Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold339
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: 1314099
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 5 of 9
Found at i:612068 original size:20 final size:20
Alignment explanation
Indices: 612010--612050 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
612000 AGAGAGAAAG
612010 AAGCAAAAGAAAGAAAAAAA
1 AAGCAAAAGAAAGAAAAAAA
612030 AAGCAAAAGAAAGAAAAAAA
1 AAGCAAAAGAAAGAAAAAAA
612050 A
1 A
612051 GAAAGGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (20 bp):
AAGCAAAAGAAAGAAAAAAA
Found at i:612093 original size:7 final size:7
Alignment explanation
Indices: 612077--612212 Score: 58
Period size: 7 Copynumber: 17.7 Consensus size: 7
612067 AATTACCGTA
*
612077 TTTATTT
1 TTTATAT
612084 TTTATAT
1 TTTATAT
612091 TTTATATT
1 TTTATA-T
612099 ATTTATAT
1 -TTTATAT
612107 TTTATATTT
1 TTTATA--T
612116 TTTATTAT
1 TTTA-TAT
*
612124 TTAAAATAT
1 TT--TATAT
* *
612133 TATAAAT
1 TTTATAT
612140 TTATATAAT
1 TT-TAT-AT
612149 ATTTATA-
1 -TTTATAT
** *
612156 AATATTT
1 TTTATAT
*
612163 TTTATTT
1 TTTATAT
*
612170 TTTATTT
1 TTTATAT
612177 TTTATAT
1 TTTATAT
*
612184 TCATATTAT
1 T-TTA-TAT
612193 ATTTATAT
1 -TTTATAT
612201 TTTATAT
1 TTTATAT
612208 TTTAT
1 TTTAT
612213 TTTAATTAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
6 3 0.03
7 53 0.53
8 13 0.13
9 25 0.25
10 6 0.06
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATAT
Found at i:612102 original size:23 final size:23
Alignment explanation
Indices: 612075--612256 Score: 106
Period size: 23 Copynumber: 7.9 Consensus size: 23
612065 AAAATTACCG
612075 TATTTATTTTTTATATTTTATAT
1 TATTTATTTTTTATATTTTATAT
* *
612098 TATTTATATTTTATATTTTTTAT
1 TATTTATTTTTTATATTTTATAT
** * *
612121 TATTTAAAATATTATAAATTTATA-
1 TATTT-ATTTTTTAT-ATTTTATAT
* ** *
612145 TA-ATATTTATAAATATTTTTTAT
1 TATTTATTT-TTTATATTTTATAT
* *
612168 TTTTTATTTTTTATA-TTCATATT
1 TATTTATTTTTTATATTTTATA-T
* *
612191 ATATTTATATTTTATATTTTATTT
1 -TATTTATTTTTTATATTTTATAT
* * *
612215 TAATTAATTTTTA-ATGTTA-ACT
1 TATTTATTTTTTATATTTTATA-T
612237 TA-TTATTTTTTATATATTTA
1 TATTTATTTTTTATAT-TTTA
612257 AAATATTAAA
Statistics
Matches: 117, Mismatches: 31, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
21 9 0.08
22 22 0.19
23 48 0.41
24 28 0.24
25 10 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (23 bp):
TATTTATTTTTTATATTTTATAT
Found at i:612446 original size:23 final size:22
Alignment explanation
Indices: 612403--612453 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
612393 AAAATTCATG
612403 TATTTATTTTTATATTATTTAT
1 TATTTATTTTTATATTATTTAT
* *
612425 TATTTATTGTTTGTATTTTTTAT
1 TATTTATT-TTTATATTATTTAT
612448 TATTTA
1 TATTTA
612454 AAATATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (22 bp):
TATTTATTTTTATATTATTTAT
Found at i:612545 original size:24 final size:24
Alignment explanation
Indices: 612496--612547 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
612486 ATTTTTTATG
*
612496 TTTTTATATTCTTATCATATTTAT
1 TTTTTATATTCTTATCATATTAAT
**
612520 TTTTTATATT-TTATTTTAATTAAT
1 TTTTTATATTCTTATCAT-ATTAAT
612544 TTTT
1 TTTT
612548 AATGTATACG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTATATTCTTATCATATTAAT
Found at i:612546 original size:23 final size:24
Alignment explanation
Indices: 612496--612548 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
612486 ATTTTTTATG
* *
612496 TTTTTATATTCTTATCATATTTAT
1 TTTTTATATTCTTATCATAATTAA
**
612520 TTTTTATATT-TTATTTTAATTAA
1 TTTTTATATTCTTATCATAATTAA
612543 TTTTTA
1 TTTTTA
612549 ATGTATACGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTATATTCTTATCATAATTAA
Found at i:612625 original size:31 final size:32
Alignment explanation
Indices: 612590--612651 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
612580 GTATTAAAAA
*
612590 TTTATATAAATTTTTACACATTAAT-TATTCG
1 TTTATATAAATTTTGACACATTAATATATTCG
* *
612621 TTTATATACATTTTGACACATTCATATATTC
1 TTTATATAAATTTTGACACATTAATATATTC
612652 ATATCTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.34, C:0.13, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTATATAAATTTTGACACATTAATATATTCG
Found at i:613454 original size:19 final size:18
Alignment explanation
Indices: 613419--613470 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
613409 TCAGTTGCAT
*
613419 AAAAT-TTTAAATTATAA
1 AAAATATTTAAATAATAA
613436 AAAATATTTAAATAAATAA
1 AAAATATTTAAAT-AATAA
* * *
613455 TAATTATTTAATTAAT
1 AAAATATTTAAATAAT
613471 TTAACTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 5 0.17
18 10 0.34
19 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATATTTAAATAATAA
Found at i:613824 original size:16 final size:17
Alignment explanation
Indices: 613803--613840 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
613793 ATAAGTCAAG
613803 TAAAT-AACTCAAATTT
1 TAAATAAACTCAAATTT
* *
613819 TAAATAAATTTAAATTT
1 TAAATAAACTCAAATTT
613836 TAAAT
1 TAAAT
613841 TTTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAAACTCAAATTT
Found at i:614342 original size:15 final size:16
Alignment explanation
Indices: 614322--614365 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
614312 TTAAATTAAA
614322 ATAAATAA-ATATTAT
1 ATAAATAATATATTAT
*
614337 ATAAATATATAAATTAT
1 ATAAATA-ATATATTAT
614354 -TAAATAATATAT
1 ATAAATAATATAT
614366 AACTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAAATAATATATTAT
Found at i:614356 original size:36 final size:34
Alignment explanation
Indices: 614274--614357 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 34
614264 TTAAGTCGTA
* *
614274 ATAT-TTATCAAAATAAATGAATATTATATAAAT
1 ATATATTATTAAAATAAATAAATATTATATAAAT
*
614307 ATATTTTAAATTAAAATAAATAAATATTATATAAAT
1 ATATATT--ATTAAAATAAATAAATATTATATAAAT
614343 ATATAAATTATTAAA
1 ATAT--ATTATTAAA
614358 TAATATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
33 4 0.09
34 2 0.05
36 35 0.81
38 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
ATATATTATTAAAATAAATAAATATTATATAAAT
Found at i:614362 original size:19 final size:19
Alignment explanation
Indices: 614320--614367 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
614310 TTTTAAATTA
* *
614320 AAATAAATAAATATTATAT
1 AAATATATAAATATTAAAT
614339 AAATATATAAATTATTAAAT
1 AAATATATAAA-TATTAAAT
614359 -AATATATAA
1 AAATATATAA
614368 CTTTTTCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATATAAATATTAAAT
Found at i:614363 original size:17 final size:17
Alignment explanation
Indices: 614296--614364 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 17
614286 ATAAATGAAT
614296 ATTATATAAATATATTTTAA
1 ATTATATAAATATA---TAA
* *
614316 ATTAAAATAAATA-A-AT
1 ATT-ATATAAATATATAA
614332 ATTATATAAATATATAA
1 ATTATATAAATATATAA
614349 ATTAT-TAAATAATATA
1 ATTATATAAAT-ATATA
614365 TAACTTTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
15 8 0.20
16 10 0.24
17 11 0.27
20 4 0.10
21 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATATAAATATATAA
Found at i:614761 original size:21 final size:21
Alignment explanation
Indices: 614737--614777 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
614727 TGAGCTACTC
614737 TAAAAAACAATGTA-GCTTTAT
1 TAAAAAA-AATGTAGGCTTTAT
*
614758 TAAAAAAAATTTAGGCTTTA
1 TAAAAAAAATGTAGGCTTTA
614778 ATCAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (21 bp):
TAAAAAAAATGTAGGCTTTAT
Found at i:616015 original size:17 final size:18
Alignment explanation
Indices: 615980--616019 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
615970 TTTTTTATAA
615980 TTAAAATTTAAATAAAAT
1 TTAAAATTTAAATAAAAT
* *
615998 TTAAAATTTGAAT-TAAT
1 TTAAAATTTAAATAAAAT
616015 TTAAA
1 TTAAA
616020 CTTTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAAAATTTAAATAAAAT
Found at i:626683 original size:27 final size:27
Alignment explanation
Indices: 626625--626688 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
626615 TTTTATTCAT
* * *
626625 GGGGATACTCCAACCTCATTTTTCTAA
1 GGGGATACTCCAACCCCATTCTTCCAA
*
626652 GGGGATACTCCAACCCCATTCTTCCGA
1 GGGGATACTCCAACCCCATTCTTCCAA
*
626679 TGGGATACTC
1 GGGGATACTC
626689 GTTTTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATTCTTCCAA
Found at i:626825 original size:26 final size:26
Alignment explanation
Indices: 626792--626844 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
626782 CTGCCCCGCC
626792 TTTCAACCAAAAATTAAATCTTTCTT
1 TTTCAACCAAAAATTAAATCTTTCTT
626818 TTTCAACCAAAAATTAAATCTTTCTT
1 TTTCAACCAAAAATTAAATCTTTCTT
626844 T
1 T
626845 CTTTATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (26 bp):
TTTCAACCAAAAATTAAATCTTTCTT
Found at i:631762 original size:13 final size:13
Alignment explanation
Indices: 631744--631769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
631734 CAATTTTTTG
631744 TGTATCGATACAT
1 TGTATCGATACAT
631757 TGTATCGATACAT
1 TGTATCGATACAT
631770 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:631781 original size:32 final size:33
Alignment explanation
Indices: 631724--631787 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
631714 TACAAGCCAA
**
631724 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
631757 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
631788 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:633889 original size:21 final size:20
Alignment explanation
Indices: 633860--633902 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
633850 GGCTAGTGTG
* *
633860 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
633881 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
633901 GG
1 GG
633903 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:634361 original size:13 final size:12
Alignment explanation
Indices: 634343--634380 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
634333 ATAATCCCCC
634343 TGTATCGATACA
1 TGTATCGATACA
634355 GTGTATCGATACCA
1 -TGTATCGATA-CA
634369 TGTATCGATACA
1 TGTATCGATACA
634381 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:640570 original size:13 final size:13
Alignment explanation
Indices: 640552--640577 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
640542 CAATTTTTTG
640552 TGTATCGATACAT
1 TGTATCGATACAT
640565 TGTATCGATACAT
1 TGTATCGATACAT
640578 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:640589 original size:32 final size:33
Alignment explanation
Indices: 640532--640595 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
640522 TACAAGCCAA
**
640532 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
