Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008211.1 Hibiscus syriacus cultivar Beakdansim tig00110833_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: 2208279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:590116 original size:28 final size:28
Alignment explanation
Indices: 590051--590116 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
590041 TTTATATAAT
*
590051 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
590079 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
590107 ATAATTTATA
1 ATAATATATA
590117 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:590119 original size:21 final size:21
Alignment explanation
Indices: 590086--590134 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
590076 CTAATATAAT
590086 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
590107 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
590128 ATTAACT
1 A-TAACT
590135 AGATTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:590506 original size:16 final size:16
Alignment explanation
Indices: 590485--590517 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
590475 GGGTGCAGGA
590485 ATCTCAGCTATGATGC
1 ATCTCAGCTATGATGC
590501 ATCTCAGCTATGATGC
1 ATCTCAGCTATGATGC
590517 A
1 A
590518 ACGCATGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (16 bp):
ATCTCAGCTATGATGC
Found at i:590686 original size:25 final size:25
Alignment explanation
Indices: 590632--590689 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
590622 GTTCCCACGT
* *
590632 CCCATGCACAGCATGCATCTGCATG
1 CCCATGCACAGCATGCATCTCCATC
* *
590657 ACCATGCACAGCATGCATC-CCCTCC
1 CCCATGCACAGCATGCATCTCCAT-C
590682 CCCATGCA
1 CCCATGCA
590690 TTCCCACCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.17
Consensus pattern (25 bp):
CCCATGCACAGCATGCATCTCCATC
Found at i:590689 original size:16 final size:18
Alignment explanation
Indices: 590668--590710 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
590658 CCATGCACAG
590668 CATGCAT-C-CCCTCCCC
1 CATGCATCCACCCTCCCC
590684 CATGCATTCCCACCCTCCCC
1 CATGCA-T-CCACCCTCCCC
590704 CATGCAT
1 CATGCAT
590711 TCCCACGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 1 0.04
19 2 0.09
20 14 0.61
ACGTcount: A:0.16, C:0.56, G:0.07, T:0.21
Consensus pattern (18 bp):
CATGCATCCACCCTCCCC
Found at i:590699 original size:20 final size:20
Alignment explanation
Indices: 590676--590716 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
590666 AGCATGCATC
590676 CCCTCCCCCATGCATTCCCA
1 CCCTCCCCCATGCATTCCCA
590696 CCCTCCCCCATGCATTCCCA
1 CCCTCCCCCATGCATTCCCA
590716 C
1 C
590717 GGCCCATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.61, G:0.05, T:0.20
Consensus pattern (20 bp):
CCCTCCCCCATGCATTCCCA
Found at i:590787 original size:29 final size:29
Alignment explanation
Indices: 590755--590838 Score: 159
Period size: 29 Copynumber: 2.9 Consensus size: 29
590745 TATACCTTGG
*
590755 AGGTCGCCCGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
590784 AGGTCGCCTGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
590813 AGGTCGCCTGGATTGCATGGCGACCT
1 AGGTCGCCTGGATTGCATGGCGACCT
590839 ATGGCTATCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.17, C:0.31, G:0.32, T:0.20
Consensus pattern (29 bp):
AGGTCGCCTGGATTGCATGGCGACCTCCA
Found at i:595607 original size:11 final size:12
Alignment explanation
Indices: 595584--595613 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
595574 TATACACTTA
595584 TAAAAATATATT
1 TAAAAATATATT
595596 TAAAAATA-ATT
1 TAAAAATATATT
595607 TAAAAAT
1 TAAAAAT
595614 GTTTATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAAAATATATT
Found at i:596897 original size:21 final size:21
Alignment explanation
Indices: 596873--596926 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
596863 TTTTGTAGAG
* *
596873 CTACCTAAAATGTTATTTTTT
1 CTACCTAAAATGTTAATTTCT
596894 CTA-CTGAAAATGTTAATTTCT
1 CTACCT-AAAATGTTAATTTCT
596915 CTACCTAAAATG
1 CTACCTAAAATG
596927 AATATTTCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (21 bp):
CTACCTAAAATGTTAATTTCT
Found at i:597938 original size:2 final size:2
Alignment explanation
Indices: 597933--597971 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
597923 CAGGCATGCA
597933 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
597972 ATATATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:597976 original size:2 final size:2
Alignment explanation
Indices: 597971--598025 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
597961 TCTCTCTCTC
597971 TA TA TA 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 TA TA TA
598013 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
598026 CTACTAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:599751 original size:259 final size:259
Alignment explanation
Indices: 599292--599814 Score: 1046
Period size: 259 Copynumber: 2.0 Consensus size: 259
599282 TCATCATTTA
599292 ATTTCATAAGATATTTCGAAAGAAAAAAAATAAAACATAAGAGACACTCGATGACTCCCCTATCC
1 ATTTCATAAGATATTTCGAAAGAAAAAAAATAAAACATAAGAGACACTCGATGACTCCCCTATCC
599357 AGGACCAGGCATTCTAAGATCCAATCGAGATTTATGTAGGAATTTATAGATTGCCCACCAAGAGT
66 AGGACCAGGCATTCTAAGATCCAATCGAGATTTATGTAGGAATTTATAGATTGCCCACCAAGAGT
599422 GAAGGTGGTATGATTCGAACTTTTACTTACAATCTCAAATTCTTGAATCACAACCACTTGTGTCA
131 GAAGGTGGTATGATTCGAACTTTTACTTACAATCTCAAATTCTTGAATCACAACCACTTGTGTCA
599487 ACTCTCGTTACATTTGTATAATGTTATAATTATCTTTTATATATCTATGAATAATTACAATAAT
196 ACTCTCGTTACATTTGTATAATGTTATAATTATCTTTTATATATCTATGAATAATTACAATAAT
599551 ATTTCATAAGATATTTCGAAAGAAAAAAAATAAAACATAAGAGACACTCGATGACTCCCCTATCC
1 ATTTCATAAGATATTTCGAAAGAAAAAAAATAAAACATAAGAGACACTCGATGACTCCCCTATCC
599616 AGGACCAGGCATTCTAAGATCCAATCGAGATTTATGTAGGAATTTATAGATTGCCCACCAAGAGT
66 AGGACCAGGCATTCTAAGATCCAATCGAGATTTATGTAGGAATTTATAGATTGCCCACCAAGAGT
599681 GAAGGTGGTATGATTCGAACTTTTACTTACAATCTCAAATTCTTGAATCACAACCACTTGTGTCA
131 GAAGGTGGTATGATTCGAACTTTTACTTACAATCTCAAATTCTTGAATCACAACCACTTGTGTCA
599746 ACTCTCGTTACATTTGTATAATGTTATAATTATCTTTTATATATCTATGAATAATTACAATAAT
196 ACTCTCGTTACATTTGTATAATGTTATAATTATCTTTTATATATCTATGAATAATTACAATAAT
599810 ATTTC
1 ATTTC
599815 TCTCTATATT
Statistics
Matches: 264, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 264 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (259 bp):
ATTTCATAAGATATTTCGAAAGAAAAAAAATAAAACATAAGAGACACTCGATGACTCCCCTATCC
AGGACCAGGCATTCTAAGATCCAATCGAGATTTATGTAGGAATTTATAGATTGCCCACCAAGAGT
GAAGGTGGTATGATTCGAACTTTTACTTACAATCTCAAATTCTTGAATCACAACCACTTGTGTCA
ACTCTCGTTACATTTGTATAATGTTATAATTATCTTTTATATATCTATGAATAATTACAATAAT
Found at i:600244 original size:20 final size:20
Alignment explanation
Indices: 600215--600274 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
600205 CGTTTGGTTC
600215 GTGA-AATGTAAGATTATCA
1 GTGAGAATGTAAGATTATCA
600234 GTGAGAATGTAAGATTATCA
1 GTGAGAATGTAAGATTATCA
*
600254 GTGAGAATGTATGATTATCA
1 GTGAGAATGTAAGATTATCA
600274 G
1 G
600275 ATAATAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 4 0.10
20 35 0.90
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (20 bp):
GTGAGAATGTAAGATTATCA
Found at i:600504 original size:37 final size:38
Alignment explanation
Indices: 600426--600504 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
600416 AACAAATTAG
* *
600426 AAAATATTTATATATTTTCTTTAAAAATTTAAATTCAT
1 AAAATATTTATATATTTTCTTTAAAAATTAAAAATCAT
600464 AAAAT-TTATATATATTTT-TTTACAAAATTAAAAAT-AT
1 AAAATATT-TATATATTTTCTTTA-AAAATTAAAAATCAT
600501 AAAA
1 AAAA
600505 AGGTTTAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 12 0.32
38 25 0.68
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (38 bp):
AAAATATTTATATATTTTCTTTAAAAATTAAAAATCAT
Found at i:603617 original size:59 final size:60
Alignment explanation
Indices: 603546--603669 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
603536 AATGTGTCAT
* * * *
603546 TCGGATCGGGTTC-AATTCTGA-TCATTTCA-GATTTTGATTTTATTTGGTTTTATAGTAAG
1 TCGGGTCGGGTTCGAA-TC-GAGTCATTTCAGGATTTTGATTTTATTCGGGTCTATAGTAAG
* *
603605 TCGGGTCGGGTTCGGATCGAGTCATTTCAGGTTTTTGATTTTATTCGGGTCTATAGTAAG
1 TCGGGTCGGGTTCGAATCGAGTCATTTCAGGATTTTGATTTTATTCGGGTCTATAGTAAG
603665 TCGGG
1 TCGGG
603670 CCGGATCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
58 2 0.04
59 22 0.39
60 32 0.57
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.43
Consensus pattern (60 bp):
TCGGGTCGGGTTCGAATCGAGTCATTTCAGGATTTTGATTTTATTCGGGTCTATAGTAAG
Found at i:605755 original size:26 final size:26
Alignment explanation
Indices: 605700--605749 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
605690 ATCATTGACA
*
605700 TGATTTGAAGATCAATCGATTTGATC
1 TGATTAGAAGATCAATCGATTTGATC
605726 TGATTAGAA-ATCAA-CTGATTTGAT
1 TGATTAGAAGATCAATC-GATTTGAT
605750 ATTGATCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (26 bp):
TGATTAGAAGATCAATCGATTTGATC
Found at i:608385 original size:3 final size:3
Alignment explanation
Indices: 608370--608399 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
608360 ATCCCATCCT
*
608370 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
608400 ATGTCCCTGC
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:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:618854 original size:6 final size:6
Alignment explanation
Indices: 618843--618874 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
618833 TTTATGTTAA
618843 ACGGGG ACGGGG ACGGGG ACGGGG ACGGGG AC
1 ACGGGG ACGGGG ACGGGG ACGGGG ACGGGG AC
618875 ATGTTTGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.62, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:618909 original size:13 final size:13
Alignment explanation
Indices: 618888--618936 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
618878 TTTGGTAATC
*
618888 CCCGCCCCGATTA
1 CCCGACCCGATTA
618901 CCCGACCCGATTA
1 CCCGACCCGATTA
*
618914 CCCGGCCCGA-TA
1 CCCGACCCGATTA
618926 CCCGACCCGAT
1 CCCGACCCGAT
618937 AAATATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.18, C:0.51, G:0.18, T:0.12
Consensus pattern (13 bp):
CCCGACCCGATTA
Found at i:618933 original size:25 final size:26
Alignment explanation
Indices: 618888--618936 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
618878 TTTGGTAATC
618888 CCCGCCCCGATTACCCGACCCGATTA
1 CCCGCCCCGATTACCCGACCCGATTA
*
618914 CCCGGCCCGA-TACCCGACCCGAT
1 CCCGCCCCGATTACCCGACCCGAT
618937 AAATATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.18, C:0.51, G:0.18, T:0.12
Consensus pattern (26 bp):
CCCGCCCCGATTACCCGACCCGATTA
Found at i:626590 original size:22 final size:23
