Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 297 of 332
Found at i:98641688 original size:14 final size:15
Alignment explanation
Indices: 98641646--98641690 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
98641636 TAAGGTTTAT
98641646 GGATTATGGGTTT-AG
1 GGATTAT-GGTTTAAG
98641661 GGATTATGGTTTAAG
1 GGATTATGGTTTAAG
*
98641676 GG-TTGTGGTTTAAG
1 GGATTATGGTTTAAG
98641690 G
1 G
98641691 TTTAAGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (15 bp):
GGATTATGGTTTAAG
Found at i:98641728 original size:36 final size:36
Alignment explanation
Indices: 98641671--98641739 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
98641661 GGATTATGGT
*
98641671 TTAAGGGTTGTGGTTTAAGGTTTAAGTGTTAGGGGG
1 TTAAGGGTTGTGGGTTAAGGTTTAAGTGTTAGGGGG
* * *
98641707 TTAAGGGTTAG-GGGTTCAGGTTTATGTTTTAGG
1 TTAAGGGTT-GTGGGTTAAGGTTTAAGTGTTAGG
98641740 ATTTATAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 27 0.96
37 1 0.04
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.41
Consensus pattern (36 bp):
TTAAGGGTTGTGGGTTAAGGTTTAAGTGTTAGGGGG
Found at i:98641751 original size:14 final size:14
Alignment explanation
Indices: 98641734--98641781 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
98641724 AGGTTTATGT
*
98641734 TTTAGGATTTATAG
1 TTTAGGATTTAGAG
*
98641748 TTTAGGGTTTAGAG
1 TTTAGGATTTAGAG
* *
98641762 ATTAGGAGTTTAGGG
1 TTTAGGA-TTTAGAG
98641777 TTTAG
1 TTTAG
98641782 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTAGGATTTAGAG
Found at i:98641898 original size:14 final size:14
Alignment explanation
Indices: 98641881--98641919 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
98641871 ATTATTATAG
98641881 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
98641895 TTTAGGGTATATGA
1 TTTAGGGTTTATGA
*
98641909 TTTAGAGTTTA
1 TTTAGGGTTTA
98641920 AAGTGTATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:98641961 original size:15 final size:15
Alignment explanation
Indices: 98641943--98641990 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
98641933 ATTATTTTAA
98641943 GGTTTATGGATTATG
1 GGTTTATGGATTATG
98641958 GGTTTA-GAGATTAT-
1 GGTTTATG-GATTATG
* *
98641972 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
98641987 GGTT
1 GGTT
98641991 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:98641963 original size:22 final size:21
Alignment explanation
Indices: 98641938--98641987 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
98641928 GAGTTATTAT
*
98641938 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
*
98641960 TTT-AGAGATTATGGTTTATGG
1 TTTAAG-GATTATGGATTATGG
98641981 TTTAAGG
1 TTTAAGG
98641988 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:98641996 original size:14 final size:15
Alignment explanation
Indices: 98641979--98642019 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
98641969 TATGGTTTAT
98641979 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
98641993 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
98642008 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
98642020 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:98642010 original size:21 final size:21
Alignment explanation
Indices: 98641972--98642011 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
98641962 TAGAGATTAT
* *
98641972 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
98641993 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
98642012 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:98642549 original size:14 final size:13
Alignment explanation
Indices: 98642530--98642579 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
98642520 TAGTTTTTTT
98642530 ATTTATAAAAACTA
1 ATTTATAAAAA-TA
98642544 ATTTATAAAAATA
1 ATTTATAAAAATA
*
98642557 A-TAATAATAAATA
1 ATTTATAA-AAATA
*
98642570 TTTTATAAAA
1 ATTTATAAAA
98642580 TCATTTAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 5 0.16
13 10 0.32
14 16 0.52
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTATAAAAATA
Found at i:98643607 original size:3 final size:3
Alignment explanation
Indices: 98643599--98643630 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
98643589 TTGTATCTAC
*
98643599 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98643631 TTTGTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:98644168 original size:4 final size:4
Alignment explanation
Indices: 98644159--98644189 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
98644149 CTTCTGGTTC
98644159 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
98644190 TGCTCCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:98644987 original size:25 final size:25
Alignment explanation
Indices: 98644934--98644987 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
98644924 AGAACAAAAT
* *
98644934 AAAAAAAAAAGAGATAGCAATTCGC
1 AAAAAAAAAAGAGAAAGAAATTCGC
98644959 AAAAAAAAAAGAGCAAAGAAATTCG-
1 AAAAAAAAAAGAG-AAAGAAATTCGC
98644984 AAAA
1 AAAA
98644988 GAAATCGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.67, C:0.09, G:0.15, T:0.09
Consensus pattern (25 bp):
AAAAAAAAAAGAGAAAGAAATTCGC
Found at i:98646021 original size:3 final size:3
Alignment explanation
Indices: 98646007--98646324 Score: 196
Period size: 3 Copynumber: 106.0 Consensus size: 3
98645997 CAAAAATTCA
* * * * *
98646007 TAT TAT TCAT TAT TAT AAT TAT AAT TAT AAT TAT AAT TAT T-T TAC
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
98646052 TAT CAT T-T ATAT TCAT TAT TAT TAT TAC TGT TTT TGT TAT TTT TAT
1 TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
98646098 TTT TAT TAC TAT TAC CAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * * * *
98646146 TTT TAC TAT TGC TAT TATT TAT TAT TAT TAT AAT TAT TAC TAC TAA
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** *
98646192 CAT TAT TAT TGT TAT TAT T-T TGC TAT TAT TAT TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * *
98646239 TAT TGC TAT TAC TAT T-T CTAT TAT TAT TAT TGT TGT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
98646284 CA- TAA TAG TAT TAT TAT TAT TAT TAC TAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
98646325 CATTTTTACT
Statistics
Matches: 237, Mismatches: 68, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
2 7 0.03
3 219 0.92
4 11 0.05
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:98646444 original size:11 final size:11
Alignment explanation
Indices: 98646428--98646470 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 11
98646418 TTTTTGTTAT
98646428 TTCATTTATTA
1 TTCATTTATTA
98646439 TTCATTTATTA
1 TTCATTTATTA
98646450 TTCTATTTATTTA
1 TTC-ATTTA-TTA
98646463 TTTCATTT
1 -TTCATTT
98646471 TTGTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 14 0.48
12 5 0.17
13 7 0.24
14 3 0.10
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (11 bp):
TTCATTTATTA
Found at i:98653672 original size:39 final size:39
Alignment explanation
Indices: 98653628--98653706 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
98653618 TCTTTTATTC
98653628 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
1 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
98653667 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
1 TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
98653706 T
1 T
98653707 ATTAGATTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (39 bp):
TTTCAATTTCATTCATAATCATGCTATATAGATGGTTGT
Found at i:98657169 original size:39 final size:39
Alignment explanation
Indices: 98657108--98657186 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
98657098 AAAAAAGCTG
* *
98657108 ATCCCACTCCTCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
*
98657147 ATCCTACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
98657186 A
1 A
98657187 AACCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.05, T:0.44
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:98658669 original size:44 final size:44
Alignment explanation
Indices: 98658606--98659692 Score: 1551
Period size: 44 Copynumber: 24.9 Consensus size: 44
98658596 AGGAACACCG
* * **
98658606 ATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98658650 ATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
** * * * *
98658694 AAATGTTATCTTCGATCTACTCTCTGCTGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
98658738 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
98658782 ATCTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98658826 ATTTGTTATCTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
98658870 ATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
98658914 ATCTGTTATCTTTGATCTGCTCTCCACCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
98658958 ATCTGCTATCTTCGATCTGCTCTCCACCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
98659002 ATCTGTTATCTTCGATATGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659046 ATC----ATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659086 ATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAAAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
98659130 ATCTGTTATCTTCGATCTGCTCTCCACCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** *
98659174 ATCTGTTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * * *
98659218 ATCTGTCATCTTTGATCTGCTCTCCGCCACTACAGATATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
98659262 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
98659306 ATCTGTTATCTTTGATCTACTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
98659350 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659390 ATCTGTTATTTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659434 ATCTGTTATCTTCGATCTGCTCTCCGCCACTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * ** * *
98659478 ATCTGCTATATTCGATCTGCTCTTTGCCGCTGCAGAGACGTCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659522 ATCTGTTATCTTCGATCTGCTCTTCGCCGCTACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* **
98659566 ATCTATTATCTTCGATCTGCTCTCCATCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659610 ATCTATTATCTTCGATCTGCTCCCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
98659654 ATCTGTTATCTTCGATCTGCTCTCTGCCGCTATAGAGAC
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGAC
98659693 ACTTAATCAT
Statistics
Matches: 935, Mismatches: 100, Indels: 16
0.89 0.10 0.02
Matches are distributed among these distances:
40 75 0.08
44 860 0.92
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:98660025 original size:61 final size:65
Alignment explanation
Indices: 98659911--98660029 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 65
98659901 GTATCCATAC
98659911 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
* *
98659976 TTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
98660030 AATGGTTATG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
61 29 0.56
62 1 0.02
63 1 0.02
64 1 0.02
65 20 0.38
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (65 bp):
TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGCT
Found at i:98672490 original size:44 final size:44
Alignment explanation
Indices: 98672419--98672751 Score: 360
Period size: 44 Copynumber: 7.5 Consensus size: 44
98672409 GCCACTAAAC
* * *
98672419 CTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * * ** * *
98672463 CTTAGCTCCCTGAAGTTACAGTAGAGCAGACTAAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAAT
* *
98672508 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * * ** ** * *
98672552 CTTAGCTCCTTGAAGTTGCAGTAGAATAGACTAAAGATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAAT
* *
98672597 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * *
98672641 ATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
* * ** *
98672685 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA-CAAAT
98672730 CTTATCTCCCTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
98672752 AAAGCAGATT
Statistics
Matches: 232, Mismatches: 54, Indels: 5
0.80 0.19 0.02
Matches are distributed among these distances:
44 140 0.60
45 92 0.40
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACAAAT
Found at i:98672566 original size:89 final size:89
Alignment explanation
Indices: 98672415--98672765 Score: 418
Period size: 89 Copynumber: 3.9 Consensus size: 89
98672405 AATAGCCACT
* * *
98672415 AAACCTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAGATACAAGTCTTAGCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
*
98672480 ACAGTAGAGCAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAGC
* * *
98672504 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACAAGTCTTAGCTCCTTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
**
98672569 GCAGTAGAATAGACTAAAGATAGC
66 GCAGTAGAGCAGACTAAAGATAGC
* * * * * *
98672593 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAGAAATATTATCTCCCTGAAGTT
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
* ** * *
98672658 GCAGTGGAGCAGGTTGAAGTTA-C
66 GCAGTAGAGCAGACTAAAGATAGC
** * * * *
98672681 AAGTCTTATCTCCCTAAAGTTGCAGCGGAGC-AGACTAAAGATAGCAAATCTTATCTCCCTGAAG
1 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAG-TTGAAGATA-CAAATCTTAGCTCCCTGAAG
* *
98672745 TTGCAGTAAAGCAGATTAAAG
64 TTGCAGTAGAGCAGACTAAAG
98672766 CTACATCTCC
Statistics
Matches: 225, Mismatches: 35, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
87 1 0.00
88 34 0.15
89 190 0.84
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (89 bp):
AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAAGTTGAAGATACAAATCTTAGCTCCCTGAAGTT
GCAGTAGAGCAGACTAAAGATAGC
Found at i:98672674 original size:133 final size:134
Alignment explanation
Indices: 98672419--98672765 Score: 410
Period size: 133 Copynumber: 2.6 Consensus size: 134
98672409 GCCACTAAAC
* ** * ** * ** * *
98672419 CTTATCTCCCTAAAGTTGCAGGGGAGCAGGTTGAAGATA-CAAGTCTTAGCTCCCTGAAGTTACA
1 CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
*
98672483 GTAGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
66 GTAGAGCAGACTAAAGATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
98672548 AAGT
131 AAGT
* * * *
98672552 CTTAGCTCCTTGAAGTTGCAGTAGAATAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
1 CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
* ** * * * * *
98672617 GTGGAGCAGGTTGAAGTTAG-AAATATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC
66 GTAGAGCAGACTAAAGATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
98672681 AAGT
131 AAGT
* * * *
98672685 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCA
1 CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
* *
98672750 GTAAAGCAGATTAAAG
66 GTAGAGCAGACTAAAG
98672766 CTACATCTCC
Statistics
Matches: 178, Mismatches: 35, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
133 142 0.80
134 36 0.20
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (134 bp):
CTTAGCTCCCTAAAGTTGCAGCAGAACAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGCA
GTAGAGCAGACTAAAGATAGCAAACATTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATAC
AAGT
Found at i:98673385 original size:24 final size:24
Alignment explanation
Indices: 98673353--98673404 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
98673343 AGAACAAAAT
*
98673353 AAAAAAAAAGAG-AAAGTAATTCA
1 AAAAAAAAAGAGCAAAGAAATTCA
98673376 CAAAAAAAAAGAGCAAAGAAATTCA
1 -AAAAAAAAAGAGCAAAGAAATTCA
98673401 AAAA
1 AAAA
98673405 GAAATCGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.71, C:0.08, G:0.12, T:0.10
Consensus pattern (24 bp):
AAAAAAAAAGAGCAAAGAAATTCA
Found at i:98674175 original size:3 final size:3
Alignment explanation
Indices: 98674167--98674226 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
98674157 ATTTTTGCTA
* * *
98674167 TAT TAT TAT TAA AAT TAAT TAAT TAAT TAT TAT TA- TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
*
98674214 TAT CAT TAT TAT T
1 TAT TAT TAT TAT T
98674227 TCTTTAAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 2 0.04
3 34 0.72
4 11 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:98674206 original size:15 final size:14
Alignment explanation
Indices: 98674192--98674226 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
98674182 TAATTAATTA
98674192 ATTATTATTATATT
1 ATTATTATTATATT
*
98674206 ATTATTAATATCATT
1 ATTATTATTAT-ATT
98674221 ATTATT
1 ATTATT
98674227 TCTTTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:98674386 original size:3 final size:3
Alignment explanation
Indices: 98674378--98674440 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
98674368 TGTTTCTGCC
98674378 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
98674426 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
98674441 CATTTTTTCT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:98674591 original size:11 final size:12
Alignment explanation
Indices: 98674540--98674592 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 12
98674530 ATTTTTTTTG
98674540 TTATTTCATTTA
1 TTATTTCATTTA
*
98674552 TTA-TTCTTTTA
1 TTATTTCATTTA
98674563 TTA-TTCTATTTA
1 TTATTTC-ATTTA
98674575 TTTATTTCATTT-
1 -TTATTTCATTTA
98674587 TTATTT
1 TTATTT
98674593 TTGTTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 19 0.53
12 7 0.19
13 7 0.19
14 3 0.08
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTCATTTA
Found at i:98679430 original size:22 final size:22
Alignment explanation
Indices: 98679405--98679466 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
98679395 ATCATTCTGT
*
98679405 ACTTCAGTGCCTACTGTTTTGC
1 ACTTCAGTGCTTACTGTTTTGC
** * *
98679427 ACTTTGGTGCTTAGTGATTTGC
1 ACTTCAGTGCTTACTGTTTTGC
* *
98679449 TCTTCTGTGCTTACTGTT
1 ACTTCAGTGCTTACTGTT
