Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 77 of 129
Found at i:12222010 original size:42 final size:42
Alignment explanation
Indices: 12221759--12222092 Score: 251
Period size: 42 Copynumber: 8.0 Consensus size: 42
12221749 ATGATTGTCA
* * *
12221759 AGGAGCAATTTACTTTT-TAAAGTCATAGTGCCTCT-ATTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGA-TTAG
* *
12221800 AGGAGCAATTTATTTTTC-AAAGTTGTGGTGCCTCT-ATTTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGA-TTAG
* * *
12221841 AGGAGCAATTTAC-TTTCTAAAAGTTGAGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTC-AAAAGTCGTGGTGCCTCTGATTAG
* * *
12221883 ATGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCT-ATTTAT
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGA-TTAG
* **
12221924 AGGAGCAATTTACTTTCCAAAAGT--TAAT-CCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGATTAG
* * *
12221963 -GAGAGCCATTTACTTTTCAAAAGTCATTGTGCCTCTGATTAG
1 AG-GAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGATTAG
* * * * * *
12222005 AAGAGCCATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGATTAG
* ** * * *
12222047 GGGAGCCTTGTTTA-TATTTCAAAAGTCGTTGAGCCTCTAATTAG
1 AGGAG-C-AATTTACT-TTTCAAAAGTCGTGGTGCCTCTGATTAG
12222091 AG
1 AG
12222093 AAGCTTTGTT
Statistics
Matches: 245, Mismatches: 32, Indels: 29
0.80 0.10 0.09
Matches are distributed among these distances:
38 1 0.00
39 28 0.11
40 7 0.03
41 85 0.35
42 87 0.36
43 6 0.02
44 31 0.13
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGATTAG
Found at i:12222028 original size:81 final size:81
Alignment explanation
Indices: 12221802--12222091 Score: 214
Period size: 83 Copynumber: 3.5 Consensus size: 81
12221792 CTATTTAGAG
* * * * * *
12221802 GAGCAATTTATTTTTC-AAAGTTGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCTAAAA-GT
1 GAGCCATTTACTTTTCAAAAGTCGTTGTGCCTCTA-TTAGAAGAGCAATTTACTTTCCAAAACGT
* *
12221865 TGAGGTGCCTCTGTTTA-GA
65 T-A--AGCCTCTGATTAGGA
* * * * *
12221884 TGAGCAATTTACTTTTC-AAAGTTGTGGTGCCTCTATTTATAGGAGCAATTTACTTTCCAAAA-G
1 -GAGCCATTTACTTTTCAAAAGTCGTTGTGCCTCTA-TTAGAAGAGCAATTTACTTTCCAAAACG
*
12221947 TTAATCCTCTGATTAGGA
64 TTAAGCCTCTGATTAGGA
* * * * *
12221965 GAGCCATTTACTTTTCAAAAGTCATTGTGCCTCTGATTAGAAGAGCCATTTATTTTTCTAAAGTC
1 GAGCCATTTACTTTTCAAAAGTCGTTGTGCCTCT-ATTAGAAGAGCAATTTA-CTTTCCAAA-AC
* *
12222030 GTTGAGCCTCTGATTAGGG
63 GTTAAGCCTCTGATTAGGA
* *
12222049 GAGCCTTGTTTA-TATTTCAAAAGTCGTTGAGCCTCTAATTAGA
1 GAGCC--ATTTACT-TTTCAAAAGTCGTTGTGCCTCT-ATTAGA
12222092 GAAGCTTTGT
Statistics
Matches: 175, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
80 24 0.14
81 29 0.17
82 9 0.05
83 61 0.35
84 21 0.12
85 1 0.01
86 30 0.17
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (81 bp):
GAGCCATTTACTTTTCAAAAGTCGTTGTGCCTCTATTAGAAGAGCAATTTACTTTCCAAAACGTT
AAGCCTCTGATTAGGA
Found at i:12222076 original size:44 final size:41
Alignment explanation
Indices: 12221788--12222141 Score: 186
Period size: 42 Copynumber: 8.4 Consensus size: 41
12221778 AAGTCATAGT
* * * *
12221788 GCCTCT-ATTTAGAGGAGCAATTTATTTTTC-AAAGTTGTGGT
1 GCCTCTGA-TTAGAGGAGCCATTTA-TTTTCAAAAGTCGTTGA
* * * ** *
12221829 GCCTCT-ATTTAGAGGAGCAATTTACTTTCTAAAAGTTGAGGT
1 GCCTCTGA-TTAGAGGAGCCATTTATTTTC-AAAAGTCGTTGA
* * * * * *
12221871 GCCTCTGTTTAGATGAGCAATTTACTTTTC-AAAGTTGTGGT
1 GCCTCTGATTAGAGGAGCCATTTA-TTTTCAAAAGTCGTTGA
* * * *
12221912 GCCTCT-ATTTATAGGAGCAATTTACTTTCCAAAA---GTTAA
1 GCCTCTGA-TTAGAGGAGCCATTTA-TTTTCAAAAGTCGTTGA
* * *
12221951 TCCTCTGATTAG-GAGAGCCATTTACTTTTCAAAAGTCATTGT
1 GCCTCTGATTAGAG-GAGCCATTTA-TTTTCAAAAGTCGTTGA
* *
12221993 GCCTCTGATTAGAAGAGCCATTTATTTTTCTAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCCATTTA-TTTTCAAAAGTCGTTGA
* *
12222035 GCCTCTGATTAGGGGAGCCTTGTTTATATTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCC--ATTTAT-TTTCAAAAGTCGTTGA
* * ** * *
12222079 GCCTCTAATTAGAGAAGCTTTGTTTATGTTTCTCAAAGTCGTTAA
1 GCCTCTGATTAGAGGAGC--CATTTAT-TTTC-AAAAGTCGTTGA
*
12222124 GCCTCTGCTTAGAGGAGC
1 GCCTCTGATTAGAGGAGC
12222142 TTTGATCAAA
Statistics
Matches: 255, Mismatches: 40, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.00
39 28 0.11
40 5 0.02
41 59 0.23
42 88 0.35
43 5 0.02
44 44 0.17
45 25 0.10
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (41 bp):
GCCTCTGATTAGAGGAGCCATTTATTTTCAAAAGTCGTTGA
Found at i:12222084 original size:86 final size:86
Alignment explanation
Indices: 12221946--12222141 Score: 211
Period size: 86 Copynumber: 2.3 Consensus size: 86
12221936 CTTTCCAAAA
* * * *
12221946 GTTAATCCTCTGATTAGGAGAGCCATTTACTTTTCAAAAGTCATTGTGCCTCTGATTAGA-AGAG
1 GTTAAGCCTCTGATTAGGGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTAATTAGAGA-AG
*
12222010 C-CATTTATTTTTCT-AAAGTC
65 CTCATTTATGTTTCTCAAAGTC
* * *
12222030 GTTGAGCCTCTGATTAGGGGAGCCTTGTTTA-TATTTCAAAAGTCGTTGAGCCTCTAATTAGAGA
1 GTTAAGCCTCTGATTAGGGGAGCC--ATTTACT-TTTCAAAAGTCATTGAGCCTCTAATTAGAGA
**
12222094 AGCTTTGTTTATGTTTCTCAAAGTC
63 AGC-TCATTTATGTTTCTCAAAGTC
* *
12222119 GTTAAGCCTCTGCTTAGAGGAGC
1 GTTAAGCCTCTGATTAGGGGAGC
12222142 TTTGATCAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
84 21 0.23
85 1 0.01
86 33 0.36
87 1 0.01
88 10 0.11
89 26 0.28
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (86 bp):
GTTAAGCCTCTGATTAGGGGAGCCATTTACTTTTCAAAAGTCATTGAGCCTCTAATTAGAGAAGC
TCATTTATGTTTCTCAAAGTC
Found at i:12222128 original size:45 final size:44
Alignment explanation
Indices: 12221977--12222145 Score: 180
Period size: 44 Copynumber: 3.9 Consensus size: 44
12221967 GCCATTTACT
* * * * ** *
12221977 TTTCAAAAGTCATTGTGCCTCTGATTAGAAGAGC--CATTTATT
1 TTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATA
* *
12222019 TTTCTAAAGTCGTTGAGCCTCTGATTAGGGGAGCCTTGTTTATA
1 TTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATA
* * * *
12222063 TTTCAAAAGTCGTTGAGCCTCTAATTAGAGAAGCTTTGTTTATG
1 TTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATA
* *
12222107 TTTCTCAAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTG
1 TTTCT-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
12222146 ATCAAAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 29 0.28
44 47 0.45
45 29 0.28
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (44 bp):
TTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATA
Found at i:12222170 original size:5 final size:5
Alignment explanation
Indices: 12222160--12222207 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
12222150 AAATTTTAAC
* *
12222160 AAACA AAACA AAACA AAACA AAACA TAA-A AAACAA AAAAA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAAC-A AAACA AAACA AAA
12222208 AAGTGTCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 30 0.81
6 4 0.11
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (5 bp):
AAACA
Found at i:12222413 original size:5 final size:6
Alignment explanation
Indices: 12222399--12222477 Score: 50
Period size: 6 Copynumber: 12.0 Consensus size: 6
12222389 CCCAATAGGC
* * *
12222399 TTTTAT TTTTAT TTTCAT TATTTAAT ATATATAT TTTTAT TTTTAT TATTTTT
1 TTTTAT TTTTAT TTTTAT T-TTT-AT -T-TTTAT TTTTAT TTTTAT T-TTTAT
**
12222452 TATTTAT TAATAT TTTTAT TATTTAT
1 T-TTTAT TTTTAT TTTTAT T-TTTAT
12222478 CTGCTTTTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
6 31 0.53
7 19 0.33
8 4 0.07
9 4 0.07
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAT
Found at i:12222446 original size:28 final size:27
Alignment explanation
Indices: 12222402--12222477 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
12222392 AATAGGCTTT
*
12222402 TATTTTTATTTTCATTATTTAATATATA
1 TATTTTTATTTTTATTATTT-ATATATA
* *
12222430 TATTTTTATTTTTATTATTT-TTTATT
1 TATTTTTATTTTTATTATTTATATATA
**
12222456 TATTAATATTTTTATTATTTAT
1 TATTTTTATTTTTATTATTTAT
12222478 CTGCTTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 22 0.52
27 1 0.02
28 19 0.45
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (27 bp):
TATTTTTATTTTTATTATTTATATATA
Found at i:12222449 original size:9 final size:9
Alignment explanation
Indices: 12222407--12222545 Score: 62
Period size: 9 Copynumber: 15.4 Consensus size: 9
12222397 GCTTTTATTT
*
12222407 TTATTTTCA
1 TTATTTTTA
*
12222416 TTATTTAATA
1 TTATTT-TTA
*
12222426 TATATATTT-
1 T-TATTTTTA
12222435 TTATTTTTA
1 TTATTTTTA
12222444 TTA-TTTT-
1 TTATTTTTA
12222451 TTATTTATTA
1 TTATTT-TTA
*
12222461 ATATTTTTA
1 TTATTTTTA
12222470 TTA--TTTA
1 TTATTTTTA
**
12222477 TCTGCTTTTA
1 T-TATTTTTA
12222487 TT-TTTTTA
1 TTATTTTTA
12222495 TTA--TTTA
1 TTATTTTTA
12222502 TCTATTTCTT-
1 T-TATTT-TTA
12222512 TTATTTATCTAA
1 TTATTT-T-T-A
*
12222524 TTATTATTA
1 TTATTTTTA
*
12222533 TTATTATTA
1 TTATTTTTA
12222542 TTAT
1 TTAT
12222546 GTTATCTATT
Statistics
Matches: 102, Mismatches: 11, Indels: 34
0.69 0.07 0.23
Matches are distributed among these distances:
7 13 0.13
8 22 0.22
9 38 0.37
10 17 0.17
11 7 0.07
12 5 0.05
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (9 bp):
TTATTTTTA
