Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008051.1 Hibiscus syriacus cultivar Beakdansim tig00110546_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: 579609
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:307736 original size:29 final size:31
Alignment explanation
Indices: 307704--307761 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
307694 TATCTTAGTT
*
307704 ATTAAA-CTTTTAAA-AATTATAAAATAACC
1 ATTAAATCTTTTAAATAATTACAAAATAACC
* *
307733 ATTAAATTTTTTAAATTATTACAAAATAA
1 ATTAAATCTTTTAAATAATTACAAAATAA
307762 TTATTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 7 0.29
31 11 0.46
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (31 bp):
ATTAAATCTTTTAAATAATTACAAAATAACC
Found at i:307812 original size:31 final size:31
Alignment explanation
Indices: 307774--307865 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 31
307764 ATTATAATAT
* *
307774 CATTTTATAACAGTTTGATAAAATTTAATGAC
1 CATTTTATAATAATTTGAT-AAATTTAATGAC
* *
307806 CA-TTTATTAAATATTTTGATAAATTTAATGAT
1 CATTTTA-T-AATAATTTGATAAATTTAATGAC
*
307838 TATTTTATAATAATTTGATAAATTTAAT
1 CATTTTATAATAATTTGATAAATTTAAT
307866 TATTAAGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
31 23 0.44
32 16 0.31
33 13 0.25
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (31 bp):
CATTTTATAATAATTTGATAAATTTAATGAC
Found at i:317001 original size:17 final size:17
Alignment explanation
Indices: 316979--317021 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
316969 CCAATAATTA
*
316979 TATTCCTGTTAATCTTT
1 TATTCCTGATAATCTTT
316996 TATTCCCACTGATAATCTTT
1 TATT--C-CTGATAATCTTT
317016 TATTCC
1 TATTCC
317022 CACTGGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 5 0.23
18 1 0.05
19 1 0.05
20 15 0.68
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (17 bp):
TATTCCTGATAATCTTT
Found at i:317034 original size:20 final size:20
Alignment explanation
Indices: 316988--317026 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
316978 ATATTCCTGT
316988 TAATCTTTTATTCCCACTGA
1 TAATCTTTTATTCCCACTGA
317008 TAATCTTTTATTCCCACTG
1 TAATCTTTTATTCCCACTG
317027 GAAATCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.05, T:0.46
Consensus pattern (20 bp):
TAATCTTTTATTCCCACTGA
Found at i:319046 original size:30 final size:30
Alignment explanation
Indices: 319003--319069 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
318993 GTAGCTCCAT
*
319003 AGGTCACCGTGTGCTCCTGGAGACCTATGG
1 AGGTCACCATGTGCTCCTGGAGACCTATGG
*
319033 AGGTCGCCATGTGCTCCTGGAGACCTAT-G
1 AGGTCACCATGTGCTCCTGGAGACCTATGG
319062 ATGGTCAC
1 A-GGTCAC
319070 TGTAGCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (30 bp):
AGGTCACCATGTGCTCCTGGAGACCTATGG
Found at i:319799 original size:27 final size:29
Alignment explanation
Indices: 319741--319803 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
319731 TAAAAAATAC
* *
319741 AAAGATTTTATTAAAATTTTATGATTTGTA
1 AAAGGTTTTATTAAAATTATAT-ATTTGTA
*
319771 AAAGGTTTT-TTAAAATTATAT-TTTTTA
1 AAAGGTTTTATTAAAATTATATATTTGTA
319798 AAAGGT
1 AAAGGT
319804 AATTTTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
29 11 0.37
30 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (29 bp):
AAAGGTTTTATTAAAATTATATATTTGTA
Found at i:322769 original size:2 final size:2
Alignment explanation
Indices: 322762--322789 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
322752 ATTTAATAAC
322762 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
322790 GTGGAAAGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:323249 original size:153 final size:153
Alignment explanation
Indices: 322971--323269 Score: 427
Period size: 153 Copynumber: 2.0 Consensus size: 153
322961 GCAGAGGCGT
* ** *
322971 CGCCGCCTTCAGCTCGGAAAGTGGAGCAACCAGAAAAAGGTAAACAAGACATCAACGGAGTAATT
1 CGCCGCCTCCAGCTCGGAAAGTGGAGCAACCAGAAAAAAATAAACAACACATCAACGGAGTAATT
** * * *
323036 CTTTCAAAACATGATCATCAACGTAAACAGCAACGTCCGATGGAGGACCCTTCTTCAAAAGATCG
66 CCGTCAAAACATGATCATCAACATAAACAGCAACGTCCGATGGAGGACCCTCCTTCAAAAGACCG
* *
323101 AAAGTACCAGAACCAGAACCAAC
131 AAAGAACAAGAACCAGAACCAAC
* * * *
323124 CGCCGCCTCCATCTCGGAACGTGGAGCAACCAGAAAAAAATAAACAACTCATCAATGGAGTAATT
1 CGCCGCCTCCAGCTCGGAAAGTGGAGCAACCAGAAAAAAATAAACAACACATCAACGGAGTAATT
* * *
323189 CCGTCAAAACATGATTATCAACATAAACAGCACCGTTCGATGGAGGACCCTCCTTCAAAAGACCG
66 CCGTCAAAACATGATCATCAACATAAACAGCAACGTCCGATGGAGGACCCTCCTTCAAAAGACCG
*
323254 ACAGAACAAGAACCAG
131 AAAGAACAAGAACCAG
323270 CCGCTTCCTA
Statistics
Matches: 127, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
153 127 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (153 bp):
CGCCGCCTCCAGCTCGGAAAGTGGAGCAACCAGAAAAAAATAAACAACACATCAACGGAGTAATT
CCGTCAAAACATGATCATCAACATAAACAGCAACGTCCGATGGAGGACCCTCCTTCAAAAGACCG
AAAGAACAAGAACCAGAACCAAC
Found at i:324272 original size:18 final size:20
Alignment explanation
Indices: 324240--324276 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
324230 CCTTTTAGAG
324240 TAAACTATATATTTAGTATC
1 TAAACTATATATTTAGTATC
324260 TAAACTAT-T-TTTAGTAT
1 TAAACTATATATTTAGTAT
324277 TTTTTATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
TAAACTATATATTTAGTATC
Found at i:337435 original size:25 final size:26
Alignment explanation
Indices: 337404--337453 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
337394 CAAATAATTT
**
337404 ATATGATAA-AAATTTAATATTTATA
1 ATATGATAATAAAAATAATATTTATA
337429 ATATGATAATAAAAATAATATTTAT
1 ATATGATAATAAAAATAATATTTAT
337454 TTTATTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
ATATGATAATAAAAATAATATTTATA
Found at i:338355 original size:31 final size:30
Alignment explanation
Indices: 338320--338377 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
338310 TTGAGTGATG
* *
338320 ATAAAGATAAAATATATATTTTTACATTAAA
1 ATAAAAATAAAATATAT-TTTGTACATTAAA
338351 ATAAAAATAAAATATATTTTGTACATT
1 ATAAAAATAAAATATATTTTGTACATT
338378 TGTGGTCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (30 bp):
ATAAAAATAAAATATATTTTGTACATTAAA
Found at i:338902 original size:19 final size:20
Alignment explanation
Indices: 338867--338905 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
338857 ATTTTAATAT
*
338867 TTTTAAATAATAATTTAAAA
1 TTTTAAATAACAATTTAAAA
338887 TTTTAAA-AACAATTTAAAA
1 TTTTAAATAACAATTTAAAA
338906 AAACTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAATAACAATTTAAAA
Found at i:348238 original size:29 final size:29
Alignment explanation
Indices: 348195--348261 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
348185 TGTTCGTTAG
*
348195 TTCATCCACTGACCTTTCACAACTCAATC
1 TTCATCCACTAACCTTTCACAACTCAATC
*
348224 TTCATCTACTAACCTTTCACAACTCAATC
1 TTCATCCACTAACCTTTCACAACTCAATC
*
348253 CTCAATCCA
1 TTC-ATCCA
348262 TTTTGTTCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.30, C:0.37, G:0.01, T:0.31
Consensus pattern (29 bp):
TTCATCCACTAACCTTTCACAACTCAATC
Found at i:360151 original size:2 final size:2
Alignment explanation
Indices: 360144--360171 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
360134 TAAATTAATA
360144 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
360172 TTTAGCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:360279 original size:45 final size:46
Alignment explanation
Indices: 360193--360283 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
360183 GAAGAAAAGA
*
360193 AAGCTTAGTACTGGACTAAATGACCATCATAGCACCTCCGATTGTC
1 AAGCTTAGTACTGGACTAAATGACCATCATAGCACCCCCGATTGTC
* *
360239 AAGCTTAGTATTGGACT-AATGACCATCATGGCACCCCCGATTGTC
1 AAGCTTAGTACTGGACTAAATGACCATCATAGCACCCCCGATTGTC
360284 CTTGTAGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 26 0.62
46 16 0.38
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (46 bp):
AAGCTTAGTACTGGACTAAATGACCATCATAGCACCCCCGATTGTC
Found at i:361855 original size:30 final size:30
Alignment explanation
Indices: 361821--361882 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
361811 GTCAAATATT
* *
361821 AATAGTTAG-TGGTTTGATTGAAAACAATTA
1 AATAGTTAGATGGTCTGATGGAAAA-AATTA
*
361851 AATAGTTAGATGGTCTGATGGACAAAATTA
1 AATAGTTAGATGGTCTGATGGAAAAAATTA
361881 AA
1 AA
361883 AGGGTAGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.57
31 12 0.43
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (30 bp):
AATAGTTAGATGGTCTGATGGAAAAAATTA
Found at i:363376 original size:22 final size:24
Alignment explanation
Indices: 363348--363402 Score: 78
Period size: 22 Copynumber: 2.3 Consensus size: 24
363338 TCATTGATTC
*
363348 AAATATATTATT-TTAAT-TTTTG
1 AAATATATTATTATTAATGTTATG
363370 AAATATATTATTAATTAATGTTATG
1 AAATATATTATT-ATTAATGTTATG
363395 AAATATAT
1 AAATATAT
363403 ATTGATTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 12 0.41
24 5 0.17
25 12 0.41
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (24 bp):
AAATATATTATTATTAATGTTATG
Found at i:363405 original size:24 final size:24
Alignment explanation
Indices: 363350--363405 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
363340 ATTGATTCAA
* *
363350 ATATATTATTTTAATTTTTGAAAT
1 ATATATTATATTAATTTATGAAAT
363374 ATATTATTA-ATTAATGTTATGAAAT
1 ATA-TATTATATTAAT-TTATGAAAT
363399 ATATATT
1 ATATATT
363406 GATTTAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (24 bp):
ATATATTATATTAATTTATGAAAT
Found at i:363554 original size:21 final size:21
Alignment explanation
Indices: 363512--363554 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
363502 TACTTTGATA
*
363512 TTATGTTTGATATTTATAAAT
1 TTATGTTTGATATATATAAAT
* *
363533 TTATGTTTGGTATATATTAAT
1 TTATGTTTGATATATATAAAT
363554 T
1 T
363555 AATTCAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (21 bp):
TTATGTTTGATATATATAAAT
Found at i:363952 original size:43 final size:43
Alignment explanation
Indices: 363891--363976 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
363881 CCCTGAAATC
363891 TGGGAATAGATAATGATTTTGTCATTTTCTAATATTAGGTGCA