640565 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
640596 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:644499 original size:33 final size:32
Alignment explanation
Indices: 644442--644525 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 32
644432 TATACCTTTT
*
644442 ATTTAAT-TAATTAATACTTAATTAAATT-TCAA
1 ATTTAATCTAATAAATA-TTAATTAAATTCT-AA
644474 ATTTAATCTAATAAATATATAATTAAATTCTAA
1 ATTTAATCTAATAAATAT-TAATTAAATTCTAA
*
644507 ATTTAATCAAATAAATATT
1 ATTTAATCTAATAAATATT
644526 TCTTATTGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
32 9 0.19
33 37 0.79
34 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (32 bp):
ATTTAATCTAATAAATATTAATTAAATTCTAA
Found at i:645742 original size:26 final size:26
Alignment explanation
Indices: 645692--645743 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
645682 TATTATTGTT
*
645692 ATGAGGATGATGATAAAAAGGAAAAG
1 ATGAGGATGATGATAAAAAGAAAAAG
*
645718 ATGATGATGATGATGAAAAA-AAAAAG
1 ATGAGGATGATGAT-AAAAAGAAAAAG
645744 GAAATATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (26 bp):
ATGAGGATGATGATAAAAAGAAAAAG
Found at i:646241 original size:14 final size:15
Alignment explanation
Indices: 646222--646250 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
646212 TAATTTTATT
646222 TTAACTT-TAAATTA
1 TTAACTTATAAATTA
646236 TTAACTTATAAATTA
1 TTAACTTATAAATTA
646251 AATTATCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAACTTATAAATTA
Found at i:646577 original size:22 final size:22
Alignment explanation
Indices: 646545--646587 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
646535 GGCCTATGTA
646545 GACCACACTGCATGCGTTGTTC
1 GACCACACTGCATGCGTTGTTC
*
646567 GACCACGCTGCATGCGTTGTT
1 GACCACACTGCATGCGTTGTT
646588 TGCCTGCCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (22 bp):
GACCACACTGCATGCGTTGTTC
Found at i:646717 original size:5 final size:5
Alignment explanation
Indices: 646694--646753 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
646684 TACTTTGAGT
*
646694 TTTAA TTTACA TTTAAA TTTAA TTTAAA TTGAA -TTAA -TTAA -TTAA
1 TTTAA TTTA-A TTT-AA TTTAA TTT-AA TTTAA TTTAA TTTAA TTTAA
646739 TTTATA TTTAA TTTA
1 TTTA-A TTTAA TTTA
646754 TTATTAAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 11 0.23
5 19 0.40
6 17 0.35
7 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (5 bp):
TTTAA
Found at i:646718 original size:11 final size:11
Alignment explanation
Indices: 646697--646753 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
646687 TTTGAGTTTT
646697 AATTTACATTTA
1 AATTTA-ATTTA
646709 AATTTAATTTA
1 AATTTAATTTA
*
646720 AATTGAA-TTA
1 AATTTAATTTA
*
646730 ATTAATTAATTTA
1 A--ATTTAATTTA
*
646743 TATTTAATTTA
1 AATTTAATTTA
646754 TTATTAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 4 0.11
11 20 0.54
12 10 0.27
13 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:646738 original size:23 final size:22
Alignment explanation
Indices: 646712--646769 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
646702 ACATTTAAAT
646712 TTAATTTAAATTGAATTAATTAA
1 TTAATTTAAATTGAATTAATT-A
* * *
646735 TTAATTTATATTTAATTTATTA
1 TTAATTTAAATTGAATTAATTA
646757 TTAAATATTAAAT
1 TT-AAT-TTAAAT
646770 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 21 0.72
24 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTTAAATTGAATTAATTA
Found at i:646764 original size:19 final size:20
Alignment explanation
Indices: 646742--646779 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
646732 TAATTAATTT
*
646742 ATATTTAAT-TTATTATTAA
1 ATATTAAATATTATTATTAA
*
646761 ATATTAAATATTTTTATTA
1 ATATTAAATATTATTATTA
646780 TTTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTAAATATTATTATTAA
Found at i:646791 original size:21 final size:21
Alignment explanation
Indices: 646767--646806 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
646757 TTAAATATTA
* * *
646767 AATATTTTTATTATTTTAAAT
1 AATAATTTTAGTATATTAAAT
646788 AATAATTTTAGTATATTAA
1 AATAATTTTAGTATATTAA
646807 TTTTATGTAT
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
AATAATTTTAGTATATTAAAT
Found at i:646826 original size:14 final size:15
Alignment explanation
Indices: 646790--646824 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
646780 TTTTAAATAA
646790 TAATTTTA-GTATAT
1 TAATTTTATGTATAT
646804 TAATTTTATGTATAT
1 TAATTTTATGTATAT
*
646819 TTATTT
1 TAATTT
646825 ATACAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
TAATTTTATGTATAT
Found at i:649061 original size:20 final size:20
Alignment explanation
Indices: 649036--649223 Score: 162
Period size: 20 Copynumber: 8.8 Consensus size: 20
649026 TTTTACCCAG
649036 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
649056 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
649076 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTTTTCA
* *
649096 ATGTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
649116 ATGTATCGATACATTCTATCTTTTTACTCA
1 ATGTATCGAT--A--C-A---TTTT--TCA
*
649146 GATGTATCGATACATTTTTTA
1 -ATGTATCGATACATTTTTCA
*
649167 ATGTATCGATACATGTATT-A
1 ATGTATCGATACAT-TTTTCA
*
649187 GACTGTATCGATACATTCTTCA
1 -A-TGTATCGATACATTTTTCA
649209 ATGTATCGATACATT
1 ATGTATCGATACATT
649224 CTGTCTTTTT
Statistics
Matches: 139, Mismatches: 14, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
20 89 0.64
21 10 0.07
22 15 0.11
23 4 0.03
24 1 0.01
25 1 0.01
26 1 0.01
27 1 0.01
28 3 0.02
29 1 0.01
30 3 0.02
31 10 0.07
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:649159 original size:51 final size:50
Alignment explanation
Indices: 649096--649273 Score: 187
Period size: 51 Copynumber: 3.7 Consensus size: 50
649086 ACATTATTCA
*
649096 ATGTATCAATACATTCTTCAATGTATCGATACATTCTATCTTTTTACTCAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTT-CTCAG
* * *
649147 ATGTATCGATACATTTTTTAATGTATCGATACA-TGTA------T-T-AG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTCTCAG
*
649188 ACTGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT-TCCAG
1 A-TGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTCT-CAG
* *
649239 ATGTATCGATACATTTTTTTAATGTATCGATACAT
1 ATGTATCGATACA-TTCTTCAATGTATCGATACAT
649274 CTAGTTAAAA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
41 3 0.03
42 31 0.29
43 2 0.02
44 1 0.01
49 2 0.02
50 15 0.14
51 52 0.49
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (50 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTCTCAG
Found at i:649219 original size:93 final size:90
Alignment explanation
Indices: 649056--649273 Score: 330
Period size: 93 Copynumber: 2.4 Consensus size: 90
649046 ACATTTTTCA
* * *
649056 ATGTATCGATACATGTATGAATGTATCGATACATTATTCAATGTATCAATACATTCTTCAATGTA
1 ATGTATCGATACATTTTTTAATGTATCGATACATTATTCAATGTATCAATACATTCTTCAATGTA
649121 TCGATACATTCTATCTTTTTACTCAG
66 TCGATACATTCTATCTTTTTAC-CAG
*
649147 ATGTATCGATACATTTTTTAATGTATCGATACATGTATT-AGACTGTATCGATACATTCTTCAAT
1 ATGTATCGATACATTTTTTAATGTATCGATACAT-TATTCA-A-TGTATCAATACATTCTTCAAT
* *
649211 GTATCGATACATTCTGTCTTTTTTCCAG
63 GTATCGATACATTCTATCTTTTTACCAG
649239 ATGTATCGATACATTTTTTTAATGTATCGATACAT
1 ATGTATCGATACA-TTTTTTAATGTATCGATACAT
649274 CTAGTTAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
91 32 0.27
92 21 0.18
93 64 0.55
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.43
Consensus pattern (90 bp):
ATGTATCGATACATTTTTTAATGTATCGATACATTATTCAATGTATCAATACATTCTTCAATGTA
TCGATACATTCTATCTTTTTACCAG
Found at i:649281 original size:21 final size:21
Alignment explanation
Indices: 649239--649281 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
649229 TTTTTTCCAG
* **
649239 ATGTATCGATACATTTTTTTA
1 ATGTATCGATACATCTAGTTA
649260 ATGTATCGATACATCTAGTTA
1 ATGTATCGATACATCTAGTTA
649281 A
1 A
649282 AATTAAGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTAGTTA
Found at i:652861 original size:2 final size:2
Alignment explanation
Indices: 652854--652886 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
652844 GACAAGTATG
*
652854 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
652887 TTTATTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:653370 original size:18 final size:17
Alignment explanation
Indices: 653349--653394 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
653339 TTGTCGCATT
* *
653349 AAAATTATATCAAATCTA
1 AAAAATATATCAAA-ATA
653367 AAAAATATAATCAAAATA
1 AAAAATAT-ATCAAAATA
653385 AAAAATATAT
1 AAAAATATAT
653395 GATCTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 17 0.68
19 6 0.24
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATATATCAAAATA
Found at i:654424 original size:16 final size:16
Alignment explanation
Indices: 654384--654437 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
654374 TTTTAATTTT
*
654384 ATAAATAAATTAAAAAA
1 ATAAA-AAATTAAATAA
** *
654401 ATTTAAATTTAAA-AA
1 ATAAAAAATTAAATAA
654416 ATAAAAAATTAAATAA
1 ATAAAAAATTAAATAA
654432 ATAAAA
1 ATAAAA
654438 TACCCAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 12 0.40
16 15 0.50
17 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATTAAATAA
Found at i:654427 original size:15 final size:15
Alignment explanation
Indices: 654384--654437 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
654374 TTTTAATTTT
654384 ATAAATAAATTAAAAAA
1 ATAAA-AAATT-AAAAA
** *
654401 ATTTAAATTTAAAAA
1 ATAAAAAATTAAAAA
654416 ATAAAAAATTAAATAA
1 ATAAAAAATTAAA-AA
654432 ATAAAA
1 ATAAAA
654438 TACCCAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
15 15 0.50
16 12 0.40
17 3 0.10
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAAAAATTAAAAA
Found at i:654764 original size:14 final size:14
Alignment explanation
Indices: 654745--654783 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
654735 AATATTATAT
654745 TAATATTTATTTAA
1 TAATATTTATTTAA
*
654759 TAATATTTATATAA
1 TAATATTTATTTAA
*
654773 -AATAGTTATTT
1 TAATATTTATTT
654784 GTTTTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
TAATATTTATTTAA
Found at i:658631 original size:11 final size:11
Alignment explanation
Indices: 658615--658640 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
658605 TCTGTAGCTC
658615 TTTTTCTATTA
1 TTTTTCTATTA
658626 TTTTTCTATTA
1 TTTTTCTATTA
658637 TTTT
1 TTTT
658641 CTTTATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTATTA
Found at i:666865 original size:16 final size:17
Alignment explanation
Indices: 666844--666876 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
666834 GCTTTTGGTT
666844 TTTGGAAG-CAATTAAA
1 TTTGGAAGTCAATTAAA
666860 TTTGGAAGTCAATTAAA
