Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007838.1 Hibiscus syriacus cultivar Beakdansim tig00110187_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: 3429202
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:3057515 original size:23 final size:23
Alignment explanation
Indices: 3057489--3057533 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3057479 AATAATATTT
3057489 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
3057512 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
3057534 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:3057685 original size:22 final size:23
Alignment explanation
Indices: 3057648--3057712 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
3057638 ATTTAATAAT
* *
3057648 AAATAAATTATTTTAATATTTTA
1 AAATAAATAATATTAATATTTTA
*
3057671 AAAT-AATAATATTAA-GTTTTA
1 AAATAAATAATATTAATATTTTA
** *
3057692 TGATAAATAATATTATTATTT
1 AAATAAATAATATTAATATTT
3057713 ATTATATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 7 0.21
22 19 0.58
23 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
AAATAAATAATATTAATATTTTA
Found at i:3057936 original size:36 final size:35
Alignment explanation
Indices: 3057890--3057958 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 35
3057880 GTAATTCATT
*
3057890 TTCCATAATTCAAA-TTCTAGTAATTTATTTTCCAG
1 TTCCATAATTCAAATTTC-AGTAATTCATTTTCCAG
3057925 TTCCAGTAATTCAAATTTCAGTAATTCATTTTCC
1 TTCCA-TAATTCAAATTTCAGTAATTCATTTTCC
3057959 GGAAAACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 5 0.16
36 23 0.74
37 3 0.10
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (35 bp):
TTCCATAATTCAAATTTCAGTAATTCATTTTCCAG
Found at i:3073909 original size:22 final size:22
Alignment explanation
Indices: 3073881--3073929 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
3073871 TTTAAACACA
3073881 TATCCTGTAGTAGATTTGCTTT
1 TATCCTGTAGTAGATTTGCTTT
3073903 TATCCTGTAGTAGATTTGCTTT
1 TATCCTGTAGTAGATTTGCTTT
3073925 TATCC
1 TATCC
3073930 AAATCGCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (22 bp):
TATCCTGTAGTAGATTTGCTTT
Found at i:3076805 original size:9 final size:9
Alignment explanation
Indices: 3076791--3076820 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3076781 GATCTTCCTC
3076791 TCATCGTTG
1 TCATCGTTG
3076800 TCATCGTTG
1 TCATCGTTG
*
3076809 TCATTGTTG
1 TCATCGTTG
3076818 TCA
1 TCA
3076821 ACGCTTCTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (9 bp):
TCATCGTTG
Found at i:3079573 original size:2 final size:2
Alignment explanation
Indices: 3079566--3079599 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3079556 TGAAGCAAGC
3079566 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3079600 TCAGTTAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3087166 original size:166 final size:169
Alignment explanation
Indices: 3086892--3087227 Score: 642
Period size: 166 Copynumber: 2.0 Consensus size: 169
3086882 AACTATAATG
3086892 AATGCTTATAAGCAATGCTCAAACTAGGGACTTCAAGGATAACAATAATCCATTAATCACTAAGG
1 AATGCTTATAAGCAATGCTCAAACTAGGGACTTCAAGGATAACAATAATCCATTAATCACTAAGG
3086957 TCTCTTGATTCATGCTAAATTTTGAGTGTGAAAACTAAATAAGTTATTTTATTTTTCTT-AATAA
66 TCTCTTGATTCATGCTAAATTTTGAGTGTGAAAACTAAATAAGTTATTTTATTTTTCTTAAATAA
3087021 TCTAATATTTTGGCCACTG-T-TATTTAATTCTGACTCC
131 TCTAATATTTTGGCCACTGTTATATTTAATTCTGACTCC
3087058 AATGCTTATAAGCAATGCTCAAACTAGGGACTTCAAGGATAACAATAATCCATTAATCACTAAGG
1 AATGCTTATAAGCAATGCTCAAACTAGGGACTTCAAGGATAACAATAATCCATTAATCACTAAGG
3087123 TCTCTTGATTCATGCTAAATTTTGAGTGTGAAAACTAAATAAGTTATTTTATTTTTCTTAAATAA
66 TCTCTTGATTCATGCTAAATTTTGAGTGTGAAAACTAAATAAGTTATTTTATTTTTCTTAAATAA
3087188 TCTAATATTTTGGCCACTGTTAATATTTAATTCTGACTCC
131 TCTAATATTTTGGCCACTGTT-ATATTTAATTCTGACTCC
3087228 GTCCATACTG
Statistics
Matches: 166, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
166 124 0.75
167 24 0.14
168 1 0.01
170 17 0.10
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (169 bp):
AATGCTTATAAGCAATGCTCAAACTAGGGACTTCAAGGATAACAATAATCCATTAATCACTAAGG
TCTCTTGATTCATGCTAAATTTTGAGTGTGAAAACTAAATAAGTTATTTTATTTTTCTTAAATAA
TCTAATATTTTGGCCACTGTTATATTTAATTCTGACTCC
Found at i:3088804 original size:186 final size:185
Alignment explanation
Indices: 3088455--3088845 Score: 642
Period size: 186 Copynumber: 2.1 Consensus size: 185
3088445 ATTAAATTTT
*
3088455 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATTAATAA
3088520 TTTAAGATCCAATAACTTTTTAAACCTAAATCAATATTAACTAATTAAAAAATTTATATAAAATT
66 TTTAAGATCCAATAACTTTTTAAACCTAAATCAATATTAACTAATTAAAAAATTTATATAAAATT
* *
3088585 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTTAATTAAA
131 TTTATTTTATAATTATATATTATTTAAATTAATTATAAAC--TTTTTTTGAATTAAA
* *
3088642 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATTAATAA
* * * *
3088707 TTTAAGATCCAATAAC-TTTTAAACCTAAATTAATATTAATTAATTAAAAAATTTATCTGAAATT
66 TTTAAGATCCAATAACTTTTTAAACCTAAATCAATATTAACTAATTAAAAAATTTATATAAAATT
3088771 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
131 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* * *
3088826 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
3088846 AATTAGAAAA
Statistics
Matches: 192, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
183 8 0.04
184 23 0.12
186 83 0.43
187 78 0.41
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (185 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTTAAACCTAAATCAATATTAACTAATTAAAAAATTTATATAAAATT
TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:3090320 original size:30 final size:31
Alignment explanation
Indices: 3090284--3090343 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
3090274 GATTGAAATA
*
3090284 AAGCTTAAAAATTTCATGAT-TTTTTTTAAT
1 AAGCTTAAAAATTTAATGATCTTTTTTTAAT
*
3090314 AAGCTTAAAATTTTAATGATGCTTTTTTTA
1 AAGCTTAAAAATTTAATGAT-CTTTTTTTA
3090344 TAACCACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.69
32 8 0.31
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (31 bp):
AAGCTTAAAAATTTAATGATCTTTTTTTAAT
Found at i:3092617 original size:29 final size:30
Alignment explanation
Indices: 3092572--3092632 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
3092562 ATACCCGTTT
*
3092572 TTTTAGTTTAGTGTCTAACGTTT-ATTTCA
1 TTTTAGTTTAGTATCTAACGTTTCATTTCA
* * *
3092601 TTTTAGTTTGGTATCTAATGTTTCGTTTCA
1 TTTTAGTTTAGTATCTAACGTTTCATTTCA
3092631 TT
1 TT
3092633 ACTTAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.18, C:0.10, G:0.15, T:0.57
Consensus pattern (30 bp):
TTTTAGTTTAGTATCTAACGTTTCATTTCA
Found at i:3093318 original size:23 final size:23
Alignment explanation
Indices: 3093275--3093320 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3093265 ATTAGAAAAT
*
3093275 AAAAATAAAAAAGTATTTTTTTA
1 AAAAATAAAAAAATATTTTTTTA
*
3093298 AAAAATAAAAAAATTTGTTTTTT
1 AAAAATAAAAAAATAT-TTTTTT
3093321 TAAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
AAAAATAAAAAAATATTTTTTTA
Found at i:3095457 original size:43 final size:43
Alignment explanation
Indices: 3095396--3095494 Score: 189
Period size: 43 Copynumber: 2.3 Consensus size: 43
3095386 TTGCCATTAT
*
3095396 CCTCAAACCTTAATAAAAACAAAATTAAAACTCTCAAATCATA
1 CCTCAAACCCTAATAAAAACAAAATTAAAACTCTCAAATCATA
3095439 CCTCAAACCCTAATAAAAACAAAATTAAAACTCTCAAATCATA
1 CCTCAAACCCTAATAAAAACAAAATTAAAACTCTCAAATCATA
3095482 CCTCAAACCCTAA
1 CCTCAAACCCTAA
3095495 ATCAAACCCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (43 bp):
CCTCAAACCCTAATAAAAACAAAATTAAAACTCTCAAATCATA
Found at i:3095755 original size:21 final size:20
Alignment explanation
Indices: 3095727--3095765 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3095717 CCTAAACCTC
3095727 AAACCCCAAATCCCAAATAG
1 AAACCCCAAATCCCAAATAG
*
3095747 AAACACCCAAATCTCAAAT
1 AAAC-CCCAAATCCCAAAT
3095766 TACATTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.51, C:0.33, G:0.03, T:0.13
Consensus pattern (20 bp):
AAACCCCAAATCCCAAATAG
Found at i:3095788 original size:23 final size:23
Alignment explanation
Indices: 3095749--3095793 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3095739 CCAAATAGAA
*
3095749 ACACCCAAATCTCAAATTACATT
1 ACACCCAAATCTCAAATCACATT
3095772 ACACCCAAAT-TCTAAATCACAT
1 ACACCCAAATCTC-AAATCACAT
3095794 CCTCCAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.24
Consensus pattern (23 bp):
ACACCCAAATCTCAAATCACATT
Found at i:3098025 original size:17 final size:17
Alignment explanation
Indices: 3098003--3098039 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3097993 CTCAAATACT
3098003 AACAGATCATTTCAATG
1 AACAGATCATTTCAATG
3098020 AACAGATCATTTCAATG
1 AACAGATCATTTCAATG
3098037 AAC
1 AAC
3098040 TATATTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (17 bp):
AACAGATCATTTCAATG
Found at i:3107752 original size:3 final size:3
Alignment explanation
Indices: 3107744--3107776 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3107734 CACATTATGT
3107744 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3107777 CTATGCGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3109568 original size:38 final size:38
Alignment explanation
Indices: 3109517--3109589 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
3109507 TGAGCATTTT
*
3109517 CTCTTTAATAATACCTATGGAAGCGGTCAATGGTAATG
1 CTCTTTAATAATACCCATGGAAGCGGTCAATGGTAATG
3109555 CTCTTTAATAATACCCATGGAAGCGGTCAATGGTA
1 CTCTTTAATAATACCCATGGAAGCGGTCAATGGTA
3109590 GAATTTGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (38 bp):
CTCTTTAATAATACCCATGGAAGCGGTCAATGGTAATG
Found at i:3112738 original size:31 final size:31
Alignment explanation
