Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009056.1 Hibiscus syriacus cultivar Beakdansim tig00112471_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: 907955
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:622087 original size:23 final size:23
Alignment explanation
Indices: 622057--622110 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
622047 TTAACGCTAT
622057 TGTATGTTGTCTATCTTAGCAGA
1 TGTATGTTGTCTATCTTAGCAGA
622080 TGTATGTTGTCTATCTTAGCAGA
1 TGTATGTTGTCTATCTTAGCAGA
*
622103 TGTGTGTT
1 TGTATGTT
622111 CTACTTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.11, G:0.24, T:0.46
Consensus pattern (23 bp):
TGTATGTTGTCTATCTTAGCAGA
Found at i:623985 original size:15 final size:17
Alignment explanation
Indices: 623965--623996 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
623955 GTTAAGTGTC
623965 CATGAT-ATATG-TATA
1 CATGATAATATGATATA
623980 CATGATAATATGATATA
1 CATGATAATATGATATA
623997 AGTTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
CATGATAATATGATATA
Found at i:624443 original size:32 final size:31
Alignment explanation
Indices: 624402--624586 Score: 230
Period size: 32 Copynumber: 5.9 Consensus size: 31
624392 AGTCGAGGGT
*
624402 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTTCGGAACATATGGACAG-A
*
624434 TTACCTATG-TCTTTCGGGACATATGGACAGGA
1 TTACCTATGTTC-TTCGGAACATATGGACA-GA
*
624466 TTACCTATGTTCTTCGGAACATATGTACATGA
1 TTACCTATGTTCTTCGGAACATATGGACA-GA
*
624498 TTACCTATGTTCTTCGGAACATATGAACATGA
1 TTACCTATGTTCTTCGGAACATATGGACA-GA
* * * *
624530 TTTCTTATGTTCTCCGGAACATATGGACA-T
1 TTACCTATGTTCTTCGGAACATATGGACAGA
*
624560 TTACATATGTTCTTCGGAACATATGGA
1 TTACCTATGTTCTTCGGAACATATGGA
624587 TAGGTCATTT
Statistics
Matches: 136, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
30 24 0.18
31 2 0.01
32 107 0.79
33 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACAGA
Found at i:627402 original size:18 final size:17
Alignment explanation
Indices: 627379--627434 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
627369 AATAATAAAT
627379 TAATTTAAATAAAACTAA
1 TAATTTAAATAAAA-TAA
* *
627397 TAATTT-ATTAAAAATAT
1 TAATTTAAAT-AAAATAA
627414 TATATTTATAATAAAATAA
1 TA-ATTTA-AATAAAATAA
627433 TA
1 TA
627435 GAAAGTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.20
18 14 0.47
19 8 0.27
20 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATTTAAATAAAATAA
Found at i:637200 original size:59 final size:59
Alignment explanation
Indices: 637128--637246 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
637118 AAAGCCAATT
* *
637128 TCAATCATTATTGGCTAGGACTTCTGATCTTAAAC-CACTGTTGATGAGCTTGGAATCGA
1 TCAATCATTATTGGCTAGGACTTCTGATCTTAAACTCA-TGTAGATGAACTTGGAATCGA
*
637187 TCAATCATTATTGGCTAGGACTTCTGATCTTAAACTGATGTAGATGAACTTGGAATCGA
1 TCAATCATTATTGGCTAGGACTTCTGATCTTAAACTCATGTAGATGAACTTGGAATCGA
637246 T
1 T
637247 ATTGAGATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 55 0.98
60 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (59 bp):
TCAATCATTATTGGCTAGGACTTCTGATCTTAAACTCATGTAGATGAACTTGGAATCGA
Found at i:639755 original size:41 final size:41
Alignment explanation
Indices: 639698--639781 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
639688 TTGTAATTTT
* * *
639698 ACAAGAAGATTATCCTGAATTTGACCTTGAGGACAATCTCA
1 ACAAGAAGATTATCCTGAACTTAACCTTGAGGAAAATCTCA
* * *
639739 ACAAGAGGCTTATCCTGAACTTAAGCTTGAGGAAAATCTCA
1 ACAAGAAGATTATCCTGAACTTAACCTTGAGGAAAATCTCA
639780 AC
1 AC
639782 TCCAAGAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (41 bp):
ACAAGAAGATTATCCTGAACTTAACCTTGAGGAAAATCTCA
Found at i:647797 original size:84 final size:84
Alignment explanation
Indices: 647690--647883 Score: 196
Period size: 84 Copynumber: 2.3 Consensus size: 84
647680 GATCTCTTCA
* * *
647690 GAGAAGAAAGTCACC-ACGGGTTCTGGTCTTTCCATTAAC-CCGGAGAAGAAACTCATCAATGGT
1 GAGAGGAAAGTCACCAAC-AGTTCTGGTCTTTCCATT-ACTCCGGAGAAGAAACTCATCAACGGT
* *
647753 GCTGGTGCTTCGGTCACTTCG
64 GCTGGCGCTTCGGTCACTCCG
* * *** * * * *
647774 GA-AGAGAAAGTCATCAACAGTTCTGGTGTTTGGGTTTCTCCGGAGAAGAAAGTCATCAGCGGTT
1 GAGAG-GAAAGTCACCAACAGTTCTGGTCTTTCCATTACTCCGGAGAAGAAACTCATCAACGGTG
*
647838 CTGGCGTTTCGGTCACTCCG
65 CTGGCGCTTCGGTCACTCCG
*
647858 GAGAGGAAATTCACCAACAGTTCTGG
1 GAGAGGAAAGTCACCAACAGTTCTGG
647884 ACCTTCTGGT
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
83 2 0.02
84 83 0.93
85 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (84 bp):
GAGAGGAAAGTCACCAACAGTTCTGGTCTTTCCATTACTCCGGAGAAGAAACTCATCAACGGTGC
TGGCGCTTCGGTCACTCCG
Found at i:647800 original size:42 final size:41
Alignment explanation
Indices: 647729--647883 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 41
647719 TTCCATTAAC
* ** * *
647729 CCGGAGAAGAAACTCATCAATGGTGCTGGTGCTTCGGTCACT
1 CCGGAG-AGAAAGTCATCAACAGTTCTGGTGTTTCGGTCACT
* * **
647771 TCGGAAGAGAAAGTCATCAACAGTTCTGGTGTTTGGGTTTCT
1 CCGG-AGAGAAAGTCATCAACAGTTCTGGTGTTTCGGTCACT
* * *
647813 CCGGAGAAGAAAGTCATCAGCGGTTCTGGCGTTTCGGTCACT
1 CCGGAG-AGAAAGTCATCAACAGTTCTGGTGTTTCGGTCACT
* *
647855 CCGGAGAGGAAATTCACCAACAGTTCTGG
1 CCGGAGA-GAAAGTCATCAACAGTTCTGG
647884 ACCTTCTGGT
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.03
42 85 0.94
43 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (41 bp):
CCGGAGAGAAAGTCATCAACAGTTCTGGTGTTTCGGTCACT
Found at i:648034 original size:84 final size:83
Alignment explanation
Indices: 647922--648305 Score: 374
Period size: 84 Copynumber: 4.7 Consensus size: 83
647912 AAGAAAGTAA
* * * * * * * *
647922 CTTCGGTGAAGAAGGTCATCCACGGTTCTGGTGGTTCTCTTCCTTCTGAGATGAAAGTCAT-TAT
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGCTTCCTTCGGAGAAGAAAGTCATCT-T
*
647986 TGGTACTGGTGTATCGGTTC
65 TGGTTCTGGTGT-TCGGTTC
*
648006 CTTCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGC-TCCTTCGGAGAAGAAA-TCCATCT
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTC-GCTTCCTTCGGAGAAGAAAGT-CATCT
648069 TTGGTTCTGGTG-T---TT-
64 TTGGTTCTGGTGTTCGGTTC
* * *
648084 CTGT-GGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTCCTTCGGACAAGAAATTCATCTT
1 CT-TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGCTTCCTTCGGAGAAGAAAGTCATCTT
* *
648148 TGGTGCTGTTGCTTCGGTTC
65 TGGTTCTGGTG-TTCGGTTC
* * **** * * *
648168 ATTCGGAGAAGAAATTCATCGTTGGTTCTTGTGTTTCTG-TTCTTTCGGAGAAGAAAGTCATCAT
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTC-GCTTCCTTCGGAGAAGAAAGTCATCTT
*
648232 TGGTTCTGGCGTTTCGGTTC
65 TGGTTCTGGTG-TTCGGTTC
* * *
648252 CTTCTGAGAAGAAAGTCATCAACAGTTCTGGCGTTTCGGTTCCTTCGGAGAAGA
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGCTTCCTTCGGAGAAGA
648306 TGAAAGCCAT
Statistics
Matches: 245, Mismatches: 40, Indels: 30
0.78 0.13 0.10
Matches are distributed among these distances:
77 1 0.00
78 64 0.26
79 4 0.02
80 1 0.00
82 1 0.00
83 5 0.02
84 166 0.68
85 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (83 bp):
CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGCTTCCTTCGGAGAAGAAAGTCATCTTT
GGTTCTGGTGTTCGGTTC
Found at i:648037 original size:42 final size:42
Alignment explanation
Indices: 647922--648376 Score: 323
Period size: 42 Copynumber: 10.9 Consensus size: 42
647912 AAGAAAGTAA
* * * * * **
647922 CTTCGGTGAAGAAGGTCATCCACGGTTCTGGTGGTTCTCTTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* * * *** * *
647964 CTTCTGAGATGAAAGTCATTATTGGTACTGGTGTATCGGTTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* *
648006 CTTCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGCTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
****
648048 CTTCGGAGAAGAAA-TCCATCTTTGGTTCTGGTGTTTC---T-
1 CTTCGGAGAAGAAAGT-CATCAACAGTTCTGGTGTTTCGGTTC
* *
648086 -GT-GGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* * **** * * *
648126 CTTCGGACAAGAAATTCATCTTTGGTGCTGTTGCTTCGGTTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* * **** * *
648168 ATTCGGAGAAGAAATTCATCGTTGGTTCTTGTGTTTCTGTTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* *** *
648210 TTTCGGAGAAGAAAGTCATCATTGGTTCTGGCGTTTCGGTTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* *
648252 CTTCTGAGAAGAAAGTCATCAACAGTTCTGGCGTTTCGGTTC
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* * *
648294 CTTCGGAGAAGATGAAAGCCATCAACAGTTCTGGTGTTTCGGGTA
1 CTTCGGAG-A-A-GAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
* * * * *
648339 TTTCAGACAAG-AAGTCATCGACGGTTCTGGTGTTTCGG
1 CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGG
648377 CTACTCAGTC
Statistics
Matches: 328, Mismatches: 74, Indels: 23
0.77 0.17 0.05
Matches are distributed among these distances:
36 27 0.08
37 2 0.01
39 2 0.01
41 26 0.08
42 234 0.71
43 2 0.01
44 2 0.01
45 33 0.10
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
CTTCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGGTTC
Found at i:648112 original size:36 final size:38
Alignment explanation
Indices: 648008--648120 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 38
647998 ATCGGTTCCT
* *
648008 TCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGCTCCT
1 TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTT---CT-CG
****
648050 TCGGAGAAGAAA-TCCATCTTTGGTTCTGGTGTTTCT-G
1 TCGGAGAAGAAAGT-CATCAACAGTTCTGGTGTTTCTCG
648087 T-GGAGAAGAAAGTCATCAACAGTTCTGGTGTTTC
1 TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTC
