Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006691.1 Hibiscus syriacus cultivar Beakdansim tig00016637_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: 1195339
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:797524 original size:18 final size:18
Alignment explanation
Indices: 797501--797552 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
797491 TGTGTTCTAT
797501 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
*
797519 GTGGTCCTTCAGGACATA
1 GTGGTCCTTCGGGACATA
* *
797537 GTGGTCATACGGGACA
1 GTGGTCCTTCGGGACA
797553 AATTCTATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.25
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:801832 original size:18 final size:18
Alignment explanation
Indices: 801790--801833 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
801780 TGTGTTATAT
* *
801790 GTGGTCATTCGGGACATA
1 GTGGTCCTTCAGGACATA
801808 GTGGTCCTTCAGGACATA
1 GTGGTCCTTCAGGACATA
801826 GTGGTCCT
1 GTGGTCCT
801834 ACGGGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (18 bp):
GTGGTCCTTCAGGACATA
Found at i:802819 original size:15 final size:15
Alignment explanation
Indices: 802799--802828 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
802789 GGAGATTTTA
802799 ACTCCTTCATCATTT
1 ACTCCTTCATCATTT
802814 ACTCCTTCATCATTT
1 ACTCCTTCATCATTT
802829 CCTATATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
ACTCCTTCATCATTT
Found at i:804423 original size:17 final size:17
Alignment explanation
Indices: 804401--804435 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
804391 GAGAAGTGAG
804401 AGAAGTTCGTTGAATCC
1 AGAAGTTCGTTGAATCC
*
804418 AGAAGTTTGTTGAATCC
1 AGAAGTTCGTTGAATCC
804435 A
1 A
804436 AAACAGCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (17 bp):
AGAAGTTCGTTGAATCC
Found at i:808847 original size:39 final size:42
Alignment explanation
Indices: 808756--808851 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 42
808746 GTAAAAGAAG
*
808756 TTTATAACT-AAAATTATTATTATATTAATTTTATATTATTTATAT
1 TTTATAA-TGAAAAATATTATTATATTAA-TTTATATTA--TATAT
808801 TTT-TAATGAAAAATATTATTATATTAA-TTATATTA-AT-T
1 TTTATAATGAAAAATATTATTATATTAATTTATATTATATAT
808839 TTTATAATGAAAA
1 TTTATAATGAAAA
808852 TAATCAATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
38 4 0.08
39 11 0.23
42 8 0.17
43 1 0.02
44 21 0.44
45 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (42 bp):
TTTATAATGAAAAATATTATTATATTAATTTATATTATATAT
Found at i:809431 original size:22 final size:21
Alignment explanation
Indices: 809371--809431 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 21
809361 TTTAAAAGTC
*
809371 AATTTTTTTAAATTTTAACCAT
1 AATTATTTTAAATTTTAA-CAT
*
809393 GATTATTTTAAATATTTTAA-AT
1 AATTATTTT-AA-ATTTTAACAT
809415 AATTAAATTTTAAATTT
1 AATT--ATTTTAAATTT
809432 GTATCTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 16 0.50
23 4 0.12
24 12 0.38
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTATTTTAAATTTTAACAT
Found at i:809659 original size:22 final size:21
Alignment explanation
Indices: 809599--809659 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 21
809589 TTTAAAAGTC
*
809599 AATTTTTTTAAATTTTAACCAT
1 AATTATTTTAAATTTTAA-CAT
*
809621 GATTATTTTAAATATTTTAA-AT
1 AATTATTTT-AA-ATTTTAACAT
809643 AATTAAATTTTAAATTT
1 AATT--ATTTTAAATTT
809660 GTATATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 16 0.50
23 4 0.12
24 12 0.38
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (21 bp):
AATTATTTTAAATTTTAACAT
Found at i:809662 original size:228 final size:229
Alignment explanation
Indices: 809265--809725 Score: 888
Period size: 228 Copynumber: 2.0 Consensus size: 229
809255 CCATAAACTT
*
809265 TAATAATATTCAGATTCAATGATTTGAATTTTACCATGCTAATATGTGTTCACAAATACTCCATT
1 TAATAATATTCAGATTCAATGATTTGAATTTTACAATGCTAATATGTGTTCACAAATACTCCATT
*
809330 TCGTTTCATTAAATTTGTATCTTATTGTTTTTTTAAAAGTCAATTTTTTTAAATTTTAACCATGA
66 TCGTTTCATTAAATTTGTATCTTATTGATTTTTTAAAAGTCAATTTTTTTAAATTTTAACCATGA
*
809395 TTATTTTAAATATTTTAAATAATTAAATTTTAAATTTGTATCTTATTTTGAATTTTTTAA-TTTT
131 TTATTTTAAATATTTTAAATAATTAAATTTTAAATTTGTATATTATTTTGAATTTTTTAATTTTT
809459 TTTTATATTTTTATTAATAACAAATTTTAAATAA
196 TTTTATATTTTTATTAATAACAAATTTTAAATAA
809493 TAATAATATTCAGATTCAATGATTTGAATTTTACAATGCTAATATGTGTTCACAAATACTCCATT
1 TAATAATATTCAGATTCAATGATTTGAATTTTACAATGCTAATATGTGTTCACAAATACTCCATT
809558 TCGTTTCATTAAATTTGTATCTTATTGATTTTTTAAAAGTCAATTTTTTTAAATTTTAACCATGA
66 TCGTTTCATTAAATTTGTATCTTATTGATTTTTTAAAAGTCAATTTTTTTAAATTTTAACCATGA
809623 TTATTTTAAATATTTTAAATAATTAAATTTTAAATTTGTATATTATTTTGAATTTTTTAATTTTT
131 TTATTTTAAATATTTTAAATAATTAAATTTTAAATTTGTATATTATTTTGAATTTTTTAATTTTT
809688 TTTTATATTTTTATTAATAACAAATTTTAAATAA
196 TTTTATATTTTTATTAATAACAAATTTTAAATAA
809722 TAAT
1 TAAT
809726 GAGTCAAAAG
Statistics
Matches: 229, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
228 187 0.82
229 42 0.18
ACGTcount: A:0.35, C:0.07, G:0.06, T:0.52
Consensus pattern (229 bp):
TAATAATATTCAGATTCAATGATTTGAATTTTACAATGCTAATATGTGTTCACAAATACTCCATT
TCGTTTCATTAAATTTGTATCTTATTGATTTTTTAAAAGTCAATTTTTTTAAATTTTAACCATGA
TTATTTTAAATATTTTAAATAATTAAATTTTAAATTTGTATATTATTTTGAATTTTTTAATTTTT
TTTTATATTTTTATTAATAACAAATTTTAAATAA
Found at i:809773 original size:16 final size:15
Alignment explanation
Indices: 809748--809777 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
809738 AAGAAAAGTG
809748 ATAAAAATTTAATAA
1 ATAAAAATTTAATAA
809763 ATAATAAATTTAATA
1 ATAA-AAATTTAATA
809778 GAACGGACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAAAATTTAATAA
Found at i:824360 original size:20 final size:21
Alignment explanation
Indices: 824311--824362 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
824301 TTATTTTAAG
* *
824311 TATATGTATTCAATATACATA
1 TATATGTTTTAAATATACATA
824332 TATATGTTTTAAATAT-CATA
1 TATATGTTTTAAATATACATA
824352 TGATA-GTTTTA
1 T-ATATGTTTTA
824363 CTTGAGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (21 bp):
TATATGTTTTAAATATACATA
Found at i:829006 original size:22 final size:22
Alignment explanation
Indices: 828981--829033 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
828971 CCTAATTTAA
828981 TGAATTTAATATTCATTGAAGT
1 TGAATTTAATATTCATTGAAGT
829003 TGAATTTAATATTCATTGAAGT
1 TGAATTTAATATTCATTGAAGT
*
829025 TAAATTTAA
1 TGAATTTAA
829034 GGTAGATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (22 bp):
TGAATTTAATATTCATTGAAGT
Found at i:833424 original size:23 final size:22
Alignment explanation
Indices: 833392--833468 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
833382 TGACCTTGTT
833392 CATCGATGCACATTCAAGGCGTG
1 CATCGATGCACATTCAAGG-GTG
* *
833415 CATC-AGTGCACCTTC-ATGGTG
1 CATCGA-TGCACATTCAAGGGTG
* *
833436 TATCGATGCACATTCAAGGATG
1 CATCGATGCACATTCAAGGGTG
833458 CATCGATGCAC
1 CATCGATGCAC
833469 TGTTAGGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
21 14 0.32
22 18 0.41
23 12 0.27
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (22 bp):
CATCGATGCACATTCAAGGGTG
Found at i:833442 original size:44 final size:42
Alignment explanation
Indices: 833393--833487 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 42
833383 GACCTTGTTC
*
833393 ATCGATGCACATTCAAGGCGTGCATC-AGTGCACCT-TCATGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGA-TGCA-CTGTCA-GGTGT
*
833437 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
833479 ATCGATGCA
1 ATCGATGCA
833488 TTAAGCACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 16 0.34
43 12 0.26
44 19 0.40
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGT
Found at i:833484 original size:20 final size:21
Alignment explanation
Indices: 833393--833487 Score: 79
Period size: 21 Copynumber: 4.4 Consensus size: 21
833383 GACCTTGTTC
*
833393 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAA-G-GTGT
* *
833416 ATC-AGTGCACCTTCATGGTGT
1 ATCGA-TGCACATTCAAGGTGT
*
833437 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
833459 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
833479 ATCGATGCA
1 ATCGATGCA
833488 TTAAGCACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
20 11 0.18
21 21 0.35
22 16 0.27
23 12 0.20
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:837341 original size:22 final size:21
Alignment explanation
Indices: 837299--837338 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
837289 GAGTTTATTT
*
837299 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
837320 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
837339 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:840062 original size:24 final size:24
Alignment explanation
Indices: 840035--840083 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
840025 TGCATGACAT
*
840035 TGTACATATATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
840059 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
840083 T
1 T
840084 CAGGAAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:840881 original size:20 final size:21
Alignment explanation
Indices: 840841--840892 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
840831 TTATTTTAAG
840841 TATATGTATTT-AATATACATA
1 TATATGT-TTTAAATATACATA
840862 TATATGTTTTAAATAT-CATA
1 TATATGTTTTAAATATACATA
840882 TGATA-GTTTTA
1 T-ATATGTTTTA
840893 CTTGAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (21 bp):
TATATGTTTTAAATATACATA
Found at i:845562 original size:24 final size:24
Alignment explanation
Indices: 845499--845562 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
845489 ATTTCTAATT
845499 TGAATTCTGTTATGATACCTGACA
1 TGAATTCTGTTATGATACCTGACA
* * * * *
845523 TGGATTCTGATCTGATACTTGACC
1 TGAATTCTGTTATGATACCTGACA
* *
845547 TGAATTATGTTTTGAT
1 TGAATTCTGTTATGAT
845563 TTTTGATATA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (24 bp):
TGAATTCTGTTATGATACCTGACA
Found at i:845708 original size:57 final size:57
Alignment explanation
Indices: 845620--845848 Score: 323
Period size: 57 Copynumber: 4.0 Consensus size: 57
845610 GTTGGAGGAA
**
845620 GAATACTTGTAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTACAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
* *
845677 GAATATTTACAGGTTCCTTGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
1 GAATACTTACAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
* * * * ** *
