Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 56
Found at i:969667 original size:22 final size:21
Alignment explanation
Indices: 969638--969678 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
969628 TTTTATATTT
* *
969638 TAAATAAAATATATATTTTGA
1 TAAATAAAAAAAATATTTTGA
969659 TAAAGTAAAAAAAATATTTT
1 TAAA-TAAAAAAAATATTTT
969679 AAATTAGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
TAAATAAAAAAAATATTTTGA
Found at i:970581 original size:20 final size:20
Alignment explanation
Indices: 970558--970596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
970548 TGGTTATAAA
*
970558 TATTATCTTATAATTATTAC
1 TATTATATTATAATTATTAC
*
970578 TATTATATTATTATTATTA
1 TATTATATTATAATTATTA
970597 TTATAACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATATTATAATTATTAC
Found at i:970589 original size:3 final size:3
Alignment explanation
Indices: 970565--970633 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
970555 AAATATTATC
* * * **
970565 TTA TAA TTA TTA CTA TTA -TA TTA TTA TTA TTA TTA TAA CAA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
970611 TTA -TA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
970634 ATATCATTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 6 0.11
3 47 0.89
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:970592 original size:17 final size:17
Alignment explanation
Indices: 970570--970631 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
970560 TTATCTTATA
*
970570 ATTATTACTATTATATT
1 ATTATTATTATTATATT
970587 ATTATTATTATTATA--
1 ATTATTATTATTATATT
**
970602 ACAATTA-TATTATATT
1 ATTATTATTATTATATT
*
970618 ATTAGTATTATTAT
1 ATTATTATTATTAT
970632 TAATATCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
14 7 0.19
15 5 0.14
16 4 0.11
17 20 0.56
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATTATTATTATATT
Found at i:975938 original size:9 final size:9
Alignment explanation
Indices: 975924--975981 Score: 84
Period size: 9 Copynumber: 6.6 Consensus size: 9
975914 AGATGAAAAG
975924 AAAAAATGA
1 AAAAAATGA
975933 AAAAAATG-
1 AAAAAATGA
975941 -AAAAATGA
1 AAAAAATGA
*
975949 AAAAAATTA
1 AAAAAATGA
975958 AAAAAATGA
1 AAAAAATGA
975967 AAAAAATGA
1 AAAAAATGA
975976 ATAAAA
1 A-AAAA
975982 GGAGGGATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
7 7 0.16
9 33 0.75
10 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.14
Consensus pattern (9 bp):
AAAAAATGA
Found at i:975981 original size:18 final size:17
Alignment explanation
Indices: 975919--975981 Score: 85
Period size: 16 Copynumber: 3.7 Consensus size: 17
975909 CTTGAAGATG
975919 AAAA-GAAAAAATGAAA
1 AAAATGAAAAAATGAAA
975935 AAAATG-AAAAATGAAA
1 AAAATGAAAAAATGAAA
*
975951 AAAATTAAAAAAATGAAA
1 AAAA-TGAAAAAATGAAA
975969 AAAATGAATAAAA
1 AAAATGAA-AAAA
975982 GGAGGGATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 18 0.44
17 5 0.12
18 18 0.44
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.13
Consensus pattern (17 bp):
AAAATGAAAAAATGAAA
Found at i:977010 original size:16 final size:17
Alignment explanation
Indices: 976984--977019 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
976974 GTTTCCCAAT
*
976984 GATAGTTGAAGATTGAA
1 GATAGTTGAAGAATGAA
977001 GATA-TTGAAGAATGAA
1 GATAGTTGAAGAATGAA
977017 GAT
1 GAT
977020 GAGGATAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (17 bp):
GATAGTTGAAGAATGAA
Found at i:977262 original size:55 final size:55
Alignment explanation
Indices: 977178--977538 Score: 444
Period size: 54 Copynumber: 6.6 Consensus size: 55
977168 TGAAGCAAAA
* * * * *
977178 GAAGATTGTTCGAGCCTTATACTCTCTGAAGAGATAGGGGGCATACACGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
* * *
977233 GAAGATTGTTCGAGTCTTATACTCTCTGAA-AGAATAGAGAGCATACATGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACACGATTATT
* * *
977288 GAAGATTGTTCGAGTCTTATACTTTCTAAAGAAATAGGGAG-AAACACGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
* * *
977342 GAAGATTGTTCGAGTCTTATACTCTCTGAA-AAATAGGGGGCAGACACTATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
* * * * *
977396 GAAGATTATTCGAGTCTTATACTCTCTGAAGGAATA-GGTGCAGACATGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
* * * *
977450 GAAGATTGTTCGAGTCTTATAATCTCTGAAGAAATAGGAAGAAGAAACGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
* *
977505 GAAGATTGTTCGAGT-TTCATACTCCCTAAAGAAA
1 GAAGATTGTTCGAGTCTT-ATACTCTCTGAAGAAA
977539 GAGTGAGCGA
Statistics
Matches: 266, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
53 9 0.03
54 129 0.48
55 127 0.48
56 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (55 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATT
Found at i:977573 original size:217 final size:218
Alignment explanation
Indices: 977178--977589 Score: 516
Period size: 217 Copynumber: 1.9 Consensus size: 218
977168 TGAAGCAAAA
* *
977178 GAAGATTGTTCGAGCCTTATACTCTCTGAAGAGATAGGGGGCATACACGATTGTTGAAGATTGTT
1 GAAGATTATTCGAGCCTTATACTCTCTGAAGAGATAGGGGGCAGACACGATTGTTGAAGATTGTT
* * * * *
977243 CGAGTCTTATACTCTCTGAAAGAATAGAGAGCATACATGATTATTGAAGATTGTTCGAGTCTTAT
66 CGAGTCTTATAATCTCTGAAAGAATAGAGAGAAGAAACGATTATTGAAGATTGTTCGAGTCTTAT
** * * ** * *
977308 ACTTTCTAAAGAAATAGGGAGAAACACGATTATTGAAGATTGTTCGAG-TCTTATACTCTCTGAA
131 ACTCCCTAAAGAAAGAGGGAGAAACACGATAAAAGAAGATTATTCGAGTTC-TATACTCCCTGAA
977372 AAATAGGGGGCAGACACTATTGTT
195 AAATAGGGGGCAGACACTATTGTT
* * *
977396 GAAGATTATTCGAGTCTTATACTCTCTGAAG-GAATA-GGTGCAGACATGATTGTTGAAGATTGT
1 GAAGATTATTCGAGCCTTATACTCTCTGAAGAG-ATAGGGGGCAGACACGATTGTTGAAGATTGT
977459 TCGAGTCTTATAATCTCTG-AAGAAATAG-GAAGAAGAAACGATTATTGAAGATTGTTCGAGT-T
65 TCGAGTCTTATAATCTCTGAAAG-AATAGAG-AGAAGAAACGATTATTGAAGATTGTTCGAGTCT
* * *
977521 TCATACTCCCTAAAGAAAGAGTGAGCGAACCCG-TAAGAAGAAGA-TATTCGAGTTCTATACTCC
128 T-ATACTCCCTAAAGAAAGAGGGAG-AAACACGATAA-AAGAAGATTATTCGAGTTCTATACTCC
977584 CTGAAA
190 CTGAAA
977590 GAAAGAGGGA
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
216 6 0.04
217 116 0.70
218 44 0.27
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (218 bp):
GAAGATTATTCGAGCCTTATACTCTCTGAAGAGATAGGGGGCAGACACGATTGTTGAAGATTGTT
CGAGTCTTATAATCTCTGAAAGAATAGAGAGAAGAAACGATTATTGAAGATTGTTCGAGTCTTAT
ACTCCCTAAAGAAAGAGGGAGAAACACGATAAAAGAAGATTATTCGAGTTCTATACTCCCTGAAA
AATAGGGGGCAGACACTATTGTT
Found at i:977581 original size:54 final size:56
Alignment explanation
Indices: 977505--977769 Score: 350
Period size: 55 Copynumber: 4.9 Consensus size: 56
977495 AACGATTATT
* * *
977505 GAAGATTGTTCGAGTT-TCATACTCCCT-AAAGAAAGAGTGAGCGAACCCGTAAGAA
1 GAAGATTATTCGAGTTCT-ATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGCA
* **
977560 GAAGA-TATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCATTTGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGCA
* **
977615 GAAGA-TATTTGAGTTCTATACTCCCTGAAAGAAA-AGGGAGCGAACCCGTTTGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGCA
977669 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AAAGAGGGAGCGAACCCGTAAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGCA
* * *
977724 GAAGATTGTTCGAGTTC--TACTCTCTG-AAGAAAGGGGGAGCGAACCC
1 GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCC
977770 ACTGGTTGAA
Statistics
Matches: 191, Mismatches: 14, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
52 2 0.01
53 24 0.13
54 45 0.24
55 120 0.63
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (56 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGCA
Found at i:977588 original size:109 final size:108
Alignment explanation
Indices: 977450--977706 Score: 265
Period size: 109 Copynumber: 2.4 Consensus size: 108
977440 CATGATTGTT
* * * * * *
977450 GAAGATTGTTCGAG-TCTTATAATCTCTGAAGAAATAGGAAGAAGAAACGATTAT-TGAAGAT-T
1 GAAGATTATTCGAGTTC-TATACTCCCTGAAGAAAGAGGAAG-AGAAACCATT-TCAGAAGATAT
*
977512 GTTCGAGTT-TCATACTCCCT-AAAGAAAGAGTGAGCGAACCCGTAAGAA
63 -TT-GAGTTCT-ATACTCCCTGAAAGAAA-AGGGAGCGAACCCGTAAGAA
* * *
977560 GAAGA-TATTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCATTTGCAGAAGATATT
1 GAAGATTATTCGAGTTCTATACTCCCTG-AAGAAAGAGGAAGAGAAACCATTT-CAGAAGATATT
** *
977624 TGAGTTCTATACTCCCTGAAAGAAAAGGGAGCGAACCCGTTTGCA
64 TGAGTTCTATACTCCCTGAAAGAAAAGGGAGCGAACCCGTAAGAA
*
977669 GAAGATTATTCGAGTTCTATACTCCCTGAAAAAAGAGG
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGG
977707 GAGCGAACCC
Statistics
Matches: 125, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
108 1 0.01
109 67 0.54
110 56 0.45
111 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (108 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGAAGAGAAACCATTTCAGAAGATATTTG
AGTTCTATACTCCCTGAAAGAAAAGGGAGCGAACCCGTAAGAA
Found at i:977707 original size:109 final size:110
Alignment explanation
Indices: 977505--977769 Score: 364
Period size: 109 Copynumber: 2.4 Consensus size: 110
977495 AACGATTATT
*
977505 GAAGATTGTTCGAGTTTCATACTCCCT-AAAGAAAGAGTGAGCGAACCCGTAAGAAGAAGATATT
1 GAAGATTGTTCGAG-TTCATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATATT
**
977569 CGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCATTTGCA
65 CGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCATAAGCA
** *
977615 GAAGATAT-TT-GAGTTCTATACTCCCTGAAAGAAA-AGGGAGCGAACCCGTTTGCAGAAGATTA
1 GAAGAT-TGTTCGAGTTC-ATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGA-TA
*
977677 TTCGAGTTCTATACTCCCTGAAA-AAAGAGGGAGCGAACCCGTAAGCA
63 TTCGAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCATAAGCA
* *
977724 GAAGATTGTTCGAGTTC-TACTCTCTG-AAGAAAGGGGGAGCGAACCC
1 GAAGATTGTTCGAGTTCATACTCCCTGAAAGAAAGAGGGAGCGAACCC
977770 ACTGGTTGAA
Statistics
Matches: 139, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
107 6 0.04
108 24 0.17
109 62 0.45
110 46 0.33
111 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (110 bp):
GAAGATTGTTCGAGTTCATACTCCCTGAAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATATTC
GAGTTCTATACTCCCTGAAAGAAAGAGGGAGCGAACCCATAAGCA
Found at i:977966 original size:20 final size:20
Alignment explanation
Indices: 977943--978015 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 20
977933 TGATTATAAA
*
977943 TATTATCTTATAATTATTAC
1 TATTATATTATAATTATTAC
*
977963 TATTATATTATTATTATTATAAC
1 TATTATATTA-TA--ATTATTAC
* *
977986 AATTATATTAT-ATTATTAG
1 TATTATATTATAATTATTAC
978005 TATTATTATTA
1 TATTA-TATTA
978016 ATATCATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 10 0.23
20 14 0.33
21 2 0.05
22 1 0.02
23 16 0.37
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (20 bp):
TATTATATTATAATTATTAC
Found at i:977972 original size:14 final size:13
Alignment explanation