1 TTTGGAAGTCAATTAAA
666877 AAAAATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (17 bp):
TTTGGAAGTCAATTAAA
Found at i:672584 original size:48 final size:48
Alignment explanation
Indices: 672513--672615 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
672503 GTTGGTCGAA
*
672513 GGTATGAGAATAAATCTGGATTCCTAACCTACATTAGCAGGTGCCGAG
1 GGTATGAGAATAAATCTAGATTCCTAACCTACATTAGCAGGTGCCGAG
*
672561 GGTATGAGATTAAATCTAGATTCCTAACCTACATTAGCAGGTGCCGAG
1 GGTATGAGAATAAATCTAGATTCCTAACCTACATTAGCAGGTGCCGAG
672609 GGCTATG
1 GG-TATG
672616 CCTTGGCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
48 48 0.92
49 4 0.08
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
GGTATGAGAATAAATCTAGATTCCTAACCTACATTAGCAGGTGCCGAG
Found at i:672795 original size:2 final size:2
Alignment explanation
Indices: 672783--672824 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
672773 TCTGGTAGTG
672783 TA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
672825 GTTAAGATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:674043 original size:14 final size:14
Alignment explanation
Indices: 674020--674054 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
674010 GTTCCTCATC
674020 TTTTTCTTTTCGTT
1 TTTTTCTTTTCGTT
*
674034 TTTTTTTTTTCGTT
1 TTTTTCTTTTCGTT
674048 TTCTTTC
1 TT-TTTC
674055 CCAAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 15 0.83
15 3 0.17
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTTTCTTTTCGTT
Found at i:675758 original size:29 final size:29
Alignment explanation
Indices: 675725--675781 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
675715 ATCGAAGTAT
675725 GAATCTTTTAGTAAAATCTGTATTTATAA
1 GAATCTTTTAGTAAAATCTGTATTTATAA
*
675754 GAATCTTTTAGTAAAATCTGTCTTTATA
1 GAATCTTTTAGTAAAATCTGTATTTATA
675782 CTTTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (29 bp):
GAATCTTTTAGTAAAATCTGTATTTATAA
Found at i:675771 original size:13 final size:13
Alignment explanation
Indices: 675726--675772 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
675716 TCGAAGTATG
675726 AATCTTTTAGTAA
1 AATCTTTTAGTAA
675739 AATCTGTATTTA-TAA
1 AATC--T-TTTAGTAA
675754 GAATCTTTTAGTAA
1 -AATCTTTTAGTAA
675768 AATCT
1 AATCT
675773 GTCTTTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.45
14 4 0.14
15 4 0.14
16 8 0.28
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (13 bp):
AATCTTTTAGTAA
Found at i:676029 original size:4 final size:4
Alignment explanation
Indices: 676020--676048 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
676010 GTTTGGGACC
676020 CTTT CTTT CTTT CTTT CTTT C-TT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
676049 GGATTTACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:677280 original size:12 final size:12
Alignment explanation
Indices: 677265--677333 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
677255 TTTCTTTAAG
*
677265 AAAAGAGGAAAA
1 AAAAAAGGAAAA
677277 AAAAAAGGAAAA
1 AAAAAAGGAAAA
*
677289 AAAAAA--AGAA
1 AAAAAAGGAAAA
677299 AAAAAAGGAAAA
1 AAAAAAGGAAAA
* * *
677311 GATAAAGAAAAAA
1 AAAAAAG-GAAAA
677324 AAAAAAGGAA
1 AAAAAAGGAA
677334 TGAAAGGAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 9 0.20
12 27 0.60
13 9 0.20
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (12 bp):
AAAAAAGGAAAA
Found at i:677300 original size:21 final size:21
Alignment explanation
Indices: 677275--677325 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
677265 AAAAGAGGAA
677275 AAAAAAAAGGAAAAAAAAAAAG
1 AAAAAAAAGG-AAAAAAAAAAG
* *
677297 AAAAAAAAGGAAAAGATAAAG
1 AAAAAAAAGGAAAAAAAAAAG
677318 AAAAAAAA
1 AAAAAAAA
677326 AAAAGGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAAAAGGAAAAAAAAAAG
Found at i:677300 original size:22 final size:25
Alignment explanation
Indices: 677273--677333 Score: 92
Period size: 22 Copynumber: 2.6 Consensus size: 25
677263 AGAAAAGAGG
677273 AAAAAAAAAAGGAAAA-A-AAA-AA
1 AAAAAAAAAAGGAAAAGATAAAGAA
*
677295 AGAAAAAAAAGGAAAAGATAAAGAA
1 AAAAAAAAAAGGAAAAGATAAAGAA
677320 AAAAAAAAAAGGAA
1 AAAAAAAAAAGGAA
677334 TGAAAGGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 15 0.44
23 1 0.03
24 3 0.09
25 15 0.44
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (25 bp):
AAAAAAAAAAGGAAAAGATAAAGAA
Found at i:677343 original size:34 final size:34
Alignment explanation
Indices: 677265--677330 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
677255 TTTCTTTAAG
* *
677265 AAAAGAGGAAAAAAAAAAGGAAAAAAAAAAAGAA
1 AAAAAAGGAAAAAAAAAAGAAAAAAAAAAAAGAA
* *
677299 AAAAAAGGAAAAGATAAAGAAAAAAAAAAAAG
1 AAAAAAGGAAAAAAAAAAGAAAAAAAAAAAAG
677331 GAATGAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (34 bp):
AAAAAAGGAAAAAAAAAAGAAAAAAAAAAAAGAA
Found at i:677936 original size:18 final size:18
Alignment explanation
Indices: 677894--677937 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
677884 TAATATTAAT
*
677894 TTATTACTAGAATTATCA
1 TTATTAATAGAATTATCA
*
677912 TTTTTAATAGAATTATC-
1 TTATTAATAGAATTATCA
677929 TTAATTAAT
1 TT-ATTAAT
677938 GAAATCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATTAATAGAATTATCA
Found at i:679430 original size:13 final size:13
Alignment explanation
Indices: 679412--679438 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
679402 TTCTGGAGGG
679412 CAAACATATAGGT
1 CAAACATATAGGT
679425 CAAACATATAGGT
1 CAAACATATAGGT
679438 C
1 C
679439 CACCATGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (13 bp):
CAAACATATAGGT
Found at i:683023 original size:21 final size:22
Alignment explanation
Indices: 682999--683040 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
682989 ATTTTTGGCT
*
682999 AAAATAAAATATATTT-AGTTA
1 AAAATAAAATAAATTTCAGTTA
*
683020 AAAATAATATAAATTTCAGTT
1 AAAATAAAATAAATTTCAGTT
683041 TTATTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAATAAAATAAATTTCAGTTA
Found at i:684007 original size:38 final size:38
Alignment explanation
Indices: 683904--684046 Score: 130
Period size: 38 Copynumber: 3.7 Consensus size: 38
683894 TATACCACTA
* * *
683904 GTTAAAAATAGTGGTTTTTGTATT-GAACTGTG-TCATTG
1 GTTAAAAATAGTGATTTTTGT-TTCGAATTGTGCT-AATG
* * *
683942 GTTAAGAATAATGATTTTTATTTCGAATTGTGCTAATG
1 GTTAAAAATAGTGATTTTTGTTTCGAATTGTGCTAATG
* **
683980 GTTAAAAATAGTGATTTTTGTTTCGAATTATGCCTACCG
1 GTTAAAAATAGTGATTTTTGTTTCGAATTGTG-CTAATG
* *
684019 GTTTAGAATAGT-AGTTTTTGTTTCGAAT
1 GTTAAAAATAGTGA-TTTTTGTTTCGAAT
684047 CATGCCACCA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
37 2 0.02
38 56 0.64
39 29 0.33
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (38 bp):
GTTAAAAATAGTGATTTTTGTTTCGAATTGTGCTAATG
Found at i:684037 original size:39 final size:38
Alignment explanation
Indices: 683984--684079 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 38
683974 CTAATGGTTA
* *
683984 AAAATAGT-GATTTTTGTTTCGAATTATGCCTACCGGTTT
1 AAAATAGTAG-TTTTTGTTTCGAATCATGCC-ACCAGTTT
*
684023 AGAATAGTAGTTTTTGTTTCGAATCATGCCACCAGTTT
1 AAAATAGTAGTTTTTGTTTCGAATCATGCCACCAGTTT
*
684061 AAAATAATAGTTTTTGTTT
1 AAAATAGTAGTTTTTGTTT
684080 ATAACTTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
38 24 0.47
39 26 0.51
40 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (38 bp):
AAAATAGTAGTTTTTGTTTCGAATCATGCCACCAGTTT
Found at i:684072 original size:38 final size:39
Alignment explanation
Indices: 683994--684079 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 39
683984 AAAATAGTGA
* * * *
683994 TTTTTGTTTCGAATTATGCCTACCGGTTTAGAATAGTAG
1 TTTTTGTTTCGAATCATGCCTACCAGTTTAAAATAATAG
684033 TTTTTGTTTCGAATCATGCC-ACCAGTTTAAAATAATAG
1 TTTTTGTTTCGAATCATGCCTACCAGTTTAAAATAATAG
684071 TTTTTGTTT
1 TTTTTGTTT
684080 ATAACTTGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 24 0.56
39 19 0.44
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (39 bp):
TTTTTGTTTCGAATCATGCCTACCAGTTTAAAATAATAG
Found at i:685065 original size:29 final size:29
Alignment explanation
Indices: 685025--685082 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
685015 ATTAGAATTC
*
685025 TTTTTTTAGCTTCATCTTTGTAAACACCT
1 TTTTTTTAGCTTCATCTTTATAAACACCT
685054 TTTTTTTAGCTTCATCTTTATAAACACCT
1 TTTTTTTAGCTTCATCTTTATAAACACCT
685083 AACATTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.21, G:0.05, T:0.52
Consensus pattern (29 bp):
TTTTTTTAGCTTCATCTTTATAAACACCT
Found at i:685090 original size:29 final size:29
Alignment explanation
Indices: 685029--685091 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
685019 GAATTCTTTT
* ****
685029 TTTAGCTTCATCTTTGTAAACACCTTTTT
1 TTTAGCTTCATCTTTATAAACACCTAACA
685058 TTTAGCTTCATCTTTATAAACACCTAACA
1 TTTAGCTTCATCTTTATAAACACCTAACA
685087 TTTAG
1 TTTAG
685092 AGGTATTCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.46
Consensus pattern (29 bp):
TTTAGCTTCATCTTTATAAACACCTAACA
Found at i:695497 original size:16 final size:16
Alignment explanation
Indices: 695473--695506 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
695463 CCTGGCCTGA
695473 CACGAAATACAAGCCT
1 CACGAAATACAAGCCT
* *
695489 CACGGAATACGAGCCT
1 CACGAAATACAAGCCT
695505 CA
1 CA
695507 TTCTAGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.12
Consensus pattern (16 bp):
CACGAAATACAAGCCT
Found at i:696496 original size:2 final size:2
Alignment explanation
Indices: 696489--696517 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
696479 AGAGCAAATC
696489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
696518 ACATAATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:698134 original size:21 final size:21
Alignment explanation
Indices: 698093--698134 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
698083 TAAGGATGTG
*
698093 TTTGATAAAATATTAAAAATT
1 TTTGATAAAATATAAAAAATT
*
698114 TTTGATGAAATA-AAAATAATT
1 TTTGATAAAATATAAAA-AATT
698135 CAGCATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTGATAAAATATAAAAAATT
Found at i:698780 original size:19 final size:19
Alignment explanation
Indices: 698758--698804 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
698748 TTAATAAAAA
698758 ATTAATAAATTATATTTAT
1 ATTAATAAATTATATTTAT
*
698777 ATTAAT--ATTATATTTTT
1 ATTAATAAATTATATTTAT
698794 A-TAATTAAATT
1 ATTAA-TAAATT
698805 TATGTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
19 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTAATAAATTATATTTAT
Found at i:699214 original size:13 final size:13
Alignment explanation
Indices: 699193--699222 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
699183 CGATACATGG
*
699193 TACATTGTATCGA