Indices: 3112698--3112768 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
3112688 AATTTTAAAT
* *
3112698 TTGAATGATTAAAATTAGAGTGAGAAGAAAG
1 TTGAATGATTAAAATAAGAGTGAGAAGAAAA
* *
3112729 TTGAGTGATTAAAATAAGAGTGAGAGGAAAA
1 TTGAATGATTAAAATAAGAGTGAGAAGAAAA
3112760 TTGAATGAT
1 TTGAATGAT
3112769 GATTTACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (31 bp):
TTGAATGATTAAAATAAGAGTGAGAAGAAAA
Found at i:3115109 original size:653 final size:653
Alignment explanation
Indices: 3113864--3115167 Score: 2608
Period size: 653 Copynumber: 2.0 Consensus size: 653
3113854 TGGGTGTCGT
3113864 GGCTTCTAGAGTGAAGGGTACTGCGTCAGGCTGGTTTCACAGAGCAGCGAAGACCATCCTCTCTT
1 GGCTTCTAGAGTGAAGGGTACTGCGTCAGGCTGGTTTCACAGAGCAGCGAAGACCATCCTCTCTT
3113929 GGCAGTGGGAGGATTACAGGCTTGATCCATTAAGATCCAAAGGTCTCATTGAGCCGACCATGACT
66 GGCAGTGGGAGGATTACAGGCTTGATCCATTAAGATCCAAAGGTCTCATTGAGCCGACCATGACT
3113994 GGACCATTATCTTTTTCTTTTGGCTATGCTGGCCCGGAGTTGTTTCTCAATTTTCTTCTGTCTGC
131 GGACCATTATCTTTTTCTTTTGGCTATGCTGGCCCGGAGTTGTTTCTCAATTTTCTTCTGTCTGC
3114059 CCTTTTCCTCCGGAAGGAACATTGTTCTTGTTTGCAATTGGAAGAAAAGGCTAGAAGTCCATCAA
196 CCTTTTCCTCCGGAAGGAACATTGTTCTTGTTTGCAATTGGAAGAAAAGGCTAGAAGTCCATCAA
3114124 ATCCAGTGCAGTAGTAATTCAATTCACATTATACCTCATAGTCACAATTTCAATCTTTGAGAACC
261 ATCCAGTGCAGTAGTAATTCAATTCACATTATACCTCATAGTCACAATTTCAATCTTTGAGAACC
3114189 TTTCGAGCATTGTTTGATCACCCAAAGGTGGGGTTCCCACAGAAGGACTGCTTGCGTTTAGAGAA
326 TTTCGAGCATTGTTTGATCACCCAAAGGTGGGGTTCCCACAGAAGGACTGCTTGCGTTTAGAGAA
3114254 ACACTAATATTGCTAACACTTGCAGGAGATCCAACAGCATTTGTTGCTGGGGTCTTGGGGAGGGA
391 ACACTAATATTGCTAACACTTGCAGGAGATCCAACAGCATTTGTTGCTGGGGTCTTGGGGAGGGA
3114319 ATTTGATTTTCGCTTGCCAGCAGCTTGAGACTGGTGATGTTGTTGCATAGAGTCATTTGCACTTG
456 ATTTGATTTTCGCTTGCCAGCAGCTTGAGACTGGTGATGTTGTTGCATAGAGTCATTTGCACTTG
3114384 AAGTCAAAGATTAGGTACCACCAACGGCAGGAATTGAGTTAACAGCTGCCTTATCCTTTAGAAAT
521 AAGTCAAAGATTAGGTACCACCAACGGCAGGAATTGAGTTAACAGCTGCCTTATCCTTTAGAAAT
3114449 GCTCCAAGTGCATTGGTTGTTGCAACAGCCTCAAAGTGAGGCCCTATAGAACCACTTGAAAATTC
586 GCTCCAAGTGCATTGGTTGTTGCAACAGCCTCAAAGTGAGGCCCTATAGAACCACTTGAAAATTC
3114514 AAA
651 AAA
3114517 GGCTTCTAGAGTGAAGGGTACTGCGTCAGGCTGGTTTCACAGAGCAGCGAAGACCATCCTCTCTT
1 GGCTTCTAGAGTGAAGGGTACTGCGTCAGGCTGGTTTCACAGAGCAGCGAAGACCATCCTCTCTT
3114582 GGCAGTGGGAGGATTACAGGCTTGATCCATTAAGATCCAAAGGTCTCATTGAGCCGACCATGACT
66 GGCAGTGGGAGGATTACAGGCTTGATCCATTAAGATCCAAAGGTCTCATTGAGCCGACCATGACT
3114647 GGACCATTATCTTTTTCTTTTGGCTATGCTGGCCCGGAGTTGTTTCTCAATTTTCTTCTGTCTGC
131 GGACCATTATCTTTTTCTTTTGGCTATGCTGGCCCGGAGTTGTTTCTCAATTTTCTTCTGTCTGC
3114712 CCTTTTCCTCCGGAAGGAACATTGTTCTTGTTTGCAATTGGAAGAAAAGGCTAGAAGTCCATCAA
196 CCTTTTCCTCCGGAAGGAACATTGTTCTTGTTTGCAATTGGAAGAAAAGGCTAGAAGTCCATCAA
3114777 ATCCAGTGCAGTAGTAATTCAATTCACATTATACCTCATAGTCACAATTTCAATCTTTGAGAACC
261 ATCCAGTGCAGTAGTAATTCAATTCACATTATACCTCATAGTCACAATTTCAATCTTTGAGAACC
3114842 TTTCGAGCATTGTTTGATCACCCAAAGGTGGGGTTCCCACAGAAGGACTGCTTGCGTTTAGAGAA
326 TTTCGAGCATTGTTTGATCACCCAAAGGTGGGGTTCCCACAGAAGGACTGCTTGCGTTTAGAGAA
3114907 ACACTAATATTGCTAACACTTGCAGGAGATCCAACAGCATTTGTTGCTGGGGTCTTGGGGAGGGA
391 ACACTAATATTGCTAACACTTGCAGGAGATCCAACAGCATTTGTTGCTGGGGTCTTGGGGAGGGA
3114972 ATTTGATTTTCGCTTGCCAGCAGCTTGAGACTGGTGATGTTGTTGCATAGAGTCATTTGCACTTG
456 ATTTGATTTTCGCTTGCCAGCAGCTTGAGACTGGTGATGTTGTTGCATAGAGTCATTTGCACTTG
3115037 AAGTCAAAGATTAGGTACCACCAACGGCAGGAATTGAGTTAACAGCTGCCTTATCCTTTAGAAAT
521 AAGTCAAAGATTAGGTACCACCAACGGCAGGAATTGAGTTAACAGCTGCCTTATCCTTTAGAAAT
3115102 GCTCCAAGTGCATTGGTTGTTGCAACAGCCTCAAAGTGAGGCCCTATAGAACCACTTGAAAATTC
586 GCTCCAAGTGCATTGGTTGTTGCAACAGCCTCAAAGTGAGGCCCTATAGAACCACTTGAAAATTC
3115167 A
651 A
3115168 CCAGCTTTTG
Statistics
Matches: 651, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
653 651 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (653 bp):
GGCTTCTAGAGTGAAGGGTACTGCGTCAGGCTGGTTTCACAGAGCAGCGAAGACCATCCTCTCTT
GGCAGTGGGAGGATTACAGGCTTGATCCATTAAGATCCAAAGGTCTCATTGAGCCGACCATGACT
GGACCATTATCTTTTTCTTTTGGCTATGCTGGCCCGGAGTTGTTTCTCAATTTTCTTCTGTCTGC
CCTTTTCCTCCGGAAGGAACATTGTTCTTGTTTGCAATTGGAAGAAAAGGCTAGAAGTCCATCAA
ATCCAGTGCAGTAGTAATTCAATTCACATTATACCTCATAGTCACAATTTCAATCTTTGAGAACC
TTTCGAGCATTGTTTGATCACCCAAAGGTGGGGTTCCCACAGAAGGACTGCTTGCGTTTAGAGAA
ACACTAATATTGCTAACACTTGCAGGAGATCCAACAGCATTTGTTGCTGGGGTCTTGGGGAGGGA
ATTTGATTTTCGCTTGCCAGCAGCTTGAGACTGGTGATGTTGTTGCATAGAGTCATTTGCACTTG
AAGTCAAAGATTAGGTACCACCAACGGCAGGAATTGAGTTAACAGCTGCCTTATCCTTTAGAAAT
GCTCCAAGTGCATTGGTTGTTGCAACAGCCTCAAAGTGAGGCCCTATAGAACCACTTGAAAATTC
AAA
Found at i:3118380 original size:20 final size:20
Alignment explanation
Indices: 3118312--3118607 Score: 158
Period size: 20 Copynumber: 14.6 Consensus size: 20
3118302 ACTTAACATA
* *
3118312 TAAATCGCAACGCG-ATTCT
1 TAAATCGCAACGCGTATCCG
* * *
3118331 TACTATCGCAACGAGTATTCG
1 TA-AATCGCAACGCGTATCCG
*
3118352 TAAAAATCGCAATGCGTATCCG
1 T--AAATCGCAACGCGTATCCG
* *
3118374 TAAATCGCAACGAC-AATACG
1 TAAATCGCAACG-CGTATCCG
3118394 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
* * *
3118415 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGCGTATCCG
*
3118435 TAAAATCGCAACGCATATCCG
1 T-AAATCGCAACGCGTATCCG
* * *
3118456 TAAATCGCAACGAGAATACG
1 TAAATCGCAACGCGTATCCG
*
3118476 TAAAATCGCAACGCG-ATTC-
1 T-AAATCGCAACGCGTATCCG
* * *
3118495 TGATTATCGCAAC-CAGAATACG
1 T-A-AATCGCAACGC-GTATCCG
* * * *
3118517 TTAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
* *
3118537 TAAATCGCAACG-ATAATCTG
1 TAAATCGCAACGCGT-ATCCG
*
3118557 TAAATCGC-ACG-ATAATCCG
1 TAAATCGCAACGCGT-ATCCG
* * *
3118576 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCGTATCCG
3118596 TAAAATCGCAAC
1 T-AAATCGCAAC
3118608 AACACTTAAA
Statistics
Matches: 219, Mismatches: 40, Indels: 34
0.75 0.14 0.12
Matches are distributed among these distances:
19 23 0.11
20 116 0.53
21 63 0.29
22 16 0.07
23 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:3118411 original size:41 final size:41
Alignment explanation
Indices: 3118313--3118607 Score: 311
Period size: 41 Copynumber: 7.2 Consensus size: 41
3118303 CTTAACATAT
* * * * *
3118313 AAATCGCAACGCG-ATTCTTACTATCGCAACGAGTATTCGTAA
1 AAATCGCAACGCGTATCCGTA-AATCGCAACGAGAATACGT-A
* *
3118355 AAATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
3118396 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
3118437 AAATCGCAACGCATATCCGTAAATCGCAACGAGAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
3118478 AAATCGCAACGCG-ATTC-TGATTATCGCAACCAGAATACGT-
1 AAATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATACGTA
* * * * *
3118518 TAATCGCAACGAGAATCTGTAAATCGCAACGATAAT-CTGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATAC-GTA
*
3118558 AAATCGC-ACG-ATAATCCGTAAATCGCAACGAGAAT-CTGTA
1 AAATCGCAACGCGT-ATCCGTAAATCGCAACGAGAATAC-GTA
3118598 AAATCGCAAC
1 AAATCGCAAC
3118608 AACACTTAAA
Statistics
Matches: 218, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
39 29 0.13
40 42 0.19
41 114 0.52
42 28 0.13
43 5 0.02
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:3119235 original size:19 final size:19
Alignment explanation
Indices: 3119211--3119264 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
3119201 CACCACATTC
3119211 CATTTCGCGTTGCGATTTT
1 CATTTCGCGTTGCGATTTT
3119230 CATTTCGCGTTGCGATTTT
1 CATTTCGCGTTGCGATTTT
3119249 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
3119265 AATGAAGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
CATTTCGCGTTGCGATTTT
Found at i:3119518 original size:19 final size:19
Alignment explanation
Indices: 3119491--3119608 Score: 155
Period size: 19 Copynumber: 6.1 Consensus size: 19
3119481 GTTTCACCAC
*
3119491 ATTTCCATTTCGCGTTGCG
1 ATTTTCATTTCGCGTTGCG
3119510 ATTTTCATTTCGCGTTGCG
1 ATTTTCATTTCGCGTTGCG
3119529 ATTTTCATTTCGCGTTGCG
1 ATTTTCATTTCGCGTTGCG
3119548 ATTTTCATTTCGCGTTGCG
1 ATTTTCATTTCGCGTTGCG
** *
3119567 ATAGTCATTTTTCACGTTGCG
1 ATTTTCA--TTTCGCGTTGCG
* *
3119588 ATTTTAAGTTTCGTGTTGCG
1 ATTTTCA-TTTCGCGTTGCG
3119608 A
1 A
3119609 AAGTAAACTA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
19 61 0.70
20 11 0.13
21 15 0.17
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (19 bp):
ATTTTCATTTCGCGTTGCG
Found at i:3119881 original size:93 final size:92
Alignment explanation
Indices: 3119719--3119909 Score: 321
Period size: 93 Copynumber: 2.1 Consensus size: 92
3119709 GAATACACAG
* * *
3119719 TTTAGTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTTACTTCAACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTGTTAAAGAATAAACAGTT
3119784 TAGC-AGATTGGCAGCAACCGAATAAA
66 TAGCAAGATTGGCAGCAACCGAATAAA
3119810 TTTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTTACTTCAACCAAAAGACAAAAC-AAAGACAAATACT-ACTTCACAGTGTTAAAGAATAAACAG
*
3119875 TTTAGCAATATTGGCAGCAACCGAATAAA
64 TTTAGCAAGATTGGCAGCAACCGAATAAA
3119904 TTTACT
1 TTTACT
3119910 AAGCAATCTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
91 23 0.25
92 13 0.14
93 30 0.32
94 27 0.29
ACGTcount: A:0.47, C:0.18, G:0.13, T:0.23
Consensus pattern (92 bp):
TTTACTTCAACCAAAAGACAAAACAAAGACAAATACTACTTCACAGTGTTAAAGAATAAACAGTT
TAGCAAGATTGGCAGCAACCGAATAAA
Found at i:3121542 original size:19 final size:19
Alignment explanation
Indices: 3121518--3121590 Score: 102
Period size: 19 Copynumber: 4.1 Consensus size: 19
3121508 TCTTTTGGTT
3121518 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
3121537 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
3121554 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
3121570 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
3121589 GA
1 GA