Indices: 977943--978015 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 13
977933 TGATTATAAA
*
977943 TATTATCTTATAAT
1 TATTATATTAT-AT
977957 TATTACTATTATAT
1 TATTA-TATTATAT
*
977971 TATTATTATTATAAC
1 TATTA-TATTAT-AT
*
977986 AATTATATTATAT
1 TATTATATTATAT
977999 TATTAGTATTATTAT
1 TATTA-TATTA-TAT
978014 TA
1 TA
978016 ATATCATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
13 5 0.10
14 29 0.59
15 15 0.31
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.56
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:977974 original size:3 final size:3
Alignment explanation
Indices: 977950--978015 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
977940 AAATATTATC
* * * **
977950 TTA TAA TTA TTA CTA TTA -TA TTA TTA TTA TTA TAA CAA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
977996 -TA TTA TTA GTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
978016 ATATCATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:985446 original size:20 final size:20
Alignment explanation
Indices: 985421--985458 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
985411 TGAAAATTTA
*
985421 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCAATGCATGG
985441 ATTGGTGCATCAATGCAT
1 ATTGGTGCATCAATGCAT
985459 CACTTTGAAA
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:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCAATGCATGG
Found at i:986073 original size:20 final size:21
Alignment explanation
Indices: 986048--986099 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
986038 TTTTCCCAAT
*
986048 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
986068 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
986089 TCGCAATGCGA
1 TCGCAATGCGA
986100 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:986113 original size:20 final size:20
Alignment explanation
Indices: 986088--986182 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
986078 AATTGGGAAA
*
986088 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * * **
986108 ATCGCAATGCAATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
986129 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
986149 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
986169 TTCGCAACGCGATA
1 ATCGCAACGCGATA
986183 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:986398 original size:22 final size:22
Alignment explanation
Indices: 986370--986413 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
986360 CACTCTCTCA
986370 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
986392 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
986414 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:986683 original size:20 final size:20
Alignment explanation
Indices: 986658--986695 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
986648 TGATTCTCTC
986658 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
986678 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
986696 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:988036 original size:18 final size:18
Alignment explanation
Indices: 988015--988059 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
988005 TCCACTTCGG
*
988015 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
988033 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
988051 GAGCCATCA
1 GAGCCATCA
988060 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:988557 original size:20 final size:20
Alignment explanation
Indices: 988532--988573 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
988522 TAGTTTACTT
*
988532 TCGCAACACGAAAATGTCTA
1 TCGCAACACGAAAATGGCTA
* *
988552 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGGCTA
988572 TC
1 TC
988574 ACAATGCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACACGAAAATGGCTA
Found at i:988586 original size:19 final size:20
Alignment explanation
Indices: 988543--988586 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
988533 CGCAACACGA
* *
988543 AAATGTCTATCGCAACGCGG
1 AAATGGCTATCACAACGCGG
*
988563 AAATGGCTATCACAATGC-G
1 AAATGGCTATCACAACGCGG
988582 AAATG
1 AAATG
988587 AAAATCGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (20 bp):
AAATGGCTATCACAACGCGG
Found at i:988629 original size:32 final size:33
Alignment explanation
Indices: 988575--988661 Score: 158
Period size: 32 Copynumber: 2.7 Consensus size: 33
988565 ATGGCTATCA
988575 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
988608 CAATGCGAAATG-AAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCG
*
988640 CAACGCGAAATGAAAATCGCAA
1 CAATGCGAAATGAAAATCGCAA
988662 TGCGATTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 31 0.60
33 21 0.40
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCG
Found at i:988655 original size:19 final size:19
Alignment explanation
Indices: 988575--988666 Score: 80
Period size: 14 Copynumber: 5.4 Consensus size: 19
988565 ATGGCTATCA
988575 CAATGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
*
988594 CAA--CG--A-CAAAATCG
1 CAATGCGAAATGAAAATCG
988608 CAATGCGAAATG-AAATCG
1 CAATGCGAAATGAAAATCG
*
988626 CAA--CG--A-CAAAATCG
1 CAATGCGAAATGAAAATCG
*
988640 CAACGCGAAATGAAAATCG
1 CAATGCGAAATGAAAATCG
988659 CAATGCGA
1 CAATGCGA
988667 TTTGTGTTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 22
0.68 0.06 0.26
Matches are distributed among these distances:
14 20 0.35
15 1 0.02
16 6 0.11
17 2 0.04
18 11 0.19
19 17 0.30
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
CAATGCGAAATGAAAATCG
Found at i:988697 original size:14 final size:14
Alignment explanation
Indices: 988678--988735 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
988668 TTGTGTTTCG
*
988678 CGTTGCAATTTTGT
1 CGTTGCGATTTTGT
*
988692 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
988708 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
988724 CGTTGCGATTTT
1 CGTTGCGATTTT
988736 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 22 0.59
16 4 0.11
18 11 0.30
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:988742 original size:33 final size:32
Alignment explanation
Indices: 988673--988751 Score: 131
Period size: 32 Copynumber: 2.4 Consensus size: 32
988663 GCGATTTGTG
*
988673 TTTCGCGTTGCAATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
988705 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
988738 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
988752 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 26 0.59
33 18 0.41
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:988750 original size:19 final size:19
Alignment explanation
Indices: 988692--988809 Score: 95
Period size: 20 Copynumber: 6.4 Consensus size: 19
988682 GCAATTTTGT
988692 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
988710 CGTTGCGA-TTT--TGT--
1 CGTTGCGATTTTCATTTCG
988724 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
988743 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
988763 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
988782 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
988802 TGTTGCGA
1 CGTTGCGA
988810 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
16 2 0.02
17 2 0.02
18 11 0.14
19 26 0.32
20 29 0.36
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:989267 original size:12 final size:12
Alignment explanation
Indices: 989250--989274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
989240 TCTTCGGGGA
989250 CTTTTTCTTCTT
1 CTTTTTCTTCTT
989262 CTTTTTCTTCTT
1 CTTTTTCTTCTT
989274 C
1 C
989275 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:990596 original size:20 final size:20
Alignment explanation
Indices: 990558--990614 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
990548 ATTCATTTGA
*
990558 CTATCGCAACACG-AAATGG
1 CTATCGCAACGCGAAAATGG
990577 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
990597 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
990615 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 12 0.35
20 22 0.65
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:990657 original size:14 final size:14
Alignment explanation
Indices: 990638--990691 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
990628 GAAAATCGCA
990638 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
990652 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
990669 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
990685 TTGCGAT
1 TTGCGAT
990692 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:990657 original size:33 final size:33
Alignment explanation
Indices: 990620--990690 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
990610 AAAATCGCAA
990620 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
990653 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
990686 TGCGA
1 TGCGA
990691 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:990691 original size:33 final size:33
Alignment explanation
Indices: 990633--990710 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
990623 GAAATGAAAA
***
990633 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
990666 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
990699 TCGCGTTGCGAT
1 TCGCATTGCGAT
990711 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:992734 original size:20 final size:19
Alignment explanation
Indices: 992699--992765 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
992689 GAAACTTAAA
992699 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
992718 ATTGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
992738 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
992757 ATCGCAACG
1 ATCGCAACG
992766 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:992773 original size:14 final size:14
Alignment explanation
Indices: 992754--992811 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
992744 ATGCGAAATG
992754 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
992768 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
992784 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
992800 AAAATCGCAACG
1 AAAATCGCAACG
992812 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:992796 original size:32 final size:33
Alignment explanation
Indices: 992738--992816 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
992728 GGAAATGGCT
*
992738 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
992771 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
992803 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