Alignment explanation
Indices: 626565--626608 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
626555 GTATTTAAAC
**
626565 TATCAAT-TTTTTTCTTTTTTAG
1 TATCAATATTTTTAATTTTTTAG
*
626587 TATCTATATTTTTAATTTTTTA
1 TATCAATATTTTTAATTTTTTA
626609 AAATCATACT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (23 bp):
TATCAATATTTTTAATTTTTTAG
Found at i:627160 original size:44 final size:43
Alignment explanation
Indices: 627108--627205 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 43
627098 TTATTCAAAA
*
627108 AATTATTAATTTACTAATAGATAA-TAACAAATAATAAATTACT
1 AATTATTAATTTACTAATAAATAATTAA-AAATAATAAATTACT
** * *
627151 AATCTATTAATTTTTTAATAAATAATTAAAAATACTAAATTATT
1 AAT-TATTAATTTACTAATAAATAATTAAAAATAATAAATTACT
*
627195 AATTAATAATT
1 AATTATTAATT
627206 ATTATTTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 10 0.21
44 34 0.72
45 3 0.06
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (43 bp):
AATTATTAATTTACTAATAAATAATTAAAAATAATAAATTACT
Found at i:628282 original size:23 final size:22
Alignment explanation
Indices: 628256--628313 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
628246 TAAACTACCA
*
628256 AAAGCCAGAGAAAAACGTGCCAT
1 AAAGACAGAGAAAAA-GTGCCAT
* * *
628279 AAAGGCAGAGGTAAAAGTGTCAT
1 AAAGACAGA-GAAAAAGTGCCAT
628302 AAAGACAGAGAA
1 AAAGACAGAGAA
628314 CATGTCACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 2 0.07
23 22 0.76
24 5 0.17
ACGTcount: A:0.50, C:0.14, G:0.26, T:0.10
Consensus pattern (22 bp):
AAAGACAGAGAAAAAGTGCCAT
Found at i:633772 original size:3 final size:3
Alignment explanation
Indices: 633766--633827 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
633756 TTTAAAAAAA
* * * *
633766 AAT AAT AAT AAT AAA AAT AAT ATT AAT AAT GAT AAT AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
633814 AAT AAT GAT AAT AA
1 AAT AAT AAT AAT AA
633828 AATGGATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:633824 original size:21 final size:21
Alignment explanation
Indices: 633768--633827 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
633758 TAAAAAAAAA
*
633768 TAATAATAATAAAAATAATAT
1 TAATAATAATAATAATAATAT
*
633789 TAATAATGATAATAATAATAT
1 TAATAATAATAATAATAATAT
*
633810 TAATAATAATGATAATAA
1 TAATAATAATAATAATAA
633828 AATGGATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATAATAATAATAATAATAT
Found at i:633835 original size:12 final size:11
Alignment explanation
Indices: 633773--633842 Score: 52
Period size: 12 Copynumber: 5.9 Consensus size: 11
633763 AAAAATAATA
*
633773 ATAATAAAAATA
1 ATAAT-AAAATG
*
633785 ATATTAATAATG
1 ATAATAA-AATG
633797 ATAATAATAAT-
1 ATAATAA-AATG
633808 ATTAATAATAATG
1 A-TAATAA-AATG
633821 ATAATAAAATGG
1 ATAATAAAAT-G
*
633833 ATAAAAAAAT
1 ATAATAAAAT
633843 AGTATCTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.12
12 43 0.86
13 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (11 bp):
ATAATAAAATG
Found at i:637016 original size:16 final size:16
Alignment explanation
Indices: 636985--637040 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
636975 GTTACTTCAT
*
636985 AATGATT-AAGTGTTG
1 AATGATTCAAATGTTG
637000 AATGATTCAAATGTTG
1 AATGATTCAAATGTTG
* *
637016 AATGATTTAAATGCTG
1 AATGATTCAAATGTTG
637032 AATGATTCA
1 AATGATTCA
637041 GAGGCTCTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 7 0.19
16 29 0.81
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (16 bp):
AATGATTCAAATGTTG
Found at i:637647 original size:32 final size:33
Alignment explanation
Indices: 637599--637732 Score: 157
Period size: 32 Copynumber: 4.2 Consensus size: 33
637589 ATAATATTAT
637599 TTATT-AGAAAATAATAATATTTTATATCAATA
1 TTATTAAGAAAATAATAATATTTTATATCAATA
** * *
637631 TTATTGGGAAAA-AATAAAATTTTATATCAATT
1 TTATTAAGAAAATAATAATATTTTATATCAATA
* *
637663 TTATTAAAAAAATAATAATATTTTATATCAAAA
1 TTATTAAGAAAATAATAATATTTTATATCAATA
* * **
637696 TTATTAA-AAAGTAACAATATTTTATGCCAATA
1 TTATTAAGAAAATAATAATATTTTATATCAATA
637728 TTATT
1 TTATT
637733 TATTAGAACA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
32 57 0.66
33 29 0.34
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (33 bp):
TTATTAAGAAAATAATAATATTTTATATCAATA
Found at i:637732 original size:65 final size:63
Alignment explanation
Indices: 637606--637732 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 63
637596 TATTTATTAG
* *
637606 AAAATAATAATATTTTATATCAATATTATTGGGAAAAAATAAAATTTTATATCAATTTTATTAAA
1 AAAATAATAATATTTTATATCAAAATTATT--GAAAAAATAAAATTTTATATCAATATTATTAAA
*
637671 AAAATAATAATATTTTATATCAAAATTATT-AAAAAGTAACAATATTT-TATGCCAATATTATT
1 AAAATAATAATATTTTATATCAAAATTATTGAAAAAATAA-AAT-TTTATAT--CAATATTATT
637733 TATTAGAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
62 8 0.15
63 6 0.11
64 3 0.05
65 38 0.69
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (63 bp):
AAAATAATAATATTTTATATCAAAATTATTGAAAAAATAAAATTTTATATCAATATTATTAAA
Found at i:638097 original size:22 final size:21
Alignment explanation
Indices: 638056--638102 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
638046 ATAAAAACAT
638056 TATTAAAATATTAAATTTATAA
1 TATTAAAATA-TAAATTTATAA
638078 TATTAAAATA-AAATTATTATAA
1 TATTAAAATATAAA-T-TTATAA
638100 TAT
1 TAT
638103 ATTCTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.13
21 1 0.04
22 19 0.83
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTAAAATATAAATTTATAA
Found at i:638097 original size:39 final size:41
Alignment explanation
Indices: 638039--638120 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 41
638029 ATTAATTACT
638039 TATTAAAATAAAAACATTATTAAAATA-T-TAAATTTA-TAA
1 TATTAAAATAAAAACATTA-TAAAATATTCTAAATTTATTAA
** *
638078 TATTAAAATAAAATTATTATAATATATTCTAAATTTATTAA
1 TATTAAAATAAAAACATTATAAAATATTCTAAATTTATTAA
638119 TA
1 TA
638121 AATATATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 6 0.16
39 18 0.49
40 8 0.22
41 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (41 bp):
TATTAAAATAAAAACATTATAAAATATTCTAAATTTATTAA
Found at i:638115 original size:21 final size:23
Alignment explanation
Indices: 638086--638134 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
638076 AATATTAAAA
*
638086 TAAAATTATT-AT-AATATATTC
1 TAAATTTATTAATAAATATATTC
*
638107 TAAATTTATTAATAAATATATTT
1 TAAATTTATTAATAAATATATTC
638130 TAAAT
1 TAAAT
638135 ATTCAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 2 0.08
23 13 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAATTTATTAATAAATATATTC
Found at i:638144 original size:25 final size:23
Alignment explanation
Indices: 638098--638145 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
638088 AAATTATTAT
*
638098 AATATATTCTAAATTTATTAATA
1 AATATATTCTAAATTTAATAATA
*
638121 AATATATTTTAAATATTCAATAATA
1 AATATATTCTAAAT-TT-AATAATA
638146 TTATTCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 2 0.10
25 6 0.29
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
AATATATTCTAAATTTAATAATA
Found at i:638677 original size:47 final size:47
Alignment explanation
Indices: 638624--638722 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
638614 TTTGAAAAAA
* * *
638624 AATATTGAATTAAAATTTTAT-AGAAAGTTAAATAGTTTATTAATATT
1 AATATTGAAATAAAATTTTATGA-AAAATTAAATAGTTTATTAACATT
* * *
638671 AATATTGAAATAGAGTTTTATGAAAAATTGAATAGTTTATTAACATT
1 AATATTGAAATAAAATTTTATGAAAAATTAAATAGTTTATTAACATT
638718 AATAT
1 AATAT
638723 AAAAATCCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 44 0.98
48 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (47 bp):
AATATTGAAATAAAATTTTATGAAAAATTAAATAGTTTATTAACATT
Found at i:649088 original size:2 final size:2
Alignment explanation
Indices: 649077--649129 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
649067 CTTATTTTAA
649077 AT AT -T 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
649118 AT AT AT AT AT AT
1 AT AT AT AT AT AT
649130 TATTTATTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:649563 original size:23 final size:23
Alignment explanation
Indices: 649532--649575 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
649522 ATAAAGTTAT
* *
649532 ATTTCAATCCTTTACGTTATTAA
1 ATTTCAATCATTTACATTATTAA
*
649555 ATTTTAATCATTTACATTATT
1 ATTTCAATCATTTACATTATT
649576 TATTCTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTCAATCATTTACATTATTAA
Found at i:650119 original size:35 final size:33
Alignment explanation
Indices: 650063--650283 Score: 161
Period size: 35 Copynumber: 6.6 Consensus size: 33
650053 CTTATGTACA
*
650063 ATATATA-AGTTTT-AAAACATTTTGAAAATTGT
1 ATATATATAGTTTTAAAAACATTTTGAAAACT-T
* *
650095 ATAGTATATAGTTTTGAAATCATTTTGAAAA--T
1 ATA-TATATAGTTTTAAAAACATTTTGAAAACTT
*
650127 ATAATATATAGTTTTTAAAAAACATTTTCTGAAAATTT
1 AT-ATATATAG-TTTT-AAAAACA-TTT-TGAAAACTT
**
650165 ATATATATAGTTAAAAAAAACATTTTGGAAAACTT
1 ATATATATAGTT-TTAAAAACATTTT-GAAAACTT
* *
650200 ATATA-ATATTTTTAAAATCATTTTTGAAAACTAT
1 ATATATATAGTTTTAAAAACA-TTTTGAAAACT-T
* * * *
650234 ATAATATATAGTTTTGAAAACGTTTT-TAAA-TA
1 AT-ATATATAGTTTTAAAAACATTTTGAAAACTT
*
650266 AAATATATAG-TTTAAAAA
1 ATATATATAGTTTTAAAAA
650284 TTATCTTTTT
Statistics
Matches: 155, Mismatches: 18, Indels: 34
0.75 0.09 0.16
Matches are distributed among these distances:
30 7 0.05
31 8 0.05
32 14 0.09
33 23 0.15
34 27 0.17
35 39 0.25
36 26 0.17
37 8 0.05
38 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (33 bp):
ATATATATAGTTTTAAAAACATTTTGAAAACTT
Found at i:650183 original size:36 final size:35
Alignment explanation
Indices: 650063--650310 Score: 170
Period size: 36 Copynumber: 7.3 Consensus size: 35
650053 CTTATGTACA
*
650063 ATATATA-AGTTTT--AAAACA-TTTTGAAAATTGT
1 ATATATATAGTTTTAAAAAACATTTTTGAAAA-TAT
* *
650095 ATAGTATATAGTTTT-GAAATCA-TTTTGAAAATAT
1 ATA-TATATAGTTTTAAAAAACATTTTTGAAAATAT
*
650129 A-ATATATAGTTTTTAAAAAACATTTTCTGAAAATTT
1 ATATATATAG-TTTTAAAAAACATTTT-TGAAAATAT
** *
650165 ATATATATAGTTAAAAAAAACATTTTGGAAAACT-T
1 ATATATATAGTTTTAAAAAACATTTTTGAAAA-TAT
* *
650200 ATATA-ATA-TTTTTAAAATCATTTTTGAAAACTAT
1 ATATATATAGTTTTAAAAAACATTTTTGAAAA-TAT
* *
650234 ATAATATATAGTTTT-GAAAACGTTTTT--AAATA-
1 AT-ATATATAGTTTTAAAAAACATTTTTGAAAATAT
*
650266 AAATATATAG-TTTAAAAATTATC-TTTTTGAAACATAT
1 ATATATATAGTTTTAAAAA--A-CATTTTTGAAA-ATAT
650303 ATA-ATATA
1 ATATATATA
650311 ATCTGTATTA
Statistics
Matches: 176, Mismatches: 19, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
30 3 0.02
31 11 0.06
32 11 0.06
33 36 0.20
34 24 0.14
35 33 0.19
36 44 0.25
37 14 0.08
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (35 bp):
ATATATATAGTTTTAAAAAACATTTTTGAAAATAT