3121591 GATGGTTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 31 0.66
ACGTcount: A:0.47, C:0.21, G:0.23, T:0.10
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:3121563 original size:33 final size:33
Alignment explanation
Indices: 3121526--3121592 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
3121516 TTGAAATGAA
3121526 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
3121559 AATCGCAACGCGAAATGAAAATCGCAACGCGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
3121592 A
1 A
3121593 TGGTTAATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:3121957 original size:20 final size:20
Alignment explanation
Indices: 3121932--3122044 Score: 104
Period size: 20 Copynumber: 5.5 Consensus size: 20
3121922 AAAAATCGCA
3121932 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGGATACGCG
* *
3121952 TTGCGATTTTACGTAT-TGTCG
1 TTGCGA-TTTACGGATACG-CG
*
3121973 TTGCGATTTACGGATACACG
1 TTGCGATTTACGGATACGCG
*
3121993 TTGCGATTTTTACGGATACTCG
1 TTGCGA--TTTACGGATACGCG
* * *
3122015 TTGCGATAGTAAGAAT-CGCG
1 TTGCGAT-TTACGGATACGCG
3122035 TTGCGATTTA
1 TTGCGATTTA
3122045 TATGTTCGCG
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
19 2 0.03
20 34 0.45
21 21 0.28
22 19 0.25
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCGATTTACGGATACGCG
Found at i:3121989 original size:41 final size:41
Alignment explanation
Indices: 3121932--3122043 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
3121922 AAAAATCGCA
* **
3121932 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 TTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCG
*
3121973 TTGCGATTTACGGATACACGTTGCGATTTTTACGGATACTCG
1 TTGCGATTTACGGATACGCGTTGCGA-TTTTACGGATACTCG
* * *
3122015 TTGCGATAGTAAGAAT-CGCGTTGCGATTT
1 TTGCGAT-TTACGGATACGCGTTGCGATTT
3122044 ATATGTTCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 28 0.46
42 28 0.46
43 5 0.08
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.37
Consensus pattern (41 bp):
TTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCG
Found at i:3122007 original size:22 final size:21
Alignment explanation
Indices: 3121932--3122021 Score: 112
Period size: 20 Copynumber: 4.3 Consensus size: 21
3121922 AAAAATCGCA
*
3121932 TTGCGA-TTTACGGATACGCG
1 TTGCGATTTTACGGATACTCG
* **
3121952 TTGCGATTTTACGTATTGTCG
1 TTGCGATTTTACGGATACTCG
*
3121973 TTGCGA-TTTACGGATACACG
1 TTGCGATTTTACGGATACTCG
3121993 TTGCGATTTTTACGGATACTCG
1 TTGCGA-TTTTACGGATACTCG
3122015 TTGCGAT
1 TTGCGAT
3122022 AGTAAGAATC
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 22 0.38
21 17 0.29
22 19 0.33
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.38
Consensus pattern (21 bp):
TTGCGATTTTACGGATACTCG
Found at i:3122037 original size:42 final size:42
Alignment explanation
Indices: 3121945--3122043 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
3121935 CGATTTACGG
* ** * * *
3121945 ATACGCGTTGCGA-TTTTACGTATTGTCGTTGCGATTTACGG
1 ATACGCGTTGCGATTTTTACGGATACTCGTTGCGATGTAAGA
*
3121986 ATACACGTTGCGATTTTTACGGATACTCGTTGCGATAGTAAGA
1 ATACGCGTTGCGATTTTTACGGATACTCGTTGCGAT-GTAAGA
3122029 AT-CGCGTTGCGATTT
1 ATACGCGTTGCGATTT
3122044 ATATGTTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 12 0.25
42 31 0.65
43 5 0.10
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
ATACGCGTTGCGATTTTTACGGATACTCGTTGCGATGTAAGA
Found at i:3122053 original size:20 final size:20
Alignment explanation
Indices: 3122030--3122082 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3122020 ATAGTAAGAA
*
3122030 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
3122050 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
3122070 TCGCGTCGCGATT
1 TCGCGTTGCGATT
3122083 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:3122114 original size:21 final size:20
Alignment explanation
Indices: 3122090--3122147 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
3122080 ATTCTGGAAA
*
3122090 ATCGCAATGCGAATTTGTACT
1 ATCGCATTGCGAATTTGTA-T
*
3122111 ATCGCATTGCG-ATTTTTAT
1 ATCGCATTGCGAATTTGTAT
* *
3122130 TTCGCATTGCGATTTTGT
1 ATCGCATTGCGAATTTGT
3122148 TGGTCATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 11 0.35
20 10 0.32
21 10 0.32
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (20 bp):
ATCGCATTGCGAATTTGTAT
Found at i:3130433 original size:31 final size:31
Alignment explanation
Indices: 3130393--3130463 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
3130383 AATTTTAAAT
* *
3130393 TTGAATGATTAAAATTAGAGTGAGAAGAAAG
1 TTGAATGATTAAAATAAGAGTGAGAAGAAAA
* *
3130424 TTGAGTGATTAAAATAAGAGTGAGAGGAAAA
1 TTGAATGATTAAAATAAGAGTGAGAAGAAAA
3130455 TTGAATGAT
1 TTGAATGAT
3130464 GATTTACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (31 bp):
TTGAATGATTAAAATAAGAGTGAGAAGAAAA
Found at i:3136102 original size:18 final size:18
Alignment explanation
Indices: 3136079--3136113 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3136069 AGGGTTCTAT
3136079 GTGGTCCTTCAGGACATA
1 GTGGTCCTTCAGGACATA
*
3136097 GTGGTCCTTCGGGACAT
1 GTGGTCCTTCAGGACAT
3136114 TTCTACGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCAGGACATA
Found at i:3144398 original size:16 final size:16
Alignment explanation
Indices: 3144374--3144407 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3144364 TATCGCCGAC
*
3144374 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3144390 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3144406 CG
1 CG
3144408 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:3148226 original size:54 final size:53
Alignment explanation
Indices: 3148132--3148235 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 53
3148122 ATGTTAAAGA
*
3148132 AATATATATATATATAATAATAAAATATAGTAAAAAAATAAATGAAAATAATTT
1 AATATATATATATATAATAATAAAATATAGTAAAAAAAT-AATAAAAATAATTT
**
3148186 AATATATATATATATACAT-ATAATAATA-A-TAACATGAATAATAAAAATAA
1 AATATATATATATATA-ATAATAA-AATATAGTAA-AAAAATAATAAAAATAA
3148236 ATGAATAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
53 13 0.30
54 25 0.57
55 6 0.14
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (53 bp):
AATATATATATATATAATAATAAAATATAGTAAAAAAATAATAAAAATAATTT
Found at i:3148228 original size:18 final size:17
Alignment explanation
Indices: 3148205--3148247 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
3148195 ATATATACAT
3148205 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
3148223 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
3148240 ATAA-AATA
1 ATAATAATA
3148248 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:3148255 original size:58 final size:57
Alignment explanation
Indices: 3148133--3148255 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 57
3148123 TGTTAAAGAA
* * * *
3148133 ATATATATATATATAATAATAAAATATAGTAAAAAAATAAATGAAAATAATTTAATATAT
1 ATATATATACATATAATAATAAAACATAATAAAAAAATAAATG-AAATAA--TAATATAC
*
3148193 ATATATATACATATAATAATAATAACATGAATAATAAAAATAAATG-AATAA-AATATCC
1 ATATATATACATATAATAATAA-AACAT-AATAA-AAAAATAAATGAAATAATAATATAC
3148251 ATATA
1 ATATA
3148256 ATAAATAAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
58 10 0.18
60 21 0.38
61 9 0.16
62 4 0.07
63 11 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (57 bp):
ATATATATACATATAATAATAAAACATAATAAAAAAATAAATGAAATAATAATATAC
Found at i:3148647 original size:37 final size:38
Alignment explanation
Indices: 3148597--3148701 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 38
3148587 GTGCTTGTGG
* * * *
3148597 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAAC-TCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTCT
* *
3148634 ATCCTATTTTTAGGAGTTTGAATCCTAGCA-AACTTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTCT
*
3148671 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
3148702 GACGAAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 3 0.05
37 55 0.95
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (38 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTCT
Found at i:3149543 original size:105 final size:105
Alignment explanation
Indices: 3149240--3149868 Score: 959
Period size: 105 Copynumber: 6.0 Consensus size: 105
3149230 CATTGTTCCA
* * * * *
3149240 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACTAGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * *
3149304 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 GCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
3149346 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTATTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
3149406 AGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3149446 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
3149511 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
3149551 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
3149616 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3149656 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
3149721 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
3149761 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
* * *
3149826 AGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
66 AG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
3149866 AGT
1 AGT
3149869 GTCACGATAT
Statistics
Matches: 488, Mismatches: 27, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
99 1 0.00
100 82 0.17
101 1 0.00
102 7 0.01
104 6 0.01
105 355 0.73
106 36 0.07
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:3150128 original size:36 final size:36
Alignment explanation