992817 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:992864 original size:14 final size:14
Alignment explanation
Indices: 992845--992902 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
992835 TTTCATTTCG
992845 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
992859 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
992875 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
992891 CGTTGCGATTTT
1 CGTTGCGATTTT
992903 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:992909 original size:33 final size:33
Alignment explanation
Indices: 992828--992918 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
992818 ACAAATCGCA
*
992828 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
992861 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
992893 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
992919 AGCCATTTCT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:992957 original size:20 final size:20
Alignment explanation
Indices: 992903--992946 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
992893 TTGCGATTTT
*
992903 CATTTC-GCATTGCGATAGC
1 CATTTCTGCGTTGCGATAGC
*
992922 CATTTCTGCGTTGCGATAGT
1 CATTTCTGCGTTGCGATAGC
992942 CATTT
1 CATTT
992947 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTTCTGCGTTGCGATAGC
Found at i:993456 original size:18 final size:18
Alignment explanation
Indices: 993430--993469 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
993420 GTCGATCAGA
* *
993430 TGATGGCTCTGGGTGAGG
1 TGATAGCTCTGGGCGAGG
993448 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
993466 TGAT
1 TGAT
993470 CTGGCTCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.45, T:0.28
Consensus pattern (18 bp):
TGATAGCTCTGGGCGAGG
Found at i:994819 original size:20 final size:20
Alignment explanation
Indices: 994794--994831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
994784 AATAGTTTCT
994794 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
994814 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
994832 GAGAGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:995120 original size:22 final size:22
Alignment explanation
Indices: 995095--995138 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
995085 TATTTAGATA
*
995095 GACGGATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
*
995117 GACGAATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
995139 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:995350 original size:20 final size:20
Alignment explanation
Indices: 995325--995418 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
995315 GATTATGTAT
995325 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
995345 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
995365 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
995386 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
995406 TATCGCATTGCGA
1 TATCGCGTTGCGA
995419 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:995390 original size:41 final size:41
Alignment explanation
Indices: 995345--995422 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
995335 CGAAAGTCAG
* * *
995345 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
995386 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
995423 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:995419 original size:20 final size:20
Alignment explanation
Indices: 995305--995419 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
995295 CGCTTTGAAA
*
995305 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
995326 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
995346 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
995366 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
995387 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
995407 ATCGCATTGCGAT
1 ATCGCATTGCGAT
995420 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:995433 original size:41 final size:41
Alignment explanation
Indices: 995388--995500 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
995378 TTTTTTATTA
995388 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGATTTTCCCAAT
* *
995429 TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAAT
* * *
995470 TCGCGTTGCGATTTACTTATTCGCATTGCGA
1 TCGCATTGCGATTCACGTATTCGCATTGCGA
995501 ATTGGGAAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 63 0.94
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAAT
Found at i:995452 original size:20 final size:21
Alignment explanation
Indices: 995408--995500 Score: 109
Period size: 20 Copynumber: 4.5 Consensus size: 21
995398 ATAGTCAGTA
*
995408 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
**
995429 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
*
995449 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
* **
995470 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
995490 TCGCATTGCGA
1 TCGCATTGCGA
995501 ATTGGGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 33 0.55
21 27 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:997722 original size:15 final size:15
Alignment explanation
Indices: 997702--997732 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
997692 AATTGGTTGT
997702 AAAATCTAGTTTATA
1 AAAATCTAGTTTATA
997717 AAAATCTAGTTTATA
1 AAAATCTAGTTTATA
997732 A
1 A
997733 TCATCAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AAAATCTAGTTTATA
Found at i:998095 original size:20 final size:20
Alignment explanation
Indices: 998055--998126 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
998045 TCCCGACGGA
998055 TGCATCGATGCATGG-CTTG
1 TGCATCGATGCATGGCCTTG
998074 TGCATCGATGCATGGCCTTG
1 TGCATCGATGCATGGCCTTG
*
998094 TGCATTGATGCATGGCCTTG
1 TGCATCGATGCATGGCCTTG
*
998114 TGCATCGGTGCAT
1 TGCATCGATGCAT
998127 CAACATGATG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 15 0.31
20 34 0.69
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (20 bp):
TGCATCGATGCATGGCCTTG
Found at i:1003652 original size:17 final size:18
Alignment explanation
Indices: 1003613--1003654 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1003603 AAGTAGTGTT
*
1003613 CTTGAAAGAAAAATAAAT
1 CTTGAAAGAAAAATAAAG
* *
1003631 ATTGAATGAAAAAT-AAG
1 CTTGAAAGAAAAATAAAG
1003648 CTTGAAA
1 CTTGAAA
1003655 TGCTCAAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (18 bp):
CTTGAAAGAAAAATAAAG
Found at i:1003951 original size:20 final size:20
Alignment explanation
Indices: 1003926--1003979 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
1003916 AAAAACCTGA
1003926 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
1003946 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
1003966 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1003980 CAAATGCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATGGTCTT
Found at i:1004030 original size:45 final size:46
Alignment explanation
Indices: 1003946--1004032 Score: 149
Period size: 45 Copynumber: 1.9 Consensus size: 46
1003936 GCATGGTCTT
* *
1003946 GTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACTAA
1 GTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTAA
1003992 GTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 GTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
1004033 TTCGATGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 22 0.56
46 17 0.44
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (46 bp):
GTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTAA
Found at i:1004077 original size:20 final size:20
Alignment explanation
Indices: 1004052--1004089 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1004042 TGAAAATTTA
1004052 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1004072 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1004090 CACTTTGAAA
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:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1004828 original size:20 final size:22
Alignment explanation
Indices: 1004803--1004843 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1004793 ATGTCATCTA
1004803 AAATATT-T-AAAAATAAAAAC
1 AAATATTATAAAAAATAAAAAC
1004823 AAATATTATAAAAAATAAAAA
1 AAATATTATAAAAAATAAAAA
1004844 TAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATATTATAAAAAATAAAAAC
Found at i:1005592 original size:20 final size:18
Alignment explanation
Indices: 1005556--1005622 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
1005546 GAGTTCCACC
1005556 TAATTTTTTTTAATTTAA
1 TAATTTTTTTTAATTTAA
*
1005574 TAATTTTATTTTCATTT--
1 TAATTTT-TTTTAATTTAA
**
1005591 TAA-TTTTTTTAAAATAA
1 TAATTTTTTTTAATTTAA
*
1005608 AAATTATTTTTTAAT
1 TAATT-TTTTTTAAT
1005623 AGAGTTATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
15 6 0.16
16 3 0.08
17 5 0.13
18 8 0.21
19 16 0.42
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (18 bp):
TAATTTTTTTTAATTTAA
Found at i:1006646 original size:34 final size:34
Alignment explanation
Indices: 1006605--1006670 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
1006595 AAAATAGAGA
* *
1006605 ATTTTACTCAAACATTAATGATTATAAGCATAAT
1 ATTTTACTCAAACATGAATGATCATAAGCATAAT
1006639 ATTTTACTCAAACATGAATGATCATAAGCATA
1 ATTTTACTCAAACATGAATGATCATAAGCATA
1006671 GTTTATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.35
Consensus pattern (34 bp):
ATTTTACTCAAACATGAATGATCATAAGCATAAT
Found at i:1011656 original size:118 final size:115
Alignment explanation
Indices: 1011434--1011691 Score: 385
Period size: 118 Copynumber: 2.2 Consensus size: 115
1011424 AAAAAATATA
* * *
1011434 GACGATAACATAACCGG-TAATTACTGGAAATATTATCTAACATAACATATTAGGTAGCGCTTAT
1 GACGATAACATAATCGGTTAATTACTGAAAACATTATCTAACATAACATATTAGGTAGCGCTTAT
* *
1011498 ATAACGTAATAGATAGCGCCTTTTTAAAGATGATGGGGCTTTGGAAATCC
66 ATAACGTAATAGATAGCGCCTTTTTAAAGATAATGGGGCTTTAGAAATCC
*
1011548 GACGAAAACATAATCGGTTAATTACTGAAAACATTATC-AAGCATAATAACATATTAGGTAGCGC
1 GACGATAACATAATCGGTTAATTACTGAAAACATTATCTAA-C---ATAACATATTAGGTAGCGC
* *
1011612 TTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTAATGGGGCTTTAGAAATCC
62 TTATATAACGTAATAGATAGCGCCTTTTTAAAGATAATGGGGCTTTAGAAATCC
*
1011666 GACGATAACATAATAGGTTAATTACT
1 GACGATAACATAATCGGTTAATTACT
1011692 TAATTTGTTA
Statistics
Matches: 129, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
114 17 0.13
115 19 0.15
118 93 0.72
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (115 bp):
GACGATAACATAATCGGTTAATTACTGAAAACATTATCTAACATAACATATTAGGTAGCGCTTAT
ATAACGTAATAGATAGCGCCTTTTTAAAGATAATGGGGCTTTAGAAATCC
Found at i:1014903 original size:21 final size:21