648121 GATTCCTTCG
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
36 27 0.46
37 2 0.03
39 2 0.03
41 1 0.02
42 27 0.46
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (38 bp):
TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCTCG
Found at i:648167 original size:162 final size:165
Alignment explanation
Indices: 647924--648305 Score: 398
Period size: 162 Copynumber: 2.3 Consensus size: 165
647914 GAAAGTAACT
* * * * * ** * *
647924 TCGGTGAAGAAGGTCATCCACGGTTCTGGTGGTTCTCTTCCTTCTGAGATGAAAGTCATTATTGG
1 TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTCCTTCGGAGAAGAAAGTCATTATTGG
*
647989 TACTGGTGTATCGGTTCCTTCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGCTCCTTCGG
66 TACTGGTGTATCGGTTCATTCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGCTCCTTCGG
* *
648054 AGAAGAAA-TCCATCTTTGGTTCTGGTGTTTC-T-G
131 AGAAGAAAGT-CATCATTGGTTCTGGCGTTTCGTCG
* *
648087 T-GGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTCCTTCGGACAAGAAATTCATCT-TTG
1 TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTCCTTCGGAGAAGAAAGTCAT-TATTG
* * * * **** * * * *
648150 GTGCTGTTGCT-TCGGTTCATTCGGAGAAGAAATTCATCGTTGGTTCTTGTGTTTCTGTTCTTTC
65 GTACTGGTG-TATCGGTTCATTCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGCTCCTTC
*
648214 GGAGAAGAAAGTCATCATTGGTTCTGGCGTTTCGGTTCCT
129 GGAGAAGAAAGTCATCATTGGTTCTGGCGTTTC-G-T-CG
* * *
648254 TCTGAGAAGAAAGTCATCAACAGTTCTGGCGTTTCGGTTCCTTCGGAGAAGA
1 TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTCCTTCGGAGAAGA
648306 TGAAAGCCAT
Statistics
Matches: 179, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
162 127 0.71
163 4 0.02
165 1 0.01
167 1 0.01
168 46 0.26
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (165 bp):
TCGGAGAAGAAAGTCATCAACAGTTCTGGTGTTTCGATTCCTTCGGAGAAGAAAGTCATTATTGG
TACTGGTGTATCGGTTCATTCGGAGAAGAAAGTCAACAACAGTTCTGGTGTTTCGGCTCCTTCGG
AGAAGAAAGTCATCATTGGTTCTGGCGTTTCGTCG
Found at i:650282 original size:36 final size:36
Alignment explanation
Indices: 650241--650328 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 36
650231 GTTAGTATCG
*
650241 AACGATTAAGTAGATACGACCACGTGTTAATAATCA
1 AACGATTAAGTAGATACGACCACGTATTAATAATCA
*
650277 AACGATTAAGTAGATACGACCACGTATTAGTAATCA
1 AACGATTAAGTAGATACGACCACGTATTAATAATCA
* *
650313 AGCAATTAAGTAGATA
1 AACGATTAAGTAGATA
650329 TGAAACATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (36 bp):
AACGATTAAGTAGATACGACCACGTATTAATAATCA
Found at i:651183 original size:102 final size:102
Alignment explanation
Indices: 651025--651220 Score: 259
Period size: 102 Copynumber: 1.9 Consensus size: 102
651015 ACTGATTCTG
* * *
651025 TAGCTCTAAGCACATGCTACAATGAACGTATTGAGTGGTTCTAAGCATGTTCTAGAAACTAAC-G
1 TAGCTCTAAGCACATGCTACAATGAACGGATTGAGAGGTTCTAAGCACGTTCTAGAAACT-ACTG
*
651089 ATTGAGTACTGAACACGTGTTGTAATCAACCCAATCAT
65 ATTGAGTACTGAACACGTGTTGCAATCAACCCAATCAT
* * * * * *
651127 TAGCTCTAAGTACATTCTATAATTAACGGATTGAGAGGTTCTGAGCACGTTTTAGAAACTACTGA
1 TAGCTCTAAGCACATGCTACAATGAACGGATTGAGAGGTTCTAAGCACGTTCTAGAAACTACTGA
* * *
651192 TTGATTACTGAGCAGGTGTTGCAATCAAC
66 TTGAGTACTGAACACGTGTTGCAATCAAC
651221 AGTTTTGAGT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
101 2 0.03
102 78 0.98
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (102 bp):
TAGCTCTAAGCACATGCTACAATGAACGGATTGAGAGGTTCTAAGCACGTTCTAGAAACTACTGA
TTGAGTACTGAACACGTGTTGCAATCAACCCAATCAT
Found at i:655822 original size:169 final size:165
Alignment explanation
Indices: 655537--655870 Score: 632
Period size: 169 Copynumber: 2.0 Consensus size: 165
655527 GTAGGAGCAT
655537 CAAACGGATCTTCAACGTTAGATAATTCTTTTCTAGTCTGCCAAAGGATAAAGACAACTGCGACT
1 CAAACGGATCTTCAACGTTAGATAATTCTTTTCTAGTCTGCCAAAGGATAAAGACAACTGCGACT
655602 GATGTGAAAATTCAAGTAACTATAAAGCTCACAGAACTAGAAATGCAGGCAATTATATGTCAACC
66 GATGTGAAAATTCAAGTAACTATAAAGCTCACAGAACTAGAAATGCAGGCAATTATATGTCAACC
655667 CGTATAGCATTTAATGAGTACAACTCAGAAAACCC
131 CGTATAGCATTTAATGAGTACAACTCAGAAAACCC
655702 CAAACGGATCTTCAACGTTAGATAATTCTTTTCTAGTCTGCCAAAGGATAAAGACAACTCAATGC
1 CAAACGGATCTTCAACGTTAGATAATTCTTTTCTAGTCTGCCAAAGGATAAAGACAA--C--TGC
655767 GACTGATGTGAAAATTCAAGTAACTATAAAGCTCACAGAACTAGAAATGCAGGCAATTATATGTC
62 GACTGATGTGAAAATTCAAGTAACTATAAAGCTCACAGAACTAGAAATGCAGGCAATTATATGTC
655832 AACCCGTATAGCATTTAATGAGTACAACTCAGAAAACCC
127 AACCCGTATAGCATTTAATGAGTACAACTCAGAAAACCC
655871 TTAAACGTCC
Statistics
Matches: 165, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
165 57 0.35
167 1 0.01
169 107 0.65
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (165 bp):
CAAACGGATCTTCAACGTTAGATAATTCTTTTCTAGTCTGCCAAAGGATAAAGACAACTGCGACT
GATGTGAAAATTCAAGTAACTATAAAGCTCACAGAACTAGAAATGCAGGCAATTATATGTCAACC
CGTATAGCATTTAATGAGTACAACTCAGAAAACCC
Found at i:675807 original size:23 final size:23
Alignment explanation
Indices: 675754--675808 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
675744 AACTCTACCA
* *
675754 AAAGACAGAGATAAACATGCCAC
1 AAAGACATACATAAACATGCCAC
* *
675777 AAAGACATACATAAACGTGTCAC
1 AAAGACATACATAAACATGCCAC
675800 AAAGACATA
1 AAAGACATA
675809 ATTATTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.13
Consensus pattern (23 bp):
AAAGACATACATAAACATGCCAC
Found at i:677746 original size:23 final size:23
Alignment explanation
Indices: 677720--677771 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
677710 TTATATGATA
** *
677720 GTTTAGCGTTTGTGAATATGTTC
1 GTTTAGCGTTCATGAACATGTTC
*
677743 GTTTAGCGTTCATGAACATTTTC
1 GTTTAGCGTTCATGAACATGTTC
677766 GTTTAG
1 GTTTAG
677772 AATAAAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.23, T:0.46
Consensus pattern (23 bp):
GTTTAGCGTTCATGAACATGTTC
Found at i:681359 original size:39 final size:39
Alignment explanation
Indices: 681316--681395 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
681306 ACCCTAAATT
*
681316 CTACCTTATTACTTGTTTGATATATAATCTAGTGTAATC
1 CTACCCTATTACTTGTTTGATATATAATCTAGTGTAATC
681355 CTACCCTATTACTTGTTTGATATATAATCTAGTGTAATC
1 CTACCCTATTACTTGTTTGATATATAATCTAGTGTAATC
681394 CT
1 CT
681396 GGAATATTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (39 bp):
CTACCCTATTACTTGTTTGATATATAATCTAGTGTAATC
Found at i:681707 original size:175 final size:174
Alignment explanation
Indices: 681347--681864 Score: 857
Period size: 175 Copynumber: 3.0 Consensus size: 174
681337 ATATAATCTA
*
681347 GTGT-AATCCTACCCTATTACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
1 GTGTAAATTCTACCCTATTACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
*
681411 TTAATAATATTTCCCCTCTCTAAAAAAAAACTGGAGAACTTGATCTGGTTTTTGGTGAGGAATAT
66 TTAATAATATTTCCCCTCTCT---AAAAAACTGGAGAACTTGATCTGGTTTTTGGTGAGGTATAT
*
681476 TTAGGGACAAATATGTTCTAGGAGACGAATTTATTAAATTTTAGAGG
128 TTAGGGACAAATATGTTCTAGGAGACGAATTTATTAAATTTTAGAGC
681523 GTGTAAATTCTACCCTATTACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
1 GTGTAAATTCTACCCTATTACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
* *
681588 TTAATAATATTTCCCCTCTCTAAAAAACCTGGAGAACTTTATCTAGTTTTTGGTGAGGTATATTT
66 TTAATAATATTTCCCCTCTCTAAAAAA-CTGGAGAACTTGATCTGGTTTTTGGTGAGGTATATTT
*
681653 AGGAACAAATATGTTCTAGGAGACGAATTTATTAAATTTTAGAGC
130 AGGGACAAATATGTTCTAGGAGACGAATTTATTAAATTTTAGAGC
681698 GTGTAAATTCTA-CC-A-TACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
1 GTGTAAATTCTACCCTATTACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
* *
681760 TTAATAATATTT-CCCTCTCTTAAAAAACTAGAGAACTTGATCTGGTTTTTGTTGAGGTATATTT
66 TTAATAATATTTCCCCTCTC-TAAAAAACTGGAGAACTTGATCTGGTTTTTGGTGAGGTATATTT
* * *
681824 AGGGATAAATATGTTTTAGAAGACGAATTTATTAAATTTTA
130 AGGGACAAATATGTTCTAGGAGACGAATTTATTAAATTTTA
681865 TAGGGTTAAA
Statistics
Matches: 325, Mismatches: 14, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
171 77 0.24
172 66 0.20
173 1 0.00
174 8 0.02
175 89 0.27
176 4 0.01
177 80 0.25
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (174 bp):
GTGTAAATTCTACCCTATTACTTGTTTGATATATAATCTAGTGTAATCCTGGAATATTGATAAAG
TTAATAATATTTCCCCTCTCTAAAAAACTGGAGAACTTGATCTGGTTTTTGGTGAGGTATATTTA
GGGACAAATATGTTCTAGGAGACGAATTTATTAAATTTTAGAGC
Found at i:685210 original size:31 final size:30
Alignment explanation
Indices: 685168--685254 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
685158 TCAATAAAAT
685168 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
685199 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
685230 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
685255 TATTATCGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:693712 original size:2 final size:2
Alignment explanation
Indices: 693705--693730 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
693695 TGATACTTAC
693705 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
693731 TGTTCAGCAA
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:698003 original size:2 final size:2
Alignment explanation
Indices: 697996--698033 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
697986 TGTATGTATG
697996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
698034 GGTTATCAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:698132 original size:4 final size:4
Alignment explanation
Indices: 698125--698251 Score: 254
Period size: 4 Copynumber: 31.8 Consensus size: 4
698115 CTTTTGCATG
698125 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