Found at i:650214 original size:70 final size:67
Alignment explanation
Indices: 650062--650278 Score: 178
Period size: 69 Copynumber: 3.2 Consensus size: 67
650052 ACTTATGTAC
*** *
650062 AATATATAAG-TTTT-AAAACA-TTTTGAAAATTGTATAGTATATAGTTTTGAAATCATTTTGAA
1 AATATAT-AGTTTTTAAAAACATTTTTGAAAATT-TATA-TATATAGTTAAAAAAACATTTTGAA
650124 AATAT
63 AATAT
650129 AATATATAGTTTTTAAAAAACATTTTCTGAAAATTTATATATATAGTTAAAAAAAACATTTTGGA
1 AATATATAGTTTTT-AAAAACATTTT-TGAAAATTTATATATATAGTT-AAAAAAACATTTT-GA
650194 AAACT-T
62 AAA-TAT
* * *** * *
650200 -ATATAATA-TTTTTAAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACGTTTT-TA
1 AATAT-ATAGTTTTTAAAAACATTTTTGAAAA-TTTAT-ATATATAGTTAAAAAAACATTTTGAA
*
650262 AATAA
63 AATAT
650267 AATATATAGTTT
1 AATATATAGTTT
650279 AAAAATTATC
Statistics
Matches: 124, Mismatches: 12, Indels: 27
0.76 0.07 0.17
Matches are distributed among these distances:
66 3 0.02
67 17 0.14
68 13 0.10
69 38 0.31
70 35 0.28
71 17 0.14
72 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (67 bp):
AATATATAGTTTTTAAAAACATTTTTGAAAATTTATATATATAGTTAAAAAAACATTTTGAAAAT
AT
Found at i:657775 original size:25 final size:25
Alignment explanation
Indices: 657741--657805 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
657731 TATATATCCT
657741 GAAGGACCGCGTAGAATTTTGTCCC
1 GAAGGACCGCGTAGAATTTTGTCCC
*
657766 GAAGGACCGCATAGAATTTTGTCCC
1 GAAGGACCGCGTAGAATTTTGTCCC
657791 GAAGGACCGCGTAGA
1 GAAGGACCGCGTAGA
657806 CCCTCTAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (25 bp):
GAAGGACCGCGTAGAATTTTGTCCC
Found at i:658360 original size:21 final size:21
Alignment explanation
Indices: 658336--658378 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
658326 TTCATATTCG
* *
658336 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
658357 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
658378 T
1 T
658379 AGCCCAGAAA
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:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:658856 original size:15 final size:14
Alignment explanation
Indices: 658835--658886 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
658825 CTTCACGTTT
658835 GGAAGAAGAGAAGA
1 GGAAGAAGAGAAGA
*
658849 GTGAAGAAGATAAGA
1 G-GAAGAAGAGAAGA
658864 --AAGAAG-GAAGAA
1 GGAAGAAGAGAAG-A
658876 GGAAGAAGAGA
1 GGAAGAAGAGA
658887 TGAGAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 3 0.10
12 7 0.23
14 7 0.23
15 14 0.45
ACGTcount: A:0.58, C:0.00, G:0.38, T:0.04
Consensus pattern (14 bp):
GGAAGAAGAGAAGA
Found at i:664144 original size:84 final size:83
Alignment explanation
Indices: 663955--664983 Score: 959
Period size: 84 Copynumber: 12.4 Consensus size: 83
663945 TAAAAGATAG
* * * * * * *
663955 CATTTGCAGCATAACTCAAGGCTATAAGGGTTATCTGCC-AGCAAAGACCTTTGAGTTCG-----
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
664014 ACTCAGCTCCAAGGCACAT
66 ACTCAGCT-CAAGGCACAT
** * * * * * * *
664033 CATTTGCAATATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* * *
664098 GCTCAACTCAACGACACAT
66 ACTCAGCTCAA-GGCACAT
* * * **
664117 CGTTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* *
664182 ACTCAGCTTCGAGGGCATAT
66 ACTCAGC-TC-AAGGCACAT
* * * * * * *
664202 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
*
664266 GCTCAGCTCCAAGGCACAT
66 ACTCAGCT-CAAGGCACAT
**
664285 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCCCGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* *
664350 ACTCAGCTTCGAGGGCATAT
66 ACTCAGC-TC-AAGGCACAT
* * * * * * *
664370 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
*
664434 GCTCAGCTCCAAGGCACAT
66 ACTCAGCT-CAAGGCACAT
* **
664453 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAAGACCCCCGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
*
664515 ACTCAGCTTCGAGGGCACAT
66 ACTCAGC-TC-AAGGCACAT
* * * * *
664535 CATTTGCGGTATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* *
664600 GCTCAGCTCCAAGGCATAT
66 ACTCAGCT-CAAGGCACAT
* * * *
664619 CATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCTG----CCAAAGACCCTT-AAGTTCGATTA
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGA-CCTTCGAGTTCGATTA
*
664679 CACTCAGCTTCAAGGGCATAT
65 CACTCAGC-TCAA-GGCACAT
* * * * * * * *
664700 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAA-CAAAGACCTTTGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
664764 ACTCAGCTCCAAGGCACAT
66 ACTCAGCT-CAAGGCACAT
* **
664783 CATTTGTAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAG-CCCCCGAGTTCGATTAC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
* *
664843 ACTCAGCTTCGAGGGCATAT
66 ACTCAGC-TC-AAGGCACAT
* * * * * * *
664863 CATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTTC
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
*
664928 ACTCAGCTCCAAGGCCCAT
66 ACTCAGCT-CAAGGCACAT
* * * *
664947 CATTTGCAGCGTAGCTTAAGGCAAGAAGGGCTATCTG
1 CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG
664984 TCAATAAAAT
Statistics
Matches: 774, Mismatches: 139, Indels: 70
0.79 0.14 0.07
Matches are distributed among these distances:
78 33 0.04
79 40 0.05
80 72 0.09
81 69 0.09
82 43 0.06
83 127 0.16
84 264 0.34
85 125 0.16
86 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (83 bp):
CATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
ACTCAGCTCAAGGCACAT
Found at i:664262 original size:168 final size:168
Alignment explanation
Indices: 664047--664983 Score: 1333
Period size: 168 Copynumber: 5.6 Consensus size: 168
664037 TGCAATATAG
* * * *
664047 CTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAACT-CAACG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-G
* * *
664111 ACACATCGTTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGACCCCCGAGTTC
65 GCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCCCCGAGTTC
664176 GATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
129 GATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* *
664216 CTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
*
664280 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCCCCGAGTTCG
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-ACCAAAGACCCCCGAGTTCG
664345 ATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
130 ATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* *
664384 CTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
664448 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA--AAAGACCCCCGAGTTCGA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCCCCGAGTTCGA
* * * *
664511 TTACACTCAGCTTCGAGGGCACATCATTTGCGGTATAA
131 TTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* * * * *
664549 CTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* * * ***
664614 CATATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACCCTTAAGTTCGA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCCCCGAGTTCGA
*
664676 TTACACTCAGCTTCAAGGGCATATCATTTACAGCATAA
131 TTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* * * *
664714 CTCAAGGCTAGAAGGGTTATATGTCAA-CAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* *
664778 CACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAG-CCCCCGAGTTCGA
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCCCCGAGTTCGA
* *
664839 TTACACTCAGCTTCGAGGGCATATCATTTGCAGCACAA
131 TTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* * * * * * *
664877 CTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTTCACTCAGCTCCAAGG
1 CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
* * * *
664942 CCCATCATTTGCAGCGTAGCTTAAGGCAAGAAGGGCTATCTG
66 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG
664984 TCAATAAAAT
Statistics
Matches: 699, Mismatches: 64, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
163 67 0.10
164 150 0.21
165 141 0.20
166 76 0.11
167 1 0.00
168 239 0.34
169 25 0.04
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (168 bp):
CTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCACCAAAGACCCCCGAGTTCGA
TTACACTCAGCTTCGAGGGCATATCATTTACAGCATAA
Found at i:664747 original size:330 final size:331
Alignment explanation
Indices: 664014--664983 Score: 1403
Period size: 330 Copynumber: 2.9 Consensus size: 331
664004 TTTGAGTTCG
* * * ** * * * *
664014 ACTCAGCTCCAA-GGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAA
1 ACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAAC-AA
* * * *
664078 AGACCTTTGAGTTCGACTACGCTCAACT-CAACGACACATCGTTTGCAACATAGCTTAAGTCGAG
65 AGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAG
664142 AAGGGCTATCTGCCAACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTT
129 AAGGGCTATCTGCC-A--AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTT
* * * * * *
664207 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCA
191 GCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTACGCTCA
* *
664271 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCC
256 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---ACCAAAGACCC
*
664336 CCGAGTTCGATTAC
318 CCAAGTTCGATTAC
* * *
664350 ACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAA
1 ACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAACAAA
*
664415 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
66 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
* * *
664480 GGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCGGT
131 GGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGC
* *
664545 ATAACTTAAGTCGAGAAGGGTTATCCGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCC
196 ATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCC
* * **
664610 AAGGCATATCATTTACAGCATAGCTTAAGTCAAGAAGGGCTATCTG-CCAAAGACCCTTAAGTTC
261 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGACCAAAGACCCCCAAGTTC
664674 GATTAC
326 GATTAC
664680 ACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAACAAA
1 ACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAACAAA
* * *
664745 GACCTTTGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAA
66 GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
*
664810 GGGTTATCTGCC-AAAG-CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGC
131 GGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGC
* * * * *
664873 ACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGATTTCACTCAGCTCC
196 ATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCC
* * *
664938 AAGGCCCATCATTTGCAGCGTAGCTTAAGGCAAGAAGGGCTATCTG
261 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG
664984 TCAATAAAAT
Statistics
Matches: 574, Mismatches: 57, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