845734 GAATACTTACAAGTTCCTTGGCTTTGTGCTCAAGGCCTTACTGTTCGTGACTAGCTT
1 GAATACTTACAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
* * * *
845791 GAATACTTGCAGGTTTCTCGGCTTTGTGCTTAGGGCCTTATTGTTCGTGACGGGGTT
1 GAATACTTACAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
845848 G
1 G
845849 TATGGTTCTG
Statistics
Matches: 151, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 151 1.00
ACGTcount: A:0.14, C:0.19, G:0.30, T:0.37
Consensus pattern (57 bp):
GAATACTTACAGGTTCCTCGGCTTTGTGCTGAGGGCCTTACTGTTCGTGACGGGGTT
Found at i:850497 original size:57 final size:57
Alignment explanation
Indices: 850278--850504 Score: 276
Period size: 57 Copynumber: 4.0 Consensus size: 57
850268 TTGGAGGAAA
* * * * *
850278 AATACTTGTAGGTTCCTCGGCTTTGTGTTGAGGGCCTTACTGTTCGTGA-TGGGTTG
1 AATACTTGCAAGTTCCTCGGCTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTTG
* * * *
850334 AATACTTGCAAGTTTCTCGGCTTTGTGCTGAGGGCCTTACTGTTCATGATGGGGTTG
1 AATACTTGCAAGTTCCTCGGCTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTTG
** * *
850391 AATACTTGCAAGTTCCTTAGTTTTGTGCTCAGGGCCTTGCTGTTCGTGACGGGGTTG
1 AATACTTGCAAGTTCCTCGGCTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTTG
* * * * * *
850448 AATACTTGCAGGTTTCTCGGCTTTGTGCTCAGTGCCTTATTATTCGTGACGAGGTTG
1 AATACTTGCAAGTTCCTCGGCTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTTG
850505 TATGGTTCTG
Statistics
Matches: 146, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 44 0.30
57 102 0.70
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.38
Consensus pattern (57 bp):
AATACTTGCAAGTTCCTCGGCTTTGTGCTCAGGGCCTTACTGTTCGTGACGGGGTTG
Found at i:851476 original size:39 final size:39
Alignment explanation
Indices: 851390--851477 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
851380 GGACCTGCGG
* * * *
851390 TAAGAACTTACCCTGAGCACAAAGTCGAGGAGCATGCAA
1 TAAGGACTTACCCTAAGCACAAAGTCGAGAAGCATACAA
* * *
851429 TAAAGACTTACCCTAAGCACAAA-TCCGAGAAGCCTACGA
1 TAAGGACTTACCCTAAGCACAAAGT-CGAGAAGCATACAA
851468 TAAGGACTTA
1 TAAGGACTTA
851478 TAAGTCATAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.03
39 39 0.98
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (39 bp):
TAAGGACTTACCCTAAGCACAAAGTCGAGAAGCATACAA
Found at i:851905 original size:3 final size:3
Alignment explanation
Indices: 851897--851929 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
851887 TCCTAATATG
851897 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
851930 CCATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:856090 original size:21 final size:22
Alignment explanation
Indices: 856064--856119 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
856054 TGTGTAGGGT
* *
856064 ATCGGTTCCC-TCAAGTGGGGA
1 ATCGGTACCCATCAAATGGGGA
856085 ATCGGTACCCATTCAAATGGGGA
1 ATCGGTACCCA-TCAAATGGGGA
*
856108 ATCGTTACCCAT
1 ATCGGTACCCAT
856120 GCAAGGGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.30
22 1 0.03
23 20 0.67
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (22 bp):
ATCGGTACCCATCAAATGGGGA
Found at i:856105 original size:23 final size:23
Alignment explanation
Indices: 856074--856119 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
856064 ATCGGTTCCC
*
856074 TCAAGTGGGGAATCGGTACCCAT
1 TCAAATGGGGAATCGGTACCCAT
*
856097 TCAAATGGGGAATCGTTACCCAT
1 TCAAATGGGGAATCGGTACCCAT
856120 GCAAGGGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (23 bp):
TCAAATGGGGAATCGGTACCCAT
Found at i:856133 original size:22 final size:21
Alignment explanation
Indices: 856074--856133 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
856064 ATCGGTTCCC
*
856074 TCAAGTGGGGAATCGGTACCCA
1 TCAAG-GGGGAATCGTTACCCA
*
856096 TTCAAATGGGGAATCGTTACCCA
1 -TC-AAGGGGGAATCGTTACCCA
*
856119 TGCAAGGGGGTATCG
1 T-CAAGGGGGAATCG
856134 ATTCCTAGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 11 0.35
23 18 0.58
24 2 0.06
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (21 bp):
TCAAGGGGGAATCGTTACCCA
Found at i:858780 original size:24 final size:24
Alignment explanation
Indices: 858752--858798 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
858742 CGGGGATGGG
858752 GAAAAACTGTTTATGCTAAACGGT
1 GAAAAACTGTTTATGCTAAACGGT
*
858776 GAAAAACTGTTTATGTTAAACGG
1 GAAAAACTGTTTATGCTAAACGG
858799 GGACGGGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (24 bp):
GAAAAACTGTTTATGCTAAACGGT
Found at i:858827 original size:36 final size:36
Alignment explanation
Indices: 858771--858846 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
858761 TTTATGCTAA
* * *
858771 ACGGTGAAAAACTGTTTATGTTAAACGGGGACGGGG
1 ACGGAGAAAAACCGTGTATGTTAAACGGGGACGGGG
858807 ACGGAGAAAAACCGTGTATGTTAAACGGGGACGGGG
1 ACGGAGAAAAACCGTGTATGTTAAACGGGGACGGGG
858843 ACGG
1 ACGG
858847 GTTTAGTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.38, T:0.17
Consensus pattern (36 bp):
ACGGAGAAAAACCGTGTATGTTAAACGGGGACGGGG
Found at i:858981 original size:34 final size:34
Alignment explanation
Indices: 858938--859012 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
858928 ATTATTATAT
858938 ATATATATATTAATAAATT-TA-ATTTAAATTAAAA
1 ATATATATA-TAAT-AATTATATATTTAAATTAAAA
* * *
858972 ATATATATATAATATTTATATATTTAATTTAAAT
1 ATATATATATAATAATTATATATTTAAATTAAAA
859006 ATATATA
1 ATATATA
859013 CTCAGCCCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 3 0.08
33 6 0.17
34 27 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (34 bp):
ATATATATATAATAATTATATATTTAAATTAAAA
Found at i:859166 original size:6 final size:6
Alignment explanation
Indices: 859155--859182 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
859145 TTTTTTAAAT
859155 GGGGAC GGGGAC GGGGAC GGGGAC GGGG
1 GGGGAC GGGGAC GGGGAC GGGGAC GGGG
859183 GGACCTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.71, T:0.00
Consensus pattern (6 bp):
GGGGAC
Found at i:860760 original size:117 final size:117
Alignment explanation
Indices: 860540--860761 Score: 279
Period size: 117 Copynumber: 1.9 Consensus size: 117
860530 CTTTCAAATC
* *
860540 GAAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAAGATTT
1 GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACATTT
* * *
860605 TATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTT
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
* * * * *
860657 GAAAATTTCTTTTTCAA-AGTTTTTAGATTTCGTTTTTGAAAGCTCTAACTCATT-TCTCAACAT
1 GAAAATTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCT-TCAACAT
* **
860720 TTCATTTTGATTTTCTAAATCTGTTTTAGTTT-TCAAAAGAAG
64 TTCATTTTGATTTTCAAAATCCATTTTAGTTTCT-AAAAGAAG
860762 ATCATTTTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
116 3 0.03
117 86 0.97
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (117 bp):
GAAAATTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCATTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTT
Found at i:888547 original size:66 final size:66
Alignment explanation
Indices: 888442--888615 Score: 192
Period size: 66 Copynumber: 2.6 Consensus size: 66
888432 GAAAGAAATT
* * * * **
888442 TGTTTCAAGAG-AAGTTATCTCATGTGAGATAAAATTTTGTTTCGAGTGAAACAATTTCAAAATT
1 TGTTTCAAGGGAAAATTATCTCAAGTGAGAT-CAATTTTGTTTAAAGTGAAACAATTTCAAAATT
888506 TG
65 TG
*
888508 CT-TTTCAAGGGAAAATTATCTCAAGTGAGATCAATTTTGTTTAAAGTGAAACAATTTTAAAATT
1 -TGTTTCAAGGGAAAATTATCTCAAGTGAGATCAATTTTGTTTAAAGTGAAACAATTTCAAAATT
888572 TG
65 TG
* * * * *
888574 TGTTTCGAGGGAAAACTGTCTTAAGCGAGA-CGAATTTTGTTT
1 TGTTTCAAGGGAAAATTATCTCAAGTGAGATC-AATTTTGTTT
888616 TTAGGAAAAC
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
65 2 0.02
66 72 0.78
67 18 0.20
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (66 bp):
TGTTTCAAGGGAAAATTATCTCAAGTGAGATCAATTTTGTTTAAAGTGAAACAATTTCAAAATTT
G
Found at i:888682 original size:104 final size:101
Alignment explanation
Indices: 888525--888880 Score: 444
Period size: 104 Copynumber: 3.5 Consensus size: 101
888515 AGGGAAAATT
* * * *
888525 ATCTCAAGTGAGATCAATTTTGTTTAAAGTGAAACAATTTTAAAATTTGTGTTTCGAGGGAAAAC
1 ATCTCAAATGAGATCAATTTTGTTTCAAGTGAAACAACTTCAAAATTT-TGTTTCGAGGGAAAAC
* *
888590 TGTCTTAAGCGAGACGAATTTTGTTTTTAGGAAAACA
65 TGTCTCAAGCGAGACAAATTTTGTTTTTAGGAAAACA
*
888627 ATCTCAAATGAGATCAATTTCTTGTTTCGAGTGAAACAACTTCAAAATTTATGTTTCGAGGGAAA
1 ATCTCAAATGAGATCAA-TT-TTGTTTCAAGTGAAACAACTTCAAAATTT-TGTTTCGAGGGAAA
* *
888692 AATGTCTCAAGCGAGACAAATTTTGTTTTTGGGAAAACA
63 ACTGTCTCAAGCGAGACAAATTTTGTTTTTAGGAAAACA
* * * * * *
888731 ATCTCAAGTGAGATCAATTTTGTTTCAAATGAAACAACTTCAAAATTTGGATTCAAGGGAAATCT
1 ATCTCAAATGAGATCAATTTTGTTTCAAGTGAAACAACTTCAAAATTTTGTTTCGAGGGAAAACT
* ** * * *
888796 ATCTCAA-ATAGGACAAAATTTGTTTTTAGTAAAATA
66 GTCTCAAGCGA-GACAAATTTTGTTTTTAGGAAAACA
*
888832 ATCTCAAATGAGATCAATTTCTTGTTTTAAGTGAAACAACTTCAAAATT
1 ATCTCAAATGAGATCAA-TT-TTGTTTCAAGTGAAACAACTTCAAAATT
888881 GAAATTTGAG
Statistics
Matches: 221, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
100 1 0.00
101 55 0.25
102 45 0.20
103 30 0.14
104 90 0.41
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (101 bp):
ATCTCAAATGAGATCAATTTTGTTTCAAGTGAAACAACTTCAAAATTTTGTTTCGAGGGAAAACT
GTCTCAAGCGAGACAAATTTTGTTTTTAGGAAAACA
Found at i:889611 original size:5 final size:5
Alignment explanation
Indices: 889601--889663 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
889591 AACAGGTCAT
* *
889601 GACCC GACCC GACCC GA--T GACCC GACCC GA--T GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
889647 GTTGACCC GACCC GACC
1 ---GACCC GACCC GACC
889664 GTTGACCGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
3 4 0.09
5 38 0.81
8 5 0.11
ACGTcount: A:0.21, C:0.51, G:0.22, T:0.06
Consensus pattern (5 bp):
GACCC
Found at i:889622 original size:18 final size:18
Alignment explanation
Indices: 889599--889663 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
889589 TGAACAGGTC
889599 ATGACCCGACCCGACCCG
1 ATGACCCGACCCGACCCG
889617 AT-----GACCCGACCCG
1 ATGACCCGACCCGACCCG
889630 ATGACCCGACCCGACCCG
1 ATGACCCGACCCGACCCG
*
889648 TTGACCCGACCCGACC
1 ATGACCCGACCCGACC
889664 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
13 13 0.32
18 28 0.68
ACGTcount: A:0.22, C:0.49, G:0.22, T:0.08
Consensus pattern (18 bp):
ATGACCCGACCCGACCCG
Found at i:889637 original size:31 final size:31
Alignment explanation
Indices: 889599--889661 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
889589 TGAACAGGTC
889599 ATGACCCGACCCGACCCGATGACCCGACCCG
