Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007973.1 Hibiscus syriacus cultivar Beakdansim tig00110410_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: 1299094
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:852030 original size:3 final size:3
Alignment explanation
Indices: 852024--852071 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
852014 AAAAAATTTT
*
852024 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
852070 TT
1 TT
852072 TTTTGTAGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:856994 original size:36 final size:37
Alignment explanation
Indices: 856940--857054 Score: 178
Period size: 37 Copynumber: 3.1 Consensus size: 37
856930 AATTTACTCA
*
856940 AAACAAAGTTTTGTCTCTCTTAAGACAGTTTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * *
856977 AAACAAA-TTTTGCCTCTCTTGAGAAAGTTTCCCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
*
857013 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCTTG
1 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
857050 AAACA
1 AAACA
857055 CCAACCTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 32 0.46
37 37 0.54
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (37 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:857346 original size:84 final size:84
Alignment explanation
Indices: 857191--857501 Score: 290
Period size: 84 Copynumber: 3.7 Consensus size: 84
857181 TCAGCTCAAA
* * * * *
857191 TTGCAGCATAACTTAAGTCAAGT-AGGGTTATCTGCCAACCAAAGGCCTTCGAGTTCGATTACAC
1 TTGCAACATAACTCAAGGCAA-TAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACAC
857255 TCAGCTCCAAGGCACATCAG
65 TCAGCTCCAAGGCACATCAG
* * * * * *
857275 TTGTAGCATAACTCAAGGCTAA-AAGGGTTATCTGTCGACAAAAGACCTTCGAGTTCGACTACGC
1 TTGCAACATAACTCAAGGC-AATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACAC
* *
857339 TCTGCTCCAAGGCACATCAT
65 TCAGCTCCAAGGCACATCAG
* * * *
857359 TTGCAACATAGCTCAAGGCAATAAGGGTTATTTGCCAACCAAAGACCTTCGAGTTCGATTACATT
1 TTGCAACATAACTCAAGGCAATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACACT
* * *
857424 CAACT-CATAGGCATATCAAAT
66 CAGCTCCA-AGGCACATC--AG
* * * * * * *
857445 TTACAGCATATCTCAAGGCGAGAAGGGTTATCTGTCAA-CAAA-AACTTACGAGTTCGA
1 TTGCAACATAACTCAAGGCAATAAGGGTTATCTGCCAACCAAAGACCTT-CGAGTTCGA
857502 TTTCATTCAA
Statistics
Matches: 188, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
83 4 0.02
84 136 0.72
85 15 0.08
86 33 0.18
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (84 bp):
TTGCAACATAACTCAAGGCAATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACACT
CAGCTCCAAGGCACATCAG
Found at i:857746 original size:3 final size:3
Alignment explanation
Indices: 857730--857787 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
857720 TCTACAAAAA
857730 TAT T-T TAT TA- TAT TATT TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT
*
857775 TAT TAT TTT TAT T
1 TAT TAT TAT TAT T
857788 TTTTTGTAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 39 0.78
4 7 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:860330 original size:20 final size:21
Alignment explanation
Indices: 860284--860343 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
860274 ATTGTTAGAT
* *
860284 TATAAAATAAAATAAAAATTAA
1 TATAAAAT-AGATAAAAAATAA
860306 TATAATAAT-GATAAAAAATAA
1 TATAA-AATAGATAAAAAATAA
860327 -ATAAAATAGATAAAAAA
1 TATAAAATAGATAAAAAA
860344 ATACTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.09
20 13 0.38
21 10 0.29
22 5 0.15
23 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
TATAAAATAGATAAAAAATAA
Found at i:860369 original size:9 final size:9
Alignment explanation
Indices: 860294--860378 Score: 50
Period size: 10 Copynumber: 8.8 Consensus size: 9
860284 TATAAAATAA
860294 AATAAAAATT
1 AATAAAAA-T
860304 AATATAATAAT
1 AATA-AA-AAT
*
860315 GATAAAAAAT
1 AAT-AAAAAT
860325 AA-ATAAAAT
1 AATA-AAAAT
860334 AGATAAAAA-
1 A-ATAAAAAT
860343 AATACTAAAA-
1 AATA--AAAAT
*
860353 AAGAAAAAT
1 AATAAAAAT
860362 AATTAAAAAT
1 AA-TAAAAAT
860372 AATAAAA
1 AATAAAA
860379 TGAATGATGT
Statistics
Matches: 61, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
8 8 0.13
9 14 0.23
10 28 0.46
11 8 0.13
12 3 0.05
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (9 bp):
AATAAAAAT
Found at i:868285 original size:21 final size:20
Alignment explanation
Indices: 868247--868285 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
868237 TTAATTTATT
* *
868247 TTTGTATTTTTAATATTTGG
1 TTTGTATTTTGAAAATTTGG
868267 TTTGTTATTTTGAAAATTT
1 TTTG-TATTTTGAAAATTT
868286 TCCATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (20 bp):
TTTGTATTTTGAAAATTTGG
Found at i:876669 original size:17 final size:17
Alignment explanation
Indices: 876647--876685 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
876637 TTGTAAGGTA
876647 ATTTTTTAATATATAAT
1 ATTTTTTAATATATAAT
* *
876664 ATTTTTTTATATATGAT
1 ATTTTTTAATATATAAT
876681 ATTTT
1 ATTTT
876686 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTTTAATATATAAT
Found at i:885404 original size:18 final size:19
Alignment explanation
Indices: 885368--885406 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
885358 CAGTTTGGAG
*
885368 GAAAGACAGAGAGCTGAAAA
1 GAAAAACAGAGAGC-GAAAA
885388 GAAAAACAGAGAG-GAAAA
1 GAAAAACAGAGAGCGAAAA
885406 G
1 G
885407 GGCCATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.59, C:0.08, G:0.31, T:0.03
Consensus pattern (19 bp):
GAAAAACAGAGAGCGAAAA
Found at i:886327 original size:43 final size:43
Alignment explanation
Indices: 886266--886349 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
886256 GTTGGGTACT
* *
886266 TTGTTATATATTTTGAGTATTCGATGATCATATAATTATCCTA
1 TTGTTAGATATTTTGAGTATTCGACGATCATATAATTATCCTA
886309 TTGTTAGATATTTTGAGTATTCGACGATCATATAATTATCC
1 TTGTTAGATATTTTGAGTATTCGACGATCATATAATTATCC
886350 AACGATTAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (43 bp):
TTGTTAGATATTTTGAGTATTCGACGATCATATAATTATCCTA
Found at i:889915 original size:2 final size:2
Alignment explanation
Indices: 889908--889935 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
889898 GTTGAAATAG
889908 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
889936 GCTGATGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:897412 original size:16 final size:16
Alignment explanation
Indices: 897388--897421 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
897378 TATCGCCGAC
*
897388 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
897404 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
897420 CG
1 CG
897422 TGAATAGTAA
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:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:900195 original size:22 final size:22
Alignment explanation
Indices: 900154--900221 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
900144 CTCGTATAAA
900154 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
900177 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
900199 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
900221 T
1 T
900222 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:900480 original size:30 final size:30
Alignment explanation
Indices: 900435--900493 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
900425 ATCGCGTAGT
* *
900435 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
900465 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
900494 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:900975 original size:66 final size:66
Alignment explanation
Indices: 900859--901030 Score: 206
Period size: 66 Copynumber: 2.6 Consensus size: 66
900849 TTTTTCTCAT
* * * *
900859 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACGA
900924 TGA
64 TGA
* * * *
900927 -GGGGTATCGGTTCCCCCCTTGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 GGGGGTATCGGTTCCCCCCTTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
900991 A
66 A
900992 GGGGGTATCGGTT--CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTTG---GGGTACCGATTCCCCT
901031 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
64 7 0.08
65 6 0.07
66 52 0.57
67 27 0.29
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.28
Consensus pattern (66 bp):
GGGGGTATCGGTTCCCCCCTTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
A
Found at i:905677 original size:22 final size:22
Alignment explanation
Indices: 905633--905700 Score: 118
Period size: 22 Copynumber: 3.0 Consensus size: 22
905623 CTCGTATAAA
905633 TGCACCGAAGTGCCCTGTAGAAT
1 TGCACCGAAGTGCCC-GTAGAAT
*
905656 TGCACCGAAATGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
905678 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
905700 T
1 T
905701 ATGTCCATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 29 0.67
23 14 0.33
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:905959 original size:30 final size:30
Alignment explanation
Indices: 905914--905972 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
905904 ATCGCGTAGT
* *
905914 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
905944 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
905973 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:906480 original size:66 final size:67
Alignment explanation
Indices: 906339--906511 Score: 208
Period size: 67 Copynumber: 2.6 Consensus size: 67
906329 TTTTTCTCAT
* * *
906339 GGGGGAATCGGTTCCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACG
906403 ATGA
64 ATGA
* * * *
906407 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
906471 GA
66 GA
* *
906473 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
906512 AACCCAGAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
65 6 0.06
66 26 0.28
67 49 0.53
68 12 0.13
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:907262 original size:19 final size:19
Alignment explanation
Indices: 907238--907276 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
907228 AAAACAATGA
907238 AAAAAATAA-AATCAAATCT
1 AAAAAATAAGAA-CAAATCT
907257 AAAAAATAAGAACAAATCT
1 AAAAAATAAGAACAAATCT
907276 A
1 A
907277 CCCACTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAAAATAAGAACAAATCT
Found at i:909339 original size:15 final size:15
Alignment explanation
Indices: 909319--909367 Score: 89
Period size: 15 Copynumber: 3.3 Consensus size: 15
909309 TAGACCCATT
909319 TTTTCTTTAAAATGA
1 TTTTCTTTAAAATGA
909334 TTTTCTTTAAAATGA
1 TTTTCTTTAAAATGA
*
909349 TTTTCTTTAAAATTA
1 TTTTCTTTAAAATGA
909364 TTTT
1 TTTT
909368 AAAAGAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (15 bp):
TTTTCTTTAAAATGA
Found at i:919130 original size:61 final size:61
Alignment explanation
Indices: 919034--919151 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 61
919024 AGGTGACACA
* * *
919034 AAGGCGCATCCCTGGGGACGCGCTTTACCTGGGTTTTAGCTGACTGGGATGCCACGCAGGT
1 AAGGCGCATCCCTGGGGACGCACTTTACCTGGGTTTCAGCTGACTCGGATGCCACGCAGGT
