Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 30
Found at i:3525396 original size:81 final size:80
Alignment explanation
Indices: 3525242--3525435 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 80
3525232 TTAAAAACTG
* * *
3525242 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCAATTTATGGATACGCATT
1 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCAATTTACGGATACGCATT
* *
3525307 GCGATTTACGTATTCT
65 GCGATTTACGGATACT
* *
3525323 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCAATTTACGGATACGCATTG
3525388 CGATTTTACGGATACT
66 CGA-TTTACGGATACT
*
3525404 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTA
1 CGTTGCGAT-TTACAGATA-CGCGTTGCGATTTA
3525436 TATGTTCGCA
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
80 37 0.36
81 64 0.63
82 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (80 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCAATTTACGGATACGCATTG
CGATTTACGGATACT
Found at i:3525444 original size:20 final size:20
Alignment explanation
Indices: 3525421--3525473 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
3525411 ATAGTCAGAA
*
3525421 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
3525441 TCGCATTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
3525461 TCGCGTTGCGATT
1 TCGCGTTGCGATT
3525474 CTGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:3525450 original size:81 final size:81
Alignment explanation
Indices: 3525242--3525473 Score: 229
Period size: 81 Copynumber: 2.9 Consensus size: 81
3525232 TTAAAAACTG
* * * * * * *
3525242 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATT-GTCGTTGCAATTTATGGATACGCAT
1 CGTTGCGATGTACAGATACGCGTTGCGA-TTTACATATTCG-CATTGCGATTTACGGATACGCGT
* *
3525306 TGCGA-TTTACGTATTCT
64 TGCGATTTTACGGATACT
* * * *
3525323 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATGTACAGATACGCGTTGCGATTTACATATTCGCATTGCGATTTACGGATACGCGTTG
3525388 CGATTTTACGGATACT
66 CGATTTTACGGATACT
* * * ** *
3525404 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCGCATTGCGATTTTCATATTCGCGT
1 CGTTGCGAT-GTACAGATA-CGCGTTGCGATTTACATATTCGCATTGCGATTTACGGATACGCGT
3525467 TGCGATT
64 TGCGATT
3525474 CTGGAAAATC
Statistics
Matches: 130, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 36 0.28
81 93 0.72
82 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (81 bp):
CGTTGCGATGTACAGATACGCGTTGCGATTTACATATTCGCATTGCGATTTACGGATACGCGTTG
CGATTTTACGGATACT
Found at i:3525551 original size:20 final size:20
Alignment explanation
Indices: 3525502--3525558 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3525492 AATTTGTACT
*
3525502 ATCGCATTGCGATTCTGGGA
1 ATCGCATTGCGATTTTGGGA
*
3525522 ATTG-ATTTGCGATTTT-GGA
1 ATCGCA-TTGCGATTTTGGGA
3525541 GATCGCATTGCGATTTTG
1 -ATCGCATTGCGATTTTG
3525559 TTGGTCATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (20 bp):
ATCGCATTGCGATTTTGGGA
Found at i:3528876 original size:19 final size:19
Alignment explanation
Indices: 3528852--3528895 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3528842 TTGTGAGTGG
*
3528852 TCATGAGAGTA-AAAGGTTT
1 TCATGAGAG-ACAAAGGGTT
*
3528871 TCATGATAGACAAAGGGTT
1 TCATGAGAGACAAAGGGTT
3528890 TCATGA
1 TCATGA
3528896 TATAGACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (19 bp):
TCATGAGAGACAAAGGGTT
Found at i:3535062 original size:42 final size:41
Alignment explanation
Indices: 3535007--3535117 Score: 125
Period size: 42 Copynumber: 2.7 Consensus size: 41
3534997 ATTTCCCAAA
* *
3535007 ATGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
1 ATGGTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAG
