Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 317 of 356
Found at i:102672281 original size:15 final size:15
Alignment explanation
Indices: 102672261--102672317 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
102672251 ATTCAATATT
102672261 AATATTTTAATAATA
1 AATATTTTAATAATA
*
102672276 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
102672295 AATATATTAATAATA
1 AATATTTTAATAATA
102672310 AATATTTT
1 AATATTTT
102672318 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:102673172 original size:21 final size:22
Alignment explanation
Indices: 102673140--102673181 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
102673130 AAACATAATT
*
102673140 ATATTAAAAATATTATTAAATA
1 ATATTAAAAATATGATTAAATA
102673162 ATATT-AAAATATGATTAAAT
1 ATATTAAAAATATGATTAAAT
102673182 TATTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATTAAAAATATGATTAAATA
Found at i:102673427 original size:15 final size:15
Alignment explanation
Indices: 102673407--102673436 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
102673397 TATTCTATTC
102673407 TAATGAACTAGACGT
1 TAATGAACTAGACGT
102673422 TAATGAACTAGACGT
1 TAATGAACTAGACGT
102673437 GGTATAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
TAATGAACTAGACGT
Found at i:102675956 original size:21 final size:21
Alignment explanation
Indices: 102675930--102675984 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
102675920 AACAGCGGTG
*
102675930 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGGTACTATA
* *
102675951 GCGGTGAGATTAGGTATTGTA
1 GCGGTGAGATTAGGTACTATA
*
102675972 GCAGTGAGATTAG
1 GCGGTGAGATTAG
102675985 AAATAGCGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTATA
Found at i:102676223 original size:22 final size:20
Alignment explanation
Indices: 102676198--102676239 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
102676188 TTTCCTTTAG
*
102676198 CCATCAACGTTTTCTATTTTTT
1 CCATCAAAGTTTT-T-TTTTTT
102676220 CCATCAAAGTTTTTTTTTTT
1 CCATCAAAGTTTTTTTTTTT
102676240 ACTTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.19, C:0.19, G:0.05, T:0.57
Consensus pattern (20 bp):
CCATCAAAGTTTTTTTTTTT
Found at i:102679618 original size:39 final size:39
Alignment explanation
Indices: 102679570--102679649 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
102679560 ATGGATCTTT
*
102679570 TTTTTTTGCCAAAATTTATTTTTTGAACTTATATTTTTA
1 TTTTTTTGCCAAAACTTATTTTTTGAACTTATATTTTTA
*
102679609 TTTTTTTGCCTAAACTTATTTTTTGAACTTATATTTTTA
1 TTTTTTTGCCAAAACTTATTTTTTGAACTTATATTTTTA
102679648 TT
1 TT
102679650 CAAATCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.09, G:0.05, T:0.62
Consensus pattern (39 bp):
TTTTTTTGCCAAAACTTATTTTTTGAACTTATATTTTTA
Found at i:102680290 original size:22 final size:19
Alignment explanation
Indices: 102680240--102680277 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
102680230 TGTTGTTTTC
*
102680240 TCATTATTTTGTTGCTATT
1 TCATTATTATGTTGCTATT
102680259 TCATTATTATGTTGCTATT
1 TCATTATTATGTTGCTATT
102680278 ATTTCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (19 bp):
TCATTATTATGTTGCTATT
Found at i:102680302 original size:22 final size:21
Alignment explanation
Indices: 102680240--102680302 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
102680230 TGTTGTTTTC
*
102680240 TCATTATT-TTGTT-GCTATT
1 TCATTATTATTGTTGGATATT
*
102680259 TCATTATTA-TGTTGCTATTATT
1 TCATTATTATTGTTG-GA-TATT
102680281 TCATTATTATTGTTTGGATATT
1 TCATTATTATTG-TTGGATATT
102680303 ATATAACTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
19 12 0.34
22 17 0.49
23 3 0.09
24 3 0.09
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.60
Consensus pattern (21 bp):
TCATTATTATTGTTGGATATT
Found at i:102685032 original size:15 final size:14
Alignment explanation
Indices: 102685012--102685046 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
102685002 CGGCTTAAGG
102685012 TTTTTTCTTTTCTTT
1 TTTTTTCTTTT-TTT
102685027 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
102685041 TATTTT
1 T-TTTT
102685047 ATTATTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:102696466 original size:44 final size:44
Alignment explanation
Indices: 102696315--102696883 Score: 708
Period size: 44 Copynumber: 13.2 Consensus size: 44
102696305 TCCTTGAAAT
*
102696315 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
*
102696359 AGAT----GATTTGGCATCTCTGTAGCGGC-GAAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGA
* *
102696399 AGAT---A-ATTTGGCATCTCTGTAGCGGCAGAAAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
* * *
102696439 AGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
* * *
102696483 AGATAACAGATTTGGCATCTCTGTAGCAGCAGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
*
102696527 AGATAACAAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
* *
102696572 AGAT----GATTTGGCATCTCTGTAGCGGCAGAGAGCAAATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
* * *
102696612 AAATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
* **
102696656 AGATAACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
102696700 AGATAACAAGATTTGGCGTCTCTGTAGCGGC-GAAGAGCAGATCGA
1 AGATAAC-AGATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGA
* *
102696745 AGAT----GATTTGGCGTCTCTGTAGCGGTAGAGAGTAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
** **
102696785 AGATAACAGATTTGGCGTCTCCATAATGGC-GAAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAG-AGAGCAGATCGA
* *
102696829 AGATAACAGACTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGA
1 AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
*
102696873 AAATAACAGAT
1 AGATAACAGAT
102696884 CGGTGTTCCT
Statistics
Matches: 457, Mismatches: 47, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
39 1 0.00
40 145 0.32
41 2 0.00
43 2 0.00
44 232 0.51
45 75 0.16
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (44 bp):
AGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGA
Found at i:102696599 original size:173 final size:173
Alignment explanation
Indices: 102696315--102696880 Score: 890
Period size: 173 Copynumber: 3.3 Consensus size: 173
102696305 TCCTTGAAAT
* * *
102696315 AGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-----GATTTGGCATCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAAGATTTGGCGTCT
* *
102696375 CTGTAGCGGCGAAGAGCAGATCGAAGATAATTTGGCATCTCTGTAGCGGCAGAAAGCAGATCGAA
66 CTGTAGCGGCGAAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
102696440 GATAACAGATTTGGCGTCTCTATAGCGGCGGAGAACAGATCGA
131 GATAACAGATTTGGCGTCTCTATAGCGGCGGAGAACAGATCGA
* *
102696483 AGATAACAGATTTGGCATCTCTGTAGCAGCAGAGAGCAAATCGAAGATAACAAGATTTGGCGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAAGATTTGGCGTCT
* *
102696548 CTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAAATCGAA
66 CTGTAGCGGCGAAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
* *
102696613 AATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAACAGATCGA
131 GATAACAGATTTGGCGTCTCTATAGCGGCGGAGAACAGATCGA
**
102696656 AGATAACAGATTTGGCATCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACAAGATTTGGCGTCT
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAAGATTTGGCGTCT
* * *
102696721 CTGTAGCGGCGAAGAGCAGATCGAAGATGATTTGGCGTCTCTGTAGCGGTAGAGAGTAGATCGAA
66 CTGTAGCGGCGAAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
* ** * *
102696786 GATAACAGATTTGGCGTCTCCATAATGGCGAAGAGCAGATCGA
131 GATAACAGATTTGGCGTCTCTATAGCGGCGGAGAACAGATCGA
* *
102696829 AGATAACAGACTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAAATAACA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
102696881 GATCGGTGTT
Statistics
Matches: 362, Mismatches: 31, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
168 44 0.12
173 318 0.88
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (173 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAAGATTTGGCGTCT
CTGTAGCGGCGAAGAGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAA
GATAACAGATTTGGCGTCTCTATAGCGGCGGAGAACAGATCGA
Found at i:102698457 original size:24 final size:24
Alignment explanation
Indices: 102698420--102698482 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
102698410 TCATGTACAC
*
102698420 ATTATT-TATATTATTTTCA-TGATT
1 ATTATTGTAT-TTATTTTCACT-ACT
* *
102698444 ATTATTGTGTTTATTTTTACTACT
1 ATTATTGTATTTATTTTCACTACT
102698468 ATTATTGTATTTATT
1 ATTATTGTATTTATT
102698483 ATTAGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.63
Consensus pattern (24 bp):
ATTATTGTATTTATTTTCACTACT
Found at i:102698497 original size:24 final size:24
Alignment explanation
Indices: 102698441--102698497 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
102698431 TATTTTCATG
* *
102698441 ATTATTATTGTGTTTATTTTTACT
1 ATTATTATTGTATTTATTATTACT
* *
102698465 ACTATTATTGTATTTATTATTAGT
1 ATTATTATTGTATTTATTATTACT
*
102698489 ATTAGTATT
1 ATTATTATT
102698498 ATAATTACTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (24 bp):
ATTATTATTGTATTTATTATTACT
Found at i:102698628 original size:14 final size:14
Alignment explanation
Indices: 102698606--102698635 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
102698596 TATTTTTAAC
102698606 ATATATATGTATAT
1 ATATATATGTATAT
*
102698620 ATATGTATGTATAT
1 ATATATATGTATAT
102698634 AT
1 AT
102698636 TTATGAAGTA