1 ATGACCCGACCCGACCCGATGACCCGACCCG
*
889630 ATGACCCGACCCGACCCGTTGACCCGACCCG
1 ATGACCCGACCCGACCCGATGACCCGACCCG
889661 A
1 A
889662 CCGTTGACCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.48, G:0.22, T:0.08
Consensus pattern (31 bp):
ATGACCCGACCCGACCCGATGACCCGACCCG
Found at i:889660 original size:13 final size:13
Alignment explanation
Indices: 889606--889643 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
889596 GTCATGACCC
889606 GACCCGACCCGAT
1 GACCCGACCCGAT
889619 GACCCGACCCGAT
1 GACCCGACCCGAT
889632 GACCCGACCCGA
1 GACCCGACCCGA
889644 CCCGTTGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.47, G:0.24, T:0.05
Consensus pattern (13 bp):
GACCCGACCCGAT
Found at i:889783 original size:55 final size:55
Alignment explanation
Indices: 889712--889818 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
889702 ATTTTGGTGC
* * * **
889712 TATTCTGGGAATTAATTCGAAATGGGTGCTATTTTGGTAATTTTTTCAAAAATGA
1 TATTCTAGAAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCAAAAATGA
*
889767 TATTCTAGAAATTAATTCGAAATTGGTGCTATTTTGGGAATTAATTCAAAAA
1 TATTCTAGAAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCAAAAA
889819 GGGTGCTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (55 bp):
TATTCTAGAAATTAATTCGAAATGGGTGCTATTTTGGGAATTAATTCAAAAATGA
Found at i:889824 original size:84 final size:85
Alignment explanation
Indices: 889683--889850 Score: 250
Period size: 84 Copynumber: 2.0 Consensus size: 85
889673 TGACCGGTGC
* * * * *
889683 TATTCTGGGAATTAATTCAATTTTGGTGCTATTCTGGGAATTAATTCGAAATGGGTGCTATTTTG
1 TATTCTAGAAATTAATTCAATATTGGTGCTATTCTGGGAATTAATTCAAAAAGGGTGCTATTTTG
*
889748 GTAATT-TTTTCAAAAATGA
66 GTAATTATTTTAAAAAATGA
*
889767 TATTCTAGAAATTAATTCGAA-ATTGGTGCTATTTTGGGAATTAATTCAAAAAGGGTGCTATTTT
1 TATTCTAGAAATTAATTC-AATATTGGTGCTATTCTGGGAATTAATTCAAAAAGGGTGCTATTTT
889831 GGTAATTATTTTAAAAAATG
65 GGTAATTATTTTAAAAAATG
889851 TGTTATTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
84 62 0.83
85 13 0.17
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (85 bp):
TATTCTAGAAATTAATTCAATATTGGTGCTATTCTGGGAATTAATTCAAAAAGGGTGCTATTTTG
GTAATTATTTTAAAAAATGA
Found at i:889846 original size:29 final size:29
Alignment explanation
Indices: 889678--889847 Score: 130
Period size: 29 Copynumber: 6.0 Consensus size: 29
889668 ACCGTTGACC
* ****
889678 GGTGCTATTCTGGGAATTAATTCAATTTT
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * *
889707 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* **
889736 GGTGCTATTTTGGTAATTTTTTCAAAAA-
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * * * * **
889764 --TGATATTCTAGAAATTAATTCGAAATT
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
889791 GGTGCTATTTTGGGAATTAATTCAAAAAG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * *
889820 GGTGCTATTTTGGTAATTATTTTAAAAA
1 GGTGCTATTTTGGGAATTAATTCAAAAA
889848 ATGTGTTATT
Statistics
Matches: 110, Mismatches: 28, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
26 18 0.16
29 92 0.84
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTCAAAAAG
Found at i:890642 original size:15 final size:15
Alignment explanation
Indices: 890613--890645 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
890603 TGATACGTGA
890613 TTCCTGAATATTGAT
1 TTCCTGAATATTGAT
890628 TTCCT-AATATCTGAT
1 TTCCTGAATAT-TGAT
890643 TTC
1 TTC
890646 TGTATTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (15 bp):
TTCCTGAATATTGAT
Found at i:892097 original size:13 final size:13
Alignment explanation
Indices: 892079--892127 Score: 80
Period size: 13 Copynumber: 3.8 Consensus size: 13
892069 ACCCGACCCG
892079 ACCCGACCCGTTT
1 ACCCGACCCGTTT
892092 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
892105 ACCCGACCAGTTG
1 ACCCGACCCGTTT
892118 ACCCGACCCG
1 ACCCGACCCG
892128 ACCCGTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.18, C:0.47, G:0.18, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:892128 original size:18 final size:18
Alignment explanation
Indices: 892105--892145 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
892095 CGACCCGTTT
892105 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
892123 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
892141 ACCCG
1 ACCCG
892146 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:892138 original size:13 final size:13
Alignment explanation
Indices: 892078--892151 Score: 76
Period size: 13 Copynumber: 5.3 Consensus size: 13
892068 AACCCGACCC
892078 GACCCGACCCGTT
1 GACCCGACCCGTT
*
892091 TACCCGACCCGTT
1 GACCCGACCCGTT
* *
892104 TACCCGACCAGTT
1 GACCCGACCCGTT
892117 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
892135 GACCCGACCCGTT
1 GACCCGACCCGTT
892148 GACC
1 GACC
892152 GTTGACCGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
13 41 0.79
18 11 0.21
ACGTcount: A:0.18, C:0.46, G:0.20, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:892149 original size:31 final size:31
Alignment explanation
Indices: 892092--892151 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
892082 CGACCCGTTT
*
892092 ACCCGACCCGTTTACCCGACCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCG
*
892123 ACCCGACCCGTTGACCCGACCCGTTGACC
1 ACCCGACCCGTTGACCCGACCAGTTGACC
892152 GTTGACCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCAGTTGACCCG
Found at i:894513 original size:23 final size:24
Alignment explanation
Indices: 894466--894556 Score: 121
Period size: 24 Copynumber: 3.8 Consensus size: 24
894456 TCAAATTTGA
* * *
894466 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
894490 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
*
894513 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
894537 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
894557 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.36
24 37 0.64
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:894535 original size:47 final size:48
Alignment explanation
Indices: 894466--894556 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
894456 TCAAATTTGA
* * *
894466 ATTCTGTTATGATACCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
*
894513 ATTCTGATCTGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
894557 TTGAATTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (48 bp):
ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGACATGG
Found at i:897445 original size:24 final size:23
Alignment explanation
Indices: 897391--897460 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
897381 TTTCAAGATA
* *
897391 GACATGGATTCTTATCTGATATT
1 GACATGGATTCTGATCTGATAAT
897414 GACATGGATTCTGATCTGATACAT
1 GACATGGATTCTGATCTGATA-AT
* *
897438 GACCTGGATTCTGATATGATAAT
1 GACATGGATTCTGATCTGATAAT
897461 TGACTTGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 22 0.52
24 20 0.48
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (23 bp):
GACATGGATTCTGATCTGATAAT
Found at i:897464 original size:24 final size:24
Alignment explanation
Indices: 897391--897464 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
897381 TTTCAAGATA
*
897391 GACATGGATTCTTATCTGAT-ATT
1 GACATGGATTCTGATCTGATAATT
897414 GACATGGATTCTGATCTGATACA-T
1 GACATGGATTCTGATCTGATA-ATT
* *
897438 GACCTGGATTCTGATATGATAATT
1 GACATGGATTCTGATCTGATAATT
897462 GAC
1 GAC
897465 TTGAATTATG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.44
24 24 0.53
25 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (24 bp):
GACATGGATTCTGATCTGATAATT
Found at i:899018 original size:29 final size:29
Alignment explanation
Indices: 898986--899119 Score: 96
Period size: 29 Copynumber: 4.7 Consensus size: 29
898976 TTTTTTTAAA
898986 TAATTACCAAAATAGCACCATTTTCGAAT
1 TAATTACCAAAATAGCACCATTTTCGAAT
* * *
899015 TAATT-CCAAAAATAACACCAATTTCAAAT
1 TAATTACC-AAAATAGCACCATTTTCGAAT
** * * * * *
899044 TAATCCCCAGAATATCA--TTTTTTGAAA
1 TAATTACCAAAATAGCACCATTTTCGAAT
* *
899071 AAATTACCAAAATAGCA-AATATTTCGAAT
1 TAATTACCAAAATAGCACCAT-TTTCGAAT
* *
899100 TAATTCCCAGAATAGCACCA
1 TAATTACCAAAATAGCACCA
899120 AAATCAAATT
Statistics
Matches: 77, Mismatches: 23, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
27 17 0.22
28 3 0.04
29 54 0.70
30 3 0.04
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (29 bp):
TAATTACCAAAATAGCACCATTTTCGAAT
Found at i:899076 original size:85 final size:85
Alignment explanation
Indices: 898976--899142 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 85
898966 AATAACACAT
* * * **
898976 TTTTTTTAAATAATTACCAAAATAGCACCAT-TTTCGAATTAATTCCAAAAATAACACCAATTTC
1 TTTTTTGAAAAAATTACCAAAATAGCA-AATATTTCGAATTAATTCCAAAAATAACACCAAAATC
899040 AAATTAATCCCCAGAATATCA
65 AAATTAATCCCCAGAATATCA
* * *
899061 TTTTTTGAAAAAATTACCAAAATAGCAAATATTTCGAATTAATTCCCAGAATAGCACCAAAATCA
1 TTTTTTGAAAAAATTACCAAAATAGCAAATATTTCGAATTAATTCCAAAAATAACACCAAAATCA
*
899126 AATTAATTCCCAGAATA
66 AATTAATCCCCAGAATA
899143 ACACCGGTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 2 0.03
85 70 0.97
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (85 bp):
TTTTTTGAAAAAATTACCAAAATAGCAAATATTTCGAATTAATTCCAAAAATAACACCAAAATCA
AATTAATCCCCAGAATATCA
Found at i:899180 original size:13 final size:13
Alignment explanation
Indices: 899162--899194 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
899152 AACGGTTGGT
899162 TCGGGTCAACGGG
1 TCGGGTCAACGGG
*
899175 TCGGGTCATCGGG
1 TCGGGTCAACGGG
899188 TCGGGTC
1 TCGGGTC
899195 GGGTCATGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.24, G:0.45, T:0.21
Consensus pattern (13 bp):
TCGGGTCAACGGG
Found at i:905669 original size:24 final size:24
Alignment explanation
Indices: 905659--905776 Score: 157
Period size: 24 Copynumber: 4.9 Consensus size: 24
905649 CATAATTCAC
* *
905659 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAAAATCCAT
* *
905683 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAAAATCCAT
* *
905707 GTCAAGTATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAAAATCCAT
905731 GTC-AGATATCAGATCAAAATCCAT
1 GTCAAG-TATCAGATCAAAATCCAT
905755 GTCAAGTATCAGATCAGAAATC
1 GTCAAGTATCAGATCA-AAATC
905777 AAATCGAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 2 0.02
24 75 0.89
25 7 0.08
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAAAATCCAT
Found at i:908303 original size:13 final size:13
Alignment explanation