698173 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
698221 CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
698252 TTCTTTAGTT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 123 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:704056 original size:27 final size:25
Alignment explanation
Indices: 704024--704085 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
704014 TTCTATAACG
*
704024 TTTAATATTTTTTA-ATTTTTGATTT
1 TTTAATATTTTTTATATTTTT-ATAT
*
704049 CTTGTAAT-GTTTTTATATTTTTATAT
1 -TT-TAATATTTTTTATATTTTTATAT
704075 TTTAATATTTT
1 TTTAATATTTT
704086 AAATTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
24 4 0.13
25 5 0.17
26 11 0.37
27 10 0.33
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (25 bp):
TTTAATATTTTTTATATTTTTATAT
Found at i:704392 original size:22 final size:22
Alignment explanation
Indices: 704367--704423 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 22
704357 GGATAAAATC
704367 AATATAATTAAATG-AATTCA-AA
1 AATA-AATTAAATGTAATT-ATAA
704389 AATAAAATT-AATGTAATTATAA
1 AAT-AAATTAAATGTAATTATAA
704411 AATAAATATAAAT
1 AATAAAT-TAAAT
704424 TTACTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
21 9 0.30
22 17 0.57
23 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (22 bp):
AATAAATTAAATGTAATTATAA
Found at i:705564 original size:25 final size:26
Alignment explanation
Indices: 705510--705566 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
705500 TTCACTCGTC
* *
705510 CTAAAATTTTATAAGTTCTTTCTCTT
1 CTAAAATTTAATAAGTTCTGTCTCTT
705536 -TAAAATTTAATAAGTT-TGTCAT-TT
1 CTAAAATTTAATAAGTTCTGTC-TCTT
705560 CTAAAAT
1 CTAAAAT
705567 CTTGTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (26 bp):
CTAAAATTTAATAAGTTCTGTCTCTT
Found at i:706164 original size:4 final size:4
Alignment explanation
Indices: 706157--706195 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
706147 TCTGATATAT
*
706157 ATAC ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
706196 TATAACATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:706174 original size:16 final size:16
Alignment explanation
Indices: 706153--706195 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
706143 CAAATCTGAT
706153 ATATATACATACATAC
1 ATATATACATACATAC
706169 ATATATACATACATAC
1 ATATATACATACATAC
*
706185 ATACATACATA
1 ATATATACATA
706196 TATAACATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (16 bp):
ATATATACATACATAC
Found at i:706178 original size:12 final size:12
Alignment explanation
Indices: 706161--706199 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
706151 ATATATATAC
706161 ATACATACATAT
1 ATACATACATAT
*
706173 ATACATACATAC
1 ATACATACATAT
706185 ATACATACATAT
1 ATACATACATAT
706197 ATA
1 ATA
706200 ACATGCTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (12 bp):
ATACATACATAT
Found at i:707429 original size:17 final size:19
Alignment explanation
Indices: 707407--707446 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
707397 GGGATCAATT
*
707407 ATTTGATTAT-AA-AATAA
1 ATTTGACTATCAACAATAA
707424 ATTTGACTATCAACAATAA
1 ATTTGACTATCAACAATAA
707443 ATTT
1 ATTT
707447 ACTTCAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTTGACTATCAACAATAA
Found at i:708059 original size:104 final size:105
Alignment explanation
Indices: 707879--708085 Score: 362
Period size: 104 Copynumber: 2.0 Consensus size: 105
707869 GGGAAGAGAG
* * *
707879 CTTTAGGGAAAAGAAGGGGAGTGCTCTTAGTTGGTCTATAACCCATGTCCTAAAGAATTATAAGA
1 CTTTAAGGAAAAGAAGGGGAGTGCTATTAGTTGGTCTATAACCCATGTCCTAAAGAAATATAAGA
*
707944 GAACAAGGAT-AACAACTTGATCGATCGACCAAATGTGGC
66 GAACAAAGATAAACAACTTGATCGATCGACCAAATGTGGC
707983 CTTTAAGGAAAAGAAGGGGAGTGCTATTAGTTGGTCTATAACCCATGTCCTAAAGAAATATAAGA
1 CTTTAAGGAAAAGAAGGGGAGTGCTATTAGTTGGTCTATAACCCATGTCCTAAAGAAATATAAGA
*
708048 GAACAAAGATAAACAGCTTGATCGATCGACCAAATGTG
66 GAACAAAGATAAACAACTTGATCGATCGACCAAATGTG
708086 TTTACTCTGA
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
104 71 0.73
105 26 0.27
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (105 bp):
CTTTAAGGAAAAGAAGGGGAGTGCTATTAGTTGGTCTATAACCCATGTCCTAAAGAAATATAAGA
GAACAAAGATAAACAACTTGATCGATCGACCAAATGTGGC
Found at i:711031 original size:18 final size:18
Alignment explanation
Indices: 711008--711045 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
710998 GACCCCACTG
711008 AAGCTCGTTCCATGGTAT
1 AAGCTCGTTCCATGGTAT
711026 AAGCTCGTTCCATGGTAT
1 AAGCTCGTTCCATGGTAT
711044 AA
1 AA
711046 TATTGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (18 bp):
AAGCTCGTTCCATGGTAT
Found at i:723557 original size:21 final size:20
Alignment explanation
Indices: 723531--723569 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
723521 TAAAAACTTT
723531 TTTTTATTAAATGTTTTTATA
1 TTTTTATTAAAT-TTTTTATA
*
723552 TTTTTATTTAATTTTTTA
1 TTTTTATTAAATTTTTTA
723570 AATAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTTTTATTAAATTTTTTATA
Found at i:724455 original size:14 final size:15
Alignment explanation
Indices: 724429--724465 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
724419 AAATTAATAA
*
724429 AAAATATCA-ATTTT
1 AAAATATTATATTTT
724443 AAAA-ATTATATTTT
1 AAAATATTATATTTT
724457 AAAATATTA
1 AAAATATTA
724466 ACCAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 13 0.65
15 4 0.20
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAATATTATATTTT
Found at i:724918 original size:20 final size:20
Alignment explanation
Indices: 724897--724934 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
724887 ATTTATTATA
*
724897 AAAAATA-AAGGATCAAATT
1 AAAAATAGAAAGATCAAATT
724916 AAAAATAGAAAGATCAAAT
1 AAAAATAGAAAGATCAAAT
724935 CTCAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAAATAGAAAGATCAAATT
Found at i:727691 original size:43 final size:44
Alignment explanation
Indices: 727629--727713 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 44
727619 GAAGAGAGTT
*
727629 TAAGCAAAAATATTGGCTTCTCGTAAACATAGCCATACTTTTTC
1 TAAGCAAAAATATCGGCTTCTCGTAAACATAGCCATACTTTTTC
727673 TAAGC-AAAATATCGGCTTCTCGTAAACATAGCCATACTTTT
1 TAAGCAAAAATATCGGCTTCTCGTAAACATAGCCATACTTTT
727714 CTATCTTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 35 0.88
44 5 0.12
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (44 bp):
TAAGCAAAAATATCGGCTTCTCGTAAACATAGCCATACTTTTTC
Found at i:728344 original size:2 final size:2
Alignment explanation
Indices: 728337--728372 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
728327 CATAGTAATA
728337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
728373 GTAACCATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:733339 original size:103 final size:103
Alignment explanation
Indices: 733160--733365 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
733150 TTATTGCAAT
733160 CTGGGTGTGGGTGGGTTTTTTTTTTGGGGGGGGAGAGGGGGGGGAATCAAAACATAGAACGTCAT
1 CTGGGTGTGGGTGGGTTTTTTTTTTGGGGGGGGAGAGGGGGGGGAATCAAAACATAGAACGTCAT
733225 TTTTATTTTTACAGTTTCCATATACCATTCATACTTCA
66 TTTTATTTTTACAGTTTCCATATACCATTCATACTTCA
733263 CTGGGTGTGGGTGGGTTTTTTTTTTGGGGGGGGAGAGGGGGGGGAATCAAAACATAGAACGTCAT
1 CTGGGTGTGGGTGGGTTTTTTTTTTGGGGGGGGAGAGGGGGGGGAATCAAAACATAGAACGTCAT
733328 TTTTATTTTTACAGTTTCCATATACCATTCATACTTCA
66 TTTTATTTTTACAGTTTCCATATACCATTCATACTTCA
733366 TTCCATTACA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (103 bp):
CTGGGTGTGGGTGGGTTTTTTTTTTGGGGGGGGAGAGGGGGGGGAATCAAAACATAGAACGTCAT
TTTTATTTTTACAGTTTCCATATACCATTCATACTTCA
Found at i:733713 original size:16 final size:16
Alignment explanation
Indices: 733694--733733 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
733684 AATTTAGCAA
733694 AACCGAAATCAACCAG
1 AACCGAAATCAACCAG
* *
733710 AACCGAAATTAACCCG
1 AACCGAAATCAACCAG
733726 AACCGAAA
1 AACCGAAA
733734 GAAACCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.30, G:0.12, T:0.07
Consensus pattern (16 bp):
AACCGAAATCAACCAG
Found at i:733755 original size:16 final size:16
Alignment explanation
Indices: 733693--733756 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
733683 AAATTTAGCA
*
733693 AAACCGAAATCAACC-
1 AAACCGAAATTAACCT
*
733708 AGAACCGAAATTAACCC
1 A-AACCGAAATTAACCT
* **
733725 GAACCGAAAGAAACCT
1 AAACCGAAATTAACCT
*
733741 AAATCGAAATTAACCT
1 AAACCGAAATTAACCT
733757 GAACAAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
15 1 0.03
16 37 0.97
ACGTcount: A:0.50, C:0.27, G:0.11, T:0.12
Consensus pattern (16 bp):
AAACCGAAATTAACCT
Found at i:733895 original size:19 final size:19
Alignment explanation
Indices: 733846--733897 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
733836 TGATAAAAGT
*
733846 TATTTTTAATAATAA-ATTA
1 TATTTATAATAA-AATATTA
*
733865 -ATTTATTA-AAAATATTA
1 TATTTATAATAAAATATTA
733882 TATTTATAATAAAATA
1 TATTTATAATAAAATA
733898 ATAGAAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.07
17 6 0.22
18 13 0.48
19 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTATAATAAAATATTA
Found at i:734537 original size:32 final size:31
Alignment explanation
Indices: 734471--734543 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
734461 ACCTAAACCG
* *
734471 AAAATCAACCAATCTGATATTGACCTGACTC
1 AAAATCAACCAATCTGATATTAACCTGACCC
* *
734502 AAAATCTAACCGATCTGGTATTAA-CTCGACCC
1 AAAATC-AACCAATCTGATATTAACCT-GACCC
734534 AAAAATCAAC