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:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:102698722 original size:23 final size:23
Alignment explanation
Indices: 102698696--102698772 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 23
102698686 AATGTGTATG
102698696 TATTATATATATTTTTA-ATACTA
1 TATTATATATATTTTTATATA-TA
102698719 TATTATGTATATATTATATTATATATA
1 TATTA--TATATATT-T-TTATATATA
*
102698746 TAGTTAT-TATATTTTTTTATATA
1 TA-TTATATATATTTTTATATATA
102698769 TATT
1 TATT
102698773 TTTAATATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
22 2 0.04
23 15 0.32
24 1 0.02
25 14 0.30
26 2 0.04
27 7 0.15
28 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (23 bp):
TATTATATATATTTTTATATATA
Found at i:102698736 original size:16 final size:16
Alignment explanation
Indices: 102698692--102698752 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
102698682 TTCTAATGTG
102698692 TATGTAT-TATATATAT
1 TATGTATATAT-TATAT
* *
102698708 T-TTTA-ATACTATAT
1 TATGTATATATTATAT
102698722 TATGTATATATTATAT
1 TATGTATATATTATAT
*
102698738 TATATATATAGTTAT
1 TATGTATATA-TTAT
102698753 TATATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.17
15 8 0.22
16 18 0.50
17 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (16 bp):
TATGTATATATTATAT
Found at i:102698747 original size:27 final size:25
Alignment explanation
Indices: 102698701--102698771 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
102698691 GTATGTATTA
102698701 TATATATTTTTA-ATACTATA-TTAT
1 TATATATTTTTATATA-TATAGTTAT
102698725 GTATATATTATATTATATATATAGTTAT
1 -TATATATT-T-TTATATATATAGTTAT
*
102698753 TATATTTTTTTATATATAT
1 TATATATTTTTATATATAT
102698772 TTTTAATATC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 18 0.44
26 2 0.05
27 14 0.34
28 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATATTTTTATATATATAGTTAT
Found at i:102698770 original size:25 final size:25
Alignment explanation
Indices: 102698696--102698771 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 25
102698686 AATGTGTATG
102698696 TATTATATATATTTTTA-ATACTATAT
1 TATTATATAT-TTTTTATATA-TATAT
*
102698722 TATGTATATATTATATTATATATATAGT
1 TAT-TATATATT-TTTTATATATATA-T
102698750 TATTATAT-TTTTTTATATATAT
1 TATTATATATTTTTTATATATAT
102698772 TTTTAATATC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 11 0.25
26 6 0.14
27 20 0.45
28 7 0.16
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (25 bp):
TATTATATATTTTTTATATATATAT
Found at i:102698979 original size:3 final size:3
Alignment explanation
Indices: 102698971--102699009 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
102698961 TTCTACGTTG
*
102698971 TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
102699010 CATTGTTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:102699541 original size:133 final size:133
Alignment explanation
Indices: 102699315--102699555 Score: 374
Period size: 133 Copynumber: 1.8 Consensus size: 133
102699305 AACGGAGACG
* * *
102699315 ATGTTCGATGTTTAGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTTGTTTGC
1 ATGTTCGACGTTCAGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGC
* * * * *
102699380 CCAAAATAATCGGATGTCTCTTTAGAATTTCGTTCATGTTTTCTAAAAACTTTTTAAAAACGAAG
66 CCAAAATAATCGAATATCCCTTTAGAATTTCATTCACGTTTTCTAAAAACTTTTTAAAAACGAAG
102699445 GAA
131 GAA
* *
102699448 ATGTTCGACGTTCGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGT
1 ATGTTCGACGTTCAGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGC
* *
102699513 GCAAAATAATCGAATATCCCTTTGGAATTTCATTCACGTTTTC
66 CCAAAATAATCGAATATCCCTTTAGAATTTCATTCACGTTTTC
102699556 CAAAGCGAGA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 96 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (133 bp):
ATGTTCGACGTTCAGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGC
CCAAAATAATCGAATATCCCTTTAGAATTTCATTCACGTTTTCTAAAAACTTTTTAAAAACGAAG
GAA
Found at i:102710694 original size:22 final size:22
Alignment explanation
Indices: 102710669--102710712 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
102710659 ATATGAATAT
*
102710669 AAATATATATATATAGTTGAAA
1 AAATATAAATATATAGTTGAAA
102710691 AAATATAAATATATAGTTGAAA
1 AAATATAAATATATAGTTGAAA
102710713 GGAATGTTGG
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:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
AAATATAAATATATAGTTGAAA
Found at i:102715224 original size:29 final size:29
Alignment explanation
Indices: 102715189--102715303 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 29
102715179 ATTATTGCTA
*
102715189 TCATTATTATGTTTCTATTTATATTTATT
1 TCATTATTATATTTCTATTTATATTTATT
* * * * *
102715218 TCGTTATTCTAATACTA-TTATTATTTATC
1 TCATTATTATATTTCTATTTA-TATTTATT
* *
102715247 TAATTATTAT-TTATCTATTTATATTT-CT
1 TCATTATTATATT-TCTATTTATATTTATT
* *
102715275 ACTATTATTATATTTCTATTTCTATTTAT
1 TC-ATTATTATATTTCTATTTATATTTAT
102715304 ATACTAATAT
Statistics
Matches: 63, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
28 4 0.06
29 54 0.86
30 5 0.08
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (29 bp):
TCATTATTATATTTCTATTTATATTTATT
Found at i:102715254 original size:15 final size:15
Alignment explanation
Indices: 102715234--102715285 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
102715224 TTCTAATACT
102715234 ATTATTATTTATCTA
1 ATTATTATTTATCTA
102715249 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
102715264 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
102715278 ATTATTAT
1 ATTATTAT
102715286 ATTTCTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.28
15 23 0.72
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:102715483 original size:25 final size:25
Alignment explanation
Indices: 102715436--102715484 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
102715426 CTCATTTCAA
*
102715436 ATTTTCATACATTATTTTCTTTAAT
1 ATTTTCATACATTATTATCTTTAAT
*
102715461 ATTTTCATATATTATGTAT-TTTAA
1 ATTTTCATACATTAT-TATCTTTAA
102715485 ACCTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (25 bp):
ATTTTCATACATTATTATCTTTAAT
Found at i:102715805 original size:17 final size:18
Alignment explanation
Indices: 102715783--102715816 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102715773 AAAAGGTCGT
*
102715783 GTTTTAACATCG-TTTAA
1 GTTTTAAAATCGATTTAA
102715800 GTTTTAAAATCGATTTA
1 GTTTTAAAATCGATTTA
102715817 TTCAAAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (18 bp):
GTTTTAAAATCGATTTAA
Found at i:102725345 original size:35 final size:35
Alignment explanation
Indices: 102725300--102725370 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
102725290 CCAATTTATC
*
102725300 TTTTTTTTAATAAATAAAATAAAATGCAATCTAAT
1 TTTTTTTTAATAAATAAAATAAAATGCAATCCAAT
102725335 TTTTTTTTAATAAATAAAATAAAATGCAATCCAAT
1 TTTTTTTTAATAAATAAAATAAAATGCAATCCAAT
102725370 T
1 T
102725371 CTTAATAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (35 bp):
TTTTTTTTAATAAATAAAATAAAATGCAATCCAAT
Found at i:102728061 original size:24 final size:24
Alignment explanation
Indices: 102728034--102728084 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
102728024 AACAGATGGA
*
102728034 AAACCAGAAACTAAACAAGAATCT
1 AAACCAGAAACCAAACAAGAATCT
* *
102728058 AAACCAGAAGCCAAGCAAGAATCT
1 AAACCAGAAACCAAACAAGAATCT
102728082 AAA
1 AAA
102728085 GAAGTTGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.10
Consensus pattern (24 bp):
AAACCAGAAACCAAACAAGAATCT
Found at i:102734048 original size:14 final size:14
Alignment explanation
Indices: 102734029--102734058 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
102734019 TTTTTCCTAA
102734029 TTTAGTACCTAAAC
1 TTTAGTACCTAAAC
*
102734043 TTTAGTACCTGAAC
1 TTTAGTACCTAAAC
102734057 TT
1 TT
102734059 GACATTTTTT
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:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (14 bp):
TTTAGTACCTAAAC
Found at i:102734159 original size:60 final size:60
Alignment explanation
Indices: 102734043--102734276 Score: 249
Period size: 60 Copynumber: 3.9 Consensus size: 60
102734033 GTACCTAAAC
* * *
102734043 TTTAGTACCTGAACTTGACA-TTTTTTCCTAATTTGATACTTATA-TTTTTTTGAGCCCAA
1 TTTAGTACCTAAACTTGACACTTTTTT-CTAATTTGATACCTAAACTTTTTTTGAGCCCAA
* * *
102734102 TTTAGTACCTAAACTTAACACTTTTTTTTAATTTAATACCTAAACTTTTTTTGAGCCCAA
1 TTTAGTACCTAAACTTGACACTTTTTTCTAATTTGATACCTAAACTTTTTTTGAGCCCAA
* * * * *
102734162 TTTGGCACCTGAACTTGACACTTTTTCCTAATTTGATACCTAAACCTTTTTTG-GACCCAA
1 TTTAGTACCTAAACTTGACACTTTTTTCTAATTTGATACCTAAACTTTTTTTGAG-CCCAA
* * * * * *
102734222 TTTGGTACCTAAACTTGGCATTTTTCTTTTCTAATTTGGTATCTAAGCTTTTTTT
1 TTTAGTACCTAAACTTGACA--CTT-TTTTCTAATTTGATACCTAAACTTTTTTT
102734277 TAGGTTCAAT
Statistics
Matches: 146, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
59 32 0.22
60 88 0.60
62 2 0.01
63 24 0.16
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (60 bp):
TTTAGTACCTAAACTTGACACTTTTTTCTAATTTGATACCTAAACTTTTTTTGAGCCCAA
Found at i:102735748 original size:24 final size:23
Alignment explanation
Indices: 102735710--102735777 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
102735700 TTAATTTCAA
* *
102735710 AATATTTATACAAATTTTAAAATT
1 AATATTTAAAAAAATTTTAAAA-T
* *
102735734 TATATTTAAAAAAATTCT-AAAT
1 AATATTTAAAAAAATTTTAAAAT
* *
102735756 AATATATAAAGAAATTTTAAAA
1 AATATTTAAAAAAATTTTAAAA
102735778 ATTTTCTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 15 0.43
23 6 0.17
24 14 0.40