98679467 CTATTAGTGC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (22 bp):
ACTTCAGTGCTTACTGTTTTGC
Found at i:98683676 original size:24 final size:23
Alignment explanation
Indices: 98683647--98683695 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
98683637 AAAAATAAAA
98683647 ATTATT-GTTTTTAAATTATTTATT
1 ATTATTAGTTTTTAAA-TA-TTATT
*
98683671 ATTATTATTTTTTAAATATTATT
1 ATTATTAGTTTTTAAATATTATT
98683694 AT
1 AT
98683696 AAAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 8 0.35
25 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
ATTATTAGTTTTTAAATATTATT
Found at i:98683709 original size:41 final size:40
Alignment explanation
Indices: 98683659--98683741 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 40
98683649 TATTGTTTTT
* * *
98683659 AAATTATTTA-TTATTATTATTTTTTAAATATTATTATAAAA
1 AAATAATTTAGTTATTATAATTTTTTAAA-AATATTA-AAAA
*
98683700 AAATAATTTAGTTTTTATAATTTTTTAAAAATATTAAAAA
1 AAATAATTTAGTTATTATAATTTTTTAAAAATATTAAAAA
98683740 AA
1 AA
98683742 GTTTTGCTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 6 0.16
41 15 0.41
42 16 0.43
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (40 bp):
AAATAATTTAGTTATTATAATTTTTTAAAAATATTAAAAA
Found at i:98693961 original size:21 final size:19
Alignment explanation
Indices: 98693937--98693977 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
98693927 TTTTTTACAT
*
98693937 TATTTTTCTCTCTTTTTTTTC
1 TATTTTTC-CT-TTTTTATTC
98693958 TATTTTTCCTTTTTTATTC
1 TATTTTTCCTTTTTTATTC
98693977 T
1 T
98693978 TTCTTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTCCTTTTTTATTC
Found at i:98694379 original size:13 final size:13
Alignment explanation
Indices: 98694361--98694407 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
98694351 TCCGACGAAT
98694361 AAAACAAAAACTA
1 AAAACAAAAACTA
*
98694374 AAAACAAAAACCA
1 AAAACAAAAACTA
**
98694387 AAAACAAAGTCTA
1 AAAACAAAAACTA
98694400 AAAACAAA
1 AAAACAAA
98694408 TTTATAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.06
Consensus pattern (13 bp):
AAAACAAAAACTA
Found at i:98694382 original size:6 final size:6
Alignment explanation
Indices: 98694361--98694394 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
98694351 TCCGACGAAT
98694361 AAAACA AAAACTA AAAACA AAAACCA AAAACA AA
1 AAAACA AAAAC-A AAAACA AAAA-CA AAAACA AA
98694395 GTCTAAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.79, C:0.18, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:98698030 original size:3 final size:3
Alignment explanation
Indices: 98698022--98698072 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
98698012 ATACTAATTA
* * *
98698022 AAT AAT AAT AGAG AA- AAT AAAT AAT AAC AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
98698068 AAT AA
1 AAT AA
98698073 AGAAAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 5 0.12
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:98698189 original size:3 final size:3
Alignment explanation
Indices: 98698181--98698259 Score: 77
Period size: 3 Copynumber: 25.3 Consensus size: 3
98698171 TAATCAAAAC
* *
98698181 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTGA CATA AGTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A -ATA A-TA ATA
* * * *
98698229 ATA CTA GTA ACA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
98698260 CAGTAGCAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
3 57 0.92
4 4 0.06
5 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:98699340 original size:14 final size:14
Alignment explanation
Indices: 98699321--98699350 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
98699311 TTTATTATAT
98699321 CTACTGTTCATCTG
1 CTACTGTTCATCTG
98699335 CTACTGTTCATCTG
1 CTACTGTTCATCTG
98699349 CT
1 CT
98699351 TCTTGTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.43
Consensus pattern (14 bp):
CTACTGTTCATCTG
Found at i:98699606 original size:4 final size:4
Alignment explanation
Indices: 98699597--98699624 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
98699587 AAACTGTAGC
98699597 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
98699625 GTGCCCTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:98710432 original size:17 final size:18
Alignment explanation
Indices: 98710410--98710450 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
98710400 ATGTAGTTCG
* *
98710410 TATTTTTAG-AAAACCTT
1 TATTTTTAGTAAAAACTA
98710427 TA-TTTTAGTAAAAACTA
1 TATTTTTAGTAAAAACTA
98710444 TATTTTT
1 TATTTTT
98710451 TAGATATCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 10 0.50
18 4 0.20
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTTTTAGTAAAAACTA
Found at i:98711023 original size:15 final size:15
Alignment explanation
Indices: 98711003--98711037 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
98710993 TACCCCAAAT
98711003 CAGATACAGAAATAA
1 CAGATACAGAAATAA
98711018 CAGATACAGAAATAA
1 CAGATACAGAAATAA
98711033 CAGAT
1 CAGAT
98711038 TAAACACGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
CAGATACAGAAATAA
Found at i:98714074 original size:21 final size:21
Alignment explanation
Indices: 98714027--98714076 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
98714017 AATTTCAACA
98714027 ATTAATATTTTAAATGTGTTT
1 ATTAATATTTTAAATGTGTTT
*
98714048 AGTAATCATTTT-AATGT-TTT
1 ATTAAT-ATTTTAAATGTGTTT
98714068 ACTTAATAT
1 A-TTAATAT
98714077 AAATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 14 0.56
22 5 0.20
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (21 bp):
ATTAATATTTTAAATGTGTTT
Found at i:98716234 original size:21 final size:21
Alignment explanation
Indices: 98716210--98716251 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
98716200 TAAGAGTGAG
98716210 TTTTTTAAATAAAAAAATTAA
1 TTTTTTAAATAAAAAAATTAA
* *
98716231 TTTTTTAAATATAAGAATTAA
1 TTTTTTAAATAAAAAAATTAA
98716252 ATCTCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTTTTAAATAAAAAAATTAA
Found at i:98720038 original size:31 final size:27
Alignment explanation
Indices: 98720007--98720058 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
98719997 TTTGATATAC
* *
98720007 ATACATATTTTTAATTATAAAAATGAA
1 ATACAAATTTATAATTATAAAAATGAA
98720034 ATACAAATTTATAATTATAAAAATG
1 ATACAAATTTATAATTATAAAAATG
98720059 TAACTAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (27 bp):
ATACAAATTTATAATTATAAAAATGAA
Found at i:98724947 original size:49 final size:47
Alignment explanation
Indices: 98724870--98725044 Score: 158
Period size: 49 Copynumber: 3.6 Consensus size: 47
98724860 TCCATCAAGT
* * *
98724870 CGATACCATGTCCCAAACATGGTATTACACTAACTATCATAATAGAGGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAACTATCATAAT-G-GGC
* * * * * *
98724919 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCCGTGT
1 CGATGCCATGTCCCAGACATGGTTTTACACTAACTATCATA-AT--GGGC
* *
98724969 CGATGCCATGTCCCAGACATGGTTTTACATTGACAC-ATC-TCAT-GGC
1 CGATGCCATGTCCCAGACATGGTTTTACACT-A-ACTATCATAATGGGC
*
98725015 CGATGCCATGTCCCAGACATGATTTTACAC
1 CGATGCCATGTCCCAGACATGGTTTTACAC
98725045 AGGCTCTCAC
Statistics
Matches: 103, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
46 29 0.28
49 37 0.36
50 32 0.31
51 4 0.04
52 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTTTTACACTAACTATCATAATGGGC
Found at i:98725023 original size:46 final size:47
Alignment explanation
Indices: 98724916--98725044 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 47
98724906 TCATAATAGA
* **
98724916 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCC
1 GGCCGATGCCATGTCCCAGACATGGTTTTACACTA--TGACACATATCC
* * *
98724965 GTGTCGATGCCATGTCCCAGACATGGTTTTACA-T-TGACACATCTCAT
1 G-GCCGATGCCATGTCCCAGACATGGTTTTACACTATGACACATATC-C
*
98725012 GGCCGATGCCATGTCCCAGACATGATTTTACAC
1 GGCCGATGCCATGTCCCAGACATGGTTTTACAC
98725045 AGGCTCTCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
46 37 0.54
47 1 0.01
49 2 0.03
50 29 0.42
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GGCCGATGCCATGTCCCAGACATGGTTTTACACTATGACACATATCC
Found at i:98732378 original size:35 final size:36
Alignment explanation
Indices: 98732325--98732397 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 36
98732315 GAGTTATTCG
* * *
98732325 TTTTTATTTTAGTAAGATTTTAGGATTTTTAGTTTA
1 TTTTAATTTTAGTAAGATTTTAGAAATTTTAGTTTA
* *
98732361 TTTTAATTTTA-TTAGATTTTAGAAATTTTATTTTA
1 TTTTAATTTTAGTAAGATTTTAGAAATTTTAGTTTA
98732396 TT
1 TT
98732398 AATGTTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (36 bp):
TTTTAATTTTAGTAAGATTTTAGAAATTTTAGTTTA
Found at i:98735596 original size:25 final size:23
Alignment explanation
Indices: 98735568--98735617 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 23
98735558 AAAGAAGACC
* *
98735568 AACACTAACTTCCTCAATAGGCTTG
1 AACACTAAATTCATCAAT--GCTTG
*
98735593 AACAGTAAATTCATCAATGCTTG
1 AACACTAAATTCATCAATGCTTG
98735616 AA