**
919095 AAGGCGCATCCCTGGGGACGCACTTT-CAC-GAGGTTTCAGCTGGGTCGGATGCCACGC
1 AAGGCGCATCCCTGGGGACGCACTTTAC-CTG-GGTTTCAGCTGACTCGGATGCCACGC
919152 TAGTTTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 2 0.04
61 48 0.96
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (61 bp):
AAGGCGCATCCCTGGGGACGCACTTTACCTGGGTTTCAGCTGACTCGGATGCCACGCAGGT
Found at i:919806 original size:20 final size:20
Alignment explanation
Indices: 919777--919819 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
919767 TGGAATTATT
*
919777 ATAATATTTTAAAATTAATA
1 ATAATATTTTAAAATAAATA
* *
919797 ATAATTTTTTATAATAAATA
1 ATAATATTTTAAAATAAATA
919817 ATA
1 ATA
919820 TTAATTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAATATTTTAAAATAAATA
Found at i:923340 original size:138 final size:137
Alignment explanation
Indices: 923070--923527 Score: 645
Period size: 138 Copynumber: 3.3 Consensus size: 137
923060 GGGGGCACGT
* * *
923070 CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATGTCCCCCGAGCC
1 CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATGTCCCCGGGGGC
* ** * *
923135 ACTATTTATGTCAGTACCTATCATGTTTGAGGGGATACAAAAAAGTGGTGAAGGCGCGTTTCAAG
66 ACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCGCGTTTC-AG
923200 GGGTGCGC
130 GGGTGCGC
* * * *
923208 CTTCCATTATTTTGTCAGAGAATATTTTATAATTTCCATACTATGTCACTCATGTCCCTCGGGGG
1 CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATGTCCC-CGGGGG
* * * *
923273 CACTATTCATGTCGGTACCTATCATGTTTGAGGGGACGCAACAAAGTGATAAAAGCGTGTTTCAG
65 CACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCGCGTTTCAG
923338 GGG-GCGTGC
130 GGGTGC--GC
* *
923347 CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGAGTCATGTCCCCGGGGGC
1 CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATGTCCCCGGGGGC
* *
923412 ACTATTCATGTCAGTACCTATCATGTTTGAAGGAACGCAACAAAGTGGTGAAAGCGCGTTTCA--
66 ACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCGCGTTTCAGG
*
923475 -GTCACGC
131 GGT-GCGC
*
923482 CTTCCATTATTATGTCAGAGAATATGTTATAATTGCCCTATTATGT
1 CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGT
923528 GAGTCATGCC
Statistics
Matches: 285, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
135 48 0.17
137 3 0.01
138 123 0.43
139 111 0.39
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (137 bp):
CTTCCATTATTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTCACTCATGTCCCCGGGGGC
ACTATTCATGTCAGTACCTATCATGTTTGAGGGGACGCAACAAAGTGGTGAAAGCGCGTTTCAGG
GGTGCGC
Found at i:923714 original size:23 final size:23
Alignment explanation
Indices: 923666--923716 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
923656 TGAAGTTTGA
* * *
923666 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
923689 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
923712 ATAAA
1 ATAAA
923717 GTCAACATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:924562 original size:21 final size:21
Alignment explanation
Indices: 924538--924577 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
924528 ATAAAACCCT
*
924538 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
*
924559 GCGGGCTATGAATGTAACC
1 GCGGGCTAGGAATGTAACC
924578 CTGCAGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.20
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACCTG
Found at i:924630 original size:42 final size:41
Alignment explanation
Indices: 924575--924661 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
924565 TATGAATGTA
* * *
924575 ACCCTGCAGAGATGGCATATGAACTGGTGGGCTT-GGCATAT
1 ACCCTGCAAAGATGACATATGAACTGGAGGG-TTGGGCATAT
* *
924616 ACCCTTGCAAAGATGACATCTGAACTGGAGGGTTGGGCATGT
1 ACCC-TGCAAAGATGACATATGAACTGGAGGGTTGGGCATAT
924658 ACCC
1 ACCC
924662 CTGTGGCATC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 6 0.15
42 33 0.85
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (41 bp):
ACCCTGCAAAGATGACATATGAACTGGAGGGTTGGGCATAT
Found at i:926437 original size:33 final size:30
Alignment explanation
Indices: 926363--926466 Score: 99
Period size: 30 Copynumber: 3.4 Consensus size: 30
926353 TAATTAGCAC
926363 AAATAATAATTA-ATTAATTA-ATT--TAAA
1 AAATAATAATTATA-TAATTATATTAATAAA
*
926390 TAAATAATAATTATATAAATATTATTTTAATAAA
1 -AAATAATAATTATAT--A-ATTATATTAATAAA
* *
926424 AAATATTATTTATATAATTATATTAATAAA
1 AAATAATAATTATATAATTATATTAATAAA
*
926454 AAATAACAATTAT
1 AAATAATAATTAT
926467 TTAAAAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
28 13 0.21
29 1 0.02
30 24 0.39
31 5 0.08
32 2 0.03
33 13 0.21
34 4 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATAATAATTATATAATTATATTAATAAA
Found at i:926474 original size:20 final size:22
Alignment explanation
Indices: 926439--926478 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
926429 TTATTTATAT
926439 AATTATATTAATAAAAAATAAC
1 AATTATATTAATAAAAAATAAC
926461 AATTAT-TTAA-AAAAAATA
1 AATTATATTAATAAAAAATA
926479 CTAACTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 4 0.22
22 6 0.33
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTATATTAATAAAAAATAAC
Found at i:926757 original size:60 final size:61
Alignment explanation
Indices: 926685--926813 Score: 174
Period size: 61 Copynumber: 2.1 Consensus size: 61
926675 CCCCTGGGGT
* * *
926685 TGCGTCTTACCCGCGTGGCAT-TCCAGTCAACT-AAACCC-CGTGAAAGCGCGTCCCCAGGGA
1 TGCGCCTTACCCGCGTGGCATCT-CAGTCAACTAAAACCCAGGT-AAAGCACGTCCCCAGGGA
* *
926745 TGCGCCTTACCCGCGTGGCATCTCAGTCATCTAAAACCCAGGTAAAGCACGTCCTCAGGGA
1 TGCGCCTTACCCGCGTGGCATCTCAGTCAACTAAAACCCAGGTAAAGCACGTCCCCAGGGA
926806 TGCGCCTT
1 TGCGCCTT
926814 TGTGCCACCT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
60 28 0.46
61 31 0.51
62 2 0.03
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.20
Consensus pattern (61 bp):
TGCGCCTTACCCGCGTGGCATCTCAGTCAACTAAAACCCAGGTAAAGCACGTCCCCAGGGA
Found at i:931513 original size:23 final size:21
Alignment explanation
Indices: 931460--931518 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
931450 TTGAAATGGA
931460 GTGCATGGATGCAC-TACATG
1 GTGCATGGATGCACTTACATG
*
931480 GTGCATCGATGCACTAGTAGCA-G
1 GTGCATGGATGCACT--TA-CATG
931503 GTGCATGGATGCACTT
1 GTGCATGGATGCACTT
931519 TGACACCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 13 0.39
21 1 0.03
23 17 0.52
24 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (21 bp):
GTGCATGGATGCACTTACATG
Found at i:931764 original size:21 final size:21
Alignment explanation
Indices: 931740--931779 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
931730 ATGTTTAATG
931740 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
931761 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
931780 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:932944 original size:19 final size:20
Alignment explanation
Indices: 932901--932948 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
932891 TCTAAATCCT
*
932901 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
932921 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
932940 TTTTCAAAA
1 TTTTCAAAA
932949 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:936563 original size:79 final size:78
Alignment explanation
Indices: 936400--936566 Score: 226
Period size: 79 Copynumber: 2.1 Consensus size: 78
936390 ACACCCCCAA
* ** * * *
936400 ATTTTTAATCATTAAAGAATAATGGGATAATTACGTATTTAGGCCTTTAATTTTTAATTTATTTT
1 ATTTTTTATCATTAAAGAATAATCAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTTT
*
936465 GATTATGCCCTCC
66 GATTATACCCTCC
936478 ATTTTTTTATCATTAAAGAATAATCAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTT
1 A-TTTTTTATCATTAAAGAATAATCAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTT
* * *
936543 TTATTTTACCTTCTC
65 TGATTATACCCTC-C
936558 ATTTTTTAT
1 ATTTTTTAT
936567 TGTTAATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 74 0.96
80 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (78 bp):
ATTTTTTATCATTAAAGAATAATCAGACAATTACCTATTTAGGCCTTTAAATTTTAATTTATTTT
GATTATACCCTCC
Found at i:937032 original size:4 final size:4
Alignment explanation
Indices: 937025--937154 Score: 120
Period size: 4 Copynumber: 33.0 Consensus size: 4
937015 TATTACCATC
* * * * *
937025 CATA CATA CATA CATA CACA CACA CATA CATA CACA CA-A -ACA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
937071 CATA CATA CATA CATA CATA CATG CATG CATG CATG CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
937119 CATA CATG CATG CATG CATG CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
937155 ACTATTATAT
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
2 1 0.01
3 2 0.02
4 111 0.97
ACGTcount: A:0.44, C:0.28, G:0.07, T:0.21
Consensus pattern (4 bp):
CATA
Found at i:943488 original size:19 final size:19
Alignment explanation
Indices: 943464--943540 Score: 93
Period size: 19 Copynumber: 3.9 Consensus size: 19
943454 CAAGAAGTTT
*
943464 TTTTAATTCATATTTAAAA
1 TTTTAATTAATATTTAAAA
943483 TTTTAATTAATATTTAAGTCAA
1 TTTTAATTAATATTTAA---AA
* *
943505 TTTAAATTCATATTTAAAA
1 TTTTAATTAATATTTAAAA
943524 TTTTAATTAAT-TTTAAA
1 TTTTAATTAATATTTAAA
943541 TTTATAAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.12
19 27 0.54
22 17 0.34
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (19 bp):
TTTTAATTAATATTTAAAA
Found at i:945563 original size:30 final size:29
Alignment explanation
Indices: 945527--945589 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
945517 CATAGACATG
945527 CCACGTCAGCACTTAGTCTACATGGATCTA
1 CCACGTCAGCACTTAGTCTA-ATGGATCTA
* * *
945557 CCACGTCAGCATTTAGTCTAGTGGATCTG
1 CCACGTCAGCACTTAGTCTAATGGATCTA
945586 CCAC
1 CCAC
945590 ATCATCAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (29 bp):
CCACGTCAGCACTTAGTCTAATGGATCTA
Found at i:948776 original size:18 final size:17
Alignment explanation
Indices: 948734--948776 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
948724 TGATTAAGCG
*
948734 CTGAATGATTCAATGGT
1 CTGAATGATTCAAAGGT
948751 CTGAATGATTCAAAGGCT
1 CTGAATGATTCAAAGG-T
*
948769 CTGTATGA
1 CTGAATGA
948777 ATTGGCTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (17 bp):
CTGAATGATTCAAAGGT
Found at i:953272 original size:16 final size:16
Alignment explanation
Indices: 953218--953273 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
953208 AGGAACAAGT
953218 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
953234 T-TTCTCCTTTATGATGAGT
1 TCTTCT-CATTATGA--A-C
953253 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
953269 TCTTC
1 TCTTC
953274 ATTGGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 4 0.13
16 13 0.42
17 1 0.03
18 1 0.03
19 8 0.26
20 4 0.13
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:953515 original size:91 final size:92
Alignment explanation
Indices: 953349--953515 Score: 266
Period size: 91 Copynumber: 1.8 Consensus size: 92
953339 TCAAAAAAGC
953349 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTTTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTTTCATTATGAACTCTCCATTG
953414 AAAATATTGATGCGAAGTTGAACAAGT