* * **
3535048 ATGATTAAATCCTTCGGG-TATTTTGTAAGTCTTTCGAGCAAG
1 ATG-GTAAATCCTTCGGGCCA-TCAGTAAGTCTTTCGAGCAAG
* *
3535090 ATGGTAAGTCCTTCGGGCCATCCGTAAG
1 ATGGTAAATCCTTCGGGCCATCAGTAAG
3535118 ACCTTCAAGT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 22 0.39
42 34 0.61
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
ATGGTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAG
Found at i:3535077 original size:257 final size:258
Alignment explanation
Indices: 3534373--3535331 Score: 1354
Period size: 258 Copynumber: 3.7 Consensus size: 258
3534363 TTAAGTTGAT
* ** *
3534373 TTTCAAAAAATGAGAACCCGATTTCCAAAGTTTTTCATTTAATCTTTTCTAAAAATGAAATTTTT
1 TTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTT
* *
3534438 GAAAAGTAAGAAAGTGATTTCCAAAGTTTATTACCCAGTAAACTATTTCCCAAAATAGTAAGTCC
66 GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAAATAGTAAGTCC
3534503 TT-GGGCCATCAGTAAGTCTTTCGAGCATGATGATTTAAA-CCTTCGGGGTCATCTGTAAGTCTT
131 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA-TTAAATCCTTC-GGGTCATCTGTAAGTCTT
* * * * **
3534566 TTGAGCAAGATGATAAGTCCTTCGAGCCATCTGTAAGACCATCGGGTAGGATGTTTTCACATGAA
194 TCGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAAGTAGGATGTTTTCACATGAA
* * *
3534631 TTTCGTAAAATGAGAAAGCGATTTCCAAAGTTTCTAATTTAATCTTTTCTGAAAATGAAATTTTT
1 TTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTT
* * * * *
3534696 GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCTAAATTGGTAAGTCA
66 GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAAATAGTAAGTCC
* ** * *
3534761 TTCAGGCCATCAGTAAGTCTTTTAAGCATGATGATTAAATCCTTCGGATCATCTGTAAGTCTTCC
131 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC
* * * ** * *
3534826 GAGCAAGATGATTAGTCCTTTGGGCCATCCATAAGACCTTCTTGTAGGATATTTTCACGTGAA
196 GAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAAGTAGGATGTTTTCACATGAA
* * * *
3534889 TTTTGAAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAATCTTTTTTAAAAATG-AATTTTT
1 TTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTT
* * *
3534953 TAAAAGTAAGAAAGCGATTTCTAAAGTTTCTTACCCAGTAAACTATTTCCCAAAATGGTAAGTCC
66 GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAAATAGTAAGTCC
*
3535018 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT-ATTTTGTAAGTCTTT
131 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCA-TCTGTAAGTCTTT
*
3535082 CGAGCAAGATGGTAAGTCCTTCGGGCCATCCGTAAGACCTTCAAGTAGGATGTTTTCACATGAA
195 CGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAAGTAGGATGTTTTCACATGAA
* * * * * *
3535146 CTTCGAAATATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATGTTTT-TAGAAAATGAAAATTT
1 TTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATCTTTTCTA-AAAATGAAATTTT
*
3535210 TGAAAAGTAAGAAAGCGATTTCCAAAATTTCTTACCCAGTAAACTATTT-CCAAAATTAGTAAGT
65 TGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAAA-TAGTAAGT
* * * * *
3535274 CCTTCGGGCCATTAGTAAGTGTTTCGAGCATGATGATTAAATCTTTTGGGTTATCTGT
129 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGT
3535332 CGGTCTCACT
Statistics
Matches: 621, Mismatches: 73, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
256 3 0.00
257 232 0.37
258 352 0.57
259 34 0.05
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (258 bp):
TTTCGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATCTTTTCTAAAAATGAAATTTTT
GAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAAATAGTAAGTCC
TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTC
GAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAGACCTTCAAGTAGGATGTTTTCACATGAA
Found at i:3535479 original size:3 final size:3