Found at i:12222470 original size:32 final size:31
Alignment explanation
Indices: 12222399--12222577 Score: 105
Period size: 34 Copynumber: 5.5 Consensus size: 31
12222389 CCCAATAGGC
**
12222399 TTTTATTTTTATTTTCATTATTTAATATATATAT
1 TTTTATTTTTATTTTTTTTATTT-AT-TA-ATAT
12222433 TTTTATTTTTATTATTTTTTATTTATTAATAT
1 TTTTATTTTTATT-TTTTTTATTTATTAATAT
** *
12222465 TTTTATTATTTATCTGCTTTTATTT-TT-TTAT
1 TTTTATT-TTTAT-TTTTTTTATTTATTAATAT
* *
12222496 TATTTA--TCTATTTCTTTTATTTATCTAATTAT
1 T-TTTATTTTTATTTTTTTTATTTAT-TAA-TAT
* * * *
12222528 TATTATTATTATTATTATGTTATCTATTAATAT
1 TTTTATTTTTATT-TT-TTTTATTTATTAATAT
*
12222561 ATTTATCTTTTTATTTT
1 -TTT-TATTTTTATTTT
12222578 GATTAATTTT
Statistics
Matches: 114, Mismatches: 17, Indels: 28
0.72 0.11 0.18
Matches are distributed among these distances:
28 10 0.09
29 5 0.04
30 1 0.01
31 7 0.06
32 21 0.18
33 22 0.19
34 24 0.21
35 24 0.21
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (31 bp):
TTTTATTTTTATTTTTTTTATTTATTAATAT
Found at i:12222513 original size:22 final size:24
Alignment explanation
Indices: 12222464--12222513 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
12222454 TTTATTAATA
* *
12222464 TTTTTATTATTTATCTGCTTTTATT
1 TTTTTATTATTTATCT-CATTTACT
12222489 TTTTTATTATTTATCT-ATTT-CT
1 TTTTTATTATTTATCTCATTTACT
12222511 TTT
1 TTT
12222514 ATTTATCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 3 0.13
25 16 0.70
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTATTATTTATCTCATTTACT
Found at i:12222516 original size:42 final size:43
Alignment explanation
Indices: 12222439--12222521 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
12222429 ATATTTTTAT
*
12222439 TTTTATTATTTTTTATTTATTAATATTTTTATTATTTATCTGC
1 TTTTATTATTTTTTATTTATTAATATTCTTATTATTTATCTGC
*
12222482 TTTTATTTTTTTATTATTTATCT-AT-TTCTT-TTATTTATCT
1 TTTTATTATTTT-TTATTTAT-TAATATTCTTATTATTTATCT
12222522 AATTATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
42 10 0.28
43 15 0.42
44 10 0.28
45 1 0.03
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.72
Consensus pattern (43 bp):
TTTTATTATTTTTTATTTATTAATATTCTTATTATTTATCTGC
Found at i:12222536 original size:21 final size:18
Alignment explanation
Indices: 12222440--12222575 Score: 70
Period size: 17 Copynumber: 8.3 Consensus size: 18
12222430 TATTTTTATT
* *
12222440 TTTATTATTTTTTATTTA
1 TTTATTATTATTTATCTA
*
12222458 -TTAATATT-TTTAT-TA
1 TTTATTATTATTTATCTA
**
12222473 TTTATCTGCT-TTTAT-T-
1 TTTAT-TATTATTTATCTA
12222489 TTT-TTATTATTTATCTA
1 TTTATTATTATTTATCTA
*
12222506 TTTCTT-TTATTTATCTA
1 TTTATTATTATTTATCTA
12222523 ---ATTATTA-TTAT-TA
1 TTTATTATTATTTATCTA
12222536 -TTATTATTATGTTATCTA
1 TTTATTATTAT-TTATCTA
* *
12222554 -TTAATA-TATTTATCTT
1 TTTATTATTATTTATCTA
12222570 TTTATT
1 TTTATT
12222576 TTGATTAATT
Statistics
Matches: 95, Mismatches: 10, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
13 2 0.02
14 8 0.08
15 18 0.19
16 18 0.19
17 40 0.42
18 9 0.09
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (18 bp):
TTTATTATTATTTATCTA
Found at i:12222881 original size:14 final size:14
Alignment explanation
Indices: 12222842--12222884 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12222832 CGGTGGGGAA
*
12222842 TTTTTGGAAA-ATT
1 TTTTTGGAAATTTT
*
12222855 TTTTTGGTGAATTTT
1 TTTTTGG-AAATTTT
12222870 TTTTTGGAAATTTT
1 TTTTTGGAAATTTT
12222884 T
1 T
12222885 GAAAAATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 7 0.28
14 9 0.36
15 9 0.36
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (14 bp):
TTTTTGGAAATTTT
Found at i:12223474 original size:13 final size:12
Alignment explanation
Indices: 12223392--12223502 Score: 68
Period size: 12 Copynumber: 9.0 Consensus size: 12
12223382 CTGTTCCAAG
12223392 ATTTT-TTTTTT
1 ATTTTATTTTTT
*
12223403 CGTTTTATTTATTT
1 -ATTTTATTT-TTT
*
12223417 A-TTTA-TTATT
1 ATTTTATTTTTT
**
12223427 ATTATTATTATTAG
1 ATT-TTATT-TTTT
*
12223441 ATTATATTTGTTT
1 ATTTTATTT-TTT
* *
12223454 AATATATTTTTT
1 ATTTTATTTTTT
12223466 ATTTT-TATTTTT
1 ATTTTAT-TTTTT
12223478 ATTTTATTTTATT
1 ATTTTATTTT-TT
12223491 ATTTTATTTTTT
1 ATTTTATTTTTT
12223503 TAAATAAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.04
11 4 0.05
12 33 0.43
13 30 0.39
14 7 0.09
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTATTTTTT
Found at i:12223501 original size:6 final size:6
Alignment explanation
Indices: 12223461--12223501 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
12223451 TTTAATATAT
12223461 TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA TTATTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA TTTTT
12223502 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
7 1 0.03
8 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:12223624 original size:89 final size:90
Alignment explanation
Indices: 12223531--12223709 Score: 288
Period size: 89 Copynumber: 2.0 Consensus size: 90
12223521 TATTTTTGAG
* * *
12223531 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGT
1 GAAAAGTTGAAAGTATCAATTGTCCTTAAAAATAAGCTTTCTAAAAAAGATTTTTGAGGAAAAGT
*
12223596 TGAAATTATCAATTGTCCTT-AAAA
66 TGAAAGTATCAATTGTCCTTGAAAA
* *
12223620 GAAAAGTTGAAATTATCAATTGTCCTTAAAAATAAGCTTTCTAAAAAGGATTTTTGAGGAAAAGT
1 GAAAAGTTGAAAGTATCAATTGTCCTTAAAAATAAGCTTTCTAAAAAAGATTTTTGAGGAAAAGT
*
12223685 TGAAAGTATCAATTTTCCTTGAAAA
66 TGAAAGTATCAATTGTCCTTGAAAA
12223710 TAAGCTTTCT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 78 0.95
90 4 0.05
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (90 bp):
GAAAAGTTGAAAGTATCAATTGTCCTTAAAAATAAGCTTTCTAAAAAAGATTTTTGAGGAAAAGT
TGAAAGTATCAATTGTCCTTGAAAA
Found at i:12223627 original size:31 final size:31
Alignment explanation
Indices: 12223589--12223650 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
12223579 TATTTTTGAG
12223589 GAAAAGTTGAAATTATCAATTGTCCTTAAAA
1 GAAAAGTTGAAATTATCAATTGTCCTTAAAA
12223620 GAAAAGTTGAAATTATCAATTGTCCTTAAAA
1 GAAAAGTTGAAATTATCAATTGTCCTTAAAA
12223651 ATAAGCTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (31 bp):
GAAAAGTTGAAATTATCAATTGTCCTTAAAA
Found at i:12223935 original size:58 final size:57
Alignment explanation
Indices: 12223620--12223933 Score: 371
Period size: 58 Copynumber: 5.4 Consensus size: 57
12223610 GTCCTTAAAA
* * *
12223620 GAAAAGTTGAAATTATCAATTGTCCTTAAAAATAAGCTTTCTAAAA-AGGATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTC-AAAATA-GATTTTTGAG
* * * * *
12223678 GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCTAAAAAAAATATTTTTAAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTT-T-CAAAATAGATTTTTGAG
* * * * *
12223738 AAAAAGTTGAAAGTATCAATTCTCCTTAAAAATAAATTATCAAAATAGATTTTTGAA
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAATAGATTTTTGAG
* * *
12223795 GAAAAGTTGAAAGCATCAATTTTCCTTAGAAACAAGTTTTCAAAAGT-GAATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAA-TAG-ATTTTTGAG
* *
12223853 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCAAAAGTAGATTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAA-TAGATTTTTGAG
*
12223911 GAAAAGTTAAAAGTATCAATTTT
1 GAAAAGTTGAAAGTATCAATTTT
12223934 TCCTATACAA
Statistics
Matches: 218, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
57 51 0.23
58 116 0.53
59 5 0.02
60 45 0.21
61 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (57 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTTCAAAATAGATTTTTGAG
Found at i:12236297 original size:13 final size:13
Alignment explanation
Indices: 12236243--12236313 Score: 58
Period size: 13 Copynumber: 5.4 Consensus size: 13
12236233 TTTTTTGGAT
12236243 AAAATTTT--TTA
1 AAAATTTTAATTA
*
12236254 AAAATTTTTATTA
1 AAAATTTTAATTA
* *
12236267 AAAATAATTAAATAA
1 AAAAT--TTTAATTA
12236282 AAAATTTTAATT-
1 AAAATTTTAATTA
12236294 AAAATTTTAAATTA
1 AAAATTTT-AATTA
12236308 ATAAAT
1 A-AAAT
12236314 GTTATATAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
11 8 0.17
12 8 0.17
13 17 0.35
14 1 0.02
15 14 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTTAATTA
Found at i:12236313 original size:27 final size:28
Alignment explanation
Indices: 12236251--12236313 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
12236241 ATAAAATTTT
*
12236251 TTAAAAATTTTTATTAAAAATAATTAAA
1 TTAAAAATTTTAATTAAAAATAATTAAA
* *
12236279 TAAAAAATTTTAATT-AAAAT-TTTAAA
1 TTAAAAATTTTAATTAAAAATAATTAAA
12236305 TTAATAAAT
1 TTAA-AAAT
12236314 GTTATATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.27
27 9 0.30
28 13 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TTAAAAATTTTAATTAAAAATAATTAAA
Found at i:12239062 original size:2 final size:2
Alignment explanation
Indices: 12239055--12239081 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12239045 AGTGATAAGT
12239055 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 T
12239082 TTGGATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12239689 original size:16 final size:17
Alignment explanation