1 -AAAATCAAC
734544 GATTCGATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
31 8 0.23
32 21 0.60
33 6 0.17
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (31 bp):
AAAATCAACCAATCTGATATTAACCTGACCC
Found at i:739379 original size:41 final size:40
Alignment explanation
Indices: 739317--739423 Score: 178
Period size: 41 Copynumber: 2.6 Consensus size: 40
739307 CTATCGTAAA
739317 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCG-GTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
*
739358 TTCGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCTAT
1 TTCG-GTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
739399 TTCGGTTTGCGATAGTTGAAAATCG
1 TTCGG-TTGCGATAGTTGAAAATCG
739424 TTCGTGTTGC
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 1 0.02
41 62 0.98
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (40 bp):
TTCGGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
Found at i:739517 original size:19 final size:19
Alignment explanation
Indices: 739493--739536 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
739483 ACAGTTGTCA
739493 TTGCGATTTTCCAAATTCG
1 TTGCGATTTTCCAAATTCG
*
739512 TTGCGATTTTCTAAATTCG
1 TTGCGATTTTCCAAATTCG
739531 TTGCGA
1 TTGCGA
739537 AAATTCGTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCCAAATTCG
Found at i:739532 original size:107 final size:107
Alignment explanation
Indices: 739317--739518 Score: 284
Period size: 107 Copynumber: 1.9 Consensus size: 107
739307 CTATCGTAAA
*
739317 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGTGTTGCGATAGTTGAAAATC
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
* * *
739382 GCGTTGCGATTTTCTATTTCGGTTTGCGATAGTTGAAAATCG
66 GCATTGCGATTTTCAAATTCGGTTTGCGATAGTTGAAAATCG
* * *
739424 TTCGTGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGT
1 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAAT
*
739488 TGTCATTGCGATTTTCCAAATTC-G-TTGCGAT
65 CG-CATTGCGATTTT-CAAATTCGGTTTGCGAT
739519 TTTCTAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
107 66 0.79
108 13 0.15
109 5 0.06
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (107 bp):
TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATC
GCATTGCGATTTTCAAATTCGGTTTGCGATAGTTGAAAATCG
Found at i:739652 original size:12 final size:11
Alignment explanation
Indices: 739637--739672 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
739627 TATTACCATT
739637 ACCACGACCACG
1 ACCACGACC-CG
739649 ACCACGACCCG
1 ACCACGACCCG
739660 ACC-CGACCCG
1 ACCACGACCCG
739670 ACC
1 ACC
739673 CGAGACGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.28, C:0.56, G:0.17, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:739663 original size:5 final size:5
Alignment explanation
Indices: 739641--739675 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
739631 ACCATTACCA
739641 CGACC ACGACC ACGACC CGACC CGACC CGACC CGA
1 CGACC -CGACC -CGACC CGACC CGACC CGACC CGA
739676 GACGGCAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.26, C:0.54, G:0.20, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:740285 original size:19 final size:19
Alignment explanation
Indices: 740261--740307 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
740251 CAACGAATTT
740261 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
740280 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
740299 TCGCAACGA
1 TCGCAACGA
740308 CAACTGTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:740342 original size:42 final size:41
Alignment explanation
Indices: 740292--740376 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 41
740282 GCAACGAATT
*
740292 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGAAACG-CAACTGTCA-ACTATCGCAACGCGAAA
* * *
740334 TGGAAAATCGAAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGAAACGCAACTGTCAACTATCGCAACGCGAAA
740375 TG
1 TG
740377 CAACACGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 23 0.61
42 15 0.39
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGAAACGCAACTGTCAACTATCGCAACGCGAAA
Found at i:740380 original size:21 final size:21
Alignment explanation
Indices: 740317--740380 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
740307 ACAACTGTAG
*
740317 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
740338 A-AATCGAAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
740358 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
740379 AC
1 AC
740381 ACGAATTTGC
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:749744 original size:30 final size:28
Alignment explanation
Indices: 749671--749768 Score: 76
Period size: 30 Copynumber: 3.4 Consensus size: 28
749661 AAGTAATTAA
*
749671 AATTAAATTAAAATATAATAATATATAT
1 AATTAAATTAAAATATAATAATATATAG
*
749699 AATTTAAA--AATAATATAATTAAATATGTAG
1 AA-TTAAATTAA-AATATAA-T-AATATATAG
* * *
749729 AATTGAATTAAAATATAACATTATATATAT
1 AATTAAATTAAAATAT-A-ATAATATATAG
749759 AATT-AATTAA
1 AATTAAATTAA
749769 GTTGGAAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
27 2 0.04
28 9 0.16
29 16 0.29
30 24 0.43
31 4 0.07
32 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (28 bp):
AATTAAATTAAAATATAATAATATATAG
Found at i:750780 original size:20 final size:20
Alignment explanation
Indices: 750755--750803 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
750745 TGGCCACCAA
750755 GCCTCCACTAGTCCTTGTCT
1 GCCTCCACTAGTCCTTGTCT
750775 GCCTCCACTAGTCCTTGTCT
1 GCCTCCACTAGTCCTTGTCT
*
750795 CCCTCCACT
1 GCCTCCACT
750804 CACAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.45, G:0.12, T:0.33
Consensus pattern (20 bp):
GCCTCCACTAGTCCTTGTCT
Found at i:751099 original size:25 final size:25
Alignment explanation
Indices: 751039--751091 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
751029 TCTGTTTTGA
*
751039 ATTTTTAATAG-TTTTTATTTATTT
1 ATTTTCAATAGTTTTTTATTTATTT
751063 ATTTTCAATAGTTTTTTA-TTA-TT
1 ATTTTCAATAGTTTTTTATTTATTT
751086 ATTTTC
1 ATTTTC
751092 GAAATAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.30
24 13 0.48
25 6 0.22
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (25 bp):
ATTTTCAATAGTTTTTTATTTATTT
Found at i:751846 original size:15 final size:14
Alignment explanation
Indices: 751834--751864 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
751824 CGAATTTTCC
*
751834 TTTATTCTTTTTTA
1 TTTACTCTTTTTTA
751848 TTTACTCTTTTTTA
1 TTTACTCTTTTTTA
751862 TTT
1 TTT
751865 CGATTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTACTCTTTTTTA
Found at i:752772 original size:8 final size:8
Alignment explanation
Indices: 752759--752805 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
752749 CCTAACCATG
*
752759 TTTTTTGT
1 TTTTTTAT
752767 TTTTTT-T
1 TTTTTTAT
*
752774 TTTCGTTAT
1 TTT-TTTAT
752783 TTTTTTAT
1 TTTTTTAT
*
752791 TTGTTTAT
1 TTTTTTAT
752799 TTTTTTA
1 TTTTTTA
752806 CTAACTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.09, C:0.02, G:0.06, T:0.83
Consensus pattern (8 bp):
TTTTTTAT
Found at i:755473 original size:39 final size:39
Alignment explanation
Indices: 755419--755498 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
755409 CACCCGGAGT
* *
755419 ATTACCCGAGGACTCATCCGCTACTAAAGGGAAAGTTGC
1 ATTACCCGAGGACTCATCCGCTACCAAAGGGAAAGCTGC
*
755458 ATTACCCG-GTGACTCATCCTCTACCAAAGGGAAAGCTGC
1 ATTACCCGAG-GACTCATCCGCTACCAAAGGGAAAGCTGC
755497 AT
1 AT
755499 CTACTGTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (39 bp):
ATTACCCGAGGACTCATCCGCTACCAAAGGGAAAGCTGC
Found at i:763214 original size:80 final size:80
Alignment explanation
Indices: 763115--763389 Score: 194
Period size: 80 Copynumber: 3.3 Consensus size: 80
763105 ACAACATTGG
*
763115 ATTTCAACTTTACAGCGAAGGATATCCAATTCAAAGCTCAACTCCACAGCGAAGGGGCTTCCCAG
1 ATTTCAACTTCACAGCGAAGGATATCCAATTCAAAGCTCAACTCCACAGCGAAGGGGCTTCCCAG
763180 TTTCATTCAGAGCCA
66 TTTCATTCAGAGCCA
** * * *
763195 ATTTCAACTTCAC-GACGAAGGATATTGAACTCGAAA-CATCCACGATTTCAACTTCACGACGAA
1 ATTTCAACTTCACAG-CGAAGGATATCCAATTC-AAAGC-T-CA--A-CTC--C-ACA-G-CGAA
* * *
763258 --GGATAT--C-GTGCTCA--CA-AACAACA
54 GGGGCT-TCCCAGT-TTCATTCAGAGC--CA
*
763281 TTGGATTTCAACTTTACAGCGAAGGATATCCAATTCAAAGCTCAACTCCACAGCGAAGGGGCTTC
1 ----ATTTCAACTTCACAGCGAAGGATATCCAATTCAAAGCTCAACTCCACAGCGAAGGGGCTTC
763346 CCAGTTTCATTCAGAGCCA
62 CCAGTTTCATTCAGAGCCA
763365 ATTTCAACTTCAC-GACGAAGGATAT
1 ATTTCAACTTCACAG-CGAAGGATAT
763390 TGGACTCAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 62
0.64 0.08 0.27
Matches are distributed among these distances:
79 2 0.01
80 53 0.37
81 6 0.04
82 7 0.05
83 5 0.03
84 7 0.05
85 8 0.06
86 7 0.05
87 5 0.03
88 7 0.05
89 6 0.04
90 31 0.21
91 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (80 bp):
ATTTCAACTTCACAGCGAAGGATATCCAATTCAAAGCTCAACTCCACAGCGAAGGGGCTTCCCAG
TTTCATTCAGAGCCA
Found at i:763622 original size:170 final size:170
Alignment explanation
Indices: 763018--763607 Score: 1108
Period size: 170 Copynumber: 3.5 Consensus size: 170
763008 GGTTCTAGCT
* *
763018 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCGAAACATCCACGATTTCAACTTCACG
1 AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACATCCACGATTTCAACTTCACG
763083 ACGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
66 ACGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