1 TGGGAATAGATAATGATTTTGTCATTTTCTAATATTAGGTGCA
363934 TGGGAATAGATAATGATTTTGTCATTTTCTAATATTAGGTGCA
1 TGGGAATAGATAATGATTTTGTCATTTTCTAATATTAGGTGCA
363977 AATTGAATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (43 bp):
TGGGAATAGATAATGATTTTGTCATTTTCTAATATTAGGTGCA
Found at i:364106 original size:2 final size:2
Alignment explanation
Indices: 364099--364154 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
364089 TTTTAATTAG
364099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
364141 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
364155 GTTTGATTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:365015 original size:23 final size:23
Alignment explanation
Indices: 364966--365017 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
364956 AGAAAACAAG
* *
364966 TAAAAAAGAATAAAATTTTAAAC
1 TAAAAAAGAAGAAAATTTAAAAC
364989 -AAAAATAGAAGAAAA-TTAAAAC
1 TAAAAA-AGAAGAAAATTTAAAAC
365011 TAAAAAA
1 TAAAAAA
365018 AACACTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (23 bp):
TAAAAAAGAAGAAAATTTAAAAC
Found at i:365129 original size:51 final size:49
Alignment explanation
Indices: 365022--365130 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 49
365012 AAAAAAAACA
365022 CTGAT-ATATAGCGCAATGGACAATTATGGGGAAAATTCCACTATGTTT
1 CTGATGATATAGCGCAATGGACAATTATGGGGAAAATTCCACTATGTTT
**
365070 -AAACTGATATAGCGCAATGGACAAATTTATGGGGAAAATTCCACTATGTTT
1 CTGA-TGATATAGCGCAATGGAC-AA-TTATGGGGAAAATTCCACTATGTTT
365121 CTGATGATAT
1 CTGATGATAT
365131 TCAGGATTCC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
47 1 0.02
48 1 0.02
49 16 0.31
50 2 0.04
51 31 0.60
52 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (49 bp):
CTGATGATATAGCGCAATGGACAATTATGGGGAAAATTCCACTATGTTT
Found at i:369049 original size:83 final size:83
Alignment explanation
Indices: 368856--369389 Score: 631
Period size: 83 Copynumber: 6.4 Consensus size: 83
368846 TATGCCCCTA
* * * * * * * * *
368856 AGCTGAATGAAATCAAACTCGAAGATCTTTGATGACAAATAGCTCTTCTCGCCTTGAGCTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCT
** *
368921 ATAAATTTAATGTGCCTTTG
66 GCAAA--TGATGTGCCTTTG
* * *
368941 AGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGCTTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCT
* *
369006 GCAATTGATATGCCTTTG
66 GCAAATGATGTGCCTTTG
* * * * * *
369024 AGCTGAGTGTAGTCAAACTCGAAGGTCTTTTGTCGGCAGATAACCCTTCTTGGCTTGAGCTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGC
369089 TGCAAATGATGTGCCTTTG
65 TGCAAATGATGTGCCTTTG
* * * * *
369108 AGCTGAATGAAATCGAACTCGAAGGTGTTTTTTGACAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCT
**
369173 ATAAATGATGTGCCTTTG
66 GCAAATGATGTGCCTTTG
* *
369191 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGAT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCT
* * * *
369256 GTAAAAGATGTGCCCTCG
66 GCAAATGATGTGCCTTTG
* * * *
369274 AAGCAGAGTGTAATCGAACTCGAAGGTCTTTGGTTGATAGATAGCCCTTCTTAAG--TTAAGCTA
1 -AGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTC-T-AGCCTTGAGCTA
369337 TGCTGCAAATGATGTGCCTTTG
62 TGCTGCAAATGATGTGCCTTTG
369359 AGCTGAGTGTAATCGAACTCGAAGGTCTTTG
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTG
369390 GCAGATACTC
Statistics
Matches: 383, Mismatches: 61, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
83 158 0.41
84 128 0.33
85 94 0.25
86 1 0.00
87 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (83 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGCTATGCT
GCAAATGATGTGCCTTTG
Found at i:369124 original size:167 final size:166
Alignment explanation
Indices: 368930--369388 Score: 616
Period size: 167 Copynumber: 2.7 Consensus size: 166
368920 TATAAATTTA
*
368930 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGCTT
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGC-T
* * * * *
368995 TGAGTTATGCTGCAATTGATATGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTTGTCGG
65 TGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTCGA
* * * *
369060 CAGATAACCCTTCTTGGCTTGAGCTATGCTGCAAATG
130 CAGATAACCCTTCTAGCCTTGAGCTATGATGCAAAAG
* * * *
369097 ATGTGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTGTTTTTTGACAGATAACCCTTCTAGCCT
1 ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAG-CT
** *
369162 TGAGTTATGCTATAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGA
65 TGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTCGA
* *
369226 CAGATAACCCTTCTAGCCTTGAGTTATGATGTAAAAG
130 CAGATAACCCTTCTAGCCTTGAGCTATGATGCAAAAG
* * * * *
369263 ATGTGCCCTCGAAGCAGAGTGTAATCGAACTCGAAGGTCTTTGGTTGATAGATAGCCCTTCTTAA
1 ATGTGCCTTTG-AGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTC-T-A
* *
369328 G-TTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
62 GCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
369389 GGCAGATACT
Statistics
Matches: 254, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
166 46 0.18
167 134 0.53
168 69 0.27
169 3 0.01
170 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (166 bp):
ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCTT
GAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTCGAC
AGATAACCCTTCTAGCCTTGAGCTATGATGCAAAAG
Found at i:369527 original size:43 final size:42
Alignment explanation
Indices: 369480--369630 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 42
369470 ATTCCCTTCG
*
369480 TCGTGAAGTTGAAACT-GTGGTTATGTGGACACGATATCCTCCA
1 TCGTGAAGTTGAAA-TAGTGGATATGTGG-CACGATATCCTCCA
* * ** *
369523 TCGTGGAGTTGAAATCGTGGATCCGTTGGTACGATATCCTCCA
1 TCGTGAAGTTGAAATAGTGGATATG-TGGCACGATATCCTCCA
* * *
369566 TCGTGGAGTTGAAATAGTGGATATATGGGCACGATATCCTCCG
1 TCGTGAAGTTGAAATAGTGGATATGT-GGCACGATATCCTCCA
*
369609 TCGTGAAGTTGAAATTGTGGAT
1 TCGTGAAGTTGAAATAGTGGAT
369631 GACCCCTTCG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.02
43 87 0.95
44 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
TCGTGAAGTTGAAATAGTGGATATGTGGCACGATATCCTCCA
Found at i:369882 original size:64 final size:64
Alignment explanation
Indices: 369800--369950 Score: 182
Period size: 64 Copynumber: 2.4 Consensus size: 64
369790 ATTGTGAGTT
* *
369800 CAATATCCTTCGCTGTGAAGTTGAAATTGAATCTGAATGAAACTGGAAAA-TTGTTTGTTGAGAA
1 CAATATCCTTCGCTGTGAAGTTGAAATTGAATCTAAATGAAA-TGGAAAAGTTATTTGTTGAGAA
* * * * *
369864 CAATATCCTTTGTTGTGAAGTTGAAATTGACTCTAAATGAAATTGAAAAGTTATTTGTTGACAGA
1 CAATATCCTTCGCTGTGAAGTTGAAATTGAATCTAAATGAAATGGAAAAGTTATTTGTTGAGA-A
**
369929 C--GCTCCTTCGCTGTGAAGTTGA
1 CAATATCCTTCGCTGTGAAGTTGA
369951 GCATTCACCA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
63 23 0.31
64 49 0.66
65 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (64 bp):
CAATATCCTTCGCTGTGAAGTTGAAATTGAATCTAAATGAAATGGAAAAGTTATTTGTTGAGAA
Found at i:372076 original size:30 final size:30
Alignment explanation
Indices: 372011--372073 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
372001 AAGGATTAAG
* * * *
372011 CAAACATGAAAGATCAAAACGCCCTTTAAG
1 CAAACATGAAAGATCAAAACGACATTCAAA
372041 CAAACATGAAAGATCAAAAC-ACATTCAAA
1 CAAACATGAAAGATCAAAACGACATTCAAA
372070 CAAA
1 CAAA
372074 ACAATGCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.54, C:0.22, G:0.10, T:0.14
Consensus pattern (30 bp):
CAAACATGAAAGATCAAAACGACATTCAAA
Found at i:378580 original size:53 final size:54
Alignment explanation
Indices: 378499--378605 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 54
378489 AGCATCGACA
**
378499 GATAGCCACCAACTTGTTGCCCTTTCTCTTTCCAGCTGCTGAGGTTGGTATTTG
1 GATAGCCACCAACTTGTTGCCCTTTCTCTTTCCAGAGGCTGAGGTTGGTATTTG
378553 GATAGCCACCAA-TTGTTGCCCTTTCTCTTTCCAGAGGCTGAGGTTGGTATTTG
1 GATAGCCACCAACTTGTTGCCCTTTCTCTTTCCAGAGGCTGAGGTTGGTATTTG
378606 CGACCCAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 39 0.76
54 12 0.24
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
GATAGCCACCAACTTGTTGCCCTTTCTCTTTCCAGAGGCTGAGGTTGGTATTTG
Found at i:378977 original size:14 final size:15
Alignment explanation
Indices: 378958--378986 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
378948 AATCTAGTGG
378958 TTTTAAAAT-TTATT
1 TTTTAAAATATTATT
378972 TTTTAAAATATTATT
1 TTTTAAAATATTATT
378987 ATATTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAAAATATTATT
Found at i:380158 original size:21 final size:21
Alignment explanation
Indices: 380112--380164 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
380102 TAAGTATTTT
*
380112 ATTTAAAATTTAGAGTTTAAG
1 ATTTAAAATTTAGAATTTAAG
* *
380133 TTTTAAATTTTAGAATTT-AG
1 ATTTAAAATTTAGAATTTAAG
380153 AATTTAGAAATT
1 -ATTTA-AAATT
380165 AAAATACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (21 bp):
ATTTAAAATTTAGAATTTAAG
Found at i:382566 original size:19 final size:19
Alignment explanation
Indices: 382544--382588 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
382534 ATACATTTTC
*
382544 ATGAACAGTATTATACGGT
1 ATGAACAGTACTATACGGT
* *
382563 ATGAATAGTACTATACTGT
1 ATGAACAGTACTATACGGT
382582 ATGAACA
1 ATGAACA
382589 ATACAATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGAACAGTACTATACGGT
Found at i:383282 original size:32 final size:32
Alignment explanation
Indices: 383235--383586 Score: 489
Period size: 32 Copynumber: 11.1 Consensus size: 32
383225 GCTCGTATAA
383235 TAAT-TTGTCCATATGTCCCG-AAGAACATAGG
1 TAATATTGTCCATATGTCCCGAAAG-ACATAGG
* *
383266 TAATATTGTTCATATGTCCCGAAAGACATAGA
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
* *
383298 TAATATTGTCCATATGTCCTGAAAGACATATG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
**
383330 TAATACCGTCCATATGTCCCGAAAGACATAGG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
* **
383362 AAATGCTGTCCATATGTCCCGAAAGACATAGG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
* * * *
383394 AAATATTGTTCATATGTCCCGAAAAACATATG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
383426 TAATATTGTCCATATGTCCCGGAAA-ACATAGG
1 TAATATTGTCCATATGTCCC-GAAAGACATAGG
