAAA
Found at i:441922 original size:44 final size:45
Alignment explanation
Indices: 441874--442083 Score: 145
Period size: 44 Copynumber: 4.8 Consensus size: 45
441864 GCATTGCCTT
*
441874 TTTGCTCAATTCAATCACATCAACAGTTGA-ATCAACATCAACA-C
1 TTTGCTCGATTCAATCACATCAACAGTTGAGATCAACATC-ACATC
* * * *
441918 TTTGCTCGATTCCATCATAT-AACAAGTT-AGATCATCATCACATT
1 TTTGCTCGATTCAATCACATCAAC-AGTTGAGATCAACATCACATC
* * *
441962 TTTGCTCGATTCAATCACATCAAGAGTTG-GAT-AATCACCAGTAT-
1 TTTGCTCGATTCAATCACATCAACAGTTGAGATCAA-CATCA-CATC
* * * * * *
442006 TTTACTCGATTCCATTATA-CAAGAAGTTG-GATCAACATCACCT-
1 TTTGCTCGATTCAATCACATCAA-CAGTTGAGATCAACATCACATC
* *
442049 TTTCACTCGATTCAATCACATCAGCAGTTG-GATCA
1 TTT-GCTCGATTCAATCACATCAACAGTTGAGATCA
442084 GCACCAGTAC
Statistics
Matches: 131, Mismatches: 24, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
43 15 0.11
44 108 0.82
45 8 0.06
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (45 bp):
TTTGCTCGATTCAATCACATCAACAGTTGAGATCAACATCACATC
Found at i:442092 original size:88 final size:88
Alignment explanation
Indices: 441789--442089 Score: 311
Period size: 88 Copynumber: 3.4 Consensus size: 88
441779 TTCAACCTCA
* * * * *
441789 ACTCGATTCAATCACATCAGGAGTAGGATTAACACAAACACTTTGCTTGATTCC-TTCATATAAG
1 ACTCGATTCAATCACATCAGCAGTTGGATCAACACCAACACTTTGCTCGATTCCATT-ATATAAG
** **
441853 AAGTTGGATCTGCATTGCCTTTTT
65 AAGTTGGATCAACATCACCTTTTT
* * * * * * *
441877 GCTCAATTCAATCACATCAACAGTTGAATCAACATCAACACTTTGCTCGATTCCATCATATAACA
1 ACTCGATTCAATCACATCAGCAGTTGGATCAACACCAACACTTTGCTCGATTCCATTATATAAGA
* * *
441942 AGTTAGATCATCATCACATTTTT
66 AGTTGGATCAACATCACCTTTTT
* ** * * *
441965 GCTCGATTCAATCACATCAAG-AGTTGGAT-AATCACCAGTATTTTACTCGATTCCATTATACAA
1 ACTCGATTCAATCACATC-AGCAGTTGGATCAA-CACCAACACTTTGCTCGATTCCATTATATAA
*
442028 GAAGTTGGATCAACATCACCTTTTC
64 GAAGTTGGATCAACATCACCTTTTT
*
442053 ACTCGATTCAATCACATCAGCAGTTGGATCAGCACCA
1 ACTCGATTCAATCACATCAGCAGTTGGATCAACACCA
442090 GTACTACGTT
Statistics
Matches: 173, Mismatches: 35, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
87 4 0.02
88 166 0.96
89 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (88 bp):
ACTCGATTCAATCACATCAGCAGTTGGATCAACACCAACACTTTGCTCGATTCCATTATATAAGA
AGTTGGATCAACATCACCTTTTT
Found at i:442105 original size:176 final size:176
Alignment explanation
Indices: 441790--442109 Score: 383
Period size: 176 Copynumber: 1.8 Consensus size: 176
441780 TCAACCTCAA
* * * *
441790 CTCGATTCAATCACATCAGGAGTAGGATTAACACAAACACTTTGCTTGATTCCTTCATATAAGAA
1 CTCGATTCAATCACATCAAGAGTAGGATTAACACAAACACTTTACTCGATTCCTTCATACAAGAA
** ** ** * *
441855 GTTGGATCTGCATTGCCTTTTTGCTCAATTCAATCACATCAACAGTTGAATCAACATCAACACTT
66 GTTGGATCAACATCACCTTTTCACTCAATTCAATCACATCAACAGTTGAATCAACACCAACACTA
*
441920 TGCTCGATTCCATCATATAACAAGTTAGATCATCATCACATTTTTG
131 CGCTCGATTCCATCATATAACAAGTTAGATCATCATCACATTTTTG
* * ** *
441966 CTCGATTCAATCACATCAAGAGTTGGA-TAATCACCAGTATTTTACTCGATTCCATT-ATACAAG
1 CTCGATTCAATCACATCAAGAGTAGGATTAA-CACAAACACTTTACTCGATTCC-TTCATACAAG
* * * * **
442029 AAGTTGGATCAACATCACCTTTTCACTCGATTCAATCACATCAGCAGTTGGATCAGCACCAGTAC
64 AAGTTGGATCAACATCACCTTTTCACTCAATTCAATCACATCAACAGTTGAATCAACACCAACAC