1 AA
98735618 AGGGCATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (23 bp):
AACACTAAATTCATCAATGCTTG
Found at i:98741822 original size:20 final size:19
Alignment explanation
Indices: 98741791--98741832 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
98741781 ATACTATAAG
98741791 ATTATTTTTATCATACATT
1 ATTATTTTTATCATACATT
* *
98741810 ATTATTATTTATCGTATATT
1 ATTATT-TTTATCATACATT
98741830 ATT
1 ATT
98741833 TTTCACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTATTTTTATCATACATT
Found at i:98741877 original size:22 final size:20
Alignment explanation
Indices: 98741826--98741887 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
98741816 ATTTATCGTA
* * * *
98741826 TATTATTTTTCACAAATTAT
1 TATTATTATTAACATATTTT
98741846 TATTATTATTAACATTATTTT
1 TATTATTATTAACA-TATTTT
98741867 TATATATTATTAACATATTTT
1 TAT-TATTATTAACATATTTT
98741888 ACTTGTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.33
21 13 0.36
22 11 0.31
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTATTAACATATTTT
Found at i:98741898 original size:22 final size:22
Alignment explanation
Indices: 98741845--98741887 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
98741835 TCACAAATTA
98741845 TTAT-TATTATTAACATTATTT
1 TTATATATTATTAACATTATTT
98741866 TTATATATTATTAACA-TATTT
1 TTATATATTATTAACATTATTT
98741887 T
1 T
98741888 ACTTGTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATATTATTAACATTATTT
Found at i:98742023 original size:23 final size:22
Alignment explanation
Indices: 98741991--98742048 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
98741981 ATATATTCAA
98741991 ATTATGTTTTATTCTATA-ACGTTT
1 ATTAT-TTTTATTCTATATAC--TT
98742015 ATTATTTTTATTCTATATTACTT
1 ATTATTTTTATTCTATA-TACTT
98742038 ATTATTTTTAT
1 ATTATTTTTAT
98742049 ATATATATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 25 0.78
24 5 0.16
25 2 0.06
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (22 bp):
ATTATTTTTATTCTATATACTT
Found at i:98742085 original size:15 final size:14
Alignment explanation
Indices: 98742037--98742081 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
98742027 CTATATTACT
98742037 TATTATTT-TTATA
1 TATTATTTATTATA
98742050 TATATATGTTATGTATA
1 TAT-TAT-TTAT-TATA
98742067 TATTATTTATTATA
1 TATTATTTATTATA
98742081 T
1 T
98742082 TATTTGCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 6 0.21
16 4 0.14
17 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (14 bp):
TATTATTTATTATA
Found at i:98745991 original size:14 final size:14
Alignment explanation
Indices: 98745972--98746001 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
98745962 AAGATATTCT
98745972 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
*
98745986 TTTTCTAAATGAAA
1 TTTTCTAAATAAAA
98746000 TT
1 TT
98746002 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:98749153 original size:44 final size:44
Alignment explanation
Indices: 98749090--98749178 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
98749080 CAGGAAAAGG
98749090 GCTAGGAAGACAGTTGCAAGGAGGGGTTCAAATCTCAAAACTGA
1 GCTAGGAAGACAGTTGCAAGGAGGGGTTCAAATCTCAAAACTGA
98749134 GCTAGGAAGACAGTTGCAAGGAGGGGTTCAAATCTCAAAACTGA
1 GCTAGGAAGACAGTTGCAAGGAGGGGTTCAAATCTCAAAACTGA
98749178 G
1 G
98749179 TGAGAAGAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (44 bp):
GCTAGGAAGACAGTTGCAAGGAGGGGTTCAAATCTCAAAACTGA
Found at i:98754474 original size:210 final size:210
Alignment explanation
Indices: 98754112--98755528 Score: 2546
Period size: 210 Copynumber: 6.7 Consensus size: 210
98754102 CATTATCAGG
* * ** * *
98754112 GCAGATCCAAGATGACAGATCTTATCTTTTTGTATTCGGCAAGGAGCAGATCGAATATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
*
98754177 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAATATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
*
98754242 GAACAAATCGAAGTCTGGCATTTCCACTTCGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
98754307 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
98754322 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
** * *
98754387 ATTTGGCTTTCACGTGTTTATAATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATGGTTAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
98754452 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
98754517 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
**
98754532 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATTAAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
98754597 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
98754662 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
98754727 AATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
98754742 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGTGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* *
98754807 ATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTATCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
98754872 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
*
98754937 GATGTTTATGCTGAA
196 GATGTTTACGCTGAA
98754952 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
98755017 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
98755082 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
98755147 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
98755162 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCTAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
98755227 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* * * *
98755292 AAACAAATCAAAGTCTGGCATTTCCACTTTGATGGAAGGTAGACCCATAGCAGATCTCACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
98755357 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
*
98755372 GCAGATCCAAGATGACAGATCTTATCTCTCTATATTCGGCGGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
* * * * *
98755437 ATTTGGCCTTCACGTGTTTACGATGAAGCAAATCTAAAATGATTTGTCATTTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
* *
98755502 GAACAAATCGAAGTTTGGCATCTCCAC
131 GAACAAATCGAAGTCTGGCATTTCCAC
98755529 ATTCAATGGG
Statistics
Matches: 1161, Mismatches: 46, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 1161 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATGGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCA
GATGTTTACGCTGAA
Found at i:98757332 original size:17 final size:17
Alignment explanation
Indices: 98757304--98757376 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 17
98757294 ATACTATAAG
98757304 ATTATT-TTTATCATAC
1 ATTATTATTTATCATAC
*
98757320 ATTATTATTTATCGT--
1 ATTATTATTTATCATAC
* *
98757335 A-TATTATTTTTCATAA
1 ATTATTATTTATCATAC
*
98757351 ATTATTA-TTATTA-AC
1 ATTATTATTTATCATAC
98757366 ATTATT-TTTAT
1 ATTATTATTTAT
98757377 ATATTATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
14 11 0.24
15 12 0.26
16 11 0.24
17 12 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (17 bp):
ATTATTATTTATCATAC
Found at i:98757354 original size:14 final size:13
Alignment explanation
Indices: 98757337--98757384 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
98757327 TTTATCGTAT
98757337 ATTATTTTTCATAA
1 ATTATTTTT-ATAA
*
98757351 ATTATTATTATTAA
1 ATTATTTTTA-TAA
*
98757365 CATTATTTTTATAT
1 -ATTATTTTTATAA
98757379 ATTATT
1 ATTATT
98757385 AATATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 7 0.24
14 13 0.45
15 9 0.31
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTATTTTTATAA
Found at i:98757382 original size:22 final size:20
Alignment explanation
Indices: 98757352--98757394 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
98757342 TTTTCATAAA
98757352 TTATTATTATTAACATTATTT
1 TTATTATTATTAACA-TATTT
*
98757373 TTATATATTATTAATATATTT
1 TTAT-TATTATTAACATATTT
98757394 T
1 T
98757395 ACTTGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTATTAACATATTT
Found at i:98757542 original size:23 final size:22
Alignment explanation
Indices: 98757494--98757547 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 22
98757484 ATATATTCAA
98757494 ATTATGTTTTATTCTATAACGTTT
1 ATTAT-TTTTATTCTATAACG-TT
98757518 ATTATTTTTATTCTATATTAC-TT
1 ATTATTTTTATTCTATA--ACGTT
98757541 ATTATTT
1 ATTATTT
98757548 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 21 0.75
24 5 0.18
25 2 0.07
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (22 bp):
ATTATTTTTATTCTATAACGTT
Found at i:98759223 original size:20 final size:19
Alignment explanation
Indices: 98759198--98759235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
98759188 AGAAAAAAGG
*
98759198 AAAAGAATAGAAAGGAAAAA
1 AAAAGAAGAGAAA-GAAAAA
98759218 AAAAGAAGAGAAAGAAAA
1 AAAAGAAGAGAAAGAAAA
98759236 GTGGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (19 bp):
AAAAGAAGAGAAAGAAAAA
Found at i:98769361 original size:52 final size:48
Alignment explanation
Indices: 98769299--98769472 Score: 192