Alignment explanation
Indices: 1014879--1014951 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
1014869 TCGAATAAAT
1014879 TAATATTTTAAATAGTTGAAA
1 TAATATTTTAAATAGTTGAAA
*
1014900 TAATATTTGACCCAAATCGAGTT--AA
1 TAATATTT----TAAAT--AGTTGAAA
1014925 -AATATTTTAAATAGTTGAAA
1 TAATATTTTAAATAGTTGAAA
1014945 TAATATT
1 TAATATT
1014952 AGACCCGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
18 4 0.10
20 6 0.15
21 14 0.34
24 7 0.17
25 6 0.15
27 4 0.10
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (21 bp):
TAATATTTTAAATAGTTGAAA
Found at i:1014944 original size:45 final size:45
Alignment explanation
Indices: 1014880--1015037 Score: 228
Period size: 45 Copynumber: 3.5 Consensus size: 45
1014870 CGAATAAATT
*
1014880 AATATTTTAAATAGTTGAAATAATATTTGACCCAAATCGAGTTAA
1 AATATTTTAAATAGTTGAAATAATATTTGACCCGAATCGAGTTAA
* *
1014925 AATATTTTAAATAGTTGAAATAATATTAGACCCGAATCGAGGTAA
1 AATATTTTAAATAGTTGAAATAATATTTGACCCGAATCGAGTTAA
* *
1014970 AATA-TTTATAATAGTTGAAATAATATTTGACTCGTATCGAGTTAA
1 AATATTTTA-AATAGTTGAAATAATATTTGACCCGAATCGAGTTAA
* *
1015015 ATTATTTTTAAATAGTTAAAATA
1 AATA-TTTTAAATAGTTGAAATA
1015038 TTTTAAATAG
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
44 4 0.04
45 81 0.80
46 12 0.12
47 4 0.04
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (45 bp):
AATATTTTAAATAGTTGAAATAATATTTGACCCGAATCGAGTTAA
Found at i:1015043 original size:18 final size:18
Alignment explanation
Indices: 1015009--1015061 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
1014999 ACTCGTATCG
*
1015009 AGTTAAATTATTTTTAAAT
1 AGTTAAAATA-TTTTAAAT
1015028 AGTTAAAATATTTTAAAT
1 AGTTAAAATATTTTAAAT
*
1015046 AGTTAAAATAGTTTAA
1 AGTTAAAATATTTTAA
1015062 CTCGATCTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 23 0.72
19 9 0.28
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (18 bp):
AGTTAAAATATTTTAAAT
Found at i:1015045 original size:9 final size:9
Alignment explanation
Indices: 1015021--1015061 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1015011 TTAAATTATT
1015021 TTTAAATAG
1 TTTAAATAG
* *
1015030 TTAAAATAT
1 TTTAAATAG
1015039 TTTAAATAG
1 TTTAAATAG
*
1015048 TTAAAATAG
1 TTTAAATAG
1015057 TTTAA
1 TTTAA
1015062 CTCGATCTGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (9 bp):
TTTAAATAG
Found at i:1015097 original size:45 final size:45
Alignment explanation
Indices: 1015048--1015139 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
1015038 TTTTAAATAG
* *
1015048 TTAAAATAGTTTAACTCGATCTGGGTCGAATATTATTTCAACTAT
1 TTAAAATAGTTTAACTCAATCCGGGTCGAATATTATTTCAACTAT
*
1015093 TTAAAATATTTTAACTCAATCCGGGTCGAATATTATTTCAACTAT
1 TTAAAATAGTTTAACTCAATCCGGGTCGAATATTATTTCAACTAT
1015138 TT
1 TT
1015140 TAAAGTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (45 bp):
TTAAAATAGTTTAACTCAATCCGGGTCGAATATTATTTCAACTAT
Found at i:1018657 original size:17 final size:17
Alignment explanation
Indices: 1018633--1018672 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1018623 TATTTTTTAT
1018633 TATATATA-TATATATAA
1 TATATATAGTA-ATATAA
*
1018650 TGTATATAGTAATATAA
1 TATATATAGTAATATAA
1018667 TATATA
1 TATATA
1018673 ATTTTCGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TATATATAGTAATATAA
Found at i:1018765 original size:61 final size:64
Alignment explanation
Indices: 1018700--1018827 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 64
1018690 ACTAAAAAAA
1018700 TATATATTATATAGTTTTT-AAAAACGTTTT-AAA-ATATATAATATATAGTTTTGAAAACATT
1 TATATATTATATAGTTTTTAAAAAACGTTTTAAAATATATATAATATATAGTTTTGAAAACATT
* *
1018761 TATATATTATTTAGTTTTTAAAAAAACTTTTTGAAAATATATATAATATATAGTTTTGAAAACAT
1 TATATATTATATAGTTTTT-AAAAAACGTTTT-AAAATATATATAATATATAGTTTTGAAAACAT
1018826 T
64 T
1018827 T
1 T
1018828 TTAAAACATT
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
61 18 0.30
63 10 0.17
65 3 0.05
66 29 0.48
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (64 bp):
TATATATTATATAGTTTTTAAAAAACGTTTTAAAATATATATAATATATAGTTTTGAAAACATT
Found at i:1018849 original size:38 final size:36
Alignment explanation
Indices: 1018783--1019036 Score: 259
Period size: 36 Copynumber: 7.0 Consensus size: 36
1018773 AGTTTTTAAA
*
1018783 AAAAC-TTTTTGAAAATATATATAATATATAGTTTTG
1 AAAACATTTTTAAAAAT-TATATAATATATAGTTTTG
*
1018819 AAAACATTTTTAAAACATTTATATATTATATAGTTTTG
1 AAAACATTTTTAAAA-A-TTATATAATATATAGTTTTG
* ** * *
1018857 AAATCATTTTGGAAATTTATATAATATATAATTTTG
1 AAAACATTTTTAAAAATTATATAATATATAGTTTTG
* * *
1018893 AAAACATTTTTGAAAATTATATAATTTATA-TTTTA
1 AAAACATTTTTAAAAATTATATAATATATAGTTTTG
* *
1018928 AAAACATTTTTTGAAAAATTATATAATATATAATTTTAA
1 AAAACA-TTTTT-AAAAATTATATAATATATAGTTTT-G
*
1018967 AAAACATTTTTGAAAACTTATATAATAT-T--TTTT-
1 AAAACATTTTT-AAAAATTATATAATATATAGTTTTG
* *
1019000 AAAATCATTTTTGAAAACTATATAATATATAGTTTTG
1 AAAA-CATTTTTAAAAATTATATAATATATAGTTTTG
1019037 GATTTTTTTT
Statistics
Matches: 187, Mismatches: 19, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
33 17 0.09
34 8 0.04
35 14 0.07
36 58 0.31
37 26 0.14
38 56 0.30
39 8 0.04
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (36 bp):
AAAACATTTTTAAAAATTATATAATATATAGTTTTG
Found at i:1018885 original size:36 final size:37
Alignment explanation
Indices: 1018748--1019036 Score: 283
Period size: 38 Copynumber: 7.8 Consensus size: 37
1018738 TAATATATAG
* * * *
1018748 TTTTGAAAACATTTATATATTATTTAGTTTTTAAAAAAACT
1 TTTTGAAAA-A-TTATATAATATATAG-TTTTGAAAACA-T
1018789 TTTTG-AAAATATATATAATATATAGTTTTGAAAACAT
1 TTTTGAAAAAT-TATATAATATATAGTTTTGAAAACAT
* *
1018826 TTTT-AAAACATTTATATATTATATAGTTTTGAAATCA-
1 TTTTGAAAA-A-TTATATAATATATAGTTTTGAAAACAT
* * *
1018863 TTTTGGAAATTTATATAATATATAATTTTGAAAACAT
1 TTTTGAAAAATTATATAATATATAGTTTTGAAAACAT
* *
1018900 TTTTG-AAAATTATATAATTTATA-TTTTAAAAACATT
1 TTTTGAAAAATTATATAATATATAGTTTTGAAAACA-T
* *
1018936 TTTTGAAAAATTATATAATATATAATTTTAAAAAACAT
1 TTTTGAAAAATTATATAATATATAGTTTT-GAAAACAT
*
1018974 TTTTGAAAACTTATATAATAT-T--TTTT-AAAATCAT
1 TTTTGAAAAATTATATAATATATAGTTTTGAAAA-CAT
*
1019008 TTTTG-AAAACTATATAATATATAGTTTTG
1 TTTTGAAAAATTATATAATATATAGTTTTG
1019037 GATTTTTTTT
Statistics
Matches: 215, Mismatches: 18, Indels: 34
0.81 0.07 0.13
Matches are distributed among these distances:
33 17 0.08
34 9 0.04
35 14 0.07
36 49 0.23
37 35 0.16
38 62 0.29
39 21 0.10
40 3 0.01
41 5 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (37 bp):
TTTTGAAAAATTATATAATATATAGTTTTGAAAACAT
Found at i:1018894 original size:74 final size:73
Alignment explanation
Indices: 1018748--1019036 Score: 281
Period size: 74 Copynumber: 3.9 Consensus size: 73
1018738 TAATATATAG
* * *
1018748 TTTTGAAAACATTTATATATTATTTAGTTTTTAAAAAAACTTTTTG-AAAATATATATAATATAT
1 TTTTTAAAACA-TTATATATTATATAG-TTTT--AAAAACATTTTGAAAAAT-TATATAATATAT
*
1018812 AGTTTTGAAAACA
61 AATTTTGAAAACA
* * * *
1018825 TTTTTAAAACATTTATATATTATATAGTTTTGAAATCATTTTGGAAATTTATATAATATATAATT
1 TTTTTAAAACA-TTATATATTATATAGTTTTAAAAACATTTTGAAAAATTATATAATATATAATT
1018890 TTGAAAACA
65 TTGAAAACA
*
1018899 TTTTTGAAA-ATTATATAATT-TATA-TTTTAAAAACATTTTTTGAAAAATTATATAATATATAA
1 TTTTTAAAACATTATAT-ATTATATAGTTTTAAAAACA--TTTTGAAAAATTATATAATATATAA
*
1018961 TTTTAAAAAACA
63 TTTT-GAAAACA
* * * *
1018973 TTTTTGAAAAC-TTATATA--ATAT-TTTTTAAAATCATTTTTG-AAAACTATATAATATATAGT
1 TTTTT-AAAACATTATATATTATATAGTTTTAAAAACA-TTTTGAAAAATTATATAATATATAAT
1019033 TTTG
64 TTTG
1019037 GATTTTTTTT
Statistics
Matches: 185, Mismatches: 18, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
71 30 0.16
72 16 0.09
73 44 0.24
74 53 0.29
75 13 0.07
76 4 0.02
77 25 0.14
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.47
Consensus pattern (73 bp):
TTTTTAAAACATTATATATTATATAGTTTTAAAAACATTTTGAAAAATTATATAATATATAATTT
TGAAAACA
Found at i:1019092 original size:36 final size:35
Alignment explanation
Indices: 1018777--1019097 Score: 174
Period size: 36 Copynumber: 8.9 Consensus size: 35
1018767 TTATTTAGTT
1018777 TTTAAAAAA-ACTTTTTGAAAATATATATAATATATAG
1 TTTAAAAAATA-TTTTTG-AAA-ATATATAATATATAG
** * * *
1018814 TTTTGAAAACATTTTTAAAACATTTATATATTATATAG
1 TTTAAAAAATATTTTTGAAA-A--TATATAATATATAG
** * * *
1018852 TTT-TGAAATCATTTTGGAAATTTATATAATATATAA
1 TTTAAAAAAT-ATTTTTGAAA-ATATATAATATATAG
** * * *
1018888 TTTTGAAAACATTTTTGAAAATTATATAATTTATAT
1 TTTAAAAAATATTTTTGAAAA-TATATAATATATAG
*
1018924 TTTAAAAACAT-TTTTTGAAAAATTATATAATATATAAT
1 TTTAAAAA-ATATTTTTG-AAAA-TATATAATATAT-AG
*
1018962 TTTAAAAAACATTTTTGAAAACTTATATAATAT-T--
1 TTTAAAAAATATTTTTGAAAA--TATATAATATATAG
*
1018996 TTT-TAAAATCATTTTTGAAAACTATATAATATATAG
1 TTTAAAAAAT-ATTTTTGAAAA-TATATAATATATAG
*** * * * * *
1019032 TTT-TGGATTTTTTTTTAAAA-ATATAATATAAAA
1 TTTAAAAAATATTTTTGAAAATATATAATATATAG
*
1019065 TTTAAAAAATATTTTTGAAATATATATATTATA
1 TTTAAAAAATATTTTTGAAA-ATATATAATATA
1019098 CATTTTGGAA
Statistics
Matches: 223, Mismatches: 43, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
33 28 0.13
34 25 0.11
35 10 0.04
36 67 0.30
37 41 0.18
38 52 0.23
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.46
Consensus pattern (35 bp):
TTTAAAAAATATTTTTGAAAATATATAATATATAG
Found at i:1019697 original size:17 final size:17
Alignment explanation
Indices: 1019659--1019707 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
1019649 AGAGAGGGTA
1019659 TAAATTT-TCTTATTTTT
1 TAAATTTAT-TTATTTTT
1019676 T--ATTTATTTATTTTT
1 TAAATTTATTTATTTTT
1019691 TAAATTTATTTATTTTT
1 TAAATTTATTTATTTTT
1019708 AAGTCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.45
16 1 0.03
17 15 0.52
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TAAATTTATTTATTTTT
Found at i:1025246 original size:100 final size:99
Alignment explanation
Indices: 1025124--1025314 Score: 265
Period size: 100 Copynumber: 1.9 Consensus size: 99
1025114 TTATAATATT
* *
1025124 ATATATATACAATAAAGCTTGAGATGTCCCTGTAAAGCAATTGGTTAAATGCCCCAAATTTATGG
1 ATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCCAAATTTATGG
* *
1025189 ATAAGATTCACCTAAGCTTGATAAAGGTGATTATA
66 ATAAAATTCACCTAA-CCTGATAAAGGTGATTATA
* * * * ***
1025224 ATATCTATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGG
1 ATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCCAAATTTATGG
*
1025289 ATAAAATTCAGCTAACCTGATAAAGG
66 ATAAAATTCACCTAACCTGATAAAGG
1025315 AGTTTATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
99 10 0.13
100 69 0.87
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (99 bp):
ATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACGCCCCAAATTTATGG
ATAAAATTCACCTAACCTGATAAAGGTGATTATA
Found at i:1026898 original size:80 final size:80
Alignment explanation
Indices: 1026539--1027185 Score: 652