*
442094 TACGTTCGATTCCATC
129 TACGCTCGATTCCATC
442110 GGATGAGTTA
Statistics
Matches: 117, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
175 3 0.03
176 112 0.96
177 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (176 bp):
CTCGATTCAATCACATCAAGAGTAGGATTAACACAAACACTTTACTCGATTCCTTCATACAAGAA
GTTGGATCAACATCACCTTTTCACTCAATTCAATCACATCAACAGTTGAATCAACACCAACACTA
CGCTCGATTCCATCATATAACAAGTTAGATCATCATCACATTTTTG
Found at i:448374 original size:21 final size:21
Alignment explanation
Indices: 448348--448401 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
448338 TAAAATTGAT
448348 TTTTGAAAATATATAATATGG
1 TTTTGAAAATATATAATATGG
448369 TTTTGAAAATATATAATATGG
1 TTTTGAAAATATATAATATGG
*
448390 TTTTTAAAATAT
1 TTTTGAAAATAT
448402 GTTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (21 bp):
TTTTGAAAATATATAATATGG
Found at i:448407 original size:13 final size:14
Alignment explanation
Indices: 448383--448414 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
448373 GAAAATATAT
448383 AATATGGTTTTTAA
1 AATATGGTTTTTAA
448397 AATAT-GTTTTTAA
1 AATATGGTTTTTAA
448410 AATAT
1 AATAT
448415 ATATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
AATATGGTTTTTAA
Found at i:448412 original size:34 final size:36
Alignment explanation
Indices: 448362--448433 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 36
448352 GAAAATATAT
*
448362 AATATGGTTTTGAAAATATATA-ATATGGTTTTTAA
1 AATATGGTTTTGAAAATATATATATATAGTTTTTAA
*
448397 AATAT-GTTTTTAAAATATATATTATATAGTTTTTAA
1 AATATGGTTTTGAAAATATATA-TATATAGTTTTTAA
448433 A
1 A
448434 TAATTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 15 0.45
35 5 0.15
36 13 0.39
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.49
Consensus pattern (36 bp):
AATATGGTTTTGAAAATATATATATATAGTTTTTAA
Found at i:448429 original size:36 final size:36
Alignment explanation
Indices: 448362--448528 Score: 123
Period size: 36 Copynumber: 4.8 Consensus size: 36
448352 GAAAATATAT
* *
448362 AATATGGTTTTG-AAA-ATATATAATATGGTTTTTAA
1 AATAT-GTTTTGAAAACATATATTATATAGTTTTTAA
* *
448397 AATATGTTTTTAAAATATATATTATATAGTTTTT-A
1 AATATGTTTTGAAAACATATATTATATAGTTTTTAA
* * *
448432 AATA---ATTGAAAACATATAATATATAGTTTTAAA
1 AATATGTTTTGAAAACATATATTATATAGTTTTTAA
** ** * **
448465 AATAAATTTCAAAAACATATATTATATAATTTCAAA
1 AATATGTTTTGAAAACATATATTATATAGTTTTTAA
*
448501 AACAAT-TTTTGAAAACATATATATATAT
1 AA-TATGTTTTGAAAACATATAT-TATAT
448529 TATAATTTTG
Statistics
Matches: 106, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
32 22 0.21
33 5 0.05
34 5 0.05
35 13 0.12
36 55 0.52
37 6 0.06
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (36 bp):
AATATGTTTTGAAAACATATATTATATAGTTTTTAA
Found at i:448555 original size:41 final size:43
Alignment explanation
Indices: 448480--448569 Score: 121
Period size: 41 Copynumber: 2.1 Consensus size: 43
448470 ATTTCAAAAA
* *
448480 CATATATTATATAATTTCAAAAACAATTTTTGAAAACATATAT
1 CATATATTATATAATTTCAAAAACAACTATTGAAAACATATAT
* * *
448523 -ATATATTATA-ATTTTGAAAAACTACTATTGAAAACATATAT
1 CATATATTATATAATTTCAAAAACAACTATTGAAAACATATAT
448564 CATATA
1 CATATA