Period size: 47 Copynumber: 3.6 Consensus size: 48
98769289 GAAATGTGAT
* *
98769299 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
98769351 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
98769398 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
98769444 ATCCGTGTAAGACCATGGCTGGGCTATGG
1 TTCCGTATAAGACCATAGCTGGGATATGG
98769473 GCTCGGTATG
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 22 0.21
47 54 0.50
50 1 0.01
51 1 0.01
52 29 0.27
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:98769479 original size:93 final size:97
Alignment explanation
Indices: 98769303--98769510 Score: 221
Period size: 99 Copynumber: 2.1 Consensus size: 97
98769293 TGTGATTTCC
* * *
98769303 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
98769368 TCCGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCCGGGATATGGCATCGGATGTGATATGTGACTA-T
* * * *
98769402 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
*
98769464 GGGCTATGGGC-TCGGTATGTGATATGTGACTAT
66 GGGATAT-GGCATCGG-ATGTGATATGTGACTAT
**
98769497 GTGCAAGACCATAG
1 GTATAAGACCATAG
98769511 TTTTACTATG
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
93 25 0.27
94 14 0.15
95 23 0.25
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:98772353 original size:43 final size:43
Alignment explanation
Indices: 98772279--98772397 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
98772269 TAATGATGTG
*
98772279 CTATGTGTGCTAGTATAATTGCTTC-GACTTGTCT-AAAATTGCA
1 CTATGTGTGCCAGTATAATTGCTTCAG-CTTGTCTGAAAA-TGCA
* **
98772322 CTATGTGTGCCAGTATAATTGCTTCAGCTTGTTTGATGATGCA
1 CTATGTGTGCCAGTATAATTGCTTCAGCTTGTCTGAAAATGCA
* * *
98772365 CAATATGT-CACAATATAATTGCTTCAGCTTGTC
1 CTATGTGTGC-CAGTATAATTGCTTCAGCTTGTC
98772398 CGATGATGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 61 0.94
44 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (43 bp):
CTATGTGTGCCAGTATAATTGCTTCAGCTTGTCTGAAAATGCA
Found at i:98772403 original size:43 final size:43
Alignment explanation
Indices: 98772335--98772451 Score: 162
Period size: 43 Copynumber: 2.7 Consensus size: 43
98772325 TGTGTGCCAG
** *
98772335 TATAATTGCTTCAGCTTGTTTGATGATGCACAATATGTCACAA
1 TATAATTGCTTCAGCTTGTCCGATGATGCACAAGATGTCACAA
*
98772378 TATAATTGCTTCAGCTTGTCCGATGATGCACAAGATGTCTCAA
1 TATAATTGCTTCAGCTTGTCCGATGATGCACAAGATGTCACAA
* * * *
98772421 TATAATTGCTTTAGTTTATCCAATGATGCAC
1 TATAATTGCTTCAGCTTGTCCGATGATGCAC
98772452 CGCAGTGCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (43 bp):
TATAATTGCTTCAGCTTGTCCGATGATGCACAAGATGTCACAA
Found at i:98773186 original size:22 final size:23
Alignment explanation
Indices: 98773144--98773186 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
98773134 ACTTGGTTAG
98773144 TTAAATATAGCTTGTAAATGGAT
1 TTAAATATAGCTTGTAAATGGAT
* *
98773167 TTAAATGTAGTTTG-AAATGG
1 TTAAATATAGCTTGTAAATGG
98773187 TATGAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (23 bp):
TTAAATATAGCTTGTAAATGGAT
Found at i:98782815 original size:10 final size:10
Alignment explanation
Indices: 98782800--98782859 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
98782790 TAAATTTAGG
*
98782800 ATTTATTTTT
1 ATTTATCTTT
98782810 ATTTATCTTT
1 ATTTATCTTT
* *
98782820 AATTATCATT
1 ATTTATCTTT
*
98782830 AATTATCTTT
1 ATTTATCTTT
* *
98782840 AATGAT-TTGT
1 ATTTATCTT-T
98782850 ATTTATCTTT
1 ATTTATCTTT
98782860 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:98782855 original size:20 final size:19
Alignment explanation
Indices: 98782806--98782859 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
98782796 TAGGATTTAT
*
98782806 TTTTATTTATCTTTAATTA
1 TTTTATTTATCTTTAATGA
* *
98782825 TCATTAATTATCTTTAATGA
1 T-TTTATTTATCTTTAATGA
98782845 TTTGTATTTATCTTT
1 TTT-TATTTATCTTT
98782860 TAGAATTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATTTATCTTTAATGA
Found at i:98784103 original size:45 final size:45
Alignment explanation
Indices: 98784043--98784133 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
98784033 AATCGACGAT
98784043 GAAGTAGAGTCTAGGGTTAACGAAAACCCTACTCAAACATTTGAA
1 GAAGTAGAGTCTAGGGTTAACGAAAACCCTACTCAAACATTTGAA
98784088 GAAGTAGAGTCTAGGGTTAACGAAAACCCTACTCAAACATTTGAA
1 GAAGTAGAGTCTAGGGTTAACGAAAACCCTACTCAAACATTTGAA
98784133 G
1 G
98784134 GCGAAAAAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (45 bp):
GAAGTAGAGTCTAGGGTTAACGAAAACCCTACTCAAACATTTGAA
Found at i:98786499 original size:4 final size:4
Alignment explanation
Indices: 98786490--98786602 Score: 66
Period size: 4 Copynumber: 28.8 Consensus size: 4
98786480 CAACCCAACC
*
98786490 TTTA TTTA TTTA TTTA -TT- TTTA CTTT- TCTTA ATT- TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA T-TTA TTTA TTTA TTTA TTTA
*
98786535 -TTA TTTA -TTA TTTA -TTA TTTA TTATT TTTA TTTTA TTTTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA -TTTA -TTTA -TTTA
98786580 TTT- TATTA TTTA -TTA TTTTA TTT
1 TTTA T-TTA TTTA TTTA -TTTA TTT
98786603 TTAGATATTA
Statistics
Matches: 88, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
3 23 0.26
4 42 0.48
5 23 0.26
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:98786534 original size:7 final size:7
Alignment explanation
Indices: 98786491--98786597 Score: 98
Period size: 7 Copynumber: 14.9 Consensus size: 7
98786481 AACCCAACCT
98786491 TTATTTA
1 TTATTTA
98786498 TTTATTTA
1 -TTATTTA
98786506 TT-TTTA
1 TTATTTA
*
98786512 CTTTTCTTAA
1 -TTAT-TT-A
98786522 TT-TTTA
1 TTATTTA
98786528 TTATTTA
1 TTATTTA
98786535 TTATTTA
1 TTATTTA
98786542 TTATTTA
1 TTATTTA
98786549 TTATTTA
1 TTATTTA
98786556 TTATTT-
1 TTATTTA
98786562 TTA-TT-
1 TTATTTA
98786567 TTATTTTA
1 TTA-TTTA
98786575 CTTTATTTTA
1 --TTA-TTTA
98786585 TTATTTA
1 TTATTTA
98786592 TTATTT
1 TTATTT
98786598 TATTTTTAGA
Statistics
Matches: 89, Mismatches: 0, Indels: 21
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.06
6 10 0.11
7 49 0.55
8 12 0.13
9 4 0.04
10 9 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:98786538 original size:10 final size:10
Alignment explanation
Indices: 98786491--98786596 Score: 70
Period size: 10 Copynumber: 11.2 Consensus size: 10
98786481 AACCCAACCT
98786491 TTATTTA-T-
1 TTATTTATTA
*
98786499 TTATTTATTT
1 TTATTTATTA
* *
98786509 TTACTT-TTC
1 TTATTTATTA
98786518 TTAATTT-TTA
1 TT-ATTTATTA
98786528 TTATTTATTA
1 TTATTTATTA
98786538 TT-TATTATTTA
1 TTAT-TTA-TTA
98786549 TTATTTATTA
1 TTATTTATTA
98786559 TT-TTTATT-
1 TTATTTATTA
*
98786567 TTATTTTACT-
1 TTA-TTTATTA
98786577 TTA-TT-TTA
1 TTATTTATTA
98786585 TTATTTATTA
1 TTATTTATTA
98786595 TT
1 TT
98786597 TTATTTTTAG
Statistics
Matches: 80, Mismatches: 6, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
7 1 0.01
8 14 0.17
9 18 0.22
10 38 0.47
11 8 0.10
12 1 0.01
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTTATTA
Found at i:98786570 original size:5 final size:5
Alignment explanation
Indices: 98786560--98786603 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
98786550 TATTTATTAT
* *
98786560 TTTTA TTTTA TTTTA CTTTA TTTTA TTATT- TATTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTT
98786604 TAGATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 29 0.88
6 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:98786611 original size:15 final size:15
Alignment explanation
Indices: 98786518--98786611 Score: 67
Period size: 14 Copynumber: 6.5 Consensus size: 15
98786508 TTTACTTTTC
98786518 TTAAT-TTTTATTAT
1 TTAATATTTTATTAT
*
98786532 TTATTA-TTTATTAT
1 TTAATATTTTATTAT
*
98786546 TTATTA-TTTATTAT
1 TTAATATTTTATTAT
*
98786560 TT-TTATTTTA-T-T
1 TTAATATTTTATTAT
*
98786572 TTACTTTATTTTATTAT
1 TTA--ATATTTTATTAT
*
98786589 TTATTATTTTATT-T
1 TTAATATTTTATTAT
98786603 TTAGATATT
1 TTA-ATATT
98786612 AATAAATTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 15
0.80 0.02 0.17
Matches are distributed among these distances:
12 3 0.04
13 4 0.06
14 36 0.51
15 22 0.31
16 1 0.01
17 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.72
Consensus pattern (15 bp):
TTAATATTTTATTAT
Found at i:98788267 original size:13 final size:13
Alignment explanation
Indices: 98788239--98788273 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
98788229 ATTTAATGTT
*
98788239 TAATTATATCAGGA
1 TAATTAT-TAAGGA
98788253 TAATTATTAAGGA
1 TAATTATTAAGGA
98788266 TAATTATT
1 TAATTATT
98788274 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (13 bp):
TAATTATTAAGGA
Found at i:98788305 original size:10 final size:10
Alignment explanation
Indices: 98788290--98788341 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
98788280 TAAATTTAGG
98788290 ATTTATTTTT
1 ATTTATTTTT
*
98788300 ATTTATCTTT
1 ATTTATTTTT
* *
98788310 AATTATGTTT
1 ATTTATTTTT
*
98788320 ATTTATTTGT
1 ATTTATTTTT
98788330 ATTTATCTTTT
1 ATTTAT-TTTT
98788341 A
1 A
98788342 GAATTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