66 AAAATATTGATGCGAAGTTGAACAAGT
* * *
953441 TCTTCTCATTATGAACTTCTTCTCTCTC-ATTGGATGAGTTCTTCTT-ATTATGAACTCTCCATT
1 TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATT-TTCATTATGAACTCTCCATT
* *
953504 GGAAATGTTGAT
65 GAAAATATTGAT
953516 CCATCTCTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 40 0.58
92 29 0.42
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTTTCATTATGAACTCTCCATTG
AAAATATTGATGCGAAGTTGAACAAGT
Found at i:953750 original size:332 final size:332
Alignment explanation
Indices: 953144--954113 Score: 1201
Period size: 332 Copynumber: 2.8 Consensus size: 332
953134 CCTTTAGGAC
* * * ** * *
953144 GAGTTCTTCTCATTATGAACTCTTCA-GGAAATGTTGGTTCACCTCCATCTGTGGTGAATTTGAA
1 GAGTTCTTCTCATTATGAACTCTTCATGGAAATGTTGATCCATCTCTTTCTGTGATGAACTTGAA
*
953208 AGGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTATGATGAGTTCTTCTCATTATGAACTCTT
66 AGGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTT
* * ** *
953273 CATTGGAAATGTCGATCCCTCAAGCGAGGCATCACTGATTCGAAATGTCGTGAATCAAGTGATAG
131 CA-TGGAAATATCGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATAG
* * * *
953338 GTCAAAAAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTATTTTCATTATGA
195 GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGA
953403 ACTCTCCATTGAAAATATTGATGCGAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCTC
260 ACTCTCCATTGAAAATATTGATGCGAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-C
953467 TCATTGGAT
324 TCATTGGAT
* * *
953476 GAGTTCTTCTTATTATGAACTCTCCATTGGAAATGTTGATCCATCTCTTTCTGTGATGGACTTGA
1 GAGTTCTTCTCATTATGAACTCTTCA-TGGAAATGTTGATCCATCTCTTTCTGTGATGAACTTGA
953541 AAGGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCT
65 AAGGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCT
* * * * *
953606 TC-TGAAAATATCAATCCCTCAAGCTAGGTGTCACTAATTCGAAATGTCATGAATCGAGTGATAG
130 TCATGGAAATATCGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATAG
* *
953670 GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGACGAGTTCTTCTCATTATGA
195 GTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGA
* *
953735 GCTCTCCATTGAAAATGTTGATGCGAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
260 ACTCTCCATTGAAAATATTGATGCGAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
* *
953800 CGTTTGAT
325 CATTGGAT
*
953808 GAGTTCTTCTCATTATGAACTCTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTC
1 GAGTTCTTCTCATTATGAACTCTTCA-TGGAAATGTTGA----TC---C-A----TCTCT--TTC
* * * *
953873 GAAATGTTATGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTG
51 ----TGTGATGAA-C--TTGA-AAG--GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CCT-T-
* * *
953938 TCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATA-CTGATCCTTCAAGCAAGGTGTCA
101 TAGGATGAGTTCTTCTCATTATGAACTCTTCA-TGGAAATATC-GATCCCTCAAGCAAGGTGTCA
*
954002 CTGATTCAAAATGTCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCT
164 CTGATTCGAAATGTCGTGAATCGAGTGATAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCT
* * * *
954067 CCCTCTGTCGGATAAGTTCTTCTTATTATGAACTCTCCATTGGAAAT
229 CCCTCTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGAAAAT
954114 GCTGGTTCAC
Statistics
Matches: 549, Mismatches: 54, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
332 238 0.43
333 2 0.00
334 95 0.17
336 2 0.00
339 1 0.00
340 1 0.00
344 4 0.01
346 3 0.01
350 7 0.01
351 1 0.00
353 3 0.01
354 2 0.00
356 23 0.04
357 1 0.00
358 4 0.01
359 3 0.01
360 1 0.00
361 29 0.05
362 1 0.00
363 128 0.23
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (332 bp):
GAGTTCTTCTCATTATGAACTCTTCATGGAAATGTTGATCCATCTCTTTCTGTGATGAACTTGAA
AGGAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTT
CATGGAAATATCGATCCCTCAAGCAAGGTGTCACTGATTCGAAATGTCGTGAATCGAGTGATAGG
TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAA
CTCTCCATTGAAAATATTGATGCGAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTC
ATTGGAT
Found at i:953777 original size:92 final size:91
Alignment explanation
Indices: 953673--953847 Score: 262
Period size: 91 Copynumber: 1.9 Consensus size: 91
953663 GTGATAGGTC
*
953673 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTC-TTTCGGACGAGTTCTTCTCATTATGAGC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTT--GACGAGTTCTTCTCATTATGAAC
*
953737 TCTCCATTGAAAATGTTGATGCGAAGTT
64 TCTCCACTGAAAATGTTGATGCGAAGTT
* * *
953765 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTTGATGAGTTCTTCTCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTTGACGAGTTCTTCTCATTATGAACTC
* *
953830 TTCACTGGAAATGTTGAT
66 TCCACTGAAAATGTTGAT
953848 CCCTCAAGCG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
91 38 0.51
92 34 0.45
93 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (91 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCGTTTGACGAGTTCTTCTCATTATGAACTC
TCCACTGAAAATGTTGATGCGAAGTT
Found at i:953933 original size:227 final size:221
Alignment explanation
Indices: 953544--953977 Score: 690
Period size: 227 Copynumber: 1.9 Consensus size: 221
953534 GACTTGAAAG
953544 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
1 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
*
953609 GAAAATATCAATCCCTCAAGCTAGGTGTCACTAATTCGAAATGTCATGAATCGAGTGATAGGTCG
66 GAAAATATCAATCCCTCAAGCGAGGTGTCACTAATTCGAAATGTCATGAATCGAGTGATAGGTCG
* *
953674 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTTCGGACGAGTTCTTCTCATTATGAGCTC
131 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGACGAGTTCTTCTCATTATGAACTC
953739 TCCATTGAAAATGTTGATGCGAAGTT
196 TCCATTGAAAATGTTGATGCGAAGTT
*
953765 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTT-TGATGAGTTCTTCTCATTATGAACT
1 GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTCATTATGAACT
* * ** * *
953829 CTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTATGAATCGAGTGA
61 CTT--CTGAAAATATCAATCCCTCAAGCGAGGTGTCACTAATTCGAAATGTCATGAATCGAGTGA
*
953894 TAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTA
124 TAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGACGAGTTCTTCTCATTA
*
953959 TGAACTCTCCATTGGAAAT
189 TGAACTCTCCATTGAAAAT
953978 ACTGATCCTT
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
221 24 0.12
222 1 0.01
223 3 0.02
224 4 0.02
225 27 0.14
226 2 0.01
227 133 0.69
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (221 bp):
GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTCATTATGAACTCTTCT
GAAAATATCAATCCCTCAAGCGAGGTGTCACTAATTCGAAATGTCATGAATCGAGTGATAGGTCG
AACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGACGAGTTCTTCTCATTATGAACTC
TCCATTGAAAATGTTGATGCGAAGTT
Found at i:954008 original size:136 final size:136
Alignment explanation
Indices: 953765--954113 Score: 556
Period size: 136 Copynumber: 2.6 Consensus size: 136
953755 ATGCGAAGTT
* * **
953765 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTC-GTTTGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * ** * * *
953829 CTTCACTGGAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTATGAATCGAGTGA
66 CTCCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
953894 TAGGTC
131 TAGGTC
953900 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* *
953965 CTCCATTGGAAATACTGATCCTTCAAGCAAGGTGTCACTGATTCAAAATGTCGTGAATCGAGTGA
66 CTCCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
954030 TAGGTC
131 TAGGTC
* *
954036 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATAAGTTCTTCTTATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
954101 CTCCATTGGAAAT
66 CTCCATTGGAAAT
954114 GCTGGTTCAC
Statistics
Matches: 198, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
135 34 0.17
136 164 0.83
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (136 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCATTGGAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGA
TAGGTC
Found at i:955005 original size:7 final size:7
Alignment explanation
Indices: 954995--955069 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
954985 CCTTTTTCTC
954995 TTTTTAT
1 TTTTTAT
*
955002 TTTTCAT
1 TTTTTAT
*
955009 TTCTT-T
1 TTTTTAT
*
955015 TTTTCAT
1 TTTTTAT
*
955022 TTTTCAT
1 TTTTTAT
*
955029 TTTTTTT
1 TTTTTAT
955036 CTTTTTCAT
1 -TTTTT-AT
955045 TTTTTCAT
1 TTTTT-AT
*
955053 TTTTCAT
1 TTTTTAT
955060 CTTTTTAT
1 -TTTTTAT
955068 TT
1 TT
955070 GTTCCTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
6 4 0.07
7 26 0.48
8 23 0.43
9 1 0.02
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:955017 original size:19 final size:20
Alignment explanation
Indices: 954989--955069 Score: 73
Period size: 19 Copynumber: 4.2 Consensus size: 20
954979 AACCCTCCTT
*
954989 TTTCTCTTTTT-ATTTTTCA
1 TTTCTTTTTTTCATTTTTCA
955008 TTTCTTTTTTTCATTTTTCA
1 TTTCTTTTTTTCATTTTTCA
955028 --T-TTTTTTTC-TTTTTCA
1 TTTCTTTTTTTCATTTTTCA
* *
955044 TTTTTTCATTTTTCATCTTTTTA
1 TTTCTT--TTTTTCAT-TTTTCA
955067 TTT
1 TTT
955070 GTTCCTTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
16 7 0.13
17 8 0.15
18 2 0.04
19 12 0.23
20 8 0.15
21 6 0.12
22 1 0.02
23 8 0.15
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTTTTTTTCATTTTTCA
Found at i:955031 original size:15 final size:15
Alignment explanation
Indices: 955008--955080 Score: 78
Period size: 15 Copynumber: 4.7 Consensus size: 15
954998 TTATTTTTCA
*
955008 TTTCTTTTTTTCATT
1 TTTCATTTTTTCATT
955023 TTTCATTTTTTTTC-TT
1 TTTCA--TTTTTTCATT
955039 TTTCATTTTTTCATT
1 TTTCATTTTTTCATT
955054 TTTCATCTTTTT-ATT
1 TTTCAT-TTTTTCATT
*
955069 TGTTCCTTTTTT
1 T-TTCATTTTTT
955081 TTTCTTCAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.14
15 21 0.41
16 16 0.31
17 7 0.14
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (15 bp):
TTTCATTTTTTCATT
Found at i:955031 original size:16 final size:16
Alignment explanation
Indices: 955008--955081 Score: 84
Period size: 16 Copynumber: 4.8 Consensus size: 16
954998 TTATTTTTCA
955008 TTTC-TTTTTTTCATT
1 TTTCATTTTTTTCATT
955023 TTTCATTTTTTTTC-TT
1 TTTCA-TTTTTTTCATT
955039 TTTCA-TTTTTTCATT
1 TTTCATTTTTTTCATT
*
955054 TTTCATCTTTTT-ATT
1 TTTCATTTTTTTCATT
*
955069 TGTTCCTTTTTTT
1 T-TTCATTTTTTT
955082 TTCTTCAAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
14 7 0.14
15 15 0.29
16 21 0.41
17 8 0.16
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (16 bp):
TTTCATTTTTTTCATT
Found at i:955079 original size:31 final size:31
Alignment explanation
Indices: 955013--955080 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
955003 TTTCATTTCT
* *
955013 TTTTTTCATTTTTCATTTTTTTTCTTTTTCA
1 TTTTTTCATTTTTCATTTTTTATCTTGTTCA
*
955044 TTTTTTCATTTTTCATCTTTTTAT-TTGTTCC
1 TTTTTTCATTTTTCAT-TTTTTATCTTGTTCA
955075 TTTTTT
1 TTTTTT
955081 TTTCTTCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.76
Consensus pattern (31 bp):
TTTTTTCATTTTTCATTTTTTATCTTGTTCA
Found at i:955086 original size:24 final size:24
Alignment explanation
Indices: 954987--955086 Score: 88
Period size: 24 Copynumber: 4.4 Consensus size: 24
954977 CAAACCCTCC