Indices: 908285--908314 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
908275 GGTCAACGGC
908285 GGTCAACGGGTCG
1 GGTCAACGGGTCG
908298 GGTCAACGGGTCG
1 GGTCAACGGGTCG
908311 GGTC
1 GGTC
908315 GGGTCATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:909193 original size:36 final size:36
Alignment explanation
Indices: 909146--909240 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
909136 CAAATGTTTA
*
909146 TGTTTCAAGAGAAACTATCTCAAGAGAGACAGAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACACAATT
* * *
909182 TGTTTCAAGAGAAACTGTCTCAAGCGAGATACAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACACAATT
* * *
909218 TGTTTCGAGAAAAACAATCTCAA
1 TGTTTCAAGAGAAACTATCTCAA
909241 AGGTTTATGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACACAATT
Found at i:909291 original size:102 final size:102
Alignment explanation
Indices: 909114--909306 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 102
909104 GAGACGAAAC
* * *
909114 TTTGTTTCGAGAGAAACAATCCCAAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAGA
1 TTTGTTTCGAGAAAAACAATCCCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
*****
909179 ATTTGTTTCAAGAGAAACTGTCTCAAGCGAGATACAA
66 AACAAATTCAAGAGAAACTGTCTCAAGCGAGATACAA
* * *
909216 TTTGTTTCGAGAAAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTATCTCAAGCGAGACAAA
1 TTTGTTTCGAGAAAAACAATCCCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
*
909281 AACAAATTCAAGAGAAATTGTCTCAA
66 AACAAATTCAAGAGAAACTGTCTCAA
909307 TGGAGACAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.27
Consensus pattern (102 bp):
TTTGTTTCGAGAAAAACAATCCCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
AACAAATTCAAGAGAAACTGTCTCAAGCGAGATACAA
Found at i:916185 original size:25 final size:28
Alignment explanation
Indices: 916134--916188 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
916124 AATCACCCTT
*
916134 ACCACCAAACTATTTTTTATCTCAATTCA
1 ACCACCAAAC-ATTTTTAATCTCAATTCA
916163 ACCACCAAAC-TTTTTAAT-T-AATTCA
1 ACCACCAAACATTTTTAATCTCAATTCA
916188 A
1 A
916189 TCAGACCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 7 0.28
26 1 0.04
27 7 0.28
29 10 0.40
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.36
Consensus pattern (28 bp):
ACCACCAAACATTTTTAATCTCAATTCA
Found at i:916662 original size:69 final size:73
Alignment explanation
Indices: 916573--916738 Score: 189
Period size: 75 Copynumber: 2.3 Consensus size: 73
916563 TTATTTGGTT
** * * *
916573 AAATAAATTTCAGTTTGATTAATGGTTACA-G-AAAA-AATTTCGGTTA-AT-TTAATTCGGTTA
1 AAATAAATTTTGGTTCGATTAAAGGTTA-AGGAAAAATAATTTAGGTTATATGTTAATTCGGTTA
916633 ATAATTTTC
65 ATAATTTTC
** *
916642 AAATAAATTTTGGTTCGATTAAAGGTTAAGGAAAAAATAATTTATTTTATTTTGTTAATTCGGTT
1 AAATAAATTTTGGTTCGATTAAAGGTTAAGG-AAAAATAATTTAGGTTA-TATGTTAATTCGGTT
916707 AATAATTTTC
64 AATAATTTTC
*
916717 AAATAAATTTTGATTCGATTAA
1 AAATAAATTTTGGTTCGATTAA
916739 CAGTCAAATA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
68 1 0.01
69 25 0.31
71 4 0.05
72 8 0.10
74 1 0.01
75 42 0.52
ACGTcount: A:0.39, C:0.05, G:0.13, T:0.43
Consensus pattern (73 bp):
AAATAAATTTTGGTTCGATTAAAGGTTAAGGAAAAATAATTTAGGTTATATGTTAATTCGGTTAA
TAATTTTC
Found at i:919112 original size:200 final size:200
Alignment explanation
Indices: 918655--919576 Score: 1238
Period size: 200 Copynumber: 4.6 Consensus size: 200
918645 TAGGTAGCGC
* *
918655 TTATATTGACCTATTTTCTAACTAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTAT
1 TTATATTGACCTATTTTCTAA-TAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * *
918720 TACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACAATTT--TCAATGTATCAACACTT
65 TACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTT
* * * * *
918783 TATGCGTGCACCT-CGTTGGGCATTCATTAT-GA-AA-AAGTATTGACATAAACTT-AAAAAGTG
129 TATGCGTGCACCTCCTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAA-TTCCAAAAGTG
918843 TCGATACA
193 TCGATACA
* * * * ** * * *
918851 TTATGTAGACCTATTTTATCATAAAACTAGTATATTTCTATCGGGTACATTGTAAATTTACCTAT
1 TTATATTGACCTATTTTCTAAT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
*
918916 TACATTGTAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
65 TACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * *
918981 ATGCATGCA-CTCCTTTTGGCATTCATTCTGGACAA-AATGTATCGACACAAATT-TAAAACGTG
130 ATGCGTGCACCTCCTTTGGGCATTCATTCTGGACAATAA-GTATCGACACAAATTCCAAAA-GTG
*
919043 TCTATACA
193 TCGATACA
* * **
919051 TTATACTGACCTATTTTCTCATAAAATTGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
1 TTATATTGACCTATTTTCTAAT-AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTAT
* * * *
919116 TACATTATAATTATCGGTTTCGATATTTTTGGGATCGGTACTTTTAATAAATGTATTGACACTTT
65 TACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * *
919181 ATGCGTGCACCTCGTTTGGGCATTTATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTC
130 ATGCGTGCACCTCCTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCAAAAGTGTC
919246 GATACA
195 GATACA
* * * * *
919252 TTATGTTGACCTGTTTTCTAATTAACCGATATATTTATATCGGTTACATTGTAAATTTACCTATT
1 TTATATTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
*
919317 ACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
66 ACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
* *
919382 TGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTCG
131 TGCGTGCACCTCCTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCAAAAGTGTCG
919447 ATACA
196 ATACA
* * * * * *
919452 TTATGTTGACATGTTTTCTAATTAACCGATATATTTATACCGGTTACATTGTTAATTTA-CTATT
1 TTATATTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
*
919516 ACATTATAATTATTGGTTTCGATGTTTTTGGGGTCGATACTTTTAGA-AAATGTATCGACAC
66 ACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
919577 ATATTTAGGT
Statistics
Matches: 652, Mismatches: 62, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
195 4 0.01
196 94 0.14
197 38 0.06
198 2 0.00
199 72 0.11
200 371 0.57
201 66 0.10
202 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (200 bp):
TTATATTGACCTATTTTCTAATAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
ACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCGTGCACCTCCTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCAAAAGTGTCG
ATACA
Found at i:922064 original size:19 final size:19
Alignment explanation
Indices: 922040--922081 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
922030 TCTCATATAT
*
922040 AATTATAAATCGTATACAA
1 AATTATAAATCATATACAA
*
922059 AATTATGAATCATATACAA
1 AATTATAAATCATATACAA
922078 AATT
1 AATT
922082 TCCCCTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
AATTATAAATCATATACAA
Found at i:923097 original size:23 final size:23
Alignment explanation
Indices: 923067--923113 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
923057 AATGTGGATT
923067 TAAAACTAAAACCATATTTATCA
1 TAAAACTAAAACCATATTTATCA
923090 TAAAACTAAAACCATATTTATCA
1 TAAAACTAAAACCATATTTATCA
923113 T
1 T
923114 CGAACAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAACTAAAACCATATTTATCA
Found at i:923644 original size:20 final size:20
Alignment explanation
Indices: 923616--923653 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
923606 TTTTCTCATA
923616 AAATATACC-AGTTACATTGG
1 AAATATACCTA-TTACATTGG
*
923636 AAATTTACCTATTACATT
1 AAATATACCTATTACATT
923654 ATAATTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (20 bp):
AAATATACCTATTACATTGG
Found at i:924195 original size:200 final size:200
Alignment explanation
Indices: 923619--924747 Score: 1718
Period size: 200 Copynumber: 5.7 Consensus size: 200
923609 TCTCATAAAA
* * * *
923619 TATACCAGTTACATTGGAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTCTGGGATC
1 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
* * * * *
923684 GATACTTTTTATAAATGTAACGACATTTTATGCGTGCACCATTTTGGGCATTCATTCTTGACAAA
66 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAA
* * * * * * * **
923749 AAGTATCGACACATATTTCAAAAGTGTCAATATATTATATTGACCTATTCTCAT-ATAAAACCTA
131 AAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTC-TCATAAAACCGG
923813 TATATT
195 TATATT
*
923819 TATACCGGTTACATT-ACAAAATTACTTATTACATTATAATTATGGGTTTCGATGTTTCTGGGAT
1 TATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGAT
* * * *
923883 CGATAC-----ATAAATGTATCGACACTTTATGAGTGTACCCTTTTGGGCATTCATAATGGAAAA
65 CGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAA
* * *
923943 AAAGTATCAACACAAATTACACAAGTGTCGATATATTATGTAGACATATTCTCTCATAAAACCGG
130 AAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGG
924008 TATATT
195 TATATT
* * * *
924014 TATACCGGTTAAATTTAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTAGGATC
1 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
* *
924079 GATACTTTTTATAAATGTATCGACACTTTATGTGTGCACCCTTTTGGGCATTCATTATGTACAAA
66 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAA
* *
924144 AAGTATCGACATAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATCGGT
131 AAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGT
924209 ATATT
196 ATATT
*
924214 TATACCGGCTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
1 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
* *
924279 GATACTTTTTATAAATGTATCAACACTTTATGGGTGCACCCTTTTGGGCATTCATTATGGACAAA
66 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAA
* * * *
924344 AAGTATCAACACAAATTACACAAGTGTCGATACATTATGTAAACCTATTCTCTCATAAAATCGGC
131 AAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGT
924409 ATATT
196 ATATT
*
924414 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATAGGTTTCGATGTTTCTGGGATC
1 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
* *
924479 GATACTTTTTATAAATGTATCGACACGTTATGGGTGCACCCTTTTGGGCATTCATTATGGACAAA
66 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAA
*
924544 AAGTATCG--ACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACTGGT
131 AAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGT
924607 ATATT
196 ATATT
* * *
924612 TATACCGGTTACAATGAAAAATTACCTATTATATTATAATTATGGGTTTCGATGTTTCTAGGATC
1 TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
* * *
924677 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTTGACAAA
66 GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAA
924742 AAGTAT
131 AAGTAT
924748 AGAGACTTTT
Statistics
Matches: 853, Mismatches: 68, Indels: 18
0.91 0.07 0.02
Matches are distributed among these distances:
194 1 0.00