Alignment explanation
Indices: 3535473--3535524 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
3535463 TTAATAATAA
*
3535473 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT T-T ATAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
3535517 TAT T-T TAT
1 TAT TAT TAT
3535525 GTAGGTCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 5 0.12
3 37 0.86
4 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3542101 original size:19 final size:18
Alignment explanation
Indices: 3542060--3542102 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
3542050 TCAAAAAAAA
3542060 TTAAAATATATATATATT
1 TTAAAATATATATATATT
3542078 TTAAAATA-ATATTATATT
1 TTAAAATATATA-TATATT
3542096 TATAAAA
1 T-TAAAA
3542103 ATCTCTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 3 0.13
18 15 0.65
19 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAATATATATATATT
Found at i:3542200 original size:25 final size:25
Alignment explanation
Indices: 3542166--3542222 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
3542156 TAACTCACCG
3542166 TCGTCGCCCTTTCTGACAACGATCA
1 TCGTCGCCCTTTCTGACAACGATCA
*
3542191 TCGTCGCCCTTTCTGACCACGATCA
1 TCGTCGCCCTTTCTGACAACGATCA
3542216 TCGTCGC
1 TCGTCGC
3542223 TGACATAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.16, C:0.39, G:0.18, T:0.28
Consensus pattern (25 bp):
TCGTCGCCCTTTCTGACAACGATCA
Found at i:3542849 original size:26 final size:26
Alignment explanation
Indices: 3542813--3542874 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
3542803 TATACCGTGC
3542813 TCGACGAGCAGCGATAAACACCACTA
1 TCGACGAGCAGCGATAAACACCACTA
*
3542839 TCGACGAGCAGCGATAAACATCACTA
1 TCGACGAGCAGCGATAAACACCACTA
*
3542865 ACGACGAGCA
1 TCGACGAGCA
3542875 TCATTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.29, G:0.21, T:0.11
Consensus pattern (26 bp):
TCGACGAGCAGCGATAAACACCACTA
Found at i:3544178 original size:21 final size:21
Alignment explanation
Indices: 3544150--3544191 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
3544140 ATAGTTTACA
3544150 CTTTA-TTTTAAATAATTTAT
1 CTTTATTTTTAAATAATTTAT
*
3544170 CTTTAATTTTTAACTAATTTAT
1 CTTT-ATTTTTAAATAATTTAT
3544192 AATTATACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 1 0.05
22 14 0.74
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTTATTTTTAAATAATTTAT
Found at i:3544408 original size:22 final size:22
Alignment explanation
Indices: 3544383--3544439 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
3544373 TGATAAAAAT
*
3544383 ATTATTACAAACATCAATAGTA
1 ATTATAACAAACATCAATAGTA
3544405 ATTATAACAAACATCAATAGTA
1 ATTATAACAAACATCAATAGTA
3544427 ATTATAACAAACA
1 ATTATAACAAACA
3544440 AATTGAAGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (22 bp):
ATTATAACAAACATCAATAGTA
Found at i:3545477 original size:13 final size:13
Alignment explanation
Indices: 3545459--3545491 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3545449 TATATATAAT
3545459 AAAATAGTTTTT-A
1 AAAATA-TTTTTGA
3545472 AAAATATTTTTGA
1 AAAATATTTTTGA
3545485 AAAATAT
1 AAAATAT
3545492 ATATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (13 bp):
AAAATATTTTTGA
Found at i:3545514 original size:38 final size:37
Alignment explanation
Indices: 3545440--3545767 Score: 347
Period size: 38 Copynumber: 8.9 Consensus size: 37
3545430 AAAAAGCAGT
* *
3545440 TTTTG-AAAATATATATAATAAAATAGTTTTTAAAAATA
1 TTTTGAAAAATATATATAAT-ATATAGTTTTT-AAAACA
* *
3545478 TTTTTGAAAAATATATATAATATATAATTTTTAAAATA
1 -TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
*
3545516 TTTTG-AATATATATATATATAATATAGTTTTTAAAACA