Period size: 80 Copynumber: 8.0 Consensus size: 80
1026529 TCTGTCAACC
* ** * * * * * *
1026539 AAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGGATATCATTTGCAACATAGCTCAAGGCTAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
* * *
1026604 AAGGGCTATTTTCCAACAA
66 AAGGG---TTAT-CTACCA
* * * * ** * * * * *
1026623 AATACCTTCAAGTTCAACTATGCTCAGCTCAAAGGCATATAATTTGTAGCATAACTCAAGACTAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
1026688 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCT----ACCA
* * * * *
1026707 AAGACCTTCGAGTTCGATTACACTCATCTTCGAGGGCACATCATTTACATCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGATTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAACTCAAGGC-A
1026772 A-AAGGGTTATCTGTCACCA
64 AGAAGGGTTATC--T-ACCA
* * * * * * *
1026791 AAGACCTTCAAGTTCAATTCCATTCAGCTCAAAGGCACATCATTTGCAACATAGCTTAAGGCAAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
1026856 AAGGGTTATCTACCA
66 AAGGGTTATCTACCA
* * * *
1026871 AAGACCTTCGAGTTCGATTCCACTCAGCTCAAAGGTACATCATTTGCAGTATAACTCAAAGCAAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
*
1026936 AAGGGTTATCTGCCA
66 AAGGGTTATCTACCA
* * *
1026951 AAGACCTTCAAGTTCGATTCCACTCAGCTCAAAGGCACATTATTTGCAGCATAACTCAAGGCAAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
*
1027016 AAGGGTTATCTGCCA
66 AAGGGTTATCTACCA
* * * * *
1027031 AAGACTTTCGAGTTCAATTCCACTCAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGTGAA
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG-CAA
**
1027096 -AAGGGTTATCTGTCA
65 GAAGGGTTATCTACCA
* ** *
1027111 AATACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTATAGCATAGCTCAAGGCAAG
1 AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
1027176 AA-GGTTATCT
66 AAGGGTTATCT
1027186 GTCAACTAAA
Statistics
Matches: 480, Mismatches: 72, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
79 10 0.02
80 275 0.57
81 6 0.01
82 2 0.00
83 38 0.08
84 111 0.23
85 36 0.08
86 1 0.00
87 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (80 bp):
AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAG
AAGGGTTATCTACCA
Found at i:1027764 original size:2 final size:2
Alignment explanation
Indices: 1027759--1027800 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
1027749 TTTTTTATTT
*
1027759 TA TA TA TA TA TA TA TA TA TG TA TA TA T- TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1027798 TA T
1 TA T
1027801 TTTTCAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1027863 original size:39 final size:38
Alignment explanation
Indices: 1027788--1027886 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 38
1027778 GTATATATTA
*
1027788 ATATA-ATATATA-TTTTTCAAAAAACGGTTTTCAAATAT
1 ATATATATATATAGTTTTT--AAAAACGGTTTTAAAATAT
*
1027826 ATATATATTATATAGTTTTTAAAAACGTTTTTAAAATAT
1 ATATATA-TATATAGTTTTTAAAAACGGTTTTAAAATAT
*
1027865 ATATA-ATATATAGTTTTGAAAA
1 ATATATATATATAGTTTTTAAAA
1027887 CATTTATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
37 15 0.27
38 6 0.11
39 23 0.42
40 6 0.11
41 5 0.09
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (38 bp):
ATATATATATATAGTTTTTAAAAACGGTTTTAAAATAT
Found at i:1027875 original size:37 final size:37
Alignment explanation
Indices: 1027788--1028091 Score: 198
Period size: 36 Copynumber: 8.5 Consensus size: 37
1027778 GTATATATTA
* *
1027788 ATATAATATATA-TTTTTCAAAAAACGGTTTTCAAATATAT
1 ATATAATATATAGTTTTT--AAAAAC-ATTTTTAAA-ATAT
* *
1027828 ATATATTATATAGTTTTTAAAAACGTTTTTAAAATAT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
*
1027865 ATATAATATATAG-TTTTGAAAACA---TT----TAT
1 ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
* * * *
1027894 ATAT--TATATAGTTTTTTATAATCATTTTGAAAATTT
1 ATATAATATATAG-TTTTTAAAAACATTTTTAAAATAT
*
1027930 ATATAATATATAG-TTTTGAAAACATTTTTGAAAAT-T
1 ATATAATATATAGTTTTTAAAAACATTTTT-AAAATAT
* *
1027966 ATATAATATATAGTTTTAAAAAATATTTTTTGAAAA-ATT
1 ATATAATATATAGTTTTTAAAAACA-TTTTT-AAAATA-T
* * *
1028005 ATATAATATATA-ATTTTAAAAATCA-TTTTGAAATCT
1 ATATAATATATAGTTTTTAAAAA-CATTTTTAAAATAT
* * * *
1028041 -TAT-ATA-ATATTTTTTAGAATCATTTTTGAAAA-CT
1 ATATAATATATAGTTTTTAAAAACATTTTT-AAAATAT
1028075 ATATAATATATAGTTTT
1 ATATAATATATAGTTTT
1028092 GGATTTTTAA
Statistics
Matches: 212, Mismatches: 27, Indels: 53
0.73 0.09 0.18
Matches are distributed among these distances:
27 7 0.03
29 15 0.07
32 1 0.00
33 7 0.03
34 16 0.08
35 9 0.04
36 48 0.23
37 40 0.19
38 33 0.16
39 20 0.09
40 11 0.05
41 5 0.02
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (37 bp):
ATATAATATATAGTTTTTAAAAACATTTTTAAAATAT
Found at i:1027895 original size:64 final size:65
Alignment explanation
Indices: 1027827--1027956 Score: 208
Period size: 65 Copynumber: 2.0 Consensus size: 65
1027817 TTCAAATATA
* *
1027827 TATATATTATATAG-TTTTTAAAAACGTTTTTAAAATATATATAATATATAGTTTTGAAAACATT
1 TATATATTATATAGTTTTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACATT
* * *
1027891 TATATATTATATAGTTTTTTATAATCATTTTGAAAATTTATATAATATATAGTTTTGAAAACATT
1 TATATATTATATAGTTTTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACATT
1027956 T
1 T
1027957 TTGAAAATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
64 14 0.23
65 46 0.77
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (65 bp):
TATATATTATATAGTTTTTTAAAAACATTTTGAAAATATATATAATATATAGTTTTGAAAACATT
Found at i:1027930 original size:38 final size:39
Alignment explanation
Indices: 1027878--1028091 Score: 213
Period size: 37 Copynumber: 5.7 Consensus size: 39
1027868 TAATATATAG
* * *
1027878 TTTTGAAAACATTTATATATTATATAGTTTTTTATAATCA-
1 TTTTG-AAA-ATTTATATAATATATAGTTTTTAAAAATCAT
*
1027918 TTTTGAAAATTTATATAATATATAG-TTTTGAAAA-CAT
1 TTTTGAAAATTTATATAATATATAGTTTTTAAAAATCAT
*
1027955 TTTTGAAAA-TTATATAATATATAGTTTTAAAAAAT-ATT
1 TTTTGAAAATTTATATAATATATAGTTTTTAAAAATCA-T
* *
1027993 TTTTGAAAAATTATATAATATATA-ATTTTAAAAATCA-
1 TTTTGAAAATTTATATAATATATAGTTTTTAAAAATCAT
*
1028030 TTTTG-AAATCTTATAT-A-ATAT--TTTTT-AGAATCAT
1 TTTTGAAAAT-TTATATAATATATAGTTTTTAAAAATCAT
*
1028064 TTTTGAAAA-CTATATAATATATAGTTTT
1 TTTTGAAAATTTATATAATATATAGTTTT
1028092 GGATTTTTAA
Statistics
Matches: 150, Mismatches: 11, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
33 11 0.07
34 10 0.07
35 11 0.07
36 21 0.14
37 39 0.26
38 35 0.23
39 18 0.12
40 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (39 bp):
TTTTGAAAATTTATATAATATATAGTTTTTAAAAATCAT
Found at i:1028154 original size:145 final size:137
Alignment explanation
Indices: 1027858--1028137 Score: 323
Period size: 145 Copynumber: 2.0 Consensus size: 137
1027848 AAACGTTTTT
* * * * *
1027858 AAAATATATATAATATATAGTTTTGAAAACATTTATATATTATATAGTTTTTTATAATCATTTTG
1 AAAAT-TATATAATATATAATTTTAAAAACATTTAAATATTATATAATTTTTTAGAATCATTTTG
* * ** *
1027923 AAAATTTATATAATATATAGTTTTGAAAACATTTTTGAAAATTATATAATATATAGTTTTAAAAA
65 AAAATCTATATAATATATAGTTTTG---ACATTTTTAAAAAAAATATAATATATAGATTTAAAAA
1027988 ATATTTTTTGA
127 ATATTTTTTGA
*
1027999 AAAATTATATAATATATAATTTTAAAAATCATTTTGAAATCTTATATAATATTTTTTAGAATCAT
1 AAAATTATATAATATATAATTTTAAAAA-CA-TTT-AAATATTATAT-A-ATTTTTTAGAATCA-
*
1028064 TTTTGAAAA-CTATATAATATATAGTTTTG-GATTTTTAAAAAAAAAATATAATATATA-ATTTA
60 TTTTGAAAATCTATATAATATATAGTTTTGACATTTTT--AAAAAAAATATAATATATAGATTTA
1028126 AAAAATATTTTT
123 AAAAATATTTTT
1028138 GATATATATA
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
140 21 0.18
141 13 0.11
142 19 0.16
143 25 0.21
144 1 0.01
145 31 0.26
146 9 0.08
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (137 bp):
AAAATTATATAATATATAATTTTAAAAACATTTAAATATTATATAATTTTTTAGAATCATTTTGA
AAATCTATATAATATATAGTTTTGACATTTTTAAAAAAAATATAATATATAGATTTAAAAAATAT
TTTTTGA
Found at i:1028165 original size:21 final size:22
Alignment explanation
Indices: 1028130--1028176 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
1028120 AATTTAAAAA
*
1028130 ATATTTTTGATATATATATTAT
1 ATATTTTAGATATATATATTAT
1028152 ATATTTTAGA-ATATATATTAT
1 ATATTTTAGATATATATATTAT
1028173 -TATT
1 ATATT
1028177 AGTATTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.17
21 11 0.46
22 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATTTTAGATATATATATTAT
Found at i:1029491 original size:4 final size:4
Alignment explanation
Indices: 1029476--1029571 Score: 53
Period size: 4 Copynumber: 24.2 Consensus size: 4
1029466 TTAAATTTTC
* *
1029476 TTAT TT-T TTAT TTAT TTCTT TTAT TCTAT TTCT TT-T TTAAAT TTAT
1 TTAT TTAT TTAT TTAT TT-AT TTAT T-TAT TTAT TTAT TT--AT TTAT
* *
1029522 TTAT TT-T TTAT TCTTT TTAT TTGAT ATA- TT-T TTAT TTAT TT-T TT-T
1 TTAT TTAT TTAT T-TAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT
1029567 TTAT T
1 TTAT T
1029572 ATGTTTTTGC
Statistics
Matches: 73, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
3 18 0.25
4 39 0.53
5 13 0.18
6 3 0.04
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:1029497 original size:14 final size:14
Alignment explanation
Indices: 1029480--1029571 Score: 73
Period size: 14 Copynumber: 6.6 Consensus size: 14
1029470 ATTTTCTTAT
1029480 TTTTTATTTATTTC
1 TTTTTATTTATTTC
1029494 -TTTTATTCTATTTC
1 TTTTTATT-TATTTC
** *
1029508 TTTTT-TAAATTTA
1 TTTTTATTTATTTC
*
1029521 TTTATTTTTTA-TTC
1 TTT-TTATTTATTTC
* *
1029535 TTTTTATTTGATATA
1 TTTTTATTT-ATTTC
*
1029550 TTTTTATTTATTTT
1 TTTTTATTTATTTC
1029564 TTTTTATT
1 TTTTTATT
1029572 ATGTTTTTGC
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
13 19 0.31
14 26 0.43
15 16 0.26
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTTTATTTATTTC
Found at i:1029528 original size:17 final size:17
Alignment explanation
Indices: 1029482--1029531 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
1029472 TTTCTTATTT
*
1029482 TTTATTTATTTCTTT-TA
1 TTTATTTATTT-TTTAAA
*
1029499 TTCTATTTCTTTTTTAAA
1 TT-TATTTATTTTTTAAA
1029517 TTTATTTATTTTTTA
1 TTTATTTATTTTTTA
1029532 TTCTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTTTTAAA
Found at i:1029540 original size:16 final size:16
Alignment explanation
Indices: 1029476--1029543 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
1029466 TTAAATTTTC
1029476 TTATTTTTTATT-TA-
1 TTATTTTTTATTCTAT
*
1029490 TT-TCTTTTATTCTAT
1 TTATTTTTTATTCTAT
*
1029505 TTCTTTTTTAAATT-TAT
1 TTATTTTTT--ATTCTAT
*
1029522 TTATTTTTTATTCTTT
1 TTATTTTTTATTCTAT
1029538 TTATTT
1 TTATTT
1029544 GATATATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
13 8 0.18
14 4 0.09
15 5 0.11
16 13 0.30
17 11 0.25
18 3 0.07
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTTTATTCTAT
Found at i:1029552 original size:46 final size:46
Alignment explanation
Indices: 1029465--1029552 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