448570 ATTTCGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 26 0.63
42 15 0.37
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (43 bp):
CATATATTATATAATTTCAAAAACAACTATTGAAAACATATAT
Found at i:448696 original size:14 final size:13
Alignment explanation
Indices: 448679--448733 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
448669 ATTTTATTCA
448679 TATTATTCATTTTT
1 TATTATT-ATTTTT
448693 TATT-TTATTTTTT
1 TATTATTA-TTTTT
448706 TATTATTATTTTT
1 TATTATTATTTTT
*
448719 TCGATTTTTATTTTT
1 T--ATTATTATTTTT
448734 CAGGTCCAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
12 1 0.03
13 17 0.47
14 7 0.19
15 11 0.31
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (13 bp):
TATTATTATTTTT
Found at i:448718 original size:27 final size:29
Alignment explanation
Indices: 448679--448733 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
448669 ATTTTATTCA
*
448679 TATTATTCATTTTT-TA-TTTTATTTTTT
1 TATTATTCATTTTTCGATTTTTATTTTTT
448706 TATTATT-ATTTTTTCGATTTTTATTTTT
1 TATTATTCA-TTTTTCGATTTTTATTTTT
448734 CAGGTCCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.04
27 12 0.50
28 1 0.04
29 10 0.42
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (29 bp):
TATTATTCATTTTTCGATTTTTATTTTTT
Found at i:450996 original size:2 final size:2
Alignment explanation
Indices: 450989--451054 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
450979 ACTGGAAATG
450989 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
451031 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
451055 GGCTGAATCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:459108 original size:21 final size:22
Alignment explanation
Indices: 459079--459133 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
459069 GTCCGAGATA
459079 ATATATTATATAGTACATATAG
1 ATATATTATATAGTACATATAG
* * *
459101 -TGTATTATATATTATATATAG
1 ATATATTATATAGTACATATAG
459122 ATATATTATATA
1 ATATATTATATA
459134 TTTTTAGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATATTATATAGTACATATAG
Found at i:459117 original size:19 final size:20
Alignment explanation
Indices: 459095--459157 Score: 67
Period size: 19 Copynumber: 3.1 Consensus size: 20
459085 TATATAGTAC
459095 ATATAG-TGTATTATATATTAT
1 ATATAGATGTATTATATA-T-T
*
459116 ATATAGATATATTATATATT
1 ATATAGATGTATTATATATT
* *
459136 -TTTAGAAGTATTATATATT
1 ATATAGATGTATTATATATT
459155 ATA
1 ATA
459158 GATATTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 16 0.46
20 2 0.06
21 7 0.20
22 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATATAGATGTATTATATATT
Found at i:459166 original size:19 final size:19
Alignment explanation
Indices: 459103--459168 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
459093 ACATATAGTG
459103 TATTA-TATATTATATATAGA
1 TATTATTATA-TAT-TATAGA
*
459123 TA-TATTATATATTTTTAGA
1 TATTATTATATA-TTATAGA
*
459142 -AGTATTATATATTATAGA
1 TATTATTATATATTATAGA
459160 TATTATTAT
1 TATTATTAT
459169 GTATATATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 7 0.18
19 25 0.64
20 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TATTATTATATATTATAGA
Found at i:459174 original size:12 final size:13