*
954987 TTTTTCTCTTTTT-ATTTTT-CA-
1 TTTTTTTCTTTTTCATTTTTCCAT
*
955008 -TTTCTT-TTTTTCATTTTT-CAT
1 TTTTTTTCTTTTTCATTTTTCCAT
*
955029 TTTTTTTCTTTTTCATTTTTTCAT
1 TTTTTTTCTTTTTCATTTTTCCAT
** *
955053 TTTTCATCTTTTT-ATTTGTTCCTT
1 TTTTTTTCTTTTTCATTT-TTCCAT
955077 TTTTTTTCTT
1 TTTTTTTCTT
955087 CAAGCATAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.08
20 12 0.19
22 5 0.08
23 16 0.25
24 26 0.41
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTTTTTCTTTTTCATTTTTCCAT
Found at i:966583 original size:14 final size:13
Alignment explanation
Indices: 966542--966584 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
966532 TTAAAATAAT
966542 AAAATAAATAATTA
1 AAAATAAA-AATTA
*
966556 AAACTAAAACATTA
1 AAAATAAAA-ATTA
966570 AAAATAGAAAATTA
1 AAAATA-AAAATTA
966584 A
1 A
966585 GGGTCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.84
15 3 0.12
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (13 bp):
AAAATAAAAATTA
Found at i:969368 original size:26 final size:26
Alignment explanation
Indices: 969332--969388 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
969322 TGGGAGAAAG
*
969332 AAATGATTTGGGATGATTTTGATGCA
1 AAATGATTTGGGATGATTTTGATACA
969358 AAATGATTTGGGATGATTTTGATACA
1 AAATGATTTGGGATGATTTTGATACA
969384 AAATG
1 AAATG
969389 GGTTGAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (26 bp):
AAATGATTTGGGATGATTTTGATACA
Found at i:973934 original size:19 final size:19
Alignment explanation
Indices: 973910--973948 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
973900 CTTGAGCGCA
*
973910 TTGCATATGAGCTGCTCCC
1 TTGCATATGAGCAGCTCCC
973929 TTGCATATGAGCAGCTCCC
1 TTGCATATGAGCAGCTCCC
973948 T
1 T
973949 CTTGAGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.31
Consensus pattern (19 bp):
TTGCATATGAGCAGCTCCC
Found at i:979713 original size:28 final size:29
Alignment explanation
Indices: 979680--979738 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
979670 AAAATGTATA
*
979680 AAAATAA-ATAATTATAAATTAAAAA-AAT
1 AAAATAATA-AATAATAAATTAAAAATAAT
*
979708 AAAATAATAAATAATGAATTAAAAATAAT
1 AAAATAATAAATAATAAATTAAAAATAAT
979737 AA
1 AA
979739 TAAAGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (29 bp):
AAAATAATAAATAATAAATTAAAAATAAT
Found at i:979721 original size:12 final size:12
Alignment explanation
Indices: 979677--979751 Score: 52
Period size: 14 Copynumber: 6.2 Consensus size: 12
979667 TTGAAAATGT
979677 ATAAAAATAAATA
1 ATAAAAAT-AATA
*
979690 ATTATAAAT--TA
1 A-TAAAAATAATA
979701 A-AAAAATAA-A
1 ATAAAAATAATA
979711 ATAATAAATAATGA
1 ATAA-AAATAAT-A
979725 ATTAAAAATAATA
1 A-TAAAAATAATA
*
979738 ATAAAGATAA-A
1 ATAAAAATAATA
979749 ATA
1 ATA
979752 GGATTTTAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 9 0.18
12 14 0.27
13 3 0.06
14 15 0.29
15 3 0.06
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:979749 original size:17 final size:19
Alignment explanation
Indices: 979705--979751 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
979695 AAATTAAAAA
*
979705 AATAAAATAATAAATAATG
1 AATAAAATAATAAATAAAG
979724 AATTAAAAATAAT-AATAAAG
1 AA-T-AAAATAATAAATAAAG
979744 -ATAAAATA
1 AATAAAATA
979752 GGATTTTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.24
18 1 0.04
19 3 0.12
20 7 0.28
21 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AATAAAATAATAAATAAAG
Found at i:980565 original size:76 final size:76
Alignment explanation
Indices: 980421--980637 Score: 305
Period size: 76 Copynumber: 2.9 Consensus size: 76
980411 TAAAACATCT
* *
980421 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAA-ATA-ATAATAATAT
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAA-AATA-
* *
980483 TTAAAATAATATTC
63 TAAAAATAATATCC
* *
980497 TAAATCCTAATTAAAATACTAAAACCTATTTAATCTAAAATAACTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
980562 AAATAATATCC
66 AAATAATATCC
* * *
980573 TAAAACTTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
980638 TGTTTAAAAT
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
75 5 0.04
76 112 0.88
77 6 0.05
78 4 0.03
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (76 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
AAATAATATCC
Found at i:982341 original size:14 final size:14
Alignment explanation
Indices: 982319--982350 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
982309 GCATCTGATA
982319 AAATAAAATGAAAT
1 AAATAAAATGAAAT
*
982333 AAATGAAATGAAAT
1 AAATAAAATGAAAT
982347 AAAT
1 AAAT
982351 TTGGCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (14 bp):
AAATAAAATGAAAT
Found at i:985430 original size:17 final size:17
Alignment explanation
Indices: 985408--985441 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
985398 AAAGAGATAA
985408 AAATAAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
985425 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
985442 TGGGATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:986187 original size:76 final size:75
Alignment explanation
Indices: 986037--986257 Score: 295
Period size: 76 Copynumber: 2.9 Consensus size: 75
986027 AAGCTAAAAC
* *
986037 ATCTTAAATCCTAATTAAAACACTTAAAA-TTATTTAAACTAAAATACCTAAAAATA-ATAATAA
1 ATCTTAAATCCTAATTAAAATAC-TAAAACTTATTTAAACTAAAATACCTAAAAAAAGATAA-AA
* *
986100 TATTTACAATAAT
64 TA-TAAAAATAAT
* *
986113 AT-TCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAACTACCTAAAACAAAGATAAAA
1 ATCT-TAAATCCTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAA-AAAGATAAAA
986177 TATAAAAATAAT
64 TATAAAAATAAT
* *
986189 ATCTTAAAACTTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAATAAAGATAAAAT
1 ATCTTAAATCCTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAA-AAAGATAAAAT
986254 ATAA
65 ATAA
986258 TGTTTAAAAT
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
75 6 0.05
76 112 0.87
77 7 0.05
78 4 0.03
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (75 bp):
ATCTTAAATCCTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAAAAAGATAAAATA
TAAAAATAAT
Found at i:992801 original size:39 final size:39
Alignment explanation
Indices: 992747--992875 Score: 163
Period size: 39 Copynumber: 3.3 Consensus size: 39
992737 TCTATGACTT
*
992747 GTAAGTCCTTACCGCAGGCTCCTCGTCTTTGTGCTTAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGTCTTTGTGCTAAGG
* * * *
992786 GTAAGTTCTTACCGCACGCTCCTCAG-GTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAGGCTCCTC-GTCTTTGTGCTAAGG
* *
992825 GTAAGTCTTTACCGCAGGCTCCTC-TGCTTTGTGCAAAGG
1 GTAAGTCCTTACCGCAGGCTCCTCGT-CTTTGTGCTAAGG
992864 GTAAGTCCTTAC
1 GTAAGTCCTTAC
992876 TGTAAGTTCT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 75 0.99
40 1 0.01
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAGGCTCCTCGTCTTTGTGCTAAGG
Found at i:999250 original size:75 final size:74
Alignment explanation
Indices: 999162--999473 Score: 392
Period size: 75 Copynumber: 4.2 Consensus size: 74
999152 CTTAACCGGT
* * * *
999162 TAAAATAAAATAGGTGCTATCA-ATTATGTTAAACTATCTATCGGTTTGTTTGAAGGTTACTAAT
1 TAAAATAAAATAGGCGCTA-CATATTACGTTAAAATA-CTATCGGTTTGTTTAAAGGTTACTAAT
999226 AATGTAAACGG
64 AATGTAAACGG
* *
999237 TAAAATAAAATAGGCGCTACATATTATGTTAAAATACCTACCGGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCGCTACATATTACGTTAAAATA-CTATCGGTTTGTTTAAAGGTTACTAATA
999302 ATGTAAACGG
65 ATGTAAACGG
* * ** *
999312 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTAGCTATTAGTTTGTTTAAAGGTTAGTAATA
1 TAAAATAAAATAGGCGCTACATATTACGTTAAAATA-CTATCGGTTTGTTTAAAGGTTACTAATA
999377 ATGTAAACGG
65 ATGTAAACGG
* * * * * * * *
999387 TAAAATAAAATAAGTGATACATTTTACGTTAAAATACATATTGATTTGTTTAAATGTTATTAATA
1 TAAAATAAAATAGGCGCTACATATTACGTTAAAATAC-TATCGGTTTGTTTAAAGGTTACTAATA
*
999452 ATGTAAACAG
65 ATGTAAACGG
999462 TAAAATAAAATA
1 TAAAATAAAATA
999474 TGAGCTACCT
Statistics
Matches: 211, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
74 3 0.01
75 208 0.99
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (74 bp):
TAAAATAAAATAGGCGCTACATATTACGTTAAAATACTATCGGTTTGTTTAAAGGTTACTAATAA
TGTAAACGG
Found at i:999435 original size:150 final size:150
Alignment explanation
Indices: 999162--999494 Score: 450
Period size: 150 Copynumber: 2.2 Consensus size: 150
999152 CTTAACCGGT
* * * * * *
999162 TAAAATAAAATAGGTGCTATCAATTATGTTAAACTATCTATCGGTTTGTTTGAAGGTTACTAATA
1 TAAAATAAAATAGGAGCTACCTATTATGTTAAACTAGCTATCAGTTTGTTTAAAGGTTACTAATA
* * * * *
999227 ATGTAAACGGTAAAATAAAATAGGCGCTACATATTATGTTAAAATACCTACCGGTTTGTTTAAAG
66 ATGTAAACGGTAAAATAAAATAAGCGATACATATTACGTTAAAATACATACCGATTTGTTTAAAG
*
999292 GTTACTAATAATGTAAACGG
131 GTTACTAATAATGTAAACAG
* * * *
999312 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTAGCTATTAGTTTGTTTAAAGGTTAGTAATA
1 TAAAATAAAATAGGAGCTACCTATTATGTTAAACTAGCTATCAGTTTGTTTAAAGGTTACTAATA
* * ** *
999377 ATGTAAACGGTAAAATAAAATAAGTGATACATTTTACGTTAAAATACATATTGATTTGTTTAAAT
66 ATGTAAACGGTAAAATAAAATAAGCGATACATATTACGTTAAAATACATACCGATTTGTTTAAAG
*
999442 GTTATTAATAATGTAAACAG
131 GTTACTAATAATGTAAACAG
* *
999462 TAAAATAAAATATGAGCTACCTAATATGTTAAA
1 TAAAATAAAATAGGAGCTACCTATTATGTTAAA
999495 TAGGTGTTAC
Statistics
Matches: 158, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
150 158 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (150 bp):
TAAAATAAAATAGGAGCTACCTATTATGTTAAACTAGCTATCAGTTTGTTTAAAGGTTACTAATA
ATGTAAACGGTAAAATAAAATAAGCGATACATATTACGTTAAAATACATACCGATTTGTTTAAAG
GTTACTAATAATGTAAACAG
Found at i:1000273 original size:107 final size:108
Alignment explanation
Indices: 1000068--1000317 Score: 322
Period size: 107 Copynumber: 2.3 Consensus size: 108
1000058 ATTTATTTAT
* * * * * * * *
1000068 AACAAAATAAGAAATTAACCTATTTTGTTGTCATTGGATTTCGAAAGTTTCATTAGCTTAAATTT
1 AACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCGAAAGCTCCATCAGCTTAAACTT
* * *
1000133 TGGTAATATTTTAGGCGCTACCTAATATGTTGATAATATTAAA
66 TGATAATAATTTAGGCGCTACCTAATATATTGATAATATTAAA
* *
1000176 AACAAAATAAGTAATTAACCTATTTTATTATCGTCGGATTTC-TAAGCTCCATCAGCTTAAACTT
1 AACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCGAAAGCTCCATCAGCTTAAACTT
* * * *
1000240 TGATAATAATTTAGGTGTTACCTAATATATTGATAATATTGAT
66 TGATAATAATTTAGGCGCTACCTAATATATTGATAATATTAAA
* *
1000283 AACAAATTAAGTAATTAACTTATTTTGTTATCGTC
1 AACAAAATAAGTAATTAACCTATTTTGTTATCGTC
1000318 ATAATTCAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
107 85 0.70
108 37 0.30
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (108 bp):
AACAAAATAAGTAATTAACCTATTTTGTTATCGTCGGATTTCGAAAGCTCCATCAGCTTAAACTT
TGATAATAATTTAGGCGCTACCTAATATATTGATAATATTAAA
Found at i:1000557 original size:211 final size:210
Alignment explanation
Indices: 1000188--1000572 Score: 538
Period size: 211 Copynumber: 1.8 Consensus size: 210
1000178 CAAAATAAGT
* *
1000188 AATTAACCTATTTTATTATCGTCGGATTTCTAAGCTCCATCAGCTTAAACTTTGATAATAATTTA
1 AATTAACCTATTTTATCATCGTCGGATTTCTAAGCTCCATCAGCTTAAACTTTGATAACAATTTA
* * * * *
1000253 GGTGTTACCTAATATATTGATAATATTGATAACAAATTAAGTAATTAACTTATTTTGTTATCGTC