Indices: 12239670--12239703 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12239660 TTATATTATG
12239670 TATTATA-ATAATTAAT
1 TATTATATATAATTAAT
*
12239686 TATTATATATATTTAAT
1 TATTATATATAATTAAT
12239703 T
1 T
12239704 TTGACAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTATATATAATTAAT
Found at i:12243229 original size:39 final size:38
Alignment explanation
Indices: 12243185--12243266 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 38
12243175 GGGTGGGGAA
*
12243185 GATTAGGTGTGATGAGGCA-TTGGGGGGAAGGTGGAGAGG
1 GATTAGGTGTGATG-GG-AGTTGGGGGAAAGGTGGAGAGG
*
12243224 GATTAGGTGTGGTGGGATGTTGGGGGAAAGGTGGAGAGG
1 GATTAGGTGTGATGGGA-GTTGGGGGAAAGGTGGAGAGG
12243263 GATT
1 GATT
12243267 GATGAGGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 1 0.03
38 2 0.05
39 36 0.92
ACGTcount: A:0.22, C:0.01, G:0.54, T:0.23
Consensus pattern (38 bp):
GATTAGGTGTGATGGGAGTTGGGGGAAAGGTGGAGAGG
Found at i:12243277 original size:39 final size:39
Alignment explanation
Indices: 12243204--12243278 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
12243194 TGATGAGGCA
* * *
12243204 TTGGGGGGAAGGTGGAGAGGGATTAGGTGTGGTGGGATG
1 TTGGGGGAAAGGTGGAGAGGGATTAGATGGGGTGGGATG
12243243 TTGGGGGAAAGGTGGAGAGGGATT-GATGAGGGTGGG
1 TTGGGGGAAAGGTGGAGAGGGATTAGATG-GGGTGGG
12243279 GAGGGATTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 3 0.09
39 29 0.91
ACGTcount: A:0.20, C:0.00, G:0.59, T:0.21
Consensus pattern (39 bp):
TTGGGGGAAAGGTGGAGAGGGATTAGATGGGGTGGGATG
Found at i:12245064 original size:3 final size:3
Alignment explanation
Indices: 12245054--12245140 Score: 106
Period size: 3 Copynumber: 29.0 Consensus size: 3
12245044 TTTAAATTAT
12245054 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
12245101 TAA TAA T-A TGA TAT TAT TAA TAA TTAA TTA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA
12245141 AAACTAATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
2 4 0.05
3 65 0.87
4 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:12247853 original size:14 final size:16
Alignment explanation
Indices: 12247825--12247858 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
12247815 TTATATTATC
12247825 TTATGTTTTTAATATT
1 TTATGTTTTTAATATT
12247841 TTAT-TTTTTATATATT
1 TTATGTTTTTA-ATATT
12247857 TT
1 TT
12247859 TTAAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATGTTTTTAATATT
Found at i:12251410 original size:17 final size:18
Alignment explanation
Indices: 12251376--12251411 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
12251366 CATCAAACTC
12251376 ATAAGATATCTTGCAAAA
1 ATAAGATATCTTGCAAAA
12251394 ATAA-ATAT-TTGCAAAA
1 ATAAGATATCTTGCAAAA
12251410 AT
1 AT
12251412 TTCAATTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 4 0.22
18 4 0.22
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (18 bp):
ATAAGATATCTTGCAAAA
Found at i:12256099 original size:44 final size:44
Alignment explanation
Indices: 12256049--12256133 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
12256039 ATGAAAACAT
*
12256049 AAATGTTACATGTATCCATCCTCAATCGAAGGGAAACTAAGCAC
1 AAATGTTACATGTATCCATCCTCAACCGAAGGGAAACTAAGCAC
* *
12256093 AAATGTTGCATGTATCTATCCTCAACCGAAGGGAAACTAAG
1 AAATGTTACATGTATCCATCCTCAACCGAAGGGAAACTAAG
12256134 TAACAAACGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (44 bp):
AAATGTTACATGTATCCATCCTCAACCGAAGGGAAACTAAGCAC
Found at i:12260009 original size:13 final size:13
Alignment explanation
Indices: 12259991--12260016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12259981 TAAAATAAAC
12259991 AAAAATTATCATG
1 AAAAATTATCATG
12260004 AAAAATTATCATG
1 AAAAATTATCATG
12260017 CAATTATACG
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:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAAATTATCATG
Found at i:12260237 original size:13 final size:13
Alignment explanation
Indices: 12260208--12260250 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
12260198 CAACTATTTA
*
12260208 AAATATTAAATATT
1 AAATATAAAATA-T
12260222 AAATATAAAATAT
1 AAATATAAAATAT
*
12260235 AAATATAATATAT
1 AAATATAAAATAT
12260248 AAA
1 AAA
12260251 AAACAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AAATATAAAATAT
Found at i:12260239 original size:20 final size:21
Alignment explanation
Indices: 12260209--12260251 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
12260199 AACTATTTAA
12260209 AATATTAAATATTAA-ATATAA
1 AATATTAAATA-TAATATATAA
12260230 AATA-TAAATATAATATATAA
1 AATATTAAATATAATATATAA
12260250 AA
1 AA
12260252 AACAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.67
21 4 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AATATTAAATATAATATATAA
Found at i:12260247 original size:7 final size:6
Alignment explanation
Indices: 12260208--12260250 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 6
12260198 CAACTATTTA
12260208 AAATATT AAATATT AAATAT AAAATAT AAATAT AATATAT AAA
1 AAATA-T AAATA-T AAATAT -AAATAT AAATAT AA-ATAT AAA
12260251 AAACAAACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 10 0.29
7 24 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAATAT
Found at i:12260272 original size:4 final size:4
Alignment explanation
Indices: 12260233--12260289 Score: 53
Period size: 4 Copynumber: 14.2 Consensus size: 4
12260223 AATATAAAAT
* * * * *
12260233 ATAA ATATA ATAT ATAA A-AA ACAA ACAA ACAT ATAA ATAA ATAA ATAA
1 ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
12260281 ATAA ATAA A
1 ATAA ATAA A
12260290 ATCAAATTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
3 3 0.07
4 39 0.85
5 4 0.09
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:12260918 original size:23 final size:22
Alignment explanation
Indices: 12260873--12260920 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
12260863 AAATTTTTAG
*
12260873 AAAATTCACAAAAAGTCCAAGA
1 AAAATTCACAAAAAATCCAAGA
* *
12260895 AAAATTCAAGAAAAAATCCTAGA
1 AAAATTC-ACAAAAAATCCAAGA
12260918 AAA
1 AAA
12260921 CCTCATAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAATTCACAAAAAATCCAAGA
Found at i:12262129 original size:45 final size:44
Alignment explanation
Indices: 12262078--12262178 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 44
12262068 TTTAAGTTCG
* *
12262078 CAAGAATTCAAATATTCACAAGAATTTGTAAGAGTTTCTGATTCA
1 CAAGAATTCAAATATTCACAAAAATTTGTAAGAGTTTCAGA-TCA
***
12262123 CAAGAATTGGGATATTCACAAAAATTTGTAAGAGTTTCAGATCA
1 CAAGAATTCAAATATTCACAAAAATTTGTAAGAGTTTCAGATCA
*
12262167 CATGAAATTCAA
1 CAAG-AATTCAA
12262179 GTTCGCAAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
44 6 0.13
45 40 0.87
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (44 bp):
CAAGAATTCAAATATTCACAAAAATTTGTAAGAGTTTCAGATCA
Found at i:12262516 original size:22 final size:21
Alignment explanation
Indices: 12262474--12262538 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
12262464 ATTTTCATTC
* * *
12262474 AAAAAATTTAGAGATTTACAT
1 AAAAAATTTAAAAATTCACAT
12262495 AAAAAATTTCAAAAATTCACAT
1 AAAAAATTT-AAAAATTCACAT
* *
12262517 GAAAAAACTTTAATATTTCACA
1 -AAAAAA-TTTAAAAATTCACA
12262539 ACTAAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.25
22 9 0.25
23 15 0.42
24 3 0.08
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.31
Consensus pattern (21 bp):
AAAAAATTTAAAAATTCACAT
Found at i:12262633 original size:46 final size:46
Alignment explanation
Indices: 12262469--12262635 Score: 126
Period size: 46 Copynumber: 3.7 Consensus size: 46
12262459 TATAAATTTT
* ** ** *
12262469 CATTCAAAAAATTTAGAGATTT-ACATAAAAAATTTCAAAAATTCA
1 CATTCAAAAAATTTAAAGATTTCACATCCAATTTTTCAAAGATTCA
* * * * ** *
12262514 CA-TGAAAAAACTTT-AATATTTCACAACTAAAATTTCAAAGATTCT
1 CATTCAAAAAA-TTTAAAGATTTCACATCCAATTTTTCAAAGATTCA
* * * *
12262559 TATTCGAAAAATTTCAAGGTTTCACATCCAATTTTTCAAAGATTCA
1 CATTCAAAAAATTTAAAGATTTCACATCCAATTTTTCAAAGATTCA
*
12262605 CATTCAAAAAATTATAAAGATTT-GCATCCAA
1 CATTCAAAAAATT-TAAAGATTTCACATCCAA
12262636 AGTTTTAAAG
Statistics
Matches: 94, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
44 12 0.13
45 27 0.29
46 48 0.51
47 7 0.07
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCAAAAAATTTAAAGATTTCACATCCAATTTTTCAAAGATTCA
Found at i:12262751 original size:45 final size:45
Alignment explanation
Indices: 12262554--12262751 Score: 155
Period size: 46 Copynumber: 4.3 Consensus size: 45
12262544 AATTTCAAAG
* * ** *
12262554 ATTCTTATTCGAAAAATTTCAAGGTTTCACATCC-AATTTTTCAAAG
1 ATTCTCATTCAAAAAATTT-AAGGTTTTGCATCCAAATTTTT-AAAA
* * * * *
12262600 ATTCACATTCAAAAAATTATAAAGATTTGCATCCAAAGTTTTAAAG
1 ATTCTCATTCAAAAAATT-TAAGGTTTTGCATCCAAATTTTTAAAA
* * ** * * * *
12262646 GTTATTTTTCAAAAACTTTATGGTTTTACATCCAAAATTTTAAAA
1 ATTCTCATTCAAAAAATTTAAGGTTTTGCATCCAAATTTTTAAAA
* * * *
12262691 TTTCTCATTGGAAAAAAATTAGGGTTTTGCATCCAAATTTTTAAAA
1 ATTCTCATT-CAAAAAATTTAAGGTTTTGCATCCAAATTTTTAAAA
12262737 ATTCTCATTCAAAAA
1 ATTCTCATTCAAAAA
12262752 GCTTCTTTAA
Statistics
Matches: 117, Mismatches: 32, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