383458 TAATATTGTCCATATGTCCCGAAAGACATAGG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
*
383490 TAATAATGTCCATATGTCCCGAAAGACATAGG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
* *
383522 TAATACTGTCCATATATCCCGAAAGACATAGG
1 TAATATTGTCCATATGTCCCGAAAGACATAGG
*
383554 TAATCTT-TCCATATGTCCCG-AAGAACATAGG
1 TAATATTGTCCATATGTCCCGAAAG-ACATAGG
383585 TA
1 TA
383587 GTACTTCGAC
Statistics
Matches: 289, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
30 3 0.01
31 29 0.10
32 250 0.87
33 7 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (32 bp):
TAATATTGTCCATATGTCCCGAAAGACATAGG
Found at i:392563 original size:16 final size:16
Alignment explanation
Indices: 392542--392575 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
392532 ATCTGTGATC
392542 CTTGTTCAATCCTTCT
1 CTTGTTCAATCCTTCT
392558 CTTGTTCAATCCTTCT
1 CTTGTTCAATCCTTCT
392574 CT
1 CT
392576 CCAACTCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.12, C:0.32, G:0.06, T:0.50
Consensus pattern (16 bp):
CTTGTTCAATCCTTCT
Found at i:393704 original size:183 final size:183
Alignment explanation
Indices: 393380--393747 Score: 693
Period size: 183 Copynumber: 2.0 Consensus size: 183
393370 TCTATGATAG
393380 TAAACTTGATGTTGGTCTTTCTCCTCGGCACCTTAAAATCTTGGATGTCCTATACCAGATATGTA
1 TAAACTTGATGTTGGTCTTTCTCCTCGGCACCTTAAAATCTTGGATGTCCTATACCAGATATGTA
*
393445 CAGCTTTATATCCCACACCGTATACACAGTTATATAAGATTATATCACGCACCGATGTTTTATCA
66 CAGCTTTATATCCCACACCGTACACACAGTTATATAAGATTATATCACGCACCGATGTTTTATCA
393510 TGTCGGATGAAAAGTTGAACAAGTACGTTTTAAAGAAATGAAAAAGATTGACA
131 TGTCGGATGAAAAGTTGAACAAGTACGTTTTAAAGAAATGAAAAAGATTGACA
393563 TAAACTTGATGTTGGTCTTTCTCCTCGGCACCTTAAAAATCTTGGATGTCCTATACCAGATATGT
1 TAAACTTGATGTTGGTCTTTCTCCTCGGCACCTT-AAAATCTTGGATGTCCTATACCAGATATGT
* *
393628 ACAGCTTTATATCCCACACCGTACACACAGTTATGTAAGATTATATCACGCACCGAT-TTTTATT
65 ACAGCTTTATATCCCACACCGTACACACAGTTATATAAGATTATATCACGCACCGATGTTTTATC
393692 ATGTCGGATGAAAAGTTGAACAAGTACGTTTTAAAGAAATGAAAAAGATTGACA
130 ATGTCGGATGAAAAGTTGAACAAGTACGTTTTAAAGAAATGAAAAAGATTGACA
393746 TA
1 TA
393748 GCTACACATA
Statistics
Matches: 181, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
183 96 0.53
184 85 0.47
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (183 bp):
TAAACTTGATGTTGGTCTTTCTCCTCGGCACCTTAAAATCTTGGATGTCCTATACCAGATATGTA
CAGCTTTATATCCCACACCGTACACACAGTTATATAAGATTATATCACGCACCGATGTTTTATCA
TGTCGGATGAAAAGTTGAACAAGTACGTTTTAAAGAAATGAAAAAGATTGACA
Found at i:394618 original size:81 final size:81
Alignment explanation
Indices: 394502--394666 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 81
394492 TATGGCTTAG
*
394502 ATAGAAATGGTGTTTCTTTTTTAAGGTGTTTGTGTTTGTTTATTCAACATTCGCT-AATATGTTT
1 ATAGAAATGGTGTTTATTTTTTAAGGTGTTTGTGTTTGTTTATTCAACATTCG-TGAATATGTTT
394566 GTTTAATATTTGTGAAT
65 GTTTAATATTTGTGAAT
*
394583 ATAGAAATGGTGTTTATTTTTTCAGGTGTTTGTGTTTGTTTATTCAACATTCGTGAATATGTTTG
1 ATAGAAATGGTGTTTATTTTTTAAGGTGTTTGTGTTTGTTTATTCAACATTCGTGAATATGTTTG
394648 TTTAATATTTGTGAAT
66 TTTAATATTTGTGAAT
394664 ATA
1 ATA
394667 TTCGTTTAAT
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
80 1 0.01
81 80 0.99
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.52
Consensus pattern (81 bp):
ATAGAAATGGTGTTTATTTTTTAAGGTGTTTGTGTTTGTTTATTCAACATTCGTGAATATGTTTG
TTTAATATTTGTGAAT
Found at i:394661 original size:23 final size:23
Alignment explanation
Indices: 394635--394679 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
394625 TTCAACATTC
* *
394635 GTGAATATGTTTGTTTAATATTT
1 GTGAATATATTCGTTTAATATTT
394658 GTGAATATATTCGTTTAATATT
1 GTGAATATATTCGTTTAATATT
394680 CACAAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (23 bp):
GTGAATATATTCGTTTAATATTT
Found at i:395923 original size:23 final size:24
Alignment explanation
Indices: 395882--395928 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
395872 CTAACTTATT
395882 AAATATATTTTAATTTTAT-TTAA
1 AAATATATTTTAATTTTATCTTAA
395905 AAATATATTTT-ATTCTTATCTTAA
1 AAATATATTTTAATT-TTATCTTAA
395929 CTTTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.14
23 15 0.68
24 4 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATATATTTTAATTTTATCTTAA
Found at i:395934 original size:30 final size:30
Alignment explanation
Indices: 395900--395992 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
395890 TTTAATTTTA
395900 TTTAAAAATATATTTTATTCTTATCTTAAC
1 TTTAAAAATATATTTTATTCTTATCTTAAC
* * * *
395930 TTTAAAAATATATTTTGTTATTAACTTATC
1 TTTAAAAATATATTTTATTCTTATCTTAAC
* * *
395960 TTCAAACAATATATTTTATTCTTTTATTAAC
1 TTTAAA-AATATATTTTATTCTTATCTTAAC
395991 TT
1 TT
395993 AAGTTAATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 31 0.61
31 20 0.39
ACGTcount: A:0.35, C:0.10, G:0.01, T:0.54
Consensus pattern (30 bp):
TTTAAAAATATATTTTATTCTTATCTTAAC
Found at i:396055 original size:30 final size:29
Alignment explanation
Indices: 396001--396105 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 29
395991 TTAAGTTAAT
* * *
396001 AATAAAATATTTATTTTTAAGTTAATAGAAG
1 AATAAAAAATATA-TTTGAAGTTAATA-AAG
*
396032 AATAAAAAATATATTTGAAGTT-A-AAAT
1 AATAAAAAATATATTTGAAGTTAATAAAG
396059 AATAATAAAATATATTTGTTAAGTTAATAAAAG
1 AATAA-AAAATATATTTG--AAGTTAAT-AAAG
* *
396092 AATAATATATATAT
1 AATAAAAAATATAT
396106 ATATATATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 7 0.11
28 13 0.21
29 1 0.02
30 13 0.21
31 12 0.20
32 7 0.11
33 8 0.13
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (29 bp):
AATAAAAAATATATTTGAAGTTAATAAAG
Found at i:396095 original size:25 final size:25
Alignment explanation
Indices: 396032--396095 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 25
396022 TTAATAGAAG
396032 AATAAAAAATATATTTGAAGTTAAAAT
1 AATAAAAAATATATTT--AGTTAAAAT
**
396059 AATAATAAAATATATTT-GTTAAGTT
1 AATAA-AAAATATATTTAGTTAAAAT
396084 AATAAAAGAATA
1 AATAAAA-AATA
396096 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 2 0.06
25 15 0.45
27 5 0.15
28 11 0.33
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (25 bp):
AATAAAAAATATATTTAGTTAAAAT
Found at i:396141 original size:68 final size:69
Alignment explanation
Indices: 396040--396169 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 69
396030 AGAATAAAAA
* *
396040 ATATATTTGAAGTTAAAATAATAATAAAATATATTTGTTAAGTTAATAAAAGAATAATATATATA
1 ATATATATGAAGTTAAAATAATAATAAAATATATTTGTTAAGTTAATAAAA-AATAAAATATATA
396105 TATAT
65 TATAT
* * *
396110 ATATATATGAAGTTAAGAT-ATAA-AAAATATATTTTTTAAGTTAATACAAAATAAAATATA
1 ATATATATGAAGTTAAAATAATAATAAAATATATTTGTTAAGTTAATAAAAAATAAAATATA
396170 CTTTTAAAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 10 0.18
68 24 0.44
69 4 0.07
70 17 0.31
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.38
Consensus pattern (69 bp):
ATATATATGAAGTTAAAATAATAATAAAATATATTTGTTAAGTTAATAAAAAATAAAATATATAT
ATAT
Found at i:396169 original size:29 final size:29
Alignment explanation
Indices: 396133--396214 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 29
396123 TAAGATATAA
*
396133 AAAATATATTTTTTAAGTTAATACAAAAT
1 AAAATATATTTTTTAAGTTAATAAAAAAT
* *
396162 AAAATATACTTTTAAAGTTAAGATAAAAAAT
1 AAAATATATTTTTTAAGTT-A-ATAAAAAAT
*
396193 AAAATATTTTTTTTGAA-TTAAT
1 AAAATATATTTTTT-AAGTTAAT
396215 CATTAGTATC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 19 0.43
30 2 0.05
31 21 0.48
32 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (29 bp):
AAAATATATTTTTTAAGTTAATAAAAAAT
Found at i:396192 original size:31 final size:29
Alignment explanation
Indices: 396133--396199 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
396123 TAAGATATAA
* * *
396133 AAAATATATTTTTTAAGTTAATACAAAAT
1 AAAATATACTTTTAAAGTTAATAAAAAAT
396162 AAAATATACTTTTAAAGTTAAGATAAAAAAT
1 AAAATATACTTTTAAAGTT-A-ATAAAAAAT
396193 AAAATAT
1 AAAATAT
396200 TTTTTTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.52
30 1 0.03
31 15 0.45
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATATACTTTTAAAGTTAATAAAAAAT
Found at i:408158 original size:31 final size:30
Alignment explanation
Indices: 408113--408174 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
408103 AGTAATAAAT
*
408113 TGATATTAATTTTATCGATTTCTAACAAAA
1 TGATATTAACTTTATCGATTTCTAACAAAA
*
408143 TGATCATTAACTTTATCGATTTGTAACAAAA
1 TGAT-ATTAACTTTATCGATTTCTAACAAAA
408174 T
1 T
408175 ATTAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (30 bp):
TGATATTAACTTTATCGATTTCTAACAAAA
Found at i:409247 original size:19 final size:19
Alignment explanation
Indices: 409223--409276 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
409213 TATATTTTTT
409223 ATAAAATATATATTT-AAAA
1 ATAAAAT-TATATTTGAAAA
*
409242 ATAAAATTTTATTTGAAAA
1 ATAAAATTATATTTGAAAA
*
409261 ATTAATCATTATATTT
1 A-TAA-AATTATATTT
409277 TCTGATTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 6 0.21
19 12 0.41
20 3 0.10
21 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATAAAATTATATTTGAAAA
Found at i:410064 original size:14 final size:15
Alignment explanation
Indices: 410033--410069 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
410023 CTAAATTAAT
410033 TAAAA-ATTTAAAAG
1 TAAAATATTTAAAAG
*
410047 TAAATTATTTAAAA-
1 TAAAATATTTAAAAG
410061 TAAAATATT
1 TAAAATATT
410070 AATTACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAAAATATTTAAAAG
Found at i:412848 original size:16 final size:17
Alignment explanation
Indices: 412827--412859 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
412817 TGTTTGATAG
412827 TTGGAAAAC-ATTTTTT
1 TTGGAAAACAATTTTTT
412843 TTGGAAAACAATTTTTT
1 TTGGAAAACAATTTTTT
412860 GATTATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
TTGGAAAACAATTTTTT
Found at i:413098 original size:19 final size:20
Alignment explanation
Indices: 413065--413121 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
413055 ATTTAATATT
*
413065 TTAATATCATT-TTAATAAA
1 TTAATATTATTATTAATAAA
*