195 168 0.20
196 1 0.00
198 183 0.21
200 500 0.59
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (200 bp):
TATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGATC
GATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTATGGACAAA
AAGTATCGACACAAATTACACAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGT
ATATT
Found at i:926450 original size:29 final size:31
Alignment explanation
Indices: 926397--926456 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
926387 CAGTTTAAGG
926397 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
926428 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
926457 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:926567 original size:13 final size:13
Alignment explanation
Indices: 926546--926577 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
926536 AGTGCATCCA
*
926546 TGCACCCCTGCAG
1 TGCATCCCTGCAG
926559 TGCATCCCTGCAG
1 TGCATCCCTGCAG
926572 TGCATC
1 TGCATC
926578 GATGCACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.22
Consensus pattern (13 bp):
TGCATCCCTGCAG
Found at i:926592 original size:20 final size:20
Alignment explanation
Indices: 926567--926604 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
926557 AGTGCATCCC
*
926567 TGCAGTGCATCGATGCACCA
1 TGCAGTGCATCCATGCACCA
926587 TGCAGTGCATCCATGCAC
1 TGCAGTGCATCCATGCAC
926605 TCAAACACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (20 bp):
TGCAGTGCATCCATGCACCA
Found at i:926596 original size:33 final size:34
Alignment explanation
Indices: 926536--926603 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 34
926526 AGGGTGTCAA
* *
926536 AGTGCATCCATGCACCCCTGCAGTGCATCCCTGC
1 AGTGCATCCATGCACCCATGCAGTGCATCCATGC
*
926570 AGTGCATCGATGCA-CCATGCAGTGCATCCATGC
1 AGTGCATCCATGCACCCATGCAGTGCATCCATGC
926603 A
1 A
926604 CTCAAACACT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (34 bp):
AGTGCATCCATGCACCCATGCAGTGCATCCATGC
Found at i:927967 original size:18 final size:18
Alignment explanation
Indices: 927946--927983 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
927936 TCATCCCCAT
927946 TTCCTCAATCATTTCTTC
1 TTCCTCAATCATTTCTTC
* *
927964 TTCCTCCATCTTTTCTTC
1 TTCCTCAATCATTTCTTC
927982 TT
1 TT
927984 TATATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.34, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCTCAATCATTTCTTC
Found at i:930940 original size:182 final size:182
Alignment explanation
Indices: 930632--931658 Score: 1619
Period size: 182 Copynumber: 5.6 Consensus size: 182
930622 TACACGTACT
* *** *
930632 TATTAAAGTATCGACGCTTTCAATATATCAATTAGCGCTTTACCAGTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
* *
930697 ATTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAATATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
* * *
930762 TTATAGACGCTAAAATTGCTTCTCTTTTAAATTCTCAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* *** *
930814 TATTAAAGTATTGACACTTTCAATATATCTAATAGCGCTTTACCGGTTTTGTCATTTCGAGACTG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
* *
930879 GTTTTGTCATATTTTCACCTGTTATATCGTTATGGATAGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
*
930944 TTATAGGCGCTAAAACTGCTTCTATTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* * *
930996 TATTAAAGTATCGACACTTTCAATATATCCGGTATCTCTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
*
931061 GTTTTGTCATATTTTTACCTATTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
931126 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* * *
931178 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTTTAGCGGTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
* ** *
931243 ATTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAATATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
931308 TTATATGG-GCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATA-GGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* * *
931360 TATTAAAGTATCGACACTTTCAATATATCTGGTAGCTCTTTACCGGTTTTTTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
*
931425 GTTTTGTCATAATTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
**
931490 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
* * * *
931542 TATTCAAGTAATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATT--AAA
1 TATTAAAGT-ATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCAT--TTCGAGA
* * *
931605 CTGGTTTTGTCATATTTTTACCTGTTATATTGATATGGATCGATACATTTTTAT
63 CCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTAT
931659 TTGGATCGAC
Statistics
Matches: 785, Mismatches: 55, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
181 2 0.00
182 686 0.87
183 95 0.12
185 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCCCAAAGTGTCGATACTTA
Found at i:937446 original size:112 final size:112
Alignment explanation
Indices: 937240--937812 Score: 810
Period size: 112 Copynumber: 5.1 Consensus size: 112
937230 TGTCGGTTTC
* * *
937240 TGTCGATACTTTATAAAAATATAT-TAATCCATAACAATATAATAAGTAAAAAAATGACAAAACC
1 TGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
937304 GGTTTATAAATGACAAAACAGATAAAGCGCTTCTGGATATATTGAAAG
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * * *
937352 TGTTGATATTTTATAAAAATGTATCTATCTATAACAATATAACATGTAAAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
** *
937417 GTCTATAAATGACAAAACAGGTAAAGCGCTACTAGATATATTGAGAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * *
937464 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGTTAAAAAAATGATAAAACCG
1 TGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
*
937529 GTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * *
937576 TGCCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGT-AAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
* *
937640 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * * * *
937687 TGTCGATATTTTATAAAAATGTAT-TGATCCATAACAATAAAATAGGTAAAACAATGACAAAAAC
1 TGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*** * *
937751 GGTCTATAAATGACAAAACAGGTAAATTACTACCGGATATGTTGATAG
65 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
937799 TGTCGATACTTTAT
1 TGTCGATACTTTAT
937813 TATAAGTATC
Statistics
Matches: 419, Mismatches: 39, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
111 102 0.24
112 316 0.75
113 1 0.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (112 bp):
TGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
Found at i:937756 original size:223 final size:224
Alignment explanation
Indices: 937240--937812 Score: 860
Period size: 223 Copynumber: 2.6 Consensus size: 224
937230 TGTCGGTTTC
* * *
937240 TGTCGATACTTTATAAAAATATATTAATCCATAACAATATAATAAGTAAAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAATAGGTAAAAAAATGACAAAACCG
* * * * *
937305 GTTTATAAATGACAAAACAGATAAAGCGCTTCTGGATATATTGAAAGTGTTGATATTTTATAAAA
66 GTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
* * * *
937370 ATGTATCTATCTATAACAATATAACATGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
131 ATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
*
937435 AGGTAAAGCGCTACTAGATATATTGAGAG
196 AGGTAAAGCGCTACCAGATATATTGAGAG
* * * *
937464 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGTTAAAAAAATGATAAAACCG
1 TGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAATAGGTAAAAAAATGACAAAACCG
*
937529 GTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATATTGAAAGTGCCGATACTTTATAAAA
66 GTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
937594 ATGTATCGATCCATAACAATAAAACAGGT-AAAAAATGACAAAACCGGTCTATAAATGACAAAAC
131 ATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
* * *
937658 AGGTAAAGCGCTACCGGATATGTTGATAG
196 AGGTAAAGCGCTACCAGATATATTGAGAG
* * * *
937687 TGTCGATATTTTATAAAAATGTATTGATCCATAACAATAAAATAGGTAAAACAATGACAAAAACG
1 TGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAATAGGTAAAAAAATGACAAAACCG
* *** * *
937752 GTCTATAAATGACAAAACAGGTAAATTACTACCGGATATGTTGATAGTGTCGATACTTTAT
66 GTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
937813 TATAAGTATC
Statistics
Matches: 313, Mismatches: 36, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
223 171 0.55
224 142 0.45
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (224 bp):
TGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAATAGGTAAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAA
ATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAAC
AGGTAAAGCGCTACCAGATATATTGAGAG
Found at i:937992 original size:182 final size:182
Alignment explanation
Indices: 937685--939412 Score: 2877
Period size: 182 Copynumber: 9.5 Consensus size: 182
937675 ATATGTTGAT
* * * * *
937685 AGTGTCGATATTTTATAAAAATGTATTGATCCATAACAATAAAATAGGTAAAACA-ATGACAAAA
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAA-ATATGATAAAA
* ** * *
937749 ACGGTCTATAAATGACAAAACAGGTAAATTA-CTACCGGATATGTTGATAGTGTCGATACTTTAT
65 CCGGTCTCGAAATGACAAAACCGGTAAA-GAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
*
937813 TATAAGTATCGACACTCTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
129 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
*
937867 AGTGTCGATACTTTATAAAAATGTATCGATCCATACCAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
*
937932 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATATTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
* *
937997 CAAGTATCGACACTTATGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
* * * **
938049 AGTGCCGATACTTTATAAAAATGTATCGATCTATAACAATAAAACATATAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
* * *
938114 CGGTCTTGAAATGACAAAATCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
* * *
938179 TAAGTATCGACACTTTTGGAATCTAAAAGAAAATAAGTTATAGC-CATAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGC-TAATAA
* * *
938231 AGTGTCGATGCTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAATAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
*
938296 CGGTCTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
*
938361 TAAGTATCGACACTTTTAGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
*
938413 AGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
* *
938478 CGGTCTCGAAATGACAAAACCGGTAAAGAGTTACCGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
* * *
938543 TAAGTATCAACACTTTTGGAATTTAAAAGAGAAGAAATTATAGCGTTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