1 TTTTGAAAAATATATATA-AT-ATATAGTTTTTAAAACA
* *
3545554 TTTTGAAAACT-TATATAATATATAGTTTTGAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
*
3545590 TTTTGAAAAAATATATATAATATATAGTTTTAAAAACA
1 TTTTG-AAAAATATATATAATATATAGTTTTTAAAACA
*
3545628 TTTTGAAAAAATATATATAATATATAATTTTTAAAACA
1 TTTTG-AAAAATATATATAATATATAGTTTTTAAAACA
* *
3545666 -TTTG---AATATATAT-ATATATA-TATAT-AAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
* *
3545696 TTTTGGAAACT-TATATAATATATAG-TTTTAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
* * *
3545731 TTTTTGAAAACATATATAAAATATAAATTTTTTAAAA
1 -TTTTGAAAA-ATATATATAATATATAGTTTTTAAAA
3545768 AACCTTTTTT
Statistics
Matches: 250, Mismatches: 22, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.02
31 7 0.03
32 7 0.03
33 14 0.06
34 11 0.04
35 5 0.02
36 40 0.16
37 19 0.08
38 103 0.41
39 25 0.10
40 14 0.06
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (37 bp):
TTTTGAAAAATATATATAATATATAGTTTTTAAAACA
Found at i:3545791 original size:104 final size:106
Alignment explanation
Indices: 3545479--3545767 Score: 322
Period size: 112 Copynumber: 2.7 Consensus size: 106
3545469 TTAAAAATAT
* * * * * *
3545479 TTTTG-AAAAATATATATAATATATAATTTTTAAAATATTTTGAATATATATAT-ATATAATATA
1 TTTTGAAAAAATATATATAATATATAGTTTTAAAAACATTTTGAAAAAATATATAAAAT-ATATA
* * *
3545542 GTTTTTAAAACATTTTGAAAACT-TATATAATATATAGTTTTGAAAACA
65 ATTTTTAAAACA-TTTGAATA-TATATAT-ATATATA--TAT--AAACA
*
3545590 TTTTGAAAAAATATATATAATATATAGTTTTAAAAACATTTTGAAAAAATATATATAATATATAA
1 TTTTGAAAAAATATATATAATATATAGTTTTAAAAACATTTTGAAAAAATATATAAAATATATAA
3545655 TTTTTAAAACATTTGAATATATATATATATATATATAAACA
66 TTTTTAAAACATTTGAATATATATATATATATATATAAACA
* * *
3545696 TTTTG-GAAACT-TATATAATATATAGTTTT-AAAACATTTTTGAAAACATATATAAAATATA-A
1 TTTTGAAAAAATATATATAATATATAGTTTTAAAAACA-TTTTGAAAAAATATATAAAATATATA
3545757 ATTTTTTAAAA
65 A-TTTTTAAAA
3545768 AACCTTTTTT
Statistics
Matches: 159, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
103 8 0.05
104 49 0.31
105 4 0.03
106 10 0.06
108 2 0.01
110 8 0.05
111 17 0.11
112 59 0.37
113 2 0.01
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (106 bp):
TTTTGAAAAAATATATATAATATATAGTTTTAAAAACATTTTGAAAAAATATATAAAATATATAA
TTTTTAAAACATTTGAATATATATATATATATATATAAACA
Found at i:3545851 original size:3 final size:3
Alignment explanation
Indices: 3545843--3545892 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
3545833 TTCCTTTTAT
* *
3545843 TTA TTA TTA TTA TTA TTA TTA TTTA TTT TCTA TTT TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA -TTA TTA TTA
3545891 TT
1 TT
3545893 TTTTTAAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 32 0.80
4 8 0.20
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:3545881 original size:17 final size:16
Alignment explanation
Indices: 3545839--3545895 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
3545829 TTTTTTCCTT
3545839 TTATTTATTA-TTATTA
1 TTATTT-TTATTTATTA
* *
3545855 TTATTATTATTTATTT
1 TTATTTTTATTTATTA
3545871 TCTATTTTTATTTATTA
1 T-TATTTTTATTTATTA
3545888 TTATTTTT
1 TTATTTTT
3545896 TTAAAGGGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 3 0.09
16 18 0.51
17 14 0.40
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTTATTTATTA
Found at i:3546277 original size:31 final size:31
Alignment explanation
Indices: 3546242--3546309 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
3546232 CAACACATCA
*
3546242 AACCACACCAGTACAACACACA-AAAACAACC
1 AACCACA-CAGGACAACACACAGAAAACAACC
* *
3546273 AACCA-ACAGGATAACACACAGAAAACAAGC
1 AACCACACAGGACAACACACAGAAAACAACC
*
3546303 AAACACA
1 AACCACA