45 31 0.26
46 79 0.68
47 7 0.06
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (45 bp):
ATTCTCATTCAAAAAATTTAAGGTTTTGCATCCAAATTTTTAAAA
Found at i:12268717 original size:14 final size:14
Alignment explanation
Indices: 12268690--12268732 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
12268680 AACAACTATT
12268690 TTAAAATAATAAATA
1 TTAAAAT-ATAAATA
12268705 TTAAAATATAAATA
1 TTAAAATATAAATA
* *
12268719 TAAAAAGATAAATA
1 TTAAAATATAAATA
12268733 AATAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
TTAAAATATAAATA
Found at i:12268735 original size:4 final size:4
Alignment explanation
Indices: 12268712--12268763 Score: 68
Period size: 4 Copynumber: 12.2 Consensus size: 4
12268702 ATATTAAAAT
*
12268712 ATAA ATATA AAAA GATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATAA
1 ATAA ATA-A ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
12268763 A
1 A
12268764 ACTAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 33 0.77
5 10 0.23
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:12269824 original size:22 final size:20
Alignment explanation
Indices: 12269790--12269831 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
12269780 TAATAATAAC
12269790 TAAATAAATAAAACAAAAAT
1 TAAATAAATAAAACAAAAAT
*
12269810 TAAATCAAATTAAAACTAAAAT
1 TAAAT-AAA-TAAAACAAAAAT
12269832 GCAGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 3 0.16
22 11 0.58
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAATAAATAAAACAAAAAT
Found at i:12271400 original size:27 final size:27
Alignment explanation
Indices: 12271346--12271400 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
12271336 AGATACAATT
*
12271346 TAAAAAATAAGGACTTATTTAAGTATAA
1 TAAAAAATAAGGACTTATCTAAG-ATAA
*
12271374 TAAAAATATAAGGATTTATCTAA-ATAA
1 TAAAAA-ATAAGGACTTATCTAAGATAA
12271401 AGTAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.17
28 6 0.25
29 14 0.58
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.33
Consensus pattern (27 bp):
TAAAAAATAAGGACTTATCTAAGATAA
Found at i:12272043 original size:18 final size:19
Alignment explanation
Indices: 12272018--12272066 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
12272008 TAGATTTATT
**
12272018 TATTTTATTATTCA-ATAA
1 TATTTTATTATAAATATAA
*
12272036 TTTTTTATATATAAATATAA
1 TATTTTAT-TATAAATATAA
12272056 TATTTTATTAT
1 TATTTTATTAT
12272067 GATTATAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 11 0.44
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTATTATAAATATAA
Found at i:12272745 original size:20 final size:20
Alignment explanation
Indices: 12272709--12272751 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
12272699 AAATCTTAAA
12272709 TTTAATATTTTAAAAAT-AT
1 TTTAATATTTTAAAAATCAT
*
12272728 TTTAATTTTTTAAAAAATCAT
1 TTTAATATTTT-AAAAATCAT
12272749 TTT
1 TTT
12272752 TTTGAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 6 0.29
21 5 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAATATTTTAAAAATCAT
Found at i:12272849 original size:14 final size:14
Alignment explanation
Indices: 12272825--12272874 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
12272815 TTTCTAGATT
12272825 TTTTAAAATTTTAAA
1 TTTT-AAATTTTAAA
12272840 TTTTAAATTTTAAA
1 TTTTAAATTTTAAA
* *
12272854 TTTAAAAATTTAAAA
1 TTT-TAAATTTTAAA
12272869 TTTTAA
1 TTTTAA
12272875 TTTCATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 15 0.48
15 16 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTAAATTTTAAA
Found at i:12272877 original size:6 final size:7
Alignment explanation
Indices: 12272825--12272874 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
12272815 TTTCTAGATT
12272825 TTTTAAAA
1 TTTT-AAA
12272833 TTTTAAA
1 TTTTAAA
12272840 TTTTAAA
1 TTTTAAA
12272847 TTTTAAA
1 TTTTAAA
*
12272854 TTTAAAAA
1 TTT-TAAA
*
12272862 TTTAAAA
1 TTTTAAA
12272869 TTTTAA
1 TTTTAA
12272875 TTTCATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
7 29 0.74
8 10 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
TTTTAAA
Found at i:12272997 original size:16 final size:16
Alignment explanation
Indices: 12272936--12273015 Score: 54
Period size: 16 Copynumber: 4.6 Consensus size: 16
12272926 AAACAAAATA
* *
12272936 TTTAATTTTAATAATT
1 TTTAATTTTTATATTT
*
12272952 TTTAATTTTTAGATTTTT
1 TTTAATTTTT--ATATTT
12272970 TTATAAAATTTTTATATTT
1 TT-T--AATTTTTATATTT
*
12272989 TTTAA-TTTTATGTTT
1 TTTAATTTTTATATTT
12273004 TTATAAATTTTT
1 TT-T-AATTTTT
12273016 TATACTTCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.22
16 12 0.24
17 2 0.04
18 11 0.22
19 8 0.16
21 7 0.14
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTAATTTTTATATTT
Found at i:12273010 original size:34 final size:36
Alignment explanation
Indices: 12272939--12273019 Score: 103
Period size: 34 Copynumber: 2.3 Consensus size: 36
12272929 CAAAATATTT
* *
12272939 AATTTTAATAATTTTTAATTTTTAGATTTTTTTATAA
1 AATTTTTATAATTTTTAATTTTTA-ATGTTTTTATAA
*
12272976 AATTTTTATATTTTTTAA-TTTT-ATGTTTTTATAA
1 AATTTTTATAATTTTTAATTTTTAATGTTTTTATAA
*
12273010 ATTTTTTATA
1 AATTTTTATA
12273020 CTTCTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 20 0.50
36 4 0.10
37 16 0.40
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.65
Consensus pattern (36 bp):
AATTTTTATAATTTTTAATTTTTAATGTTTTTATAA
Found at i:12273411 original size:22 final size:23
Alignment explanation
Indices: 12273386--12273429 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12273376 ATTATTTTTT
12273386 TAAAATT-AAAATATTAAAAATG
1 TAAAATTCAAAATATTAAAAATG
* * *
12273408 TAAATTTCAAATTTTTAAAAAT
1 TAAAATTCAAAATATTAAAAAT
12273430 CCAAAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
TAAAATTCAAAATATTAAAAATG
Found at i:12285124 original size:19 final size:19
Alignment explanation
Indices: 12285102--12285139 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12285092 ATTATAGCCA
12285102 ATGTCTTTCTACCTAGCTT
1 ATGTCTTTCTACCTAGCTT
12285121 ATGTCTTTCTACCTAGCTT
1 ATGTCTTTCTACCTAGCTT
12285140 CTTCTAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.11, T:0.47
Consensus pattern (19 bp):
ATGTCTTTCTACCTAGCTT
Found at i:12290007 original size:17 final size:19
Alignment explanation
Indices: 12289985--12290020 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12289975 AATAAGTTAC
12289985 TCAAT-AAATA-ATAAAAA
1 TCAATAAAATATATAAAAA
12290002 TCAATAAAATATATAAAAA
1 TCAATAAAATATATAAAAA
12290021 ATTAGTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (19 bp):
TCAATAAAATATATAAAAA
Found at i:12290075 original size:32 final size:31
Alignment explanation
Indices: 12290039--12290113 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 31
12290029 AATAAAATGC
12290039 ATAAAATAAAAAAACTAAAAAC-AAAATCAAAA
1 ATAAAATAAAAAAA-TAAAAACAAAAAT-AAAA
* *
12290071 AT-AAATCAAATAAAATAAAATCAAAAATTAAA
1 ATAAAAT-AAA-AAAATAAAAACAAAAATAAAA
12290103 ATAAAA-AAAAA
1 ATAAAATAAAAA
12290114 CATGTGATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 2 0.05
31 7 0.19
32 16 0.43
33 12 0.32
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (31 bp):
ATAAAATAAAAAAATAAAAACAAAAATAAAA
Found at i:12290916 original size:3 final size:3
Alignment explanation
Indices: 12290910--12290969 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
12290900 AAGGAAAGAA
*
12290910 AAT AAT AAT AAT AAT AAT AAT AGACT -AT AAT AAAT GAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT -AAT AAT AAT AAT AAT
12290956 AAT -AT AAT -AT AAT A
1 AAT AAT AAT AAT AAT A
12290970 CAATATAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 7 0.15
3 36 0.75
4 4 0.08
5 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12290949 original size:10 final size:9
Alignment explanation
Indices: 12290917--12291007 Score: 62
Period size: 10 Copynumber: 9.7 Consensus size: 9
12290907 GAAAATAATA
12290917 ATAAT-AAT
1 ATAATAAAT
*
12290925 AATAATAGACT
1 -ATAATA-AAT
12290936 ATAATAAAT
1 ATAATAAAT
*
12290945 GATAATATA-
1 -ATAATAAAT
12290954 ATAATATAAT
1 ATAATA-AAT
12290964 ATAATACAAT
1 ATAATA-AAT
12290974 ATAATAAACT
1 ATAATAAA-T
*
12290984 ATACTATAAT
1 ATAATA-AAT
*
12290994 ATAGT-AAT
1 ATAATAAAT
12291002 ATAATA
1 ATAATA
12291008 CGAGTAACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
8 13 0.20
9 10 0.15
10 39 0.59
11 4 0.06
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAATAAAT
Found at i:12290961 original size:23 final size:23
Alignment explanation
Indices: 12290911--12291007 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
12290901 AGGAAAGAAA
12290911 ATAAT-AATAATAATAATAATAGACT
1 ATAATAAAT-ATAAT-ATAATA-ACT
12290936 ATAATAAATGATAATATAATAA-T
1 ATAATAAAT-ATAATATAATAACT
*
12290959 ATAATATAATACAATATAATAAACT
1 ATAATA-AATATAATATAAT-AACT
12290984 ATACTATAATATAGTAATATAATA
1 ATA--ATAA-ATA-TAATATAATA
12291008 CGAGTAACAA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
23 16 0.26
24 6 0.10
25 15 0.25
26 9 0.15