413084 -T-ATATTAATTATTAAAAAA
1 TTAATATT-ATTATTAATAAA
413103 TTAATATTATTA-TAATAAA
1 TTAATATTATTATTAATAAA
413122 ATTTGAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 4 0.13
18 4 0.13
19 13 0.42
20 5 0.16
21 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATATTATTATTAATAAA
Found at i:413130 original size:22 final size:19
Alignment explanation
Indices: 413085--413138 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
413075 TTTAATAAAT
413085 ATATTAATTATTAAAAAATTA
1 ATATT-ATTA-TAAAAAATTA
413106 ATATTATTATAATAAAATTTGA
1 ATATTATTATAA-AAAA-TT-A
*
413128 ATAATATTATA
1 ATATTATTATA
413139 TTTTTAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 8 0.28
21 7 0.24
22 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATTATTATAAAAAATTA
Found at i:417005 original size:3 final size:3
Alignment explanation
Indices: 416990--417019 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
416980 TTCCTCACTC
*
416990 TCA TCA GCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
417020 GTAGCAGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:417326 original size:21 final size:21
Alignment explanation
Indices: 417302--417347 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
417292 GGTGGCATAA
*
417302 GAAACAGATGTGGTGTCATCT
1 GAAACAGATGTGATGTCATCT
** *
417323 GAAATGGTTGTGATGTCATCT
1 GAAACAGATGTGATGTCATCT
417344 GAAA
1 GAAA
417348 TGGTTCTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (21 bp):
GAAACAGATGTGATGTCATCT
Found at i:417348 original size:21 final size:21
Alignment explanation
Indices: 417310--417367 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
417300 AAGAAACAGA
417310 TGTGGTGTCATCTGAAATGGT
1 TGTGGTGTCATCTGAAATGGT
*
417331 TGTGATGTCATCTGAAATGGT
1 TGTGGTGTCATCTGAAATGGT
* *
417352 TCTGGTGCCATCTGAA
1 TGTGGTGTCATCTGAA
417368 TCGGCGATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (21 bp):
TGTGGTGTCATCTGAAATGGT
Found at i:420028 original size:3 final size:3
Alignment explanation
Indices: 420020--420046 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
420010 CTAAATGGAT
420020 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
420047 TATATTAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:421727 original size:128 final size:128
Alignment explanation
Indices: 421364--421983 Score: 1152
Period size: 128 Copynumber: 4.9 Consensus size: 128
421354 TTTCGTTTCC
*
421364 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCT
1 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
*
421429 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACATATTATTTCACTATTCA
66 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
*
421492 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCA-AGAATATGTTATTATTGCCC
1 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
421556 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
66 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
421619 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
*
421684 TATTATGTCACTCATGTCCCTCGGGGACAATAGATATATCAGTACCTATTATTTCACTATTCA
66 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
421747 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
1 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
* *
421812 TATTATGTCACTCATTTCTCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
66 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
* * *
421875 CATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCT
1 CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
421940 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
421984 AATCAGGTAA
Statistics
Matches: 478, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
127 124 0.26
128 354 0.74
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (128 bp):
CATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCC
TATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCA
Found at i:422198 original size:28 final size:28
Alignment explanation
Indices: 422166--422260 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
422156 CATCGAGATG
*
422166 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATA---T---T
* *
422200 TTAAATTTCGAATAATATTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATT
* *
422228 TTAAATTTCTAATAATATAATTTGTATT
1 TTAAATTTCGAATAATATAATTTATATT
422256 TTAAA
1 TTAAA
422261 AACATTTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 31 0.56
31 1 0.02
34 23 0.42
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (28 bp):
TTAAATTTCGAATAATATAATTTATATT
Found at i:422209 original size:34 final size:34
Alignment explanation
Indices: 422166--422235 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
422156 CATCGAGATG
*
422166 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* *
422200 TTAAATTTCGAATAATATTATTTTTATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
422234 TT
1 TT
422236 CTAATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:422865 original size:21 final size:21
Alignment explanation
Indices: 422777--422868 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
422767 TATGGTATAA
*
422777 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
422798 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* * *
422819 TACCATGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
* *
422840 AACCCTACGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
422861 AACCCTGC
1 AACCCTGC
422869 AGAGATGGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 3 0.05
21 56 0.92
22 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.32, T:0.20
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:424632 original size:34 final size:31
Alignment explanation
Indices: 424589--424677 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
424579 TTAATAATTC
*
424589 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
424623 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
424654 TATAAAATATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
424678 AAATACTAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.13
32 16 0.35
33 2 0.04
34 22 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:424654 original size:31 final size:33
Alignment explanation
Indices: 424589--424668 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
424579 TTAATAATTC
* *
424589 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
424623 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
424654 TATAAAATATAATAA
1 TA-AAAAAATAATAA
424669 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:425823 original size:19 final size:20
Alignment explanation
Indices: 425799--425849 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
425789 AATGACCAAT
425799 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
425818 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
425838 AAAATCGCAACG
1 AAAATCGCAACG
425850 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:425843 original size:20 final size:20
Alignment explanation
Indices: 425799--426003 Score: 101
Period size: 20 Copynumber: 10.1 Consensus size: 20
425789 AATGACCAAT
* *
425799 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
425818 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** *** *
425838 AAAATCGCAACGTTAAAAAT
1 AAAATCGCAACGCGATTTAG
**
425858 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
425878 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
425899 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
425922 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
425942 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
425962 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
425982 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
426002 AA
1 AA
426004 GAGAATCGCA
Statistics
Matches: 143, Mismatches: 34, Indels: 17
0.74 0.18 0.09
Matches are distributed among these distances:
19 17 0.12
20 98 0.69
21 14 0.10
23 14 0.10
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:425977 original size:40 final size:41
Alignment explanation
Indices: 425903--426052 Score: 169
Period size: 43 Copynumber: 3.6 Consensus size: 41
425893 GCTTCCAAGT
* * *
425903 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAATGCGATTT--AAGAGAATCGCAATGCGATTGAGAGAA
* *
425946 TCGCAATGCGATTT-ATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAATGCGATTTAAGAGAATCGCAATGCGATTGAGAGAA
* *
425986 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGAA
1 TCGCAATGCGATTT--AAGAGAATCGCAATGCGATTGAGAGAA
* *
426029 TCGCAATGCGA-CTGAGAGAATCGC
1 TCGCAATGCGATTTAAGAGAATCGC
426053 TAAGATCATG
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
40 45 0.49
42 1 0.01
43 46 0.50
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (41 bp):
TCGCAATGCGATTTAAGAGAATCGCAATGCGATTGAGAGAA
Found at i:426028 original size:20 final size:20
Alignment explanation
Indices: 425924--426052 Score: 168
Period size: 20 Copynumber: 6.3 Consensus size: 20
425914 TTTAGAAGAA
*
425924 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAG
* *
425944 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
425964 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* *
425984 AGTCGCAACGCGATTTAGAAGAG
1 AATCGCAATGCGA-TT-G-AGAG
*
426007 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
426027 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
426047 AATCGC
1 AATCGC
426053 TAAGATCATG
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
20 78 0.80
21 3 0.03
22 2 0.02
23 15 0.15
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:426546 original size:20 final size:20
Alignment explanation
Indices: 426502--426819 Score: 183
Period size: 20 Copynumber: 15.6 Consensus size: 20
426492 AATGACCAAT
* *
426502 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