1029455 TTTCGATTTA
* * *
1029465 TTTAAATTTTCTTATTTTTTATTTATTTCTTTTATTCTATTTCTTT
1 TTTAAATTTTCTTATTTTTTATTTATTTATTTGATTATATTTCTTT
*
1029511 TTTAAATTTAT-TTATTTTTTATTCTTTTTATTTGA-TATATTT
1 TTTAAATTT-TCTTATTTTTTATT-TATTTATTTGATTATATTT
1029553 TTATTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
46 27 0.75
47 9 0.25
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (46 bp):
TTTAAATTTTCTTATTTTTTATTTATTTATTTGATTATATTTCTTT
Found at i:1029578 original size:25 final size:24
Alignment explanation
Indices: 1029470--1029579 Score: 59
Period size: 24 Copynumber: 4.6 Consensus size: 24
1029460 ATTTATTTAA
* *
1029470 ATTTTCTTATTTTTTATT-TATTT
1 ATTTTATTATTTTTTATTCTTTTT
* * * * *
1029493 CTTTTATT-CTATTTCTT-TTTTA
1 ATTTTATTATTTTTTATTCTTTTT
*
1029515 AATTTATTTATTTTTTATTCTTTTT
1 ATTTTA-TTATTTTTTATTCTTTTT
*
1029540 ATTTGA-TATATTTTTATT-TATTTT
1 ATTTTATTAT-TTTTTATTCT-TTTT
*
1029564 TTTTTATTATGTTTTT
1 ATTTTATTAT-TTTTT
1029580 GCACATTGAT
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
22 13 0.21
23 12 0.19
24 22 0.35
25 16 0.25
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (24 bp):
ATTTTATTATTTTTTATTCTTTTT
Found at i:1037355 original size:18 final size:16
Alignment explanation
Indices: 1037332--1037371 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1037322 AAAAATGTAA
1037332 ATAATATATACATATTAT
1 ATAATATATAC--ATTAT
*
1037350 ATAATATATGCATTAT
1 ATAATATATACATTAT
1037366 ATAATA
1 ATAATA
1037372 AGGGCGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAATATATACATTAT
Found at i:1038393 original size:253 final size:253
Alignment explanation
Indices: 1037939--1038478 Score: 760
Period size: 253 Copynumber: 2.1 Consensus size: 253
1037929 TTTCGAGTCT
* *
1037939 AATATCCTTCACCGTGAAGTTGAAATTGGA-TCTGAAACTGGAAAGTTTATTGACAGACACTCAT
1 AATATCCTTCGCCGTGAAGTTGAAATT-GACTCTGAAACTAGAAAGTTTATTGACAGACACTCAT
* * *
1038003 TCTTTGAGTTGGATATCCTTCGTCATGAAGTTGAAATCCAAATCTGGAGATGGATGTTGCTTGTG
65 TCTTTGAGTTGGATATCCTTCATCATGAAGTTGAAATCCAAATCTAGAGATGGATGTCGCTTGTG
* * * * *
1038068 TGCACGATTCCCTTCTTCGTGAAGTTGAAACCGTTGATGGCCCCTCCGTCGTGGAGTTCAGCCTT
130 TGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTCGTGAAGTTCAGCATG
* * *
1038133 GAATTGGATATTCTTTGCCGTGAAGTTAAAATCCAAGTATGTTACACTGCTCCGAGGCC
195 GAATTGGATATCCTTCGCCGTGAAGTTAAAATCCAAGTAAGTTACACTGCTCCGAGGCC
* * * *
1038192 AATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAACTAGAAAGTTTGTTGATAGACACTCCTT
1 AATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTAGAAAGTTTATTGACAGACACTCATT
*
1038257 CTTTGAGTTGGATATCCTTCATCGTGAAGTTGAAATCC-AATCTAGAGATGGATGTCGCTTGTGT
66 CTTTGAGTTGGATATCCTTCATCATGAAGTTGAAATCCAAATCTAGAGATGGATGTCGCTTGTGT
* * * *
1038321 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGGTGGCCCCTTCGTTGTGAAGTTGAGCATGG
131 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTCGTGAAGTTCAGCATGG
* * ** * * * *
1038386 TAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTCTGAGTCC
196 -AATTGGATATCCTTCGCCGTGAAGTTAAAATCCAAGTAAGTTACACTGCTCCGAGGCC
* *
1038445 AATATCCTCCGCCGTGAAGTTGAAATTGGCTCTG
1 AATATCCTTCGCCGTGAAGTTGAAATTGACTCTG
1038479 GAATTGGAAA
Statistics
Matches: 252, Mismatches: 33, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
252 82 0.33
253 170 0.67
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (253 bp):
AATATCCTTCGCCGTGAAGTTGAAATTGACTCTGAAACTAGAAAGTTTATTGACAGACACTCATT
CTTTGAGTTGGATATCCTTCATCATGAAGTTGAAATCCAAATCTAGAGATGGATGTCGCTTGTGT
GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTCGTGAAGTTCAGCATGG
AATTGGATATCCTTCGCCGTGAAGTTAAAATCCAAGTAAGTTACACTGCTCCGAGGCC
Found at i:1038638 original size:104 final size:106
Alignment explanation
Indices: 1038439--1038687 Score: 333
Period size: 104 Copynumber: 2.4 Consensus size: 106
1038429 GTATTGTTCT
* * ** *
1038439 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAATTGGAAAATTAATTGTTGACAG
1 GAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGGAATTGGAAAATAAAAAGTTGACAA
*
1038504 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTC
66 TCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTC
* * * *
1038545 GAGTCTAATATCCTTCGCCGTAAAGTTGAAATTGACTCT-GAA-T-GAAACTGAAAAAGTTGACA
1 GAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGGAATTGGAAAAT-AAAAAGTTGACA
* * *
1038607 ATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCTT
65 ATCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTC
**
1038649 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCT
1038688 AAAATTGGGA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 5 0.04
104 81 0.65
105 3 0.02
106 35 0.28
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCCGTGAAGTTGAAATTGGCTCTGGAATTGGAAAATAAAAAGTTGACAA
TCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTC
Found at i:1041655 original size:16 final size:16
Alignment explanation
Indices: 1041634--1041675 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
1041624 AATAAAAGTC
1041634 CTACCCCACATGATAT
1 CTACCCCACATGATAT
1041650 CTACCCCACATGATAT
1 CTACCCCACATGATAT
1041666 CTACCCCACA
1 CTACCCCACA
1041676 CGCTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.31, C:0.43, G:0.05, T:0.21
Consensus pattern (16 bp):
CTACCCCACATGATAT
Found at i:1043654 original size:18 final size:16
Alignment explanation
Indices: 1043631--1043673 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1043621 AAGAAAAATG
1043631 TATATAATATATACATAT
1 TATATAATATAT--ATAT
*
1043649 TATATAATATATGTAT
1 TATATAATATATATAT
1043665 TATATAATA
1 TATATAATA
1043674 AGGGCGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.50
18 12 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TATATAATATATATAT
Found at i:1044373 original size:20 final size:20
Alignment explanation
Indices: 1044347--1044439 Score: 134
Period size: 20 Copynumber: 4.7 Consensus size: 20
1044337 CAAAGGTTCC
1044347 AAAATCGCAACGCGAATAGGT
1 AAAATCGCAACGCGAATA-GT
* * *
1044368 -AAATCGCAACACAAATAGG
1 AAAATCGCAACGCGAATAGT
1044387 AAAATCGCAACGCGAATAGT
1 AAAATCGCAACGCGAATAGT
*
1044407 AAAATCGTAACGCGAATAGT
1 AAAATCGCAACGCGAATAGT
1044427 AAAATCGCAACGC
1 AAAATCGCAACGC
1044440 TAATGACCGA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
19 1 0.02
20 62 0.98
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAATAGT
Found at i:1044485 original size:57 final size:57
Alignment explanation
Indices: 1044401--1044531 Score: 199
Period size: 57 Copynumber: 2.3 Consensus size: 57
1044391 TCGCAACGCG
** * *
1044401 AATAGTAAAATCGTAACGCGAATAGTAAAATCGCAACGCTAATGACCGACATAGGTA
1 AATAGTACTATCGCAACACGAATAGTAAAATCGCAACGCTAATGACCGACATAGGTA
* *
1044458 AATAGTACTATCGCAACACGAATAGTAAAATCGCAACGCTAATTACCGATATAGGTA
1 AATAGTACTATCGCAACACGAATAGTAAAATCGCAACGCTAATGACCGACATAGGTA
*
1044515 AAGAGTACTATCGCAAC
1 AATAGTACTATCGCAAC
1044532 GCTAATTACC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.21
Consensus pattern (57 bp):
AATAGTACTATCGCAACACGAATAGTAAAATCGCAACGCTAATGACCGACATAGGTA
Found at i:1044537 original size:37 final size:37
Alignment explanation
Indices: 1044487--1044568 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
1044477 GAATAGTAAA
* * * *
1044487 ATCGCAACGCTAATTACCGATATAGGTAAAGAGTACT
1 ATCGCAACGCTAATTACCGAAATAAGTAAACACTACT
1044524 ATCGCAACGCTAATTACCGAAATAAGTAAACACTACT
1 ATCGCAACGCTAATTACCGAAATAAGTAAACACTACT
1044561 ATCGCAAC
1 ATCGCAAC
1044569 ACGATTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (37 bp):
ATCGCAACGCTAATTACCGAAATAAGTAAACACTACT
Found at i:1045736 original size:20 final size:20
Alignment explanation
Indices: 1045711--1045751 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1045701 TTATGACACC
*
1045711 TTTATATT-GATAATTCGTGT
1 TTTATATTACATAATT-GTGT
1045731 TTTATATTACATAATTGTGT
1 TTTATATTACATAATTGTGT
1045751 T
1 T
1045752 GATTATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (20 bp):
TTTATATTACATAATTGTGT
Found at i:1049967 original size:19 final size:19
Alignment explanation
Indices: 1049943--1050008 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
1049933 AGCATCGGGA
*
1049943 TACTGTTCAAACAGTGATT
1 TACTGTTCAAACAGTAATT
*
1049962 TACTGTTCAAATAGTAATT
1 TACTGTTCAAACAGTAATT
* *
1049981 TACTGTTCAAATAGTAAAT
1 TACTGTTCAAACAGTAATT
*
1050000 TACTATTCA
1 TACTGTTCA
1050009 TAAAAACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TACTGTTCAAACAGTAATT
Found at i:1050104 original size:29 final size:31
Alignment explanation
Indices: 1050072--1050131 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1050062 AAATTTTGAA
*
1050072 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1050101 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1050132 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1061465 original size:22 final size:22
Alignment explanation
Indices: 1061417--1061475 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
1061407 TGTATTTAGT
*
1061417 TAAAATATATTATAATCATTATA
1 TAAAATATA-TATAATCAATATA
* *
1061440 -AAAATATATATACTTAATATA
1 TAAAATATATATAATCAATATA
*
1061461 TAAAAAATATCATAA
1 TAAAATATAT-ATAA
1061476 AATGAAGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 10 0.34
22 16 0.55
23 3 0.10
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAATATATATAATCAATATA
Found at i:1066188 original size:2 final size:2
Alignment explanation
Indices: 1066181--1066233 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1066171 TTTTAACAGT
1066181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1066223 TA TA TA TA TA T
1 TA TA TA TA TA T
1066234 TGTAAATTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1067559 original size:12 final size:12
Alignment explanation
Indices: 1067542--1067572 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1067532 TCATTAAAAG
1067542 AAAAATATGAAA
1 AAAAATATGAAA
1067554 AAAAATATGAAA
1 AAAAATATGAAA
1067566 AAAAATA
1 AAAAATA
1067573 ATAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAATATGAAA
Found at i:1068460 original size:266 final size:265
Alignment explanation
Indices: 1067977--1068508 Score: 1019
Period size: 266 Copynumber: 2.0 Consensus size: 265
1067967 ATGGAATCAT
1067977 GGAAATGCATAACTGGAGACCATTTTTGTAACAACCATTTTTCGTATATGCCCCGTACACAACTC
1 GGAAATGCATAACTGGAGACCATTTTTGTAACAACCATTTTTCGTATATGCCCCGTACACAACTC
*
1068042 ATAGGTGTCACATATCTTTTAAAATATTTTCGTATTTGAAAATCACTAAAATTTTGTTTCTTTAA
66 ATAGGTGTCACATATCTTTTAAAATATTTTCGTATTTGAAAACCACTAAAATTTTGTTTCTTTAA
*
1068107 ATAAAACAATTTAATAATATAATATTGAAATGTTCCTTAACTACTAGTGTGTAAAACAATGTTTA
131 ATAAAACAATTTAATAATATAATATTGAAATGTTCCTTAACTACTAGTGTGTAAAACAATGTTAA