27 7 0.11
28 8 0.13
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (23 bp):
ATAATAAATATAATATAATAACT
Found at i:12290974 original size:15 final size:14
Alignment explanation
Indices: 12290917--12291007 Score: 73
Period size: 15 Copynumber: 6.4 Consensus size: 14
12290907 GAAAATAATA
12290917 ATAATAATAAT-AAT
1 ATAAT-ATAATAAAT
* *
12290931 AGACTATAATAAAT
1 ATAATATAATAAAT
12290945 GATAATATAAT-AAT
1 -ATAATATAATAAAT
12290959 ATAATATAATACAAT
1 ATAATATAATA-AAT
*
12290974 ATAATA-AACTATACT
1 ATAATATAA-TA-AAT
*
12290989 ATAATATAGT-AAT
1 ATAATATAATAAAT
12291002 ATAATA
1 ATAATA
12291008 CGAGTAACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
13 23 0.37
14 11 0.17
15 28 0.44
16 1 0.02
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (14 bp):
ATAATATAATAAAT
Found at i:12290977 original size:38 final size:38
Alignment explanation
Indices: 12290911--12291008 Score: 119
Period size: 38 Copynumber: 2.5 Consensus size: 38
12290901 AGGAAAGAAA
* *
12290911 ATAATAATAATAATAATAATAGACTATAATAAA-TGATAAT
1 ATAATAAT-ATAAT-ATAATACAATATAATAAACT-ATAAT
*
12290951 ATAATAATATAATATAATACAATATAATAAACTATACT
1 ATAATAATATAATATAATACAATATAATAAACTATAAT
12290989 ATAAT-ATAGTAATATAATAC
1 ATAATAATA-TAATATAATAC
12291009 GAGTAACAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
37 3 0.06
38 36 0.68
39 6 0.11
40 8 0.15
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (38 bp):
ATAATAATATAATATAATACAATATAATAAACTATAAT
Found at i:12291007 original size:5 final size:5
Alignment explanation
Indices: 12290914--12290996 Score: 66
Period size: 5 Copynumber: 16.6 Consensus size: 5
12290904 AAAGAAAATA
* *
12290914 ATAAT AATAAT AATAAT AGACT ATAAT A-AAT GATAAT AT-A- ATAAT
1 ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT
* *
12290959 ATAAT ATAAT ACAAT ATAAT A-AACT ATACT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATA
12290997 GTAATATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
3 2 0.03
4 7 0.11
5 39 0.62
6 15 0.24
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:12291438 original size:55 final size:55
Alignment explanation
Indices: 12291285--12291444 Score: 185
Period size: 55 Copynumber: 2.9 Consensus size: 55
12291275 AATGAGCAGG
* * * *
12291285 ATTGAACCACAAGTTTGAAAGATGATTTGGACTGAACCAAAATCGAATAACTGAG
1 ATTGAACCACAAGTTTGAAAGATGATTTGGACTGAACCAAGATCGAATGACCGAA
* * ** *
12291340 ATTGAACCATAAGTTTGAAAGATGATTTGGATTGATTCGAGATCGAATGACCGAA
1 ATTGAACCACAAGTTTGAAAGATGATTTGGACTGAACCAAGATCGAATGACCGAA
* ** * * *
12291395 ATTGACCCACAAGTCAGAAAAATGATGTGGACTGAACCAAGATCAAATGA
1 ATTGAACCACAAGTTTGAAAGATGATTTGGACTGAACCAAGATCGAATGA
12291445 TTAGGATTTA
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 85 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (55 bp):
ATTGAACCACAAGTTTGAAAGATGATTTGGACTGAACCAAGATCGAATGACCGAA
Found at i:12292261 original size:16 final size:16
Alignment explanation
Indices: 12292236--12292266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12292226 TAAGTCTTCC
12292236 TTTTCCCTTTTTTTTT
1 TTTTCCCTTTTTTTTT
*
12292252 TTTTCGCTTTTTTTT
1 TTTTCCCTTTTTTTT
12292267 GCACACCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTCCCTTTTTTTTT
Found at i:12293491 original size:23 final size:22
Alignment explanation
Indices: 12293447--12293491 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12293437 ATCAAGTAGT
* *
12293447 TTTTGTAAAGCTCTTGGTATAG
1 TTTTGTAAAGCTCTAGGAATAG
*
12293469 TTTTGTATAGCTCATAGGAATAG
1 TTTTGTAAAGCTC-TAGGAATAG
12293492 GATCAAATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (22 bp):
TTTTGTAAAGCTCTAGGAATAG
Found at i:12295849 original size:50 final size:51
Alignment explanation
Indices: 12295795--12295900 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
12295785 TATGGTTGGC
* * *
12295795 TCTTAAAAAACTATTGTGGTTTGAA-TACTT-TAAAAGGTTTTGAAATCGTT
1 TCTTAAAAAACT-TAGGGGTTTGAATTACTTCTAAAAGGTTCTGAAATCGTT
*
12295845 TCTTAAATAACTTAGGGGTTTGAATTACTTCTAAAAGGTTCTGAAATCGTT
1 TCTTAAAAAACTTAGGGGTTTGAATTACTTCTAAAAGGTTCTGAAATCGTT
*
12295896 CCTTA
1 TCTTA
12295901 CATCATTTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 10 0.20
50 16 0.33
51 23 0.47
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (51 bp):
TCTTAAAAAACTTAGGGGTTTGAATTACTTCTAAAAGGTTCTGAAATCGTT
Found at i:12297117 original size:24 final size:24
Alignment explanation
Indices: 12297049--12297111 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
12297039 CAATAAATAA
*
12297049 TAAAAAT-TAATAAAATCAAAAAT
1 TAAAAATAAAATAAAATCAAAAAT
*
12297072 TAAAAATAAAATCAAATCAAAAAT
1 TAAAAATAAAATAAAATCAAAAAT
*
12297096 TAAAATTAAAATAAAA
1 TAAAAATAAAATAAAA
12297112 AAAAAACCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 7 0.20
24 28 0.80
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAAAATAAAATAAAATCAAAAAT
Found at i:12297531 original size:20 final size:20
Alignment explanation
Indices: 12297495--12297541 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
12297485 AAAAACCACT
* *
12297495 CAGAATTTCAATCCTAACCC
1 CAGAAATTCAATCCTAAACC
12297515 CAGAAATTCAAAT-CTAAACC
1 CAGAAATTC-AATCCTAAACC
12297535 CA-AAATT
1 CAGAAATT
12297542 GCCAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 16 0.67
21 3 0.12
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.23
Consensus pattern (20 bp):
CAGAAATTCAATCCTAAACC
Found at i:12300068 original size:14 final size:14
Alignment explanation
Indices: 12300030--12300113 Score: 66
Period size: 14 Copynumber: 5.7 Consensus size: 14
12300020 AATAATAGCT
*
12300030 TAATATAGTAATATTA
1 TAATATAATAATA--A
12300046 TAATATAATAATAA
1 TAATATAATAATAA
*
12300060 TAGTATAATAGACTAA
1 TAATATAATA-A-TAA
12300076 -AATA-AATAATAA
1 TAATATAATAATAA
12300088 TAAATATAAT-ATAA
1 T-AATATAATAATAA
12300102 TACAATATAATA
1 T--AATATAATA
12300114 TACTATACTA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
12 3 0.05
13 1 0.02
14 23 0.40
15 15 0.26
16 15 0.26
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (14 bp):
TAATATAATAATAA
Found at i:12300146 original size:5 final size:5
Alignment explanation
Indices: 12300030--12300135 Score: 60
Period size: 5 Copynumber: 21.4 Consensus size: 5
12300020 AATAATAGCT
* * * * * *
12300030 TAATA TAGTAA TATTA TAATA T-A-A TAATAA TAGTA TAATA GACTA AAATA
1 TAATA TAAT-A TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA TAATA
* * *
12300080 -AATAA TAATA -AATA TAATA TAATA CAATA TAATA TACTA TACTA -AACTA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAA-TA
12300129 TAATA TA
1 TAATA TA
12300136 GTAATATAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
3 2 0.03
4 10 0.13
5 54 0.68
6 13 0.16
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:12304413 original size:19 final size:20
Alignment explanation
Indices: 12304372--12304413 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
12304362 CACTTTTTAC
* *
12304372 TTTTTTTTCTCTTTTCTTTA
1 TTTTTTTTCTCTTTTCATCA
12304392 TTTTTTTT-TCTTTTCATCA
1 TTTTTTTTCTCTTTTCATCA
12304411 TTT
1 TTT
12304414 GTCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTCTTTTCATCA
Found at i:12308019 original size:21 final size:22
Alignment explanation
Indices: 12307995--12308037 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
12307985 CATGTTATGC
*
12307995 ATATGCAAATAAA-AAATAAAT
1 ATATGAAAATAAATAAATAAAT
12308016 ATATGAAAATAAATAAATAAAT
1 ATATGAAAATAAATAAATAAAT
12308038 GAAATACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (22 bp):
ATATGAAAATAAATAAATAAAT
Found at i:12308658 original size:22 final size:22
Alignment explanation
Indices: 12308633--12308680 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
12308623 TAAGATTTGC
*
12308633 TTTGATGCAAATCTTCCAATAG
1 TTTGATACAAATCTTCCAATAG
*
12308655 TTTGATACAAATCTTCCAATTG
1 TTTGATACAAATCTTCCAATAG
12308677 TTTG
1 TTTG
12308681 GTGAGGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (22 bp):
TTTGATACAAATCTTCCAATAG
Found at i:12309127 original size:11 final size:11
Alignment explanation
Indices: 12309099--12309128 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12309089 ATAAAAATGG
*
12309099 AAAAAAATGAA
1 AAAAAAAAGAA
12309110 AAAAAAAAGAA
1 AAAAAAAAGAA
12309121 AAAAAAAA
1 AAAAAAAA
12309129 CCTACGATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:12309776 original size:3 final size:3
Alignment explanation
Indices: 12309768--12309799 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12309758 AGATTAAGAA
12309768 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12309800 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12317649 original size:33 final size:33
Alignment explanation
Indices: 12317606--12317673 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
12317596 AAATGTTATT
12317606 TTGTTAGTAGATCTCATGTAAACAGTATTCCTA
1 TTGTTAGTAGATCTCATGTAAACAGTATTCCTA
* **
12317639 TTGTTTGTAGATCTCATGTAAATGGTATTCCTA
1 TTGTTAGTAGATCTCATGTAAACAGTATTCCTA
12317672 TT