426521 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
426541 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** *** *
426561 AAAATCGCAACGTTAAAAAT
1 AAAATCGCAACGCGATTTAG
**
426581 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
426601 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
426622 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
426645 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
426665 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
426685 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
426705 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * * *
426725 AAGAGAATCGCAATGCAACTGAG
1 -A-A-AATCGCAACGCGATTTAG
* * * *
426748 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* *
426768 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
426788 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
426808 AGAATCGCAACG
1 AAAATCGCAACG
426820 TTAAAAAGAA
Statistics
Matches: 244, Mismatches: 43, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
19 17 0.07
20 184 0.75
21 15 0.06
22 1 0.00
23 27 0.11
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:426732 original size:703 final size:688
Alignment explanation
Indices: 425350--426755 Score: 2444
Period size: 703 Copynumber: 2.0 Consensus size: 688
425340 TCTCCTAATA
425350 TAAGATCATGACGTACCTAAAATCTAATGTGATTTACATAAGATTTTACAAATTGTCCACCAAGA
1 TAAGATCATGACGTACCTAAAATCTAATGTGATTTACATAAGATTTTACAAATTGTCCACCAAGA
425415 ATGACGACGGTGAGATTCAAATTTAGTCTTACAAACTCAAATTCATAAATCTCAATTGTTTGTGC
66 ATGACGACGGTGAGATTCAAATTTAGTCTTACAAACTCAAATTCATAAATCTCAATTGTTTGTGC
425480 CGACAATCGATAAATTAAATATTAAGATAATTGTTATTTAGTTTGATACATGGAGATTGAATCTC
131 CGACAATCGATAAATTAAATATTAAGATAATTGTTATTTAGTTTGATACATGGAGATTGAATCTC
425545 AACTACTATAAAACTTAAAATATTTTATTAATATTGTTATTTATTAAACAAAAATCTATTAAATT
196 AACTACTATAAAACTTAAAATATTTTATTAATATTGTTATTTATTAAACAAAAATCTATTAAATT
425610 ATACTTTTATACATAAAACGGGATTTGCTTCTCATATATCACACACCGAAATTTATATTCGAATA
261 ATACTTTTATACATAAAACGGGATTTGCTTCTCATATATCACACACCGAAATTTATATTCGAATA
425675 TGACACATTTTCAAATTATGGACACGTATGACTCTTTTTTAAGAGAAAATCGCCTCAGTGACCAA
326 TGACACATTTTCAAATTATGGACACGTATGACTCTTTTTTAAGAGAAAATCGCCTCAGTGACCAA
425740 AAATACCTTATAATATACGATTTTAACCAATTTTTTTTGGATTTGCCAAAATGACCAATAAAATC
391 AAATACCTTATAATATACGATTTTAACCAATTTTTTTTGGATTTGCCAAAATGACCAATAAAATC
425805 GCAACGCGATATCAAAATCGCAACGCGATTTAGAAAATCGCAACGTTAAAAATAAAATCGCAACG
456 GCAACGCGATATCAAAATCGCAACGCGATTTAGAAAATCGCAACGTTAAAAATAAAATCGCAACG
425870 GTCAAAAGAAAATCGCAACGCGAGCTTCCAAGTTCGCAACGCGATTTAGAAGAAAATCGCAATGC
521 GTCAAAAGAAAATCGCAACGCGAGCTTCCAAGTTCGCAACGCGATTTAGAAGAAAATCGCAATGC
425935 GATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTT
586 GATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTT
*
426000 AGAAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGC
651 --------AT--C-A--CGAC--AGAGAATCGCAATGCAACTGAGAGAATCGC
426053 TAAGATCATGACGTACCTAAAATCTAATGTGATTTACATAAGATTTTACAAATTGTCCACCAAGA
1 TAAGATCATGACGTACCTAAAATCTAATGTGATTTACATAAGATTTTACAAATTGTCCACCAAGA
426118 ATGACGACGGTGAGATTCAAATTTAGTCTTACAAACTCAAATTCATAAATCTCAATTGTTTGTGC
66 ATGACGACGGTGAGATTCAAATTTAGTCTTACAAACTCAAATTCATAAATCTCAATTGTTTGTGC
426183 CGACAATCGATAAATTAAATATTAAGATAATTGTTATTTAGTTTGATACATGGAGATTGAATCTC
131 CGACAATCGATAAATTAAATATTAAGATAATTGTTATTTAGTTTGATACATGGAGATTGAATCTC
426248 AACTACTATAAAACTTAAAATATTTTATTAATATTGTTATTTATTAAACAAAAATCTATTAAATT
196 AACTACTATAAAACTTAAAATATTTTATTAATATTGTTATTTATTAAACAAAAATCTATTAAATT
426313 ATACTTTTATACATAAAACGGGATTTGCTTCTCATATATCACACACCGAAATTTATATTCGAATA
261 ATACTTTTATACATAAAACGGGATTTGCTTCTCATATATCACACACCGAAATTTATATTCGAATA
426378 TGACACATTTTCAAATTATGGACACGTATGACTCTTTTTTAAGAGAAAATCGCCTCAGTGACCAA
326 TGACACATTTTCAAATTATGGACACGTATGACTCTTTTTTAAGAGAAAATCGCCTCAGTGACCAA
*
426443 AAATACCTTATAATATACGATTTTAACCAATTTTTTTTTGATTTGCCAAAATGACCAATAAAATC
391 AAATACCTTATAATATACGATTTTAACCAATTTTTTTTGGATTTGCCAAAATGACCAATAAAATC
426508 GCAACGCGATATCAAAATCGCAACGCGATTTAGAAAATCGCAACGCGATTTAGAAAATCGCAACG
456 GCAACGCG--AT----AT-------C-------AAAATCGCAACGCGATTTAGAAAATCGCAACG
426573 TTAAAAATAAAATCGCAACGGTCAAAAGAAAATCGCAACGCGAGCTTCCAAGTTCGCAACGCGAT
501 TTAAAAATAAAATCGCAACGGTCAAAAGAAAATCGCAACGCGAGCTTCCAAGTTCGCAACGCGAT
426638 TTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTG
566 TTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTG
426703 AGAGAGTCGCAACGCGA-TT-T-A-GA-AGAGAATCGCAATGCAACTGAGAGAATCGC
631 AGAGAGTCGCAACGCGATTTATCACGACAGAGAATCGCAATGCAACTGAGAGAATCGC
426756 AATGCGACTG
Statistics
Matches: 681, Mismatches: 2, Indels: 40
0.94 0.00 0.06
Matches are distributed among these distances:
703 491 0.72
705 2 0.00
706 2 0.00
709 3 0.00
713 1 0.00
716 1 0.00
722 2 0.00
723 179 0.26
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (688 bp):
TAAGATCATGACGTACCTAAAATCTAATGTGATTTACATAAGATTTTACAAATTGTCCACCAAGA
ATGACGACGGTGAGATTCAAATTTAGTCTTACAAACTCAAATTCATAAATCTCAATTGTTTGTGC
CGACAATCGATAAATTAAATATTAAGATAATTGTTATTTAGTTTGATACATGGAGATTGAATCTC
AACTACTATAAAACTTAAAATATTTTATTAATATTGTTATTTATTAAACAAAAATCTATTAAATT
ATACTTTTATACATAAAACGGGATTTGCTTCTCATATATCACACACCGAAATTTATATTCGAATA
TGACACATTTTCAAATTATGGACACGTATGACTCTTTTTTAAGAGAAAATCGCCTCAGTGACCAA
AAATACCTTATAATATACGATTTTAACCAATTTTTTTTGGATTTGCCAAAATGACCAATAAAATC
GCAACGCGATATCAAAATCGCAACGCGATTTAGAAAATCGCAACGTTAAAAATAAAATCGCAACG
GTCAAAAGAAAATCGCAACGCGAGCTTCCAAGTTCGCAACGCGATTTAGAAGAAAATCGCAATGC
GATTGATAGAATCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTT
ATCACGACAGAGAATCGCAATGCAACTGAGAGAATCGC
Found at i:426737 original size:83 final size:83
Alignment explanation
Indices: 426626--426817 Score: 282
Period size: 83 Copynumber: 2.3 Consensus size: 83
426616 GCTTCCAAGT
* * * * * * *
426626 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAGAATCGCAATGCAACTGAGAGAATCGCAATGCGACTGAGAGAATC
* *
426691 GCAATGCGATTGAGAGAG
66 GCAACGCGATTGAGAGAA
426709 TCGCAACGCGATTTAGAAGAGAATCGCAATGCAACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAGAATCGCAATGCAACTGAGAGAATCGCAATGCGACTGAGAGAATC
426774 GCAACGCGATTGAGAGAA
66 GCAACGCGATTGAGAGAA
426792 TCGCAACGCGA-TT-G-AGAGAATCGCAA
1 TCGCAACGCGATTTAGAAGAGAATCGCAA
426818 CGTTAAAAAG
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 12 0.12
81 1 0.01
82 2 0.02
83 85 0.85
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAGAATCGCAATGCAACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAACGCGATTGAGAGAA
Found at i:426819 original size:40 final size:40
Alignment explanation
Indices: 426626--426817 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
426616 GCTTCCAAGT
* *
426626 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGA-TT-G-AGAGAATCGCAATGCGATTGAGAGAA
* * * *
426669 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
* *
426709 TCGCAACGCGATTTAGAAGAGAATCGCAATGCAACTGAGAGAA
1 TCGCAACGCGA-TT-G-AGAGAATCGCAATGCGATTGAGAGAA
* * *
426752 TCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAA
1 TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
426792 TCGCAACGCGATTGAGAGAATCGCAA
1 TCGCAACGCGATTGAGAGAATCGCAA
426818 CGTTAAAAAG
Statistics
Matches: 127, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
40 79 0.62
41 3 0.02
42 3 0.02
43 42 0.33
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (40 bp):
TCGCAACGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
Found at i:426833 original size:20 final size:20
Alignment explanation
Indices: 426810--426849 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
426800 CGATTGAGAG
*
426810 AATCGCAACGTTAAAAAGAA
1 AATCGCAACGGTAAAAAGAA
*
426830 AATCGCAACGGTCAAAAGAA
1 AATCGCAACGGTAAAAAGAA
426850 TAGTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.12
Consensus pattern (20 bp):
AATCGCAACGGTAAAAAGAA
Found at i:426834 original size:40 final size:40
Alignment explanation
Indices: 426750--426839 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
426740 CAACTGAGAG
* *** *
426750 AATCGCAATGCGACTGAGAGAATCGCAACGCGATTGAGAG
1 AATCGCAACGCGACTGAGAGAATCGCAACGCGAAAAAGAA
* **
426790 AATCGCAACGCGATTGAGAGAATCGCAACGTTAAAAAGAA
1 AATCGCAACGCGACTGAGAGAATCGCAACGCGAAAAAGAA
426830 AATCGCAACG
1 AATCGCAACG
426840 GTCAAAAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (40 bp):
AATCGCAACGCGACTGAGAGAATCGCAACGCGAAAAAGAA
Found at i:426996 original size:6 final size:6
Alignment explanation
Indices: 426927--426995 Score: 129
Period size: 6 Copynumber: 11.5 Consensus size: 6
426917 GACACGTATT
426927 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
426975 ACCACG ACCACG ACCCCG ACC
1 ACCACG ACCACG ACCACG ACC
426996 CGAGACGAGA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:427689 original size:5 final size:5
Alignment explanation
Indices: 427681--427721 Score: 55
Period size: 5 Copynumber: 7.6 Consensus size: 5
427671 CCGTCTCGTC
427681 TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG-GG TCG
427722 TGGTAATACG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.51
6 17 0.49
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.27
Consensus pattern (5 bp):
TCGGG
Found at i:427710 original size:6 final size:6
Alignment explanation
Indices: 427684--427725 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
427674 TCTCGTCTCG
427684 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
427726 AATACGTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.00, C:0.17, G:0.55, T:0.29
Consensus pattern (6 bp):
GGTCGT
Found at i:427855 original size:20 final size:20
Alignment explanation
Indices: 427830--427960 Score: 145
Period size: 20 Copynumber: 6.4 Consensus size: 20
427820 ATTTTCAACG
427830 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATAAATCGCA
* * *
427850 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATAAATCGCA
* *
427870 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TTC-TATAAATCGCA