10 30 0.88
11 4 0.12
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:98796204 original size:9 final size:9
Alignment explanation
Indices: 98796192--98796300 Score: 57
Period size: 9 Copynumber: 11.7 Consensus size: 9
98796182 TTTGATTACA
98796192 TAAAAATAT
1 TAAAAATAT
98796201 TAAAAATAT
1 TAAAAATAT
*
98796210 ATTAAAA-A-
1 -TAAAAATAT
*
98796218 TACAAATAT
1 TAAAAATAT
98796227 TAAAAAT-T
1 TAAAAATAT
98796235 ATAAAAA-AT
1 -TAAAAATAT
*
98796244 GTAAAAATCT
1 -TAAAAATAT
98796254 CATAAAAATAT
1 --TAAAAATAT
*
98796265 TAAATA-AT
1 TAAAAATAT
*
98796273 TACAAAATTTT
1 TA-AAAA-TAT
98796284 GTAAAAATAT
1 -TAAAAATAT
98796294 TATAAAA
1 TA-AAAA
98796301 ACATGGAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.05
8 6 0.08
9 39 0.51
10 12 0.16
11 13 0.17
12 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATAT
Found at i:98796241 original size:25 final size:26
Alignment explanation
Indices: 98796195--98796243 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
98796185 GATTACATAA
*
98796195 AAATATTAAAAATATATTAAAAATAC
1 AAATATTAAAAATATATAAAAAATAC
98796221 AAATATTAAAAAT-TATAAAAAAT
1 AAATATTAAAAATATATAAAAAAT
98796244 GTAAAAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATATTAAAAATATATAAAAAATAC
Found at i:98796250 original size:18 final size:18
Alignment explanation
Indices: 98796192--98796279 Score: 67
Period size: 18 Copynumber: 4.8 Consensus size: 18
98796182 TTTGATTACA
98796192 TAAAAA-TATTAAAAATAT
1 TAAAAATTA-TAAAAATAT
* *
98796210 ATTAAAA--ATACAAATAT
1 -TAAAAATTATAAAAATAT
98796227 TAAAAATTATAAAAA-AT
1 TAAAAATTATAAAAATAT
98796244 GTAAAAATCTCATAAAAATAT
1 -TAAAAAT-T-ATAAAAATAT
*
98796265 TAAATAATTACAAAA
1 TAAA-AATTATAAAA
98796280 TTTTGTAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
16 5 0.09
17 10 0.18
18 14 0.25
19 11 0.19
20 12 0.21
21 5 0.09
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.30
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:98796268 original size:29 final size:29
Alignment explanation
Indices: 98796227--98796301 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
98796217 ATACAAATAT
98796227 TAAAAAT-TATAAAAAATGTA-AAAATCTCA
1 TAAAAATAT-TAAAAAAT-TACAAAATCTCA
* * **
98796256 TAAAAATATTAAATAATTACAAAATTTTG
1 TAAAAATATTAAAAAATTACAAAATCTCA
98796285 TAAAAATATTATAAAAA
1 TAAAAATATTA-AAAAA
98796302 CATGGAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 31 0.82
30 5 0.13
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (29 bp):
TAAAAATATTAAAAAATTACAAAATCTCA
Found at i:98796899 original size:32 final size:32
Alignment explanation
Indices: 98796858--98796923 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
98796848 CACCATCGTC
98796858 CCATGCAAATCCTCTACCTAGTCCATTGCTCA
1 CCATGCAAATCCTCTACCTAGTCCATTGCTCA
98796890 CCATGCAAATCCTCTACCTAGTCCATTGCTCA
1 CCATGCAAATCCTCTACCTAGTCCATTGCTCA
98796922 CC
1 CC
98796924 TTTACCTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.39, G:0.09, T:0.27
Consensus pattern (32 bp):
CCATGCAAATCCTCTACCTAGTCCATTGCTCA
Found at i:98798026 original size:16 final size:18
Alignment explanation
Indices: 98798005--98798042 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
98797995 GAATGTACAT
98798005 TATAAT-ATCATA-ATTA
1 TATAATAATCATATATTA
*
98798021 TATAATAATTATATATTA
1 TATAATAATCATATATTA
98798039 TATA
1 TATA
98798043 TTCGTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAATAATCATATATTA
Found at i:98801029 original size:20 final size:19
Alignment explanation
Indices: 98800965--98801032 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
98800955 TAATAATATC
98800965 ATATAATATATATTAAAA-A
1 ATATAATA-ATATTAAAAGA
* *
98800984 A-ATGAA-AATA-AAAAAGT
1 ATAT-AATAATATTAAAAGA
98801001 ATATAATAATATTAAAAGA
1 ATATAATAATATTAAAAGA
98801020 ATATACATAATAT
1 ATATA-ATAATAT
98801033 ATATAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
16 4 0.10
17 6 0.15
18 9 0.23
19 13 0.33
20 7 0.18
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (19 bp):
ATATAATAATATTAAAAGA
Found at i:98801073 original size:21 final size:22
Alignment explanation
Indices: 98801049--98801101 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
98801039 TATACAAAAC
*
98801049 AAAATATACGCATAATATA-TT
1 AAAATATACGCATAATATACAT
** *
98801070 AAAATATATACATAATGTACAT
1 AAAATATACGCATAATATACAT
98801092 AAAATATACG
1 AAAATATACG
98801102 TATATACGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (22 bp):
AAAATATACGCATAATATACAT
Found at i:98805803 original size:11 final size:11
Alignment explanation
Indices: 98805782--98805819 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
98805772 AATTTAGTGA
*
98805782 AAGAAAGAGAG
1 AAGAAAAAGAG
*
98805793 AAGAAGAAGAG
1 AAGAAAAAGAG
98805804 AAGAAAAAGA-
1 AAGAAAAAGAG
98805814 AAGAAA
1 AAGAAA
98805820 GAAAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:98805821 original size:14 final size:14
Alignment explanation
Indices: 98805781--98805823 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
98805771 GAATTTAGTG
*
98805781 AAAGAAAGAGAGAA
1 AAAGAAAGAAAGAA
*
98805795 GAAG-AAGAGAAGAA
1 AAAGAAAGA-AAGAA
98805809 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
98805823 A
1 A
98805824 GAAAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:98806311 original size:17 final size:17
Alignment explanation
Indices: 98806289--98806322 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98806279 TAATCCACCG
98806289 ATTGGTCCGACAAACCA
1 ATTGGTCCGACAAACCA
* *
98806306 ATTGGTCTGACGAACCA
1 ATTGGTCCGACAAACCA
98806323 GTAGCTTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (17 bp):
ATTGGTCCGACAAACCA
Found at i:98807610 original size:8 final size:7
Alignment explanation
Indices: 98807583--98807607 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
98807573 TATTGAAGGG
98807583 AAAACCA
1 AAAACCA
98807590 AAAACCA
1 AAAACCA
98807597 AAAACCA
1 AAAACCA
98807604 AAAA
1 AAAA
98807608 ACCTCTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACCA
Found at i:98809977 original size:97 final size:98
Alignment explanation
Indices: 98809806--98809998 Score: 271
Period size: 97 Copynumber: 2.0 Consensus size: 98
98809796 ATATAGCTTT
98809806 AAATGTTGAATTCATTTTGCCACATCCGTAATTAATGAATTAAAAATAGCTTGTAATCTATCTCT
1 AAATGTTGAATTCATTTTGCCACATCCGTAATTAATGAATTAAAAATAGCTTGTAATCTATCTCT
98809871 TTCTACTGTTTACTCTCAATCAGGTCAAATTAA
66 TTCTACTGTTTACTCTCAATCAGGTCAAATTAA
* * * ** * * *
98809904 AAATGTTGAATTCATTTTTCTACTTTTGTCA-TAATGAATTAAAAATAGTTTGTAATCTATCTTT
1 AAATGTTGAATTCATTTTGCCACATCCGTAATTAATGAATTAAAAATAGCTTGTAATCTATCTCT
* * **
98809968 TTCTCCTGTTTATTCTTGATCAGGTCAAATT
66 TTCTACTGTTTACTCTCAATCAGGTCAAATT
98809999 TTCAGAGCTC
Statistics
Matches: 83, Mismatches: 12, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
97 58 0.70
98 25 0.30
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (98 bp):
AAATGTTGAATTCATTTTGCCACATCCGTAATTAATGAATTAAAAATAGCTTGTAATCTATCTCT
TTCTACTGTTTACTCTCAATCAGGTCAAATTAA
Found at i:98814516 original size:2 final size:2
Alignment explanation
Indices: 98814509--98814541 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
98814499 CAAACATAGT
98814509 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
98814542 GTGTGTGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:98819014 original size:29 final size:29
Alignment explanation
Indices: 98818981--98819038 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
98818971 AAAATTTAAA
98818981 AGCCTATTATTTTCAATCAATAACATTAT
1 AGCCTATTATTTTCAATCAATAACATTAT
98819010 AGCCTATTATTTTCAATCAATAACATTAT
1 AGCCTATTATTTTCAATCAATAACATTAT
98819039 GGACTAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.41
Consensus pattern (29 bp):
AGCCTATTATTTTCAATCAATAACATTAT
Found at i:98820148 original size:30 final size:30
Alignment explanation
Indices: 98820112--98820178 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
98820102 CTAAAATGAC
*
98820112 TATTATATAAAAAGGTCTTTTAAGGTCTTA
1 TATTATATAAAAAGCTCTTTTAAGGTCTTA
98820142 TATTATATAAAAAGCTCTTTTAAGGTCTTA
1 TATTATATAAAAAGCTCTTTTAAGGTCTTA
98820172 TATTATA
1 TATTATA
98820179 CATATAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (30 bp):
TATTATATAAAAAGCTCTTTTAAGGTCTTA
Found at i:98835239 original size:16 final size:16
Alignment explanation
Indices: 98835218--98835252 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
98835208 TTGATCCATT
98835218 TCAGAAGCCGGTTTCA
1 TCAGAAGCCGGTTTCA
*
98835234 TCAGAAGTCGGTTTCA
1 TCAGAAGCCGGTTTCA
98835250 TCA
1 TCA
98835253 TCAAGACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (16 bp):
TCAGAAGCCGGTTTCA
Found at i:98835458 original size:14 final size:15
Alignment explanation
Indices: 98835439--98835468 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
98835429 ATATTTGACT