Indices: 3150072--3150142 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
3150062 TGGAGAGAAA
* *
3150072 CTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAG
1 CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAG
*
3150108 CTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAA
1 CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAA
3150143 ATGTTTTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (36 bp):
CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAG
Found at i:3150264 original size:105 final size:104
Alignment explanation
Indices: 3150043--3150361 Score: 491
Period size: 105 Copynumber: 3.1 Consensus size: 104
3150033 TTCGTTAAAT
* ** *
3150043 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * * *
3150105 AAGCTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
3150144 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
3150209 AAACTATCTCAAGAGATAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGA-GAAAAAATTCATTTCAAGGGAAA
*
3150249 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAATTTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
3150314 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
3150353 TGTTTTCAA
1 TGTTTTCAA
3150362 GAGAAACTGT
Statistics
Matches: 199, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
101 46 0.23
103 3 0.02
104 51 0.26
105 99 0.50
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:3150579 original size:72 final size:75
Alignment explanation
Indices: 3150432--3150601 Score: 208
Period size: 72 Copynumber: 2.3 Consensus size: 75
3150422 TAAAATCTTC
** * * *
3150432 TTAA-AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAATGAAAT-CCTTCTTTCGAGTAAAAACAGCCTCAAGCGAGA
*
3150496 CAAATCTTGTT
65 CAAATCATGTT
*
3150507 TTAAGAAAAACAATCTTGAGTGAAATG-AAT-CTTCTTTCGAG-AAAAACAGCCTCAAGTGAGAC
1 TTAAGAAAAACAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGCCTCAAGCGAGAC
3150569 AAAGT-ATGTT
66 AAA-TCATGTT
3150579 TTAAGAAAAACAAAT-TTGAGTGA
1 TTAAGAAAAAC-AATCTTGAGTGA
3150602 GATAATCATT
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
72 43 0.51
73 15 0.18
75 7 0.08
76 20 0.24
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (75 bp):
TTAAGAAAAACAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGCCTCAAGCGAGAC
AAATCATGTT
Found at i:3152047 original size:183 final size:183
Alignment explanation
Indices: 3151739--3152275 Score: 961
Period size: 183 Copynumber: 2.9 Consensus size: 183
3151729 ATCAGGTTTA
**
3151739 ACTGAAGGGTTCATCTCATCACAAAGTCTTTAACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * **
3151804 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 TCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
3151868 TTCCTCTAAAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
3151922 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
3151987 TCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 TCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
3152052 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
3152105 ACTGAAGGGTTTATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
3152170 GT-CAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 -TCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
3152234 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
3152276 CGGATTTAAT
Statistics
Matches: 342, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
183 340 0.99
184 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
TCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:3156557 original size:18 final size:17
Alignment explanation
Indices: 3156536--3156578 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
3156526 ATATATACAT
3156536 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
3156554 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
3156571 ATAA-AATA
1 ATAATAATA
3156579 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:3156586 original size:60 final size:59
Alignment explanation
Indices: 3156462--3156586 Score: 137
Period size: 62 Copynumber: 2.1 Consensus size: 59
3156452 TGTTAAAGAA
* * * *
3156462 ATATATATATATATAATAATAAAATATAGTAAAAAAATAAATGAAAATAATTTAATATATAT
1 ATATATATACATATAATAATAAAACATAATAAAAAAATAAATG-AAATAA--TAATATACAT
*
3156524 ATATATATACATATAATAATAATAACATGAATAATAAAAATAAATG-AATAA-AATATCCAT
1 ATATATATACATATAATAATAA-AACAT-AATAA-AAAAATAAATGAAATAATAATATACAT
3156584 ATA
1 ATA
3156587 ATAAATAAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
60 10 0.18
62 21 0.38
63 9 0.16
64 4 0.07
65 11 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (59 bp):
ATATATATACATATAATAATAAAACATAATAAAAAAATAAATGAAATAATAATATACAT
Found at i:3165218 original size:3 final size:3
Alignment explanation
Indices: 3165210--3165243 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
3165200 GCACTGCCAC
3165210 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
3165244 ACTGAGCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:3176151 original size:15 final size:15
Alignment explanation
Indices: 3176127--3176157 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3176117 GCATCATTAA
*
3176127 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
3176142 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
3176157 A
1 A
3176158 CAAAAAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:3176228 original size:14 final size:17
Alignment explanation
Indices: 3176194--3176238 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 17
3176184 AAATATAATA
3176194 TTTATAATACATTAGTT
1 TTTATAATACATTAGTT
3176211 TTTATAAT-C-TTA-TT
1 TTTATAATACATTAGTT
*
3176225 TTTATTATA-ATTAG
1 TTTATAATACATTAG
3176239 ATTACATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
14 9 0.38
15 6 0.25
16 1 0.04
17 8 0.33
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTATAATACATTAGTT
Found at i:3181237 original size:20 final size:19
Alignment explanation
Indices: 3181212--3181251 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
3181202 TGGTTCACAT
3181212 AATGTAAGATTACCAGTGGA
1 AATGTAAGATTACCAG-GGA
3181232 AATGTAAGATTACCAGGGA
1 AATGTAAGATTACCAGGGA
3181251 A
1 A
3181252 TAAGATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (19 bp):
AATGTAAGATTACCAGGGA
Found at i:3181257 original size:16 final size:19
Alignment explanation
Indices: 3181215--3181260 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
3181205 TTCACATAAT
3181215 GTAAGATTACCAGTGGAAA
1 GTAAGATTACCAGTGGAAA
3181234 TGTAAGATTACCAG-GG-AA
1 -GTAAGATTACCAGTGGAAA
3181252 -TAAGATTAC
1 GTAAGATTAC
3181261 TGGGAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
18 2 0.08
19 2 0.08
20 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (19 bp):
GTAAGATTACCAGTGGAAA
Found at i:3181474 original size:38 final size:37
Alignment explanation
Indices: 3181400--3181475 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
3181390 GTTAGAAAAT
* *
3181400 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
3181437 ATTTATATAATTTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-A-TTTTCTTTAAAAAATTGAAAATCATAAA
3181475 A
1 A
3181476 AAGTTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 8 0.24
38 7 0.21
39 18 0.55
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:3182036 original size:18 final size:18
Alignment explanation
Indices: 3182013--3182060 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
3182003 AAATTATCCT
*
3182013 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
*
3182031 TATTATA-AATTGTAAAA
1 TATTATATATTTGTAAAA
3182048 TATGTATATATTT
1 TAT-TATATATTT
3182061 TCTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 11 0.44
18 11 0.44
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:3185686 original size:41 final size:41
Alignment explanation
Indices: 3185648--3185959 Score: 338
Period size: 41 Copynumber: 7.6 Consensus size: 41
3185638 CGCTTTTTCA
* * * * *
3185648 ACAAACGCCGCAAAAGAGTAGTACTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
* * *
3185689 ACAAACGTCACTAAAGACTTGTAATTTAGT-GCAATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGC-ATTTTTAT
3185730 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
* * * * **
3185771 ACAAACGCCGCTATAGAATTGTATTTTAGTGGTGTTTTTAT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
* *
3185812 ACAAACGCCGCTAAAGACGCGTACTTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
* * * * * * * * * *
3185853 TCAAACGCCGTTATACACTTGTACTATAATGGCGTTTGTGTTT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTT-T-TAT
*
3185896 ACAAACGTCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
1 ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
*
3185937 ACAAATGCCGCTAAAGACTCGTA
1 ACAAACGCCGCTAAAGACTCGTA
3185960 CAAATGCCTT
Statistics
Matches: 221, Mismatches: 46, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
40 2 0.01
41 186 0.84
42 4 0.02
43 29 0.13
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTAT
Found at i:3187630 original size:221 final size:224
Alignment explanation
Indices: 3187247--3187693 Score: 848
Period size: 221 Copynumber: 2.0 Consensus size: 224
3187237 GTTCCCCATC
3187247 TCTATTTTCCCTTTTTTCACATTTTTATTTTGCAGATAGAACCAATCCCAAGTGGAAACCTGCCA
1 TCTATTTTCCCTTTTTTCACATTTTTATTTTGCAGATAGAACCAATCCCAAGTGGAAACCTGCCA
3187312 CCCTGGTTTTGATTCAAGTACTTGCCGCAGTGTCTGAGTGTTTGCCTAGATTTTTTTTCCTTCCA
66 CCCTGGTTTTGATTCAAGTACTTGCCGCAGTGTCTGAGTGTTTGCCTAGATTTTTTTTCCTTCCA
3187377 ATTTCCTCGTTCATCTGCATTTTGTGCATCTTCTGTTTCCCTTTCTTAATTGAGTAACTTCCCAC