*
938595 AGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
*
938660 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
*
938725 TAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
938777 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
* *
938842 CGGTCTCGAAATGACAAAACCGGTAAAAAGCTACTGGATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
*
938907 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCACTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
*
938959 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
*
939024 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
939089 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
* *
939141 AGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACATGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
* * * *
939206 CGGTCTCAAAATGATAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCAATATTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
* * *
939271 TAAGTATCGACACTTTTGGAATTTAAAATAAAAGAAGTTATAGCGCCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
* * *
939323 AGTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
* *
939388 CGATCTAGAAATGACAAAACCGGTA
66 CGGTCTCGAAATGACAAAACCGGTA
939413 GTAAAAAAGT
Statistics
Matches: 1451, Mismatches: 91, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
181 3 0.00
182 1447 1.00
183 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
Found at i:939827 original size:23 final size:23
Alignment explanation
Indices: 939798--939845 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
939788 GAATAGGTCA
* *
939798 ATATAAGCGCTACCTATTACATT
1 ATATAAGCACTACCTAATACATT
*
939821 ATATAAGCACTACCTAATATATT
1 ATATAAGCACTACCTAATACATT
939844 AT
1 AT
939846 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCACTACCTAATACATT
Found at i:940679 original size:7 final size:7
Alignment explanation
Indices: 940667--940846 Score: 73
Period size: 7 Copynumber: 25.4 Consensus size: 7
940657 TATTAAAAAT
940667 CCTAAAC
1 CCTAAAC
*
940674 CCTAAAA
1 CCTAAAC
*
940681 CATAAAC
1 CCTAAAC
940688 CCTAAAC
1 CCTAAAC
*
940695 TCTAAAC
1 CCTAAAC
*
940702 CATAAA-
1 CCTAAAC
940708 CCTAAA-
1 CCTAAAC
*
940714 CCTTAAC
1 CCTAAAC
*
940721 TTCT--AC
1 -CCTAAAC
*
940727 CCTAACC
1 CCTAAAC
*
940734 CCTAACTAT
1 CCTAA--AC
*
940743 CCTAAAA
1 CCTAAAC
*
940750 CATAAAC
1 CCTAAAC
*
940757 CCTAATC
1 CCTAAAC
*
940764 CCTAATC
1 CCTAAAC
*
940771 CCTAATC
1 CCTAAAC
*
940778 CCTTAAAT
1 CC-TAAAC
*
940786 TCTAAAC
1 CCTAAAC
*
940793 TCTAAAC
1 CCTAAAC
*
940800 CATAAA-
1 CCTAAAC
* *
940806 CATATAC
1 CCTAAAC
940813 CCTAAAC
1 CCTAAAC
*
940820 CTTAAACTC
1 CCTAAA--C
940829 CCTTAAAC
1 CC-TAAAC
*
940837 CATAAAC
1 CCTAAAC
940844 CCT
1 CCT
940847 TAATTCGATT
Statistics
Matches: 130, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.02
6 17 0.13
7 92 0.71
8 8 0.06
9 7 0.05
10 4 0.03
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:942255 original size:94 final size:94
Alignment explanation
Indices: 942130--942319 Score: 344
Period size: 94 Copynumber: 2.0 Consensus size: 94
942120 GAGGAAGGTA
942130 TGTATTGATCCCAGTATCACACATCGGTAGGTTTAGGGAAGCTTTGCGCTGGGGATATTATAAAA
1 TGTATTGATCCCAGTATCACACATCGGTAGGTTTAGGGAAGCTTTGCGCTGGGGATATTATAAAA
*
942195 GGCGAGGATACGCATGTTTAAGGCAGATT
66 GGCGAGGATACACATGTTTAAGGCAGATT
*
942224 TGTATTGATCCTAGTATCACACATCGGTAGGTTTAGGGAAGCTTTGCGCTGGGGATATTATAAAA
1 TGTATTGATCCCAGTATCACACATCGGTAGGTTTAGGGAAGCTTTGCGCTGGGGATATTATAAAA
* *
942289 GGTGAGGATACACATGTTTAAGGTAGATT
66 GGCGAGGATACACATGTTTAAGGCAGATT
942318 TG
1 TG
942320 CGTTGGGGGC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (94 bp):
TGTATTGATCCCAGTATCACACATCGGTAGGTTTAGGGAAGCTTTGCGCTGGGGATATTATAAAA
GGCGAGGATACACATGTTTAAGGCAGATT
Found at i:942413 original size:11 final size:11
Alignment explanation
Indices: 942397--942428 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
942387 TTCAAACTTT
942397 AATCGAGCTTG
1 AATCGAGCTTG
942408 AATCGAGCTTG
1 AATCGAGCTTG
942419 AATCGAGCTT
1 AATCGAGCTT
942429 CAATAGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (11 bp):
AATCGAGCTTG
Found at i:942441 original size:22 final size:22
Alignment explanation
Indices: 942397--942441 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
942387 TTCAAACTTT
* *
942397 AATCGAGCTTGAATCGAGCTTG
1 AATCGAGCTTCAATAGAGCTTG
*
942419 AATCGAGCTTCAATAGAGTTTG
1 AATCGAGCTTCAATAGAGCTTG
942441 A
1 A
942442 GTCTCGAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (22 bp):
AATCGAGCTTCAATAGAGCTTG
Found at i:942524 original size:31 final size:29
Alignment explanation
Indices: 942489--942608 Score: 105
Period size: 31 Copynumber: 3.7 Consensus size: 29
942479 GTTCGAGCCT
942489 TTTTGAGTTCGAGTCGAGTTTAAATATTATC
1 TTTTGAGTTCGAGTCGAGTTTAAAT-TTA-C
942520 TTTTGAGTTCGAGTCGAGTTTGAAAATTTTAGGC
1 TTTTGAGTTCGAGTCGAGTTT--AAA-TTTA--C
** *
942554 TTGCGAGTTTTCGAGTCGAGCTTAAATTTAC
1 TTTTGAG--TTCGAGTCGAGTTTAAATTTAC
942585 ATTTTTCGAGTTCGAGTCGAGTTT
1 --TTTT-GAGTTCGAGTCGAGTTT
942609 GGCAATATTC
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
31 22 0.30
32 13 0.18
33 12 0.16
34 13 0.18
36 13 0.18
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (29 bp):
TTTTGAGTTCGAGTCGAGTTTAAATTTAC
Found at i:943021 original size:42 final size:42
Alignment explanation
Indices: 942881--943108 Score: 203
Period size: 42 Copynumber: 5.3 Consensus size: 42
942871 ATTTTTTATA
* * * * *
942881 TTTATAATTGAGGTCCCTAATTTTTGTAATCGCACTTTTTATC
1 TTTATAATTGA-GACCTTAATTTTTTTAATCTCACTTTTTACC
* **
942924 TTTATAAATGAGACCATTAATTTTTTTCAATCAT-ACTTTTTTTATA
1 TTTATAATTGAGACC-TTAATTTTTTT-AATC-TCAC--TTTTTACC
*
942970 TTTATAATTGATTACCTTAATTTTTTTAATCTCA-TTTTTACC
1 TTTATAATTGA-GACCTTAATTTTTTTAATCTCACTTTTTACC
* *
943012 TTTATAATTGA-ACTTCTAATTTTTTTCAATCTCACCTTTTACC
1 TTTATAATTGAGACCT-TAATTTTTTT-AATCTCACTTTTTACC
* * *
943055 TTAATAATTGAGGCCCCTAATTTTTTTAAT-TCACTTTTTACC
1 TTTATAATTGA-GACCTTAATTTTTTTAATCTCACTTTTTACC
*
943097 TTTAAAATTGAG
1 TTTATAATTGAG
943109 GCCTCTAACG
Statistics
Matches: 154, Mismatches: 19, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
40 3 0.02
41 11 0.07
42 47 0.31
43 39 0.25
44 17 0.11
45 6 0.04
46 28 0.18
47 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.06, T:0.51
Consensus pattern (42 bp):
TTTATAATTGAGACCTTAATTTTTTTAATCTCACTTTTTACC
Found at i:943078 original size:85 final size:88
Alignment explanation
Indices: 942837--943108 Score: 252
Period size: 85 Copynumber: 3.1 Consensus size: 88
942827 ATGTTTTATT
* * * * ** * * * *
942837 TTTATAATTGAGTCCTTTTATTTTCTTCAATTTTA-TTTTTTATATTTATAATTGAGGTCCCTAA
1 TTTATAATTGAGACCATTAATTTTTTTCAATCATACTCTTTTACATTAATAATTGAGGACCCTAA
* * *
942901 TTTTTGTAATCGCACTTTTTATC
66 TTTTTTTAATCTCACTTTTTACC
* * * * ** *
942924 TTTATAAATGAGACCATTAATTTTTTTCAATCATACTTTTTTTATATTTATAATTGATTACCTTA
1 TTTATAATTGAGACCATTAATTTTTTTCAATCATAC-TCTTTTACATTAATAATTGAGGACCCTA
942989 ATTTTTTTAATCTCA-TTTTTACC
65 ATTTTTTTAATCTCACTTTTTACC
* * *
943012 TTTATAATTGA-A-CTTCTAATTTTTTTCAATC-TCAC-CTTTTACCTTAATAATTGAGGCCCCT
1 TTTATAATTGAGACCAT-TAATTTTTTTCAATCAT-ACTCTTTTACATTAATAATTGAGGACCCT
943073 AATTTTTTTAAT-TCACTTTTTACC
64 AATTTTTTTAATCTCACTTTTTACC
*
943097 TTTAAAATTGAG
1 TTTATAATTGAG
943109 GCCTCTAACG
Statistics
Matches: 154, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
84 3 0.02
85 48 0.31
86 3 0.02
87 46 0.30
88 17 0.11
89 37 0.24
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.53
Consensus pattern (88 bp):
TTTATAATTGAGACCATTAATTTTTTTCAATCATACTCTTTTACATTAATAATTGAGGACCCTAA
TTTTTTTAATCTCACTTTTTACC
Found at i:946849 original size:32 final size:32
Alignment explanation
Indices: 946808--946886 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
946798 CCTAAGGTGA
* * * *
946808 CCTTGGGTAGGCTCTGAGGCCCCAAGACATTT
1 CCTTGGGTAGGCTCTAAAGCCACAAGACACTT
**
946840 CCTTGGGTAGGCTCTAAAGCCACAAGGTACTT
1 CCTTGGGTAGGCTCTAAAGCCACAAGACACTT
*
946872 CATTGGGTAGGCTCT
1 CCTTGGGTAGGCTCT
946887 TAGGACCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.27
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTAAAGCCACAAGACACTT
Found at i:946899 original size:32 final size:31
Alignment explanation
Indices: 946809--946929 Score: 82
Period size: 32 Copynumber: 3.8 Consensus size: 31
946799 CTAAGGTGAC
* * ** *
946809 CTTGGGTAGGCTCTGAGGCCCCAAGACATTT
1 CTTGGGTAGGCTCTTAGGACCCAAGGTACTT
* *
946840 CCTTGGGTAGGCTCTAAAG-CCACAAGGTACTT
1 -CTTGGGTAGGCTCTTAGGACC-CAAGGTACTT
* *
946872 CATTGGGTAGGCTCTTAGGACCTAAGGTACTC
1 C-TTGGGTAGGCTCTTAGGACCCAAGGTACTT
** * *
946904 CTTTGAATAGGCTCTCAGGCCCCAAG
1 C-TTGGGTAGGCTCTTAGGACCCAAG
946930 ATATTCTCTT
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
31 3 0.04
32 66 0.93
33 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (31 bp):
CTTGGGTAGGCTCTTAGGACCCAAGGTACTT
Found at i:947387 original size:65 final size:64
Alignment explanation
Indices: 947304--947457 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 64
947294 ATTGAATTTT
* * * *
947304 GAATTCATTTAATGCACCGATGCACAAGCCATGCATCGATGCACTGCTGAAC-ATTTTGAAACAT
1 GAATGCATTTAGTGCACCGATGCACAAGCCATGCATCGATACAC-CCTG-ACTATTTTGAAACAT
947368 C
64 C
* * *
947369 GAATGCATTTAGTACACCGATGCACAAGTCATGCATCGATACACCCTGGCTATTTTGAAACATC
1 GAATGCATTTAGTGCACCGATGCACAAGCCATGCATCGATACACCCTGACTATTTTGAAACATC
* *
947433 GAA-GCAAATTAGTGCACTGATGCAC
1 GAATGC-ATTTAGTGCACCGATGCAC
947458 CCTAAGTGCA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
63 3 0.04
64 35 0.45
65 39 0.51
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (64 bp):
GAATGCATTTAGTGCACCGATGCACAAGCCATGCATCGATACACCCTGACTATTTTGAAACATC
Found at i:947455 original size:64 final size:65
Alignment explanation
Indices: 947316--947457 Score: 182
Period size: 64 Copynumber: 2.2 Consensus size: 65
947306 ATTCATTTAA
* * *
947316 TGCACCGATGCACAAGCCATGCATCGATGCACTGCTGAACATTTTGAAACATCGAATGCATTTAG
1 TGCACCGATGCACAAGCCATGCATCGATACACTCCTGAACATTTTGAAACATCGAATGCAATTAG
* * *
947381 TACACCGATGCACAAGTCATGCATCGATACAC-CCTG-GCTATTTTGAAACATCGAA-GCAAATT
1 TGCACCGATGCACAAGCCATGCATCGATACACTCCTGAAC-ATTTTGAAACATCGAATGC-AATT
947443 AG
64 AG
*
947445 TGCACTGATGCAC
1 TGCACCGATGCAC
947458 CCTAAGTGCA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 3 0.04
64 35 0.52
65 29 0.43
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (65 bp):