1 TACAATGTATCGA
699206 TACAATGTATCGA
1 TACAATGTATCGA
699219 TACA
1 TACA
699223 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:699220 original size:33 final size:33
Alignment explanation
Indices: 699178--699240 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
699168 TACCACTGTT
*
699178 TGTATCGATACATGGT-ACATTGTATCGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
699211 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGATGAATTGTATCGATA
699241 TATTGCTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:705603 original size:13 final size:13
Alignment explanation
Indices: 705585--705609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
705575 CATAAAATGT
705585 TGTATCGATACAA
1 TGTATCGATACAA
705598 TGTATCGATACA
1 TGTATCGATACA
705610 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:705692 original size:13 final size:13
Alignment explanation
Indices: 705674--705698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
705664 ATTACTCACA
705674 TGTATCGATACAT
1 TGTATCGATACAT
705687 TGTATCGATACA
1 TGTATCGATACA
705699 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:705763 original size:52 final size:52
Alignment explanation
Indices: 705707--705831 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
705697 CACTGATCTT
*
705707 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
705759 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
705811 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
705832 CTTTTCCTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:709814 original size:79 final size:79
Alignment explanation
Indices: 709648--710048 Score: 510
Period size: 79 Copynumber: 5.1 Consensus size: 79
709638 TAATAATAGG
* * * * *
709648 GTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGCAT-CCCGATTGTGAAAAATCGATGATTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA
*
709712 AAAATAAAATCGG-
66 GAAATAAAATCGGA
*
709725 GATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGACTATGAAAAATTGATGTTTT
1 G-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTT
709790 AGAAATAAAATCGGA
65 AGAAATAAAATCGGA
* * * *
709805 GTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTAAGAAAAATTGATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA
** *
709870 GAAATAAAGCCGGG
66 GAAATAAAATCGGA
* *
709884 GTTGGGGTA-CCCCTTGAAAATAACGGGGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA
* *
709945 AAAATAAAATCGGG
66 GAAATAAAATCGGA
* * * * * *
709959 GTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTATCTCCGATTGTG-AAAAGTCAGTGTTTT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTT
*
710023 GGAAATAAAATCGGA
65 AGAAATAAAATCGGA
710038 GTTGGAGTATC
1 GTTGGAGTATC
710049 TCCAATTATG
Statistics
Matches: 280, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
75 35 0.12
76 30 0.11
77 1 0.00
78 71 0.25
79 142 0.51
80 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTA
GAAATAAAATCGGA
Found at i:710028 original size:154 final size:155
Alignment explanation
Indices: 709646--710048 Score: 544
Period size: 154 Copynumber: 2.6 Consensus size: 155
709636 GATAATAATA
* * * *
709646 GGGTTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGCATCCCGATTGTGAAAAATCGATGATTT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCGATTGTGAAAAATCGATGTTTT
* *
709711 AAAAATAAAATCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGACTATGA
66 AGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGA--ATGA
*
709776 AAAATTGATGTTTTAGAAATAAAATCG
129 AAAATTGATGTTTTAAAAATAAAATCG
* ** * *
709803 GAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTCGATTAAGAAAAATTGATATTT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCC-CGATTGTGAAAAATCGATGTTT
* * * *
709868 TAGAAATAAAGCCGGGGTTGGGGTA-CCCCTTGAAAATAACGGGGTTGGAGTATCCCCG-ATGAA
65 TAGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAATGAA
709931 AAATTGATGTTTTAAAAATAAAATCG
130 AAATTGATGTTTTAAAAATAAAATCG
* *
709957 GGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTATCTCCGATTGTGAAAAGTC-AGTGTT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATC-CCGATTGTGAAAAATCGA-TGTT
* *
710021 TTGGAAATAAAATC-GGAGTTGGAGTATC
64 TTAGAAATAAAACCGGGA-TTGGAGTATC
710049 TCCAATTATG
Statistics
Matches: 213, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
153 3 0.01
154 101 0.47
155 2 0.01
157 70 0.33
158 37 0.17
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (155 bp):
GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCGATTGTGAAAAATCGATGTTTT
AGAAATAAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAATGAAA
AATTGATGTTTTAAAAATAAAATCG
Found at i:710042 original size:51 final size:49
Alignment explanation
Indices: 709987--710163 Score: 160
Period size: 51 Copynumber: 3.5 Consensus size: 49
709977 AAATAACGGG
* *
709987 GTTGGAGTATCTCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-T-AGTGTTTTGGAAATAAAATCGGA
* * * * *
710038 GTTGGAGTATCTCCAATTATGGAAAATGGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAT-GAAAAT-AGTGTTTTGGAAATAAAATCGGA
* * * * *
710089 GTTAGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATG-AAAATAG-TGTTTTGGAAATAAAATCGGA
*
710139 GATTGGAGTATCCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
710164 ATCTAGAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
49 4 0.04
50 5 0.05
51 90 0.87
52 5 0.05
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTATGAAAATAGTGTTTTGGAAATAAAATCGGA
Found at i:712468 original size:20 final size:20
Alignment explanation
Indices: 712443--712536 Score: 120
Period size: 20 Copynumber: 4.7 Consensus size: 20
712433 AAAATGCCTG
*
712443 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGA
* *
712463 AATGTATCAATACAATGAGC
1 AATGTATCGATACAATGAGA
*
712483 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGA
712503 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
712523 AATGTATCGATACA
1 AATGTATCGATACA
712537 TCTGGGTAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 65 0.97
21 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:712593 original size:13 final size:13
Alignment explanation
Indices: 712575--712600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
712565 ACAAAGATCG
712575 ATGTATCGATACA
1 ATGTATCGATACA
712588 ATGTATCGATACA
1 ATGTATCGATACA
712601 TTTCCTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:713282 original size:40 final size:42
Alignment explanation
Indices: 713238--713337 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
713228 GTCCCACTTT
* *
713238 TTGAGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCC
* * *
713278 TTGAGGACAAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
713320 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAG-GAAAA
713338 AGAGTACGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.34
41 4 0.08
42 25 0.50
43 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (42 bp):
TTGAGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCC
Found at i:713486 original size:45 final size:44
Alignment explanation
Indices: 713387--713541 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 44
713377 AAACAAAATG
* ** *
713387 GTCCTACTCTTTGAGGACAAAA--AAAGGAGGAAAAATAAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAAGGAAA-GAAAAAAAAT-AAAGTGT
** *
713431 GTCCTGCTCTTTGAGGACAAAAGAGAAA-AGAAAGGAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAG-GAAAGA-AAAAAAATAAAGTGT
713476 GTCCTGCTCTTTGAGGAC-AAAGGAAAGAAAAAAAATAAAGTGT
1 GTCCTGCTCTTTGAGGACAAAAGGAAAGAAAAAAAATAAAGTGT
*
713519 GTCCCGCTCTTTGAGGACTAAAA
1 GTCCTGCTCTTTGAGGAC-AAAA
713542 AGTGTCGCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
43 33 0.35
44 26 0.28
45 27 0.29
46 4 0.04
47 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.21
Consensus pattern (44 bp):
GTCCTGCTCTTTGAGGACAAAAGGAAAGAAAAAAAATAAAGTGT
Found at i:713531 original size:43 final size:43
Alignment explanation
Indices: 713357--713536 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 43
713347 CCCGTTTTTC
* * * * *
713357 GAGGATAAAGGAAA-AAAGGAAAACAAAATG-GTCCTACTCTTT
1 GAGGACAAAGGAAAGAAA-AAAAATAAAGTGTGTCCTGCTCTTT
* ** *
713399 GAGGACAAA-AAAAGGAGGAAAAATAAAAGTGCGTCCTGCTCTTT
1 GAGGACAAAGGAAA-GAAAAAAAAT-AAAGTGTGTCCTGCTCTTT
** *
713443 GAGGACAAAAGAGAAA-AGAAAGGAATGAAGTGTGTCCTGCTCTTT
1 GAGGAC-AAAG-GAAAGA-AAAAAAATAAAGTGTGTCCTGCTCTTT
*
713488 GAGGACAAAGGAAAGAAAAAAAATAAAGTGTGTCCCGCTCTTT
1 GAGGACAAAGGAAAGAAAAAAAATAAAGTGTGTCCTGCTCTTT
713531 GAGGAC
1 GAGGAC
713537 TAAAAAGTGT
Statistics
Matches: 110, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
41 3 0.03
42 12 0.11
43 39 0.35
44 22 0.20
45 27 0.25
46 4 0.04
47 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (43 bp):
GAGGACAAAGGAAAGAAAAAAAATAAAGTGTGTCCTGCTCTTT
Found at i:713638 original size:61 final size:61
Alignment explanation
Indices: 713524--714036 Score: 506
Period size: 60 Copynumber: 8.6 Consensus size: 61
713514 AGTGTGTCCC
** * * *
713524 GCTCTTTGAGGACTAAAAAGTGTCGCCAACTCGTGTGGGCTTTGAAAAG-GAAAGGCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAAGGCATCCT
* *
713585 ACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTG-GGGCTTTACAAAGAGAAA-GCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTA-AAAGAGAAAGGCATCCT
* * * ** * *
713645 GCTCTTTGAGGACTGGAAAATACCACTAACTTGTGTGGGCTTGGAAAG-GAAAAGGCGTCTT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAG-AAAGGCATCCT
** *
713706 GCTCTTTGAGGACTTAAAAAGTGCCACTAACTTGTGTGGGCTTTGCAAAA-AGAAA-GCATCCT
1 GCTCTTTGAGGAC-TGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAGAGAAAGGCATCCT
* **
713768 GCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-GAGAAGGTGTCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGA-AAGGCATCCT
* *
713829 GCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTT-----A-AAAGGCATCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGGCATCCT
* * *
713883 ACTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAA-AAAAAGGCGTCCT
1 GCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGGCATCCT
* ** * * * * *
713943 GCTCTTTGAGGACTGGAAGGTGCCAATAACTCGTGTGGGCTTTGAAGGAG-AAGACGTCCT
1 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGGCATCCT
714003 GCTCTTTGAGGACT--AAAGGGTGCCACCAACTTGT
1 GCTCTTTGAGGACTGGAAA--GTGCCACCAACTTGT
714037 CCAATCCTCC
Statistics
Matches: 378, Mismatches: 50, Indels: 49
0.79 0.10 0.10
Matches are distributed among these distances:
54 21 0.06
55 25 0.07
56 1 0.00
58 2 0.01
59 11 0.03
60 164 0.43
61 104 0.28
62 43 0.11