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (23 bp):
AATATTTAAAAAAATTTTAAAAT
Found at i:102739105 original size:40 final size:40
Alignment explanation
Indices: 102739050--102739129 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
102739040 CAACTTGAAT
*
102739050 CTTCTCTAGATAAAATACTAATTCCCAATTCTAGAAAGAA
1 CTTCTCTAGATAAAATACTAATTCCCAATACTAGAAAGAA
*
102739090 CTTCTCTAGATAAAATACTAATTTCCAATACTAGAAAGAA
1 CTTCTCTAGATAAAATACTAATTCCCAATACTAGAAAGAA
102739130 TCAAACAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (40 bp):
CTTCTCTAGATAAAATACTAATTCCCAATACTAGAAAGAA
Found at i:102740200 original size:78 final size:78
Alignment explanation
Indices: 102740065--102740217 Score: 234
Period size: 78 Copynumber: 2.0 Consensus size: 78
102740055 ATAAGTGTCG
* * * * * *
102740065 ATTTCAATTATGGAATAAAGTTTAGGTACTCGTTTCGACCAAAAAAATGTTTTGGTACATAACTC
1 ATTTCAATTATAGAATAAAGTTTAGGCACCCATTTCGACCAAAAAAATATTTAGGTACATAACTC
102740130 AAACAAATGGTCA
66 AAACAAATGGTCA
* *
102740143 ATTTCAATTATAGAATAAAGTTTAGGCACCCATTTTGACCAAAAAAATATTTAGGTACCTAACTC
1 ATTTCAATTATAGAATAAAGTTTAGGCACCCATTTCGACCAAAAAAATATTTAGGTACATAACTC
102740208 AAACAAATGG
66 AAACAAATGG
102740218 CATAGTTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (78 bp):
ATTTCAATTATAGAATAAAGTTTAGGCACCCATTTCGACCAAAAAAATATTTAGGTACATAACTC
AAACAAATGGTCA
Found at i:102740447 original size:30 final size:31
Alignment explanation
Indices: 102740411--102740477 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
102740401 GGCCTTAATG
* * **
102740411 TAAATATTCAAAATTTATAGGGTCAAAA-TA
1 TAAATATGCAAAATTTAAAGGACCAAAAGTA
*
102740441 TAAATATGGAAAATTTAAAGGACCAAAAGTA
1 TAAATATGCAAAATTTAAAGGACCAAAAGTA
102740472 TAAATA
1 TAAATA
102740478 CCTCAGATGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (31 bp):
TAAATATGCAAAATTTAAAGGACCAAAAGTA
Found at i:102743326 original size:25 final size:25
Alignment explanation
Indices: 102743295--102743342 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
102743285 AAGTTGCTGT
*
102743295 GCAAAATTTGTTTCTAATTTACTGG
1 GCAAAATCTGTTTCTAATTTACTGG
102743320 GCAAAATCTGTTTCTAATTTACT
1 GCAAAATCTGTTTCTAATTTACT
102743343 TTGAAGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (25 bp):
GCAAAATCTGTTTCTAATTTACTGG
Found at i:102751342 original size:10 final size:10
Alignment explanation
Indices: 102751327--102751375 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
102751317 AATTTTAGCT
102751327 TTTATCTTTA
1 TTTATCTTTA
*
102751337 TTTATCCTTA
1 TTTATCTTTA
*
102751347 ATTATCTTTA
1 TTTATCTTTA
102751357 TTTAT-TTGTA
1 TTTATCTT-TA
102751367 TTTATCTTT
1 TTTATCTTT
102751376 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:102753257 original size:13 final size:14
Alignment explanation
Indices: 102753241--102753276 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
102753231 CAATCTCATA
102753241 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
102753254 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
102753267 TCTC-ATTTCA
1 TCTCAATTTCA
102753277 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:102753266 original size:18 final size:19
Alignment explanation
Indices: 102753228--102753268 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
102753218 TGGTTCATGT
102753228 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
102753247 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
102753265 TTTC
1 TTTC
102753269 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:102753788 original size:18 final size:18
Alignment explanation
Indices: 102753765--102753802 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
102753755 TTTCAATTCA
102753765 ATTCAAATAAT-AATATAT
1 ATTC-AATAATCAATATAT
*
102753783 ATTCAATATTCAATATAT
1 ATTCAATAATCAATATAT
102753801 AT
1 AT
102753803 ATCTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTCAATAATCAATATAT
Found at i:102755128 original size:5 final size:5
Alignment explanation
Indices: 102755118--102755174 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
102755108 TTACTTATTT
* *
102755118 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
102755166 ATAT- ATATA
1 ATATA ATATA
102755175 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:102755134 original size:12 final size:12
Alignment explanation
Indices: 102755117--102755172 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
102755107 TTTACTTATT
102755117 TATATAATATAA
1 TATATAATATAA
102755129 TATATAATATAATA
1 TATATAATAT-A-A
102755143 TACTATAATATAA
1 TA-TATAATATAA
*
102755156 TA-ATAATTTAA
1 TATATAATATAA
102755167 TATATA
1 TATATA
102755173 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:102755187 original size:26 final size:26
Alignment explanation
Indices: 102755119--102755174 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
102755109 TACTTATTTA
*
102755119 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
102755146 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
102755171 TATA
1 TATA
102755175 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:102756981 original size:16 final size:16
Alignment explanation
Indices: 102756935--102756981 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
102756925 GTTTGGCTCA
*
102756935 TTGTAATGGAATAGGG
1 TTGTAATGGAATAGAG
* * *
102756951 TTGGAATTGAGTAGAG
1 TTGTAATGGAATAGAG
102756967 TTGTAATGGAATAGA
1 TTGTAATGGAATAGA
102756982 ACTGTAATCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (16 bp):
TTGTAATGGAATAGAG
Found at i:102757022 original size:46 final size:44
Alignment explanation
Indices: 102756971--102757059 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
102756961 GTAGAGTTGT
102756971 AATGGAATAGAACTGTAATCAATAATTCAAT-TGTTTGGTTAAATGA
1 AATGGAATAGAACTGTAAT-AA-AATTC-ATGTGTTTGGTTAAATGA
* * *
102757017 AATGGAATAGAGCTGTAATAAAATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAACTGTAATAAAATTCATGTGTTTGGTTAAATG
102757060 GAATAGATGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 2 0.05
46 18 0.46
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAAAATTCATGTGTTTGGTTAAATGA
Found at i:102757165 original size:25 final size:26
Alignment explanation
Indices: 102757136--102757186 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
102757126 ATAAATAGAT
*
102757136 GATTATTGTT-ATTAAATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
*
102757161 GATTATTGTTAAATATATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
102757187 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
GATTATTGTTAAATAAATTTTAATAA
Found at i:102757265 original size:12 final size:11
Alignment explanation
Indices: 102757233--102757321 Score: 57
Period size: 12 Copynumber: 8.2 Consensus size: 11
102757223 ATTATTATTA
102757233 AATAA-AATTT
1 AATAATAATTT
102757243 AATAA-AA--T
1 AATAATAATTT
102757251 AATATATAATTT
1 AATA-ATAATTT
* *
102757263 AATAACATTCTT
1 AATAATAAT-TT
102757275 AAT-ATAATTATT
1 AATAATAA-T-TT
102757287 AATAAT-ATTT
1 AATAATAATTT
102757297 AATAATAATTTT
1 AATAATAA-TTT
102757309 AAT-ATAATATT
1 AATAATAAT-TT
102757320 AA
1 AA
102757322 CATTTTATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
8 5 0.08
9 1 0.02
10 18 0.28
11 15 0.23
12 23 0.36
13 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
AATAATAATTT
Found at i:102757311 original size:34 final size:35
Alignment explanation
Indices: 102757250--102757321 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
102757240 TTTAATAAAA
*
102757250 TAATATATAATTTAATAACATTCTTAATATAATTAT
1 TAATATATAATTTAATAAAATTCTTAATATAA-TAT
102757286 TAATA-AT-ATTTAATAATAATT-TTAATATAATAT
1 TAATATATAATTTAATAA-AATTCTTAATATAATAT
102757319 TAA
1 TAA
102757322 CATTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
33 6 0.18
34 18 0.53
35 5 0.15
36 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (35 bp):
TAATATATAATTTAATAAAATTCTTAATATAATAT
Found at i:102759104 original size:35 final size:35
Alignment explanation
Indices: 102759010--102759108 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 35
102759000 GGAATGTTGG
*
102759010 GGGTCTATACCTAACATTGAGATTTCTACTTGTAT
1 GGGTCTGTACCTAACATTGAGATTTCTACTTGTAT
*
102759045 AGGT-TG---C-AAGC--TGAGATTTCTACTTGTAT
1 GGGTCTGTACCTAA-CATTGAGATTTCTACTTGTAT
*
102759074 GGGTCTGTACCTAACATTGAGATTTTTACTTGTAT
1 GGGTCTGTACCTAACATTGAGATTTCTACTTGTAT
102759109 AGGTACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
29 21 0.40
30 4 0.08
31 2 0.04
33 2 0.04
34 3 0.06
35 20 0.38
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (35 bp):
GGGTCTGTACCTAACATTGAGATTTCTACTTGTAT
Found at i:102760896 original size:5 final size:5
Alignment explanation
Indices: 102760882--102760938 Score: 69
Period size: 5 Copynumber: 11.4 Consensus size: 5
102760872 TTAGATAAAC
* * * * *
102760882 ATCTA TTCTA ATCTA TTCTC TTCTA ATCTA ATCTA GTCTA ATCTA ATCTA
1 ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA ATCTA
102760932 ATCTA AT
1 ATCTA AT
102760939 GATTGTAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.46
Consensus pattern (5 bp):
ATCTA
Found at i:102760907 original size:15 final size:15
Alignment explanation
Indices: 102760882--102760938 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
102760872 TTAGATAAAC
102760882 ATCTATTCTAATCTA
1 ATCTATTCTAATCTA
* *
102760897 TTCTCTTCTAATCTA
1 ATCTATTCTAATCTA
*
102760912 ATCTAGTCTAATCTA
1 ATCTATTCTAATCTA