1 TT
12317674 AGAAAGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (33 bp):
TTGTTAGTAGATCTCATGTAAACAGTATTCCTA
Found at i:12317823 original size:15 final size:16
Alignment explanation
Indices: 12317795--12317829 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12317785 ATTAATTAAT
*
12317795 AAAAGAAAGGGAAAAA
1 AAAAGAAAGAGAAAAA
12317811 AAAAGAAA-AGAAAAA
1 AAAAGAAAGAGAAAAA
12317826 AAAA
1 AAAA
12317830 TTTTAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAGAAAAA
Found at i:12324721 original size:34 final size:34
Alignment explanation
Indices: 12324682--12324760 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
12324672 GAATATTTAT
*
12324682 CATTTTTGAAAAGTCATAACACTTCTCAG-AAATG
1 CATTTTTGAAAAGTCATAACACTTAT-AGAAAATG
* * * *
12324716 CATTTTCGAGAAGTCATAACATTTATTGAAAATG
1 CATTTTTGAAAAGTCATAACACTTATAGAAAATG
12324750 CATTTTTGAAA
1 CATTTTTGAAA
12324761 GTGAAAAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (34 bp):
CATTTTTGAAAAGTCATAACACTTATAGAAAATG
Found at i:12325404 original size:24 final size:24
Alignment explanation
Indices: 12325360--12325407 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12325350 AAATTTATTA
12325360 AAAAATAATAAATTTTAATTTTAT
1 AAAAATAATAAATTTTAATTTTAT
* *
12325384 AAAAA-AATATATTTGTTATTTTAT
1 AAAAATAATAAATTT-TAATTTTAT
12325408 CTTTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AAAAATAATAAATTTTAATTTTAT
Found at i:12326488 original size:35 final size:35
Alignment explanation
Indices: 12326449--12326525 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
12326439 CACATAGCTT
* *
12326449 GGAAAATCAATGTA-GGAAGGGAAACTCTTTGTTAA
1 GGAAAACCAATGTAGGGAA-GGAAACTCTTTGTAAA
12326484 GGAAAACCAATGTAGGGAAGGAAACTCTTTGTAAA
1 GGAAAACCAATGTAGGGAAGGAAACTCTTTGTAAA
12326519 GGAAAAC
1 GGAAAAC
12326526 AAAGGAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 35 0.90
36 4 0.10
ACGTcount: A:0.43, C:0.10, G:0.26, T:0.21
Consensus pattern (35 bp):
GGAAAACCAATGTAGGGAAGGAAACTCTTTGTAAA
Found at i:12326668 original size:23 final size:23
Alignment explanation
Indices: 12326618--12326675 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
12326608 ATTCATTTAT
* *
12326618 ATTTATTTATATATTCATGAACAT
1 ATTTATTTA-ATATTCATAAACAA
* *
12326642 ATTTATTTAATATTTATAAATAA
1 ATTTATTTAATATTCATAAACAA
12326665 ATTTATTTAAT
1 ATTTATTTAAT
12326676 TTAAACAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTATTTAATATTCATAAACAA
Found at i:12326685 original size:23 final size:23
Alignment explanation
Indices: 12326642--12326686 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12326632 TCATGAACAT
* *
12326642 ATTTATTTAATATTTATAAATAA
1 ATTTATTTAATATTAACAAATAA
12326665 ATTTATTTAAT-TTAAACAAATA
1 ATTTATTTAATATT-AACAAATA
12326687 GGTCTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTATTTAATATTAACAAATAA
Found at i:12327050 original size:2 final size:2
Alignment explanation
Indices: 12327043--12327088 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
12327033 TCAAATTCAA
* *
12327043 AT AT AT AT AT AT AT AT AA AT AT A- AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12327084 AT AT A
1 AT AT A
12327089 AAGCCTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12331487 original size:18 final size:18
Alignment explanation
Indices: 12331464--12331516 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
12331454 ACCCCATCTA
12331464 GAGTAATCACTAGGCCTG
1 GAGTAATCACTAGGCCTG
* *
12331482 GAGTAATCGCTAGGCCGG
1 GAGTAATCACTAGGCCTG
12331500 GAGTAATCACTAGGCCT
1 GAGTAATCACTAGGCCT
12331517 ATTACTCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (18 bp):
GAGTAATCACTAGGCCTG
Found at i:12333707 original size:32 final size:28
Alignment explanation
Indices: 12333681--12333741 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
12333671 AAAATTGATG
12333681 TATTTATATTATATTATATATAAAAATTA
1 TATTTATATTATATTA-ATATAAAAATTA
*
12333710 TA-TTATAATTTATATTAATATAAAAAATA
1 TATTTAT-A-TTATATTAATATAAAAATTA
12333739 TAT
1 TAT
12333742 ATTTTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.14
29 16 0.57
30 8 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TATTTATATTATATTAATATAAAAATTA
Found at i:12333730 original size:18 final size:18
Alignment explanation
Indices: 12333681--12333726 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
12333671 AAAATTGATG
12333681 TATTTATATTATATTATA
1 TATTTATATTATATTATA
** *
12333699 TATAAAAATTATATTATA
1 TATTTATATTATATTATA
12333717 -ATTTATATTA
1 TATTTATATTA
12333727 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTATATTATATTATA
Found at i:12335504 original size:60 final size:61
Alignment explanation
Indices: 12335438--12335649 Score: 347
Period size: 60 Copynumber: 3.5 Consensus size: 61
12335428 TTGTGCAGGA
12335438 AAAATTGATACTTTCAACTTTTCCT-AAAAAAAAACATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAACATTTTTTGAAAATTTATTTTTAAGG
* * * *
12335498 AAAATTGATACTTTTAACTTTTTCTCAAAAAAAATC-TTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAACATTTTTTGAAAATTTATTTTTAAGG
* *
12335558 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATATTTTTTAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAACATTTTTTGAAAATTTATTTTTAAGG
*
12335619 AAAATTGATGCTTTCAACTTTTCCTCAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA
12335650 TATTTCTTTT
Statistics
Matches: 139, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
60 78 0.56
61 61 0.44
ACGTcount: A:0.41, C:0.11, G:0.06, T:0.42
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAACATTTTTTGAAAATTTATTTTTAAGG
Found at i:12335638 original size:121 final size:120
Alignment explanation
Indices: 12335436--12335668 Score: 378
Period size: 121 Copynumber: 1.9 Consensus size: 120
12335426 TTTTGTGCAG
*
12335436 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAACATTTTTTGAAAATTTATTTTTAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAACATTTTTTAAAAATTTATTTTTAAGGAAA
* *
12335501 ATTGATACTTTTAACTTTTTCTCAAAAAAAATCT-TTTTTGAAAATTTATTTTTAA
66 ATTGATACTTTCAACTTTTCCTC-AAAAAAATCTCTTTTTGAAAATTTATTTTTAA
*
12335556 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATATTTTTTAAAAATTTATTTTTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCT-AAAAAAAAACATTTTTTAAAAATTTATTTTTAAGGAA
* * *
12335621 AATTGATGCTTTCAACTTTTCCTCAAAAATATTTCTTTTTGAAAATTT
65 AATTGATACTTTCAACTTTTCCTCAAAAAAATCTCTTTTTGAAAATTT
12335669 TTATTTTTTG
Statistics
Matches: 104, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
120 35 0.34
121 69 0.66
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (120 bp):
GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAACATTTTTTAAAAATTTATTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAAAATCTCTTTTTGAAAATTTATTTTTAA
Found at i:12335660 original size:61 final size:60
Alignment explanation
Indices: 12335438--12335676 Score: 327
Period size: 61 Copynumber: 3.9 Consensus size: 60
12335428 TTGTGCAGGA
* *
12335438 AAAATTGATACTTTCAACTTTTCCT-AAAAAAAAACATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAATC-TTTTTTAAAAATTTATTTTTAAGG
* * * *
12335498 AAAATTGATACTTTTAACTTTTTCTCAAAAAAAATCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTAAAAATTTATTTTTAAGG
*
12335558 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATATTTTTTAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAAAATCTTTTTTAAAAATTTATTTTTAAGG
* ** * *
12335619 AAAATTGATGCTTTCAACTTTTCCTCAAAAATATTTCTTTTTGAAAATTTTTATTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-AAATCTTTTTTAAAA-ATTTATTTTT
12335677 TGCAAAAAAT
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
60 75 0.47
61 76 0.47
62 9 0.06
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAAATCTTTTTTAAAAATTTATTTTTAAGG
Found at i:12337804 original size:17 final size:18
Alignment explanation
Indices: 12337764--12337804 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
12337754 AGGATAAGAT
12337764 AATTTATTTATTTGTCAA
1 AATTTATTTATTTGTCAA
12337782 AA-TTATCTT-TTT-TCAA
1 AATTTAT-TTATTTGTCAA
12337798 AATTTAT
1 AATTTAT
12337805 ACAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (18 bp):
AATTTATTTATTTGTCAA
Found at i:12339223 original size:21 final size:21
Alignment explanation
Indices: 12339199--12339256 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
12339189 ATGATACAAA
12339199 AATAAAATAATT-TAAA-ATTTT
1 AATAAAA-AATTATAAATA-TTT
*
12339220 AATAAAAAATTATATATATTT
1 AATAAAAAATTATAAATATTT
*
12339241 AAT-AAAAATTAAAAAT
1 AATAAAAAATTATAAAT
12339257 TATATTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 15 0.47
21 16 0.50
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATAAAAAATTATAAATATTT
Found at i:12339996 original size:29 final size:29
Alignment explanation
Indices: 12339956--12340040 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
12339946 TTAAATTATG
*
12339956 TTAAAA-TATTTAATATAATATTTAAATT
1 TTAAAATTTTTTAATATAATATTTAAATT
* **