328 143 0.25
329 4 0.01
330 155 0.27
333 72 0.13
334 75 0.13
335 1 0.00
336 81 0.14
337 43 0.07
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (331 bp):
ACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATATGTCAACAAA
GACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAA
GGGCTATCTGCCAAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGC
ATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGATTACGCTCAGCTCC
AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGACCAAAGACCCCCAAGTTC
GATTAC
Found at i:665498 original size:13 final size:13
Alignment explanation
Indices: 665480--665505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
665470 TGTCCTATTT
665480 TTCGTTCCACGAA
1 TTCGTTCCACGAA
665493 TTCGTTCCACGAA
1 TTCGTTCCACGAA
665506 AAAGGACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (13 bp):
TTCGTTCCACGAA
Found at i:665754 original size:35 final size:33
Alignment explanation
Indices: 665698--665921 Score: 156
Period size: 35 Copynumber: 6.6 Consensus size: 33
665688 CTTATGTACA
*
665698 ATATATA-AGTTTT-AAAACATTTTGAAAATTGT
1 ATATATATAGTTTTAAAAACATTTTGAAAACT-T
* *
665730 ATAGTATATAGTTTTGAAATCATTTTGAAAA--T
1 ATA-TATATAGTTTTAAAAACATTTTGAAAACTT
*
665762 ATAATATATAGTTTTTAAAAAAACATTTTCTGAAAATTT
1 AT-ATATATAG-TTTT--AAAAACA-TTT-TGAAAACTT
*
665801 ATATATATAGTTTAAAAAAAACATTTTGGAAAACTT
1 ATATATATAGTTT--TAAAAACATTTT-GAAAACTT
* *
665837 ATATA-ATATTTTTAAAATCATTTTTGAAAACTAT
1 ATATATATAGTTTTAAAAACA-TTTTGAAAACT-T
* * * *
665871 ATAATATATAGTTTTGAAAACGTTTT-TAAA-TA
1 AT-ATATATAGTTTTAAAAACATTTTGAAAACTT
* *
665903 AAATATATAGTTTAAAAAA
1 ATATATATAGTTTTAAAAA
665922 ATATCTTTTT
Statistics
Matches: 157, Mismatches: 17, Indels: 37
0.74 0.08 0.18
Matches are distributed among these distances:
31 15 0.10
32 14 0.09
33 23 0.15
34 16 0.10
35 33 0.21
36 29 0.18
37 16 0.10
38 8 0.05
39 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (33 bp):
ATATATATAGTTTTAAAAACATTTTGAAAACTT
Found at i:665797 original size:37 final size:36
Alignment explanation
Indices: 665752--665890 Score: 128
Period size: 37 Copynumber: 3.8 Consensus size: 36
665742 TTTGAAATCA
665752 TTTTGAAAATATAATATATAGTTTTTAAAAAAACAT
1 TTTTGAAAATATAATATATAGTTTTTAAAAAAACAT
* *
665788 TTTCTGAAAATTTATATATATAG-TTTAAAAAAAACAT
1 TTT-TGAAAATATA-ATATATAGTTTTTAAAAAAACAT
* *
665825 TTTGGAAAACT-T-ATATAATA-TTTTT--AAAATCAT
1 TTTTGAAAA-TATAATAT-ATAGTTTTTAAAAAAACAT
*
665858 TTTTGAAAACTATATAATATATAGTTTTGAAAA
1 TTTTG-AAA--ATATAATATATAGTTTTTAAAA
665891 CGTTTTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 23
0.73 0.06 0.20
Matches are distributed among these distances:
33 11 0.13
34 7 0.08
35 7 0.08
36 14 0.17
37 34 0.41
38 8 0.10
39 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.42
Consensus pattern (36 bp):
TTTTGAAAATATAATATATAGTTTTTAAAAAAACAT
Found at i:665809 original size:70 final size:69
Alignment explanation
Indices: 665711--665948 Score: 199
Period size: 70 Copynumber: 3.4 Consensus size: 69
665701 TATAAGTTTT
* *
665711 AAAACA-TTTTGAAAATTGTATAGTATATAGTTTTGAAATCATTTTGAAAATATAATATATAGTT
1 AAAACATTTTTGAAAA-TATATA-TATATAGTTTTGAAAACATTTTGAAAATATAATATATAGTT
665775 TTTAAA
64 TTTAAA
* **
665781 AAAACATTTTCTGAAAATTTATATATATAGTTTAAAAAAAACATTTTGGAAAACT-T-ATATAAT
1 AAAACATTTT-TGAAAATATATATATATAGTTT--TGAAAACATTTT-GAAAA-TATAATAT-AT
665844 A-TTTTT--A
60 AGTTTTTAAA
* * * *
665851 AAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACGTTTT-TAAATAAAATATATAG--
1 AAAACATTTTTGAAAA-TATAT-ATATATAGTTTTGAAAACATTTTGAAAATATAATATATAGTT
665913 TTTAAA
64 TTTAAA
*
665919 AAAATATCTTTTTGAAACATATATA-ATATA
1 AAAACA--TTTTTGAAA-ATATATATATATA
665949 ATATGTATTA
Statistics
Matches: 138, Mismatches: 13, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
66 4 0.03
67 6 0.04
68 14 0.10
69 16 0.12
70 44 0.32
71 20 0.14
72 24 0.17
73 9 0.07
74 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (69 bp):
AAAACATTTTTGAAAATATATATATATAGTTTTGAAAACATTTTGAAAATATAATATATAGTTTT
TAAA
Found at i:665815 original size:36 final size:35
Alignment explanation
Indices: 665711--665948 Score: 147
Period size: 36 Copynumber: 6.8 Consensus size: 35
665701 TATAAGTTTT
**
665711 AAAACA-TTTTGAAAATTGTATAGTATATAGTTT-TG
1 AAAACATTTTTGAAAATT-TATA-TATATAGTTTAAA
* *
665746 AAATCA-TTTTGAAAATATA-ATATATAGTTTTTAAA
1 AAAACATTTTTGAAAATTTATATATATAG--TTTAAA
665781 AAAACATTTTCTGAAAATTTATATATATAGTTTAAAA
1 AAAACATTTT-TGAAAATTTATATATATAGTTT-AAA
* * **
665818 AAAACATTTTGGAAAACTTATATA-ATA-TTTTTA
1 AAAACATTTTTGAAAATTTATATATATAGTTTAAA
* * **
665851 AAATCATTTTTGAAAACTATATAATATATAGTTT-TG
1 AAAACATTTTTGAAAA-TTTAT-ATATATAGTTTAAA
* * *
665887 AAAACGTTTTT--AAA-TAAAATATATAGTTTAAA
1 AAAACATTTTTGAAAATTTATATATATAGTTTAAA
* *
665919 AAAATATCTTTTTGAAACATATATA-ATATA
1 AAAACA--TTTTTGAAA-ATTTATATATATA
665949 ATATGTATTA
Statistics
Matches: 158, Mismatches: 27, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
31 11 0.07
32 12 0.08
33 16 0.10
34 19 0.12
35 26 0.16
36 33 0.21
37 31 0.20
38 10 0.06
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (35 bp):
AAAACATTTTTGAAAATTTATATATATAGTTTAAA
Found at i:677480 original size:24 final size:24
Alignment explanation
Indices: 677441--677502 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
677431 TTTAGAAGTT
** * * *
677441 GAGTCAACTCGGACCGGGTTGATC
1 GAGTCAACTCAAACCGAGTTAACC
677465 GAGTCAACTCAAACCGAGTTAACC
1 GAGTCAACTCAAACCGAGTTAACC
*
677489 GAGTTAACTCAAAC
1 GAGTCAACTCAAAC
677503 ACAATCAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (24 bp):
GAGTCAACTCAAACCGAGTTAACC
Found at i:682701 original size:23 final size:23
Alignment explanation
Indices: 682675--682729 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
682665 TCGCATACGC
*
682675 TAAATGAACATATAAGCAAACGT
1 TAAACGAACATATAAGCAAACGT
* ** *
682698 TAAACAAACATATTCGTAAACGT
1 TAAACGAACATATAAGCAAACGT
682721 TAAACGAAC
1 TAAACGAAC
682730 TAGCACGAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (23 bp):
TAAACGAACATATAAGCAAACGT
Found at i:686994 original size:23 final size:23
Alignment explanation
Indices: 686968--687028 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
686958 GTGTTTGTGT
* * *
686968 TGTTCATTTATGTTCGTTTATTG
1 TGTTCGTTTATGTTCATTTATTA
* *
686991 TGTTTGTTTATGTTTATTTATTA
1 TGTTCGTTTATGTTCATTTATTA
687014 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
687029 TTTCGTTTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.13, C:0.07, G:0.16, T:0.64
Consensus pattern (23 bp):
TGTTCGTTTATGTTCATTTATTA
Found at i:687944 original size:45 final size:45
Alignment explanation
Indices: 687892--687997 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
687882 GATGCATTGG
** *
687892 TAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAAT
1 TAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAAT
* *
687937 TCGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAAT
1 TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
687982 TAGTGCATCGATGCAT
1 TAGTGCATCGATGCAT
687998 AAGACATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 48 0.91
46 5 0.09
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (45 bp):
TAGTGCATCGATGCATCCCATTAATAAGAAAACATCGAATGCAAT
Found at i:688008 original size:64 final size:64
Alignment explanation
Indices: 687940--688080 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 64
687930 ATGCAATTCG
* ** *
687940 TGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCA-ATTAGTGCATCGATGCATAAG-AC
1 TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCATATTA-TGCACCGATGCATAAGTA-
688003 A
64 A
* * * * *
688004 TGCATCGATGCATCTCAGTAATAAACAAATATCGAATGCATTTTATGCACCGATGCATCAGTAG
1 TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCATATTATGCACCGATGCATAAGTAA
688068 TGCATCGATGCAT
1 TGCATCGATGCAT
688081 ACCTTCATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 62 0.94
65 4 0.06
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGCATATTATGCACCGATGCATAAGTAA
Found at i:688852 original size:31 final size:31
Alignment explanation
Indices: 688814--688878 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
688804 AGAGTCGAGG
*
688814 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
688845 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
688876 GTT
1 GTT
688879 ACTGAGGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:688965 original size:29 final size:30
Alignment explanation
Indices: 688864--688962 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 30
688854 GGTTCTTCGG
* *
688864 GACCTATGGACAGTTACTGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
688894 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
688924 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
688953 GACCTCTGGA
1 GACCTCTGGA
688963 TAGGTCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 18 0.28
30 46 0.72
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:694159 original size:18 final size:18
Alignment explanation
Indices: 694136--694175 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
694126 CTGAATGAAA
694136 AAGATGTTGAAGAAGAAG
1 AAGATGTTGAAGAAGAAG
* *
694154 AAGATGTTGATGAAGATG
1 AAGATGTTGAAGAAGAAG
694172 AAGA
1 AAGA
694176 CTTTGTTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.20
Consensus pattern (18 bp):
AAGATGTTGAAGAAGAAG
Found at i:701155 original size:20 final size:20
Alignment explanation
Indices: 701119--701156 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
701109 ATCATATTCC
**
701119 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
701139 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
701157 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:705166 original size:31 final size:31
Alignment explanation
Indices: 705087--705168 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
705077 TTATTTTTCC
* *
705087 ACTTAATGTAGCCTTTTAACTCATAAAATAA
1 ACTTAATGTAGCCCTTTGACTCATAAAATAA
*
705118 ACCTAATGTAGCCCTTTGACTCATAAAATAA
1 ACTTAATGTAGCCCTTTGACTCATAAAATAA
705149 ACTTAATGTAGCCCTTTGAC
1 ACTTAATGTAGCCCTTTGAC
705169 CAACGTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.33
Consensus pattern (31 bp):
ACTTAATGTAGCCCTTTGACTCATAAAATAA
Found at i:707997 original size:2 final size:2
Alignment explanation
Indices: 707990--708017 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
707980 TAACTATAAT
707990 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
708018 ATTCTTGATA