*
102760927 ATCTAATCTAAT
1 ATCTATTCTAAT
102760939 GATTGTAGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.46
Consensus pattern (15 bp):
ATCTATTCTAATCTA
Found at i:102763735 original size:32 final size:32
Alignment explanation
Indices: 102763699--102763821 Score: 201
Period size: 32 Copynumber: 3.8 Consensus size: 32
102763689 ACTATACTAT
*
102763699 TTTTTTATATGTAAAACTAATGTATGATGTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
** *
102763731 TTTTTTATATGCCAAACTAATGTATGATCAAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
*
102763763 TTTTTTATATGTAAATCTAATGTATGATCTAC
1 TTTTTTATATGTAAAACTAATGTATGATCTAC
102763795 TTTTTTATATGTAAAACTAATGTATGA
1 TTTTTTATATGTAAAACTAATGTATGA
102763822 GATTTTTTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 82 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (32 bp):
TTTTTTATATGTAAAACTAATGTATGATCTAC
Found at i:102765811 original size:7 final size:7
Alignment explanation
Indices: 102765795--102765901 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
102765785 AATAAATGAA
*
102765795 ATAATTT
1 ATAATAT
102765802 ATAATAT
1 ATAATAT
102765809 ATAATAT
1 ATAATAT
*
102765816 A-AAAAT
1 ATAATAT
* *
102765822 GTAAGTTT
1 ATAA-TAT
*
102765830 TTAA-A-
1 ATAATAT
*
102765835 ATAATGT
1 ATAATAT
102765842 ATAATAT
1 ATAATAT
*
102765849 A-AATAA
1 ATAATAT
102765855 ATAAATAT
1 AT-AATAT
102765863 ATAAGATAT
1 AT-A-ATAT
102765872 ATAAGT-T
1 ATAA-TAT
102765879 A-AA-AT
1 ATAATAT
102765884 ATAATAT
1 ATAATAT
102765891 ATAATA-
1 ATAATAT
102765897 ATAAT
1 ATAAT
102765902 TTACAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:102765865 original size:21 final size:21
Alignment explanation
Indices: 102765833--102765897 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
102765823 TAAGTTTTTA
*
102765833 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
102765853 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
102765874 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
102765896 AA
1 AA
102765898 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:102765866 original size:28 final size:29
Alignment explanation
Indices: 102765835--102765895 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
102765825 AGTTTTTAAA
102765835 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
102765863 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
102765891 ATAAT
1 ATAAT
102765896 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:102765939 original size:12 final size:12
Alignment explanation
Indices: 102765917--102765950 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
102765907 AATTTTGAAA
102765917 ATATA-AATAAT
1 ATATATAATAAT
102765928 ATATATAATAAT
1 ATATATAATAAT
102765940 ATATATAATAA
1 ATATATAATAA
102765951 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:102766005 original size:17 final size:17
Alignment explanation
Indices: 102765949--102766006 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
102765939 TATATATAAT
* *
102765949 AAATTAAAAATAAGTTTA
1 AAATTAAAAAAAAG-TTG
*
102765967 AAATATATAAAAAAAGGGTG
1 AAAT-TA-AAAAAAA-GTTG
102765987 AAATTAAAAAAAAGTTG
1 AAATTAAAAAAAAGTTG
102766004 AAA
1 AAA
102766007 AACTAAGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 6 0.18
18 11 0.33
19 4 0.12
20 11 0.33
21 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
AAATTAAAAAAAAGTTG
Found at i:102766302 original size:17 final size:18
Alignment explanation
Indices: 102766249--102766320 Score: 103
Period size: 19 Copynumber: 3.9 Consensus size: 18
102766239 AATCATATCT
102766249 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
102766268 TCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATA
102766286 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
102766303 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
102766321 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 17 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:102766307 original size:35 final size:37
Alignment explanation
Indices: 102766242--102766320 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
102766232 ATTACAAAAT
102766242 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
102766278 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
102766313 CATATCAT
1 CATATCAT
102766321 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:102766318 original size:14 final size:15
Alignment explanation
Indices: 102766263--102766318 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
102766253 AGATTGTATA
102766263 TCATATCTAAGATTG
1 TCATATCTAAGATTG
102766278 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
102766296 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
102766313 -CATATC
1 TCATATC
102766319 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:102767063 original size:122 final size:121
Alignment explanation
Indices: 102766928--102767151 Score: 394
Period size: 122 Copynumber: 1.8 Consensus size: 121
102766918 GGAGTCTGTT
* * **
102766928 TGAGAACATCTGAGAGTCAAATCTACTATTTCCTCGATTTGTTTCTTGTAAACACAAGAATGTCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
102766993 AATCATCTTGGATCTAGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
66 AATCATCTTGGATCT-GCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
*
102767050 TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
1 TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
102767115 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG
66 AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG
102767152 TTTATAAATC
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
121 22 0.23
122 75 0.77
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (121 bp):
TGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCA
AATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATGTGTC
Found at i:102767720 original size:3 final size:3
Alignment explanation
Indices: 102767712--102767743 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
102767702 AAATATGATT
102767712 TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA T
102767744 GTAATCATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:102767897 original size:11 final size:11
Alignment explanation
Indices: 102767797--102767898 Score: 59
Period size: 11 Copynumber: 8.8 Consensus size: 11
102767787 AAAAAAATAT
102767797 TATATAATAAA
1 TATATAATAAA
*
102767808 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
102767820 TATATAAGAAA
1 TATATAATAAA
102767831 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
102767845 TATAAAATAACA
1 TATATAATAA-A
*
102767857 TGTA-AA-ACAA
1 TATATAATA-AA
102767867 TATATATATAAA
1 TATATA-ATAAA
102767879 TA-ATTAATAAA
1 TATA-TAATAAA
102767890 TATATAATA
1 TATATAATA
102767899 TATGTGAGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
10 8 0.11
11 26 0.37
12 24 0.34
13 8 0.11
14 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:102767924 original size:35 final size:35
Alignment explanation
Indices: 102767887--102767965 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
102767877 AATAATTAAT
102767887 AAATATATAATATATGTGAGAATATAATAATATATAA
1 AAATA-ATAATA-ATGTGAGAATATAATAATATATAA
* *
102767924 AAATAATAATAATTTGAGGA-A-AATAATATATAA
1 AAATAATAATAATGTGAGAATATAATAATATATAA
* *
102767957 TAGTAATAA
1 AAATAATAA
102767966 AAATAACACT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 19 0.50
34 1 0.03
35 7 0.18
36 6 0.16
37 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (35 bp):
AAATAATAATAATGTGAGAATATAATAATATATAA
Found at i:102767950 original size:36 final size:36
Alignment explanation
Indices: 102767887--102767955 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
102767877 AATAATTAAT
*
102767887 AAATATATAATATATGTGAGAATATAATAATATATAA
1 AAATATATAATATATGTGAGAAAATAAT-ATATATAA
*
102767924 AAATA-ATAATA-ATTTGAGGAAAATAATATATA
1 AAATATATAATATATGTGA-GAAAATAATATATA
102767956 ATAGTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.34
36 14 0.48
37 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (36 bp):
AAATATATAATATATGTGAGAAAATAATATATATAA
Found at i:102769697 original size:83 final size:83
Alignment explanation
Indices: 102769474--102770250 Score: 1304
Period size: 83 Copynumber: 9.3 Consensus size: 83
102769464 TTCGATTTGT
* * * * *
102769474 AAGGATGTCAAATCATCTTGAGTCTGTCTGAAAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
102769539 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
102769557 AAGGATGCTTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTG
1 AAGGATGC-CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
102769622 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
* *
102769641 AAGGATGCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCTTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
102769706 TTTGTTCGTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
102769724 AAGGATCCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
102769789 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
102769807 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
102769872 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
102769890 AAGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCTA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