12339984 TTAAAATTTTTTAATGTGTTATTTAAATT
1 TTAAAATTTTTTAATATAATATTTAAATT
*
12340013 AT-AAATCTATTAATTAATATAATATTTA
1 TTAAAAT-T-TT--TTAATATAATATTTA
12340041 TTTTTAATGT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 10 0.23
29 20 0.45
30 2 0.05
32 12 0.27
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (29 bp):
TTAAAATTTTTTAATATAATATTTAAATT
Found at i:12340712 original size:14 final size:13
Alignment explanation
Indices: 12340684--12340709 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12340674 AATTATCATC
12340684 AATTTTTTTTATT
1 AATTTTTTTTATT
12340697 AATTTTTTTTATT
1 AATTTTTTTTATT
12340710 TAAGTATAAT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
AATTTTTTTTATT
Found at i:12341415 original size:11 final size:12
Alignment explanation
Indices: 12341388--12341421 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
12341378 TTGAAAATAT
*
12341388 TTTTTTCTTTTA
1 TTTTTTGTTTTA
12341400 TTTTTTGTTTTA
1 TTTTTTGTTTTA
12341412 -TTTTTGTTTT
1 TTTTTTGTTTT
12341422 TCAGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTTGTTTTA
Found at i:12341507 original size:15 final size:13
Alignment explanation
Indices: 12341476--12341590 Score: 96
Period size: 15 Copynumber: 8.5 Consensus size: 13
12341466 AATTGCTTAG
12341476 TAAAAATA-AATAA
1 TAAAAATATAA-AA
12341489 TAAAAATCAGTAAAA
1 TAAAAAT-A-TAAAA
12341504 TAAAAATAAAATAAAA
1 TAAAAAT---ATAAAA
*
12341520 TAAAAAAACTTAAAA
1 TAAAAATA--TAAAA
12341535 TAAAAATCAGTAAAA
1 TAAAAAT-A-TAAAA
12341550 TAAAAATA-AAAA
1 TAAAAATATAAAA
12341562 TAAAAATA-AAAA
1 TAAAAATATAAAA
12341574 TAAAAATA-AAAA
1 TAAAAATATAAAA
12341586 -AAAAA
1 TAAAAA
12341591 GAAAAAGAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
11 5 0.06
12 28 0.31
13 8 0.09
14 2 0.02
15 32 0.36
16 14 0.16
17 1 0.01
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (13 bp):
TAAAAATATAAAA
Found at i:12341511 original size:6 final size:6
Alignment explanation
Indices: 12341476--12341602 Score: 123
Period size: 6 Copynumber: 20.0 Consensus size: 6
12341466 AATTGCTTAG
*
12341476 TAAAAA TAAATAA TAAAAA TCAGTAAAA TAAAAA T-AAAA TAAAATA AAAAAA
1 TAAAAA TAAA-AA TAAAAA T-A--AAAA TAAAAA TAAAAA TAAAA-A TAAAAA
*
12341528 CTTAAAA TAAAAA TCAGTAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
1 -TAAAAA TAAAAA T-A--AAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
* *
12341580 TAAAAA -AAAAA GAAAAA GAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA
12341603 CTTGCGATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 22
0.80 0.03 0.17
Matches are distributed among these distances:
5 10 0.09
6 67 0.63
7 17 0.16
8 2 0.02
9 10 0.09
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:12341586 original size:46 final size:45
Alignment explanation
Indices: 12341476--12341585 Score: 168
Period size: 46 Copynumber: 2.4 Consensus size: 45
12341466 AATTGCTTAG
12341476 TAAAAATAAATAATAAAAATCAGTAAAATAAAAATAAAATAAAATA
1 TAAAAATAAA-AATAAAAATCAGTAAAATAAAAATAAAATAAAATA
* *
12341522 AAAAAACTTAAAATAAAAATCAGTAAAATAAAAATAAAAATAAAA-A
1 TAAAAA-TAAAAATAAAAATCAGTAAAATAAAAAT-AAAATAAAATA
12341568 TAAAAATAAAAATAAAAA
1 TAAAAATAAAAATAAAAA
12341586 AAAAAGAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
45 11 0.19
46 35 0.60
47 12 0.21
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (45 bp):
TAAAAATAAAAATAAAAATCAGTAAAATAAAAATAAAATAAAATA
Found at i:12342786 original size:14 final size:14
Alignment explanation
Indices: 12342767--12342793 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12342757 CATTGAGTCA
12342767 TAAAAATTTATTCT
1 TAAAAATTTATTCT
12342781 TAAAAATTTATTC
1 TAAAAATTTATTC
12342794 CTTCAACAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAAAATTTATTCT
Found at i:12350969 original size:73 final size:73
Alignment explanation
Indices: 12350846--12351051 Score: 297
Period size: 73 Copynumber: 2.8 Consensus size: 73
12350836 AGAAAACATA
* * *
12350846 AAGAACCGATCGATCCCTTTTAG-ACAGGATCGATCGGGTGTAAAGACAGTAGCCAATTTCGTTG
1 AAGAATCGATCGATCCCTTTTAGAATAGGATCGATCGGGTGTAAAGGCAGTAGCCAATTTCGTTG
12350910 AACCTAAG
66 AACCTAAG
** * * * **
12350918 AAGAATCGATCGATCCCCCTTAGAATAAGATTGATCGAGTGTAAAGGCAGTAGCCAATTTTTTTG
1 AAGAATCGATCGATCCCTTTTAGAATAGGATCGATCGGGTGTAAAGGCAGTAGCCAATTTCGTTG
12350983 AACCTAAG
66 AACCTAAG
* *
12350991 AAGAATCGATCGATCCCTTTTGGAATAGGATCGATCGGGTGTGAAGGCAGTAGCCAATTTC
1 AAGAATCGATCGATCCCTTTTAGAATAGGATCGATCGGGTGTAAAGGCAGTAGCCAATTTC
12351052 ACTGAACCCA
Statistics
Matches: 115, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 20 0.17
73 95 0.83
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (73 bp):
AAGAATCGATCGATCCCTTTTAGAATAGGATCGATCGGGTGTAAAGGCAGTAGCCAATTTCGTTG
AACCTAAG
Found at i:12351178 original size:20 final size:20
Alignment explanation
Indices: 12351138--12351179 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
12351128 TGGAAAGGCA
*
12351138 CAAAACCAATCGATCCCTTT
1 CAAAACCAATCGATCACTTT
* *
12351158 CAAACCCAATCGATCAGTTT
1 CAAAACCAATCGATCACTTT
12351178 CA
1 CA
12351180 TGTAAAAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.24
Consensus pattern (20 bp):
CAAAACCAATCGATCACTTT
Found at i:12353753 original size:76 final size:76
Alignment explanation
Indices: 12353615--12353789 Score: 219
Period size: 76 Copynumber: 2.3 Consensus size: 76
12353605 GAAAAGATCG
* * * * *
12353615 ATCCCATCAAGCAAGGGATCGATCGAGTAAGGTAAAATAGGCATAAAATCGAGCTTTCTCAAACA
1 ATCCCCTCAAGAAAGGGATCGATAGAGTAAGGCAAAATAGGCACAAAATCGAGCTTTCTCAAACA
*
12353680 TGAATCAATCA
66 TGAACCAATCA
* * * *
12353691 ATCCCCTCAAGAAAGGGATTGATTAG-GTAAGGCAAAATAGGCACAAAATTGAGTTTTTTCAAAC
1 ATCCCCTCAAGAAAGGGATCGA-TAGAGTAAGGCAAAATAGGCACAAAATCGAGCTTTCTCAAAC
12353755 ATGAACCAATCA
65 ATGAACCAATCA
*
12353767 ATCCCCT-AAGGAAATGGATCGAT
1 ATCCCCTCAA-GAAAGGGATCGAT
12353790 CCCTTGAAGG
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
75 3 0.04
76 80 0.94
77 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (76 bp):
ATCCCCTCAAGAAAGGGATCGATAGAGTAAGGCAAAATAGGCACAAAATCGAGCTTTCTCAAACA
TGAACCAATCA
Found at i:12356324 original size:18 final size:18
Alignment explanation
Indices: 12356301--12356353 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
12356291 ACCCCATCTA
12356301 GAGTAATCACTAGGCCTG
1 GAGTAATCACTAGGCCTG
* *
12356319 GAGTAATCGCTAGGCCGG
1 GAGTAATCACTAGGCCTG
12356337 GAGTAATCACTAGGCCT
1 GAGTAATCACTAGGCCT
12356354 ATTACTCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (18 bp):
GAGTAATCACTAGGCCTG
Found at i:12358568 original size:18 final size:18
Alignment explanation
Indices: 12358514--12358564 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
12358504 ATATTAAAAT
*
12358514 TTATGTATTTATATTATA
1 TTATATATTTATATTATA
** *
12358532 TTATATATAAAAATTATA
1 TTATATATTTATATTATA
12358550 TTATA-ATTTATATTA
1 TTATATATTTATATTA
12358565 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATATATTTATATTATA
Found at i:12361633 original size:6 final size:6
Alignment explanation
Indices: 12361622--12361651 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12361612 ATTATTCATG
*
12361622 CTCGAA CTCGAA CTCGAA CTCGAA TTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
12361652 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (6 bp):
CTCGAA
Found at i:12362002 original size:23 final size:23
Alignment explanation
Indices: 12361957--12362004 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
12361947 AATTTAAAAT
* *
12361957 TTTAATAAAAAATTATATATATA
1 TTTAATAAAAAATTAAAAATATA
12361980 TTTAAT-AAAAATTAAAAATTATA
1 TTTAATAAAAAATTAAAAA-TATA
12362003 TT
1 TT
12362005 ATGTATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAATAAAAAATTAAAAATATA
Found at i:12364260 original size:14 final size:13
Alignment explanation
Indices: 12364229--12364310 Score: 66
Period size: 12 Copynumber: 6.4 Consensus size: 13
12364219 AGTCAGTAAA
12364229 TAAAAT-TAAAA-
1 TAAAATATAAAAC
12364240 TAAAATATAAAAC
1 TAAAATATAAAAC
12364253 TCAAAATATAAAAC
1 T-AAAATATAAAAC
*
12364267 AAATAAAAT-TAAAAT
1 ---TAAAATATAAAAC
*
12364282 TAAAAAATAAAA-
1 TAAAATATAAAAC
*
12364294 TAAAATA-AAAAA
1 TAAAATATAAAAC
12364306 TAAAA
1 TAAAA
12364311 ACTTGCGATC
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
11 10 0.17
12 21 0.35
13 6 0.10
14 12 0.20
15 5 0.08
16 5 0.08
17 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAAATATAAAAC
Found at i:12364271 original size:30 final size:30
Alignment explanation
Indices: 12364204--12364310 Score: 103
Period size: 32 Copynumber: 3.5 Consensus size: 30
12364194 TTGTTTAGTA
**
12364204 AAAAT-AAATAATAAAAGTCAGTAAATAAAATT
1 AAAATAAAAT-ATAAAA-TCAAAAAATAAAA-T
*
12364236 AAAATAAAATATAAAACTCAAAATATAAAA-
1 AAAATAAAATATAAAA-TCAAAAAATAAAAT
* *
12364266 CAAATAAAAT-TAAAATTAAAAAATAAAAT
1 AAAATAAAATATAAAATCAAAAAATAAAAT
*
12364295 AAAATAAAAAATAAAA
1 AAAATAAAATATAAAA
12364311 ACTTGCGATC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
28 11 0.17