763148 AAGCTCAACTCCACAGCGAAGGGGCTTCCCAGTTTCATTC
131 AAGCTCAACTCCACAGCGAAGGGGCTTCCCAGTTTCATTC
*
763188 AGAGCCAATTTCAACTTCACGACGAAGGATATTGAACTCGAAACATCCACGATTTCAACTTCACG
1 AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACATCCACGATTTCAACTTCACG
763253 ACGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
66 ACGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
763318 AAGCTCAACTCCACAGCGAAGGGGCTTCCCAGTTTCATTC
131 AAGCTCAACTCCACAGCGAAGGGGCTTCCCAGTTTCATTC
*
763358 AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCAAAACATCCACGATTTCAACTTCACG
1 AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACATCCACGATTTCAACTTCACG
*
763423 AAGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
66 ACGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
*
763488 AAGCTCAACTCCACAGCGAAGGGGCTTCCCAATTTCATTC
131 AAGCTCAACTCCACAGCGAAGGGGCTTCCCAGTTTCATTC
* *
763528 AGAGCCAATTTCAACTTCATGACGAAGGATATTGGACTCGAAACATCCACGATTTTAACTTCACG
1 AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACATCCACGATTTCAACTTCACG
763593 ACGAAGGATATCGTG
66 ACGAAGGATATCGTG
763608 TCCACCAGCA
Statistics
Matches: 409, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
170 409 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (170 bp):
AGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCGAAACATCCACGATTTCAACTTCACG
ACGAAGGATATCGTGCTCACAAACAACATTGGATTTCAACTTTACAGCGAAGGATATCCAATTCA
AAGCTCAACTCCACAGCGAAGGGGCTTCCCAGTTTCATTC
Found at i:764253 original size:20 final size:20
Alignment explanation
Indices: 764228--764275 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
764218 TGGCCACCAA
764228 GCCTCCACTAGTCCTTGTCT
1 GCCTCCACTAGTCCTTGTCT
764248 GCCTCCACTAGTCCTTGTCT
1 GCCTCCACTAGTCCTTGTCT
764268 -CCTCCACT
1 GCCTCCACT
764276 CACAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.10, C:0.44, G:0.12, T:0.33
Consensus pattern (20 bp):
GCCTCCACTAGTCCTTGTCT
Found at i:764499 original size:23 final size:23
Alignment explanation
Indices: 764473--764560 Score: 54
Period size: 23 Copynumber: 3.7 Consensus size: 23
764463 CAGTTTCTTT
764473 ATTTTTATTATTATTTTTTATTG
1 ATTTTTATTATTATTTTTTATTG
* * * *
764496 ATTTCTGTT-TTGAATTTTTAAT-
1 ATTTTTATTATT-ATTTTTTATTG
** *
764518 AGTTTTTATTTATTTATTTTCAATAG
1 A-TTTTTA-TTA-TTATTTTTTATTG
*
764544 TTTTTTATTATTATTTT
1 ATTTTTATTATTATTTT
764561 CGAAATAGTA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
22 3 0.06
23 26 0.55
24 5 0.11
25 11 0.23
26 2 0.04
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (23 bp):
ATTTTTATTATTATTTTTTATTG
Found at i:764569 original size:25 final size:25
Alignment explanation
Indices: 764509--764561 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
764499 TCTGTTTTGA
*
764509 ATTTTTAATAG-TTTTTATTTATTT
1 ATTTTCAATAGTTTTTTATTTATTT
764533 ATTTTCAATAGTTTTTTA-TTA-TT
1 ATTTTCAATAGTTTTTTATTTATTT
764556 ATTTTC
1 ATTTTC
764562 GAAATAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.30
24 13 0.48
25 6 0.22
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (25 bp):
ATTTTCAATAGTTTTTTATTTATTT
Found at i:765311 original size:15 final size:14
Alignment explanation
Indices: 765299--765329 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
765289 CGAATTTTCC
*
765299 TTTATTCTTTTTTA
1 TTTACTCTTTTTTA
765313 TTTACTCTTTTTTA
1 TTTACTCTTTTTTA
765327 TTT
1 TTT
765330 CGATTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTACTCTTTTTTA
Found at i:768572 original size:205 final size:208
Alignment explanation
Indices: 768212--768625 Score: 798
Period size: 205 Copynumber: 2.0 Consensus size: 208
768202 CTTCCTTATC
768212 TCTCTTGTTGGTCATGAATGTGTCGGACTTCTTTTTCCCCCTATTAAAAAAGTAACATTAAAATA
1 TCTCTTGTTGGTCATGAATGTGTCGGACTTCTTTTTCCCCCTATTAAAAAAGTAACATTAAAATA
768277 AATGAATAACCTTTCCAAAGCCTTTCACTACTGCACAATGATGATGGTAATCCCGTGTTTCTGCT
66 AATGAATAACCTTTCCAAAGCCTTTCACTACTGCACAATGATGATGGTAATCCCGTGTTTCTGCT
768342 CCGAAGTTTTTTCTCTTTCCTACTTTTGTTTAAATTTATTGGATTTTATGTAT-GGG-GGCTTAG
131 CCGAAGTTTTTTCTCTTTCCTACTTTTGTTTAAATTTATTGGATTTTATGTATGGGGTGGCTTAG
768405 GTTTTTATGGTAA
196 GTTTTTATGGTAA
768418 TCTCTTG-TGGTCATGAATGTGTCGGACTTCTTTTTCCCCCTATTAAAAAAGTAACATTAAAATA
1 TCTCTTGTTGGTCATGAATGTGTCGGACTTCTTTTTCCCCCTATTAAAAAAGTAACATTAAAATA
768482 AATGAATAACCTTTCCAAAGCCTTTCACTACTGCACAATGATGATGGTAATCCCGTGTTTCTGCT
66 AATGAATAACCTTTCCAAAGCCTTTCACTACTGCACAATGATGATGGTAATCCCGTGTTTCTGCT
768547 CCGAAGTTTTTTCTCTTTCCTACTTTTGTTTAAATTTATTGGATTTTATGTATGGGGGTGGCTTA
131 CCGAAGTTTTTTCTCTTTCCTACTTTTGTTTAAATTTATTGGATTTTATGTAT-GGGGTGGCTTA
768612 GGTTTTTATGGTAA
195 GGTTTTTATGGTAA
768626 GTTATTTGGC
Statistics
Matches: 205, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
205 175 0.85
206 7 0.03
207 3 0.01
208 20 0.10
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (208 bp):
TCTCTTGTTGGTCATGAATGTGTCGGACTTCTTTTTCCCCCTATTAAAAAAGTAACATTAAAATA
AATGAATAACCTTTCCAAAGCCTTTCACTACTGCACAATGATGATGGTAATCCCGTGTTTCTGCT
CCGAAGTTTTTTCTCTTTCCTACTTTTGTTTAAATTTATTGGATTTTATGTATGGGGTGGCTTAG
GTTTTTATGGTAA
Found at i:771540 original size:18 final size:18
Alignment explanation
Indices: 771517--771571 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
771507 ACCGGTTACA
771517 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
771535 ACCCGACCCAACCCATTG
1 ACCCGACCCGACCCGTTG
771553 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
771571 A
1 A
771572 TCGTTGACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.22, C:0.49, G:0.18, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:771622 original size:42 final size:42
Alignment explanation
Indices: 771588--771672 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
771578 ACATGCGTTG
771588 ACCACTGTTGACCAAAACTTTGATTAGCTTTGACAGGGCATT
1 ACCACTGTTGACCAAAACTTTGATTAGCTTTGACAGGGCATT
771630 ACCACTGTTGACCAAAACTTTGATTAGCTTTGACAGGGCATT
1 ACCACTGTTGACCAAAACTTTGATTAGCTTTGACAGGGCATT
771672 A
1 A
771673 AAAGACCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
ACCACTGTTGACCAAAACTTTGATTAGCTTTGACAGGGCATT
Found at i:775129 original size:24 final size:24
Alignment explanation
Indices: 775098--775169 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
775088 GATACATGAC
775098 CTGAATTCTGTTTCGATTTCTGAT
1 CTGAATTCTGTTTCGATTTCTGAT
* * *
775122 CTGGATTCTG-TTCTGATATCTGTT
1 CTGAATTCTGTTTC-GATTTCTGAT
*
775146 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTTCGATTTCTGAT
775170 AACTCCGCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.08
24 34 0.87
25 2 0.05
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (24 bp):
CTGAATTCTGTTTCGATTTCTGAT
Found at i:776153 original size:120 final size:119
Alignment explanation
Indices: 775932--776172 Score: 419
Period size: 120 Copynumber: 2.0 Consensus size: 119
775922 GCAAGATGAT
* *
775932 CAATGGGGTCTGATATTTAATTGTAAGCTTTTCTGGATAGTTCGATATCGATTGTTCAACCTCCA
1 CAATGGGGTCTGATATATAATTGTAAGCTTTTCTGGATAGTTCGATATCGATTGCTCAACCTCCA
* *
775997 TTACCTTGCATGCTAGCTTGATTGGTGAATATTTCAATTAATGGTTCAAGGAAA
66 TTACCTTGCATGCTAGCTTGATGGGTGAATAATTCAATTAATGGTTCAAGGAAA
*
776051 CAATGGGGGTCTGATATATAATTGTAAGCTTTTCTGGATAGTTTGATATCGATTGCTCAACCTCC
1 CAAT-GGGGTCTGATATATAATTGTAAGCTTTTCTGGATAGTTCGATATCGATTGCTCAACCTCC
*
776116 ATTACCTTGCTTGCTAGCTTGATGGGTGAATAATTCAATTAATGGTTCAAGGAAA
65 ATTACCTTGCATGCTAGCTTGATGGGTGAATAATTCAATTAATGGTTCAAGGAAA
776171 CA
1 CA
776173 GAGATTCACG
Statistics
Matches: 115, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
119 4 0.03
120 111 0.97
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (119 bp):
CAATGGGGTCTGATATATAATTGTAAGCTTTTCTGGATAGTTCGATATCGATTGCTCAACCTCCA
TTACCTTGCATGCTAGCTTGATGGGTGAATAATTCAATTAATGGTTCAAGGAAA
Found at i:786811 original size:24 final size:24
Alignment explanation
Indices: 786777--786833 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 24
786767 CTCTGATTTT
*
786777 ACATGGGTAAGTGTTCTATTGGACA
1 ACAT-GGTAAGCGTTCTATTGGACA
786802 ACATGGTAAGCGTTCTATTGGACA
1 ACATGGTAAGCGTTCTATTGGACA
786826 ACATGGTA
1 ACATGGTA
786834 GTCGAGCTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 27 0.87
25 4 0.13
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (24 bp):
ACATGGTAAGCGTTCTATTGGACA
Found at i:787690 original size:22 final size:21
Alignment explanation
Indices: 787635--787695 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
787625 TGTGAAAAAA
787635 CCGGATCGATTTTTATCCAAT
1 CCGGATCGATTTTTATCCAAT
787656 CCGGATCGATTTTTATCCAAT
1 CCGGATCGATTTTTATCCAAT
787677 CCGGATCGATTTTTTATCC
1 CCGGATCGA-TTTTTATCC
787696 GACTTTATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
21 30 0.77
22 9 0.23
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (21 bp):
CCGGATCGATTTTTATCCAAT
Found at i:787924 original size:12 final size:12
Alignment explanation
Indices: 787907--787931 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
787897 TAGGGGTTGT
787907 ATCATTAAAAGA
1 ATCATTAAAAGA
787919 ATCATTAAAAGA
1 ATCATTAAAAGA
787931 A
1 A
787932 GTTTTGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
ATCATTAAAAGA
Found at i:790730 original size:13 final size:12
Alignment explanation
Indices: 790711--790741 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
790701 CAAATTTATG
790711 AAAAATAAAATA
1 AAAAATAAAATA
790723 ATAAAATAAAATA
1 A-AAAATAAAATA
790736 AAAAAT
1 AAAAAT