3546310 AACGCAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 12 0.39
30 13 0.42
31 6 0.19
ACGTcount: A:0.57, C:0.32, G:0.07, T:0.03
Consensus pattern (31 bp):
AACCACACAGGACAACACACAGAAAACAACC
Found at i:3547030 original size:54 final size:51
Alignment explanation
Indices: 3546964--3547078 Score: 160
Period size: 54 Copynumber: 2.2 Consensus size: 51
3546954 TTCTTTAAAT
*
3546964 TTTTAGTTATTCATTTTCTTCTCCTTTTTAATTTTAACATTCTTTTTATTATTA
1 TTTTAGTTATTCATTTTCTTCTCC-TTTTAATTTTAACATAC-TTTTATT-TTA
* * *
3547018 TTTTAGTTATTCATTTTTTTCTCCTTTTAATTTTAGCATACTTTTGTTTTA
1 TTTTAGTTATTCATTTTCTTCTCCTTTTAATTTTAACATACTTTTATTTTA
3547069 TTTTA-TTATT
1 TTTTAGTTATT
3547079 TTTTAAATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 5 0.09
51 8 0.14
52 6 0.11
53 15 0.26
54 23 0.40
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.66
Consensus pattern (51 bp):
TTTTAGTTATTCATTTTCTTCTCCTTTTAATTTTAACATACTTTTATTTTA
Found at i:3547138 original size:15 final size:14
Alignment explanation
Indices: 3547064--3547139 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
3547054 CATACTTTTG
3547064 TTTTATTTTATTA-
1 TTTTATTTTATTAT
**
3547077 TTTT-TTAAATTATT
1 TTTTATTTTATTA-T
*
3547091 TTTTGTTTTA-TATT
1 TTTTATTTTATTA-T
*
3547105 TTTTACTTCTTCTTAT
1 TTTTA-TT-TTATTAT
*
3547121 TTTTATTTTATTAC
1 TTTTATTTTATTAT
3547135 TTTTA
1 TTTTA
3547140 AAATTTAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 6 0.12
13 4 0.08
14 22 0.45
15 7 0.14
16 8 0.16
17 2 0.04
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (14 bp):
TTTTATTTTATTAT
Found at i:3553794 original size:36 final size:35
Alignment explanation
Indices: 3553702--3554024 Score: 336
Period size: 36 Copynumber: 8.9 Consensus size: 35
3553692 AAAAATCGAT
* *
3553702 TTTTGAAAAAATATATATAATATAAAGTTTTCAAAAACA
1 TTTTG-AAAATTATATATAATAT--AGTTTT-TAAAACA
3553741 TTTTGAATATATATATATATAATATAGTTTTTAAAACA
1 TTTTGAA-A-AT-TATATATAATATAGTTTTTAAAACA
* * *
3553779 TTTTGAAAACTTATATA-ATATATAGTTATGAAAATA
1 TTTTGAAAA-TTATATATA-ATATAGTTTTTAAAACA
* **
3553815 TTTTGAAAAATATATATATATATAG-TTCGAAAACA
1 TTTTGAAAATTATATATA-ATATAGTTTTTAAAACA
3553850 TTTTG-AAATATATATATAATATAGTTTTTAAAACA
1 TTTTGAAAAT-TATATATAATATAGTTTTTAAAACA
3553885 TTTTGAAAATATATATATAATATAGTTTTTAAAACA
1 TTTTGAAAAT-TATATATAATATAGTTTTTAAAACA
*
3553921 TTTTGATAA-TATATATAATATATAGTTTTTAAAACA
1 TTTTGAAAATTATATAT-A-ATATAGTTTTTAAAACA
3553957 TTTTGAAAACTTATA-AT-ATATA-TTTTTAAAACA
1 TTTTGAAAA-TTATATATAATATAGTTTTTAAAACA
* * *
3553990 TTTTTGAAAACATATATAAAATATAATTTTTAAAA
1 -TTTTGAAAA-TTATATATAATATAGTTTTTAAAA
3554025 AAAACTTATT
Statistics
Matches: 251, Mismatches: 16, Indels: 36
0.83 0.05 0.12
Matches are distributed among these distances:
33 11 0.04
34 35 0.14
35 42 0.17
36 106 0.42
37 13 0.05
38 19 0.08
39 12 0.05
40 1 0.00
41 12 0.05
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (35 bp):
TTTTGAAAATTATATATAATATAGTTTTTAAAACA
Found at i:3554020 original size:106 final size:107
Alignment explanation
Indices: 3553710--3554024 Score: 408
Period size: 106 Copynumber: 2.9 Consensus size: 107
3553700 ATTTTTGAAA
*
3553710 AAATATATATAATATAAAGTTTTCAAAAACATTTTGAATATATATATATATAATATAGTTTTTAA
1 AAATATATATAATATATAGTTTT-AAAAACATTTTGAA-A-ATATATATATAATATAGTTTTTAA
* * * * *
3553775 AACATTTTGAAAACTTATATAATATATAGTTATGAAAATATTTTG
63 AACATTTTGAAAACATATATAAAATATAGTTTTTAAAACATTTTG
* **
3553820 AAAAATATATATATATATAG-TTCGAAAACATTTTG-AAATATATATATAATATAGTTTTTAAAA
1 AAATATATATA-ATATATAGTTTTAAAAACATTTTGAAAATATATATATAATATAGTTTTTAAAA
* *
3553883 CATTTTGAAAATATATATATAATATAGTTTTTAAAACATTTTG