29 13 0.21
30 14 0.22
32 21 0.33
33 4 0.06
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (30 bp):
AAAATAAAATATAAAATCAAAAAATAAAAT
Found at i:12364273 original size:41 final size:40
Alignment explanation
Indices: 12364226--12364305 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
12364216 AAAAGTCAGT
* *
12364226 AAATAAAATTAAAA-TAAAATATAAAACTCAAAATATAAAAC
1 AAATAAAATTAAAATTAAAAAATAAAA-T-AAAATAAAAAAC
12364267 AAATAAAATTAAAATTAAAAAATAAAATAAAATAAAAAA
1 AAATAAAATTAAAATTAAAAAATAAAATAAAATAAAAAA
12364306 TAAAAACTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 10 0.28
41 15 0.42
42 11 0.31
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (40 bp):
AAATAAAATTAAAATTAAAAAATAAAATAAAATAAAAAAC
Found at i:12364310 original size:5 final size:5
Alignment explanation
Indices: 12364226--12364303 Score: 54
Period size: 5 Copynumber: 14.6 Consensus size: 5
12364216 AAAAGTCAGT
12364226 AAATA AAATTA AAATAA AATATA AAACTCA AAATA TAAA-A CAAATA AAATTA
1 AAATA AAA-TA AAAT-A AA-ATA AAA-T-A AAATA -AAATA -AAATA AAA-TA
*
12364278 AAAT- TAA-A AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
12364304 AATAAAAACT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
4 4 0.07
5 28 0.47
6 22 0.37
7 6 0.10
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:12364311 original size:6 final size:6
Alignment explanation
Indices: 12364202--12364311 Score: 57
Period size: 6 Copynumber: 18.0 Consensus size: 6
12364192 AATTGTTTAG
* * * *
12364202 TAAAAA TAAATAA TAAAAG TCAGTAAA T-AAAA TTAAAA TAAAATA TAAAAC
1 TAAAAA TAAA-AA TAAAAA T-A-AAAA TAAAAA TAAAAA TAAAA-A TAAAAA
* * * * *
12364253 TCAAAA TATAAA -ACAAA TAAAAT TAAAAT TAAAAA -ATAAAA T-AAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA
12364299 TAAAAAA TAAAAA
1 T-AAAAA TAAAAA
12364312 CTTGCGATCA
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
5 14 0.17
6 45 0.56
7 18 0.22
8 3 0.04
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:12364652 original size:20 final size:21
Alignment explanation
Indices: 12364623--12364669 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
12364613 CCCTAAAACT
*
12364623 TAAAATAATTT-AAAATTTTC
1 TAAAAAAATTTCAAAATTTTC
12364643 TAAAAAAATTTCAAAATTTTC
1 TAAAAAAATTTCAAAATTTTC
*
12364664 CAAAAA
1 TAAAAA
12364670 TCTAAACTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATTTCAAAATTTTC
Found at i:12367423 original size:22 final size:21
Alignment explanation
Indices: 12367380--12367424 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
12367370 TTTGGTAGGA
* **
12367380 TTAAAATTATTTTTTATTTTT
1 TTAAAATTATTTATTAAATTT
12367401 TTAAAATTTATTTATTAAATTT
1 TTAAAA-TTATTTATTAAATTT
12367423 TT
1 TT
12367425 CAATAGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTAAAATTATTTATTAAATTT
Found at i:12367627 original size:22 final size:24
Alignment explanation
Indices: 12367579--12367640 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
12367569 TAAAATATTT
* *
12367579 AATAAATAATAAATTGCTTAGTAAA
1 AATAAATAATAAA-AGCTCAGTAAA
12367604 AATAAATAATAAAAG-TCAGT-AA
1 AATAAATAATAAAAGCTCAGTAAA
12367626 AATAAATAATTAAAA
1 AATAAATAA-TAAAA
12367641 AATAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 11 0.32
23 9 0.26
24 1 0.03
25 13 0.38
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.27
Consensus pattern (24 bp):
AATAAATAATAAAAGCTCAGTAAA
Found at i:12367651 original size:25 final size:25
Alignment explanation
Indices: 12367623--12367682 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
12367613 TAAAAGTCAG
*
12367623 TAAAATAAATAA-TTAAAAAATAAAA
1 TAAAATAAA-AACTCAAAAAATAAAA
*
12367648 TAAAATAAAAACTCAAAATATAAAA
1 TAAAATAAAAACTCAAAAAATAAAA
12367673 T-AAATAAAAA
1 TAAAATAAAAA
12367683 GAAAATCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 11 0.34
25 21 0.66
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAAATAAAAACTCAAAAAATAAAA
Found at i:12367701 original size:29 final size:30
Alignment explanation
Indices: 12367637--12367701 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
12367627 ATAAATAATT
*
12367637 AAAAAATAAAATAAAATAAAAACTCAAAAT
1 AAAAAATAAAATAAAATAAAAACTCAAAAA
*
12367667 ATAAAAT-AAATAAAA-AGAAAA-TCAAAAA
1 AAAAAATAAAATAAAATA-AAAACTCAAAAA
12367695 AGAAAAA
1 A-AAAAA
12367702 CCTGTGATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.27
29 16 0.53
30 6 0.20
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (30 bp):
AAAAAATAAAATAAAATAAAAACTCAAAAA
Found at i:12367971 original size:19 final size:19
Alignment explanation
Indices: 12367943--12367979 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12367933 TCATTGGAAT
*
12367943 TCCACTGAAAAATTCAAAG
1 TCCACCGAAAAATTCAAAG
12367962 TCCACCGAAAAATTCAAA
1 TCCACCGAAAAATTCAAA
12367980 CATTCGACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (19 bp):
TCCACCGAAAAATTCAAAG
Found at i:12370923 original size:11 final size:11
Alignment explanation
Indices: 12370891--12370982 Score: 59
Period size: 11 Copynumber: 8.6 Consensus size: 11
12370881 AAAATTCTTT
12370891 AAAATTTT-AA
1 AAAATTTTAAA
**
12370901 AAAATTCCAAA
1 AAAATTTTAAA
12370912 AAAATTTT--A
1 AAAATTTTAAA
* *
12370921 AAAATTGT-AG
1 AAAATTTTAAA
*
12370931 AAAA-TTCAAA
1 AAAATTTTAAA
12370941 CAAAATTTTAAA
1 -AAAATTTTAAA
*
12370953 AAAATTCTAAA
1 AAAATTTTAAA
* *
12370964 ATAATGTTAAA
1 AAAATTTTAAA
12370975 AAATATTT
1 AAA-ATTT
12370983 AGAAAATTAA
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
9 9 0.15
10 11 0.18
11 32 0.53
12 8 0.13
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:12370925 original size:30 final size:29
Alignment explanation
Indices: 12370879--12370954 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 29
12370869 AAACAAGTCT
* *
12370879 AAAAAATTCTTTAAAATTTTAAAAAATTCCA
1 AAAAAATT-TTAAAAATTGTAAAAAATT-CA
*
12370910 AAAAAATTTTAAAAATTGTAGAAAATTCA
1 AAAAAATTTTAAAAATTGTAAAAAATTCA
12370939 AACAAAATTTTAAAAA
1 AA-AAAATTTTAAAAA
12370955 AATTCTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 4 0.10
30 29 0.71
31 8 0.20
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAAATTTTAAAAATTGTAAAAAATTCA
Found at i:12370955 original size:21 final size:21
Alignment explanation
Indices: 12370920--12370978 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
12370910 AAAAAATTTT
* *
12370920 AAAAATTGTAGAAAATTC-AA
1 AAAAATTTTAAAAAATTCTAA
12370940 ACAAAATTTTAAAAAAATTCTAA
1 A-AAAATTTT-AAAAAATTCTAA
* *
12370963 AATAATGTTAAAAAAT
1 AAAAATTTTAAAAAAT
12370979 ATTTAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 14 0.44
22 14 0.44
23 3 0.09
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATTTTAAAAAATTCTAA
Found at i:12370965 original size:30 final size:29
Alignment explanation
Indices: 12370879--12370964 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 29
12370869 AAACAAGTCT
* *
12370879 AAAAAATTCTTTAAAATTTTAAAAAATTCCA
1 AAAAAATT-TTAAAAATTCT-AAAAATTCCA
*
12370910 AAAAAATTTTAAAAATTGTAGAAAATT-CA
1 AAAAAATTTTAAAAATTCTA-AAAATTCCA
12370939 AACAAAATTTTAAAAAAATTCTAAAA
1 AA-AAAATTTT--AAAAATTCTAAAA
12370965 TAATGTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 5 0.10
30 23 0.48
31 11 0.23
32 9 0.19
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAAAATTTTAAAAATTCTAAAAATTCCA
Found at i:12371269 original size:27 final size:28
Alignment explanation
Indices: 12371234--12371299 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
12371224 TTCTAGTATC
*
12371234 TTTTGAAAATTTTAT-GAA-ATTTTTAA
1 TTTTAAAAATTTTATAGAATATTTTTAA
* *
12371260 TTTTTAAAAATTTTTTAGAATTTTTTTAA
1 -TTTTAAAAATTTTATAGAATATTTTTAA
12371289 TTTTAAAAATT
1 TTTTAAAAATT
12371300 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 13 0.38
28 14 0.41
29 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTAAAAATTTTATAGAATATTTTTAA
Found at i:12371285 original size:28 final size:27
Alignment explanation
Indices: 12371234--12371313 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
12371224 TTCTAGTATC
* * *
12371234 TTTTGAAAATTTTAT-GAAATTTTTAA
1 TTTTAAAAATTTTTTAGAATTTTTTAA
12371260 TTTTTAAAAATTTTTTAGAATTTTTTTAA
1 -TTTTAAAAATTTTTTAGAA-TTTTTTAA
*
12371289 TTTTAAAAATTATTTTTAAAATTTT
1 TTTTAAAAA-T-TTTTTAGAATTTT
12371314 CTTTGTGTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.29
28 12 0.27
29 12 0.27
30 8 0.18
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTTAAAAATTTTTTAGAATTTTTTAA
Found at i:12371285 original size:29 final size:30
Alignment explanation
Indices: 12371253--12371313 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
12371243 TTTTATGAAA
*
12371253 TTTTTAATTTTTAAAAA-T-TTTTTAGAATT
1 TTTTTAA-TTTTAAAAATTATTTTTAAAATT
12371282 TTTTTAATTTTAAAAATTATTTTTAAAATT
1 TTTTTAATTTTAAAAATTATTTTTAAAATT
12371312 TT
1 TT
12371314 CTTTGTGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 9 0.31
29 8 0.28
30 12 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTTAATTTTAAAAATTATTTTTAAAATT
Done.