66 GGCGCTACCTAATATATTGATAATATTGATAACAAATAAAATAATTAACCTATTTTGTTATCGTC
* * * *
1000318 ATAATTCAAAGGCCCTATTAATTTTAAAAAAGTGTTATCTATTACATTAAATATGTTATTATGAT
131 AGAATTCAAAGGCCCTATCAACTTTAAAAAAGTGTTACCTATTACATTAAATATGTTATTATGAT
1000383 TGATAGTGTTTCAGC
196 TGATAGTGTTTCAGC
* * * * *
1000398 AATTAACTTATTTTGTCATCGTCGGATTTCTAAGGTTCTATCAGCTTAAACTTT-AGTAACATTT
1 AATTAACCTATTTTATCATCGTCGGATTTCTAA-GCTCCATCAGCTTAAACTTTGA-TAACAATT
*
1000462 TAGGCGCTACCTAATATGTTGATAATATTGATAACAAATAAAATAATTAACCTATTTTGTTATCG
64 TAGGCGCTACCTAATATATTGATAATATTGATAACAAATAAAATAATTAACCTATTTTGTTATCG
* * * * * *
1000527 TCGGATTTCTAAGGCTCTATCAGCTTTAAAAATGTGTTACCTATTA
129 TCAGAATTCAAAGGCCCTATCAACTTTAAAAAAGTGTTACCTATTA
1000573 AGTTACATAA
Statistics
Matches: 150, Mismatches: 23, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
210 31 0.21
211 119 0.79
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.41
Consensus pattern (210 bp):
AATTAACCTATTTTATCATCGTCGGATTTCTAAGCTCCATCAGCTTAAACTTTGATAACAATTTA
GGCGCTACCTAATATATTGATAATATTGATAACAAATAAAATAATTAACCTATTTTGTTATCGTC
AGAATTCAAAGGCCCTATCAACTTTAAAAAAGTGTTACCTATTACATTAAATATGTTATTATGAT
TGATAGTGTTTCAGC
Found at i:1006997 original size:13 final size:13
Alignment explanation
Indices: 1006960--1006998 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1006950 CTCGGCTCAG
1006960 AGAATTCGGTTTT
1 AGAATTCGGTTTT
* *
1006973 AGATTTCAGTTTT
1 AGAATTCGGTTTT
*
1006986 GGAATTCGGTTTT
1 AGAATTCGGTTTT
1006999 CCAAGTTGTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.23, T:0.49
Consensus pattern (13 bp):
AGAATTCGGTTTT
Found at i:1019688 original size:19 final size:19
Alignment explanation
Indices: 1019587--1019688 Score: 89
Period size: 19 Copynumber: 5.1 Consensus size: 19
1019577 TTGGTACAGA
1019587 GGGAATCGATACCCCC-ATG
1 GGGAATCGATACCCCCTA-G
* *
1019606 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAATCGATACCCCC--T--AG
* *
1019630 GGGAACCGATTCCCCCTAG
1 GGGAATCGATACCCCCTAG
*
1019649 GCGAATCGATACCCCCTAG
1 GGGAATCGATACCCCCTAG
*
1019668 GGGAATCGATACCCTCTAG
1 GGGAATCGATACCCCCTAG
1019687 GG
1 GG
1019689 TCCTGGATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
19 37 0.53
20 14 0.20
21 1 0.01
23 16 0.23
24 1 0.01
25 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (19 bp):
GGGAATCGATACCCCCTAG
Found at i:1028382 original size:8 final size:8
Alignment explanation
Indices: 1028369--1028401 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
1028359 TACACCTCAT
1028369 TTTGAGAG
1 TTTGAGAG
1028377 TTTGAGAG
1 TTTGAGAG
1028385 TTTGAGAG
1 TTTGAGAG
*
1028393 ATTGAGAG
1 TTTGAGAG
1028401 T
1 T
1028402 CTTATATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (8 bp):
TTTGAGAG
Found at i:1036455 original size:24 final size:21
Alignment explanation
Indices: 1036420--1036472 Score: 52
Period size: 23 Copynumber: 2.4 Consensus size: 21
1036410 ACCACCGAAC
* *
1036420 AAAAATAAATAAAAGATTTACAA
1 AAAAAAAAAT-AAAGAATTA-AA
1036443 AAAAAAAAGATAAAGAATTAAA
1 AAAAAAAA-ATAAAGAATTAAA
*
1036465 AATAAAAA
1 AAAAAAAA
1036473 TTATATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 15 0.58
24 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (21 bp):
AAAAAAAAATAAAGAATTAAA
Found at i:1037557 original size:23 final size:23
Alignment explanation
Indices: 1037529--1037594 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
1037519 CAACAAAAGT
*
1037529 AGAGATAAACGTGCCACAAAAAC
1 AGAGATAAACGTGCTACAAAAAC
*
1037552 ATAGATAAACGTGCTACAAAAAC
1 AGAGATAAACGTGCTACAAAAAC
1037575 AGAGATAAACGTGCTACAAA
1 AGAGATAAACGTGCTACAAA
1037595 GGTAGAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.14
Consensus pattern (23 bp):
AGAGATAAACGTGCTACAAAAAC
Found at i:1046092 original size:21 final size:19
Alignment explanation
Indices: 1046053--1046093 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1046043 CAAGGTTAAC
*
1046053 TCCTAATTTTATTCCACCT
1 TCCTAATTTTATCCCACCT
1046072 TCCTAATTTCTATCCCCACCT
1 TCCTAATTT-TAT-CCCACCT
1046093 T
1 T
1046094 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.44
Consensus pattern (19 bp):
TCCTAATTTTATCCCACCT
Found at i:1049154 original size:23 final size:23
Alignment explanation
Indices: 1049128--1049175 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1049118 ATAAAGTACA
*
1049128 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1049151 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1049174 AT
1 AT
1049176 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1049705 original size:22 final size:21
Alignment explanation
Indices: 1049640--1049709 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
1049630 GATAGATAAT
* *
1049640 TTACAATATAAGCACTACCTA
1 TTACATTATAAGCGCTACCTA
*
1049661 TTACATTATAAACGCTACCTA
1 TTACATTATAAGCGCTACCTA
*
1049682 TTACATTATATAGCGCTACTTA
1 TTACATTATA-AGCGCTACCTA
1049704 TTACAT
1 TTACAT
1049710 CATATTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 28 0.65
22 15 0.35
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (21 bp):
TTACATTATAAGCGCTACCTA
Found at i:1050164 original size:23 final size:23
Alignment explanation
Indices: 1050129--1050201 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1050119 ATACTTTACA
*
1050129 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1050152 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1050175 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1050198 ATAT
1 ATAT
1050202 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1050636 original size:21 final size:22
Alignment explanation
Indices: 1050611--1050688 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
1050601 AATAGATACT
*
1050611 TTACA-ATATAAGAACTACCTA
1 TTACATATATAAGAGCTACCTA
1050632 TTACATTATATAA-ACGCTACCTA
1 TTACA-TATATAAGA-GCTACCTA
*
1050655 TTACATTATATAAGCGCTACCTA
1 TTACA-TATATAAGAGCTACCTA
1050678 TTACATCATAT
1 TTACAT-ATAT
1050689 TTTTACCTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
21 5 0.10
22 2 0.04
23 43 0.86
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (22 bp):
TTACATATATAAGAGCTACCTA
Found at i:1050651 original size:23 final size:23
Alignment explanation
Indices: 1050625--1050688 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
1050615 AATATAAGAA
1050625 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
*
1050648 CTACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
*
1050671 CTACCTATTACATCATAT
1 CTACCTATTACATTATAT
1050689 TTTTACCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:1051103 original size:485 final size:489
Alignment explanation
Indices: 1049248--1051401 Score: 4000
Period size: 485 Copynumber: 4.4 Consensus size: 489
1049238 ATTATAATAT
1049248 TTGAAAGTGTCTATACTTTTTATAAAAA-GATCGATACTTTTT-TAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
1049311 TCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
1049375 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAATATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
1049440 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
1049503 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1049568 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
*
1049633 AGATAATTTACAATATAAGCACTACCTATTACA-T-TATAAACGCTACCTATTACATTATAT-AG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
*
1049695 CGCTACTTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
1049729 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
1049794 TTAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
1049859 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAG--TTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
1049922 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
* *
1049987 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATATAAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
*
1050052 AAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
1050117 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
1050182 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
* *
1050216 TTGAAAGTGCCTATACTTTTTTATAAAAAGGATCGATACTTTTTATAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGT
1050281 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
1050345 C-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATAT
1050409 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTG-TTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
1050473 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTTACT
260 ACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1050538 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAA
325 CAAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1050603 TAGATACTTTACAATATAAGAACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
390 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
1050668 GCGCTACCTATTACATCATATTTTTACCTATTATA
455 GCGCTACCTATTACATCATATTTTTACCTATTATA
1050703 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
* *
1050768 TCAATTTTTTTAATAGTGTTTTATGTTTTCTACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
1050833 AAAATATTATTTGATTGTTTTGATA-TTTAT-AAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
1050896 AACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
1050959 CCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
261 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1051024 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
1051089 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
1051154 CGCTACCTATTACATCATATTTTTACCTATTATA
456 CGCTACCTATTACATCATATTTTTACCTATTATA
*
1051188 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
*
1051253 TCAATTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
1051318 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
1051383 AACCAAAGATAATAATAAA
196 AACCAAAGATAATAATAAA
1051402 ACTCACTCAA
Statistics
Matches: 1627, Mismatches: 30, Indels: 26
0.97 0.02 0.02
Matches are distributed among these distances:
481 28 0.02
482 89 0.05
483 25 0.02
484 281 0.17
485 401 0.25
486 231 0.14
487 390 0.24
488 182 0.11
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (489 bp):
TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTATAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
AGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
CGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:1051136 original size:23 final size:23
Alignment explanation
Indices: 1051101--1051173 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1051091 ATACTTTACA
*
1051101 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1051124 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
1051147 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
1051170 ATAT
1 ATAT
1051174 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:1051157 original size:972 final size:968
Alignment explanation