131 ATTTCCTCGTTCATCTGCATTTTGTGCATCTTCTGTTTCCCTTTCTTAATTGAGTAACTTCCCAC
3187442 T-C-TTTATGCTTATAACAATA-GCATTG
196 TACTTTTATGCTTATAACAATATGCATTG
3187468 TCTATTTTCCCTTTTTTCACATTTTTATTTTGCAGATAGAACCAATCCCAAGTGGAAACCTGCCA
1 TCTATTTTCCCTTTTTTCACATTTTTATTTTGCAGATAGAACCAATCCCAAGTGGAAACCTGCCA
3187533 -CCTGGTTTTGATTCAAGTACTTGCCGCAGTGTCTGAGTGTTTGCCTAGATTTTTTTTTCCTTCC
66 CCCTGGTTTTGATTCAAGTACTTGCCGCAGTGTCTGAGTGTTTGCCTAGA-TTTTTTTTCCTTCC
3187597 AATTTCCTCGTTCATCTGCATTTTGTGCATCTTCTGTTTCCCTTTCTTAATTGAGTAACTTCCCA
130 AATTTCCTCGTTCATCTGCATTTTGTGCATCTTCTGTTTCCCTTTCTTAATTGAGTAACTTCCCA
3187662 CTCACTTTTATGCTTATAACAATATGCATTG
195 CT-ACTTTTATGCTTATAACAATATGCATTG
3187693 T
1 T
3187694 ATACCATTTC
Statistics
Matches: 221, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
220 49 0.22
221 146 0.66
223 1 0.00
224 18 0.08
225 7 0.03
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (224 bp):
TCTATTTTCCCTTTTTTCACATTTTTATTTTGCAGATAGAACCAATCCCAAGTGGAAACCTGCCA
CCCTGGTTTTGATTCAAGTACTTGCCGCAGTGTCTGAGTGTTTGCCTAGATTTTTTTTCCTTCCA
ATTTCCTCGTTCATCTGCATTTTGTGCATCTTCTGTTTCCCTTTCTTAATTGAGTAACTTCCCAC
TACTTTTATGCTTATAACAATATGCATTG
Found at i:3190072 original size:43 final size:42
Alignment explanation
Indices: 3190010--3190336 Score: 298
Period size: 43 Copynumber: 7.6 Consensus size: 42
3190000 AAGGTAATTA
* *
3190010 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTAACCTTTT
** * *
3190053 GCGGCGTTTGTGTTTAAAAACACCGTTATAGGTCTAACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTAACCTTTT
* *
3190096 GCGGCGTTTGTGTCCAAAAATGCCGCTATAGGTTTAACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTAACCTTTT
** * *
3190139 GCGGCGTTTGTTATAAAAACGGCAG-TATAGGTCT-TCTCTTTT
1 GCGGCGTTTGTTCCAAAAAC-GCCGCTATAGGTCTAAC-CTTTT
* *
3190181 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * * ** *
3190224 GCGGCGTTTTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCG---TTTGTTCCAAAAACGCCGCTATAGGTC-TAACCTTTT
* * * * *
3190270 GCGGCGGTTATTCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCT-AACCTTTT
* *
3190313 GCGTCGTTTGTTCAAAAAACGCCG
1 GCGGCGTTTGTTCCAAAAACGCCG
3190337 TAATAGATAT
Statistics
Matches: 232, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.00
42 34 0.15
43 160 0.69
44 1 0.00
45 19 0.08
46 17 0.07
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCTAACCTTTT
Found at i:3190197 original size:85 final size:86
Alignment explanation
Indices: 3190010--3190323 Score: 321
Period size: 85 Copynumber: 3.6 Consensus size: 86
3190000 AAGGTAATTA
* *
3190010 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTTAAAAACA
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTATAAAAACA
*
3190075 CCGTTATAGGTCTAACCTTTT
66 CAGTTATAGGTCTAACCTTTT
* * * *
3190096 GCGGCGTTTGTGTCCAAAAATGCCGCTATAGGTTTAACCTTTTGCGGCGTTTGT-TATAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTATAAAAAC-
* *
3190160 GCAG-TATAGGTCT-TCTCTTTT
65 ACAGTTATAGGTCTAAC-CTTTT
* * * * *
3190181 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTTTTCTAGAAA
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCG--TTTGTGTATAAAAA
* * * ** *
3190246 CGCCGCTATATATCATAACTTTTT
64 CACAGTTATAGGTC-TAACCTTTT
* * * * *
3190270 GCGGCGGTTAT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGCGTCGTTTGT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTGT
3190324 TCAAAAAACG
Statistics
Matches: 192, Mismatches: 27, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 66 0.34
86 51 0.27
87 11 0.06
88 35 0.18
89 27 0.14
90 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTATAAAAACA
CAGTTATAGGTCTAACCTTTT
Found at i:3190280 original size:128 final size:128
Alignment explanation
Indices: 3190010--3190384 Score: 300
Period size: 128 Copynumber: 2.9 Consensus size: 128
3190000 AAGGTAATTA
* * * * **
3190010 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACT-TTTTGCGGCGTTTGTGTTTAAAAAC
1 GCGGCGTGT-TATTCAAAAACGCAGCTATAGGTCT-TCTCTTTTGCGGCGTTTGT-TCAAAAAAC
* * * * * * * * *
3190074 ACCGTTATAGGTCTAACCTTTTGCGGCG--TTTGTGTCCAAAAATGCCGCTATAGGTTTAACCTT
63 GCCG-TATAGATCTGACCTTTTGCGGCGTTTTTTTTTCTAAAAACGCCGCTATAGATATAACCTT
3190137 TT
127 TT
*
3190139 GCGGCGTTTGTTA-T-AAAAACGGCAG-TATAGGTCTTCTCTTTTGCGGCGTTTGTATCCAAAAA
1 GCGGCG--TGTTATTCAAAAAC-GCAGCTATAGGTCTTCTCTTTTGCGGCGTTTGT-TCAAAAAA
* * *
3190201 CGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTTTTCTAGAAACGCCGCTATATATCATAACT
62 CGCCG-TATAGATCTGACCTTTTGCGGCGTTTTTTTTTCTAAAAACGCCGCTATAGAT-ATAACC
3190266 TTTT
125 TTTT
* * * * *
3190270 GCGGCG-GTTATTCCAAAAACGCCGCTATAGAT-ATCGACCTTTTGCGTCGTTTGTTCAAAAAAC
1 GCGGCGTGTTATT-CAAAAACGCAGCTATAGGTCTTC--TCTTTTGCGGCGTTTGTTCAAAAAAC
* * * *
3190333 GCCGTAATAGATATTGACCTATTGCGGCGTTTTTTGTTCT-CAAACGCCGCTA
63 GCCGT-ATAGAT-CTGACCTTTTGCGGCGTTTTTTTTTCTAAAAACGCCGCTA
3190385 ACTTTAGCGG
Statistics
Matches: 201, Mismatches: 30, Indels: 28
0.78 0.12 0.11
Matches are distributed among these distances:
127 2 0.01
128 65 0.32
129 10 0.05
130 28 0.14
131 57 0.28
132 39 0.19
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (128 bp):
GCGGCGTGTTATTCAAAAACGCAGCTATAGGTCTTCTCTTTTGCGGCGTTTGTTCAAAAAACGCC
GTATAGATCTGACCTTTTGCGGCGTTTTTTTTTCTAAAAACGCCGCTATAGATATAACCTTTT
Found at i:3196262 original size:20 final size:20
Alignment explanation
Indices: 3196226--3196263 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3196216 ATTCTATTTC
**
3196226 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
3196246 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
3196264 ATGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:3204810 original size:21 final size:21
Alignment explanation
Indices: 3204786--3204825 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3204776 GTTTATTTAT
3204786 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
3204807 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
3204826 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:3204873 original size:33 final size:33
Alignment explanation
Indices: 3204820--3204918 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
3204810 TTTGTTTCAA
3204820 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
3204852 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
3204885 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
3204918 T
1 T
3204919 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:3204947 original size:13 final size:13
Alignment explanation
Indices: 3204904--3204958 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
3204894 TTGGAAGTAT
3204904 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
3204917 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
3204931 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
3204944 TTAAGTATTTGAA
1 TTAAGTATTTCAA
3204957 TT
1 TT
3204959 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:3205179 original size:21 final size:21
Alignment explanation
Indices: 3205153--3205204 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
3205143 TGGAGCGTGG
3205153 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
* **
3205174 GGGAATCAGTTTCCTCTCATA
1 GGGAATCGGTACCCTCTCATA
3205195 GGGAATCGGT
1 GGGAATCGGT
3205205 CCTAAGTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (21 bp):
GGGAATCGGTACCCTCTCATA
Found at i:3205395 original size:15 final size:15
Alignment explanation
Indices: 3205368--3205423 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
3205358 ATATGGAATA
*
3205368 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
3205383 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
3205398 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
3205415 TTAAAACCG
1 TTAAAACCG
3205424 AAACTGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:3205407 original size:17 final size:18
Alignment explanation
Indices: 3205387--3205420 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3205377 GTTTTTTTAT
3205387 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
3205404 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
3205421 CCGAAACTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:3208199 original size:17 final size:18
Alignment explanation
Indices: 3208156--3208199 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
3208146 TTTTTATAAT
3208156 TTTAGT-ATTGAATATTA
1 TTTAGTAATTGAATATTA
* *
3208173 GTTGGTAATTGAAT-TTA
1 TTTAGTAATTGAATATTA
3208190 TTTAGTAATT
1 TTTAGTAATT
3208200 AGATATAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (18 bp):
TTTAGTAATTGAATATTA
Found at i:3211236 original size:2 final size:2
Alignment explanation
Indices: 3211229--3211296 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
3211219 TCAATACCCA
*
3211229 AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3211271 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
3211297 CAAAGTCCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3213072 original size:110 final size:110
Alignment explanation
Indices: 3212941--3213162 Score: 444
Period size: 110 Copynumber: 2.0 Consensus size: 110
3212931 ATCTGTCCCC
3212941 AGAATACAAGAGCAAAATATAAATTTTCTTCTCAGACATGATCTAGGAATCTATGTTAAAAATGT
1 AGAATACAAGAGCAAAATATAAATTTTCTTCTCAGACATGATCTAGGAATCTATGTTAAAAATGT
3213006 TTAAACCAGTAGCTCACCTCCAACATCATGTGATTTGGACCTGTT
66 TTAAACCAGTAGCTCACCTCCAACATCATGTGATTTGGACCTGTT
3213051 AGAATACAAGAGCAAAATATAAATTTTCTTCTCAGACATGATCTAGGAATCTATGTTAAAAATGT
1 AGAATACAAGAGCAAAATATAAATTTTCTTCTCAGACATGATCTAGGAATCTATGTTAAAAATGT
3213116 TTAAACCAGTAGCTCACCTCCAACATCATGTGATTTGGACCTGTT