790742 CTGATGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:795609 original size:3 final size:3
Alignment explanation
Indices: 795601--795636 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
795591 ATGAGTTTGC
* *
795601 ATA ATA ATA ATA ATA ATC ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
795637 TCATGCAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:795815 original size:3 final size:3
Alignment explanation
Indices: 795807--795838 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
795797 ATCAATATGG
795807 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
795839 GTGGCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:805226 original size:14 final size:14
Alignment explanation
Indices: 805207--805234 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
805197 ACTGCAGTCG
805207 AATAATATATATTT
1 AATAATATATATTT
805221 AATAATATATATTT
1 AATAATATATATTT
805235 TTCGAATCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATATATATTT
Found at i:805334 original size:27 final size:27
Alignment explanation
Indices: 805253--805335 Score: 139
Period size: 27 Copynumber: 3.1 Consensus size: 27
805243 CAAATAGTGA
*
805253 CTCTAATAATAAAATAAATTATATTAT
1 CTCTAATAATAAAATAAATTATATTCT
* *
805280 CTCTAACAATAAAATAAATTATAGTCT
1 CTCTAATAATAAAATAAATTATATTCT
805307 CTCTAATAATAAAATAAATTATATTCT
1 CTCTAATAATAAAATAAATTATATTCT
805334 CT
1 CT
805336 TTAAAATTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (27 bp):
CTCTAATAATAAAATAAATTATATTCT
Found at i:806542 original size:65 final size:65
Alignment explanation
Indices: 806457--806585 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
806447 AGACCAACTA
806457 TGGTCTTAGTCTTACCCTAGGAGCTAACTAGGGACTTTCGTCAGT-TTTTATTTAATATTTCGTA
1 TGGTCTTAGTCTTACCCTAGGAGCTAACTAGGGACTTTCGTCA-TATTTTATTTAATATTTCGTA
806521 T
65 T
806522 TGGTCTTAGTCTTACCCTAGGAGCTAACTAGGGACTTTCGTCATATTTTATTTAATATTTCGTA
1 TGGTCTTAGTCTTACCCTAGGAGCTAACTAGGGACTTTCGTCATATTTTATTTAATATTTCGTA
806586 CTTACTTTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 1 0.02
65 62 0.98
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (65 bp):
TGGTCTTAGTCTTACCCTAGGAGCTAACTAGGGACTTTCGTCATATTTTATTTAATATTTCGTAT
Found at i:812132 original size:31 final size:32
Alignment explanation
Indices: 812086--812146 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
812076 AATTTTATGA
* *
812086 ATTTAAATTTGTT-AAAGA-AAATATATAAAT
1 ATTTAAACTTGTTAAAAAACAAATATATAAAT
812116 ATTTACAACTTGTTAAAAAACAAATATATAA
1 ATTTA-AACTTGTTAAAAAACAAATATATAA
812147 TAATAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 7 0.27
32 4 0.15
33 10 0.38
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (32 bp):
ATTTAAACTTGTTAAAAAACAAATATATAAAT
Found at i:812311 original size:20 final size:19
Alignment explanation
Indices: 812273--812320 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
812263 CTATTATCTG
812273 GTAATCTTTTACTCCCACT
1 GTAATCTTTTACTCCCACT
* *
812292 AGTAATCTTTTATTCTCACT
1 -GTAATCTTTTACTCCCACT
812312 GATAATCTT
1 G-TAATCTT
812321 ACATTCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.46
Consensus pattern (19 bp):
GTAATCTTTTACTCCCACT
Found at i:821451 original size:18 final size:19
Alignment explanation
Indices: 821428--821463 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
821418 CGGTATTAAT
*
821428 AATTAAATTA-TAATTTTA
1 AATTAAATAATTAATTTTA
821446 AATTAAATAATTAATTTT
1 AATTAAATAATTAATTTT
821464 TTAAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATTAAATAATTAATTTTA
Found at i:821737 original size:15 final size:17
Alignment explanation
Indices: 821717--821749 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
821707 TGATTTTTTT
821717 TTAAATT-CAAG-TAGA
1 TTAAATTGCAAGATAGA
821732 TTAAATTGCAAGATAGA
1 TTAAATTGCAAGATAGA
821749 T
1 T
821750 AAAAATGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (17 bp):
TTAAATTGCAAGATAGA
Found at i:821854 original size:15 final size:17
Alignment explanation
Indices: 821834--821871 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
821824 TAATTTTTAT
821834 TTAAATT-CAAG-TAGA
1 TTAAATTACAAGATAGA
*
821849 TTAAATTACAAGATATA
1 TTAAATTACAAGATAGA
821866 TTAAAT
1 TTAAAT
821872 ACATTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 4 0.20
17 9 0.45
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (17 bp):
TTAAATTACAAGATAGA
Found at i:821907 original size:117 final size:114
Alignment explanation
Indices: 821709--821925 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 114
821699 AATTTTTCTG
* * * *
821709 ATTTTTTTTTAAATTCAAGTAGATTAAATTGCAAGATAGATAAAAATGCATTGAAATTAGATAAA
1 ATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAAATACATTGAAATTAAATAAA
821774 TAAACATACTAATTTTTTTTTGTATTTTTTCTGATTTTTCTGATTTTTTGTA
66 TAAACATACT-A--TTTTTTTGTATTTTTTCTGATTTTTCTGATTTTTTGTA
* *
821826 ATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATATAT-TAAATACATTGAAATTAAATAAA
1 ATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAAATACATTGAAATTAAATAAA
*
821890 TAAGCATACTATTTTTTTGTATTTTTTCTGATTTTT
66 TAAACATACTATTTTTTTGTATTTTTTCTGATTTTT
821926 TTTGTACTTT
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
113 25 0.27
115 1 0.01
116 29 0.31
117 38 0.41
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (114 bp):
ATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAAATACATTGAAATTAAATAAA
TAAACATACTATTTTTTTGTATTTTTTCTGATTTTTCTGATTTTTTGTA
Found at i:821928 original size:116 final size:119
Alignment explanation
Indices: 821687--821937 Score: 336
Period size: 117 Copynumber: 2.2 Consensus size: 119
821677 ATTGCGTTAC
* * *
821687 ATTTTTTTTTGTAATTTTTCTGATTTTTTTTTAAATTCAAGTAGATTAAATTGCAAGATAGATAA
1 ATTTTTTTTTGTAATTTTTCTAATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAA
* *
821752 AAATGCATTGAAATTAGATAAATAAACATACTAATTTTTTTTTGTATTTTTTCTG
66 AAATACATTGAAATTAAATAAATAAACATACTAA-TTTTTTTTGTATTTTTTCTG
* * * * *
821807 A--TTTTTCTG-ATTTTTTGTAATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATATAT-T
1 ATTTTTTTTTGTAATTTTTCTAATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAA
*
821868 AAATACATTGAAATTAAATAAATAAGCATACT-A-TTTTTTTGTATTTTTTCTG
66 AAATACATTGAAATTAAATAAATAAACATACTAATTTTTTTTGTATTTTTTCTG
*
821920 A-TTTTTTTTGTACTTTTT
1 ATTTTTTTTTGTAATTTTT
821938 TTAAATAATC
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
113 20 0.17
114 7 0.06
115 7 0.06
116 29 0.25
117 45 0.39
118 7 0.06
120 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (119 bp):
ATTTTTTTTTGTAATTTTTCTAATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAA
AAATACATTGAAATTAAATAAATAAACATACTAATTTTTTTTGTATTTTTTCTG
Found at i:821938 original size:117 final size:117
Alignment explanation
Indices: 821689--821939 Score: 341
Period size: 116 Copynumber: 2.2 Consensus size: 117
821679 TGCGTTACAT
* * *
821689 TTTTTTTTGTAATTTTTCTGATTTTTTTTTAAATTCAAGTAGATTAAATTGCAAGATAGATAAAA
1 TTTTTTTTGT-ATTTTTTTGATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAA
* *
821754 ATGCATTGAAATTAGATAAATAAACATACTAATTTTTTTTTGTATTTTTTCTGA
65 ATACATTGAAATTAAATAAATAAACATACTAA-TTTTTTTTGTATTTTTTCTGA
* * * *
821808 -TTTTTCTG-ATTTTTTGTAATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATATAT-TAA
1 TTTTTTTTGTATTTTTT-TGATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAA
*
821870 ATACATTGAAATTAAATAAATAAGCATACT-A-TTTTTTTGTATTTTTTCTGA
65 ATACATTGAAATTAAATAAATAAACATACTAATTTTTTTTGTATTTTTTCTGA
821921 TTTTTTTTGTACTTTTTTT
1 TTTTTTTTGTA-TTTTTTT
821940 AAATAATCAA
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
113 20 0.17
114 7 0.06
115 3 0.03
116 41 0.35
117 39 0.33
118 7 0.06
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (117 bp):
TTTTTTTTGTATTTTTTTGATTTTTATTTAAATTCAAGTAGATTAAATTACAAGATAGATAAAAA
TACATTGAAATTAAATAAATAAACATACTAATTTTTTTTGTATTTTTTCTGA
Found at i:822687 original size:19 final size:19
Alignment explanation
Indices: 822663--822732 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
822653 CTTTATTTTT
822663 TATAATAAATTAAAAGATA
1 TATAATAAATTAAAAGATA
* * *
822682 TATAATAATAATAAATTGAAA
1 TATAATAA-ATTAAA-AGATA
822703 TATAATAAA-TAAAATGATA
1 TATAATAAATTAAAA-GATA
822722 TATAATAAATT
1 TATAATAAATT
822733 TTAAAATAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 24 0.57
20 7 0.17
21 11 0.26
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
TATAATAAATTAAAAGATA
Found at i:829325 original size:20 final size:20
Alignment explanation
Indices: 829300--829340 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
829290 ACTCGATTCT
829300 CGATTCTGACTATCGCAACG
1 CGATTCTGACTATCGCAACG
*
829320 CGATTCTGACTGTCGCAACG
1 CGATTCTGACTATCGCAACG
829340 C
1 C
829341 TGCATTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (20 bp):
CGATTCTGACTATCGCAACG
Found at i:830306 original size:14 final size:14
Alignment explanation
Indices: 830287--830313 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
830277 GAATAAGAAA
830287 TCCCCGAAGAAAAG
1 TCCCCGAAGAAAAG
830301 TCCCCGAAGAAAA
1 TCCCCGAAGAAAA
830314 TGCCACGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.19, T:0.07
Consensus pattern (14 bp):
TCCCCGAAGAAAAG
Found at i:832692 original size:140 final size:140
Alignment explanation
Indices: 832440--832707 Score: 482
Period size: 140 Copynumber: 1.9 Consensus size: 140