102769955 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
102769973 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
102770038 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
102770056 AAGGATGCCAAACCATCCTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGTAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
102770121 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* *
102770139 AAGGATGCCAAACCATCTTGAGTCTGTTGGATAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
102770204 TTTGTTCCTTGTAAACAC
66 TTTGTTCCTTGTAAGCAC
* ** *
102770222 AAGAATATCAAATCATCTTG-GATCTGTTT
1 AAGGATGCCAAACCATCTTGAG-TCTGTTT
102770251 CAGTATAAAC
Statistics
Matches: 656, Mismatches: 36, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
82 1 0.00
83 579 0.88
84 76 0.12
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:102770394 original size:119 final size:119
Alignment explanation
Indices: 102770177--102770396 Score: 325
Period size: 119 Copynumber: 1.8 Consensus size: 119
102770167 GGATAACATT
* *
102770177 TGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATATCAAATCATCTTG
1 TGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
* *
102770242 GATCTGTTTCAGTATAAACATCTGAATGTTAGATCTACTATATTTGAGAACGTC
66 GATCTGCTTCAGCATAAACATCTGAATGTTAGATCTACTATATTTGAGAACGTC
* * * * *
102770296 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAATACAAGAATACCAAATTATGTTG
1 TGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
**
102770361 GATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCT
66 GATCTGCTTCAGCATAAACATCTGAATGT-TAGATCT
102770397 GCTGTCTTCA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
118 2 0.02
119 87 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (119 bp):
TGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
GATCTGCTTCAGCATAAACATCTGAATGTTAGATCTACTATATTTGAGAACGTC
Found at i:102782460 original size:11 final size:11
Alignment explanation
Indices: 102782359--102782460 Score: 57
Period size: 12 Copynumber: 8.8 Consensus size: 11
102782349 AAAAAAATAT
102782359 TATATAATAAA
1 TATATAATAAA
*
102782370 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
102782382 TATATAAGAAA
1 TATATAATAAA
102782393 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
102782407 TATAAAAT-AA
1 TATATAATAAA
* * *
102782417 CATGTAACACAA
1 TATATAATA-AA
102782429 TATATATATAAA
1 TATATA-ATAAA
102782441 TA-ATGAATAAA
1 TATAT-AATAAA
102782452 TATATAATA
1 TATATAATA
102782461 TATGTGAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 22
0.67 0.12 0.22
Matches are distributed among these distances:
10 9 0.13
11 21 0.31
12 24 0.35
13 9 0.13
14 5 0.07
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (11 bp):
TATATAATAAA
Found at i:102782486 original size:35 final size:35
Alignment explanation
Indices: 102782449--102782527 Score: 90
Period size: 33 Copynumber: 2.3 Consensus size: 35
102782439 AATAATGAAT
102782449 AAATATATAATATATGTGAGAATATAATAATATATAA
1 AAATA-ATAATA-ATGTGAGAATATAATAATATATAA
* *
102782486 AAATAATAATAATTTGAGGA-A-AATAATATATAA
1 AAATAATAATAATGTGAGAATATAATAATATATAA
* *
102782519 TAGTAATAA
1 AAATAATAA
102782528 AAATAACACT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 19 0.50
34 1 0.03
35 7 0.18
36 6 0.16
37 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (35 bp):
AAATAATAATAATGTGAGAATATAATAATATATAA
Found at i:102782512 original size:36 final size:36
Alignment explanation
Indices: 102782449--102782517 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
102782439 AATAATGAAT
*
102782449 AAATATATAATATATGTGAGAATATAATAATATATAA
1 AAATATATAATATATGTGAGAAAATAAT-ATATATAA
*
102782486 AAATA-ATAATA-ATTTGAGGAAAATAATATATA
1 AAATATATAATATATGTGA-GAAAATAATATATA
102782518 ATAGTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.34
36 14 0.48
37 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (36 bp):
AAATATATAATATATGTGAGAAAATAATATATATAA
Found at i:102785207 original size:21 final size:21
Alignment explanation
Indices: 102785183--102785233 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
102785173 CATTGTTTCT
* * *
102785183 AATCTCACCGTTACATTATCC
1 AATCTCACCGCTACAGTAACC
*
102785204 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
102785225 AATCTCACC
1 AATCTCACC
102785234 ACCACCGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.27
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:102788735 original size:16 final size:16
Alignment explanation
Indices: 102788714--102788757 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
102788704 TTAAAAATTC
102788714 TATATAAAAATTA-AT
1 TATATAAAAATTATAT
*
102788729 TGTTATAAAAA-TATAT
1 T-ATATAAAAATTATAT
102788745 TATATAAAAATTA
1 TATATAAAAATTA
102788758 CTAATTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
TATATAAAAATTATAT
Found at i:102791727 original size:356 final size:356
Alignment explanation
Indices: 102791074--102791792 Score: 1393
Period size: 356 Copynumber: 2.0 Consensus size: 356
102791064 ACGTTATAGA
102791074 TCTGTTTTTAGCAACTCATAGAACAACTTGTTTTGAAATGTAAAACATTTCACATCATCAGGTGA
1 TCTGTTTTTAGCAACTCATAGAACAACTTGTTTTGAAATGTAAAACATTTCACATCATCAGGTGA
*
102791139 TTATATCCTAACGTTTGCAATTCAGATAGCCATATCTTATAGCAAGTTTGTGTCATCTGTTTTTG
66 TTATATCCTAACATTTGCAATTCAGATAGCCATATCTTATAGCAAGTTTGTGTCATCTGTTTTTG
*
102791204 TTGCATCAATTCTTCTTCTAATACCAATCATGTGCTATAAGATAGCTATCTGAATTTCCATTGAA
131 TTGCATCAATTCTTCTTCTAATACCAATCATGTGCTATAAGATAGCTATCTGAATTTCCAATGAA
102791269 CTATTAGGATTTTAGAAGTTTATGAAACTTAACCCAAAATGTGTACAAAATTTTGACCAGTTCGG
196 CTATTAGGATTTTAGAAGTTTATGAAACTTAACCCAAAATGTGTACAAAATTTTGACCAGTTCGG
102791334 CTGGGACAAAGCAAAATGCACAAATATGAAAATTACTGATTGCTTTTATCAGTCTTACCCACTTG
261 CTGGGACAAAGCAAAATGCACAAATATGAAAATTACTGATTGCTTTTATCAGTCTTACCCACTTG
*
102791399 CTAAATGCCATTGTCACGATAAGCAAAAATG
326 CTAAATGCCATTGTCACAATAAGCAAAAATG
102791430 TCTGTTTTTAGCAACTCATAGAACAACTTGTTTTGAAATGTAAAACATTTCACATCATCAGGTGA
1 TCTGTTTTTAGCAACTCATAGAACAACTTGTTTTGAAATGTAAAACATTTCACATCATCAGGTGA
*
102791495 TTATATCCTAACATTTGCAATTCGGATAGCCATATCTTATAGCAAGTTTGTGTCATCTGTTTTTG
66 TTATATCCTAACATTTGCAATTCAGATAGCCATATCTTATAGCAAGTTTGTGTCATCTGTTTTTG
*
102791560 TTGCATCAATTCTTCTTCTAATACCAATCATTTGCTATAAGATAGCTATCTGAATTTCCAATGAA
131 TTGCATCAATTCTTCTTCTAATACCAATCATGTGCTATAAGATAGCTATCTGAATTTCCAATGAA
102791625 CTATTAGGATTTTAGAAGTTTATGAAACTTAACCCAAAATGTGTACAAAATTTTGACCAGTTCGG
196 CTATTAGGATTTTAGAAGTTTATGAAACTTAACCCAAAATGTGTACAAAATTTTGACCAGTTCGG
102791690 CTGGGACAAAGCAAAATGCACAAATATGAAAATTACTGATTGCTTTTATCAGTCTTACCCACTTG
261 CTGGGACAAAGCAAAATGCACAAATATGAAAATTACTGATTGCTTTTATCAGTCTTACCCACTTG
102791755 CTAAATGCCATTGTCACAATAAGCAAAAATG
326 CTAAATGCCATTGTCACAATAAGCAAAAATG
102791786 TCTGTTT
1 TCTGTTT
102791793 GATCTTTAAT
Statistics
Matches: 358, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
356 358 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (356 bp):
TCTGTTTTTAGCAACTCATAGAACAACTTGTTTTGAAATGTAAAACATTTCACATCATCAGGTGA
TTATATCCTAACATTTGCAATTCAGATAGCCATATCTTATAGCAAGTTTGTGTCATCTGTTTTTG
TTGCATCAATTCTTCTTCTAATACCAATCATGTGCTATAAGATAGCTATCTGAATTTCCAATGAA
CTATTAGGATTTTAGAAGTTTATGAAACTTAACCCAAAATGTGTACAAAATTTTGACCAGTTCGG
CTGGGACAAAGCAAAATGCACAAATATGAAAATTACTGATTGCTTTTATCAGTCTTACCCACTTG
CTAAATGCCATTGTCACAATAAGCAAAAATG
Found at i:102796113 original size:75 final size:75
Alignment explanation
Indices: 102796027--102796175 Score: 205
Period size: 75 Copynumber: 2.0 Consensus size: 75
102796017 CTGACACGGT
* * *
102796027 AGCTATTGTTTTGTTTTACT-TCT-GGGGAATTAAATTAAGAGAGAAACTTT-GAGAAGTGAAAC
1 AGCTATCGTTTTATTTTACTGT-TGGGGGAATTAAATTAAAAGAGAAA-TTTGGA-AAGTGAAAC
102796089 AAATTGACACATC
63 AAATTGACACATC
* *
102796102 AGCTATCGTTTTATTTTACTGTTGGGGGAATTAAGTTAAAAGAGAAATTTGGAAAGTGAAACTAA
1 AGCTATCGTTTTATTTTACTGTTGGGGGAATTAAATTAAAAGAGAAATTTGGAAAGTGAAACAAA
102796167 TTGACACAT
66 TTGACACAT
102796176 TTTGTCTATT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
75 42 0.64
76 24 0.36
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (75 bp):
AGCTATCGTTTTATTTTACTGTTGGGGGAATTAAATTAAAAGAGAAATTTGGAAAGTGAAACAAA
TTGACACATC
Found at i:102800137 original size:37 final size:37
Alignment explanation
Indices: 102800086--102800160 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 37
102800076 TGTGGTGGAT
*
102800086 ACAAGCTTGAAAATTAAGTTC-AATAAAATTAAGTCAA
1 ACAAGCTTGAAAATTAAG-TCGAATAAAAATAAGTCAA
*
102800123 ACAAGCTTGGAAATTAAGTCGAATAAAAATAAGTCAA
1 ACAAGCTTGAAAATTAAGTCGAATAAAAATAAGTCAA
102800160 A
1 A
102800161 TATTTGCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (37 bp):
ACAAGCTTGAAAATTAAGTCGAATAAAAATAAGTCAA
Found at i:102803809 original size:20 final size:20
Alignment explanation
Indices: 102803772--102803809 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
102803762 CTCTCTATTC
*
102803772 TTTAAAAATATTGGTTTTTT
1 TTTAAAAATATTGATTTTTT
102803792 TTTAAAACATATT-ATTTT
1 TTTAAAA-ATATTGATTTT
102803810 ATAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTAAAAATATTGATTTTTT
Found at i:102806519 original size:21 final size:21
Alignment explanation
Indices: 102806495--102806534 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
102806485 AATTATTTTT
102806495 TTCAAAATAAAAATACTGAAA
1 TTCAAAATAAAAATACTGAAA
* * *
102806516 TTCAATATAATATTACTGA
1 TTCAAAATAAAAATACTGA
102806535 TGTTATATTA