66 TTAAACCAGTAGCTCACCTCCAACATCATGTGATTTGGACCTGTT
3213161 AG
1 AG
3213163 CAAAAGAACC
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (110 bp):
AGAATACAAGAGCAAAATATAAATTTTCTTCTCAGACATGATCTAGGAATCTATGTTAAAAATGT
TTAAACCAGTAGCTCACCTCCAACATCATGTGATTTGGACCTGTT
Found at i:3215417 original size:5 final size:5
Alignment explanation
Indices: 3215407--3215452 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
3215397 TGTACATACA
*
3215407 AGATG AGATG AGATG AGATG AGATG AGATG AGATG TGATG AGATG A
1 AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG AGATG A
3215453 TTAATTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (5 bp):
AGATG
Found at i:3222158 original size:17 final size:17
Alignment explanation
Indices: 3222136--3222187 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
3222126 TTTTGGGAAT
3222136 TATTTTTAAAACGGTGA
1 TATTTTTAAAACGGTGA
* *
3222153 TATTTTGATAA---T--
1 TATTTTTAAAACGGTGA
3222165 TATTTTTAAAACGGTGA
1 TATTTTTAAAACGGTGA
3222182 TATTTT
1 TATTTT
3222188 GGTTATTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 9 0.35
14 1 0.04
15 1 0.04
17 15 0.58
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TATTTTTAAAACGGTGA
Found at i:3222165 original size:29 final size:29
Alignment explanation
Indices: 3222120--3222309 Score: 247
Period size: 29 Copynumber: 6.6 Consensus size: 29
3222110 ATTCAGCCCG
* *
3222120 GTGATATTTTGGGAATTATTTTTAAAACG
1 GTGATATTTTGGTAATTATTTTTAAAACA
* *
3222149 GTGATATTTTGATAATTATTTTTAAAACG
1 GTGATATTTTGGTAATTATTTTTAAAACA
* *
3222178 GTGATATTTTGGTTATTATTTTTAAAATA
1 GTGATATTTTGGTAATTATTTTTAAAACA
*
3222207 GTGATATTTTGGTAATTATTTTTAAAATA
1 GTGATATTTTGGTAATTATTTTTAAAACA
*
3222236 GTGATATTCTGGTAATTATTTTTAAAACA
1 GTGATATTTTGGTAATTATTTTTAAAACA
* * ** *
3222265 ATGATATGTTGGTAATTA-TTAAAAAAAA
1 GTGATATTTTGGTAATTATTTTTAAAACA
*
3222293 GTGATATTTTTGTAATT
1 GTGATATTTTGGTAATT
3222310 TTTGAATGTG
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 21 0.15
29 122 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (29 bp):
GTGATATTTTGGTAATTATTTTTAAAACA
Found at i:3223268 original size:63 final size:63
Alignment explanation
Indices: 3223200--3223321 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
3223190 AATGTGACTC
* * * * *
3223200 TTAGGTAGGCTCTACGGCCCTGAGATC-ATTCTCGGATAGGCCCTGTGGCCCTAAGATGTGTTA
1 TTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGATAGGCCCTGAGGCCCTAAGATGTGTTA
* * *
3223263 TTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTGAGGCCCTAAGATGT
1 TTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGATAGGCCCTGAGGCCCTAAGATGT
3223322 TCCCTTAGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 49 0.98
64 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (63 bp):
TTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGATAGGCCCTGAGGCCCTAAGATGTGTTA
Found at i:3224374 original size:28 final size:28
Alignment explanation
Indices: 3224343--3224401 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
3224333 ACATATTTAA
*
3224343 AAGTAATTAATAAAACAGATATATTAGC
1 AAGTAAATAATAAAACAGATATATTAGC
*
3224371 AAGTAAATAATAAAATAGATATATTAGC
1 AAGTAAATAATAAAACAGATATATTAGC
3224399 AAG
1 AAG
3224402 GAAAGATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (28 bp):
AAGTAAATAATAAAACAGATATATTAGC
Found at i:3228752 original size:57 final size:59
Alignment explanation
Indices: 3228685--3228825 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 59
3228675 AAAAGCTTGG
* * *
3228685 GGAA-CAATTTAGAATAAGGTTCATAGTTTG-G-GGAATTTAGAATGTT-TAAAAGTTTA
1 GGAACCAATTTAGAATAAGGGTCATAGTTTGAGAGGAAATTAGAATGTTCT-AAAGTCTA
* ** *
3228741 GGTACCAATTTAGAACGAGGGTCATAGTTTGATGATGAAATTAGAATGTTCTAAAGTCTA
1 GGAACCAATTTAGAATAAGGGTCATAGTTTGA-GAGGAAATTAGAATGTTCTAAAGTCTA
* *
3228801 GGAACCAATTTAGAGTAAGAGTCAT
1 GGAACCAATTTAGAATAAGGGTCAT
3228826 TGTTCAGGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
56 3 0.04
57 23 0.34
59 1 0.01
60 40 0.59
61 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (59 bp):
GGAACCAATTTAGAATAAGGGTCATAGTTTGAGAGGAAATTAGAATGTTCTAAAGTCTA
Found at i:3229781 original size:27 final size:27
Alignment explanation
Indices: 3229743--3229796 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
3229733 CGCTGGAACC
3229743 ATCATCCAATTGAATTTGTGTTCATTT
1 ATCATCCAATTGAATTTGTGTTCATTT
*
3229770 ATCATCCAATTGGATTTGTGTTCATTT
1 ATCATCCAATTGAATTTGTGTTCATTT
3229797 TTCTCACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.48
Consensus pattern (27 bp):
ATCATCCAATTGAATTTGTGTTCATTT
Found at i:3235389 original size:28 final size:28
Alignment explanation
Indices: 3235343--3235397 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
3235333 GTCTGTTTAC
*
3235343 ATTATGTCGTCAAGCTAGTGT-TTGAAAT
1 ATTATGACGTCAAGCTAGT-TCTTGAAAT
* *
3235371 ATTATGACGTCGAGTTAGTTCTTGAAA
1 ATTATGACGTCAAGCTAGTTCTTGAAA
3235398 GCAACGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (28 bp):
ATTATGACGTCAAGCTAGTTCTTGAAAT
Found at i:3235811 original size:2 final size:2
Alignment explanation
Indices: 3235804--3235828 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3235794 GAAGACTCTT
3235804 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3235829 TAAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3242443 original size:13 final size:13
Alignment explanation
Indices: 3242425--3242450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3242415 AGGAGGAGCC
3242425 AACACTGATGTGA
1 AACACTGATGTGA
3242438 AACACTGATGTGA
1 AACACTGATGTGA
3242451 TTTTGATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
AACACTGATGTGA
Found at i:3242775 original size:11 final size:11
Alignment explanation
Indices: 3242761--3242790 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
3242751 ACAATGGGTG
3242761 ATCAAAACATA
1 ATCAAAACATA
3242772 ATCAAAACATA
1 ATCAAAACATA
3242783 ATCAAAAC
1 ATCAAAAC
3242791 TTAAGTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (11 bp):
ATCAAAACATA
Found at i:3242903 original size:76 final size:75
Alignment explanation
Indices: 3242772--3242916 Score: 254
Period size: 76 Copynumber: 1.9 Consensus size: 75
3242762 TCAAAACATA
* *
3242772 ATCAAAACATAATCAAAACTTAAGTTAGGTATGATTTTGAAGAAAAAAATAATTGTGTGACCAAA
1 ATCAAAACAGAATCAAAACTTAAGTTACGTATGATTTTGAAGAAAAAAATAATTGTGTGACCAAA
3242837 ATAATAGATG
66 ATAATAGATG
*
3242847 ATCAAAACAGAATCAAAACTTAACGTTACGTATGATTTTGAAGTAAAAAATAATTGTGTGACCAA
1 ATCAAAACAGAATCAAAACTTAA-GTTACGTATGATTTTGAAGAAAAAAATAATTGTGTGACCAA
3242912 AATAA
65 AATAA
3242917 AAACTAAGTA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
75 22 0.33
76 44 0.67
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.28
Consensus pattern (75 bp):
ATCAAAACAGAATCAAAACTTAAGTTACGTATGATTTTGAAGAAAAAAATAATTGTGTGACCAAA
ATAATAGATG
Found at i:3243783 original size:152 final size:151
Alignment explanation
Indices: 3243508--3243811 Score: 572
Period size: 152 Copynumber: 2.0 Consensus size: 151
3243498 CTACATCCAA
3243508 TCAATTGCCAAAGAGACTATGCGTTTGCACCCTGTGGCACCCATGCTGGTGCCTCGCATTACCCG
1 TCAATTGCCAAAGAGACTATGCGTTTGCACCCTGTGGCACCCATGCTGGTGCCTCGCATTACCCG
*
3243573 TGAAGACTGTCAAATACAAGGTTACAACATTCGCAAGGGCACTAGAGCTCTTGTTAATGTGTGGA
66 TAAAGACTGTCAAATACAAGGTTACAACATTCGCAAGGGCACTAGAGCTCTTGTTAATGTGTGGA
3243638 ACATTGGGAGAGACCCTACAG
131 ACATTGGGAGAGACCCTACAG
*
3243659 TCAATTGCCAAAGAGATTATGCGTTTGCACCCTGTGGCACCCATGCTGGTGCCTCGCATTGACCC
1 TCAATTGCCAAAGAGACTATGCGTTTGCACCCTGTGGCACCCATGCTGGTGCCTCGCATT-ACCC
3243724 GTAAAGACTGTCAAATACAAGGTTACAACATTCGCAAGGGCACTAGAGCTCTTGTTAATGTGTGG
65 GTAAAGACTGTCAAATACAAGGTTACAACATTCGCAAGGGCACTAGAGCTCTTGTTAATGTGTGG
*
3243789 ACCATTGGGAGAGACCCTACAG
130 AACATTGGGAGAGACCCTACAG
3243811 T
1 T
3243812 TTGGGACAAT
Statistics
Matches: 149, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
151 59 0.40
152 90 0.60
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (151 bp):
TCAATTGCCAAAGAGACTATGCGTTTGCACCCTGTGGCACCCATGCTGGTGCCTCGCATTACCCG
TAAAGACTGTCAAATACAAGGTTACAACATTCGCAAGGGCACTAGAGCTCTTGTTAATGTGTGGA
ACATTGGGAGAGACCCTACAG
Found at i:3247229 original size:38 final size:38
Alignment explanation
Indices: 3247177--3247271 Score: 163
Period size: 38 Copynumber: 2.5 Consensus size: 38
3247167 AAGGACAAGG
* *
3247177 AAACCAACGATCCAAAACTTGTAACAAAGAATAGAAGA
1 AAACCACCAATCCAAAACTTGTAACAAAGAATAGAAGA
*
3247215 AAACGACCAATCCAAAACTTGTAACAAAGAATAGAAGA
1 AAACCACCAATCCAAAACTTGTAACAAAGAATAGAAGA
3247253 AAACCACCAATCCAAAACT
1 AAACCACCAATCCAAAACT
3247272 AATTATAACC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.55, C:0.22, G:0.11, T:0.13
Consensus pattern (38 bp):
AAACCACCAATCCAAAACTTGTAACAAAGAATAGAAGA
Found at i:3251323 original size:10 final size:10
Alignment explanation
Indices: 3251308--3251373 Score: 78
Period size: 10 Copynumber: 6.1 Consensus size: 10
3251298 AGTTTTTTTT
3251308 TGTTCGTTTA
1 TGTTCGTTTA
3251318 TGTTCGTTTA
1 TGTTCGTTTA
3251328 TTTTGTTCGTTTA
1 ---TGTTCGTTTA
*
3251341 TGTTCGTGTTCG
1 TGTTCGT-TT-A
3251353 TGTTCGTTTA
1 TGTTCGTTTA
3251363 TGTTCGTTTA
1 TGTTCGTTTA
3251373 T
1 T
3251374 TTATTAAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
10 28 0.57
11 4 0.08
12 7 0.14
13 10 0.20
ACGTcount: A:0.08, C:0.11, G:0.21, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:3251335 original size:23 final size:23
Alignment explanation
Indices: 3251305--3251375 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
3251295 ATAAGTTTTT
3251305 TTTTGTTCGTTTATGTTCGTTTA
1 TTTTGTTCGTTTATGTTCGTTTA
*
3251328 TTTTGTTCGTTTATGTTCGTGT-
1 TTTTGTTCGTTTATGTTCGTTTA