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:709775 original size:2 final size:2
Alignment explanation
Indices: 709768--709817 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
709758 GAACACAATA
709768 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
709810 AT AT AT AT
1 AT AT AT AT
709818 GGGGCAGTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:722588 original size:5 final size:5
Alignment explanation
Indices: 722578--722607 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
722568 GAGAAAGATG
722578 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT
1 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT
722608 TCCTAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (5 bp):
GGGTT
Found at i:723293 original size:60 final size:60
Alignment explanation
Indices: 723217--723354 Score: 150
Period size: 60 Copynumber: 2.3 Consensus size: 60
723207 ATAAATGGGC
* * * * *
723217 AAAGTATATAAAATAGTCCCCCGATTATATAATGTTACTTTATTGAGTCTCTCAACTGTTA
1 AAAGT-TATAAAATAGTCACCCGATTATAGAACGTTACTTTATTCAGTCTCTCAACTATTA
** ** * * * *
723278 AAAGTTATAAAATAGTCATTCGATTATAGGGCGTTGCTTTGTTCAGTCTTTCGACTATTA
1 AAAGTTATAAAATAGTCACCCGATTATAGAACGTTACTTTATTCAGTCTCTCAACTATTA
723338 AAAGTTATAAAATAGTC
1 AAAGTTATAAAATAGTC
723355 GTATGACTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 59 0.92
61 5 0.08
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (60 bp):
AAAGTTATAAAATAGTCACCCGATTATAGAACGTTACTTTATTCAGTCTCTCAACTATTA
Found at i:724933 original size:97 final size:97
Alignment explanation
Indices: 724767--724960 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
724757 TGAACACCCC
724767 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
1 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
724832 AACCTTTAGAATTCTGGGTTTAGATGAACATG
66 AACCTTTAGAATTCTGGGTTTAGATGAACATG
724864 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
1 TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
724929 AACCTTTAGAATTCTGGGTTTAGATGAACATG
66 AACCTTTAGAATTCTGGGTTTAGATGAACATG
724961 AATAACAAGA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (97 bp):
TATGACTAATGACTAGTGGTTGGCAAGCAACGATTGGGGTAATTGTTGGTTGCCGGATTTTGGGC
AACCTTTAGAATTCTGGGTTTAGATGAACATG
Found at i:725997 original size:35 final size:35
Alignment explanation
Indices: 725958--726031 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
725948 CAATTTTCGC
725958 CTAACTCAGGGTTCTTACTTCTTTTTTTGATTAAG
1 CTAACTCAGGGTTCTTACTTCTTTTTTTGATTAAG
725993 CTAACTCAGGGTTCTTACTTCTTTTTTTGATTAAG
1 CTAACTCAGGGTTCTTACTTCTTTTTTTGATTAAG
726028 CTAA
1 CTAA
726032 GGTAATTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.47
Consensus pattern (35 bp):
CTAACTCAGGGTTCTTACTTCTTTTTTTGATTAAG
Found at i:728193 original size:22 final size:20
Alignment explanation
Indices: 728165--728233 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 20
728155 TTATTGATAA
728165 TTTTAATAGTATAATACTATAT
1 TTTTAATA-TATAATA-TATAT
728187 TTTTAATATTATAAT-TATAT
1 TTTTAATA-TATAATATATAT
728207 TATTATAATATATAATATTATAT
1 T-TT-TAATATATAATA-TATAT
728230 TTTT
1 TTTT
728234 TATCTTAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.14
21 9 0.21
22 21 0.50
23 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (20 bp):
TTTTAATATATAATATATAT
Found at i:728201 original size:8 final size:8
Alignment explanation
Indices: 728156--728228 Score: 52
Period size: 8 Copynumber: 9.9 Consensus size: 8
728146 AAAATATATT
728156 TATTGATAA
1 TATT-ATAA
728165 T-TT-TAA
1 TATTATAA
*
728171 TAGTATAA
1 TATTATAA
*
728179 TACTAT-A
1 TATTATAA
*
728186 T-TTTTAA
1 TATTATAA
728193 TATTAT-A
1 TATTATAA
*
728200 -ATTATAT
1 TATTATAA
728207 TATTATAA
1 TATTATAA
728215 TA-TATAA
1 TATTATAA
728222 TATTATA
1 TATTATA
728229 TTTTTTATCT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
6 11 0.22
7 13 0.26
8 25 0.50
9 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (8 bp):
TATTATAA
Found at i:728331 original size:14 final size:14
Alignment explanation
Indices: 728309--728342 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
728299 TTGAATTATT
728309 TAATATTTAAAATA
1 TAATATTTAAAATA
*
728323 TAATCTTTAAAATA
1 TAATATTTAAAATA
*
728337 AAATAT
1 TAATAT
728343 AATATTTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATATTTAAAATA
Found at i:728479 original size:18 final size:17
Alignment explanation
Indices: 728432--728484 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
728422 TATTTTAACA
*
728432 AATAATTAATATAATTTAT
1 AATAATT-ATAT-TTTTAT
728451 AATAATTATATTTTTAT
1 AATAATTATATTTTTAT
728468 AA-AATATAATATTTTTA
1 AATAAT-T-ATATTTTTA
728485 ATATTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 3 0.10
17 8 0.26
18 13 0.42
19 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATAATTATATTTTTAT
Found at i:728575 original size:17 final size:17
Alignment explanation
Indices: 728553--728585 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
728543 AATATTAAAT
*
728553 AAAATATTAATATTTTA
1 AAAATAATAATATTTTA
728570 AAAATAATAATATTTT
1 AAAATAATAATATTTT
728586 TAGTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATAATAATATTTTA
Found at i:728740 original size:14 final size:14
Alignment explanation
Indices: 728721--728766 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
728711 CAACAAATGT
728721 AATTCATTTTTCAA
1 AATTCATTTTTCAA
728735 AATTCATTTTTCAA
1 AATTCATTTTTCAA
728749 AATTCATTTTTCAA
1 AATTCATTTTTCAA
728763 AATT
1 AATT
728767 TTTTTACTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTCATTTTTCAA
Found at i:734628 original size:28 final size:28
Alignment explanation
Indices: 734563--734621 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
734553 TCCACATATA
734563 TTGATCAAAGTCGTCCAGCTTACATGAT
1 TTGATCAAAGTCGTCCAGCTTACATGAT
734591 TTGATCAAAGTCGTCCAGCTTACATGAT
1 TTGATCAAAGTCGTCCAGCTTACATGAT
734619 TTG
1 TTG
734622 GTGAAAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (28 bp):
TTGATCAAAGTCGTCCAGCTTACATGAT
Found at i:737858 original size:24 final size:24
Alignment explanation
Indices: 737804--737852 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
737794 TTTGAACTTG
737804 AAATTTAGATAAATCATTAATTTA
1 AAATTTAGATAAATCATTAATTTA
737828 AAATTTAGATAAAAT-ATTAATTTA
1 AAATTTAGAT-AAATCATTAATTTA
737852 A
1 A
737853 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAATTTAGATAAATCATTAATTTA
Found at i:740990 original size:33 final size:34
Alignment explanation
Indices: 740932--741030 Score: 143
Period size: 33 Copynumber: 3.0 Consensus size: 34
740922 GAGTCAGAAG
* *
740932 TCGCGTTTTGCAAAGA-CGAATTCCAT-CATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
740964 TCGCGTTCTGCAAAAAGCGAATTCCATGCA-TTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
*
740997 TCGCGATCTGCAAAAAGCG-ATTCCATGCATTTC
1 TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
741030 T
1 T
741031 TCTCGCGTCC
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
32 24 0.39
33 35 0.57
34 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (34 bp):
TCGCGTTCTGCAAAAAGCGAATTCCATGCATTTC
Found at i:741964 original size:58 final size:60
Alignment explanation
Indices: 741863--742005 Score: 143
Period size: 58 Copynumber: 2.4 Consensus size: 60
741853 CATAATGAAT
* * * *
741863 AGTCG-GGTAATCATTT-TGTAGCTTTTAATAGTCGGAGAACTCAATAAAGCAACATCATAA
1 AGTCGAGG-AATCATTTATATA-CTTTTAATAGTCAGAGAACTCAACAAAGCAACACCATAA
* * * *
741923 AGTCGAGGGATCATTTATA-ACTTTT-ATAGTCA-AGAGACTCAACAAAGTAACACCCTAT
1 AGTCGAGGAATCATTTATATACTTTTAATAGTCAGAGA-ACTCAACAAAGCAACACCATAA
*
741981 AGTCGATGAATCATTTATATACTTT
1 AGTCGAGGAATCATTTATATACTTT
742006 ATTCTTTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
57 3 0.04
58 40 0.58
59 10 0.14
60 13 0.19
61 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (60 bp):
AGTCGAGGAATCATTTATATACTTTTAATAGTCAGAGAACTCAACAAAGCAACACCATAA
Found at i:744986 original size:37 final size:36
Alignment explanation
Indices: 744946--745028 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 36
744936 AACCATACCT
* *
744946 AAAATTT-GCTTTTTGTTTCATTTTAGTACCCACCGTTA
1 AAAATTTAG-TTTTTGTTTCACTCTAGTA-CC-CCGTTA
*
744984 AAAACTTTAGTTTTTGTTTCACTCTAGTACCCCGTTC
1 AAAA-TTTAGTTTTTGTTTCACTCTAGTACCCCGTTA
745021 AAAATTTA
1 AAAATTTA
745029 ATGTTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 4 0.10
37 9 0.22
38 6 0.15
39 20 0.50
40 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.45
Consensus pattern (36 bp):
AAAATTTAGTTTTTGTTTCACTCTAGTACCCCGTTA
Found at i:746356 original size:305 final size:308
Alignment explanation
Indices: 745699--746645 Score: 1502
Period size: 305 Copynumber: 3.1 Consensus size: 308
745689 AACAGATTCA
* * *
745699 TCACT-AGTTTATTGCTATCCAGTTTGAGCTTTTCGTTTGCTCGGTTACACTCTGAAGCTTGATT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCGGTTACACTCTGCAGCTTGATT
*
745763 TCTTTGGCTGTTAAATTCGCTTTCGATTCGGCTAAATCGGCCTCTAACTTCTTAAACTCCATTGC
66 TCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAATCGGCCTCTAACTTCTTAAACTCCATTGC
* * *
745828 AAGTTCCAATTGTTGCC-CGATCTTCGAATTCAGCTCCTCGTTTTTAGTGGAAATACTCAGCAAT
131 AAGTTCCAGTTGTT-CCTCGATCTTCGAATTCAGCTCCTC-ATTTTAGTCGAAATACTCAGC-AT
*
745892 TCAGTCTCCTTATCCATTGATTTGGCTCTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATTC
193 TCAGTCTCCTTATCCATT-A-ATGGC-CTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATT-
*
745957 CGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCGTTCCACTTGC
254 CGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
*
746012 TCGCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCCTCGGTTACACTCTGCAGCTTGAT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTT-CTCGGTTACACTCTGCAGCTTGAT
746077 TTCTTTGGCTGTTAAATTCGCTTT-GATTCGACTAAATCGGCCTCTAACTTCTTAAACTCCATTG
65 TTCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAATCGGCCTCTAACTTCTTAAACTCCATTG
*
746141 CAAGTTCCAGTTGTTCCTCGATCTTCGAATTCAGCTCCTCATTTTAGCCGAAATACTCAGCATTC
130 CAAGTTCCAGTTGTTCCTCGATCTTCGAATTCAGCTCCTCATTTTAGTCGAAATACTCAGCATTC
**
746206 A-TCTCCTTATCTGTTAATGG-CTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATTCGCTTC
195 AGTCTCCTTATCCATTAATGGCCTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATTCGCTTC
*
746269 GAGTT-CGACTCCCTCTGCCATGATTGTGTTCGTATGCATTCCACTTGC
260 GAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
746317 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCGGTTACACTCTGCAGCTTGATT
1 TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCGGTTACACTCTGCAGCTTGATT
* *
746382 TCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAGTCGGCCTCTAACTTCTTCAACTCCATTGC