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:0.53, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
TTCAAAATAAAAATACTGAAA
Found at i:102808544 original size:15 final size:16
Alignment explanation
Indices: 102808516--102808545 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
102808506 TTCTAAATAC
102808516 CGATTGAGTATTAGTT
1 CGATTGAGTATTAGTT
102808532 CGATTGA-TATTAGT
1 CGATTGAGTATTAGT
102808546 ATTATTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (16 bp):
CGATTGAGTATTAGTT
Found at i:102814820 original size:16 final size:17
Alignment explanation
Indices: 102814788--102814820 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
102814778 TTTATAAGTA
*
102814788 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
102814805 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
102814821 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:102815166 original size:46 final size:47
Alignment explanation
Indices: 102815106--102815330 Score: 271
Period size: 46 Copynumber: 4.9 Consensus size: 47
102815096 TTTGACATGA
* * * * *
102815106 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* * * * *
102815152 TGCCATGATATCTTTCAACCATTGTCTTATTC-TTCTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* * *
102815198 TGTCATGGTATCTTTCAACCATGGTCTTATTC-GTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
* *
102815244 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
*
102815290 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATAT
102815331 TAGAGAGCAC
Statistics
Matches: 159, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 4 0.03
46 155 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATATCACGT
Found at i:102820279 original size:23 final size:23
Alignment explanation
Indices: 102820225--102820279 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
102820215 CAGTTGATGT
*
102820225 TATTTTTATTAATTTATAATTAA
1 TATTTTTATTAATTTATAATAAA
** *
102820248 TATAATTATTTATATTATAA-AAA
1 TATTTTTATTAAT-TTATAATAAA
102820271 TATTTTTAT
1 TATTTTTAT
102820280 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTTTATTAATTTATAATAAA
Found at i:102820287 original size:17 final size:19
Alignment explanation
Indices: 102820236--102820288 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
102820226 ATTTTTATTA
* *
102820236 ATTTATAATTAATATAATT
1 ATTTATATTTAAAATAATT
102820255 ATTTATATTATAAAA-ATATT
1 ATTTATATT-TAAAATA-ATT
102820275 -TTTATATTTAAAAT
1 ATTTATATTTAAAAT
102820289 TGTGAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 17 0.59
20 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTATATTTAAAATAATT
Found at i:102820675 original size:19 final size:21
Alignment explanation
Indices: 102820651--102820694 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
102820641 TATATAATTT
*
102820651 AATTTTTTAAACAAT-T-TAA
1 AATTTTATAAACAATATGTAA
*
102820670 AATTTTATAAATAATATGTAA
1 AATTTTATAAACAATATGTAA
102820691 AATT
1 AATT
102820695 CTAAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 1 0.05
21 7 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AATTTTATAAACAATATGTAA
Found at i:102821228 original size:2 final size:2
Alignment explanation
Indices: 102821221--102821247 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102821211 AAAGCTTTCT
102821221 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 T
102821248 TTATTTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:102824489 original size:14 final size:14
Alignment explanation
Indices: 102824456--102824507 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
102824446 ACAATACGAT
*
102824456 AATATAAGTGATTAA
1 AATATAA-TAATTAA
* *
102824471 AATATAATATTTTA
1 AATATAATAATTAA
102824485 AATATAAATAATTAA
1 AATAT-AATAATTAA
102824500 AATATAAT
1 AATATAAT
102824508 CTAAGAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
AATATAATAATTAA
Found at i:102829307 original size:16 final size:18
Alignment explanation
Indices: 102829281--102829313 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102829271 AAAAAATTAA
102829281 AAAGGATAAAAT-AAAAT
1 AAAGGATAAAATGAAAAT
102829298 AAAGGA-AAAATGAAAA
1 AAAGGATAAAATGAAAA
102829314 AAAAAAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (18 bp):
AAAGGATAAAATGAAAAT
Found at i:102838908 original size:9 final size:9
Alignment explanation
Indices: 102838896--102838940 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
102838886 TTAAAATTTA
102838896 TAAAAAAAT
1 TAAAAAAAT
102838905 TAAAAAAATT
1 TAAAAAAA-T
102838915 CTAAAAAATAT
1 -TAAAAAA-AT
*
102838926 TTAAAAAAT
1 TAAAAAAAT
102838935 TAAAAA
1 TAAAAA
102838941 TTTTATGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 15 0.48
10 7 0.23
11 8 0.26
12 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:102838914 original size:21 final size:21
Alignment explanation
Indices: 102838888--102838935 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
102838878 TATATTTTTT
102838888 AAAATT-TATAAAAAAATTAAA
1 AAAATTCTA-AAAAAAATTAAA
* *
102838909 AAAATTCTAAAAAATATTTAA
1 AAAATTCTAAAAAAAATTAAA
102838930 AAAATT
1 AAAATT
102838936 AAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATTCTAAAAAAAATTAAA
Found at i:102838934 original size:11 final size:10
Alignment explanation
Indices: 102838888--102838933 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
102838878 TATATTTTTT
102838888 AAAATTTATAA
1 AAAATTTA-AA
*
102838899 AAAAATTAAA
1 AAAATTTAAA
102838909 AAAATTCTAAA
1 AAAATT-TAAA
102838920 AAATATTTAAA
1 AAA-ATTTAAA
102838931 AAA
1 AAA
102838934 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 7 0.23
11 21 0.68
12 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:102843398 original size:18 final size:18
Alignment explanation
Indices: 102843352--102843398 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
102843342 AATAATATAC
*
102843352 TATAAGTCCAATATATTA
1 TATAAGTCCAATACATTA
* *
102843370 GATAGGTCCAATACATTA
1 TATAAGTCCAATACATTA
*
102843388 TATAAGCCCAA
1 TATAAGTCCAA
102843399 AATATAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (18 bp):
TATAAGTCCAATACATTA
Found at i:102843500 original size:18 final size:19
Alignment explanation
Indices: 102843468--102843514 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
102843458 AAATTATTTG
*
102843468 AAAAATAAAA-TAAAA-CTA
1 AAAAATAAAACAAAAAGC-A
*
102843486 AAAAATAAACCAAAAAGCA
1 AAAAATAAAACAAAAAGCA
102843505 AAAAATAAAA
1 AAAAATAAAA
102843515 ATAAGGAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.79, C:0.09, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAATAAAACAAAAAGCA
Found at i:102850129 original size:3 final size:3
Alignment explanation
Indices: 102850121--102850307 Score: 112
Period size: 3 Copynumber: 60.7 Consensus size: 3
102850111 AATAAAACAA
*
102850121 AAT AAT AAT AAT AAT AAT AAT GAAT AAT AAA AAT ACATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-A-T AAT AAT AAT
** * *
102850169 AA- AAT CAGG AAT AAT AAT AAT AAC AAC AAT AAT -AT AAAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * * * * * *
102850214 -AT AAA AAT AAT AGT AAT AAT AAT AAC AGAA AAC AAT AGT TAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * * *
102850259 AAA AAT AAT AAC AAT AGT AAT AAT AGATT AATT AAT AAT -GT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AA-T AAT AAT AAT AAT AAT
102850306 AA
1 AA
102850308 GTAAATAAAC
Statistics
Matches: 142, Mismatches: 30, Indels: 24
0.72 0.15 0.12
Matches are distributed among these distances:
2 7 0.05
3 115 0.81
4 16 0.11
5 4 0.03
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:102850149 original size:35 final size:33
Alignment explanation
Indices: 102850076--102850238 Score: 109
Period size: 35 Copynumber: 4.8 Consensus size: 33
102850066 AGTTTAAACA
* * *
102850076 AATAAAAGAAAATAAATAAGAA-AATAACAATATTT
1 AATAAAA-AAAAT-AATAATAATAATAATAATA-AT
102850111 AATAAAACAAAATAATAATAATAATAATAATGAAT
1 AATAAAA-AAAATAATAATAATAATAATAAT-AAT
* **
102850146 AATAAAAATACATTAATAATAATAA-AATCAGGAAT
1 AATAAAAA-A-AATAATAATAATAATAAT-AATAAT
* * * *
102850181 AATAATAATAACAACAATAAT-ATAAATAATAAT
1 AATAAAAAAAATAATAATAATAAT-AATAATAAT
* *
102850214 -ATAAAAATAATAGTAATAATAATAA
1 AATAAAAAAAATAATAATAATAATAA
102850239 CAGAAAACAA
Statistics
Matches: 102, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
32 19 0.19
33 15 0.15
34 11 0.11
35 42 0.41
36 15 0.15
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (33 bp):
AATAAAAAAAATAATAATAATAATAATAATAAT
Found at i:102866331 original size:31 final size:31
Alignment explanation
Indices: 102866296--102866403 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
102866286 TATTAAATTA
*
102866296 AATTTAATGTTTATCTTGATAGTATTTTATT
1 AATTTAATATTTATCTTGATAGTATTTTATT
* * **
102866327 AATTTAATATTAAT-GTG--AGTTATTAAATTT
1 AATTTAATATTTATCTTGATAG-TATTTTA-TT
*
102866357 GATTTAATATTTATCTTGATAGTATTTTATT
1 AATTTAATATTTATCTTGATAGTATTTTATT
*
102866388 AATTTAATATTAATCT
1 AATTTAATATTTATCT
102866404 GAGTAATATC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.03
29 5 0.08
30 16 0.27
31 30 0.50
32 5 0.08
33 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
AATTTAATATTTATCTTGATAGTATTTTATT
Found at i:102866363 original size:61 final size:61
Alignment explanation
Indices: 102866286--102866407 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
102866276 ATAAATTTAA
* *