832430 GCAAACGTTG
* *
832440 TATTATGTTTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
* *
832505 TTGAACATGGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATTGCAACG
66 TTGAACATGGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
832570 CAAATTTGAC
131 CAAATTTGAC
*
832580 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
*
832645 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAA
66 TTGAACATGGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAA
832708 ATTTGACTAT
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 122 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATATGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
TTGAACATGGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CAAATTTGAC
Found at i:832713 original size:15 final size:15
Alignment explanation
Indices: 832693--832722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
832683 TTACACATTC
832693 ATTTGAATATCGCAA
1 ATTTGAATATCGCAA
*
832708 ATTTGACTATCGCAA
1 ATTTGAATATCGCAA
832723 CTCGAATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (15 bp):
ATTTGAATATCGCAA
Found at i:832732 original size:20 final size:20
Alignment explanation
Indices: 832707--832763 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
832697 GAATATCGCA
*
832707 AATTTGACTATCGCAACTCG
1 AATTTGACTATCGCAACGCG
832727 AATTTGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
832747 AATTTGACTATCGCAAC
1 AATTTGACTATCGCAAC
832764 AAGAAAATCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (20 bp):
AATTTGACTATCGCAACGCG
Found at i:832833 original size:20 final size:20
Alignment explanation
Indices: 832803--832860 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
832793 GCAACGCGAA
*
832803 TTGACTTTCGCGTTGCGATT
1 TTGAGTTTCGCGTTGCGATT
* *
832823 TTG-GATTTCGCATTACGATT
1 TTGAG-TTTCGCGTTGCGATT
*
832843 TTGAGTTTAGCGTTGCGA
1 TTGAGTTTCGCGTTGCGA
832861 AAGTGTACCT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.43
Consensus pattern (20 bp):
TTGAGTTTCGCGTTGCGATT
Found at i:834415 original size:21 final size:21
Alignment explanation
Indices: 834389--834440 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
834379 CGGAATGTTG
*
834389 AACGATGGGATGGATCTCTTC
1 AACGATGGGAAGGATCTCTTC
** *
834410 AACGATGACAAGGGTCTCTTC
1 AACGATGGGAAGGATCTCTTC
834431 AACGATGGGA
1 AACGATGGGA
834441 GGGGACTCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (21 bp):
AACGATGGGAAGGATCTCTTC
Found at i:834449 original size:21 final size:21
Alignment explanation
Indices: 834389--834500 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 21
834379 CGGAATGTTG
*
834389 AACGATGGGA-TGGATCTCTTC
1 AACGATGGGAGGGGA-CTCTTC
** * *
834410 AACGATGACAAGGGTCTCTTC
1 AACGATGGGAGGGGACTCTTC
*
834431 AACGATGGGAGGGGACTCTTG
1 AACGATGGGAGGGGACTCTTC
** ** * *
834452 AGGGATGATAGGGGCCTCTTA
1 AACGATGGGAGGGGACTCTTC
* * * *
834473 AACGATAGGAGAGGCCTCTTG
1 AACGATGGGAGGGGACTCTTC
834494 AACGATG
1 AACGATG
834501 ACAGGTGAGT
Statistics
Matches: 67, Mismatches: 23, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
21 65 0.97
22 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (21 bp):
AACGATGGGAGGGGACTCTTC
Found at i:834450 original size:42 final size:42
Alignment explanation
Indices: 834389--834503 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
834379 CGGAATGTTG
* * * *
834389 AACGATGGGA-TGGATCTCTTCAACGATGACAAGGGTCTCTTC
1 AACGATGGGAGAGGA-CTCTTGAACGATGACAAGGGCCTCTTA
* ** * *
834431 AACGATGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTA
1 AACGATGGGAGAGGACTCTTGAACGATGACAAGGGCCTCTTA
* *
834473 AACGATAGGAGAGGCCTCTTGAACGATGACA
1 AACGATGGGAGAGGACTCTTGAACGATGACA
834504 GGTGAGTCGG
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 55 0.95
43 3 0.05
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (42 bp):
AACGATGGGAGAGGACTCTTGAACGATGACAAGGGCCTCTTA
Found at i:835044 original size:20 final size:20
Alignment explanation
Indices: 835014--835081 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
835004 AAAACTTAAA
*
835014 ATCGTAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
835034 ATTGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
835054 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
835074 ATCGCAAC
1 ATCGCAAC
835082 AAGATAATTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:835155 original size:20 final size:20
Alignment explanation
Indices: 835126--835290 Score: 137
Period size: 20 Copynumber: 8.6 Consensus size: 20
835116 CGAAACTAAA
835126 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
835146 TTCGCATTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
835166 TTCGCATTGCGATTTTCA--
1 TTCGCGTTGCGATTTTCATT
*
835184 ----CGTTGCGATTTTTA-T
1 TTCGCGTTGCGATTTTCATT
* ** **
835199 TTCGCATTGCGATAGTCAAA
1 TTCGCGTTGCGATTTTCATT
**
835219 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCATT
* **
835239 TCCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCATT
* *
835259 TTCGCGTTGCGATTTTAAGT
1 TTCGCGTTGCGATTTTCATT
*
835279 TTCGTGTTGCGA
1 TTCGCGTTGCGA
835291 CTATTCTTCT
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.10
19 10 0.08
20 99 0.82
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:835190 original size:34 final size:33
Alignment explanation
Indices: 835143--835211 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 33
835133 TGCGATTTTC
*
835143 ATTTTCGCATTGCGATTTTCATTTTCGCATTGCG
1 ATTTTCACATTGCGATTTTCA-TTTCGCATTGCG
* *
835177 ATTTTCACGTTGCGATTTTTATTTCGCATTGCG
1 ATTTTCACATTGCGATTTTCATTTCGCATTGCG
835210 AT
1 AT
835212 AGTCAAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (33 bp):
ATTTTCACATTGCGATTTTCATTTCGCATTGCG
Found at i:835223 original size:53 final size:54
Alignment explanation
Indices: 835130--835231 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 54
835120 ACTAAATTCG
** **
835130 CGTTGCGATTTTCATTTTCGCATTGCGATTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATTTTCA
* *
835184 CGTTGCGATTTTTA-TTTCGCATTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGAT
835232 AGTCATTTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 29 0.69
54 13 0.31
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (54 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATAGTCAAATTCGCATTGCGATTTTCA
Found at i:837607 original size:22 final size:22
Alignment explanation
Indices: 837575--837633 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
837565 AGATGGAGAT
*
837575 GGACAGATTTCGCCGGAGATAG
1 GGACGGATTTCGCCGGAGATAG
* *
837597 GGACGGGTTTCGTCGGAGATAG
1 GGACGGATTTCGCCGGAGATAG
*
837619 GGACGGATGTCGCCG
1 GGACGGATTTCGCCG
837634 TAGAGAGAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.20, C:0.19, G:0.42, T:0.19
Consensus pattern (22 bp):
GGACGGATTTCGCCGGAGATAG
Found at i:837803 original size:20 final size:20
Alignment explanation
Indices: 837774--837845 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
837764 ATTTTGTATT
* *
837774 ATCGCTTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAAA
* *
837794 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CAAA
* *
837814 TTCGCATTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAAA
*
837834 ATCACGTTGCGA
1 ATCGCGTTGCGA
837846 ATCTGAAAAC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAAA
Found at i:837883 original size:20 final size:19
Alignment explanation
Indices: 837860--837905 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
837850 GAAAACTGAT
* *
837860 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
837880 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
837899 TTGCGAT
1 TTGCGAT
837906 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:837895 original size:19 final size:19
Alignment explanation
Indices: 837871--837907 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
837861 TGCGATACTG
*
837871 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
837890 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
837908 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:843017 original size:19 final size:19
Alignment explanation
Indices: 842993--843031 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
842983 CGATGAAAAG
*
842993 TCTGATTCAAAGAATTGGA
1 TCTGATACAAAGAATTGGA
843012 TCTGATACAAAGAATTGGA
1 TCTGATACAAAGAATTGGA
843031 T
1 T
843032 GTAACATTCA
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:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
TCTGATACAAAGAATTGGA
Found at i:847873 original size:15 final size:14
Alignment explanation
Indices: 847845--847915 Score: 51
Period size: 15 Copynumber: 5.2 Consensus size: 14
847835 AAGTTAATTG
847845 TTTAACTTTATTTA
1 TTTAACTTTATTTA
*
847859 TTTAACCTTTTTTTA
1 TTTAA-CTTTATTTA
* **
847874 TTTCA-TAAATTTA
1 TTTAACTTTATTTA
847887 TTT-A-TTTATTTA
1 TTTAACTTTATTTA
*
847899 TTTATAATTT-TTTA
1 TTTA-ACTTTATTTA
847913 TTT
1 TTT
847916 TTAAATATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
12 10 0.22
13 8 0.17
14 13 0.28
15 15 0.33
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTAACTTTATTTA
Found at i:861631 original size:25 final size:26
Alignment explanation
Indices: 861598--861646 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
861588 TTTTTATATT