66 TCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAATCGGCCTCTAACTTCTTAAACTCCATTGC
* *
746447 AAGTTCCAGTTG-TCCTCGATATTCGAATTCAGCTCCTCATTTTAGTCGAAAGACTCAGCAGTTC
131 AAGTTCCAGTTGTTCCTCGATCTTCGAATTCAGCTCCTCATTTTAGTCGAAATACTCAGCA-TTC
* * *
746511 AGTCTCCCTATCCAATAACTTGGCTCTCGAATCTTCGACTTCGGCTTTCT-TTTTC-TTAATTCG
195 AGTCTCCTTATCCATTAA--TGGC-CTCGATTCTTCGACTTCGGCTTT-TGTTTTCTTTAATTC-
746574 GC-TCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
255 GCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
746627 TCACTAAG-TTATTGCTATC
1 TCACTAAGTTTATTGCTATC
746646 AATTCAGCTC
Statistics
Matches: 595, Mismatches: 26, Indels: 30
0.91 0.04 0.05
Matches are distributed among these distances:
304 93 0.16
305 135 0.23
306 23 0.04
307 37 0.06
308 3 0.01
309 28 0.05
310 80 0.13
311 13 0.02
312 5 0.01
313 24 0.04
314 107 0.18
315 47 0.08
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.40
Consensus pattern (308 bp):
TCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCGGTTACACTCTGCAGCTTGATT
TCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAATCGGCCTCTAACTTCTTAAACTCCATTGC
AAGTTCCAGTTGTTCCTCGATCTTCGAATTCAGCTCCTCATTTTAGTCGAAATACTCAGCATTCA
GTCTCCTTATCCATTAATGGCCTCGATTCTTCGACTTCGGCTTTTGTTTTCTTTAATTCGCTTCG
AGTTCCGACTCCCTCTGGCATGATTGTGTTCGTATGCATTCCACTTGC
Found at i:746887 original size:484 final size:485
Alignment explanation
Indices: 746168--747136 Score: 1715
Period size: 484 Copynumber: 2.0 Consensus size: 485
746158 TCGATCTTCG
*
746168 AATTCAGCTCCTCATTTTAGCCGAAATACTCAGCATTCATCTCCTTATCTGTTAATGGCTCGATT
1 AATTCAGCTCCTCATTTTAGCCGAAAGACTCAGCATTCATCTCCTTATCTGTTAATGGCTCGATT
*
746233 CTTCGACTTCGGCTTTTGTTTTCTTTAATTCGCTTCGAGTTCGACTCCCTCTGCCATGATTGTGT
66 CTTCGACTTCGGCTTTCGTTTTCTTTAATTCGCTTCGAGTTCGACTCCCTCTGCCATGATTGTGT
*
746298 TCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCGGT
131 TCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCCGT
746363 TACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAGTCGGCCTCTA
196 TACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAGTCGGCCTCTA
* *
746428 ACTTCTTCAACTCCATTGCAAGTTCCAGTTGT-CCTCGATATTCGAATTCAGCTCCTC-ATTTTA
261 ACTTCTTCAACTCCATTGCAAGTTCCAGTTGTCCCTCGATATTCGAATACAGCTCCTCGATTTCA
746491 GTCGAAAGACTCAGCAG-TTCAGTCTCCCTATCCAATAACTTGGCTCTCGAATCTTCGACTTCGG
326 GTCGAAAGACTCAGCAGTTTCAGTCTCCCTATCCAATAACTTGGCTCTCGAATCTTCGACTTCGG
*
746555 CTTTCTTTTTC-TTAATTCGGC-TCGAGTTCCGACTCCCTCTGGCATGATTGTG-TTCGTATGCA
391 CTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTTCGTATGCA
746617 TTCCACTTGCTCACTAAG-TTATTGCTATC
456 TTCCACTTGCTCACTAAGTTTATTGCTATC
746646 AATTCAGCTCCTCATTTTTAGCCG-AAGACTCAGCAGTTCAGTCTCCTTATCTGTTAAACTGGCT
1 AATTCAGCTCCTCA-TTTTAGCCGAAAGACTCAGCA-TTCA-TCTCCTTATCTGTT-AA-TGG--
746710 CTCGATTCTTCGACTTCGGC-TTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCA
59 CTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTC-GCTTCGAGTT-CGACTCCCTCTGCCA
746774 TGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
122 TGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
*
746839 TTT-TCCGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTCGATTCGGCTAAGT
187 TTTCTCCGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAGT
*
746903 CGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTCCCTCGATCTTCGAATACAGCTCC
252 CGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTCCCTCGATATTCGAATACAGCTCC
746968 TCGATTTCAGTCGAAAGACTCAGCAGTTTCAGTCTCCCTATCCAATAACTTGGCTCTCGAATCTT
317 TCGATTTCAGTCGAAAGACTCAGCAGTTTCAGTCTCCCTATCCAATAACTTGGCTCTCGAATCTT
747033 CGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTT
382 CGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTT
747098 TCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATC
447 TCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATC
747137 CAGTTTGAGC
Statistics
Matches: 467, Mismatches: 8, Indels: 19
0.95 0.02 0.04
Matches are distributed among these distances:
478 24 0.05
479 13 0.03
480 14 0.03
481 2 0.00
482 3 0.01
483 16 0.03
484 130 0.28
485 106 0.23
486 22 0.05
487 57 0.12
488 10 0.02
489 31 0.07
490 28 0.06
491 11 0.02
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (485 bp):
AATTCAGCTCCTCATTTTAGCCGAAAGACTCAGCATTCATCTCCTTATCTGTTAATGGCTCGATT
CTTCGACTTCGGCTTTCGTTTTCTTTAATTCGCTTCGAGTTCGACTCCCTCTGCCATGATTGTGT
TCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTTTTCTCCGT
TACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTCGATTCGACTAAGTCGGCCTCTA
ACTTCTTCAACTCCATTGCAAGTTCCAGTTGTCCCTCGATATTCGAATACAGCTCCTCGATTTCA
GTCGAAAGACTCAGCAGTTTCAGTCTCCCTATCCAATAACTTGGCTCTCGAATCTTCGACTTCGG
CTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGGCATGATTGTGTTTCGTATGCA
TTCCACTTGCTCACTAAGTTTATTGCTATC
Found at i:747865 original size:314 final size:314
Alignment explanation
Indices: 746646--748687 Score: 3243
Period size: 313 Copynumber: 6.5 Consensus size: 314
746636 TATTGCTATC
* * * *
746646 AATTCAGCTCCTCATTTTTAGCCG-AAGACTCAGCAGTTCAGTCTCCTTATCTGTTAAACTGGCT
1 AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCGTT-AATTGGCT
746710 CTCGATTCTTCGACTTCGGC-TTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCA
65 CTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCA
746774 TGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
130 TGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
* * *
746839 TTT--TCCGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTCGATTCGGCTAAG
195 TTTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAA
*
746902 TCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTCCCTCGATCTTCG
260 TCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
* * * * **
746957 AATACAGCTCCTCGATTTCAGTCGAAAGACTCAGCAGTTTCAGTCTCCCTATCCAATAACTTGGC
1 AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAG-TTCAGTCTCCTTATCCGTTAA-TTGGC
* *
747022 TCTCGAATCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGGC
64 TCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCC
747087 ATGATTGTGTTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCT-TTA
129 ATGATTGTG-TTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTT-
**
747151 CGTTTTGCTCGGTTACACTCT---GCTTGATTTCTTTGGCT-TT-AATTCGCTTTCAATTCGGCT
192 CGTTTTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCT
747211 AAATCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
257 AAATCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
* * * * * *
747269 AATTCAGCTCCTC-ATTTTAG-CCAGAACACTCAGCAGTTCAATCTCCTTATCCGTTGATTTGGA
1 AATTCAGCTCCTCGTTTTTAGTCGA-AAGACTCAGCAGTTCAGTCTCCTTATCCGTT-AATTGGC
* **
747332 TCTCGATTCTTCGATTTTTGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCC
64 TCTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCC
*
747397 ATGATTGTGTTCGTATGCATTCCACTTGCTCAC-AAGTTTATTGCTATCCAGTTTGAGCTTTTCG
129 ATGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCG
* *
747461 TTTTGCTCGGTTACACTCTGCAACTTGATTTCTTTGGCTGTTAAATTCGCTTTTAATTCGGCTAA
194 TTTTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAA
747526 ATCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
259 ATCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
* * *
747582 AATTCAGCTCCTTGTTTTTGGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCATTAATTGGCTC
1 AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCGTTAATTGGCTC
** * *
747647 TCGATTCTTCGACTTTTGCTTTCGTTTTCTTCAATTCGGCTTCGAGTTCCGACGCCCTCTGCCAT
66 TCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCAT
*
747712 GATTGTGTTCGTATGCATTCCACTTGCTCGCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTT
131 GATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTT
* * * *
747777 TTGCACGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGATTTTGATTCGTCTAGAT
196 TTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAAT
*
747842 CGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTGCTCGATCTTCG
261 CGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
* * *
747896 AATTCAGCTCCTTG-TTTTAGTCGAAATACTCAGCAGTTCAGTCTCCTTATCCATTAATTTGGCT
1 AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCGTTAA-TTGGCT
* *
747960 CTCGATTCTTCGACTT-TGCTTTCGTTTTCTTTAATCCGGCTTCGAGTTCCGACTCCCTCTGCCA
65 CTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCA
* *
748024 TGATTGTATTCGTATGCATTCCACTTGCTCTCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
130 TGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
**
748089 TTTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAGG
195 TTTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAA
*
748154 TCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTGCTCGATCTTCG
260 TCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
* * * *
748209 AATTCAGCTCCTCATTTTTAGCCGAAAGACTCAGCAGTTCAGTCTCCTTATCTGTTAAGCTGGCT
1 AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCGTTAA-TTGGCT
*
748274 CTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGTGTTCCGACTCCCTCTGCCA
65 CTCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCA
* *
748339 TGATTGTGTTCGTATGCATTCCACTTGCTCGCTAAGTTTATTGCTATCCAGTTTGAGCTCTTCCT
130 TGATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGT
* *
748404 TCTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTTGCTTTTGATTCGGCTAAA
195 TTTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAA
* *
748469 TCGGCCTCCAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTGCTCGATCTTCG
260 TCGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
* * *
748524 AATTCAGCTGCTCGTTTTTAGTTGAAATACTCAGCAGTTCAGTCTCCTTATCCGTTAATTGGCTC
1 AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCGTTAATTGGCTC
* *
748589 TCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCTGACTCCCTCTGGCAT
66 TCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCAT
* * *
748654 GATTGTGATCGTACGCATTTCACTTGCTCA-TAAG
131 GATTGTGTTCGTATGCATTCCACTTGCTCACTAAG
748688 CGCTTCTGAT
Statistics
Matches: 1611, Mismatches: 98, Indels: 42
0.92 0.06 0.02
Matches are distributed among these distances:
308 47 0.03
309 26 0.02
310 90 0.06
311 53 0.03
312 103 0.06
313 510 0.32
314 437 0.27
315 333 0.21
317 12 0.01
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (314 bp):
AATTCAGCTCCTCGTTTTTAGTCGAAAGACTCAGCAGTTCAGTCTCCTTATCCGTTAATTGGCTC
TCGATTCTTCGACTTCGGCTTTCGTTTTCTTTAATTCGGCTTCGAGTTCCGACTCCCTCTGCCAT
GATTGTGTTCGTATGCATTCCACTTGCTCACTAAGTTTATTGCTATCCAGTTTGAGCTCTTCGTT
TTGCTCGGTTACACTCTGCAGCTTGATTTCTTTGGCTGTTAAATTCGCTTTTGATTCGGCTAAAT
CGGCCTCTAACTTCTTCAACTCCATTGCAAGTTCCAGTTGTTCCTCGATCTTCG