102866286 TATTAAATTAAATTTAATGTTTATCTTGATAGTATTTTATTAATTTAATATTAATGTGAGT
1 TATTAAATTAAATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAATCTGAGT
**
102866347 TATTAAATTTGATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAATCTGAGT
1 TATTAAATTAAATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAATCTGAGT
102866408 AATATCAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (61 bp):
TATTAAATTAAATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTAATCTGAGT
Found at i:102869893 original size:19 final size:18
Alignment explanation
Indices: 102869862--102869902 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
102869852 ATATTTGAAC
*
102869862 TTAATAAATCTTAATTAA
1 TTAATAAAACTTAATTAA
102869880 TTAATTAAAACTTAATTAA
1 TTAA-TAAAACTTAATTAA
102869899 TTAA
1 TTAA
102869903 ACATTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATAAAACTTAATTAA
Found at i:102869909 original size:15 final size:14
Alignment explanation
Indices: 102869874--102869909 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
102869864 AATAAATCTT
102869874 AATTAATTAATTAA
1 AATTAATTAATTAA
102869888 AACTTAATTAATTAA
1 AA-TTAATTAATTAA
102869903 ACATTAA
1 A-ATTAA
102869910 ACTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTAATTAATTAA
Found at i:102873045 original size:46 final size:46
Alignment explanation
Indices: 102872975--102873247 Score: 262
Period size: 46 Copynumber: 6.0 Consensus size: 46
102872965 GCTTTCTGAA
* * *
102872975 ATGAAATGGGTTAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
102873021 ATGAAATGTGTAAGGCCATAGTTGAAAGATACCATGGCAATAGGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
102873067 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * ** *
102873113 -GGGAATGAATAAAACCATGGTTGAAAGATACTATGGCAATGTAAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
102873158 ATGAAATGAACAAGACCATGGTTGAAAGATATCATGGCAACCTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
102873204 A-GAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
102873248 TCAAAGATAA
Statistics
Matches: 183, Mismatches: 42, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
45 35 0.19
46 148 0.81
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:102873175 original size:91 final size:91
Alignment explanation
Indices: 102872987--102873242 Score: 282
Period size: 91 Copynumber: 2.8 Consensus size: 91
102872977 GAAATGGGTT
** ** *
102872987 AGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGGCCATAGTTGAAAGATA
1 AGACCATGGTTGAAAGATACCATGGCAACATGA-CGGAAATGAATAAGACCATAGTTGAAAGATA
* * * ***
102873052 CCATGGCAATAGGATATAAAATGTGTA
65 CTATGGCAATAGAACATAAAATGAACA
* * * *
102873079 AGACCATGGTTGAAAGATACCATGACAACATGACGGGAATGAATAAAACCATGGTTGAAAGATAC
1 AGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAATAAGACCATAGTTGAAAGATAC
*
102873144 TATGGCAAT-GTAACATGAAATGAACA
66 TATGGCAATAG-AACATAAAATGAACA
* * * *
102873170 AGACCATGGTTGAAAGATATCATGGCAACCTGACAGAAAAT-AAGTAAGACCATAGTTGAAAGAC
1 AGACCATGGTTGAAAGATACCATGGCAACATGAC-GGAAATGAA-TAAGACCATAGTTGAAAGAT
102873234 ACTATGGCA
64 ACTATGGCA
102873243 TCATGTCAAA
Statistics
Matches: 137, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
90 1 0.01
91 74 0.54
92 62 0.45
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (91 bp):
AGACCATGGTTGAAAGATACCATGGCAACATGACGGAAATGAATAAGACCATAGTTGAAAGATAC
TATGGCAATAGAACATAAAATGAACA
Found at i:102873261 original size:137 final size:137
Alignment explanation
Indices: 102872989--102873261 Score: 287
Period size: 137 Copynumber: 2.0 Consensus size: 137
102872979 AATGGGTTAG
* * *** *
102872989 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGGCCATAGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATAGTTGAAAGATACC
* * * ** * * **
102873054 ATGGCAATAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACGGGAAT
66 ATGGCAACAGGACAGAAAATAAGTAAGACCATAGTTGAAAGACACCATGACAACATGACAAGAAT
*
102873119 GAATAAA
131 AAATAAA
* ** * *
102873126 ACCATGGTTGAAAGATACTATGGCAATGTAACATGAAATGAACAAGACCATGGTTGAAAGATATC
1 ACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATAGTTGAAAGATACC
** * * * *
102873191 ATGGCAACCTGACAGAAAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAA-AGA
66 ATGGCAACAGGACAGAAAATAAGTAAGACCATAGTTGAAAGACACCATGACAACATGACAAGA-A
102873255 TAAATAA
130 TAAATAA
102873262 GACCGTGGAT
Statistics
Matches: 108, Mismatches: 27, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
136 1 0.01
137 107 0.99
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (137 bp):
ACCATGGTTGAAAGATACCATGGCAACATAACATGAAATGAACAAGACCATAGTTGAAAGATACC
ATGGCAACAGGACAGAAAATAAGTAAGACCATAGTTGAAAGACACCATGACAACATGACAAGAAT
AAATAAA
Found at i:102873549 original size:16 final size:17
Alignment explanation
Indices: 102873528--102873560 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
102873518 ATGATGGAGC
102873528 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
102873544 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
102873561 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:102874399 original size:26 final size:24
Alignment explanation
Indices: 102874364--102874448 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 24
102874354 TAATAATGTT
102874364 ATTATAAAAATGTAAAAAATGTAAA
1 ATTATAAAAAT-TAAAAAATGTAAA
* *
102874389 CATTATAAAAATAAAAAAATTTAATA
1 -ATTATAAAAATTAAAAAATGTAA-A
102874415 ATTTATAAAAATTATAAAAAATTGTAAA
1 A-TTATAAAAA-T-TAAAAAA-TGTAAA
102874443 ATTATA
1 ATTATA
102874449 CTTAAAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
25 11 0.22
26 21 0.42
27 6 0.12
28 8 0.16
29 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (24 bp):
ATTATAAAAATTAAAAAATGTAAA
Found at i:102874431 original size:9 final size:9
Alignment explanation
Indices: 102874364--102874448 Score: 63
Period size: 9 Copynumber: 9.7 Consensus size: 9
102874354 TAATAATGTT
102874364 ATTATAAAA
1 ATTATAAAA
102874373 ATGTA-AAAA
1 AT-TATAAAA
* *
102874382 A-TGTAAAC
1 ATTATAAAA
102874390 ATTATAAAA
1 ATTATAAAA
*
102874399 A-TAAAAAA
1 ATTATAAAA
102874407 ATT-TAATAA
1 ATTATAA-AA
*
102874416 TTTATAAAA
1 ATTATAAAA
102874425 ATTATAAAAA
1 ATTAT-AAAA
*
102874435 ATTGT-AAA
1 ATTATAAAA
102874443 ATTATA
1 ATTATA
102874449 CTTAAAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.02
8 20 0.34
9 24 0.41
10 13 0.22
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:102874507 original size:39 final size:40
Alignment explanation
Indices: 102874457--102874535 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
102874447 TACTTAAAAT
* *
102874457 TTTTAAATTTTATTAAAAA-TATAAATAATATTTTTTTAA
1 TTTTAAATTTTATTAAAAACTATAAATAACATATTTTTAA
102874496 TTTTAAATTTTATTAAAAACTTATAAATAACATATTTTTA
1 TTTTAAATTTTATTAAAAAC-TATAAATAACATATTTTTA
102874536 TTATTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 19 0.53
41 17 0.47
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (40 bp):
TTTTAAATTTTATTAAAAACTATAAATAACATATTTTTAA
Found at i:102874556 original size:28 final size:28
Alignment explanation
Indices: 102874523--102874601 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
102874513 AACTTATAAA
102874523 TAACATATTTTTATTATTTTTTAAAAATT
1 TAACATATTTTTA-TATTTTTTAAAAATT
* *
102874552 T-ACATTATTTTTACAATTTTTAAAAATT
1 TAACA-TATTTTTATATTTTTTAAAAATT
* *
102874580 TAAAATATTTTTATATTGTTTA
1 TAACATATTTTTATATTTTTTA
102874602 TAATATTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 31 0.74
29 11 0.26
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (28 bp):
TAACATATTTTTATATTTTTTAAAAATT
Found at i:102874726 original size:19 final size:18
Alignment explanation
Indices: 102874689--102874728 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
102874679 TTATATGTTG
*
102874689 TTTTCTAAATTTTATATA
1 TTTTCTAAATTTTAAATA
*
102874707 TTTTCTGAATTTTTAAATA
1 TTTTCT-AAATTTTAAATA
102874726 TTT
1 TTT
102874729 ATTTTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTCTAAATTTTAAATA
Found at i:102876870 original size:19 final size:19
Alignment explanation
Indices: 102876842--102876886 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
102876832 GGAAAAAAAT
*
102876842 AAATAAAATATG-ATGAATA
1 AAATATAATATGTAT-AATA
102876861 AAATATAATATGTATAATA
1 AAATATAATATGTATAATA
*
102876880 AACTATA
1 AAATATA
102876887 TTTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATATAATATGTATAATA
Found at i:102877159 original size:16 final size:16
Alignment explanation
Indices: 102877138--102877187 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
102877128 CGAAAATGAT
102877138 ATAATAAGTATAATAA
1 ATAATAAGTATAATAA
*
102877154 ATAAT-AGTGTAA-AA
1 ATAATAAGTATAATAA
*
102877168 A-AATAA-TACAATAA
1 ATAATAAGTATAATAA
102877182 ATAATA
1 ATAATA
102877188 GGAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 6 0.21
14 7 0.25
15 10 0.36
16 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (16 bp):
ATAATAAGTATAATAA
Found at i:102878666 original size:133 final size:132
Alignment explanation
Indices: 102878412--102879035 Score: 845
Period size: 133 Copynumber: 4.7 Consensus size: 132
102878402 GATCTGCTGT
* * * *
102878412 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGTATGTTTAGCCTACTTCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTA--TATAGCCTGCTTCACTCCT
* * * ** * * * * ** * * *
102878477 GCTCAATGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATATATAGAGATAAGACTCG
64 ACTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
102878542 CCAA
129 CCAA
102878546 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGC-TCTACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTC-ACTCCT
* * *
102878610 GCTCAGTGAAGATAAGGATGGTGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
64 ACTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCA
*
102878675 TCAA
129 CCAA
* * * * *
102878679 AATTCGATCTGCTTCACTTCTGCTCGGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTA
*
102878744 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
102878809 CAA
130 CAA
* *
102878812 AATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTTTATAGCCTGCTTCACTCCTA
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTA
102878877 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAC
102878942 CAA
130 CAA
* * * * *
102878945 AATTTGATCTGCTCCGCTTCTGCTCAGCGAAGATAAGATCTGCTATATTTAACCTGCTTCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTG-TATA--TAGCCTGCTTCACTCC
102879010 TACTCAGTGAAGATAAGGCTGATGAT
63 TACTCAGTGAAGATAAGGCTGATGAT
102879036 ATCTGTAATC
Statistics
Matches: 444, Mismatches: 40, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
132 3 0.01
133 357 0.80
134 40 0.09
135 44 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTATATAGCCTGCTTCACTCCTAC
TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCACC
AA
Found at i:102878752 original size:43 final size:44
Alignment explanation
Indices: 102878687--102878891 Score: 118
Period size: 43 Copynumber: 4.7 Consensus size: 44
102878677 AAAATTCGAT
* * * *
102878687 CTGCTTCACTTCTGCTCGGTGAAGATAAGATCTGGTATT-TAGC
1 CTGCTTCACTCCTACTCAGTGAAGATAAGATCTGATATTATAGC
* * ** **
102878730 CTGCTCCACTCCTACTCAGTGAAGATAAG-GCTGATGATTGGAAT
1 CTGCTTCACTCCTACTCAGTGAAGATAAGATCTGAT-ATTATAGC
* * * * * ** *
102878774 CTGCTCCATCGCCGGTA--C-GTGGAGATAAGATTCATCAAAATTCGATC
1 CTGCTTCA-CTCC--TACTCAGTGAAGATAAGA-TC-T-GATATTATAGC
* *
102878821 -TGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-TTATAGC
1 CTGCTTCACTCCTACTCAGTGAAGATAAGATCTGATATTATAGC
102878863 CTGCTTCACTCCTACTCAGTGAAGATAAG
1 CTGCTTCACTCCTACTCAGTGAAGATAAG
102878892 GCTGATGATT
Statistics
Matches: 121, Mismatches: 28, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
42 8 0.07
43 56 0.46
44 20 0.17
45 10 0.08
46 18 0.15
47 8 0.07
48 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGCTTCACTCCTACTCAGTGAAGATAAGATCTGATATTATAGC
Found at i:102878846 original size:46 final size:45
Alignment explanation
Indices: 102878543--102878850 Score: 131
Period size: 43 Copynumber: 6.9 Consensus size: 45
102878533 TAAGACTCGC
* *
102878543 CAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGA-TCT
1 CAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTCT
** * * * **
102878587 -AGTATATAG-CCTGCTCTACTCCTGCTCAGTGAAGATAAGGATGGT
1 CAAAAT-TCGATCTGCTCCACTCCTGCTCAGTGAAGATAA-GATTCT
* * * * *
102878632 ---GATTGGAATCTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCAT
1 CAAAATTCG-ATCTGCTCCACTC-CTGCTCA-GTGAAGATAAGATTC-T
* * *
102878676 CAAAATTCGATCTGCTTCACTTCTGCTCGGTGAAGATAAGA-TCT
1 CAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTCT
*** * * * * *
102878720 GGTATTTAG-CCTGCTCCACTCCTACTCAGTGAAGATAAG--GCT
1 CAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTCT
* ** * * * *
102878762 GATGATTGGAATCTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCAT
1 CAAAATTCG-ATCTGCTCCACTC-CTGCTCA-GTGAAGATAAGATTC-T
*
102878809 CAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGAT
1 CAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGAT
102878851 CTGGTTTATA
Statistics
Matches: 188, Mismatches: 54, Indels: 42
0.66 0.19 0.15
Matches are distributed among these distances:
42 9 0.05
43 65 0.35
44 49 0.26
45 3 0.02
46 48 0.26
47 14 0.07
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
CAAAATTCGATCTGCTCCACTCCTGCTCAGTGAAGATAAGATTCT
Found at i:102891747 original size:6 final size:6
Alignment explanation
Indices: 102891738--102891763 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
102891728 TTGTTTTTGT
102891738 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
102891764 ATATGCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:102897951 original size:70 final size:67
Alignment explanation
Indices: 102897858--102897990 Score: 167
Period size: 70 Copynumber: 1.9 Consensus size: 67
102897848 TCCGAATAAG
* * ** *
102897858 AAAAGGTAAAACTATGCCATTTTGATAAATATTTACTTTTTCTAAAGTTAAAAGTCAAAACCATT
1 AAAAGGCAAAACTACGCCATTTTGATAAATATTTAC-TCAT-T-AAGTTAAAAGGCAAAACCATT
102897923 AAATT
63 AAATT
** *
102897928 AAAAGGCAAAACTACGTTATTTTGATAAATGTTTACTCATTAAGTTAAAAGGCAAAACCATTA
1 AAAAGGCAAAACTACGCCATTTTGATAAATATTTACTCATTAAGTTAAAAGGCAAAACCATTA
102897991 TATTGTTTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
67 21 0.38
68 1 0.02
69 2 0.04
70 31 0.56
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (67 bp):
AAAAGGCAAAACTACGCCATTTTGATAAATATTTACTCATTAAGTTAAAAGGCAAAACCATTAAA
TT
Found at i:102898107 original size:34 final size:34
Alignment explanation
Indices: 102898069--102898136 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
102898059 ACATTGAGTA
102898069 TAAATAATAGGATTCATTAACTCTACTCGACTTT
1 TAAATAATAGGATTCATTAACTCTACTCGACTTT
102898103 TAAATAATAGGATTCATTAACTCTACTCGACTTT
1 TAAATAATAGGATTCATTAACTCTACTCGACTTT
102898137 GACTCGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (34 bp):
TAAATAATAGGATTCATTAACTCTACTCGACTTT
Found at i:102901053 original size:43 final size:43
Alignment explanation
Indices: 102901000--102901104 Score: 167
Period size: 43 Copynumber: 2.4 Consensus size: 43
102900990 GGTTTAATGT
* *
102901000 ATTGGCACTAAGTGTGCGATACAATTATAGCATT-GGCTAATTA
1 ATTGGCACTAAGTGTGCGAAACAATTATAGC-TTCAGCTAATTA
102901043 ATTGGCACTAAGTGTGCGAAACAATTATAGCTTCAGCTAATTA
1 ATTGGCACTAAGTGTGCGAAACAATTATAGCTTCAGCTAATTA
*
102901086 ATCGGCACTAAGTGTGCGA
1 ATTGGCACTAAGTGTGCGA
102901105 GTTCATTGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGAAACAATTATAGCTTCAGCTAATTA
Found at i:102906765 original size:24 final size:24
Alignment explanation
Indices: 102906731--102906791 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
102906721 TGGGTTTTAC
* *
102906731 TTTTTTCCTTCTTTATGTCTTTCT
1 TTTTTTTCTTCTCTATGTCTTTCT
102906755 TTTTTTTCTTCTCTATGTCTTTCT
1 TTTTTTTCTTCTCTATGTCTTTCT
102906779 TTTTTTTCTTCTC
1 TTTTTTTCTTCTC
102906792 ATCTTTCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTTTTCTTCTCTATGTCTTTCT
Found at i:102906796 original size:21 final size:23
Alignment explanation
Indices: 102906731--102906799 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
102906721 TGGGTTTTAC
* *
102906731 TTTTTTCCTTCTTTATGTCTTTCT
1 TTTTTTTCTTCTCTA-GTCTTTCT
102906755 TTTTTTTCTTCTCTATGTCTTTCT
1 TTTTTTTCTTCTCTA-GTCTTTCT
102906779 TTTTTTTCTTCTC-A-TCTTTCT
1 TTTTTTTCTTCTCTAGTCTTTCT
102906800 CTTCATCTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
21 7 0.16
23 1 0.02
24 35 0.81
ACGTcount: A:0.04, C:0.22, G:0.03, T:0.71
Consensus pattern (23 bp):
TTTTTTTCTTCTCTAGTCTTTCT
Found at i:102906847 original size:17 final size:16
Alignment explanation
Indices: 102906825--102906876 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
102906815 CCTCAACCTC
102906825 TTTCTGCTTATGCTTCT
1 TTTCTGCTTAT-CTTCT
*
102906842 TTTCTGTTTATCTTCT
1 TTTCTGCTTATCTTCT
102906858 TCTTCT-CTTAT-TTCT
1 T-TTCTGCTTATCTTCT
102906873 TTTC
1 TTTC
102906877 ATCTTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 3 0.09
15 5 0.16
16 10 0.31
17 14 0.44
ACGTcount: A:0.06, C:0.23, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTCTGCTTATCTTCT
Found at i:102907503 original size:25 final size:27
Alignment explanation
Indices: 102907475--102907546 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 27
102907465 CTATTTTCTC
102907475 TTCTTCTTCTCACA-TTCTT-TTT-TTA
1 TTCTTCTTCTC-CATTTCTTCTTTATTA
*
102907500 TTCTTCTTCTCCATTTCTTCTTTATTT
1 TTCTTCTTCTCCATTTCTTCTTTATTA
**
102907527 TTCTT-TTCTCTTTTTCTTCT
1 TTCTTCTTCTCCATTTCTTCT
102907547 ACTGTCCAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.05
25 16 0.39
26 16 0.39
27 7 0.17
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.68
Consensus pattern (27 bp):
TTCTTCTTCTCCATTTCTTCTTTATTA
Found at i:102915550 original size:5 final size:5
Alignment explanation
Indices: 102915540--102915572 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
102915530 TTGTGTGTTT
102915540 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
102915573 TCACAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:102915565 original size:14 final size:15
Alignment explanation
Indices: 102915540--102915572 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
102915530 TTGTGTGTTT
102915540 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
102915555 TTTTA-TTTATTTTA
1 TTTTATTTTATTTTA
102915569 TTTT
1 TTTT
102915573 TCACAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:102915565 original size:19 final size:18
Alignment explanation
Indices: 102915537--102915572 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
102915527 AATTTGTGTG
102915537 TTTTTTTATTTTATTTTA
1 TTTTTTTATTTTATTTTA
102915555 TTTTATTTATTTTATTTT
1 TTTT-TTTATTTTATTTT
102915573 TCACAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTATTTTATTTTA
Done.