63 3 0.01
64 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGGCATCCT
Found at i:713767 original size:183 final size:175
Alignment explanation
Indices: 713524--714016 Score: 589
Period size: 183 Copynumber: 2.8 Consensus size: 175
713514 AGTGTGTCCC
* * * * *
713524 GCTCTTTGAGGACTAAAAAGTGTCGCCAACTCGTGTGGGCTTTGAAAAGGAAAGGCATCCTACTC
1 GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGGCATCCTGCTC
*
713589 TTTGAGGACTGGAAGGTGCCACCAACTTGTG-GGGCTTTACAAAGAGAAAGCATCCTGCTCTTTG
66 TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAGAAAGCGTCCTGCTCTTTG
* * *
713653 AGGACTGGAAAATACCACTAACTTGTGTGGGCTTGGAAAGGAAAAGGCGTCTT
130 AGGACT-GAAAATACCACCAACTTGTGTGGGCTT------GAAAAGGCATCCT
*
713706 GCTCTTTGAGGACTTAAAAAGTGCCACTAACTTGTGTGGGCTTTGCAAAAAGAAA-GCATCCTGC
1 GCTCTTTGAGGAC-TAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAAGAAAGGCATCCTGC
* * * *
713770 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCTT
64 TCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAAGCGTCCTGCTCTT
** * * *
713835 TGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCT
128 TGAGGACTGAAAATACCACCAACTTGTGTGGGCTTGAAAAGGCATCCT
* ** * *
713883 ACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAAAAAGGCGTCCTGCTC
1 GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGGCATCCTGCTC
** * * *
713947 TTTGAGGACTGGAAGGTGCCAATAACTCGTGTGGGCTTTGAAGGAG-AAGACGTCCTGCTCTTTG
66 TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAG-CGTCCTGCTCTTTG
714011 AGGACT
130 AGGACT
714017 AAAGGGTGCC
Statistics
Matches: 271, Mismatches: 34, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
173 2 0.01
174 30 0.11
175 46 0.17
176 27 0.10
177 22 0.08
182 13 0.05
183 91 0.34
184 40 0.15
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (175 bp):
GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAGGCATCCTGCTC
TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGCGTCCTGCTCTTTGA
GGACTGAAAATACCACCAACTTGTGTGGGCTTGAAAAGGCATCCT
Found at i:716853 original size:20 final size:19
Alignment explanation
Indices: 716810--716869 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
716800 ACATTATGCT
***
716810 TTGTATCGATACATGTTTA
1 TTGTATCGATACATGACAA
716829 TTGTATCGATACATAGACAA
1 TTGTATCGATACAT-GACAA
716849 TTGTATCGATACATGA-AA
1 TTGTATCGATACATGACAA
716867 TTG
1 TTG
716870 GTAGCAGCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.14
19 16 0.43
20 16 0.43
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGACAA
Found at i:716910 original size:43 final size:43
Alignment explanation
Indices: 716849--716949 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
716839 ACATAGACAA
* *
716849 TTGTATCGATACATGAAATTGGTAGCAGCTACCCTGCCACTGT
1 TTGTATCGATACATGAAATTGGTAGCAGCCACCCTACCACTGT
*
716892 TTGTATCGATACATGAAATTGGTAGTAGCCACCCTACCACTGT
1 TTGTATCGATACATGAAATTGGTAGCAGCCACCCTACCACTGT
716935 TTGTATCGATACATG
1 TTGTATCGATACATG
716950 GTATATTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
TTGTATCGATACATGAAATTGGTAGCAGCCACCCTACCACTGT
Found at i:718305 original size:24 final size:23
Alignment explanation
Indices: 718272--718343 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
718262 AAAATAAAAA
718272 TAAATATAAATATATTAACACATTT
1 TAAA-ATAAATATATTAACA-ATTT
* * *
718297 TAAAATAAAATAAAATAATAATTT
1 TAAAAT-AAATATATTAACAATTT
* * *
718321 TTAAATAAATATATAAATAATTT
1 TAAAATAAATATATTAACAATTT
718344 ATTCAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 14 0.36
24 11 0.28
25 14 0.36
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATAAATATATTAACAATTT
Found at i:718307 original size:25 final size:24
Alignment explanation
Indices: 718273--718336 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
718263 AAATAAAAAT
*
718273 AAATATAAATATATTAACACATTTTA
1 AAATA-AAATATAATAACA-ATTTTA
* * *
718299 AAATAAAATAAAATAATAATTTTT
1 AAATAAAATATAATAACAATTTTA
718323 AAATAAATATATAA
1 AAATAAA-ATATAA
718337 ATAATTTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 12 0.38
25 15 0.47
26 5 0.16
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAAAATATAATAACAATTTTA
Found at i:718339 original size:23 final size:23
Alignment explanation
Indices: 718272--718343 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
718262 AAAATAAAAA
* *
718272 TAAATATAAATATATTAACACATTT
1 TAAA-ATAAATATATAAATA-ATTT
*
718297 TAAAATAAA-ATAAAATAATAATTT
1 TAAAATAAATAT-ATA-AATAATTT
*
718321 TTAAATAAATATATAAATAATTT
1 TAAAATAAATATATAAATAATTT
718344 ATTCAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 10 0.26
24 20 0.51
25 9 0.23
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATAAATATATAAATAATTT
Found at i:718380 original size:29 final size:30
Alignment explanation
Indices: 718324--718398 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 30
718314 ATAATTTTTA
* * * *
718324 AATAAATATATAAATAATTTATT-CAAAAT
1 AATAATTATTTAAATAATTGATTAAAAAAT
*
718353 AATAATTATTTAAATGATTGATTAAAAAAT
1 AATAATTATTTAAATAATTGATTAAAAAAT
*
718383 TATAAACTTATTTAAA
1 AAT-AA-TTATTTAAA
718399 GGCTTTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 19 0.51
30 7 0.19
31 2 0.05
32 9 0.24
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (30 bp):
AATAATTATTTAAATAATTGATTAAAAAAT
Found at i:718457 original size:6 final size:7
Alignment explanation
Indices: 718441--718465 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
718431 ATAAAACTAT
718441 AAAATTA
1 AAAATTA
718448 AAAATTA
1 AAAATTA
718455 AAAATTA
1 AAAATTA
718462 AAAA
1 AAAA
718466 AACAACAACA
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:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:718748 original size:48 final size:48
Alignment explanation
Indices: 718693--718793 Score: 157
Period size: 48 Copynumber: 2.1 Consensus size: 48
718683 TAAAGATCAT
* ** **
718693 AATATAAATCAATATTTAAATTTTAAATTAAGGAATAAATAAATTCAA
1 AATATAAATCAATATTTAAATTTTAAACTAAAAAATAAATAAACCCAA
718741 AATATAAATCAATATTTAAATTTTAAACTAAAAAATAAATAAACCCAA
1 AATATAAATCAATATTTAAATTTTAAACTAAAAAATAAATAAACCCAA
718789 AATAT
1 AATAT
718794 GTGTTTAAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (48 bp):
AATATAAATCAATATTTAAATTTTAAACTAAAAAATAAATAAACCCAA
Found at i:719380 original size:21 final size:21
Alignment explanation
Indices: 719339--719381 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
719329 TTTGAATGGC
*
719339 TTTTAAGAAATGGTAAGTTTT
1 TTTTAAGAAATGATAAGTTTT
719360 TTTTAAGAGAAT-ATAA-TTTT
1 TTTTAAGA-AATGATAAGTTTT
719380 TT
1 TT
719382 AAATTTGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 11 0.55
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (21 bp):
TTTTAAGAAATGATAAGTTTT
Found at i:721762 original size:28 final size:29
Alignment explanation
Indices: 721703--721764 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
721693 ATTAACAATA
* *
721703 ATTTATTATATTTTTAAATATTTTATATT
1 ATTTATTATATTTTTAAAAATTTTAGATT
*
721732 ATTTATT-TATTATTTAAAAATTTT-GGTT
1 ATTTATTATATT-TTTAAAAATTTTAGATT
721760 ATTTA
1 ATTTA
721765 AATATTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (29 bp):
ATTTATTATATTTTTAAAAATTTTAGATT
Found at i:721814 original size:18 final size:19
Alignment explanation
Indices: 721793--721828 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
721783 TTTTATATTT
*
721793 ATAGATAA-ATAAATATAC
1 ATAGATAATAGAAATATAC
721811 ATAGATAATAGAAATATA
1 ATAGATAATAGAAATATA
721829 TTTGCATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (19 bp):
ATAGATAATAGAAATATAC
Found at i:722409 original size:32 final size:33
Alignment explanation
Indices: 722373--722440 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 33
722363 TTAATTTACT
722373 TAAAATTATTATTTAAAAGC-TTTTTTGTAATA
1 TAAAATTATTATTTAAAAGCTTTTTTTGTAATA
*
722405 TAAAATTGTTATTTAAAAGCTTTTTTTGTAATA
1 TAAAATTATTATTTAAAAGCTTTTTTTGTAATA
722438 TAA
1 TAA
722441 TCTGAATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.56
33 15 0.44
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (33 bp):
TAAAATTATTATTTAAAAGCTTTTTTTGTAATA
Found at i:722765 original size:29 final size:29
Alignment explanation
Indices: 722714--722783 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
722704 AAAATGATAA
* * * *
722714 TTTATATATTCAT-ATCGTGTTTATATTAT
1 TTTATATATT-ATAATCATATTTAAAATAT
722743 TTTATATATTATAATCATATTTAAAATAT
1 TTTATATATTATAATCATATTTAAAATAT
*
722772 TATATA-ATTATA
1 TTTATATATTATA
722784 TAAATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (29 bp):
TTTATATATTATAATCATATTTAAAATAT
Found at i:723276 original size:32 final size:32
Alignment explanation
Indices: 723215--723276 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
723205 AATGAATTTT
*
723215 AAATAAAAAGTTTTTTTTGTTATGATAAAATA
1 AAATAAAAAGTTTTTTTTGTTATAATAAAATA
723247 AAATAAAAAGTTTTTTTTGTTA-AATTAAAA
1 AAATAAAAAGTTTTTTTTGTTATAA-TAAAA
723277 ATTAATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (32 bp):
AAATAAAAAGTTTTTTTTGTTATAATAAAATA
Found at i:725874 original size:48 final size:48
Alignment explanation
Indices: 725812--725935 Score: 126
Period size: 48 Copynumber: 2.6 Consensus size: 48
725802 GAATAAGAAA
* * ** *
725812 ATAGAACAAAGGAAAAAAATATAAGATAGAA-TGGAA-AAAGGTAATAAG
1 ATAGAACCAAGGAAAAAAATAAAAGATA-AAGTGGAAGAAA-AAAAAAAG
* * *
725860 ATAGAACCATGGAAAACAATAGAAGATAAAGTGGAAGAAAAAAAAAAG
1 ATAGAACCAAGGAAAAAAATAAAAGATAAAGTGGAAGAAAAAAAAAAG
* *
725908 AAAGAACCAAGGAAAAGAATAAAAGATA
1 ATAGAACCAAGGAAAAAAATAAAAGATA
725936 CAATATAGGA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 2 0.03
48 58 0.92
49 3 0.05
ACGTcount: A:0.64, C:0.05, G:0.20, T:0.11
Consensus pattern (48 bp):
ATAGAACCAAGGAAAAAAATAAAAGATAAAGTGGAAGAAAAAAAAAAG
Found at i:729686 original size:58 final size:57
Alignment explanation
Indices: 729609--729894 Score: 238
Period size: 58 Copynumber: 4.9 Consensus size: 57
729599 TTCTATGACT
* * * * * * *
729609 TAAGAACTTTTATGTAATTTTATATACGTTAGGATCATTTAAGTCATTTTGCATGATT
1 TAAGGACTTTTATGCAATTTTATGTATGTTAGG-TCATTTAGGTCATTTTTCATGATC
* * *
729667 TAAGGATTTTTATGCAATTTGATGTAATTTTAAGGTCATTTAGGTCATTTTTCATGATC
1 TAAGGACTTTTATGCAATTTTATGT-ATGTT-AGGTCATTTAGGTCATTTTTCATGATC
* * * *
729726 TAAGGACTTTTATGCAAATTTTTTGTGTGTTGGGTCATTTAGGTCATTTTTTATGATC
1 TAAGGACTTTTATGC-AATTTTATGTATGTTAGGTCATTTAGGTCATTTTTCATGATC
* * ** * * *
729784 TAAGGACTTTTATGTATATTTCATACAT-TT-TGTCATTTAGGTAATTTTTCATGATT
1 TAAGGACTTTTATGCA-ATTTTATGTATGTTAGGTCATTTAGGTCATTTTTCATGATC
* * * * *
729840 TATA-GAC-CTTATTGCAATTTTATGAATGATGATGTCACTTAGGTCATTTTTCATG