Found at i:750020 original size:2 final size:2
Alignment explanation
Indices: 750013--750039 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
750003 CAAACACGTG
750013 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
750040 GTATGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:750044 original size:4 final size:4
Alignment explanation
Indices: 750037--750094 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
750027 TATATATATA
750037 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
750085 TATG TATG TA
1 TATG TATG TA
750095 AACTAATGAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:750885 original size:65 final size:66
Alignment explanation
Indices: 750756--750887 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 66
750746 AGAAGAAACA
750756 AGGATGGTTAGTTAAAGGCGCTTGGCTCATAGGGACGTTTACCTGTACTGGAGATGGTGATTCAT
1 AGGATGGTTAGTTAAAGGCGCTTGGCTCATAGGGACGTTTACCTGTACTGGAGATGGTGATTCAT
750821 T
66 T
750822 AGGATGGTTAGTTAAAGGCGCTTGGCTCATA-GGACGTTTACCTGTACTGGAGATGGTGATTCAT
1 AGGATGGTTAGTTAAAGGCGCTTGGCTCATAGGGACGTTTACCTGTACTGGAGATGGTGATTCAT
750886 T
66 T
750887 A
1 A
750888 AAGCACCACG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 35 0.53
66 31 0.47
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (66 bp):
AGGATGGTTAGTTAAAGGCGCTTGGCTCATAGGGACGTTTACCTGTACTGGAGATGGTGATTCAT
T
Found at i:752907 original size:439 final size:437
Alignment explanation
Indices: 752059--752931 Score: 1310
Period size: 439 Copynumber: 2.0 Consensus size: 437
752049 AAACCTTCCT
*
752059 CTAAAATTTAGGGTAAATTACACGTTTAGTAATTAAGCTATCAGTTTTGTTCATTTTTAGTACCT
1 CTAAAATTTAGGGTAAATTACACGTTTAGTAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
* * * *
752124 AAACTTTTAATTTTTTTAAAAAATCATGCCTAAAGTTTAGTTTTTGTTTCATTTTAGTACCCCCG
66 AAACTTTTAATTTTTTTAAAAAATCAT-CATAAAGCTTAGTTTTTGTTTCAATTTAGTACCCACG
* *
752189 TTCAAAATTTAACTTTAAATTTTGAAGAAAAAAATGAAAGTTTCGGCACTAAAATGGATCAGGAA
130 TTCAAAATTTAACTTTAAATTTTGAAGAAAAAAATGAAAGCTTCGGCACTAAAATGGACCAGGAA
*
752254 CTAAACGCGTTTAAATTTTTAACAATGGGTACTAAAATGAAACAAAAGCTAAACTTTAAGTATGA
195 CTAAACGCGTTTAAATTTTTAACAAGGGGTACTAAAATGAAACAAAAGCTAAACTTTAAGTATGA
* * * *
752319 TTTTGAAAAAATTAAAAAATTAGATACTAAAATGGACCAAAACTAATAATTTAGATATTGAATGT
260 TTTTGAAAAAATTAAAAAATTAGATACTAAAACGGACAAAAACTAATAATTTAGATACTGAATGC
*
752384 GTAGTTTACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATATGTCTT
325 GTAGTTGACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATATGTCTT
*
752449 GCATTGTAATTAAACCTTCCTTTTCTTTCTCATCTATTTAAGGATACAAG
390 GCATTGTAATTAAACCTTCC-TTCCTTTCTCATCTA-TTAAGGATACAAG
752499 CTAAAATTTAGGGTAAATTACACGTTTAG-AATTAAGCTATCAGTTTTGCTCA-TTTTAGTACCT
1 CTAAAATTTAGGGTAAATTACACGTTTAGTAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
* *
752562 -AACTTTTAATTTTTTTAAAACCAT-AT-ATAAAAGCTTAGTTTTTTTGTTTCAATTTAGTACTC
66 AAACTTTTAATTTTTTTAAAA-AATCATCAT-AAAGCTTAG--TTTTTGTTTCAATTTAGTACCC
* * * *
752624 ATGTTCAAAATTTAACTTTAATTTTTTTAA-AAAAAAATTGAAAGCTTCGGTACTAAAATGGACC
127 ACGTTCAAAATTTAACTTTAA-ATTTTGAAGAAAAAAA-TGAAAGCTTCGGCACTAAAATGGACC
* ** * * *
752688 AGGAACTAAACGCGTTTAAGTTTTTAACGGCGGGGTACTAAAATGAAATAAAAG-TTAACTTTAG
190 AGGAACTAAACGCGTTTAAATTTTTAAC-AAGGGGTACTAAAATGAAACAAAAGCTAAACTTTAA
* * * * *
752752 GTATGGTTTTGAAAAAATTAAAAATTTAGGTATTAAAACGGACAAAAACTAATAATTTAGGTACT
254 GTATGATTTTGAAAAAATTAAAAAATTAGATACTAAAACGGACAAAAACTAATAATTTAGATACT
* *
752817 GAATGCGTAGTTGACGTACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATGTA
319 GAATGCGTAGTTGACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATA
752882 TGTCTTGCATTGTAATTAAACCTTCCTTCCTTTCTCATCTATTAAGGATA
384 TGTCTTGCATTGTAATTAAACCTTCCTTCCTTTCTCATCTATTAAGGATA
752932 GATACTAAGA
Statistics
Matches: 393, Mismatches: 33, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
435 1 0.00
436 8 0.02
437 31 0.08
438 73 0.19
439 230 0.59
440 50 0.13
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (437 bp):
CTAAAATTTAGGGTAAATTACACGTTTAGTAATTAAGCTATCAGTTTTGCTCATTTTTAGTACCT
AAACTTTTAATTTTTTTAAAAAATCATCATAAAGCTTAGTTTTTGTTTCAATTTAGTACCCACGT
TCAAAATTTAACTTTAAATTTTGAAGAAAAAAATGAAAGCTTCGGCACTAAAATGGACCAGGAAC
TAAACGCGTTTAAATTTTTAACAAGGGGTACTAAAATGAAACAAAAGCTAAACTTTAAGTATGAT
TTTGAAAAAATTAAAAAATTAGATACTAAAACGGACAAAAACTAATAATTTAGATACTGAATGCG
TAGTTGACATACTAAGATTAGTGGGATTCCAATTATTAGATGGCACTAAGATTATATATGTCTTG
CATTGTAATTAAACCTTCCTTCCTTTCTCATCTATTAAGGATACAAG
Found at i:756736 original size:45 final size:46
Alignment explanation
Indices: 756671--756764 Score: 145
Period size: 45 Copynumber: 2.0 Consensus size: 46
756661 TTTATATTAG
*
756671 AAGTCGAACTCGAACATATAAAATCTTAG-ACAAACTTAAATTTAT
1 AAGTCGAACTCGAACATATAAAATCTTAGAAAAAACTTAAATTTAT
* *
756716 AAGTCGAACTCGAACTTATAAAATCTTAGAAAAAAATTTAAATTTAT
1 AAGTCGAACTCGAACATATAAAATCTTAG-AAAAAACTTAAATTTAT
756763 AA
1 AA
756765 ATTTTAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 28 0.64
47 16 0.36
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (46 bp):
AAGTCGAACTCGAACATATAAAATCTTAGAAAAAACTTAAATTTAT
Found at i:756821 original size:16 final size:16
Alignment explanation
Indices: 756784--756823 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
756774 GACAAAAATA
*
756784 AATTTAAATATATAAT
1 AATTTTAATATATAAT
**
756800 TTTTTTAATATATAAT
1 AATTTTAATATATAAT
756816 AATTTTAA
1 AATTTTAA
756824 ATTTTCAAAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTAATATATAAT
Found at i:759215 original size:19 final size:20
Alignment explanation
Indices: 759193--759238 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
759183 AAATTATATA
*
759193 TTTAAAATAACACGTAAA-T
1 TTTAAAATAACACCTAAATT
*
759212 TTTAAAATAACTCCTAAATT
1 TTTAAAATAACACCTAAATT
759232 TTTAAAA
1 TTTAAAA
759239 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (20 bp):
TTTAAAATAACACCTAAATT
Found at i:772627 original size:3 final size:3
Alignment explanation
Indices: 772619--772643 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
772609 TTAGTACAGC
772619 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
772644 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:773087 original size:14 final size:14
Alignment explanation
Indices: 773068--773110 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
773058 GTGTAATATT
773068 ATAAATAGTTTT-TA
1 ATAAATA-TTTTATA
773082 ATAAATATTTTATA
1 ATAAATATTTTATA
773096 AT-AAT-TTTTATA
1 ATAAATATTTTATA
773108 ATA
1 ATA
773111 TTTAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
ATAAATATTTTATA
Found at i:773089 original size:23 final size:22
Alignment explanation
Indices: 773061--773112 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
773051 TTAGTTCGTG
*
773061 TAATATTATA-AATAGTTTTTAA
1 TAATATTATATAATAATTTTT-A
*
773083 TAAATATTTTATAATAATTTTTA
1 T-AATATTATATAATAATTTTTA
773106 TAATATT
1 TAATATT
773113 TAATTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTATATAATAATTTTTA
Found at i:779566 original size:16 final size:17
Alignment explanation
Indices: 779534--779575 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
779524 AGTATTTAAA
*
779534 AATATTT-TATATTTTT
1 AATATTTATATATATTT
779550 AATATTTAT-TATATTT
1 AATATTTATATATATTT
*
779566 ATTATTTATA
1 AATATTTATA
779576 ATTTTATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATATTTATATATATTT
Found at i:779628 original size:16 final size:19
Alignment explanation
Indices: 779586--779628 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
779576 ATTTTATGAG
779586 GTAAAAATATAATATGATT
1 GTAAAAATATAATATGATT
779605 GT-AAAATATAAT-T-ATT
1 GTAAAAATATAATATGATT
779621 -TAAAAATA
1 GTAAAAATA
779629 ATCTCTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 9 0.39
17 1 0.04
18 10 0.43
19 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (19 bp):
GTAAAAATATAATATGATT
Found at i:784947 original size:21 final size:21
Alignment explanation
Indices: 784921--784975 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
784911 GTTAACTGTT
*
784921 ACGGTGATGATGTGATAATTC
1 ACGGTGATGACGTGATAATTC
* *
784942 ACGGTGCTGACGTGATAATCC
1 ACGGTGATGACGTGATAATTC
* *
784963 ATGGTGCTGACGT
1 ACGGTGATGACGT
784976 CACAGCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (21 bp):
ACGGTGATGACGTGATAATTC
Found at i:785033 original size:20 final size:20
Alignment explanation
Indices: 785008--785048 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
784998 ACTTGAACGG
*
785008 ATGATATGGTAGATTAACTA
1 ATGATATGGTAAATTAACTA
*
785028 ATGATATTGTAAATTAACTA
1 ATGATATGGTAAATTAACTA
785048 A
1 A
785049 ATTGATAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGATATGGTAAATTAACTA
Found at i:787280 original size:2 final size:2
Alignment explanation
Indices: 787273--787297 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
787263 TTGAAAGGTA
787273 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
787298 AAGATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:790510 original size:20 final size:20
Alignment explanation
Indices: 790487--790529 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
790477 GAGTACATGC
790487 AACTAGAAATGAGATAAATA
1 AACTAGAAATGAGATAAATA
790507 AACTAGAAATGAGATAAATA
1 AACTAGAAATGAGATAAATA
790527 AAC
1 AAC
790530 GCTACTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.14, T:0.19
Consensus pattern (20 bp):
AACTAGAAATGAGATAAATA
Found at i:798480 original size:33 final size:33
Alignment explanation
Indices: 798439--798533 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 33
798429 ACAGCCACGA
** * *
798439 AGAT-GCCCTGGTTTTCTTAGGGATTCTTACAT
1 AGATGGCCCTGGGGTTCTTAGGAATTCTTACAG
* *
798471 AGATGGCCCTGGGGTTCTTAGGAATTTTTACGG
1 AGATGGCCCTGGGGTTCTTAGGAATTCTTACAG
* *
798504 AGATGCCCCTGGGGTTCTTAGGTATTCTTA
1 AGATGGCCCTGGGGTTCTTAGGAATTCTTA
798534 GGTCATTACA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 4 0.08
33 49 0.92
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (33 bp):
AGATGGCCCTGGGGTTCTTAGGAATTCTTACAG
Found at i:800728 original size:17 final size:18
Alignment explanation
Indices: 800706--800748 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
800696 ATAAAATAAT
* *
800706 ATTTATCATTAT-TTTAA
1 ATTTATCATAATCATTAA
*
800723 ATTTATAATAATCATTAA
1 ATTTATCATAATCATTAA
800741 ATTTATCA
1 ATTTATCA
800749 AAATATTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATCATAATCATTAA
Found at i:800877 original size:11 final size:10
Alignment explanation
Indices: 800817--800888 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 10
800807 AAATTGTTTT
*
800817 ATAATAATTA