861598 ATATATTTTATTAT-AA-TTTAATTCC
1 ATATATTTT-TTATAAATTTTAATTCC
*
861623 ATATTTTTTTTATAAATTTTAATT
1 ATATATTTTTTATAAATTTTAATT
861647 TTACACCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 10 0.48
26 7 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (26 bp):
ATATATTTTTTATAAATTTTAATTCC
Found at i:861643 original size:26 final size:25
Alignment explanation
Indices: 861598--861646 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
861588 TTTTTATATT
861598 ATATATTTTATTATAATTTAATTCC
1 ATATATTTTATTATAATTTAATTCC
*
861623 ATAT-TTTTTTTATAAATTTTAATT
1 ATATATTTTATTAT-AA-TTTAATT
861647 TTACACCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 6 0.29
26 7 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
ATATATTTTATTATAATTTAATTCC
Found at i:869700 original size:311 final size:311
Alignment explanation
Indices: 869137--869762 Score: 1056
Period size: 311 Copynumber: 2.0 Consensus size: 311
869127 CCTTTCTCGC
* *
869137 TCATATGGCCAAGCCTTTGGTGCCATAGGTTTGATCTTCCATCAGCATCTACTGCAGTAATGATA
1 TCATATGGCCAAGCCTTTGGTGCCATAGGCTTGATCTTCCATCAGCATCTACTGCAGCAATGATA
*
869202 TTCTCTAAGTTTGAGGTTACATAGAGAGTACCAGTCTTCTTACCACGAGCAATGACGAGTGCTCA
66 TTCTCTAAGTTTGAGGTTACATAGAGAGTACCAGTCTTCTTACCACGAGCAATAACGAGTGCTCA
* ** *
869267 TTTGGTAATCTTCTATTCACAGTCTGAAAAGGTTGTACTATATCATTCTCCATCAAGTTGTCCAA
131 TTTGGTAATCTTCCATTCACAACCTGAAAAGGTTGTACTATATCATTCTCCATCAAGCTGTCCAA
* *
869332 CAGAAATAAGATTTCTTTTGAGGTCAATAATATGTCTCACTCCTTTCAGCGTCCAGTTGGTAC-G
196 CAGAAATAAGATTTCTTTTGAGGCCAAGAATATGTCTCACTCCTTTCAGCGTCCAGTTGGT-CTG
* * *
869396 ATTTGGCAGCTTTAATCGGATGTCTCCTTTTCTGACGATCTTCAAGGTTGCA
260 ATTTGACAGCTTTAATCGGATATCTCATTTTCTGACGATCTTCAAGGTTGCA
*
869448 TCATATGGCCAAGCCTTTGGTGTCATAGGCTTGATCTTCCATCAGCATCTACTGCAGCAATGATA
1 TCATATGGCCAAGCCTTTGGTGCCATAGGCTTGATCTTCCATCAGCATCTACTGCAGCAATGATA
* *
869513 TTCTCTAAGTTTGAGGTTACATAGAGAGTATCAGTCTTCTTACCACGAGCAATAACGAGTGCTCC
66 TTCTCTAAGTTTGAGGTTACATAGAGAGTACCAGTCTTCTTACCACGAGCAATAACGAGTGCTCA
*
869578 TTTGGTAATCTTCCATTCACAACCTGAAAAGGTTGTACTATATCCTTCTCCATCAAGCTGTCCAA
131 TTTGGTAATCTTCCATTCACAACCTGAAAAGGTTGTACTATATCATTCTCCATCAAGCTGTCCAA
* * *
869643 CAGAAATCAGATTTCTTTTGAGGCCAGGAATATGTCTCACTCCTTTCAGCGTCCAGTTGGTCTGG
196 CAGAAATAAGATTTCTTTTGAGGCCAAGAATATGTCTCACTCCTTTCAGCGTCCAGTTGGTCTGA
*
869708 TTTGACAGCTTTAATCGGATATCTCATTTTCTGACGATCTTCAAGGTTTCA
261 TTTGACAGCTTTAATCGGATATCTCATTTTCTGACGATCTTCAAGGTTGCA
869759 TCAT
1 TCAT
869763 CAGCTAGATG
Statistics
Matches: 294, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
310 1 0.00
311 293 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (311 bp):
TCATATGGCCAAGCCTTTGGTGCCATAGGCTTGATCTTCCATCAGCATCTACTGCAGCAATGATA
TTCTCTAAGTTTGAGGTTACATAGAGAGTACCAGTCTTCTTACCACGAGCAATAACGAGTGCTCA
TTTGGTAATCTTCCATTCACAACCTGAAAAGGTTGTACTATATCATTCTCCATCAAGCTGTCCAA
CAGAAATAAGATTTCTTTTGAGGCCAAGAATATGTCTCACTCCTTTCAGCGTCCAGTTGGTCTGA
TTTGACAGCTTTAATCGGATATCTCATTTTCTGACGATCTTCAAGGTTGCA
Found at i:870341 original size:17 final size:17
Alignment explanation
Indices: 870319--870361 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
870309 GGGTTGTGAT
870319 TGTGTTGAGTTCATTTA
1 TGTGTTGAGTTCATTTA
870336 TGTGTTGAGTTCATTTA
1 TGTGTTGAGTTCATTTA
*
870353 GGTGTTGAG
1 TGTGTTGAG
870362 CCACTGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.05, G:0.30, T:0.49
Consensus pattern (17 bp):
TGTGTTGAGTTCATTTA
Found at i:872169 original size:18 final size:18
Alignment explanation
Indices: 872142--872178 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
872132 GCATGCAGAA
*
872142 ACAAGGGATTGGGAAACC
1 ACAAGAGATTGGGAAACC
*
872160 ACAAGAGATTGTGAAACC
1 ACAAGAGATTGGGAAACC
872178 A
1 A
872179 TACTTATGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.27, T:0.14
Consensus pattern (18 bp):
ACAAGAGATTGGGAAACC
Found at i:875321 original size:25 final size:25
Alignment explanation
Indices: 875274--875333 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
875264 AGTTCAATGG
*
875274 TTTATTTAATTTTTAAAAAATAAAA
1 TTTATTTAAATTTTAAAAAATAAAA
*
875299 TTTATTATAAATTTT-AAATATAAAA
1 TTTATT-TAAATTTTAAAAAATAAAA
*
875324 -TTATTCAAAT
1 TTTATTTAAAT
875334 GCTCAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 5 0.16
25 15 0.48
26 7 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATTTAAATTTTAAAAAATAAAA
Found at i:875904 original size:2 final size:2
Alignment explanation
Indices: 875897--875929 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
875887 TATAACCTAT
875897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
875930 TAAAATTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:875996 original size:9 final size:9
Alignment explanation
Indices: 875984--876012 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
875974 TTTTTAGTAA
875984 TTTTATTTT
1 TTTTATTTT
875993 TTTTA-TTT
1 TTTTATTTT
876001 TTTTATTTT
1 TTTTATTTT
876010 TTT
1 TTT
876013 GAATATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTATTTT
Found at i:884099 original size:13 final size:12
Alignment explanation
Indices: 884031--884102 Score: 54
Period size: 13 Copynumber: 5.7 Consensus size: 12
884021 TTGACATTGC
884031 TTTTGAAAAGTGA
1 TTTT-AAAAGTGA
*
884044 TTTTTCAAAGTGA
1 -TTTTAAAAGTGA
* * * *
884057 TGTTGAAACTAA
1 TTTTAAAAGTGA
*
884069 TTTTAAAAGTGG
1 TTTTAAAAGTGA
884081 TGTTTAAAAGTGCA
1 T-TTTAAAAGTG-A
884095 TTTTAAAA
1 TTTTAAAA
884103 TTTAATTGTT
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
12 16 0.36
13 24 0.53
14 5 0.11
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (12 bp):
TTTTAAAAGTGA
Found at i:886780 original size:31 final size:31
Alignment explanation
Indices: 886745--886817 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
886735 TACTCTGTCT
886745 TAATTATTTTTTAACCAAACAGTATATTTCG
1 TAATTATTTTTTAACCAAACAGTATATTTCG
*
886776 TAATTATTTTTTAACCAGACAGTATATTTCG
1 TAATTATTTTTTAACCAAACAGTATATTTCG
886807 TAATTATTTTT
1 TAATTATTTTT
886818 ATTATTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (31 bp):
TAATTATTTTTTAACCAAACAGTATATTTCG
Found at i:888169 original size:21 final size:22
Alignment explanation
Indices: 888143--888189 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
888133 AATACCTTAG
888143 CTCATTTAGCTTC-AAAACCAT
1 CTCATTTAGCTTCAAAAACCAT
888164 CTCATTTAGCTTCAAAAACCAT
1 CTCATTTAGCTTCAAAAACCAT
888186 CTCA
1 CTCA
888190 AAGCATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (22 bp):
CTCATTTAGCTTCAAAAACCAT
Found at i:891917 original size:76 final size:75
Alignment explanation
Indices: 891744--891933 Score: 267
Period size: 75 Copynumber: 2.5 Consensus size: 75
891734 GTTGTACAAT
* * * *
891744 GGGGGAATCGGTACCCCCT-TGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTACGAGCATACTGGAAATCTCGGAGCA
**
891807 AAACTGTTTA
66 AAACCATTTA
* *
891817 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTACGAGCATTCTGGAAATCTCGGGGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTACGAGCATACTGGAAATCTCGGAG-C
891882 AAAACCATTTA
65 AAAACCATTTA
891893 GGGGGAATCGGTTCCTCCTATGGGGGGGGAATCGGTTCCCT
1 GGGGGAATCGGTTCCTCCTAT--GGGGGGAATCGGTTCCCT
891934 CTGAGCAATC
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
73 17 0.16
74 7 0.07
75 31 0.30
76 31 0.30
78 18 0.17
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTACGAGCATACTGGAAATCTCGGAGCA
AAACCATTTA
Found at i:892562 original size:17 final size:17
Alignment explanation
Indices: 892540--892583 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
892530 TTCATAAATC
*
892540 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
892557 CAAAATCAAACAATCCA
1 CAAAATCAAACAATCCA
892574 -AAATATCAAA
1 CAAA-ATCAAA
892584 AATGTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 3 0.12
17 22 0.88
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:900403 original size:75 final size:75
Alignment explanation
Indices: 900296--900490 Score: 295
Period size: 75 Copynumber: 2.6 Consensus size: 75
900286 GTTGTACAAG
* * * * *
900296 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-C
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGG-GCC
**
900359 AAAACTGTTTA
65 AAAACCATTTA
*
900370 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCGGGCCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGGCCA
900435 AAACCATTTA
66 AAACCATTTA
900445 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA
900491 ATCTGTAATT
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
74 18 0.16
75 93 0.84
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.24
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGGCCA
AAACCATTTA
Found at i:905337 original size:13 final size:13
Alignment explanation
Indices: 905319--905343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
905309 AATAGTTTAA
905319 ATAATATTATTTT
1 ATAATATTATTTT
905332 ATAATATTATTT
1 ATAATATTATTT
905344 ATGATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATAATATTATTTT
Found at i:905932 original size:3 final size:3
Alignment explanation
Indices: 905924--906000 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
905914 ATGAGTCCTC
905924 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
905972 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
906001 GTTTAAGTAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Done.