* * *
427893 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATAAATCGCA
*
427913 TTGCGATTATATAAATCGCA
1 TTGCGATTCTATAAATCGCA
*
427933 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATAAATCGCA
427953 TTGCGATT
1 TTGCGATT
427961 TTCTTCTAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
20 74 0.80
21 2 0.02
22 3 0.03
23 14 0.15
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTATAAATCGCA
Found at i:427891 original size:43 final size:43
Alignment explanation
Indices: 427841--427981 Score: 198
Period size: 43 Copynumber: 3.3 Consensus size: 43
427831 TGCGATTCTA
*
427841 TAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTC
1 TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTC
* * * *
427884 TAAATCGCGTTGCGACTCTCTCAATCGCATTGCGA--TT-ATA
1 TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTC
*
427924 TAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTC
1 TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTC
*
427967 TAAATCGCGTTGCGA
1 TAAATCGCATTGCGA
427982 ACTTGGAAGC
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 33 0.39
41 2 0.02
42 2 0.02
43 47 0.56
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (43 bp):
TAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTC
Found at i:427948 original size:40 final size:40
Alignment explanation
Indices: 427830--427960 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
427820 ATTTTCAACG
* *
427830 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTATATAAATCGCATTGCGATTCTCTCAATCGCA
* * * *
427870 TTGCGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGA--TT-ATATAAATCGCATTGCGATTCTCTCAATCGCA
*
427913 TTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTATATAAATCGCATTGCGATTCTCTCAATCGCA
427953 TTGCGATT
1 TTGCGATT
427961 TTCTTCTAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 41 0.53
41 2 0.03
42 2 0.03
43 33 0.42
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (40 bp):
TTGCGATTATATAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:428058 original size:20 final size:20
Alignment explanation
Indices: 427828--428085 Score: 126
Period size: 20 Copynumber: 12.6 Consensus size: 20
427818 CGATTTTCAA
* *
427828 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
427848 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
427868 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
427891 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
427911 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
427931 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
427951 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
427974 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
**
427995 CGTTGCGATTTTCCTTTGA-C-
1 CGTTGCGATTTT-C-TAAATCG
*** **
428015 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTAAATCG
428035 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
428055 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
428074 CGTTGCGATTTT
1 CGTTGCGATTTT
428086 ATTGGTCATT
Statistics
Matches: 183, Mismatches: 44, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
18 2 0.01
19 18 0.10
20 116 0.63
21 15 0.08
22 4 0.02
23 28 0.15
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:428075 original size:19 final size:20
Alignment explanation
Indices: 428035--428085 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
428025 TTCTTTTTAA
*
428035 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
428055 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
428074 CGTTGCGATTTT
1 CGTTGCGATTTT
428086 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:434347 original size:21 final size:21
Alignment explanation
Indices: 434317--434598 Score: 224
Period size: 21 Copynumber: 13.6 Consensus size: 21
434307 GATTTACATA
* *
434317 TTCGCATTGCGATAGTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
434338 TTCACGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** * *
434359 TTCGCGTTGCGATTTTCTAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
434380 TT--CGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
434399 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
434422 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
434441 TTCGCATTGCAATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
434462 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
434485 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
434504 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
434527 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** * *
434546 TTCGCGTTGCGATTTTTCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
434567 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
434586 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
434599 TTATTACAAA
Statistics
Matches: 202, Mismatches: 43, Indels: 32
0.73 0.16 0.12
Matches are distributed among these distances:
19 55 0.27
21 122 0.60
23 25 0.12
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:434469 original size:63 final size:62
Alignment explanation
Indices: 434389--434619 Score: 247
Period size: 63 Copynumber: 3.7 Consensus size: 62
434379 ATTCGTTGTG
434389 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCATTGCA
1 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGC-TTGCA
* *
434452 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGA
1 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGC-TTGC-A
* * * * * * ** * * *
434516 TTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTTTTCAAATTCG-TTGCG
1 -ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAGTTCGCTTGCA
*
434576 ATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTGCGAT
1 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
434620 TTATTCCAAA
Statistics
Matches: 139, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
59 8 0.06
61 31 0.22
63 91 0.65
64 1 0.01
65 8 0.06
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (62 bp):
ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCTTGCA
Found at i:434599 original size:82 final size:84
Alignment explanation
Indices: 434447--434619 Score: 296
Period size: 82 Copynumber: 2.1 Consensus size: 84
434437 CAAGTTCGCA
* * *
434447 TTGCAATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
*
434512 GCGATTTATTCCAAATTCG
66 GCGATTTATTACAAATTCG
434531 TTGCGATAGTCCAAGTTCGCGTTGCGATTT-TT-CAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
434594 GCGATTTATTACAAATTCG
66 GCGATTTATTACAAATTCG
434613 TTGCGAT
1 TTGCGAT
434620 TTATTCCAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
82 55 0.65
83 2 0.02
84 28 0.33
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (84 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTATTACAAATTCG
Found at i:434614 original size:21 final size:21
Alignment explanation
Indices: 434403--434634 Score: 146
Period size: 21 Copynumber: 11.1 Consensus size: 21
434393 TCGAAGTTCG
434403 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
434424 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
* * * *
434443 CGCATTGC-A-ATAGTCGAAGTT
1 CG--TTGCGATTTATTCCAAATT
*
434464 CGCGTTGCGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAATT
* * *
434487 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
434506 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* *
434529 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
434548 CGCGTTGCGATTT-TT-CAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
434569 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
*
434588 CGCGTTGCGATTTATTACAAATT
1 --CGTTGCGATTTATTCCAAATT
434611 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
434632 CGT
1 CGT
434635 GGTCGTAGTA
Statistics
Matches: 167, Mismatches: 23, Indels: 42
0.72 0.10 0.18
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 41 0.25
20 1 0.01
21 94 0.56
22 2 0.01
23 27 0.16
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:434811 original size:21 final size:21
Alignment explanation
Indices: 434761--434811 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
434751 TTTAGAATAA
*
434761 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
434782 ATCGTAACGCGAGCTTCGACT
1 ATCGCAACGCGAACTTCGACT
434803 ATCGCAACG
1 ATCGCAACG
434812 AATTTGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:434827 original size:21 final size:21
Alignment explanation
Indices: 434803--434851 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
434793 AGCTTCGACT
*
434803 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTAGAATAA
434824 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTTAGAATAA
434845 ATCGCAA
1 ATCGCAA
434852 TGCGAACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (21 bp):
ATCGCAACGAATTTAGAATAA
Found at i:434862 original size:63 final size:63
Alignment explanation
Indices: 434736--434869 Score: 173
Period size: 63 Copynumber: 2.1 Consensus size: 63
434726 TGCGATTTTA
* * * *
434736 GACTATCGCAACGAATTTAGAATAAATCGCAACACGAACTTCGACTATCGTAACGCGAGCTTC
1 GACTATCGCAACGAATTTAGAATAAATCGCAACACGAACTTAGAATATCGCAACGCGAACTTC
* * *
434799 GACTATCGCAACGAATTTGGAATAAATCGC-A-ACGAATTTAGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAATTTAGAATAAATCGCAACACGAACTTAGAAT--ATCGCAACGCGAACTTC
434862 GACTATCG
1 GACTATCG
434870 TAAATCAGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 10 0.16
62 1 0.02
63 51 0.82
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (63 bp):
GACTATCGCAACGAATTTAGAATAAATCGCAACACGAACTTAGAATATCGCAACGCGAACTTC
Found at i:434869 original size:21 final size:19
Alignment explanation
Indices: 434736--434869 Score: 61
Period size: 21 Copynumber: 6.4 Consensus size: 19
434726 TGCGATTTTA
* *
434736 GACTATCGCAACGAATTTA
1 GACTATCGCAACGAACTTC
*
434755 GAATAAATCGCAACACGAACTTC