**
3251350 TCGTGTTCGTTTATGTTCGTTTA
1 TTTTGTTCGTTTATGTTCGTTTA
3251373 TTT
1 TTT
3251376 ATTAAATGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 19 0.46
23 22 0.54
ACGTcount: A:0.07, C:0.10, G:0.20, T:0.63
Consensus pattern (23 bp):
TTTTGTTCGTTTATGTTCGTTTA
Found at i:3251457 original size:16 final size:16
Alignment explanation
Indices: 3251436--3251468 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3251426 ACAAAAATTT
3251436 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3251452 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
3251468 T
1 T
3251469 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:3252312 original size:35 final size:35
Alignment explanation
Indices: 3252266--3252334 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
3252256 TTTAGAAGTC
* *
3252266 AAAGAGAATGTTCGTTTTCTTAAAAAATTTGAGTA
1 AAAGAAAATGTTCGTGTTCTTAAAAAATTTGAGTA
* *
3252301 AAAGAAAATGTTTGTGTTCTTAAAAAGTTTGAGT
1 AAAGAAAATGTTCGTGTTCTTAAAAAATTTGAGT
3252335 TCGAGCAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (35 bp):
AAAGAAAATGTTCGTGTTCTTAAAAAATTTGAGTA
Found at i:3254355 original size:29 final size:30
Alignment explanation
Indices: 3254300--3254361 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
3254290 ACATACAATC
**
3254300 TTATATTAGGAAGGGTGAATTTAT-AAATT
1 TTATATTAGGAAGGACGAATTTATAAAATT
*
3254329 TTATATTAGGAATGACGAACTTT-TAAAATT
1 TTATATTAGGAAGGACGAA-TTTATAAAATT
3254359 TTA
1 TTA
3254362 GAAGGTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (30 bp):
TTATATTAGGAAGGACGAATTTATAAAATT
Found at i:3261229 original size:26 final size:26
Alignment explanation
Indices: 3261193--3261273 Score: 135
Period size: 26 Copynumber: 3.1 Consensus size: 26
3261183 GATGTGTTTG
3261193 GTTCGTTTATGTTCACGAACAAGCTC
1 GTTCGTTTATGTTCACGAACAAGCTC
*
3261219 GTTCATTTATGTTCACGAACAAGCTC
1 GTTCGTTTATGTTCACGAACAAGCTC
**
3261245 GTTCGTTTATGTTCATTAACAAGCTC
1 GTTCGTTTATGTTCACGAACAAGCTC
3261271 GTT
1 GTT
3261274 TAACGACTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (26 bp):
GTTCGTTTATGTTCACGAACAAGCTC
Found at i:3262331 original size:2 final size:2
Alignment explanation
Indices: 3262324--3262359 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3262314 AGTAATATCT
3262324 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3262360 CCTTTAGTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3265968 original size:31 final size:31
Alignment explanation
Indices: 3265905--3266045 Score: 137
Period size: 31 Copynumber: 4.6 Consensus size: 31
3265895 AATCCTGAGA
* *
3265905 TTTAGATAAAA-ATTTAATATAA-TCTTAAAT
1 TTTAGATAAAATA-TCAATTTAACTCTTAAAT
* * *
3265935 TTTAAATAAAATATCAATCTAACTCTTGAAT
1 TTTAGATAAAATATCAATTTAACTCTTAAAT
*
3265966 TTTAGATAAAATATCAATTTAAC-CTTAAAC
1 TTTAGATAAAATATCAATTTAACTCTTAAAT
* * * * *
3265996 TTTAGATAATATGTTAATTTGACTCTTGAAT
1 TTTAGATAAAATATCAATTTAACTCTTAAAT
3266027 TTTAGATAAAACT-TCAATT
1 TTTAGATAAAA-TATCAATT
3266046 GAGCCTCTGA
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
30 41 0.45
31 49 0.54
32 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (31 bp):
TTTAGATAAAATATCAATTTAACTCTTAAAT
Found at i:3265993 original size:61 final size:61
Alignment explanation
Indices: 3265905--3266045 Score: 160
Period size: 61 Copynumber: 2.3 Consensus size: 61
3265895 AATCCTGAGA
* * * *
3265905 TTTAGATAAAA-ATTTAATATAATCTTAAATTTTAAATAAAATATCAATCTAACTCTTGAAT
1 TTTAGATAAAATA-TCAATTTAACCTTAAACTTTAAATAAAATATCAATCTAACTCTTGAAT
* * * * * *
3265966 TTTAGATAAAATATCAATTTAACCTTAAACTTTAGATAATATGTTAATTTGACTCTTGAAT
1 TTTAGATAAAATATCAATTTAACCTTAAACTTTAAATAAAATATCAATCTAACTCTTGAAT
3266027 TTTAGATAAAACT-TCAATT
1 TTTAGATAAAA-TATCAATT
3266046 GAGCCTCTGA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 66 0.97
62 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (61 bp):
TTTAGATAAAATATCAATTTAACCTTAAACTTTAAATAAAATATCAATCTAACTCTTGAAT
Found at i:3266347 original size:15 final size:16
Alignment explanation
Indices: 3266327--3266364 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3266317 TAATCAAATC
*
3266327 TATAATTATTTTAT-T
1 TATAATTATGTTATGT
*
3266342 TATAATAATGTTATGT
1 TATAATTATGTTATGT
3266358 TATAATT
1 TATAATT
3266365 CTTAAATTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (16 bp):
TATAATTATGTTATGT
Found at i:3275428 original size:52 final size:52
Alignment explanation
Indices: 3275365--3275469 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
3275355 TTGGTTAAGC
3275365 GTGATGAGCTAACTCTTGAAGGTATCAAGCAGTTTTATGTGAATGTTGAAAA
1 GTGATGAGCTAACTCTTGAAGGTATCAAGCAGTTTTATGTGAATGTTGAAAA
3275417 GTGATGAGCTAACTCTTGAAGGTATCAAGCAGTTTTATGTGAATGTTGAAAA
1 GTGATGAGCTAACTCTTGAAGGTATCAAGCAGTTTTATGTGAATGTTGAAAA
3275469 G
1 G
3275470 GAAGAGTGGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (52 bp):
GTGATGAGCTAACTCTTGAAGGTATCAAGCAGTTTTATGTGAATGTTGAAAA
Found at i:3283825 original size:2 final size:2
Alignment explanation
Indices: 3283818--3283846 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3283808 GACGTTAAAA
3283818 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
3283847 ACATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3285453 original size:13 final size:13
Alignment explanation
Indices: 3285435--3285461 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3285425 CGATTTCTTA
3285435 TTTTTTAATATAT
1 TTTTTTAATATAT
3285448 TTTTTTAATATAT
1 TTTTTTAATATAT
3285461 T
1 T
3285462 GATATCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTTAATATAT
Found at i:3286144 original size:16 final size:16
Alignment explanation
Indices: 3286106--3286144 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3286096 AAACTTTACT
3286106 AAGAAAAACCCAGTGA
1 AAGAAAAACCCAGTGA
* * *
3286122 GACAAAAACCTAGTGA
1 AAGAAAAACCCAGTGA
3286138 AAGAAAA
1 AAGAAAA
3286145 GAGTACATAA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.15, G:0.18, T:0.08
Consensus pattern (16 bp):
AAGAAAAACCCAGTGA
Found at i:3290473 original size:12 final size:12
Alignment explanation
Indices: 3290456--3290498 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
3290446 AATTTTTAAC
3290456 TGTTCATGATAA
1 TGTTCATGATAA
*
3290468 TGTTCATGATAT
1 TGTTCATGATAA
*
3290480 TGTTCATGGTAA
1 TGTTCATGATAA
3290492 TGTTCAT
1 TGTTCAT
3290499 ACCGTATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.47
Consensus pattern (12 bp):
TGTTCATGATAA
Found at i:3292501 original size:31 final size:31
Alignment explanation
Indices: 3292463--3292587 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
3292453 CCCGAAGGAC
* * *
3292463 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
* *
3292494 CAGTCCATATGTCCCGAAGGACATAGATAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
3292525 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
3292556 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
3292587 C
1 C
3292588 CCTCGACCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:3293415 original size:21 final size:21
Alignment explanation
Indices: 3293391--3293435 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3293381 TGTTGTTCGT
* *
3293391 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3293412 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3293433 TTG
1 TTG
3293436 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3296626 original size:31 final size:31
Alignment explanation
Indices: 3296588--3296712 Score: 191
Period size: 31 Copynumber: 4.0 Consensus size: 31
3296578 CCCGAAGGAC
* * *
3296588 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
3296619 CAGTCCATATGTCCCGAATG-ACATAGGTAAA
1 CAGTCCATATGTCCCGAA-GAACATAGGTAAA
3296650 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
3296681 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
3296712 C
1 C
3296713 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.01
31 85 0.97
32 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:3297540 original size:21 final size:21
Alignment explanation
Indices: 3297516--3297560 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3297506 TGTTGTTCGT
* *
3297516 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3297537 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3297558 TTG
1 TTG
3297561 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3300602 original size:84 final size:84
Alignment explanation
Indices: 3300499--3300660 Score: 297
Period size: 84 Copynumber: 1.9 Consensus size: 84
3300489 CTCGAAAAAA
3300499 AATGTTAACCATGAGGAAGAAGAAAGGTAAAGTCTTAAGTTAATGTCATGAATAAAATTACCCAC
1 AATGTTAACCATGAGGAAGAAGAAAGGTAAAGTCTTAAGTTAATGTCATGAATAAAATTACCCAC
3300564 AATACAATATTTTAATGCC
66 AATACAATATTTTAATGCC
* *
3300583 AATGTTAACCATGGGGAAGAAGAAAGGTAAATTCTTAAGTTAATGTCATGAATAAAATTACCCAC
1 AATGTTAACCATGAGGAAGAAGAAAGGTAAAGTCTTAAGTTAATGTCATGAATAAAATTACCCAC
*
3300648 GATACAATATTTT
66 AATACAATATTTT
3300661 GATGTTGGCA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (84 bp):
AATGTTAACCATGAGGAAGAAGAAAGGTAAAGTCTTAAGTTAATGTCATGAATAAAATTACCCAC
AATACAATATTTTAATGCC
Found at i:3302598 original size:3 final size:3
Alignment explanation
Indices: 3302590--3302616 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3302580 CTCACTTCAT
3302590 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
3302617 AATCCATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:3307416 original size:37 final size:37
Alignment explanation
Indices: 3307343--3307417 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
3307333 GTTGAAAAAT
* *