98835439 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
98835453 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
98835468 T
1 T
98835469 TTTGATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:98843377 original size:54 final size:52
Alignment explanation
Indices: 98843301--98843473 Score: 199
Period size: 54 Copynumber: 3.2 Consensus size: 52
98843291 TAATTCTCAA
*
98843301 CTGCATTATTGATGTTAAAAAAAGAAAGTTGAAAGATGGATTACTAATTTTGAT
1 CTGCATTATTGTTGTT-AAAAAAGAAAGTTGAAAG-TGGATTACTAATTTTGAT
* * * *
98843355 TTGCATTATTGTTGTTAGAAAAAAAAAGTTGAAAGT--ATTACTCATTTTTCAT
1 CTGCATTATTGTTGTTA-AAAAAGAAAGTTGAAAGTGGATTACT-AATTTTGAT
* *
98843407 CCT-CATTATTGTTATTAATAAAAGAAAGTTGAAAGGTGGATTACTCATTTTGAT
1 -CTGCATTATTGTTGTTAA-AAAAGAAAGTTGAAA-GTGGATTACTAATTTTGAT
98843461 CTGCATTATTGTT
1 CTGCATTATTGTT
98843474 AATAAAACAC
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
51 7 0.07
52 34 0.34
53 7 0.07
54 46 0.46
55 6 0.06
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (52 bp):
CTGCATTATTGTTGTTAAAAAAGAAAGTTGAAAGTGGATTACTAATTTTGAT
Found at i:98843435 original size:52 final size:51
Alignment explanation
Indices: 98843301--98843493 Score: 194
Period size: 54 Copynumber: 3.7 Consensus size: 51
98843291 TAATTCTCAA
* * *
98843301 CTGCATTATTGATGTTAAAAAAAGAAAGTTGAAAGATGGATTACTAATTTTGAT
1 CTGCATTATTGTTATT-AAAAAAGAAAGTTGAAAG-T-GATTACTCATTTTGAT
* * * *
98843355 TTGCATTATTGTTGTTAGAAAAAAAAAGTTGAAAGT-ATTACTCATTTTTCAT
1 CTGCATTATTGTTATTA-AAAAAGAAAGTTGAAAGTGATTACTCA-TTTTGAT
98843407 CCT-CATTATTGTTATTAATAAAAGAAAGTTGAAAGGTGGATTACTCATTTTGAT
1 -CTGCATTATTGTTATTAA-AAAAGAAAGTTGAAA-GT-GATTACTCATTTTGAT
* * *
98843461 CTGCATTATTGTTAATAAAACA-CAAGTTGAAAG
1 CTGCATTATTGTTATTAAAAAAGAAAGTTGAAAG
98843494 CTACTTCTTT
Statistics
Matches: 119, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
51 9 0.08
52 42 0.35
53 10 0.08
54 50 0.42
55 8 0.07
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.37
Consensus pattern (51 bp):
CTGCATTATTGTTATTAAAAAAGAAAGTTGAAAGTGATTACTCATTTTGAT
Found at i:98846756 original size:7 final size:7
Alignment explanation
Indices: 98846744--98846798 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
98846734 AACATAAAAG
98846744 AAAAGAT
1 AAAAGAT
98846751 AAAAG--
1 AAAAGAT
98846756 AAAAGAT
1 AAAAGAT
98846763 AAAAGA-
1 AAAAGAT
*
98846769 AAAGTGA-
1 AAA-AGAT
98846776 AAAAGAT
1 AAAAGAT
98846783 AAAA-AT
1 AAAAGAT
98846789 AAAA-AT
1 AAAAGAT
98846795 AAAA
1 AAAA
98846799 TAAATGGACT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.12
6 17 0.40
7 20 0.48
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (7 bp):
AAAAGAT
Found at i:98846778 original size:12 final size:12
Alignment explanation
Indices: 98846737--98846772 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
98846727 TAAAATAAAC
98846737 ATAAAAGAAAAG
1 ATAAAAGAAAAG
98846749 ATAAAAGAAAAG
1 ATAAAAGAAAAG
98846761 ATAAAAGAAAAG
1 ATAAAAGAAAAG
98846773 TGAAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (12 bp):
ATAAAAGAAAAG
Found at i:98846796 original size:12 final size:12
Alignment explanation
Indices: 98846727--98846802 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 12
98846717 GGTAAGTCTG
*
98846727 TAAAAT-AAACA
1 TAAAATAAAAGA
*
98846738 TAAAAGAAAAGA
1 TAAAATAAAAGA
*
98846750 TAAAAGAAAAGA
1 TAAAATAAAAGA
*
98846762 TAAAAGAAAAG-
1 TAAAATAAAAGA
*
98846773 T--GA-AAAAGA
1 TAAAATAAAAGA
98846782 TAAAAATAAAA-A
1 T-AAAATAAAAGA
98846794 TAAAATAAA
1 TAAAATAAA
98846803 TGGACTCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
8 5 0.09
9 2 0.04
11 14 0.25
12 30 0.55
13 4 0.07
ACGTcount: A:0.75, C:0.01, G:0.11, T:0.13
Consensus pattern (12 bp):
TAAAATAAAAGA
Found at i:98848337 original size:18 final size:19
Alignment explanation
Indices: 98848316--98848358 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
98848306 GGAAAGGAAG
*
98848316 AAGAGAGG-GGAAGAAAAA
1 AAGAGAGGAGAAAGAAAAA
*
98848334 AAGAAAGGAGAAAGAAAAA
1 AAGAGAGGAGAAAGAAAAA
98848353 AAGAGA
1 AAGAGA
98848359 AAGGGGAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AAGAGAGGAGAAAGAAAAA
Found at i:98848337 original size:21 final size:21
Alignment explanation
Indices: 98848313--98848366 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
98848303 GGTGGAAAGG
98848313 AAGAAGAGAGGGGAAGAAAAA
1 AAGAAGAGAGGGGAAGAAAAA
* *
98848334 AAGAA-AG-GAGAAAGAAAAA
1 AAGAAGAGAGGGGAAGAAAAA
*
98848353 AAG-AGAAAGGGGAA
1 AAGAAGAGAGGGGAA
98848367 AGGGAAGGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 1 0.04
19 14 0.54
20 6 0.23
21 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (21 bp):
AAGAAGAGAGGGGAAGAAAAA
Found at i:98848367 original size:21 final size:19
Alignment explanation
Indices: 98848316--98848368 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
98848306 GGAAAGGAAG
*
98848316 AAGAGAGGGG-AAGAAAAA
1 AAGAAAGGGGAAAGAAAAA
*
98848334 AAGAAAGGAGAAAGAAAAAA
1 AAGAAAGGGGAAAG-AAAAA
98848354 AGAGAAAGGGGAAAG
1 A-AGAAAGGGGAAAG
98848369 GGAAGGTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.28
19 3 0.10
20 6 0.21
21 12 0.41
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AAGAAAGGGGAAAGAAAAA
Found at i:98851800 original size:28 final size:30
Alignment explanation
Indices: 98851742--98851802 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
98851732 TGCCAGAAGC
* *
98851742 AAACAAAAGAAAAATTAGTAATTAAAATAA
1 AAACAAAAGAAAAATTAGCAATAAAAATAA
*
98851772 AAACAAAA-TAAAATT-GCAATAAAAATAA
1 AAACAAAAGAAAAATTAGCAATAAAAATAA
98851800 AAA
1 AAA
98851803 AATGGCTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 14 0.50
29 6 0.21
30 8 0.29
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (30 bp):
AAACAAAAGAAAAATTAGCAATAAAAATAA
Found at i:98857730 original size:13 final size:13
Alignment explanation
Indices: 98857712--98857789 Score: 68
Period size: 13 Copynumber: 5.9 Consensus size: 13
98857702 TGTAATTTAA
98857712 GGTTTAAGGTTTG
1 GGTTTAAGGTTTG
*
98857725 GGTTTAAGTTTTG
1 GGTTTAAGGTTTG
* *
98857738 GGTTTGAGGTTTAA
1 GGTTTAAGGTTT-G
* *
98857752 TGTTT-AGGTTTAT
1 GGTTTAAGGTTT-G
* *
98857765 GGTTTAATGTTTT
1 GGTTTAAGGTTTG
98857778 GGTTTAAGGTTT
1 GGTTTAAGGTTT
98857790 AAGGGTTCAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
13 45 0.83
14 9 0.17
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (13 bp):
GGTTTAAGGTTTG
Found at i:98857732 original size:20 final size:20
Alignment explanation
Indices: 98857707--98857793 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
98857697 GGGTCTGTAA
*
98857707 TTTAAGGTTTAAGGTTT-GGG
1 TTTAAGGTTT-AGGTTTAAGG
* * *
98857727 TTTAAGTTTTGGGTTTGAGG
1 TTTAAGGTTTAGGTTTAAGG
* *
98857747 TTTAATGTTTAGGTTTATGG
1 TTTAAGGTTTAGGTTTAAGG
* *
98857767 TTTAATGTTTTGGTTTAAGG
1 TTTAAGGTTTAGGTTTAAGG
98857787 TTTAAGG
1 TTTAAGG
98857794 GTTCATGGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.09
20 50 0.91
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.51
Consensus pattern (20 bp):
TTTAAGGTTTAGGTTTAAGG
Found at i:98857735 original size:6 final size:7
Alignment explanation
Indices: 98857707--98857793 Score: 74
Period size: 7 Copynumber: 13.0 Consensus size: 7
98857697 GGGTCTGTAA
98857707 TTTAAGG
1 TTTAAGG
98857714 TTTAAGG
1 TTTAAGG
*
98857721 TTT-GGG
1 TTTAAGG
98857727 TTTAA-G
1 TTTAAGG
**
98857733 TTTTGGG
1 TTTAAGG
*
98857740 TTTGAGG
1 TTTAAGG
*
98857747 TTTAATG
1 TTTAAGG
98857754 TTT-AGG
1 TTTAAGG
*
98857760 TTTATGG
1 TTTAAGG
*
98857767 TTTAATG
1 TTTAAGG
*
98857774 TTT-TGG
1 TTTAAGG
98857780 TTTAAGG
1 TTTAAGG
98857787 TTTAAGG
1 TTTAAGG
98857794 GTTCATGGTT
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
6 18 0.30
7 43 0.70
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.51
Consensus pattern (7 bp):
TTTAAGG
Found at i:98857837 original size:20 final size:20
Alignment explanation
Indices: 98857707--98857826 Score: 61
Period size: 20 Copynumber: 5.8 Consensus size: 20
98857697 GGGTCTGTAA
* *
98857707 TTTAAGGTTTAAGGTTT-GGG
1 TTTAAGG-TTATGGTTTATGG
*
98857727 TTTAA-GTTTTGGGTTTGA-GG
1 TTTAAGGTTAT-GGTTT-ATGG
*
98857747 TTTAATGTT-TAGGTTTATGG
1 TTTAAGGTTAT-GGTTTATGG
* * *
98857767 TTTAATGTTTTGGTTTAAGG
1 TTTAAGGTTATGGTTTATGG
98857787 TTTAAGGGTTCATGG-TTATGAG
1 TTTAA-GGTT-ATGGTTTATG-G
*
98857809 TTTGAGGTTTATGGTTTA
1 TTTAAGG-TTATGGTTTA
98857827 AGTTCATGGT
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
18 2 0.02
19 7 0.09
20 42 0.52
21 17 0.21
22 13 0.16
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (20 bp):
TTTAAGGTTATGGTTTATGG
Found at i:98857998 original size:14 final size:13
Alignment explanation
Indices: 98857962--98858030 Score: 68
Period size: 14 Copynumber: 5.2 Consensus size: 13
98857952 ATGTTTTGGG
*
98857962 TTTAGGGTTAAGA
1 TTTAGGTTTAAGA
98857975 TTTTAGGTTTAAGA
1 -TTTAGGTTTAAGA
*
98857989 TTTAGGGTTTAGGA
1 TTTA-GGTTTAAGA
* *
98858003 TTATTGGTTTGAG-