Indices: 1049248--1051401 Score: 3980
Period size: 972 Copynumber: 2.2 Consensus size: 968
1049238 ATTATAATAT
1049248 TTGAAAGTGTCTATACTTTTTATAAAAAGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTC
1 TTGAAAGTGTCTATACTTTTTATAAAAAGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTC
*
1049313 AA-TTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAA
66 AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-A
*
1049377 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAATATTTAAATTTAACAATATTAA
130 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAA
1049442 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATACCGT
195 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATACCGT
1049507 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
260 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
*
1049572 GATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAT
325 GATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAATAGAT
* *
1049637 AATTTACAATATAAGCACTACCTATTACATTATAAACGCTACCTATTACATTATATAGCGCTACT
390 AATTTACAATATAAGAACTACCTATTACATTATAAACGCTACCTATTACATTATATAGCGCTACC
1049702 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGATCGATAC
455 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGATCGATAC
*
1049767 TTTTTATAAAGTTATGTAATTTATGTTTTAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACA
520 TTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACA
1049832 ATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAT
585 ATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAT
1049897 TATTTAGTTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
650 TATTTAGTTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
*
1049962 GTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
715 GTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTAC
1050027 TAAATTAATATATAAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAA
780 TAAATTAATATATAAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAA
1050092 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATA
845 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATA
1050157 AACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
910 AACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
1050216 TTGAAAGTGCCTATACTTTTTTATAAAAAGGATCGATACTTTTTATAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAA-GATCGATACTTTTT-TAAAGTTATGTAATTTATGT
1050281 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCATTTGCA
63 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
1050345 CAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
128 CAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
1050410 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTG-TTTTAATTTAATAATAATATATA
193 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA
*
1050474 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTTACTC
256 CCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
1050539 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAAT
321 AAAAGATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAAT
*
1050604 AGATACTTTACAATATAAGAACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
386 AGATAATTTACAATATAAGAACTACCTATTACA-T-TATAAACGCTACCTATTACATTATAT-AG
1050669 CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
448 CGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGA
* *
1050734 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATGTTTTCT
513 TCGATACTTTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCC
*
1050799 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAATATTATTTGATTGTTTTGATA-TTTAT
578 ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT
1050863 -AAATATTATTTAGTATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT-A-ATAT
643 AAAATATTATTTAG--TTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATAT
1050925 ATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCC
706 ATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCC
* * *
1050990 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATGAATGTTTTCCACA
771 TATAATTACTAAATTAATATATAAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACA
1051055 GTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
836 GTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTA
1051120 CATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
901 CATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
1051185 ATA
966 ATA
1051188 TTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAA-GATCGATAC-TTTTTTAAAGTTATGTAATTTATGTT
*
1051253 TCAATTTTTTTAATAATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
64 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
1051318 AAAATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
129 AAAA-ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATT
1051383 AACCAAAGATAATAATAAA
193 AACCAAAGATAATAATAAA
1051402 ACTCACTCAA
Statistics
Matches: 1153, Mismatches: 19, Indels: 23
0.96 0.02 0.02
Matches are distributed among these distances:
968 15 0.01
969 27 0.02
970 119 0.10
971 294 0.25
972 359 0.31
973 111 0.10
974 228 0.20
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (968 bp):
TTGAAAGTGTCTATACTTTTTATAAAAAGATCGATACTTTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGTATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATACCGTA
ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
ATAACCTTAAATGAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGAATAGATA
ATTTACAATATAAGAACTACCTATTACATTATAAACGCTACCTATTACATTATATAGCGCTACCT
ATTACATCATATTTTTACCTATTATATTGAAAGTGTCTATACTTTTTATAAAAATGATCGATACT
TTTTATAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
TATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATT
ATTTAGTTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTG
TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACT
AAATTAATATATAAAAACTCACTCAAAAGATAACCTTAAATGAATATTTTCCACAGTGAAAAAAG
TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAA
ACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:1054222 original size:183 final size:183
Alignment explanation
Indices: 1053911--1055400 Score: 2578
Period size: 183 Copynumber: 8.1 Consensus size: 183
1053901 TACTTAAAAT
1053911 TACCGACACAATATTA-AAACGTGTCGATATAGGTTGTAAGACCTATTCGCTCATAAAACCGGTA
1 TACCGACACAATATTAGAAA-GTGTCGATATAGGTTGT-AGACCTATTCGCTCATAAAACCGGTA
*
1053975 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATTTGTAAAT
64 TATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAAT
*
1054040 GTCGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
129 GTCGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
1054095 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1054160 TTTATACCGGTTATATTACAAAAGTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
1054225 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
1054278 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGGCATATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* *
1054343 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
1054408 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
1054461 TACCGACACAATATTAGAAAGTGTCGCTATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1054526 TTTATACCGGTTATATTACAAAAGTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
1054591 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCTAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
1054644 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * * *
1054709 TTTATACCAGTTATATTACAAAATTATCTATTACACTATAATTCTGGGTTCCGATTTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
1054774 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
1054827 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1054892 TTTATACCGATTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
*
1054957 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTAGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
*
1055010 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
*
1055075 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
1055140 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* * *
1055193 TTCCGACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1 TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * * *
1055258 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCTGATGTTTTTTCAA
66 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGTAAA
* *
1055323 --TCGACACTTTTTTAAATGGTATCGACACATTTTTATTCCATTCTGGACATAAAG
128 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
* *
1055377 TACAGACACAATATTAAAAAGTGT
1 TACCGACACAATATTAGAAAGTGT
1055401 GAAAATTTTG
Statistics
Matches: 1246, Mismatches: 51, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
182 9 0.01
183 1117 0.90
184 113 0.09
185 3 0.00
186 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
TACCGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAG
Found at i:1056611 original size:3 final size:3
Alignment explanation
Indices: 1056603--1056683 Score: 90
Period size: 3 Copynumber: 27.0 Consensus size: 3
1056593 ACTTGTTTGG
* * *
1056603 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
1056651 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1056684 GTCAGCTTCA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1056659 original size:36 final size:36
Alignment explanation
Indices: 1056619--1056700 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
1056609 ATCATCATCA
*
1056619 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
1056655 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
1056691 TCATCTTCAT
1 TCATCATCAT
1056701 TGACCGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.38
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:1056684 original size:12 final size:12
Alignment explanation
Indices: 1056607--1056700 Score: 98
Period size: 12 Copynumber: 7.8 Consensus size: 12
1056597 GTTTGGATCA
* *
1056607 TCATCATCATCA
1 TCATCGTCATCT
* *
1056619 TCATCATCATCA
1 TCATCGTCATCT
* *
1056631 TCGTCATCATCT
1 TCATCGTCATCT
*
1056643 TCATCGTCAGCT
1 TCATCGTCATCT
*
1056655 TCATCGTCATCA
1 TCATCGTCATCT
1056667 TCATCGTCATCT
1 TCATCGTCATCT
*
1056679 TCATCGTCAGCT
1 TCATCGTCATCT
*
1056691 TCATCTTCAT
1 TCATCGTCAT
1056701 TGACCGCTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 71 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1056709 original size:18 final size:18
Alignment explanation
Indices: 1056637--1056700 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
1056627 ATCATCGTCA
*
1056637 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* * *
1056655 TCATCGTCATC-ATCATCG
1 TCATCTTCATCGA-CAGCT
*
1056673 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
1056691 TCATCTTCAT
1 TCATCTTCAT
1056701 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.19, C:0.33, G:0.09, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:1059028 original size:199 final size:200