1 GACT--ATCGC-A-ACGAACTTC
* *
434778 GACTATCGTAACGCGAGCTTC
1 GACTATCGCAA--CGAACTTC
* *
434799 GACTATCGCAACGAATTTG
1 GACTATCGCAACGAACTTC
* * *
434818 GAATAAATCGCAACGAATTTA
1 GACT--ATCGCAACGAACTTC
*
434839 GAATAAATCGCAATGCGAACTTC
1 GACT--ATCGCAA--CGAACTTC
434862 GACTATCG
1 GACTATCG
434870 TAAATCAGTT
Statistics
Matches: 90, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
19 12 0.13
20 1 0.01
21 57 0.63
22 1 0.01
23 19 0.21
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (19 bp):
GACTATCGCAACGAACTTC
Found at i:439077 original size:13 final size:14
Alignment explanation
Indices: 439048--439074 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
439038 TCTATTCTTC
439048 ACCACCAAAAAGGG
1 ACCACCAAAAAGGG
439062 ACCACCAAAAAGG
1 ACCACCAAAAAGG
439075 ACCCCTTTTT
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:0.52, C:0.30, G:0.19, T:0.00
Consensus pattern (14 bp):
ACCACCAAAAAGGG
Found at i:452018 original size:35 final size:35
Alignment explanation
Indices: 451978--452055 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
451968 CACAATCATC
451978 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
1 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
* * *
452013 AATTACATTTTAAACCTCAAATTCCTAAATACTTT
1 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
452048 AATTACAT
1 AATTACAT
452056 ACTCAACCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (35 bp):
AATTACATTTTAAACCCCAAAATCCAAAATACTTT
Found at i:452069 original size:35 final size:35
Alignment explanation
Indices: 451978--452071 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
451968 CACAATCATC
** *
451978 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
1 AATTACATACTAAACCCCAAATTCCAAAATACTTT
** * *
452013 AATTACATTTTAAACCTCAAATTCCTAAATACTTT
1 AATTACATACTAAACCCCAAATTCCAAAATACTTT
*
452048 AATTACATACTCAACCCCAAATTC
1 AATTACATACTAAACCCCAAATTC
452072 ATAATCCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (35 bp):
AATTACATACTAAACCCCAAATTCCAAAATACTTT
Found at i:452427 original size:143 final size:145
Alignment explanation
Indices: 452215--452501 Score: 409
Period size: 143 Copynumber: 2.0 Consensus size: 145
452205 AAATACTCAA
* *** * *
452215 TTCAGTTTACAAAATAGTTGACTTGAAATTTTTTCGATTTGAGTTTATAAAATGTAAATTAAGTT
1 TTCAGTTTACAAAATAGTTGACTCGAAATTTTTAAAATTTGAGTTTATAAAATGTAAATCAAGTC
* *
452280 GAATTGAA-T-TTTT-AAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTA
66 GAATTGAATTATTTTCAAGTTTCTGTTTAAA-TTAATTATAAATATTTATAATACTATAATATTA
*
452342 TTTGATTTTAATTCAG
130 TTTGATTCTAATTCAG
* * *
452358 TTCAGTTTATAAAATAGTTTACTCGAAATTTTTAAAATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTACAAAATAGTTGACTCGAAATTTTTAAAATTTGAGTTTATAAAATGTAAATCAAGTC
*
452423 GAATTGAATTGAATTTTCGAGTTTCTGTTTAAATTAATTATAAATATTTATAATACTATAATATT
66 GAATTGAATT--ATTTTCAAGTTTCTGTTTAAATTAATTATAAATATTTATAATACTATAATATT
452488 ATTTGATTCTAATT
129 ATTTGATTCTAATT
452502 TAAATAATTT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
143 64 0.51
144 1 0.01
147 47 0.37
148 14 0.11
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.48
Consensus pattern (145 bp):
TTCAGTTTACAAAATAGTTGACTCGAAATTTTTAAAATTTGAGTTTATAAAATGTAAATCAAGTC
GAATTGAATTATTTTCAAGTTTCTGTTTAAATTAATTATAAATATTTATAATACTATAATATTAT
TTGATTCTAATTCAG
Found at i:453064 original size:35 final size:36
Alignment explanation
Indices: 452997--453077 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 36
452987 GGGGTTGGGC
* *
452997 ATGTAATTGAAGTATTTTTGGAATTTAAGGTTTAGA
1 ATGTAATTGAAGTATTTTTGGAATATAAGGTTTAAA
* **
453033 ATGTTATTGAAGTA-TTTTGGAATATGGGGTTTAAA
1 ATGTAATTGAAGTATTTTTGGAATATAAGGTTTAAA
*
453068 ATGCAATTGA
1 ATGTAATTGA
453078 TGATTGTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 25 0.66
36 13 0.34
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.42
Consensus pattern (36 bp):
ATGTAATTGAAGTATTTTTGGAATATAAGGTTTAAA
Found at i:454313 original size:18 final size:20
Alignment explanation
Indices: 454290--454332 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
454280 TATAGGTATC
454290 TATATAT-TATTA-ATATT-A
1 TATATATCT-TTATATATTCA
454308 TATATATCTTTATATATTCA
1 TATATATCTTTATATATTCA
454328 TATAT
1 TATAT
454333 CTATATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATATCTTTATATATTCA
Found at i:454333 original size:18 final size:19
Alignment explanation
Indices: 454309--454344 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
454299 TTAATATTAT
*
454309 ATATATCTTTA-TATATTC
1 ATATATCTATATTATATTC
454327 ATATATCTATATTATATT
1 ATATATCTATATTATATT
454345 TGTGTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATCTATATTATATTC
Found at i:456970 original size:12 final size:12
Alignment explanation
Indices: 456953--456977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
456943 CTCAAACAGA
456953 GAGAATGAACGT
1 GAGAATGAACGT
456965 GAGAATGAACGT
1 GAGAATGAACGT
456977 G
1 G
456978 TTACATGGCA
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:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:457039 original size:29 final size:29
Alignment explanation
Indices: 457006--457061 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
456996 TCCCAACACA
*
457006 TAGGTCGTCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
457035 TAGGTCGCCATGCCCTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
457062 ACCCTCGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.11, C:0.38, G:0.30, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:457102 original size:33 final size:33
Alignment explanation
Indices: 457065--457132 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
457055 GCGACCTACC
*
457065 CTCGCTCAGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTC-GCTTACCCTCGGATGCCCTCGCATAG
*
457098 CTCGCTCGTTTACCCTCGGATGCCCTCGCATAG
1 CTCGCTCGCTTACCCTCGGATGCCCTCGCATAG
457131 CT
1 CT
457133 AGTTCGGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.12, C:0.41, G:0.19, T:0.28
Consensus pattern (33 bp):
CTCGCTCGCTTACCCTCGGATGCCCTCGCATAG
Found at i:457148 original size:33 final size:33
Alignment explanation
Indices: 457077--457158 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
457067 CGCTCAGCTT
* * **
457077 CCCTCGGATTCCCTCGCATAGCTCGCTCGTTTA
1 CCCTCGGATGCCCTCGCATAGCTAGCTCGGATA
* *
457110 CCCTCGGATGCCCTCGCATAGCTAGTTCGGATG
1 CCCTCGGATGCCCTCGCATAGCTAGCTCGGATA
* *
457143 GCCTCGGATGCTCTCG
1 CCCTCGGATGCCCTCG
457159 GATGGCCTCG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.12, C:0.37, G:0.24, T:0.27
Consensus pattern (33 bp):
CCCTCGGATGCCCTCGCATAGCTAGCTCGGATA
Found at i:457161 original size:20 final size:20
Alignment explanation
Indices: 457136--457188 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
457126 CATAGCTAGT
457136 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
457156 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
457176 TCGGATGGCCTCG
1 TCGGATGGCCTCG
457189 ATCGGATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.09, C:0.30, G:0.36, T:0.25
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:457195 original size:14 final size:14
Alignment explanation
Indices: 457176--457202 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
457166 TCGGATGCTC
457176 TCGGATGGCCTCGA
1 TCGGATGGCCTCGA
457190 TCGGATGGCCTCG
1 TCGGATGGCCTCG
457203 GACCAGGAAG
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:0.11, C:0.30, G:0.37, T:0.22
Consensus pattern (14 bp):
TCGGATGGCCTCGA
Found at i:457204 original size:10 final size:10
Alignment explanation
Indices: 457136--457188 Score: 74
Period size: 10 Copynumber: 5.3 Consensus size: 10
457126 CATAGCTAGT
457136 TCGGATGGCC
1 TCGGATGGCC
457146 TCGGAT-GCTC
1 TCGGATGGC-C
457156 TCGGATGGCC
1 TCGGATGGCC
457166 TCGGAT-GCTC
1 TCGGATGGC-C
457176 TCGGATGGCC
1 TCGGATGGCC
457186 TCG
1 TCG
457189 ATCGGATGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.10
10 31 0.79
11 4 0.10
ACGTcount: A:0.09, C:0.30, G:0.36, T:0.25
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:457979 original size:18 final size:18
Alignment explanation
Indices: 457958--457997 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
457948 AACAAAATCG
457958 ATAAAA-CATCTAAAAATA
1 ATAAAATCA-CTAAAAATA
*
457976 ATAAAATCAGTAAAAATA
1 ATAAAATCACTAAAAATA
457994 ATAA
1 ATAA
457998 TATTTATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAATCACTAAAAATA
Found at i:458415 original size:26 final size:26
Alignment explanation
Indices: 458363--458417 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
458353 TATTTGGATG
**
458363 TATATTTTATTAAATTATTCTTGTAA
1 TATATTTTATTAAATTAAACTTGTAA
*
458389 TATATTTTTTTAAAGTTAAACTT-TAA
1 TATATTTTATTAAA-TTAAACTTGTAA
458415 TAT
1 TAT
458418 TAATTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTATTAAATTAAACTTGTAA
Found at i:458592 original size:16 final size:17
Alignment explanation
Indices: 458562--458593 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
458552 ATATTTATTT
458562 ATATAAAATATAATATA
1 ATATAAAATATAATATA
458579 ATATAAAA-ATAATAT
1 ATATAAAATATAATAT
458594 TATGGTAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:459549 original size:2 final size:2
Alignment explanation
Indices: 459542--459577 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
459532 ATTGTATACT
459542 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
459578 AAAGTTTATG
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:460695 original size:15 final size:15
Alignment explanation
Indices: 460672--460713 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
460662 TTTGACTATA
460672 TTAAATAAATTA-AT
1 TTAAATAAATTACAT
460686 TTATAATAAATTATCAT
1 TTA-AATAAATTA-CAT
460703 TTAAATAAATT
1 TTAAATAAATT
460714 CAATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 8 0.32
17 5 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATAAATTACAT
Found at i:462994 original size:37 final size:36
Alignment explanation
Indices: 462923--462996 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
462913 AGTATAAGAT
* *
462923 ATTTATATATTTTCTTTACAAATTTAAATTTATAAA
1 ATTTATATATTTTCTTTACAAATTGAAATATATAAA
*
462959 ATTTATATAATTTTTTTTACAAAATTGAAA-ATATAAA
1 ATTTATAT-ATTTTCTTTAC-AAATTGAAATATATAAA
462996 A
1 A
462997 AAATTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 17 0.52
38 8 0.24
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTTATATATTTTCTTTACAAATTGAAATATATAAA
Found at i:469006 original size:32 final size:32
Alignment explanation
Indices: 468969--469031 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
468959 ATTTTTCAAC
* * *
468969 AAACATCTATCAAACTTTGAAAATTATTTTTT
1 AAACATCTACCAAACTTTAAAAATCATTTTTT
469001 AAACATCTACCAAACTTTAAAAATCATTTTT
1 AAACATCTACCAAACTTTAAAAATCATTTTT
469032 CAAATTTCGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (32 bp):
AAACATCTACCAAACTTTAAAAATCATTTTTT
Found at i:471845 original size:20 final size:20
Alignment explanation
Indices: 471815--471931 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
471805 CACTATCGCA
*
471815 AATTCGTGTTGCGATTTTCC
1 AATTCGCGTTGCGATTTTCC
* * **
471835 AGTTCGCGTTGCGATAGTTGA
1 AATTCGCGTTGCGAT-TTTCC
* *
471856 AAATCACGTTGCGATTTTCC
1 AATTCGCGTTGCGATTTTCC
* * * **
471876 ATTTCGTGTTGCGATAGTTGA
1 AATTCGCGTTGCGAT-TTTCC
*
471897 AAATCGCGTTGCGATTTTCC
1 AATTCGCGTTGCGATTTTCC
*
471917 ATTTCGCGTTGCGAT
1 AATTCGCGTTGCGAT
471932 AGTCTACAGT
Statistics
Matches: 69, Mismatches: 26, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 41 0.59
21 28 0.41
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
AATTCGCGTTGCGATTTTCC
Found at i:471867 original size:21 final size:21
Alignment explanation
Indices: 471838--471911 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
471828 ATTTTCCAGT
471838 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
471859 TCACGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
471879 TCGTGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
471900 TCGCGTTGCGAT
1 TCGCGTTGCGAT
471912 TTTCCATTTC
Statistics
Matches: 38, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 13 0.34
21 25 0.66
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:471887 original size:41 final size:41
Alignment explanation
Indices: 471822--471934 Score: 199
Period size: 41 Copynumber: 2.8 Consensus size: 41
471812 GCAAATTCGT
*
471822 GTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCAC
1 GTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCAC
* *
471863 GTTGCGATTTTCCATTTCGTGTTGCGATAGTTGAAAATCGC
1 GTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCAC
471904 GTTGCGATTTTCCATTTCGCGTTGCGATAGT
1 GTTGCGATTTTCCATTTCGCGTTGCGATAGT
471935 CTACAGTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (41 bp):
GTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCAC
Found at i:472595 original size:5 final size:5
Alignment explanation
Indices: 472567--472623 Score: 78
Period size: 5 Copynumber: 10.8 Consensus size: 5
472557 CGCCGCCGTC
*
472567 CGTGT CGGGT CGTGGT CGTGGT CGTGT CGTGT CGTGT CGTGT CGTGT CGTGGT
1 CGTGT CGTGT CGT-GT CGT-GT CGTGT CGTGT CGTGT CGTGT CGTGT CGT-GT
472620 CGTG
1 CGTG
472624 GTGTTATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 32 0.67
6 16 0.33
ACGTcount: A:0.00, C:0.19, G:0.46, T:0.35
Consensus pattern (5 bp):
CGTGT
Found at i:474568 original size:62 final size:62
Alignment explanation
Indices: 474501--474619 Score: 179
Period size: 62 Copynumber: 1.9 Consensus size: 62
474491 CAGTTTCCAG
* *
474501 ATTCGCAACGCGATTA-TGACTATCGCAATGCGATTTTCC-AATTTCGCGTTGCGATTTTCCCA
1 ATTCGCAACGCGA-TACTGACTATCGCAATGCAATTTTCCTAA-TTCGCATTGCGATTTTCCCA
*
474563 ATTCGCAATGCGATACTGACTATCGCAATGCAATTTTCCTAATTCGCATTGCGATTT
1 ATTCGCAACGCGATACTGACTATCGCAATGCAATTTTCCTAATTCGCATTGCGATTT
474620 ACGTATTCGC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 2 0.04
62 48 0.92
63 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (62 bp):
ATTCGCAACGCGATACTGACTATCGCAATGCAATTTTCCTAATTCGCATTGCGATTTTCCCA
Found at i:474574 original size:21 final size:21
Alignment explanation
Indices: 474523--474657 Score: 87
Period size: 21 Copynumber: 6.5 Consensus size: 21
474513 ATTATGACTA
474523 TCGCAATGCGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAA-T
**
474544 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
** ** *
474565 TCGCAATGCGATACTGACTA-
1 TCGCAATGCGATTTTCCCAAT
* *
474585 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCCCAAT
* * **
474606 TCGCATTGCGA-TTTACGTAT
1 TCGCAATGCGATTTTCCCAAT
** **
474626 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCCCAAT
474647 TCGCAATGCGA
1 TCGCAATGCGA
474658 ATTAGGAAAA
Statistics
Matches: 83, Mismatches: 28, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
20 29 0.35
21 50 0.60
22 4 0.05
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:474607 original size:41 final size:41
Alignment explanation
Indices: 474554--474657 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 41
474544 TCGCGTTGCG
*
474554 ATTTTCCCAATTCGCAATGCGATACTGAC-TA-TCGCAATGCA
1 ATTTTCCTAATTCGCAATGCGAT--TGACGTATTCGCAATGCA
* * ** *
474595 ATTTTCCTAATTCGCATTGCGATTTACGTATTCGCGTTGCG
1 ATTTTCCTAATTCGCAATGCGATTGACGTATTCGCAATGCA
*
474636 ATTTTCATAATTCGCAATGCGA
1 ATTTTCCTAATTCGCAATGCGA
474658 ATTAGGAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.06
40 2 0.04
41 48 0.91
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (41 bp):
ATTTTCCTAATTCGCAATGCGATTGACGTATTCGCAATGCA
Found at i:474671 original size:21 final size:21
Alignment explanation
Indices: 474647--474700 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
474637 TTTTCATAAT
*
474647 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
474668 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
474688 TTGCAATGCGAAT
1 TCGCAATGCGAAT
474701 CTTACTATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:475369 original size:65 final size:65
Alignment explanation
Indices: 475287--475413 Score: 211
Period size: 65 Copynumber: 2.0 Consensus size: 65
475277 CAAAATCGCA
* **
475287 TTGCGATTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT-CGCGTTGCGATTCTCTCG
1 TTGCGATGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTCCGCGTTGCGATTCTCTCG
475351 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTCCGCGTTGCGATTCTC
1 TTGCGAT-GTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTCCGCGTTGCGATTCTC
475414 ATTATCTCGT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 7 0.12
65 36 0.62
66 15 0.26
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (65 bp):
TTGCGATGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTCCGCGTTGCGATTCTCTCG
Found at i:475373 original size:19 final size:19
Alignment explanation
Indices: 475349--475429 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
475339 GCGATTCTCT
475349 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
475368 CGTTGCGAT--TC---TCT
1 CGTTGCGATAGTCATTTCG
*
475382 CGTTGCGATAGTCATTCCG
1 CGTTGCGATAGTCATTTCG
** *
475401 CGTTGCGATTCTCATTATCT
1 CGTTGCGATAGTCATT-TCG
475421 CGTTGCGAT
1 CGTTGCGAT
475430 TTTCATTTCA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 11 0.22
16 2 0.04
17 2 0.04
19 24 0.49
20 10 0.20
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:475373 original size:33 final size:33
Alignment explanation
Indices: 475287--475413 Score: 204
Period size: 33 Copynumber: 3.9 Consensus size: 33
475277 CAAAATCGCA
*
475287 TTGCGAT-TTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
**
475319 TTGCGATTTTCA-TTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
475351 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
*
475384 TTGCGATAGTCATTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTTCGCGTTGCGATTCTC
475414 ATTATCTCGT
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
32 37 0.41
33 53 0.59
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:475426 original size:20 final size:19
Alignment explanation
Indices: 475287--475438 Score: 77
Period size: 14 Copynumber: 8.8 Consensus size: 19
475277 CAAAATCGCA
*
475287 TTGCGATT-TCATTTCGCG
1 TTGCGATTCTCATTTCTCG
475305 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
* *
475319 TTGCGATTTTCA-TTCGCG
1 TTGCGATTCTCATTTCTCG
475337 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
** *
475351 TTGCGATAGTCATTTCGCG
1 TTGCGATTCTCATTTCTCG
475370 TTGCGA-T-TC---TCTCG
1 TTGCGATTCTCATTTCTCG
** * *
475384 TTGCGATAGTCATTCCGCG
1 TTGCGATTCTCATTTCTCG
475403 TTGCGATTCTCATTATCTCG
1 TTGCGATTCTCATT-TCTCG
*
475423 TTGCGATTTTCATTTC
1 TTGCGATTCTCATTTC
475439 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 15, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
14 30 0.29
15 1 0.01
16 8 0.08
17 6 0.06
18 16 0.15
19 27 0.26
20 16 0.15
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (19 bp):
TTGCGATTCTCATTTCTCG
Found at i:477289 original size:91 final size:90
Alignment explanation
Indices: 477112--477294 Score: 264
Period size: 91 Copynumber: 2.0 Consensus size: 90
477102 TAGATTGCTT
477112 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAATTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAATTAGTATTT
*
477177 GTTTTTTTGTTTTGTCTTTTGGTTGA
66 G-TTCTTTGTTTTGTCTTTTGGTTGA
* * *
477203 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAATTAGT
477268 A-TTG-TCTTTGTTTTGTC-TTTGGTTGA
62 ATTTGTTCTTTGTTTTGTCTTTTGGTTGA
477294 A
1 A
477295 AGTTTGAAAC
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
91 45 0.54
92 12 0.14
93 3 0.04
94 5 0.06
95 19 0.23
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (90 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAATTAGTATTT
GTTCTTTGTTTTGTCTTTTGGTTGA
Done.