1 TT-TAGGTTTAAGA
98858016 TTTAGGTTTAAGA
1 TTTAGGTTTAAGA
98858029 TT
1 TT
98858031 CAAGATTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.18
13 8 0.18
14 28 0.62
15 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.48
Consensus pattern (13 bp):
TTTAGGTTTAAGA
Found at i:98857999 original size:20 final size:19
Alignment explanation
Indices: 98857976--98858030 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
98857966 GGGTTAAGAT
*
98857976 TTTAGGTTTAAGATTTAGGG
1 TTTAGGTTTAAGATTT-GAG
* * *
98857996 TTTAGGATTATTGGTTTGAG
1 TTTAGGTTTA-AGATTTGAG
98858016 TTTAGGTTTAAGATT
1 TTTAGGTTTAAGATT
98858031 CAAGATTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.11
20 20 0.74
21 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (19 bp):
TTTAGGTTTAAGATTTGAG
Found at i:98858077 original size:21 final size:22
Alignment explanation
Indices: 98858053--98858109 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
98858043 TTTAATGTCT
98858053 TGGCTTAGT-GTTTA-GGTTTTA
1 TGGCTTA-TAGTTTATGGTTTTA
98858074 TGGCTTATAGTTTATGG-TTTA
1 TGGCTTATAGTTTATGGTTTTA
* *
98858095 AGGTTTATAGTTTAT
1 TGGCTTATAGTTTAT
98858110 ATGTTCGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.53
Consensus pattern (22 bp):
TGGCTTATAGTTTATGGTTTTA
Found at i:98858240 original size:7 final size:7
Alignment explanation
Indices: 98858230--98858266 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
98858220 AGATTTTAGA
*
98858230 TTTAGGG
1 TTTATGG
98858237 TTTATGG
1 TTTATGG
98858244 TTTATGG
1 TTTATGG
98858251 TTTATGG
1 TTTATGG
98858258 TTTATGG
1 TTTATGG
98858265 TT
1 TT
98858267 CAAGATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (7 bp):
TTTATGG
Found at i:98858254 original size:21 final size:21
Alignment explanation
Indices: 98858196--98858308 Score: 70
Period size: 21 Copynumber: 5.4 Consensus size: 21
98858186 GGTTTGAGCT
* *
98858196 TTTATGTTTTAT-GTTTAGCG
1 TTTATGGTTTATGGTTTAGGG
* * *
98858216 TTTAAGATTT-TAGATTTAGGG
1 TTTATGGTTTAT-GGTTTAGGG
*
98858237 TTTATGGTTTATGGTTTATGG
1 TTTATGGTTTATGGTTTAGGG
* * *
98858258 TTTATGGTTCAAGATTTTA-GG
1 TTTATGGTTTATG-GTTTAGGG
* * *
98858279 TTTATAGTTCATGGTTTAGTG
1 TTTATGGTTTATGGTTTAGGG
*
98858300 TTTAGGGTT
1 TTTATGGTT
98858309 CAAGATTCAA
Statistics
Matches: 71, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
19 1 0.01
20 12 0.17
21 53 0.75
22 5 0.07
ACGTcount: A:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (21 bp):
TTTATGGTTTATGGTTTAGGG
Found at i:98858273 original size:42 final size:41
Alignment explanation
Indices: 98858227--98858315 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 41
98858217 TTAAGATTTT
* * *
98858227 AGATTTAGGGTTTATGGTTTATGGTTTA-TGGTTTATGGTTCA
1 AGATTTA-GGTTTATAGTTCATGGTTTAGT-GTTTAGGGTTCA
98858269 AGATTTTAGGTTTATAGTTCATGGTTTAGTGTTTAGGGTTCA
1 AGA-TTTAGGTTTATAGTTCATGGTTTAGTGTTTAGGGTTCA
98858311 AGATT
1 AGATT
98858316 CAATGTTATG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.05
42 35 0.83
43 5 0.12
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.48
Consensus pattern (41 bp):
AGATTTAGGTTTATAGTTCATGGTTTAGTGTTTAGGGTTCA
Found at i:98858363 original size:14 final size:13
Alignment explanation
Indices: 98858333--98858411 Score: 63
Period size: 14 Copynumber: 5.8 Consensus size: 13
98858323 ATGGGTTCAA
98858333 GTTTAA-GTTTAT
1 GTTTAAGGTTTAT
98858345 GTTTAAGGTTTAGT
1 GTTTAAGGTTTA-T
*
98858359 GTTTAGGGTTTAAT
1 GTTTAAGGTTT-AT
98858373 GTTT-AGAGTTTAT
1 GTTTAAG-GTTTAT
* *
98858386 GATTTTAGGTTTTTT
1 G-TTTAAGG-TTTAT
*
98858401 GTTTATGGTTT
1 GTTTAAGGTTT
98858412 GAGATTCTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
12 6 0.11
13 12 0.22
14 29 0.53
15 8 0.15
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (13 bp):
GTTTAAGGTTTAT
Found at i:98858370 original size:21 final size:21
Alignment explanation
Indices: 98858291--98858411 Score: 70
Period size: 21 Copynumber: 5.9 Consensus size: 21
98858281 TATAGTTCAT
*
98858291 GGTTTAGTGTTTAGGGTTCAA
1 GGTTTAGTGTTTAGGGTTTAA
* * * *
98858312 GATTCAATG-TTATGGGTTCAA
1 GGTTTAGTGTTTA-GGGTTTAA
* *
98858333 -GTTTA-AGTTTA-TGTTTAA
1 GGTTTAGTGTTTAGGGTTTAA
98858351 GGTTTAGTGTTTAGGGTTTAA
1 GGTTTAGTGTTTAGGGTTTAA
* * * * *
98858372 TGTTTAGAGTTTATGATTTTA
1 GGTTTAGTGTTTAGGGTTTAA
** *
98858393 GGTTTTTTGTTTATGGTTT
1 GGTTTAGTGTTTAGGGTTT
98858412 GAGATTCTAG
Statistics
Matches: 75, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
18 5 0.07
19 6 0.08
20 14 0.19
21 50 0.67
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (21 bp):
GGTTTAGTGTTTAGGGTTTAA
Found at i:98858807 original size:35 final size:34
Alignment explanation
Indices: 98858768--98858856 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 34
98858758 TAAGGTTTAG
98858768 GGTTTAAAGTTTAAGATTCTA-GATTTAGGGTTCAT
1 GGTTTAAAGTTTAAGATT-TACGATTTAGGGTT-AT
* * *
98858803 GGTTTAAGGTTTATGATTTACTATTTAGGGTTAT
1 GGTTTAAAGTTTAAGATTTACGATTTAGGGTTAT
* *
98858837 GTGTTT-TAGTTTAAGGTTTA
1 G-GTTTAAAGTTTAAGATTTA
98858857 GTGTTTACGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 15 0.33
35 30 0.67
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (34 bp):
GGTTTAAAGTTTAAGATTTACGATTTAGGGTTAT
Found at i:98858820 original size:28 final size:27
Alignment explanation
Indices: 98858749--98858822 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
98858739 TGATTTAATA
* * *
98858749 TTTAAGTTTTAAGGTTTAGGGTTTAAAG
1 TTTAAGATTT-AGATTTAGGGTTCAAAG
**
98858777 TTTAAGATTCTAGATTTAGGGTTCATGG
1 TTTAAGATT-TAGATTTAGGGTTCAAAG
*
98858805 TTTAAGGTTTATGATTTA
1 TTTAAGATTTA-GATTTA
98858823 CTATTTAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 2 0.05
28 35 0.92
29 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.23, T:0.47
Consensus pattern (27 bp):
TTTAAGATTTAGATTTAGGGTTCAAAG
Found at i:98858860 original size:20 final size:20
Alignment explanation
Indices: 98858804--98858862 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
98858794 AGGGTTCATG
*
98858804 GTTTAAGGTTTA-TGATTTA
1 GTTTAAGGTTTAGTGTTTTA
* * *
98858823 CTATTTAGGGTTATGTGTTTTA
1 GT-TTAAGGTTTA-GTGTTTTA
98858845 GTTTAAGGTTTAGTGTTT
1 GTTTAAGGTTTAGTGTTT
98858863 ACGATTATGA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
19 1 0.03
20 14 0.47
21 8 0.27
22 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (20 bp):
GTTTAAGGTTTAGTGTTTTA
Found at i:98859484 original size:20 final size:21
Alignment explanation
Indices: 98859452--98859490 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
98859442 CCCCAAACCC
98859452 TTGAACCATAAA-CCTAAATT
1 TTGAACCATAAACCCTAAATT
98859472 TTGAATCCA-AAACCCTAAA
1 TTGAA-CCATAAACCCTAAA
98859491 CCTCAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.26
Consensus pattern (21 bp):
TTGAACCATAAACCCTAAATT
Found at i:98864093 original size:26 final size:24
Alignment explanation
Indices: 98864058--98864106 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
98864048 CAATTTAAAT
98864058 TCAGTTAAATT-TACTAAAAACTCAA
1 TCAGTTAAATTAT-C-AAAAACTCAA
98864083 TCAGTTTAAATTATCAAAAACTCA
1 TCAG-TTAAATTATCAAAAACTCA
98864107 CCATAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 13 0.59
26 8 0.36
27 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (24 bp):
TCAGTTAAATTATCAAAAACTCAA
Found at i:98867366 original size:10 final size:10
Alignment explanation
Indices: 98867347--98867427 Score: 85
Period size: 10 Copynumber: 7.9 Consensus size: 10
98867337 TTAAATTCTA
98867347 AAAGATAAAT
1 AAAGATAAAT
98867357 ACAA-ATAAAT
1 A-AAGATAAAT
*
98867367 AAAGATAATT
1 AAAGATAAAT
98867377 AAAGATAAAT
1 AAAGATAAAT
98867387 -AAGAATAAAT
1 AAAG-ATAAAT
98867397 AAAGATAAAAGT
1 AAAGAT-AAA-T
* *
98867409 TAGGATAAAT
1 AAAGATAAAT
98867419 AAAGATAAA
1 AAAGATAAA
98867428 AGCTAAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
9 5 0.08
10 38 0.64
11 11 0.19
12 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.11, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:98867381 original size:30 final size:30
Alignment explanation
Indices: 98867347--98867404 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
98867337 TTAAATTCTA
98867347 AAAGATAAATACA-AATAAATAAAGATAATT
1 AAAGATAAATA-AGAATAAATAAAGATAATT
98867377 AAAGATAAATAAGAATAAATAAAGATAA
1 AAAGATAAATAAGAATAAATAAAGATAA
98867405 AAGTTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAGAATAAATAAAGATAATT
Found at i:98867458 original size:13 final size:13
Alignment explanation
Indices: 98867442--98867477 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
98867432 AAAATTAAAA
98867442 CTTAATAATAATC
1 CTTAATAATAATC
98867455 CTTAATAATAATC
1 CTTAATAATAATC
98867468 C-TAAT-ATAAT
1 CTTAATAATAAT
98867478 TGGAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 5 0.22
12 4 0.17
13 14 0.61
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
CTTAATAATAATC
Done.