Alignment explanation
Indices: 1058294--1059121 Score: 1550
Period size: 200 Copynumber: 4.1 Consensus size: 200
1058284 GATGTTTTTG
*
1058294 GGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
1058359 TAAAAAAGTGTCGACAAATTATTTAGACATATTCTCTCATAAAACCGATATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
1058424 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
1058489 TATAT
196 TATAT
1058494 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
1058559 TAAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCAGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
*
1058624 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACATTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
1058689 TATAT
196 TATAT
1058694 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1058759 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
1058824 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
1058889 TATAT
196 TATAT
1058894 GGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
* *
1058958 TAAAAAAGTATCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
* *
1059023 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTTGAAGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
1059088 TATAT
196 TATAT
*
1059093 GGTTCGACACTTTATGGTTGCACCCTGTT
1 GGATCGACACTTTATGGTTGCACCCTGTT
1059122 GGCCATATTG
Statistics
Matches: 613, Mismatches: 14, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
199 194 0.32
200 419 0.68
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATCGACACTTTTTA
TATAT
Found at i:1059251 original size:18 final size:18
Alignment explanation
Indices: 1059228--1059288 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
1059218 TCTCATTCAT
*
1059228 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
1059246 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
1059265 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
1059284 AATTA
1 AATTA
1059289 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:1059264 original size:19 final size:19
Alignment explanation
Indices: 1059240--1059288 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1059230 TTATATTCAC
1059240 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1059259 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1059278 ATACAAAATTA
1 ATACAAAATTA
1059289 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1061098 original size:33 final size:33
Alignment explanation
Indices: 1061061--1061126 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1061051 CATCTTAATA
*
1061061 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1061094 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1061127 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1061185 original size:21 final size:21
Alignment explanation
Indices: 1061160--1061224 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1061150 CCCCTTATGC
* *
1061160 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1061181 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
1061202 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1061223 CT
1 CT
1061225 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1063277 original size:24 final size:24
Alignment explanation
Indices: 1063240--1063292 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1063230 CCGTTCTATC
1063240 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1063264 TATTTTCATTGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1063288 TATTT
1 TATTT
1063293 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1063487 original size:20 final size:19
Alignment explanation
Indices: 1063437--1063492 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1063427 TCCGGTATCA
*
1063437 TTTTACCGGTTTTATCATT
1 TTTTACCTGTTTTATCATT
* *
1063456 TTGATACATGTTTTATCATAT
1 TT-TTACCTGTTTTATCAT-T
*
1063477 TTTTACCTGTTATATC
1 TTTTACCTGTTTTATC
1063493 GTTGTGGATC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCTGTTTTATCATT
Found at i:1063646 original size:20 final size:20
Alignment explanation
Indices: 1063619--1063665 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1063609 TCCGGTAACG
1063619 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
1063638 TTCTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
1063659 TTTTACC
1 TTTTACC
1063666 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:1063773 original size:182 final size:181
Alignment explanation
Indices: 1063404--1063877 Score: 682
Period size: 182 Copynumber: 2.6 Consensus size: 181
1063394 CGTACTTACG
* * * *
1063404 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACATGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
* * *
1063469 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTTAAAGTATCGACACATTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTTAAAAGTATCGACACATTA
*
1063534 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 TAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
1063586 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
* *
1063651 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
1063716 AAGAC-TTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 -AGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
1063768 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCAATACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTC-ATACAGGTT
* * * *
1063832 TTGTCATAGTTTTACCTGTTATATCGTTTTTGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
1063878 AATTTGGATC
Statistics
Matches: 263, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
181 69 0.26
182 194 0.74
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTCATACAGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:1064835 original size:31 final size:31
Alignment explanation
Indices: 1064800--1064870 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
1064790 ACAAGTAATG
* * *
1064800 AGTCGAGCAACATATTTTTTTAACGAGCACA
1 AGTCGAGCAACACAATTTTTTAACAAGCACA
*
1064831 AGTCGAGCAACACAATTTTTTAACAAGCACG
1 AGTCGAGCAACACAATTTTTTAACAAGCACA
1064862 AGTCGAGCA
1 AGTCGAGCA
1064871 CTGCCCAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (31 bp):
AGTCGAGCAACACAATTTTTTAACAAGCACA
Found at i:1065861 original size:19 final size:20
Alignment explanation
Indices: 1065827--1065865 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1065817 TGCTATTGCC
*
1065827 TATACATACATGCTTATATT
1 TATACATACATACTTATATT
1065847 TATAC-TACATACTTATATT
1 TATACATACATACTTATATT
1065866 ATGAATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (20 bp):
TATACATACATACTTATATT
Found at i:1070786 original size:6 final size:6
Alignment explanation
Indices: 1070775--1070807 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1070765 AGAATGCCCA
*
1070775 TGTTGC TGTTGC TGTTGC TGTTGC TGCTGC TGT
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGT
1070808 AAAATTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.18, G:0.33, T:0.48
Consensus pattern (6 bp):
TGTTGC
Found at i:1080380 original size:16 final size:16
Alignment explanation
Indices: 1080356--1080403 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1080346 TACTTTTTAT
*
1080356 TATTATTTATGTTTGA
1 TATTTTTTATGTTTGA
* *
1080372 TATTTTTTATATTTGG
1 TATTTTTTATGTTTGA
1080388 TATTGTTTTA-GTTTGA
1 TATT-TTTTATGTTTGA
1080404 AATACTCTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (16 bp):
TATTTTTTATGTTTGA
Found at i:1083676 original size:114 final size:113
Alignment explanation
Indices: 1083486--1083822 Score: 419
Period size: 114 Copynumber: 3.0 Consensus size: 113
1083476 TAATATTTAA
*
1083486 AAATGATAGAAAATTTTAACTATTCATGTCATTTTGTATTTAGTGAAATATCACGT-AAAGTTAA
1 AAATGATAGAAAATTTTAACTATTCATGTCATTTTATATTTAGTGAAATATCAC-TCAAA-TTAA
**
1083550 AACTTCTTTCATATTGCGTGAAAAATCTTATCAT-GTACAATAATAATTTC
64 AACTTCTTTCATATTGAATGAAAAATCTTATC-TGGTACAATAATAATTTC
* * * * * *
1083600 AAATGATAGAAAATCTTAACTATTCACGTCCTTTTATATTCAGTGAAATATTATCTCGAATTAAA
1 AAATGATAGAAAATTTTAACTATTCATGTCATTTTATATTTAGTGAAATATCA-CTCAAATTAAA
* *
1083665 ACTTCTTTCATATTGAATGAAATATCTTATCTGGTACAATAATAATTTT
65 ACTTCTTTCATATTGAATGAAAAATCTTATCTGGTACAATAATAATTTC
* * * * *
1083714 AAATGACA-AAGAATTTTAACTATTCGTGTTATTTTCTTTTTAGTGAAATATCACCTCAAATTAA
1 AAATGATAGAA-AATTTTAACTATTCATGTCATTTTATATTTAGTGAAATATCA-CTCAAATTAA
* * * *
1083778 AACTTTTTTCATATTGAATAAAAAATTTTATCTGGTATAATAATA
64 AACTTCTTTCATATTGAATGAAAAATCTTATCTGGTACAATAATA
1083823 CTTCTAAATG
Statistics
Matches: 191, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
113 3 0.02
114 185 0.97
115 3 0.02
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.41
Consensus pattern (113 bp):
AAATGATAGAAAATTTTAACTATTCATGTCATTTTATATTTAGTGAAATATCACTCAAATTAAAA
CTTCTTTCATATTGAATGAAAAATCTTATCTGGTACAATAATAATTTC
Found at i:1084172 original size:18 final size:18
Alignment explanation
Indices: 1084137--1084179 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1084127 AAATATATTA
*
1084137 AAAT-AATAAAAGCGATT
1 AAATAAATAAAAGCAATT
*
1084154 AAATAAATAAAAGTAATT
1 AAATAAATAAAAGCAATT
1084172 AAAGTAAA
1 AAA-TAAA
1084180 AATAAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAGCAATT
Found at i:1094492 original size:18 final size:18
Alignment explanation
Indices: 1094457--1094499 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1094447 AAAGATATTA
*
1094457 AAAT-AATAAAAGCGATT
1 AAATAAATAAAAGCAATT
*
1094474 AAATAAATAAAAGTAATT
1 AAATAAATAAAAGCAATT
1094492 AAAGTAAA
1 AAA-TAAA
1094500 AATAAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 14 0.64
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (18 bp):
AAATAAATAAAAGCAATT
Found at i:1096383 original size:18 final size:20
Alignment explanation
Indices: 1096338--1096386 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
1096328 CCCTTATGGG
*
1096338 GAGTATCGATACTCTACCCCT
1 GAGTATCGATAC-CTACCCAT
1096359 G-GTATCGATA-CT-CCCAT
1 GAGTATCGATACCTACCCAT
1096376 GAGTATCGATA
1 GAGTATCGATA
1096387 TAATAAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.19
18 11 0.42
20 9 0.35
21 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (20 bp):
GAGTATCGATACCTACCCAT
Found at i:1097691 original size:114 final size:114
Alignment explanation
Indices: 1097486--1097879 Score: 389
Period size: 114 Copynumber: 3.4 Consensus size: 114
1097476 AGGTGTTACA
* * * * * * *
1097486 TTAACTATTTACGTCCTTTTGTATTTAGTGAAATATCACCTCAAATAAGAACTTCTTTCATATAG
1 TTAACTATTCACGTCATTTTCTATTCAGTGATATATCACCTCAAATAAGAACTTCTTTAATATTG
* * *
1097551 AATGAAAAATCTTATCTAGTAAAATAATAATTTCAAATGACAGACAATC
66 AATGAAAAATATTAACTAGTAAAATAATAATTTCAAATGACAGAGAATC
* * * * ** * * * *
1097600 TTAACTATTCACGTTC-TTTTGTATTAAATGATATATCACTTCAAATCGGAAATTTTTTTATGTT
1 TTAACTATTCACG-TCATTTTCTATTCAGTGATATATCACCTCAAATAAGAACTTCTTTAATATT
* * *