* *
1068172 AGTTCATCATATAGTTGTTTAAGTTCGAATATAATACATTACTACAAACAAAATATCAAATATCC
196 AGTTCATCACATAGTAGTTTAAGTTCGAATATAATACATTACTACAAACAAAATATCAAATATCC
1068237 TACTA
261 TACTA
1068242 GGAAATGCATAACTGGAGACCATTTTTGTAACAACCATTTTTCGTATATGCCCCCGTACACAACT
1 GGAAATGCATAACTGGAGACCATTTTTGTAACAACCATTTTTCGTATATG-CCCCGTACACAACT
1068307 CATAGGTGTCACATATCTTTTAAAATATTTTCGTATTTGAAAACCACTAAAATTTTGTTTCTTTA
65 CATAGGTGTCACATATCTTTTAAAATATTTTCGTATTTGAAAACCACTAAAATTTTGTTTCTTTA
1068372 AATAAAACAATTTAATAATATAATATTGAAATGTTCCTTAACTACTAGTGTGTAAAACAATGTTA
130 AATAAAACAATTTAATAATATAATATTGAAATGTTCCTTAACTACTAGTGTGTAAAACAATGTTA
1068437 AAGTTCATCACATAGTAGTTTAAGTTCGAATATAATACATTACTACAAACAAAATATCAAATATC
195 AAGTTCATCACATAGTAGTTTAAGTTCGAATATAATACATTACTACAAACAAAATATCAAATATC
1068502 CTACTA
260 CTACTA
1068508 G
1 G
1068509 AATATCAAAT
Statistics
Matches: 262, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
265 50 0.19
266 212 0.81
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (265 bp):
GGAAATGCATAACTGGAGACCATTTTTGTAACAACCATTTTTCGTATATGCCCCGTACACAACTC
ATAGGTGTCACATATCTTTTAAAATATTTTCGTATTTGAAAACCACTAAAATTTTGTTTCTTTAA
ATAAAACAATTTAATAATATAATATTGAAATGTTCCTTAACTACTAGTGTGTAAAACAATGTTAA
AGTTCATCACATAGTAGTTTAAGTTCGAATATAATACATTACTACAAACAAAATATCAAATATCC
TACTA
Found at i:1076855 original size:40 final size:40
Alignment explanation
Indices: 1076811--1076957 Score: 242
Period size: 40 Copynumber: 3.7 Consensus size: 40
1076801 TTCGTGTTCT
1076811 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTCC
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTCC
*
1076851 ATTTCGCGTTGCGATAGTTGAAAATTGCGTTGCGATTTCC
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTCC
* * *
1076891 ATTTCGCGTTGCGATAGTTG-AAATAGTGTTGTGATTTTCC
1 ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGA-TTTCC
1076931 ATTTCGCGTTGCGATAGTTGAAAATCG
1 ATTTCGCGTTGCGATAGTTGAAAATCG
1076958 TGGTCGTGGT
Statistics
Matches: 100, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
39 11 0.11
40 84 0.84
41 5 0.05
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.37
Consensus pattern (40 bp):
ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTCC
Found at i:1076859 original size:19 final size:19
Alignment explanation
Indices: 1076835--1076905 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
1076825 TAGTTGAAAA
1076835 TCGCGTTGCGATTTCCATT
1 TCGCGTTGCGATTTCCATT
** *
1076854 TCGCGTTGCGATAGTTGAAAAT
1 TCGCGTTGCGAT--TT-CCATT
1076876 T-GCGTTGCGATTTCCATT
1 TCGCGTTGCGATTTCCATT
1076894 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1076906 AGTTGAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.07
19 24 0.57
21 12 0.29
22 3 0.07
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (19 bp):
TCGCGTTGCGATTTCCATT
Found at i:1077110 original size:20 final size:20
Alignment explanation
Indices: 1077067--1077139 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
1077057 ACTGTAGACT
*
1077067 ATCGCAACGCAAAATGGAAAA
1 ATCGCAACGCGAAATGG-AAA
*
1077088 ATCGCAACGCGAGATGGAAA
1 ATCGCAACGCGAAATGGAAA
1077108 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1077128 ATCGCAACGCGA
1 ATCGCAACGCGA
1077140 TTTTCAACTA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 34 0.69
21 15 0.31
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.10
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1077153 original size:41 final size:42
Alignment explanation
Indices: 1077064--1077160 Score: 126
Period size: 41 Copynumber: 2.4 Consensus size: 42
1077054 ACAACTGTAG
* *
1077064 ACTATCGCAACGCAAAATGGAAAAATCGCAACGCGAGATGGA
1 ACTATCGCAACGCGAAATGGAAAAATCGCAACGCGAGATGCA
* ** *
1077106 A-AATCGCAACGCGAAATGG-AAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAAATCGCAACGCGAGATGCA
1077146 ACTATCGCAACGCGA
1 ACTATCGCAACGCGA
1077161 TTTTCAACTA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
40 18 0.38
41 28 0.60
42 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (42 bp):
ACTATCGCAACGCGAAATGGAAAAATCGCAACGCGAGATGCA
Found at i:1077154 original size:21 final size:21
Alignment explanation
Indices: 1077128--1077181 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
1077118 GAAATGGAAA
1077128 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
1077149 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
1077170 ATCGCAACGCGA
1 ATCGCAACGCGA
1077182 AATGCAACGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:1077189 original size:21 final size:21
Alignment explanation
Indices: 1077067--1077189 Score: 106
Period size: 21 Copynumber: 6.0 Consensus size: 21
1077057 ACTGTAGACT
* * *
1077067 ATCGCAACGCAAAATGGAAAA
1 ATCGCAACGCGAAATGCAACA
* *
1077088 ATCGCAACGCGAGATGGAA-A
1 ATCGCAACGCGAAATGCAACA
*
1077108 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAAATGCAACA
** * *
1077128 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACA
** * *
1077149 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACA
1077170 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
1077190 GCGAATTTGC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 35 0.39
21 55 0.61
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.16
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACA
Found at i:1077220 original size:20 final size:19
Alignment explanation
Indices: 1077197--1077240 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
1077187 AACGCGAATT
*
1077197 TGCGATACTGGAGATCGCAA
1 TGCGATA-TAGAGATCGCAA
*
1077217 TGCGA-ATAGAGATCGCAT
1 TGCGATATAGAGATCGCAA
1077235 TGCGAT
1 TGCGAT
1077241 TTTGTTGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 15 0.71
19 1 0.05
20 5 0.24
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (19 bp):
TGCGATATAGAGATCGCAA
Found at i:1078635 original size:19 final size:18
Alignment explanation
Indices: 1078606--1078663 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
1078596 GATACTAGAA
1078606 TTCAAGGGATTGATCCTT
1 TTCAAGGGATTGATCCTT
1078624 TTCAAGGGGATTGATCCTT
1 TTCAA-GGGATTGATCCTT
* *
1078643 TAGTTAAAGGATTGATCCTT
1 T--TCAAGGGATTGATCCTT
1078663 T
1 T
1078664 GAAGCAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.14
19 14 0.40
20 13 0.37
21 3 0.09
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (18 bp):
TTCAAGGGATTGATCCTT
Found at i:1078999 original size:7 final size:7
Alignment explanation
Indices: 1078989--1079024 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
1078979 AAGAAAAAGA
1078989 ATATAAT
1 ATATAAT
1078996 ATATAAT
1 ATATAAT
1079003 ATATAAT
1 ATATAAT
1079010 ATATAAT
1 ATATAAT
*
1079017 ATAAAAT
1 ATATAAT
1079024 A
1 A
1079025 GTAAATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
ATATAAT
Found at i:1088245 original size:22 final size:22
Alignment explanation
Indices: 1088193--1088247 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
1088183 TGGAGCGTAT
1088193 GGGTATCGGTAC-CCTTCATAG
1 GGGTATCGGTACTCCTTCATAG
1088214 GGG-ATCGGTACTCCTTCATAG
1 GGGTATCGGTACTCCTTCATAG
1088235 GGGTATCGGTACT
1 GGGTATCGGTACT
1088248 ACCTGTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.25
21 15 0.47
22 9 0.28
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (22 bp):
GGGTATCGGTACTCCTTCATAG
Found at i:1088698 original size:18 final size:18
Alignment explanation
Indices: 1088662--1088699 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1088652 TCGAATAATT
*
1088662 AATCGAATATAATATTTA
1 AATCGAATATAAAATTTA
1088680 AATC-AATATAAAATCTTA
1 AATCGAATATAAAAT-TTA
1088698 AA
1 AA
1088700 ATTACTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (18 bp):
AATCGAATATAAAATTTA
Found at i:1092183 original size:3 final size:3
Alignment explanation
Indices: 1092171--1092229 Score: 68
Period size: 3 Copynumber: 19.7 Consensus size: 3
1092161 ATTATTTAAA
* *
1092171 AAT AAT -AT AAT AAT AAT ATTT AAT AAT AAT AAT AAT AAT AA- ATTT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT
1092216 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
1092230 ATTAAATGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 3 0.06
3 42 0.88
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:1092226 original size:24 final size:25
Alignment explanation
Indices: 1092163--1092229 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 25
1092153 GGTTTGTAAT
*
1092163 TATTTAAAAATAAT-ATAATAATAA
1 TATTTAATAATAATAATAATAATAA
1092187 TATTTAATAATAATAATAATAATAA
1 TATTTAATAATAATAATAATAATAA
1092212 -ATTTAATAATAATAATAA
1 TATTTAATAATAATAATAA
1092230 ATTAAATGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
24 31 0.76
25 10 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TATTTAATAATAATAATAATAATAA
Found at i:1092603 original size:76 final size:76
Alignment explanation
Indices: 1092359--1092792 Score: 761
Period size: 76 Copynumber: 5.8 Consensus size: 76
1092349 GATGGAAATG
* * *
1092359 TTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTTTTCGAAAACATC-AAAAGC
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTT-GAAAACATCAAAAAGC
1092423 TCCCGAAGGC-T
65 TCCCGAAGGCTT
* * *
1092434 TTTGGAAACATCATGCACTGTATGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1092498 CCCGAAGGCTT
66 CCCGAAGGCTT
1092509 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1092574 CCCGAAGGCTT
66 CCCGAAGGCTT
1092585 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1092650 CCCGAAGGCTT
66 CCCGAAGGCTT
1092661 TTTGGAAACATCATGCACTGAA-GGCTTACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1092724 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1092735 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCA
1 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCA
1092793 TGCACTGAAG
Statistics
Matches: 345, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
74 86 0.25
75 123 0.36
76 136 0.39
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1092800 original size:45 final size:45
Alignment explanation
Indices: 1092724--1093125 Score: 287
Period size: 45 Copynumber: 8.5 Consensus size: 45
1092714 TCAAAAAGCT
* *
1092724 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1092771 CCCGAAGGCTTTGAAAATATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1092816 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT-CAGATGA
1 CCCGAAGG-CTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *
1092861 CCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGG-CTTTTTGGAAACATCATG-
1 CCCGAAGGCTTTGAAAACATC---ATGC-ACTGAAGGAC---TT----ACA-GATGA
* * ** * * ** * * **
1092916 CACTGAAGGGCTTACAGATGAC-CCGAAGGCTTTGAA-AACAT-CA-AAAA