Alignment explanation
Indices: 459108--459314 Score: 52
Period size: 11 Copynumber: 16.8 Consensus size: 13
459098 TAGTGTATTA
459108 TATATTATATATAG
1 TATATTAT-TATAG
459122 -ATA-TATTATA-
1 TATATTATTATAG
*
459132 TAT-TT-TTAGAAG
1 TATATTATTA-TAG
459144 TATTATATATTATAG
1 TA-TAT-TATTATAG
459159 -ATATTATTAT-G
1 TATATTATTATAG
*
459170 TATA-TATTCTATGG
1 TATATTA-T-TATAG
459184 TAGTATTATT-TA-
1 TA-TATTATTATAG
459196 TAT-TTA-TATAG
1 TATATTATTATAG
459207 TATA-TA-TATACG
1 TATATTATTATA-G
459219 -ATA-T-TTATA-
1 TATATTATTATAG
* *
459228 T-TATTATTGTTG
1 TATATTATTATAG
459240 TATAATTA-TATA-
1 TAT-ATTATTATAG
*
459252 AATATTATATATATG
1 TATATTAT-TATA-G
459267 TATAGATTATTATTAG
1 TAT--ATTATTA-TAG
*
459283 CATA-TATTAT--
1 TATATTATTATAG
459293 TATA-TATTATAG
1 TATATTATTATAG
459305 TATATT-TTAT
1 TATATTATTAT
459315 TATATATTTC
Statistics
Matches: 147, Mismatches: 11, Indels: 72
0.64 0.05 0.31
Matches are distributed among these distances:
9 3 0.02
10 18 0.12
11 36 0.24
12 30 0.20
13 24 0.16
14 11 0.07
15 8 0.05
16 10 0.07
17 7 0.05
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (13 bp):
TATATTATTATAG
Found at i:459279 original size:20 final size:20
Alignment explanation
Indices: 459254--459321 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 20
459244 ATTATATAAA
*
459254 TATTATATATATGTATAGAT
1 TATTATATATATGTATATAT
*
459274 TA-T-TAT-TA-GCATATAT
1 TATTATATATATGTATATAT
*
459290 TATTATATATTATAGTATATTT
1 TATTATATA-TAT-GTATATAT
459312 TATTATATAT
1 TATTATATAT
459322 TTCATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
16 8 0.21
17 3 0.08
18 6 0.16
19 1 0.03
20 4 0.11
21 1 0.03
22 15 0.39
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.54
Consensus pattern (20 bp):
TATTATATATATGTATATAT
Found at i:459314 original size:22 final size:23
Alignment explanation
Indices: 459274--459322 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
459264 ATGTATAGAT
459274 TATTATTAGCATATATTATTATA
1 TATTATTAGCATATATTATTATA
* *
459297 TATTA-TAGTATATTTTATTATA
1 TATTATTAGCATATATTATTATA
459319 TATT
1 TATT
459323 TCATTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTATTAGCATATATTATTATA
Found at i:459345 original size:17 final size:19
Alignment explanation
Indices: 459310--459347 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
459300 TATAGTATAT
*
459310 TTTATTATATATTTCATTA
1 TTTATTATATATCTCATTA
459329 TTTATTATAT-TCT-ATTA
1 TTTATTATATATCTCATTA
459346 TT
1 TT
459348 AATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTATATATCTCATTA
Found at i:473879 original size:7 final size:7
Alignment explanation
Indices: 473858--473900 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
473848 TTCGTCCGAG
473858 ATAGTAT
1 ATAGTAT
*
473865 ATATTAT
1 ATAGTAT
*
473872 ATTGTAT
1 ATAGTAT
473879 A-AGTAT
1 ATAGTAT
473885 ATAGTAT
1 ATAGTAT
473892 ATAGTAT
1 ATAGTAT
473899 AT
1 AT
473901 CATATCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (7 bp):
ATAGTAT
Found at i:473885 original size:20 final size:20
Alignment explanation
Indices: 473860--473899 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
473850 CGTCCGAGAT