1 ATAATATTTA
800827 ATAA-ATTTA
1 ATAATATTTA
*
800836 ATGAATATTTT
1 AT-AATATTTA
*
800847 ATAATAATATA
1 ATAAT-ATTTA
*
800858 ATAAAATTTA
1 ATAATATTTA
*
800868 ATAATTATTTT
1 ATAA-TATTTA
800879 ATAAGTATTT
1 ATAA-TATTT
800889 GAAAATGCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
9 6 0.12
10 17 0.35
11 26 0.53
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
ATAATATTTA
Found at i:800877 original size:32 final size:30
Alignment explanation
Indices: 800799--800882 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 30
800789 ATTTTTTGAG
* *
800799 AAATTTAAAAATTGTTTTATAATAATTAAT
1 AAATTTAATAATTATTTTATAATAATTAAT
800829 AAATTTAATGAA-TATTTTATAATAATATAAT
1 AAATTTAAT-AATTATTTTATAATAAT-TAAT
800860 AAAATTTAATAATTATTTTATAA
1 -AAATTTAATAATTATTTTATAA
800883 GTATTTGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
30 21 0.44
31 8 0.17
32 19 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
AAATTTAATAATTATTTTATAATAATTAAT
Found at i:801332 original size:21 final size:21
Alignment explanation
Indices: 801283--801325 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
801273 CCCGAAATAA
*
801283 TAATAAAAATATTATTTTTAT
1 TAATAAAAATATTATTTTAAT
801304 TAATAAAAATATTCA-TTTAAT
1 TAATAAAAATATT-ATTTTAAT
801325 T
1 T
801326 GAAAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATAAAAATATTATTTTAAT
Found at i:807304 original size:94 final size:97
Alignment explanation
Indices: 807183--807375 Score: 349
Period size: 94 Copynumber: 2.0 Consensus size: 97
807173 GTCTTCAGAA
807183 TCTTCAGCTCCTGCTACGCAATTAGGTTTGATTCAGGATATCTTTAA-TCCATTGAAATTGCTTG
1 TCTTCAGCTCCTGCTACGCAATTAGGTTTGATTCAGGATATCTTTAACTCCATTGAAATTGCTTG
807247 TTAAG-TT-TTGAGATTGTAGATTGGCAGGCT
66 TTAAGTTTATTGAGATTGTAGATTGGCAGGCT
807277 TCTTCAGCTCCTGCTACTGC-ATTAGGTTTGATTCAGGATATCTTTAACTCCATTGAAATTGCTT
1 TCTTCAGCTCCTGCTAC-GCAATTAGGTTTGATTCAGGATATCTTTAACTCCATTGAAATTGCTT
807341 GTTAAGTTTATTGAGATTGTAGATTGGCAGGCT
65 GTTAAGTTTATTGAGATTGTAGATTGGCAGGCT
807374 TC
1 TC
807376 ATGTTTAGCT
Statistics
Matches: 95, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
94 44 0.46
95 24 0.25
96 2 0.02
97 25 0.26
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (97 bp):
TCTTCAGCTCCTGCTACGCAATTAGGTTTGATTCAGGATATCTTTAACTCCATTGAAATTGCTTG
TTAAGTTTATTGAGATTGTAGATTGGCAGGCT
Found at i:811411 original size:12 final size:12
Alignment explanation
Indices: 811394--811418 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
811384 TGGTTTAAAC
811394 TCTATTAAAAAT
1 TCTATTAAAAAT
811406 TCTATTAAAAAT
1 TCTATTAAAAAT
811418 T
1 T
811419 TAAAGTACGT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TCTATTAAAAAT
Found at i:812536 original size:51 final size:51
Alignment explanation
Indices: 812467--812610 Score: 211
Period size: 51 Copynumber: 2.8 Consensus size: 51
812457 TTCATACTAC
* *
812467 AAAAAATGTATCATTTAACACATA-TTACACCGGTGTAAGTGAA-TACAATA
1 AAAAAATGTATCACTTAACACATACTTACACCGGTGTAAGT-AACTAAAATA
*
812517 AAAATAGTGTATCACTTAACACATACTTACACCGGTGTAAGTAACTAAAATA
1 AAAA-AATGTATCACTTAACACATACTTACACCGGTGTAAGTAACTAAAATA
* *
812569 AAAAAATGTAACACTTAACACATACTTACACTGGTGTAAGTA
1 AAAAAATGTATCACTTAACACATACTTACACCGGTGTAAGTA
812611 TATACATCTC
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
50 4 0.05
51 55 0.65
52 26 0.31
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (51 bp):
AAAAAATGTATCACTTAACACATACTTACACCGGTGTAAGTAACTAAAATA
Found at i:813219 original size:35 final size:35
Alignment explanation
Indices: 813173--813243 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
813163 ATATAAATTG
813173 TTTAAGACGTGTTTTGCCTCAATGTGCTCAAACAC
1 TTTAAGACGTGTTTTGCCTCAATGTGCTCAAACAC
813208 TTTAAGACGTGTTTTGCCTCAATGTGCTCAAACAC
1 TTTAAGACGTGTTTTGCCTCAATGTGCTCAAACAC
813243 T
1 T
813244 AGAAGATGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (35 bp):
TTTAAGACGTGTTTTGCCTCAATGTGCTCAAACAC
Found at i:815852 original size:21 final size:20
Alignment explanation
Indices: 815826--815917 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 20
815816 GTGAATCGGG
815826 CTCTTGAACGGTAGGAGGGAC
1 CTCTTGAACGGTAGGAGGG-C
815847 CTCTTGAACGATGATA-G-GGGC
1 CTCTTGAACG--G-TAGGAGGGC
815868 CTCTTGAACGATGATAGGA--GC
1 CTCTTGAACG--G-TAGGAGGGC
*
815889 CTCTTGAACGGTGGGAGTGGC
1 CTCTTGAACGGTAGGAG-GGC
815910 CTCTTGAA
1 CTCTTGAA
815918 TGATGACAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 16
0.78 0.01 0.20
Matches are distributed among these distances:
18 4 0.06
19 1 0.02
21 49 0.79
22 4 0.06
23 2 0.03
24 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.24
Consensus pattern (20 bp):
CTCTTGAACGGTAGGAGGGC
Found at i:816324 original size:21 final size:21
Alignment explanation
Indices: 816285--816334 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
816275 ACCATTGTCG
* * *
816285 TCACATAAAGTACCGACCTTA
1 TCACGTAAAGTACCAACCTCA
*
816306 TCACGTAAAGTACTAACCTCA
1 TCACGTAAAGTACCAACCTCA
816327 TCACGTAA
1 TCACGTAA
816335 CTCCCCTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.24
Consensus pattern (21 bp):
TCACGTAAAGTACCAACCTCA
Found at i:817859 original size:20 final size:20
Alignment explanation
Indices: 817834--817938 Score: 123
Period size: 20 Copynumber: 5.5 Consensus size: 20
817824 CTAAAATCGC
*
817834 GTTGCGATTTTCATTTTCGT
1 GTTGCGAATTTCATTTTCGT
817854 GTTGCG------ATTTTCGT
1 GTTGCGAATTTCATTTTCGT
* *
817868 GTTGTGAATTTTATTTTCGT
1 GTTGCGAATTTCATTTTCGT
817888 GTTGCGAATTTCATTTTCGT
1 GTTGCGAATTTCATTTTCGT
*
817908 ATTGCGAATTTCATTTTCGT
1 GTTGCGAATTTCATTTTCGT
*
817928 GTTGCAAATTT
1 GTTGCGAATTT
817939 ATGTTTCAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.18
20 60 0.82
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.52
Consensus pattern (20 bp):
GTTGCGAATTTCATTTTCGT
Found at i:818337 original size:24 final size:23
Alignment explanation
Indices: 818273--818338 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
818263 GATGTAGATA
818273 GACGGATTTCGCCG-GAGATGGG
1 GACGGATTTCGCCGAGAGATGGG
* *
818295 GACGGATTTCATCGGAGAGATGGG
1 GACGGATTTC-GCCGAGAGATGGG
*
818319 GACGGATATCGCCGTAGAGA
1 GACGGATTTCGCCG-AGAGA
818339 GTGAGAGATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 10 0.28
23 4 0.11
24 22 0.61
ACGTcount: A:0.24, C:0.17, G:0.41, T:0.18
Consensus pattern (23 bp):
GACGGATTTCGCCGAGAGATGGG
Found at i:818680 original size:2 final size:2
Alignment explanation
Indices: 818668--818710 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
818658 CAAATTTTAT
818668 TA TA T- 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 TA TA TA
818709 TA
1 TA
818711 ATAGAAACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:818941 original size:24 final size:24
Alignment explanation
Indices: 818914--819002 Score: 58
Period size: 24 Copynumber: 3.6 Consensus size: 24
818904 TCAAATGAAT
*
818914 GTTAATTTTTAAAAAAAGTTAACA
1 GTTAATTTTTAAAAAAAGTTAAAA
*
818938 GTT-ATATCTTAAATAAACA-TTAGAAA
1 GTTAAT-TTTTAAA-AAA-AGTTA-AAA
* ** *
818964 TTTAATTTTTAAAATGAGTTAATA
1 GTTAATTTTTAAAAAAAGTTAAAA
818988 -TTAATTTCTTAAAAA
1 GTTAATTT-TTAAAAA
819003 TAAATAAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
23 9 0.18
24 18 0.36
25 10 0.20
26 11 0.22
27 2 0.04
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (24 bp):
GTTAATTTTTAAAAAAAGTTAAAA
Found at i:823008 original size:2 final size:2
Alignment explanation
Indices: 823001--823027 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
822991 CAGTTGAATC
823001 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
823028 GTGGCGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:823700 original size:16 final size:17
Alignment explanation
Indices: 823650--823701 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
823640 AAAATAAAAA
823650 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
823667 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
823682 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
823698 AATT
1 AATT
823702 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 11 0.38
17 4 0.14
18 3 0.10
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:825870 original size:2 final size:2
Alignment explanation
Indices: 825863--825887 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
825853 CGTCCTTCCA
825863 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
825888 GGGAACCCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:826494 original size:2 final size:2
Alignment explanation
Indices: 826487--826517 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
826477 CAGTATTTTA
*
826487 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
826518 CACCAAACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:830074 original size:2 final size:2
Alignment explanation
Indices: 830067--830104 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
830057 TTATAAGTTC
830067 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
830105 GTATTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:837347 original size:2 final size:2
Alignment explanation
Indices: 837342--837367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
837332 ACACACACAC
837342 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
837368 CCAAGCACAA
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:841466 original size:3 final size:3
Alignment explanation
Indices: 841458--841489 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
841448 CAAATTGTCC
841458 TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T
841490 AACAAGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:842572 original size:31 final size:31
Alignment explanation
Indices: 842537--842603 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
842527 ACTGATTTTT
842537 TTGTTTGTATCCGTTCATTAAGAAATTTAGC
1 TTGTTTGTATCCGTTCATTAAGAAATTTAGC
* * *
842568 TTGTTTGTGTTCGTTCATTAATAAATTTAGC
1 TTGTTTGTATCCGTTCATTAAGAAATTTAGC
842599 TTGTT
1 TTGTT
842604 CGTGTTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.51
Consensus pattern (31 bp):
TTGTTTGTATCCGTTCATTAAGAAATTTAGC
Found at i:842609 original size:31 final size:31
Alignment explanation
Indices: 842548--842616 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
842538 TGTTTGTATC
*
842548 CGTTCATTAAGAAATTTAGCTTGTTTGTGTT
1 CGTTCATTAAGAAATTTAGCTTGTTCGTGTT
*
842579 CGTTCATTAATAAATTTAGCTTGTTCGTGTT
1 CGTTCATTAAGAAATTTAGCTTGTTCGTGTT
*
842610 CATTCAT
1 CGTTCAT
842617 GTTCATTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (31 bp):
CGTTCATTAAGAAATTTAGCTTGTTCGTGTT
Done.