TGCACCGATGCACAAGCCATGCATCGATACACTCCTGAACATTTTGAAACATCGAATGCAATTAG
Found at i:949407 original size:21 final size:21
Alignment explanation
Indices: 949382--949421 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
949372 AAGACTTTAT
949382 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
949403 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
949422 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:953299 original size:23 final size:23
Alignment explanation
Indices: 953265--953311 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
953255 TGCATCGGTA
*
953265 CCTTGAAGGTGCACCGATGCACT
1 CCTTGAAGGTGCACCGATACACT
* *
953288 CCTTGAATGTGCATCGATACACT
1 CCTTGAAGGTGCACCGATACACT
953311 C
1 C
953312 ATCGGGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (23 bp):
CCTTGAAGGTGCACCGATACACT
Found at i:953704 original size:21 final size:22
Alignment explanation
Indices: 953672--953712 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
953662 AAAAACAAAC
953672 AATTTTGCAAAAAAAAAATTTG
1 AATTTTGCAAAAAAAAAATTTG
953694 AATTTTG-AAAAAAAAAATT
1 AATTTTGCAAAAAAAAAATT
953713 GTTTCGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
AATTTTGCAAAAAAAAAATTTG
Found at i:953721 original size:18 final size:20
Alignment explanation
Indices: 953680--953722 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
953670 ACAATTTTGC
*
953680 AAAAAAAAAATTTGAATTTTG
1 AAAAAAAAAATTTG-ATTTCG
953701 AAAAAAAAAA-TTG-TTTCG
1 AAAAAAAAAATTTGATTTCG
953719 AAAA
1 AAAA
953723 TTATTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
20 3 0.14
21 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (20 bp):
AAAAAAAAAATTTGATTTCG
Found at i:953737 original size:13 final size:13
Alignment explanation
Indices: 953721--953745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
953711 TTGTTTCGAA
953721 AATTATTGTTTTT
1 AATTATTGTTTTT
953734 AATTATTGTTTT
1 AATTATTGTTTT
953746 AGATTCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (13 bp):
AATTATTGTTTTT
Found at i:955596 original size:64 final size:65
Alignment explanation
Indices: 955462--955603 Score: 173
Period size: 64 Copynumber: 2.2 Consensus size: 65
955452 ATGCATTTAA
* ** * * *
955462 TGCATCGATGCACAAGCCATGCATCGATGCATTGCTGAACATTTTGAAATATCGAATACATTTAG
1 TGCACCGATGCACAAGCCATGCATCGATGCATCCCTGAACATTTTGAAACATCGAACACAATTAG
* *
955527 TGCACCGATGCACAAGTCATGCATCGATGCA-CCCTG-GCTATTTTGAAACATCGAAGCA-AATT
1 TGCACCGATGCACAAGCCATGCATCGATGCATCCCTGAAC-ATTTTGAAACATCGAA-CACAATT
955589 AG
64 AG
955591 TGCACCGATGCAC
1 TGCACCGATGCAC
955604 CCCAAGTGCA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
63 1 0.01
64 36 0.54
65 30 0.45
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (65 bp):
TGCACCGATGCACAAGCCATGCATCGATGCATCCCTGAACATTTTGAAACATCGAACACAATTAG
Found at i:958077 original size:13 final size:13
Alignment explanation
Indices: 958048--958088 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
958038 CATTTTTTCA
958048 TTTTTTT-AATTAAT
1 TTTTTTTCAATT--T
958062 TTTTTTTCAATTT
1 TTTTTTTCAATTT
958075 TTTTTTTC-ATTT
1 TTTTTTTCAATTT
958087 TT
1 TT
958089 AGTGGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.23
13 9 0.35
14 7 0.27
15 4 0.15
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTCAATTT
Found at i:960121 original size:21 final size:23
Alignment explanation
Indices: 960097--960143 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
960087 GGAGAAGAAG
*
960097 AAGATAGAAAATG-AAAGT-AAA
1 AAGAGAGAAAATGAAAAGTGAAA
*
960118 AAGAGAGAAAGTGAAAAGTGAAA
1 AAGAGAGAAAATGAAAAGTGAAA
960141 AAG
1 AAG
960144 TGGGGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.11
Consensus pattern (23 bp):
AAGAGAGAAAATGAAAAGTGAAA
Found at i:967615 original size:20 final size:20
Alignment explanation
Indices: 967578--967620 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
967568 AATTCACCTC
967578 ATGCAACTAAATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* * *
967598 ATGCATCTACATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
967618 ATG
1 ATG
967621 AGCTTTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:971688 original size:17 final size:17
Alignment explanation
Indices: 971662--971695 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
971652 TGATAAACAT
971662 AAAATATGACCTTTTGA
1 AAAATATGACCTTTTGA
* *
971679 AAAATTTGACTTTTTGA
1 AAAATATGACCTTTTGA
971696 TCAAAGTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAATATGACCTTTTGA
Found at i:971724 original size:19 final size:20
Alignment explanation
Indices: 971700--971780 Score: 64
Period size: 19 Copynumber: 4.2 Consensus size: 20
971690 TTTTGATCAA
*
971700 AGTCAAAGTTAAC-GGTTAG
1 AGTCAAAGTCAACAGGTTAG
*
971719 AGTCAAAGTCAAC-GAG-TCG
1 AGTCAAAGTCAACAG-GTTAG
* * * *
971738 GGTCAAAGTTAACGGGTCAG
1 AGTCAAAGTCAACAGGTTAG
971758 -GTCAAAGTCAACAGGTT-G
1 AGTCAAAGTCAACAGGTTAG
971776 AGTCA
1 AGTCA
971781 GGTTGACTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.02
19 45 0.92
20 3 0.06
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (20 bp):
AGTCAAAGTCAACAGGTTAG
Found at i:975653 original size:32 final size:32
Alignment explanation
Indices: 975564--975654 Score: 121
Period size: 32 Copynumber: 2.8 Consensus size: 32
975554 TAAGGTGACC
* * * *
975564 TTGGGTAGGCTCTGAGGCCCTAAGGAATTTTC
1 TTGGGTAGGCTCTAAGGCCCTAAGGTACTTTA
975596 TTGGGTAGGCTCTAAGGCCGC-AAGGTACTTTA
1 TTGGGTAGGCTCTAAGGCC-CTAAGGTACTTTA
*
975628 TTGGGTAGGCTCTTAGGCCCTAAGGTA
1 TTGGGTAGGCTCTAAGGCCCTAAGGTA
975655 GTTATTCCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
31 1 0.02
32 50 0.96
33 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (32 bp):
TTGGGTAGGCTCTAAGGCCCTAAGGTACTTTA
Found at i:983164 original size:20 final size:20
Alignment explanation
Indices: 983139--983178 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
983129 GGGCCTCCCA
983139 TGAGAAACAACATGTAACTC
1 TGAGAAACAACATGTAACTC
983159 TGAGAAACAACATGTAACTC
1 TGAGAAACAACATGTAACTC
983179 CTGGAGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (20 bp):
TGAGAAACAACATGTAACTC
Found at i:992420 original size:23 final size:23
Alignment explanation
Indices: 992394--992439 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
992384 TGTGACCAGA
992394 GAAGAAACAAAGAGAAACCACAC
1 GAAGAAACAAAGAGAAACCACAC
992417 GAAGAAACAAAGAGAAACCACAC
1 GAAGAAACAAAGAGAAACCACAC
992440 CTCAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.22, G:0.17, T:0.00
Consensus pattern (23 bp):
GAAGAAACAAAGAGAAACCACAC
Found at i:996105 original size:20 final size:19
Alignment explanation
Indices: 996057--996152 Score: 106
Period size: 18 Copynumber: 5.1 Consensus size: 19
996047 CGTTCAGTAT
* *
996057 TTGTCCCAAATGACCACTA
1 TTGTCCCGAAGGACCACTA
996076 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACT-A
* *
996095 TTGTTCCGAAGAACCACTA
1 TTGTCCCGAAGGACCACTA
996114 TT-TCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACT-A
* *
996133 TTGTTCCGAAGAACCACTA
1 TTGTCCCGAAGGACCACTA
996152 T
1 T
996153 ATATCCCTCG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
18 28 0.43
19 9 0.14
20 28 0.43
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (19 bp):
TTGTCCCGAAGGACCACTA
Found at i:996111 original size:38 final size:38
Alignment explanation
Indices: 996069--996152 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
996059 GTCCCAAATG
996069 ACCACTATGTCCCGAAGGACCACTGATTGTTCCGAAGA
1 ACCACTATGTCCCGAAGGACCACTGATTGTTCCGAAGA
*
996107 ACCACTATTTCCCGAAGGACCACTGATTGTTCCGAAGA
1 ACCACTATGTCCCGAAGGACCACTGATTGTTCCGAAGA
996145 ACCACTAT
1 ACCACTAT
996153 ATATCCCTCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (38 bp):
ACCACTATGTCCCGAAGGACCACTGATTGTTCCGAAGA
Found at i:996301 original size:21 final size:20
Alignment explanation
Indices: 996254--996308 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
996244 CTATCACTTC
996254 TCATATAGCACATAATTTATT
1 TCATATA-CACATAATTTATT
*
996275 TCATATACACATGATTCT-TT
1 TCATATACACATAATT-TATT
*
996295 TCAATATTCACATA
1 TC-ATATACACATA
996309 CCTGTATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (20 bp):
TCATATACACATAATTTATT
Found at i:996783 original size:63 final size:63
Alignment explanation
Indices: 996716--996835 Score: 186
Period size: 63 Copynumber: 1.9 Consensus size: 63
996706 TTCCTTAACG
* *
996716 GGTGCATCGATGCACTACTTATGCATCGGTGCACGAATCACATTCGATGTTTTTATTCAATGT
1 GGTGCATCAATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATTCAATGT
* * **
996779 GGTGCATCAATGCACTCCTTATGCATCGATGCACTAATGGCATTCGATGTTTTTATT
1 GGTGCATCAATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATT
996836 TTATCAGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 51 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (63 bp):
GGTGCATCAATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATTCAATGT
Found at i:1002963 original size:20 final size:20
Alignment explanation
Indices: 1002912--1003043 Score: 141
Period size: 18 Copynumber: 6.9 Consensus size: 20
1002902 CGTTCAGTAT
* *
1002912 TTGTCCCGAAGGACCACT-A
1 TTGTTCCGAAGAACCACTGA
*
1002931 -TGTCCCGAAGAACCACTGA
1 TTGTTCCGAAGAACCACTGA
* *
1002950 TTATTCCAAAGAACCACT-A
1 TTGTTCCGAAGAACCACTGA
* *
1002969 -TGTCCCGAAGGACCACTGA
1 TTGTTCCGAAGAACCACTGA
1002988 TTGTTCCGAAGAACCACT-A
1 TTGTTCCGAAGAACCACTGA
* *
1003007 -TGTCCCGAAGGACCACTGA
1 TTGTTCCGAAGAACCACTGA
1003026 TTGTTCCGAAGAACCACT
1 TTGTTCCGAAGAACCACT
1003044 ATATATCCCT
Statistics
Matches: 93, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
18 44 0.47
19 5 0.05
20 44 0.47
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (20 bp):
TTGTTCCGAAGAACCACTGA
Found at i:1002966 original size:38 final size:38
Alignment explanation
Indices: 1002912--1003045 Score: 223
Period size: 38 Copynumber: 3.5 Consensus size: 38
1002902 CGTTCAGTAT
* * *
1002912 TTGTCCCGAAGGACCACTATGTCCCGAAGAACCACTGA
1 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGA
* *
1002950 TTATTCCAAAGAACCACTATGTCCCGAAGGACCACTGA
1 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGA
1002988 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGA
1 TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGA
1003026 TTGTTCCGAAGAACCACTAT
1 TTGTTCCGAAGAACCACTAT
1003046 ATATCCCTCG
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 89 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (38 bp):