* *
473860 AGTATATATTATATTGTATA
1 AGTATATAGTATATAGTATA
473880 AGTATATAGTATATAGTATA
1 AGTATATAGTATATAGTATA
473900 TCATATCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (20 bp):
AGTATATAGTATATAGTATA
Found at i:473905 original size:5 final size:5
Alignment explanation
Indices: 473897--474215 Score: 638
Period size: 5 Copynumber: 63.8 Consensus size: 5
473887 AGTATATAGT
473897 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
473947 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
473997 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
474047 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
474097 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
474147 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
474197 ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATAT
474216 TTTTCTCCTT
Statistics
Matches: 314, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 314 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATC
Found at i:475512 original size:23 final size:23
Alignment explanation
Indices: 475471--475527 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
475461 TAAAAAACTG
*
475471 AAAATAAT-ATTAATAATAATAT
1 AAAATAATAAATAATAATAATAT
*
475493 AAAATAATAAATAATGATAATAT
1 AAAATAATAAATAATAATAATAT
*
475516 ATAAT-ATAAATA
1 AAAATAATAAATA
475528 TACTATAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATAATAAATAATAATAATAT
Found at i:475522 original size:7 final size:7
Alignment explanation
Indices: 475474--475788 Score: 153
Period size: 7 Copynumber: 45.1 Consensus size: 7
475464 AAAACTGAAA
475474 ATAATAT
1 ATAATAT
475481 -TAATA-
1 ATAATAT
475486 ATAATAT
1 ATAATAT
*
475493 AAAATA-
1 ATAATAT
475499 ATAAATAAT
1 AT-AAT-AT
475508 GATAATAT
1 -ATAATAT
475516 ATAATAT
1 ATAATAT
475523 A-AATAT
1 ATAATAT
475529 ACTATAGTAT
1 A-TA-A-TAT
*
475539 ATAATAA
1 ATAATAT
*
475546 ATATATGCT
1 ATA-AT-AT
475555 ATAATAT
1 ATAATAT
*
475562 ATAATAC
1 ATAATAT
* *
475569 AT-ACAC
1 ATAATAT
475575 ATAATAT
1 ATAATAT
*
475582 ATACTAT
1 ATAATAT
*
475589 AT-ATAA
1 ATAATAT
*
475595 ATTATACT
1 ATAATA-T
*
475603 ACAATA-
1 ATAATAT
475609 ATAATAT
1 ATAATAT
475616 ATAATAT
1 ATAATAT
475623 ATAATAT
1 ATAATAT
475630 ATAATAAT
1 ATAAT-AT
** *
475638 ACTACCAC
1 A-TAATAT
*
475646 AAAATAT
1 ATAATAT
*
475653 ATCATAT
1 ATAATAT
*
475660 CAT-ATAC
1 -ATAATAT
475667 ATAATAT
1 ATAATAT
475674 AT-ATAT
1 ATAATAT
475680 AT-ATAT
1 ATAATAT
475686 AT-ATAT
1 ATAATAT
475692 ATAATAT
1 ATAATAT
*
475699 -TAATCT
1 ATAATAT
475705 ACT-ATA-
1 A-TAATAT
475711 A-AATAT
1 ATAATAT
475717 ATAATAT
1 ATAATAT
*
475724 -TTATAAT
1 ATAAT-AT
475731 ATAATAT
1 ATAATAT
475738 ATAATAAAT
1 ATAAT--AT
475747 ATAATAT
1 ATAATAT
*
475754 A-ATATGT
1 ATA-ATAT
*
475761 ATACTAT
1 ATAATAT
*
475768 ATACT-T
1 ATAATAT
*
475774 ATACTAT
1 ATAATAT
475781 ATAATAT
1 ATAATAT
475788 A
1 A
475789 CACTATCTCA
Statistics
Matches: 239, Mismatches: 36, Indels: 66
0.70 0.11 0.19
Matches are distributed among these distances:
5 3 0.01
6 68 0.28
7 119 0.50
8 25 0.10
9 18 0.08
10 6 0.03
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (7 bp):
ATAATAT
Done.