3307343 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
3307380 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
3307417 A
1 A
3307418 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:3328673 original size:3 final size:3
Alignment explanation
Indices: 3328667--3328706 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
3328657 AATTATTACT
* *
3328667 TAA TAA TAA TAA TAA CAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3328707 GTGTGTGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:3328878 original size:52 final size:53
Alignment explanation
Indices: 3328766--3328881 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
3328756 TCCCAAACTC
*
3328766 TAATAACATGCCTCCATTCAATTCCAACGTGCCAAAAAGATTAATTTCAACAT
1 TAATAACATGCCTCCATTCAATTCCAACATGCCAAAAAGATTAATTTCAACAT
*
3328819 TAATAACATGCCTCCGTTCAATTCCAACATGCC-AAAAGATTAATTTCAACAT
1 TAATAACATGCCTCCATTCAATTCCAACATGCCAAAAAGATTAATTTCAACAT
3328871 TAATAACATGC
1 TAATAACATGC
3328882 TTTATAACAT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.49
53 31 0.51
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (53 bp):
TAATAACATGCCTCCATTCAATTCCAACATGCCAAAAAGATTAATTTCAACAT
Found at i:3335995 original size:18 final size:16
Alignment explanation
Indices: 3335961--3336003 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
3335951 AATATTTATA
*
3335961 TTTTAAATATTATAAT
1 TTTTAAAAATTATAAT
3335977 TTTTAAAAATTAATAAAT
1 TTTTAAAAATT-AT-AAT
*
3335995 TTATAAAAA
1 TTTTAAAAA
3336004 AAATGATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 2 0.09
18 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTAAAAATTATAAT
Found at i:3339305 original size:3 final size:3
Alignment explanation
Indices: 3339263--3339288 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3339253 AATTGAAAGT
3339263 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
3339289 CTACGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3345006 original size:12 final size:12
Alignment explanation
Indices: 3344989--3345018 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
3344979 CGGTATACGA
3344989 AACTCCTTACTC
1 AACTCCTTACTC
3345001 AACTCCTTACTC
1 AACTCCTTACTC
3345013 AACTCC
1 AACTCC
3345019 CCCCTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (12 bp):
AACTCCTTACTC
Found at i:3346304 original size:69 final size:69
Alignment explanation
Indices: 3346231--3346384 Score: 186
Period size: 69 Copynumber: 2.2 Consensus size: 69
3346221 TATAATCGGT
* * * **
3346231 AAGTATCGATACTTTTTC-ACAAATATATATATTTTTGAATTTAAAAATATAAAAAATGAGAAGG
1 AAGTATC-ATACTTTTTCTACAAATATAGATATTTTTAAATTTAAAAACATAAAAAATGAGAAAA
*
3346295 TTGTA
65 CTGTA
* * *
3346300 AAGTATTAATAC-TTTTCTACAAATATCGATATTTTTAAATTTAAAAACATGAAAAATGAGAAAA
1 AAGTA-TCATACTTTTTCTACAAATATAGATATTTTTAAATTTAAAAACATAAAAAATGAGAAAA
3346364 CTGTA
65 CTGTA
*
3346369 AAGTATCAAACTTTTT
1 AAGTATCATACTTTTT
3346385 TTAAATAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
68 9 0.13
69 61 0.86
70 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (69 bp):
AAGTATCATACTTTTTCTACAAATATAGATATTTTTAAATTTAAAAACATAAAAAATGAGAAAAC
TGTA
Found at i:3346782 original size:76 final size:78
Alignment explanation
Indices: 3346634--3346785 Score: 200
Period size: 76 Copynumber: 2.0 Consensus size: 78
3346624 AACCGGTTAA
* * *
3346634 AATAAAATAGGCGCAACTTATTACATTAAACTACAACTACCGTTTTGTTTAAATGTATAATAATA
1 AATAAAATAGGCGCAACCTATTACATTAAACTACAACTACCGGTTTGTTTAAAGGTATAATAATA
3346699 ATATAAACGGTGT
66 ATATAAACGGTGT
* ** * * *
3346712 AATAAAATAGGTGCAACCTATTATGTTAAA-T-TAGCTACCGGTTTGTTTAAAGGTATAATATTA
1 AATAAAATAGGCGCAACCTATTACATTAAACTACAACTACCGGTTTGTTTAAAGGTATAATAATA
*
3346775 ATGTAAACGGT
66 ATATAAACGGT
3346786 AAAATATTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 37 0.58
77 1 0.02
78 26 0.41
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (78 bp):
AATAAAATAGGCGCAACCTATTACATTAAACTACAACTACCGGTTTGTTTAAAGGTATAATAATA
ATATAAACGGTGT
Found at i:3346915 original size:100 final size:100
Alignment explanation
Indices: 3346712--3346904 Score: 278
Period size: 100 Copynumber: 1.9 Consensus size: 100
3346702 TAAACGGTGT
* ** * ** * *
3346712 AATAAAATAGGTGCAACCTATTATGTTAAATTAGCTACCGGTTTGTTTAAAGGTATAATATTAAT
1 AATAAAATAGGCGCAACCTATTACATTAAACTAAATACCGGTTAGTTTAAAGGTATAATAATAAT
*
3346777 GTAAACGGTAAAATATTTACAACTTAACAGATTAA
66 ATAAACGGTAAAATATTTACAACTTAACAGATTAA
* *
3346812 AATAAAATAGGCGCTACCTATTACATTAAACTAAATACTGGTTAGTTTAAAGGTATAATAATAAT
1 AATAAAATAGGCGCAACCTATTACATTAAACTAAATACCGGTTAGTTTAAAGGTATAATAATAAT
*
3346877 ATAAACGGTAAAATATTTACATCTTAAC
66 ATAAACGGTAAAATATTTACAACTTAAC
3346905 CGCATGAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 81 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (100 bp):
AATAAAATAGGCGCAACCTATTACATTAAACTAAATACCGGTTAGTTTAAAGGTATAATAATAAT
ATAAACGGTAAAATATTTACAACTTAACAGATTAA
Found at i:3347757 original size:108 final size:107
Alignment explanation
Indices: 3347528--3347903 Score: 484
Period size: 109 Copynumber: 3.5 Consensus size: 107
3347518 ATTTGGCACA
* * * * *
3347528 ACCTAATATGTTAATATTTATTTATAACAAAATAAGT-ATCTAACCTATTTTGTTGTTGTGGGAT
1 ACCTAATATGTTGATA-ATATTAATAACAAAATAAGTAAT-TAACCTATTTTGTTATCGTGGGAT
* * * *
3347592 TTCGAAGGCCACATCAGCTTAAACTTTGGTAACATATTAGGCGCA
64 TTCTAAGACCCCATCAGCTTAAACTTTGGTAACAT-TTAGGCGCT
* * * *
3347637 ACTTAATATGTTGATAATATTTATAACAAAATAAATAATTAACGTATTTTTGTTATCGTGGGATT
1 ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTA-TTTTGTTATCGTGGGATT
*
3347702 TCTAAGACCCCATCAGCTTAAACTTTGGTAATATTTAGGCGCT
65 TCTAAGACCCCATCAGCTTAAACTTTGGTAACATTTAGGCGCT
* * **
3347745 ACCTAATATGTTGATAATATTAATAAAAAAATAAGTAATTAACCTATTTTGTAATCGTCAGATTT
1 ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTGGGATTT
* * *
3347810 CTAAGACCCTATTAGCTTAAACTCTGGTAACATTTTAGGCGCT
66 CTAAGACCCCATCAGCTTAAACTTTGGTAACA-TTTAGGCGCT
* *
3347853 ACCTAATATGTTTGATAATATTAATAACAAAATAAGTAATTTACTTATTTT
1 ACCTAATATG-TTGATAATATTAATAACAAAATAAGTAATTAACCTATTTT
3347904 CTTACCGTTT
Statistics
Matches: 236, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
107 44 0.19
108 93 0.39
109 99 0.42
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (107 bp):
ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAACCTATTTTGTTATCGTGGGATTT
CTAAGACCCCATCAGCTTAAACTTTGGTAACATTTAGGCGCT
Found at i:3349555 original size:2 final size:2
Alignment explanation
Indices: 3349550--3349575 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3349540 ATAAATACAA
3349550 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
3349576 TTAAGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3349688 original size:19 final size:19
Alignment explanation
Indices: 3349666--3349704 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3349656 AGAGTTCAAA
*
3349666 ATTTAATTAAATTATCATT
1 ATTTAAGTAAATTATCATT
* *
3349685 ATTTAAGTAATTTTTCATT
1 ATTTAAGTAAATTATCATT
3349704 A
1 A
3349705 ATAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTAAGTAAATTATCATT
Found at i:3355654 original size:17 final size:17
Alignment explanation
Indices: 3355632--3355672 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
3355622 AACGGTCAAC
3355632 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
3355649 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
3355666 GGTCAAC
1 GGTCAAC
3355673 CCGGTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:3355690 original size:19 final size:19
Alignment explanation
Indices: 3355666--3355755 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
3355656 AGTCGGGTCG
*
3355666 GGTCAACCCGGTTC-AGACC
1 GGTCAAACCGGTTCGA-ACC
3355685 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTCGAACC
3355704 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTCGAACC
* *
3355723 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-GAACC
3355743 GGTCAAACCGGTT
1 GGTCAAACCGGTT
3355756 TTCCAGCAGC
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
19 49 0.74
20 17 0.26
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCGAACC
Found at i:3355738 original size:10 final size:10
Alignment explanation
Indices: 3355668--3355755 Score: 94
Period size: 9 Copynumber: 9.1 Consensus size: 10
3355658 TCGGGTCGGG
*
3355668 TCAACCCGGT
1 TCAAACCGGT
*
3355678 TCAGACCGG-
1 TCAAACCGGT
3355687 TCAAACCGGT
1 TCAAACCGGT
*
3355697 TCGAACCGG-
1 TCAAACCGGT
3355706 TCAAACCGGT
1 TCAAACCGGT
*
3355716 TCGAACCGG-
1 TCAAACCGGT
3355725 TCAAACCGGT
1 TCAAACCGGT
*
3355735 TCAAAACTGG-
1 TC-AAACCGGT
3355745 TCAAACCGGT
1 TCAAACCGGT
3355755 T
1 T
3355756 TTCCAGCAGC
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 30 0.47
10 28 0.44
11 6 0.09
ACGTcount: A:0.27, C:0.31, G:0.24, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:3362923 original size:7 final size:7
Alignment explanation
Indices: 3362911--3362937 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
3362901 GTCAAAGAAA
3362911 GTCAACG
1 GTCAACG
3362918 GTCAACG
1 GTCAACG
3362925 GTCAACG
1 GTCAACG
3362932 GTCAAC
1 GTCAAC
3362938 AGTCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:3362953 original size:17 final size:17
Alignment explanation
Indices: 3362931--3362971 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
3362921 AACGGTCAAC
3362931 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
3362948 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
3362965 GGTCAAC
1 GGTCAAC
3362972 CCGGTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.39, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Done.