TTGTTCCGAAGAACCACTATGTCCCGAAGGACCACTGA
Found at i:1003194 original size:21 final size:20
Alignment explanation
Indices: 1003147--1003201 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
1003137 CTATCACTTC
*
1003147 TCATATAGCACATAATTTATT
1 TCATATA-CACATGATTTATT
1003168 TCATATACACATGATTCT-TT
1 TCATATACACATGATT-TATT
*
1003188 TCAATATTCACATG
1 TC-ATATACACATG
1003202 CCTGTATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (20 bp):
TCATATACACATGATTTATT
Found at i:1003675 original size:63 final size:63
Alignment explanation
Indices: 1003608--1003727 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 63
1003598 TTCCTTAACA
*
1003608 GGTGCATCGATGCACTACTTATGCATCGATGCACGAATCACATTCGATGTTTTTATTCAATGG
1 GGTGCATCGATGCACTACTTATGCATCAATGCACGAATCACATTCGATGTTTTTATTCAATGG
* * **
1003671 GGTGCATCGATGCACTCCTTATGCATCAATGCACTAATGGCATTCGATGTTTTTATT
1 GGTGCATCGATGCACTACTTATGCATCAATGCACGAATCACATTCGATGTTTTTATT
1003728 TTATCAGAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (63 bp):
GGTGCATCGATGCACTACTTATGCATCAATGCACGAATCACATTCGATGTTTTTATTCAATGG
Found at i:1006906 original size:15 final size:15
Alignment explanation
Indices: 1006886--1006946 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
1006876 ATTATCGATG
1006886 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
1006901 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
* *
1006916 -A-TATTAT-T-GAT
1 AATTTTTATATAAAT
1006927 GAATTTTTATATAAAT
1 -AATTTTTATATAAAT
1006943 AATT
1 AATT
1006947 AGAATTTCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
11 2 0.06
12 1 0.03
13 6 0.17
14 6 0.17
15 19 0.53
16 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:1006951 original size:21 final size:21
Alignment explanation
Indices: 1006885--1006953 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 21
1006875 TATTATCGAT
1006885 GAATTTTTATATAAATAATT-
1 GAATTTTTATATAAATAATTA
* * * *
1006905 --TTTATTTAAATATATTATTGA
1 GAATT-TTTATATAAATAATT-A
1006926 TGAATTTTTATATAAATAATTA
1 -GAATTTTTATATAAATAATTA
1006948 GAATTT
1 GAATTT
1006954 CACTTGTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 11
0.65 0.15 0.20
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
21 6 0.17
22 1 0.03
23 12 0.34
24 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
GAATTTTTATATAAATAATTA
Found at i:1015323 original size:21 final size:21
Alignment explanation
Indices: 1015294--1015333 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1015284 CAAGGTTCAC
1015294 GAGTCCTACGAGTAATCATCG
1 GAGTCCTACGAGTAATCATCG
*
1015315 GAGTTCTACGAGTAATCAT
1 GAGTCCTACGAGTAATCAT
1015334 TGGCTCGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (21 bp):
GAGTCCTACGAGTAATCATCG
Found at i:1016397 original size:10 final size:10
Alignment explanation
Indices: 1016382--1016407 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1016372 AATATAGCTT
1016382 GTTCATGTTC
1 GTTCATGTTC
1016392 GTTCATGTTC
1 GTTCATGTTC
1016402 GTTCAT
1 GTTCAT
1016408 TTAAATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (10 bp):
GTTCATGTTC
Found at i:1016467 original size:27 final size:26
Alignment explanation
Indices: 1016425--1016475 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
1016415 ATAAACGAAC
1016425 ATAAACGAACACAAACAAACGAACATA
1 ATAAACGAACACAAACAAAC-AACATA
* *
1016452 ATAAATGAACATAAACAAACAACA
1 ATAAACGAACACAAACAAACAACA
1016476 CAAACACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.65, C:0.20, G:0.06, T:0.10
Consensus pattern (26 bp):
ATAAACGAACACAAACAAACAACATA
Found at i:1016475 original size:13 final size:14
Alignment explanation
Indices: 1016427--1016481 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 14
1016417 AAACGAACAT
1016427 AAACGAACACAAAC
1 AAACGAACACAAAC
* *
1016441 AAACGAACA-TAAT
1 AAACGAACACAAAC
* *
1016454 AAATGAACATAAAC
1 AAACGAACACAAAC
1016468 AAAC-AACACAAAC
1 AAACGAACACAAAC
1016481 A
1 A
1016482 CAAAAAATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
13 19 0.58
14 14 0.42
ACGTcount: A:0.65, C:0.22, G:0.05, T:0.07
Consensus pattern (14 bp):
AAACGAACACAAAC
Found at i:1016755 original size:14 final size:14
Alignment explanation
Indices: 1016736--1016779 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1016726 GCCCTCTGTT
*
1016736 CGAACATATATGAA
1 CGAACATAAATGAA
1016750 CGAACATAAATGAA
1 CGAACATAAATGAA
* * *
1016764 CTAATATAAACGAA
1 CGAACATAAATGAA
1016778 CG
1 CG
1016780 TTCACGAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:1020077 original size:23 final size:23
Alignment explanation
Indices: 1020051--1020096 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1020041 AAGAACCAAG
1020051 ATAAACTTAAAT-ATACCATTAAA
1 ATAAACTTAAATCAT-CCATTAAA
* *
1020074 ATAAAGTTTAATCATCCATTAAA
1 ATAAACTTAAATCATCCATTAAA
1020097 CCAACCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (23 bp):
ATAAACTTAAATCATCCATTAAA
Found at i:1026309 original size:3 final size:3
Alignment explanation
Indices: 1026301--1026343 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
1026291 TTTCATCTGA
1026301 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1026344 TTTTACAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1028834 original size:29 final size:30
Alignment explanation
Indices: 1028788--1028858 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
1028778 TCTTTCCTAA
* *
1028788 CCATTTGTTTTTCCTTATGTTT-TTTCTTG
1 CCATTTATTTTTCCTTATGTTTATTTATTG
** * *
1028817 CCATTTATTTTTTGTTATTTTTATTTATTT
1 CCATTTATTTTTCCTTATGTTTATTTATTG
*
1028847 CTATTTATTTTT
1 CCATTTATTTTT
1028859 ATTTTACTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 18 0.53
30 16 0.47
ACGTcount: A:0.13, C:0.11, G:0.06, T:0.70
Consensus pattern (30 bp):
CCATTTATTTTTCCTTATGTTTATTTATTG
Found at i:1028844 original size:10 final size:10
Alignment explanation
Indices: 1028819--1028862 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
1028809 TTTTCTTGCC
1028819 ATTTATTTTT
1 ATTTATTTTT
1028829 -TGTTATTTTT
1 AT-TTATTTTT
*
1028839 ATTTATTTCT
1 ATTTATTTTT
1028849 ATTTATTTTT
1 ATTTATTTTT
1028859 ATTT
1 ATTT
1028863 TACTAACTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 1 0.03
10 28 0.93
11 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:1038361 original size:20 final size:20
Alignment explanation
Indices: 1038336--1038374 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1038326 CGCCCTATAT
1038336 AAAAAGAAAAAAAACAAAAG
1 AAAAAGAAAAAAAACAAAAG
*
1038356 AAAAAGAAAAAGAACAAAA
1 AAAAAGAAAAAAAACAAAA
1038375 AGGTGGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAACAAAAG
Found at i:1039226 original size:88 final size:88
Alignment explanation
Indices: 1039077--1039255 Score: 304
Period size: 88 Copynumber: 2.0 Consensus size: 88
1039067 CACGACGGAG
*
1039077 GATATTGTGCCACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACG
1 GATATCGTGCCACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACG
* *
1039142 AATAACTTTCCAATTTCAGAGTC
66 AACAACTTTCCAATTTCAGAGCC
* *
1039165 GATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACG
1 GATATCGTGCCACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACG
*
1039230 AACAATTTTCCAATTTCAGAGCC
66 AACAACTTTCCAATTTCAGAGCC
1039253 GAT
1 GAT
1039256 TTTAACTCCA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 85 1.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (88 bp):
GATATCGTGCCACTAAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACG
AACAACTTTCCAATTTCAGAGCC
Found at i:1039356 original size:109 final size:109
Alignment explanation
Indices: 1039165--1039361 Score: 331
Period size: 109 Copynumber: 1.8 Consensus size: 109
1039155 TTTCAGAGTC
*
1039165 GATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACG
1 GATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACG
* *
1039230 AACAATTTTCCAATTTCAGAGCCGATTTTAACTCCACGACGGAG
66 AACAATTTCCCAATTTCAAAGCCGATTTTAACTCCACGACGGAG
* * * *
1039274 GATATCGTGCTACCCGAGAGAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATG
1 GATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACG
1039339 AACAATTTCCCAATTTCAAAGCC
66 AACAATTTCCCAATTTCAAAGCC
1039362 AAAGATATTG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (109 bp):
GATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACG
AACAATTTCCCAATTTCAAAGCCGATTTTAACTCCACGACGGAG
Found at i:1039409 original size:197 final size:187
Alignment explanation
Indices: 1039055--1039533 Score: 533
Period size: 197 Copynumber: 2.5 Consensus size: 187
1039045 CAAACACCCA
**
1039055 CGATTTCAACTCCACGACGGAGGATATTGTGCCACTAAAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATA-TGTGCCACTCGAGACAACACAAGTTCAACTTCACAACG
* * * * *
1039120 AAGGGACGACTGGTTGTCAACGAATAACTTT-CCAATTTCAGAGTCGATATCGTGCCACTCAAGA
65 AAGGGACGGCTGGTTGTCAATGAACAA-TTTCCCAATTTCAAAGCCGATATC-TGCCACTCAAGA
* * **
1039184 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAATTTTCCAATTTC-A
128 CAACACAAGCTCAACTCCACAACGAAGGGACGGCTGACTGTCAAC--A-AA-----CAATTTCGA
1039248 GAGC
185 -AGC
* * * *
1039252 CGATTTTAACTCCACGACGGAGGATATCGTGCTACCCGAGAGAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATAT-GTGCCACTCGAGACAACACAAGTTCAACTTCACAACG
*
1039317 AAGGGACGGCTGGTTGTCAATGAACAATTTCCCAATTTCAAAGCCAAAGATAT-TG-GACTCAAG
65 AAGGGACGGCTGGTTGTCAATGAACAATTTCCCAATTTCAAAGCC---GATATCTGCCACTCAAG
* * *
1039380 ACGACACAAGCTCAACTCCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGAAGC
127 ACAACACAAGCTCAACTCCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGAAGC
* * * * *
1039441 CAATCTCAACTTCAC-AGCGAAGGATAT-TG-GACTCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGA-CGGAGGATATGTGCCACTCGAGACAACACAAGTTCAACTTCACAACG
1039503 AAGGGACGGCTGGTTGTCAAT-AACAATTTCC
65 AAGGGACGGCTGGTTGTCAATGAACAATTTCC
1039534 TAGTTTCAGG
Statistics
Matches: 248, Mismatches: 27, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
185 10 0.04
186 51 0.21
187 2 0.01
188 1 0.00
189 30 0.12
190 1 0.00
194 2 0.01
195 1 0.00
196 4 0.02
197 139 0.56
198 2 0.01
200 5 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (187 bp):
CGATTTCAACTCCACGACGGAGGATATGTGCCACTCGAGACAACACAAGTTCAACTTCACAACGA
AGGGACGGCTGGTTGTCAATGAACAATTTCCCAATTTCAAAGCCGATATCTGCCACTCAAGACAA
CACAAGCTCAACTCCACAACGAAGGGACGGCTGACTGTCAACAAACAATTTCGAAGC
Done.