1097664 GAATGAAAAA-ATTTAACTAGTATAATAATAACTTCAAATTGACAGAGAATT
65 GAATGAAAAATA-TTAACTAGTAAAATAATAATTTCAAA-TGACAGAGAATC
* * * * * * *
1097715 TTAATTATTTACGTCATTTTCTTTTCCGTGATAAATCACCACAAATAAGAACTTCTTTAATATTA
1 TTAACTATTCACGTCATTTTCTATTCAGTGATATATCACCTCAAATAAGAACTTCTTTAATATTG
* * *
1097780 AATGAAAAATATTATA-TGGTACAATAATAATTTCAAATGATAGAGAATC
66 AATGAAAAATATTA-ACTAGTAAAATAATAATTTCAAATGACAGAGAATC
* * * * *
1097829 TTAACTATTCATGTCTTTTTCTTTTCATTGATATATCACCTCAAATCAGAA
1 TTAACTATTCACGTCATTTTCTATTCAGTGATATATCACCTCAAATAAGAA
1097880 GTTGATTAAA
Statistics
Matches: 225, Mismatches: 49, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
114 136 0.60
115 87 0.39
116 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (114 bp):
TTAACTATTCACGTCATTTTCTATTCAGTGATATATCACCTCAAATAAGAACTTCTTTAATATTG
AATGAAAAATATTAACTAGTAAAATAATAATTTCAAATGACAGAGAATC
Found at i:1102224 original size:2 final size:2
Alignment explanation
Indices: 1102217--1102256 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1102207 GCATATTTGA
*
1102217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
1102257 GAGGATAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1102228 original size:16 final size:15
Alignment explanation
Indices: 1102191--1102256 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
1102181 ATATTAGTTA
1102191 ATATATTTCAATA-AT
1 ATATATTT-AATATAT
*
1102206 AGCATATTTGAATATAT
1 A-TATATTT-AATATAT
*
1102223 ATATATATATATATAT
1 ATATATTTA-ATATAT
*
1102239 ATATATATACATATAT
1 ATATATTTA-ATATAT
1102255 AT
1 AT
1102257 GAGGATAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
15 2 0.05
16 38 0.88
17 3 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (15 bp):
ATATATTTAATATAT
Found at i:1102950 original size:35 final size:35
Alignment explanation
Indices: 1102904--1102978 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
1102894 CGTCACGAAC
* *
1102904 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
* *
1102939 AGTAAGGCCCTGAGCACACAGCCAATGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
1102974 AGTAA
1 AGTAA
1102979 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.33, C:0.29, G:0.27, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
Found at i:1103066 original size:24 final size:24
Alignment explanation
Indices: 1103039--1103090 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1103029 TATAGCAAAA
1103039 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAAACATAATTCAAGTCAAGT
* ** * *
1103063 ATCATATTATAATTCAGGTCATGT
1 ATCAAAACATAATTCAAGTCAAGT
1103087 ATCA
1 ATCA
1103091 GATCAGAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (24 bp):
ATCAAAACATAATTCAAGTCAAGT
Found at i:1103114 original size:23 final size:23
Alignment explanation
Indices: 1103077--1103145 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
1103067 TATTATAATT
*
1103077 CAGGTCATGTATCAGATCAGAATC
1 CAGGTCA-ATATCAGATCAGAATC
*
1103101 CATGTCAATATCAGATCAGAATC
1 CAGGTCAATATCAGATCAGAATC
* *
1103124 CAGGTCAATATCATAACAGAAT
1 CAGGTCAATATCAGATCAGAAT
1103146 TCAAATTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 34 0.85
24 6 0.15
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (23 bp):
CAGGTCAATATCAGATCAGAATC
Found at i:1105603 original size:10 final size:9
Alignment explanation
Indices: 1105590--1105637 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
1105580 GTCAAAGTTT
1105590 TGGTCAACAG
1 TGGTCAAC-G
1105600 TGGTCAACG
1 TGGTCAACG
1105609 TGGGTCAAC-
1 T-GGTCAACG
1105618 -GGTCAACG
1 TGGTCAACG
1105626 -GGTCAACG
1 TGGTCAACG
1105634 -GGTC
1 TGGTC
1105638 GGGTCAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 12 0.33
9 2 0.06
10 15 0.42
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
TGGTCAACG
Found at i:1105631 original size:8 final size:8
Alignment explanation
Indices: 1105591--1105649 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
1105581 TCAAAGTTTT
1105591 GGTCAACAG
1 GGTCAAC-G
1105600 TGGTCAACGTG
1 -GGTCAAC--G
1105611 GGTCAAC-
1 GGTCAACG
1105618 GGTCAACG
1 GGTCAACG
1105626 GGTCAACG
1 GGTCAACG
1105634 GGT---CG
1 GGTCAACG
1105639 GGTCAACG
1 GGTCAACG
1105647 GGT
1 GGT
1105650 TGGGTCGGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
5 5 0.12
7 7 0.16
8 16 0.37
10 14 0.33
11 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:1105642 original size:13 final size:13
Alignment explanation
Indices: 1105624--1105694 Score: 70
Period size: 13 Copynumber: 5.1 Consensus size: 13
1105614 CAACGGTCAA
1105624 CGGGTCAACGGGT
1 CGGGTCAACGGGT
1105637 CGGGTCAACGGGTTGGGT
1 CGGGTCAAC-----GGGT
*
1105655 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
1105668 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
1105681 CGGGTAAACGGGT
1 CGGGTCAACGGGT
1105694 C
1 C
1105695 AACCGGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
13 37 0.74
18 13 0.26
ACGTcount: A:0.17, C:0.20, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:1105662 original size:31 final size:31
Alignment explanation
Indices: 1105624--1105685 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1105614 CAACGGTCAA
* *
1105624 CGGGTCAACGGGTCGGGTCAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
*
1105655 CGGGTCAACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
1105686 AAACGGGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.47, T:0.19
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
Found at i:1105672 original size:18 final size:18
Alignment explanation
Indices: 1105618--1105672 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
1105608 GTGGGTCAAC
1105618 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
*
1105639 GGTCAACGGGTTGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1105657 GGTCAACTGGTCGGGT
1 GGTCAACGGGTCGGGT
1105673 AAACGGGTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.65
21 11 0.35
ACGTcount: A:0.15, C:0.20, G:0.45, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1106955 original size:16 final size:17
Alignment explanation
Indices: 1106924--1106959 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1106914 AAATATTTAA
1106924 ATTTAGTTTATCAACAT
1 ATTTAGTTTATCAACAT
*
1106941 ATTTAG-TTGTCAACAT
1 ATTTAGTTTATCAACAT
1106957 ATT
1 ATT
1106960 ACCGTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.47
Consensus pattern (17 bp):
ATTTAGTTTATCAACAT
Found at i:1116078 original size:75 final size:75
Alignment explanation
Indices: 1115888--1116079 Score: 341
Period size: 75 Copynumber: 2.5 Consensus size: 75
1115878 AGATTGCCCA
1115888 GAGGGAACCGATTCCCTCCCAAGGGGGTACCGATTCCCCCTGAATGGTTTGGCTCCGAGAAATAA
1 GAGGGAACCGATTCCC-CCCAAGGGGGTACCGATTCCCCCTGAATGGTTTGGCTCCGAGAAATAA
1115953 CAGAATGCTCG
65 CAGAATGCTCG
*
1115964 GAGGGAACCGATTCCCCCCAA-GGGGTACCGATTCCCCCCTGAATGGTTTGGTTCCGAGAAATAA
1 GAGGGAACCGATTCCCCCCAAGGGGGTACCGATT-CCCCCTGAATGGTTTGGCTCCGAGAAATAA
1116028 CAGAATGCTCG
65 CAGAATGCTCG
*
1116039 GAGGGAACCGATTCCCCCTAAGGGGGTACCGATTCCCCCTG
1 GAGGGAACCGATTCCCCCCAAGGGGGTACCGATTCCCCCTG
1116080 TTCAACGGTC
Statistics
Matches: 112, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
74 12 0.11
75 72 0.64
76 28 0.25
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.19
Consensus pattern (75 bp):
GAGGGAACCGATTCCCCCCAAGGGGGTACCGATTCCCCCTGAATGGTTTGGCTCCGAGAAATAAC
AGAATGCTCG
Found at i:1121794 original size:24 final size:24
Alignment explanation
Indices: 1121759--1121805 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1121749 TTGACATACA
*
1121759 CTTTGAAAGTGCAGCGATGCATCC
1 CTTTGAAAGTGCAGCGATACATCC
* *
1121783 CTTTGAATGTGCATCGATACATC
1 CTTTGAAAGTGCAGCGATACATC
1121806 ATGAAGATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
CTTTGAAAGTGCAGCGATACATCC
Found at i:1121845 original size:23 final size:22
Alignment explanation
Indices: 1121768--1121845 Score: 59
Period size: 23 Copynumber: 3.5 Consensus size: 22
1121758 ACTTTGAAAG
* *
1121768 TGCAGCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATA
* * *
1121792 TGCATCGATACAT-CATGAAGA
1 TGCATCGATGCATCCTTGAATA
**
1121813 TGCAAAGATGCACTCCTTGAATA
1 TGCATCGATGCA-TCCTTGAATA
1121836 TGCATCGATG
1 TGCATCGATG
1121846 TACAAGGCCA
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
21 13 0.32
22 2 0.05
23 14 0.35
24 11 0.28
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATA
Found at i:1123812 original size:17 final size:16
Alignment explanation
Indices: 1123784--1123820 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
1123774 TTGTTTTAAC
1123784 ATTT-TGGATGTTTGA
1 ATTTGTGGATGTTTGA
1123799 ATTTGTGGATTGTTTGA
1 ATTTGTGGA-TGTTTGA
1123816 ATTTG
1 ATTTG
1123821 GATGCTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 4 0.20
17 12 0.60
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.54
Consensus pattern (16 bp):
ATTTGTGGATGTTTGA
Found at i:1124139 original size:21 final size:21
Alignment explanation
Indices: 1124088--1124140 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1124078 ATTTAACAAA
*
1124088 AAGGGGGAGAAGTGTTATAGT
1 AAGGGGGAGTAGTGTTATAGT
1124109 AAGGGGGAGTAGTGTTATAGT
1 AAGGGGGAGTAGTGTTATAGT
1124130 AAGGGGGAGTA
1 AAGGGGGAGTA
1124141 ATTTCAAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (21 bp):
AAGGGGGAGTAGTGTTATAGT
Found at i:1124600 original size:73 final size:74
Alignment explanation
Indices: 1124479--1124619 Score: 248
Period size: 73 Copynumber: 1.9 Consensus size: 74
1124469 CCCAGAGGGA
*
1124479 ACCGATTCCCCCCTGAATGGTTTGGCTCCGAGAAATAACAGAATGCTCGGAGGGAACCGATTCCC
1 ACCGATT-CCCCCTGAATGGTTTGGCTCCGAGAAATAACAGAATGCTCGGAGGGAACCAATTCCC
1124544 CCCAAGGGGT
65 CCCAAGGGGT
*
1124554 ACCGATT-CCCCTGAATGGTTTGGCTCTGAGAAATAACAGAATGCTCGGAGGGAACCAATTCCCC
1 ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAAATAACAGAATGCTCGGAGGGAACCAATTCCCC
1124618 CC
66 CC
1124620 TGTTCAACGG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
73 57 0.89
75 7 0.11
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (74 bp):
ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAAATAACAGAATGCTCGGAGGGAACCAATTCCCC
CCAAGGGGT
Found at i:1127028 original size:25 final size:25
Alignment explanation
Indices: 1127000--1127047 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1126990 TCTTTTCAGT
1127000 AATTAAAGAATAAATTAGATTGATA
1 AATTAAAGAATAAATTAGATTGATA
*
1127025 AATTAAAGAATAAATTGGATTGA
1 AATTAAAGAATAAATTAGATTGA
1127048 ACTATTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (25 bp):
AATTAAAGAATAAATTAGATTGATA
Found at i:1128603 original size:22 final size:22
Alignment explanation
Indices: 1128571--1128629 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
1128561 TACTGAATGG
1128571 AGTATCGATACCATAATATAGA
1 AGTATCGATACCATAATATAGA
*
1128593 AGTGTCGATACCATAATATAGA
1 AGTATCGATACCATAATATAGA
1128615 AGTATCGATACCATA
1 AGTATCGATACCATA
1128630 GGAGGGGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (22 bp):
AGTATCGATACCATAATATAGA
Done.