1 C-CCGAA-GGCTT--TGAAAACATC--ATGCACTGAAGGACTTACAGATGA
*
1092963 GCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 -C--CCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1093013 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1093058 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGG-CTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1093104 CCCTAAGGCTTTGAAAACATCA
1 CCCGAAGGCTTTGAAAACATCA
1093126 AAAAGCTACC
Statistics
Matches: 283, Mismatches: 43, Indels: 60
0.73 0.11 0.16
Matches are distributed among these distances:
44 12 0.04
45 111 0.39
46 72 0.25
47 27 0.10
48 18 0.06
49 9 0.03
50 6 0.02
53 1 0.00
55 3 0.01
56 10 0.04
57 9 0.03
58 1 0.00
59 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (45 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1092924 original size:166 final size:166
Alignment explanation
Indices: 1092650--1092958 Score: 559
Period size: 166 Copynumber: 1.9 Consensus size: 166
1092640 TCAAAAAGCT
*
1092650 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGCTTACAGATGACCGAAGGCTTTGAAAACAT
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGCTTACAGATGACCGAAGGCTTTGAAAACAT
1092715 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
66 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
*
1092780 TTTGAAAATATCATGCACTGAAGGACTTACAGATGA
131 TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
1092816 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTT-CAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGG-CTTACAGATGA-CCGAAGGCTTTGAAAAC
1092879 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
64 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
1092944 GCTTTGAAAACATCA
129 GCTTTGAAAACATCA
1092959 AAAAGCTACC
Statistics
Matches: 138, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
165 32 0.23
166 106 0.77
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (166 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGCTTACAGATGACCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1092955 original size:76 final size:76
Alignment explanation
Indices: 1092816--1093034 Score: 379
Period size: 76 Copynumber: 2.9 Consensus size: 76
1092806 TTACAGATGA
* *
1092816 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTT-CAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1092879 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1092890 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1092955 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1092966 ACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1093031 ATCA
66 ATCA
1093035 TGCACTGAAG
Statistics
Matches: 137, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
74 8 0.06
75 28 0.20
76 101 0.74
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1093000 original size:242 final size:243
Alignment explanation
Indices: 1092574--1093430 Score: 1129
Period size: 242 Copynumber: 3.6 Consensus size: 243
1092564 TCAAAAAGCT
* * *
1092574 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1092639 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAA-GGCTTACAGATGA-CCGAAG
65 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
* *
1092702 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAG
130 GCTTTGAAAACATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
*
1092767 ATGACCCGAAGGCTTTGAAAATATCATGCACTGAAGGACTTACAGATGA
195 ATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1092816 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT-CAGATGACCCTAAGGCTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1092880 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
66 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1092945 CTTTGAAAACATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
131 CTTTGAAAACATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
*
1093010 TGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
196 TGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1093058 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
* *
1093123 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
66 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
* * * *** * * * * ** * *
1093188 TTTTTGAAAACATC---ATGC-ACTGAAGGAC-TTACAGATGACCCTAAGGCTTTGAA-AACAT-
131 -CTTTGAAAACATCAAAAAGCTACCGAAGG-CTTTTTGGA--AACATCATGCACTGAAGGACTTA
** * *
1093246 CA-AAAAGCTACCGAAGGCTTTTTG-GAA-A-CAT---C--AA--A---A-AGCT--
192 CAGATGA-C--CCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * *
1093286 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
* *
1093351 ATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
65 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAG
*
1093416 GTTTTGAAAACATCA
130 GCTTTGAAAACATCA
1093431 TGCACTGAAG
Statistics
Matches: 570, Mismatches: 31, Indels: 41
0.89 0.05 0.06
Matches are distributed among these distances:
228 21 0.04
229 119 0.21
230 3 0.01
231 1 0.00
234 1 0.00
236 2 0.00
238 1 0.00
239 2 0.00
240 82 0.14
241 51 0.09
242 180 0.32
243 91 0.16
244 16 0.03
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (243 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
CTTTGAAAACATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
TGACCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1093157 original size:76 final size:76
Alignment explanation
Indices: 1093059--1093430 Score: 402
Period size: 76 Copynumber: 4.9 Consensus size: 76
1093049 TACAGATGAC
* *
1093059 CCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
1093123 TCAAAAAGCTA
66 TCAAAAAGCTA
*
1093134 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTTGAAAAC
1 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-CTTTGAAAAC
*
1093199 ATC---ATGC-A
65 ATCAAAAAGCTA
* *** * * * * ** * * **
1093207 CTGAAGGAC-TTACAGATGACCCTAAGGCTTTGAA-AACAT-CA-AAAAGCTACCGAAGGCTTTT
1 CCGAAGG-CTTTTTGGA--AACATCATGCACTGAAGGACTTACAGATGA-C--CCGAAGGC--TT
* *
1093268 TGGAAACATCAAAAAGCTC
58 TGAAAACATCAAAAAGCTA
*
1093287 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACA
1 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
1093352 TCAAAAAGCTA
66 TCAAAAAGCTA
*
1093363 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACA
1 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
1093428 TCA
66 TCA
1093431 TGCACTGAAG
Statistics
Matches: 238, Mismatches: 41, Indels: 35
0.76 0.13 0.11
Matches are distributed among these distances:
72 2 0.01
73 14 0.06
74 7 0.03
75 24 0.10
76 140 0.59
77 12 0.05
78 18 0.08
79 6 0.03
80 13 0.05
81 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (76 bp):
CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
TCAAAAAGCTA
Found at i:1093166 original size:122 final size:122
Alignment explanation
Indices: 1092574--1093278 Score: 723
Period size: 122 Copynumber: 5.8 Consensus size: 122
1092564 TCAAAAAGCT
* * *
1092574 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
*
1092639 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGG-CTTACAGATGA
65 ATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
* * * * *** * * * * **
1092696 -CCGAAGG-CTTTGAAAACATCAAAAAGCTCCCGAAGG-CTTTTTG--GAAACATCATGCACTGA
1 CCCGAAGGTTTTTGAAAACATC---ATGC-ACTGAAGGACTTACAGATG-ACCCTAAGGCTTTGA
** * * * * *
1092756 AGGGC-T--TACAGATGACCCGAAGGC--TTTGAAAATATCATGCACTGAAGGACTTACAGATGA
61 A-AACATCAAAAAGCT-A-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1092816 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTT-CAGATGACCCTAAGGCTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
* *
1092880 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGA
66 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
* * * *** * * * * **
1092937 CCCGAAGG-CTTTGAAAACATCAAAAAGCTACCGAAGG-CTTTTTG--GAAACATCATGCACTGA
1 CCCGAAGGTTTTTGAAAACATC---ATGC-ACTGAAGGACTTACAGATG-ACCCTAAGGCTTTGA
* * * * *
1092998 AGGAC-T--TACAGATGACCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
61 A-AACATCAAAAAGCT-A-CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1093058 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1093123 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1093180 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1093245 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCA
66 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCA
1093279 AAAAGCTCCC
Statistics
Matches: 467, Mismatches: 79, Indels: 74
0.75 0.13 0.12
Matches are distributed among these distances:
118 15 0.03
119 71 0.15
120 43 0.09
121 126 0.27
122 172 0.37
123 30 0.06
124 10 0.02
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (122 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1093182 original size:167 final size:166
Alignment explanation
Indices: 1092890--1093354 Score: 679
Period size: 167 Copynumber: 2.9 Consensus size: 166
1092880 TCAAAAAGCT
* *
1092890 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGG-TTTTTGAAAACATCATGCACTGAA-GGCTTACAGATGACCCTAAGGCTTTGAAAAC
1092955 ATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
64 ATCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
1093020 GTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
129 GTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1093058 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACA
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGG-CTTACAGATGACCCTAAGGCTTTGAAAACA
1093123 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
65 TCAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
1093188 TTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
130 -TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* * * * ** * *
1093226 CCCTAAGG-CTTTGAAAACATCA---A---AAAGC-TACCGA--AGGCT----TTTTGGAAACAT
1 CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGCTTACAGATGACCCTAAGGCTTTGAAAACAT
* * *
1093277 CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGC
66 CAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1093342 TTTGAAAACATCA
131 TTTGAAAACATCA
1093355 AAAAGCTACC
Statistics
Matches: 282, Mismatches: 13, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
152 13 0.05
153 72 0.26
157 3 0.01
159 5 0.02
160 1 0.00
161 3 0.01
164 1 0.00
166 2 0.01
167 130 0.46
168 52 0.18
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (166 bp):
CCCGAAGGTTTTTGAAAACATCATGCACTGAAGGCTTACAGATGACCCTAAGGCTTTGAAAACAT
CAAAAAGCTACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
TTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Done.