1 TA-AGGACTTTTA-TGCAATTTTATGTATG-TTAGGTCATTTAGGTCATTTTTCATG
729895 GTTTAGTGTT
Statistics
Matches: 184, Mismatches: 35, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
55 11 0.06
56 30 0.16
57 5 0.03
58 86 0.47
59 41 0.22
60 11 0.06
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (57 bp):
TAAGGACTTTTATGCAATTTTATGTATGTTAGGTCATTTAGGTCATTTTTCATGATC
Found at i:729735 original size:117 final size:114
Alignment explanation
Indices: 729609--729838 Score: 250
Period size: 117 Copynumber: 2.0 Consensus size: 114
729599 TTCTATGACT
* *
729609 TAAGAACTTTTATG-TAATTTTATATACGTTAGGATCATTTAAGTCATTTTGCATGATTTAAGGA
1 TAAGAACTTTTATGCAAATTTTATATACGTT-GGATCATTTAAGTCATTTTGCATGATCTAAGGA
* * *
729673 TTTTTATGCA-ATTTGATGTA-ATTTTAAGGTCATTTAGGTCATTTTTCATGATC
65 CTTTTATGCATATTTCA--TACATTTT---GTCATTTAGGTAATTTTTCATGATC
* * * ** * * **
729726 TAAGGACTTTTATGCAAATTTTTTGTGTGTTGGGTCATTTAGGTCATTTTTTATGATCTAAGGAC
1 TAAGAACTTTTATGCAAATTTTATATACGTTGGATCATTTAAGTCATTTTGCATGATCTAAGGAC
*
729791 TTTTATGTATATTTCATACATTTTGTCATTTAGGTAATTTTTCATGAT
66 TTTTATGCATATTTCATACATTTTGTCATTTAGGTAATTTTTCATGAT
729839 TTATAGACCT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
114 23 0.24
116 2 0.02
117 54 0.57
118 16 0.17
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.49
Consensus pattern (114 bp):
TAAGAACTTTTATGCAAATTTTATATACGTTGGATCATTTAAGTCATTTTGCATGATCTAAGGAC
TTTTATGCATATTTCATACATTTTGTCATTTAGGTAATTTTTCATGATC
Found at i:729795 original size:29 final size:29
Alignment explanation
Indices: 729705--729795 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
729695 TTTAAGGTCA
*
729705 TTTAGGTCATTTTTCATGATCTAAGGACT
1 TTTAGGTCATTTTTTATGATCTAAGGACT
* * * ** * *
729734 TTTATG-CAAATTTTTTGTG-TGTTGGGTCA
1 TTTAGGTC--ATTTTTTATGATCTAAGGACT
729763 TTTAGGTCATTTTTTATGATCTAAGGACT
1 TTTAGGTCATTTTTTATGATCTAAGGACT
729792 TTTA
1 TTTA
729796 TGTATATTTC
Statistics
Matches: 43, Mismatches: 15, Indels: 8
0.65 0.23 0.12
Matches are distributed among these distances:
28 10 0.23
29 24 0.56
30 9 0.21
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (29 bp):
TTTAGGTCATTTTTTATGATCTAAGGACT
Found at i:736054 original size:25 final size:24
Alignment explanation
Indices: 736017--736089 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
736007 TATTTAAATT
736017 TAATTA-ATT-TTTAGTTATTTTTA
1 TAATTAGATTATTTA-TTATTTTTA
*
736040 -AATTAGTTTTATTTATT-TTCTTTA
1 TAATTAG-ATTATTTATTATT-TTTA
*
736064 TAATTAGATTATATATTATTTTTA
1 TAATTAGATTATTTATTATTTTTA
736088 TA
1 TA
736090 TTTTTGTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 22 0.54
25 12 0.29
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (24 bp):
TAATTAGATTATTTATTATTTTTA
Found at i:736523 original size:27 final size:27
Alignment explanation
Indices: 736484--736539 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
736474 ACACGAAATG
* *
736484 ATGGGCATGGAATATAAAAATGAAGGC
1 ATGGGCATAGAATAAAAAAATGAAGGC
736511 ATGGGCATAGAATAAAAAAATGAAGGC
1 ATGGGCATAGAATAAAAAAATGAAGGC
736538 AT
1 AT
736540 AATATGATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.27, T:0.18
Consensus pattern (27 bp):
ATGGGCATAGAATAAAAAAATGAAGGC
Found at i:736559 original size:35 final size:34
Alignment explanation
Indices: 736511--736661 Score: 163
Period size: 35 Copynumber: 4.5 Consensus size: 34
736501 AAATGAAGGC
*
736511 ATGGGCATAGAATAAAAAAATGAAGGCATAATATG
1 ATGGGCATGGAATAAAAAAATGAAGGCATAA-ATG
* *
736546 ATGGGCATGGAATATAAAAATGAAGGCATGCAATG
1 ATGGGCATGGAATAAAAAAATGAAGGCAT-AAATG
* *
736581 ATGGGTATGGAATATAAAAATGAAGGC-------
1 ATGGGCATGGAATAAAAAAATGAAGGCATAAATG
*
736608 ATGGGCATGGAATAAAAAAAATGAAGGTATAATATG
1 ATGGGCATGGAAT-AAAAAAATGAAGGCATAA-ATG
736644 ATGGGCATGGAATAAAAA
1 ATGGGCATGGAATAAAAA
736662 TTAAAGGCAT
Statistics
Matches: 99, Mismatches: 7, Indels: 20
0.79 0.06 0.16
Matches are distributed among these distances:
27 12 0.12
28 12 0.12
35 61 0.62
36 14 0.14
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.21
Consensus pattern (34 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATAAATG
Found at i:736611 original size:27 final size:28
Alignment explanation
Indices: 736581--736634 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
736571 GCATGCAATG
* *
736581 ATGGGTATGGAAT-ATAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAAATGAAGGC
736608 ATGGGCATGGAATAAAAAAAATGAAGG
1 ATGGGCATGGAATAAAAAAAATGAAGG
736635 TATAATATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.48, C:0.04, G:0.30, T:0.19
Consensus pattern (28 bp):
ATGGGCATGGAATAAAAAAAATGAAGGC
Found at i:736612 original size:62 final size:62
Alignment explanation
Indices: 736546--736673 Score: 170
Period size: 63 Copynumber: 2.1 Consensus size: 62
736536 GCATAATATG
* * * *
736546 ATGGGCATGGAAT-ATAAAAATGAAGGCATGCA-ATGATGGGTATGGAATATAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAAATGAAGGCAT-AATATGATGGGCATGGAATA-AAAAATAAAGGC
* *
736608 ATGGGCATGGAATAAAAAAAATGAAGGTATAATATGATGGGCATGGAATAAAAATTAAAGGC
1 ATGGGCATGGAATAAAAAAAATGAAGGCATAATATGATGGGCATGGAATAAAAAATAAAGGC
736670 ATGG
1 ATGG
736674 AATGATGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
62 28 0.48
63 30 0.52
ACGTcount: A:0.45, C:0.05, G:0.28, T:0.21
Consensus pattern (62 bp):
ATGGGCATGGAATAAAAAAAATGAAGGCATAATATGATGGGCATGGAATAAAAAATAAAGGC
Found at i:736669 original size:97 final size:97
Alignment explanation
Indices: 736480--736681 Score: 334
Period size: 97 Copynumber: 2.1 Consensus size: 97
736470 AAAAACACGA
736480 AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATAGAATAAAAAAATGAAGGCATAATAT
1 AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATAGAATAAAAAAATGAAGGCATAATAT
*
736545 GATGGGCATGGAATATAAAAATGAAGGCATGC
66 GATGGGCATGGAATATAAAAATAAAGGCATGC
* * *
736577 AATGATGGGTATGGAATATAAAAATGAAGGCATGGGCATGGAATAAAAAAAATGAAGGTATAATA
1 AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATAGAAT-AAAAAAATGAAGGCATAATA
* *
736642 TGATGGGCATGGAATA-AAAATTAAAGGCATGG
65 TGATGGGCATGGAATATAAAAATAAAGGCATGC
736674 AATGATGG
1 AATGATGG
736682 ATAGAAAGGA
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 63 0.64
98 35 0.36
ACGTcount: A:0.46, C:0.05, G:0.28, T:0.21
Consensus pattern (97 bp):
AATGATGGGCATGGAATATAAAAATGAAGGCATGGGCATAGAATAAAAAAATGAAGGCATAATAT
GATGGGCATGGAATATAAAAATAAAGGCATGC
Found at i:738027 original size:79 final size:79
Alignment explanation
Indices: 737890--738713 Score: 1333
Period size: 79 Copynumber: 10.4 Consensus size: 79
737880 GTTAAGTTTC
* * * *
737890 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGTGATACTCCAACCTCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
737955 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * * *
737969 TTAATTTTTCACAATCGGGGATACTCCAACCCCGCTATTTCCGAGGGGATACTTCAACCCCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738034 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
738048 TCAATTTTTCATAATCGGGGATACTCCAATCCAGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738113 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
738127 CCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
738192 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * *
738206 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738271 TTATTTCTAAAACA
66 TTATTTCTAAAACA
*
738285 TCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738350 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
738364 CCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
738429 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * * *
738443 TTAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCTAACCCCGGCT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738508 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
738522 TCAATTTTTCATAATCGGGGATACTCCAATCCTGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738587 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
738601 CCAATTTTTCATAATCGGGGATACTTCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
738666 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
738680 TCAATTTTTTATAATCGGGGATACTCTAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
738714 ATTTTATTTT
Statistics
Matches: 688, Mismatches: 57, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 688 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:738306 original size:237 final size:237
Alignment explanation
Indices: 737891--738713 Score: 1484
Period size: 237 Copynumber: 3.5 Consensus size: 237
737881 TTAAGTTTCT
* * *
737891 CAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGTGATACTCCAACCTCGGTTT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
*
737956 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGCTATTTCCGAGGGGATAC
66 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
*
738021 TTCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCAGTTAT
131 TCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCAGTTAT
738086 TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
196 TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
*
738128 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGTTT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
738193 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
66 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
* *
738258 TCCAACCTCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCCGTTAT
131 TCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCAGTTAT
738323 TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
196 TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
738365 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
*
738430 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATAC
66 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
* *
738495 TCTAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCTGTTAT
131 TCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCAGTTAT
738560 TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
196 TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
* *
738602 CAATTTTTCATAATCGGGGATACTTCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
* * * * *
738667 TATTTCTAAAACATCAATTTTTTATAATCGGGGATACTCTAACCCCG
66 TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCG
738714 ATTTTATTTT
Statistics
Matches: 567, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
237 567 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (237 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTT
TATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATAC
TCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCAGTTAT
TTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
Found at i:744958 original size:61 final size:61
Alignment explanation
Indices: 744848--745766 Score: 1215
Period size: 61 Copynumber: 15.3 Consensus size: 61
744838 TAGCCATTCC
*
744848 AGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
**
744910 AGTCCTCAAAGAGCAGGACGCCTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * *
744971 AGTCCTCAAAGAGTAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
*
745032 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * * *
745093 AGTCCTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * *
745154 CAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCAT-T
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* *
745215 CAGTCCTCAAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
745277 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * * *
745338 AGTCCTCAAAGAGCAGGACGACTGTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * * *
745399 CAGTCCTCAAAAAGTAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCAT-T
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
*** *
745460 CAGTCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* *
745516 AGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCATACAAGTTGGTGGCACCTTC-
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * *
745570 AGTCCTCAAAGAGCAGGATG-C-TTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTC-CTTTT-AAAGCCCACACAAGTTGGTGGCACCCTCT
* * *
745630 CAGTCTTCAAAAAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTC-
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* * *
745685 AGTCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCT-CT
*
745746 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
745767 TCTCTCCTTT
Statistics
Matches: 766, Mismatches: 63, Indels: 57
0.86 0.07 0.06
Matches are distributed among these distances:
53 4 0.01
54 38 0.05
55 101 0.13
56 2 0.00
59 6 0.01
60 46 0.06
61 437 0.57
62 132 0.17
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
Found at i:745189 original size:184 final size:181
Alignment explanation
Indices: 744848--745766 Score: 1199
Period size: 184 Copynumber: 5.1 Consensus size: 181
744838 TAGCCATTCC
*
744848 AGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGT
*
744913 CCTCAAAGAGCAGGACGCCT-TCGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT-AGTCC
65 CCTCAAAGAGCAGGACG-CTGT--CCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGTCC
744976 TCAAAGAGTAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
127 TCAAAGAGTAGGAC-GCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
*
745032 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
*
745097 CTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTTCAGTCCTC
66 CTCAAAGAGCAGGAC-GCTG-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGTCCTC
* *
745162 AAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCATTC
129 AAAGAGTAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
* *
745216 AGTCCTCAAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
* *
745281 CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT-AGTCCTC
66 CTCAAAGAGCAGGACG-C-TGTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGTCCTC
* * *
745345 AAAGAGCAGGACGACTGTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTT
129 AAAGAGTAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
* * * *
745399 CAGTCCTCAAAAAGTAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCAT-TCAG
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT-AG
*
745463 TCCTCAAAGAGCAGGA--C-G-CCTTTTAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCT
64 TCCTCAAAGAGCAGGACGCTGTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT-CAGTCCT
* * * *
745522 CAAAGAGCAGGACG-----CCTTTCAAAGCCCATACAAGTTGGTGGCA-CCTTC
128 CAAAGAGTAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
* * *
745570 AGTCCTCAAAGAGCAGGATG-C-TTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCA
1 AGTCCTCAAAGAGCAGGACGCCTTTTC-CTTTT-AAAGCCCACACAAGTTGGTGGCACCCTCT-A
* * *
745632 GTCTTCAAAAAGCAGGA--C-G-CCTTTCAAAGCCCACACAAGTTGGTGGCA-CC-TTCAGTCCT
63 GTCCTCAAAGAGCAGGACGCTGTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGTCCT
*
745691 CAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA--CTTCCT
128 CAAAGAGTAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTT--T
*
745746 AGTCCTCAAAGAGTAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
745767 TCTCTCCTTT
Statistics
Matches: 664, Mismatches: 47, Indels: 55
0.87 0.06 0.07
Matches are distributed among these distances:
168 4 0.01
169 27 0.04
170 89 0.13
171 4 0.01
172 26 0.04
174 3 0.00
175 26 0.04
176 20 0.03
178 49 0.07
181 1 0.00
183 151 0.23
184 262 0.39
185 2 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (181 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGTC
CTCAAAGAGCAGGACGCTGTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGTCCTCAA
AGAGTAGGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTT
Found at i:745278 original size:245 final size:242
Alignment explanation
Indices: 744848--745919 Score: 1332
Period size: 245 Copynumber: 4.6 Consensus size: 242
744838 TAGCCATTCC
* * * *
744848 AGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT-AG
1 AGTCCTCAAAGAGCAGGACGGC-TGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAG
* ** *
744912 TCCTCAAAGAGCAGGACGCCTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCTAGTCCT
65 TCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCT
*
744977 CAAAGAGTAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAA
129 CAAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA--CTTTAGTCCTCAAA
*
745042 GAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
192 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
*
745093 AGTCCTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTTCAGT
1 AGTCCTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGT
* * *
745158 CCTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCATTCAGTCCTC
66 CCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTC
745223 AAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAG
130 AAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA--CTTTAGTCCTCAAAG
745288 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
193 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* *
745338 AGTCCTCAAAGAGCAGGACGACTGTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCCTTTCAGT
1 AGTCCTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGT
* *
745403 CCTCAAAAAGTAGAACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCATTCAGTCCTC
66 CCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTC
*
745468 AAAGAGCAGGAC-G-----CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
130 AAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT--AGTCCTCAAAG
* *
745527 AGCAGGACGCC-TTT-C----AAAGCCCATACAAGTTGGTGGCACCTTC-
193 AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* *
745570 AGTCCTCAAAGAGCAGGA-TGCT-TTCTTTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTCA
1 AGTCCTCAAAGAGCAGGACGGCTGTTC-CTTTT-AAAGCCCACACAAGTTGGTGGCACCCTTTCA
*
745632 GTCTTCAAAAAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
64 GTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* * *
745691 CAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
129 CAAAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT--TAGTCCTCAAA
* * *
745756 GAGTAGGACG-C---T-C---T------CTC-C---TT--T--CACCCTTT
192 GAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
* **
745785 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGT
1 AGTCCTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGT
745849 CCTCAAAAAGCAGGA---C---TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCT
66 CCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C-AGTCCT
745907 CAAAGAGCAGGAC
129 CAAAGAGCAGGAC
745920 ACTCTCTTCT
Statistics
Matches: 761, Mismatches: 41, Indels: 79
0.86 0.05 0.09
Matches are distributed among these distances:
210 1 0.00
211 1 0.00
212 1 0.00
214 8 0.01
215 88 0.12
216 25 0.03
217 2 0.00
218 2 0.00
221 1 0.00
222 1 0.00
224 21 0.03
225 25 0.03
227 2 0.00
229 2 0.00
230 55 0.07
231 31 0.04
232 41 0.05
233 26 0.03
237 4 0.01
238 3 0.00
239 51 0.07
244 37 0.05
245 331 0.43
246 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (242 bp):
AGTCCTCAAAGAGCAGGACGGCTGTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAGT
CCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
AAGAGCAGGACGGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTAGTCCTCAAAGAGC
AGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCT
Found at i:745864 original size:100 final size:100
Alignment explanation
Indices: 745680--745864 Score: 291
Period size: 100 Copynumber: 1.9 Consensus size: 100
745670 GTTGGTGGCA
* * *
745680 CCTTCAGTCCTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
* *
745745 TAGTCCTCAAAGAGTAGGACGCTCTCTCCTTTCAC
66 TAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCAC
* *
745780 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
745845 C-AGTCCTCAAAAAGCAGGAC
65 CTAGTCCTCAAAAAGCAGGAC
745865 TCCTTTTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
100 73 0.95
101 4 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (100 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCC
TAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCAC
Found at i:745875 original size:55 final size:55
Alignment explanation
Indices: 745809--745919 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 55
745799 AGGACGCCTT
*
745809 CTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAAAGCAGGA
1 CTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAAAGCAGGA
*
745864 CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGA
745919 C
1 C
745920 ACTCTCTTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 4 0.08
55 49 0.92
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (55 bp):
CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGA
Found at i:745907 original size:155 final size:151
Alignment explanation
Indices: 745625--746402 Score: 841
Period size: 155 Copynumber: 4.9 Consensus size: 151
745615 GTTGGTGGCA
* *
745625 CCTTTCAGTCTTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTC
1 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
745689 CTCAAAGAGTAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCA
65 CTCAAAGAGCAGGA-G-C--TTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCA
*
745754 AAGAGTAGGACGCTCTCTCCTTTCAC
126 AAGAGCAGGACGCTCTCTCCTTTCAC
745780 CCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACCTTT
* *
745845 CAGTCCTCAAAAAGCAGGA-C-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
60 CAGTCCTCAAAGAGCAGGAGCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
* * *
745908 AAAGAGCAGGACACTCTCTTCTCTCAC
125 AAAGAGCAGGACGCTCTCTCCTTTCAC
*
745935 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCA-CTTTCAGTCC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* *
745999 TCAAAGAGCAGGACGCTTTTTCCATTTCAAAGCCCACACAAGTTGTTGGCACCATT-C-AGTCCT
66 TCAAAGAGCAGGA-GCTTCTT---TTT-AAAGCCCACACAAGTTGGTGGCA-C-TTCCTAGTCCT
* * **
746062 CAAAGAGCAGGACGCCTTTTAAAGCCCACACTAGTTGGTGGC
124 CAAAGAGCAGGACG-C---T----CTCTC-C---TT--TCAC
** * *
746104 ATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGTCCACACAAGTTGGTGGCACTTTTCAGT
1 CCTTT--AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
746169 CCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
64 CCTCAAAGAGCAGGA-GC-TTC-TTTT-TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
* * *
746234 AAAAAGCAGGACGTTCTCTCCTTTCGC
125 AAAGAGCAGGACGCTCTCTCCTTTCAC
* * * * *
746261 CTTTTTGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACTTTTCAGTCC
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
746326 TCAAAGAGCAGGATGCTTTCTTTTTGCAAATCCCACACTAGTTGGTGGCGTCTTCC-AGTCCTCA
66 TCAAAGAGCAGGA-GC-TTCTTTTT--AAAGCCCACACAAGTTGGTGGC-ACTTCCTAGTCCTCA
746390 AAGAGCAGGACGC
126 AAGAGCAGGACGC
746403 CTTTTCTTTT
Statistics
Matches: 538, Mismatches: 44, Indels: 82
0.81 0.07 0.12
Matches are distributed among these distances:
148 22 0.04
149 22 0.04
150 1 0.00
151 2 0.00
153 2 0.00
154 30 0.06
155 256 0.48
156 9 0.02
157 9 0.02
158 1 0.00
159 3 0.01
160 25 0.05
161 19 0.04
162 1 0.00
163 5 0.01
164 1 0.00
167 2 0.00
169 7 0.01
170 2 0.00
171 90 0.17
172 25 0.05
173 2 0.00
174 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (151 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
TCAAAGAGCAGGAGCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
CAGGACGCTCTCTCCTTTCAC
Found at i:745948 original size:94 final size:94
Alignment explanation
Indices: 745840--746012 Score: 285
Period size: 94 Copynumber: 1.8 Consensus size: 94
745830 GTTGGTGGCA
* *
745840 CCTTTCAGTCCTCAAAAAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTC
1 CCTTTCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCC-AGTC
745905 CTCAAAGAGCAGGACACTCTCTTCTCTCAC
65 CTCAAAGAGCAGGACACTCTCTTCTCTCAC
* * *
745935 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGCACTTTCAGTCC
1 CCTTTCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCC
745999 TCAAAGAGCAGGAC
66 TCAAAGAGCAGGAC
746013 GCTTTTTCCA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 19 0.26
94 49 0.67
95 5 0.07
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (94 bp):
CCTTTCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCC
TCAAAGAGCAGGACACTCTCTTCTCTCAC
Found at i:746114 original size:55 final size:55
Alignment explanation
Indices: 746027--746246 Score: 273
Period size: 55 Copynumber: 3.9 Consensus size: 55
746017 TTTCCATTTC
* **
746027 AAAGCCCACACAAGTTGTTGGCACCATTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
* *
746082 AAAGCCCACACTAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTT
* *
746137 AAAGTCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGC---C--TTT-T
* *
746198 AAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAAAGCAGGACG
1 AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACG
746247 TTCTCTCCTT
Statistics
Matches: 143, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
54 2 0.01
55 89 0.62
56 4 0.03
58 1 0.01
60 6 0.04
61 41 0.29
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:746387 original size:326 final size:324
Alignment explanation
Indices: 745785--746461 Score: 913
Period size: 326 Copynumber: 2.1 Consensus size: 324
745775 TTCACCCTTT
745785 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCC---TAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
745850 CTCAAAAAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGC
63 CTCAAAAAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGC
* * *
745915 AGGACACTCTCTTCTCTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAG
128 AGGACACTCTCTCCTCTCACCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAG
* *
745980 TTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCCATTTCAAAGCCCACACAAGTTGT
193 TTAGTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTTTT-C-TTTCAAAGCCCACACAAGTTGG
* *
746045 TGGCACCATTCAGTCCTCAAAGAGCAGGACG-C-CTTTT-AAAGCCCACACTAGTTGGTGGCA-T
256 TGGCACCATTCAGTCCTCAAAGAGCAGGACGCCTCTTTTCAAAGACCACACGAGTTGGTGGCACT
746106 TTTCC
321 TTT-C
* *
746111 AGTCCTCAAAGAGCAGGACGCCTT-T-C-AAAGTCCACACAAGTTGGTGGCACTTTTCAGTCCTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* *
746173 AAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAA
66 AAAAAGCAGGA--C--TC-CTTT-TAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAA
** * * * *
746238 AGCAGGACGTTCTCTCCTTTCGCCTTTTTGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACAC
125 AGCAGGACACTCTCTCCTCTCACCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACAC
* * *
746303 AAGTTAGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTT-TTTGCAAATCCCACACTAG
190 AAGTTAGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGCTTT-TTCTTT-CAAAGCCCACACAAG
**
746367 TTGGTGGCGTC-TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTG
252 TTGGTGGCACCATT-CAGTCCTCAAAGAGCAGGACGCC---TCTTTTCAAAGACCACACGAGTTG
746431 GTGGCACTTTTC
313 GTGGCACTTTTC
746443 AGTCCTCAAAGAGCAGGAC
1 AGTCCTCAAAGAGCAGGAC
746462 ACACTTCTTT
Statistics
Matches: 311, Mismatches: 23, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
320 44 0.14
322 1 0.00
324 3 0.01
325 9 0.03
326 174 0.56
327 28 0.09
328 2 0.01
331 5 0.02
332 41 0.13
333 4 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (324 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
AAAAAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGG
ACACTCTCTCCTCTCACCCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTA
GTGGCACTTTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
CCATTCAGTCCTCAAAGAGCAGGACGCCTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTC
Found at i:746391 original size:61 final size:61
Alignment explanation
Indices: 746288--746461 Score: 210
Period size: 61 Copynumber: 2.9 Consensus size: 61
746278 GCAAGACGCC
* * * * *
746288 TTTCAAAGCCCACACAAGTTAGTGGCACTTTTCAGTCCTCAAAGAGCAGGATG-C-TTTCTT
1 TTTCAAAGACCACACGAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC-T
** * *
746348 TTTGCAAATCCCACACTAGTTGGTGGC-GTCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCT
1 TTT-CAAAGACCACACGAGTTGGTGGCACT-TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCT
*
746410 TTTCAAAGACCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
1 TTTCAAAGACCACACGAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAC
746462 ACACTTCTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
60 4 0.04
61 84 0.86
62 6 0.06
63 4 0.04
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (61 bp):
TTTCAAAGACCACACGAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCT
Found at i:746452 original size:216 final size:210
Alignment explanation
Indices: 746057--746461 Score: 534
Period size: 216 Copynumber: 1.9 Consensus size: 210
746047 GCACCATTCA
* * * *
746057 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACTAGTTGGTGGCATTTTCCAGTCCTCAAAG
1 GTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAG
* *
746122 AGCAGGACGCCTTTCAAAGTCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGC
66 AGCAGGACGCCTTTCAAAGTCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
* *
746187 TTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGACGTTCTC
131 TTTCTTTTTGCAAAGACCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGACGTTCTC
746252 TCCTTTCGCCTTTTT
196 TCCTTTCGCCTTTTT
746267 GTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTAGTGGCACTTTT-CAGTCCTCAAA
1 GTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAA
* * *
746331 GAGCAGGATGCTTTCTTTTTGCAAA-TCCCACACTAGTTGGTGGC-GTCTTCCAGTCCTCAAAGA
65 GAGCAGGACGC---C--TTT-CAAAGT-CCACACAAGTTGGTGGCACT-TTCCAGTCCTCAAAGA
* * *
746394 GCAGGACGCCTTT-TCTTTT-CAAAGACCACACGAGTTGGTGGCACTT-TTCAGTCCTCAAAGAG
122 GCAGGACG-CTTTCT-TTTTGCAAAGACCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAAAG
746456 CAGGAC
184 CAGGAC
746462 ACACTTCTTT
Statistics
Matches: 169, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
210 65 0.38
211 4 0.02
213 1 0.01
215 6 0.04
216 85 0.50
217 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (210 bp):
GTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAG
AGCAGGACGCCTTTCAAAGTCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
TTTCTTTTTGCAAAGACCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAAAGCAGGACGTTCTC
TCCTTTCGCCTTTTT
Found at i:746491 original size:42 final size:42
Alignment explanation
Indices: 746444--746545 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 42
746434 GCACTTTTCA
746444 GTCCTCAAAGAGCAGGACACACTT-CTTTCCCT-TTTTCACTTT
1 GTCCTCAAAGAGCAGGACAC-CTTCCTTTCCCTCTTTTC-CTTT
* * *
746486 GTCCTC-AAGAAGCAGGACACTTTCCTTTTCTTCTTTTCCTTT
1 GTCCTCAAAG-AGCAGGACACCTTCCTTTCCCTCTTTTCCTTT
*
746528 GTCCTCAAGGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
746546 CTATTTCATT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
41 5 0.10
42 40 0.77
43 7 0.13
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACCTTCCTTTCCCTCTTTTCCTTT
Found at i:747232 original size:22 final size:21
Alignment explanation
Indices: 747207--747260 Score: 54
Period size: 27 Copynumber: 2.3 Consensus size: 21
747197 AAAAAACACG
747207 AAATGATGGGCATGGAATATAA
1 AAATGATGGGCATGGAATA-AA
747229 AAATGAAGGCATGGGCATGGAATAAA
1 AAAT----G-ATGGGCATGGAATAAA
747255 AAATGA
1 AAATGA
747261 AGGCATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 11
0.71 0.00 0.29
Matches are distributed among these distances:
21 1 0.04
22 5 0.19
26 7 0.26
27 14 0.52
ACGTcount: A:0.48, C:0.06, G:0.28, T:0.19
Consensus pattern (21 bp):
AAATGATGGGCATGGAATAAA
Done.