65 CATTTTGAAAACATATATAAAATATAGTTTTTAAAACATTTTG
*
3553926 ATAATATATATAATATATAGTTTTTAAAACATTTTGAAAACT-TATA-AT-ATATA-TTTTTAAA
1 A-AATATATATAATATATAGTTTTAAAAACATTTTGAAAA-TATATATATAATATAGTTTTTAAA
*
3553987 ACATTTTTGAAAACATATATAAAATATAATTTTTAAAA
64 ACA-TTTTGAAAACATATATAAAATATAGTTTTTAAAA
3554025 AAAACTTATT
Statistics
Matches: 182, Mismatches: 17, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
105 11 0.06
106 107 0.59
107 25 0.14
108 8 0.04
109 12 0.07
110 12 0.07
111 7 0.04
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (107 bp):
AAATATATATAATATATAGTTTTAAAAACATTTTGAAAATATATATATAATATAGTTTTTAAAAC
ATTTTGAAAACATATATAAAATATAGTTTTTAAAACATTTTG
Found at i:3554109 original size:16 final size:17
Alignment explanation
Indices: 3554090--3554146 Score: 75
Period size: 16 Copynumber: 3.5 Consensus size: 17
3554080 ATTTTTCCTT
3554090 TTATTTATTAT-TATTA
1 TTATTTATTATCTATTA
*
3554106 TTATTTATT-TCTATTT
1 TTATTTATTATCTATTA
3554122 TTATTTATTATCT-TTA
1 TTATTTATTATCTATTA
*
3554138 TTTTTTATT
1 TTATTTATT
3554147 TTCTGTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 1 0.03
16 32 0.89
17 3 0.08
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTATTATCTATTA
Found at i:3554115 original size:32 final size:32
Alignment explanation
Indices: 3554079--3554148 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
3554069 TATATTAGTA
*
3554079 TATTTTTCCTTTTATTTATTAT-TATTATTATT
1 TATTTTTACTTTTATTTATTATCT-TTATTATT
* * *
3554111 TATTTCTATTTTTATTTATTATCTTTATTTTT
1 TATTTTTACTTTTATTTATTATCTTTATTATT
3554143 TATTTT
1 TATTTT
3554149 CTGTTTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (32 bp):
TATTTTTACTTTTATTTATTATCTTTATTATT
Found at i:3554532 original size:28 final size:30
Alignment explanation
Indices: 3554492--3554551 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 30
3554482 CATCGAACTA
3554492 CACCAGTACAACACACA-AAAA-AACCAAC
1 CACCAGTACAACACACAGAAAATAACCAAC
*
3554520 CACCAGTACAACACACAGAAAATAAGCAAC
1 CACCAGTACAACACACAGAAAATAACCAAC
3554550 CA
1 CA
3554552 TAAACGCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 17 0.59
29 4 0.14
30 8 0.28
ACGTcount: A:0.55, C:0.33, G:0.07, T:0.05
Consensus pattern (30 bp):
CACCAGTACAACACACAGAAAATAACCAAC
Found at i:3555213 original size:48 final size:48
Alignment explanation
Indices: 3555108--3555214 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 48
3555098 ATTTCCAGTT
* *
3555108 ATTCATTTTTCCTCCTTTTTAATTTTAGCATTCTTTATTATTTTTATTT
1 ATTCATTTTTCCTCCTTATTAATTTTAGCATTCTTTATTATTTTTA-TA
* *
3555157 ATTCATTTTTTCTCC-TATTAATTTTAGCATTTTATTTTATTATTTTTA-A
1 ATTCATTTTTCCTCCTTATTAATTTTAGCA--TT-CTTTATTATTTTTATA
3555206 ATT-ATTTTT
1 ATTCATTTTT
3555215 GTTTTTTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
48 19 0.37
49 17 0.33
50 2 0.04
51 13 0.25
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.65
Consensus pattern (48 bp):
ATTCATTTTTCCTCCTTATTAATTTTAGCATTCTTTATTATTTTTATA
Found at i:3555214 original size:25 final size:25
Alignment explanation
Indices: 3555186--3555256 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
3555176 AATTTTAGCA
*
3555186 TTTTATTTTATTATTTTTAAATTAT
1 TTTTATTTTTTTATTTTTAAATTAT
* *
3555211 TTTTGTTTTTTTTACTTCTT--ATTAT
1 TTTT-ATTTTTTTA-TTTTTAAATTAT
*
3555236 TTTTATTTTTTTACTTTTAAA
1 TTTTATTTTTTTATTTTTAAA
3555257 GTTTAACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
23 3 0.08
24 8 0.22
25 14 0.39
26 7 0.19
27 4 0.11
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTTATTTTTTTATTTTTAAATTAT
Found at i:3558323 original size:21 final size:21
Alignment explanation
Indices: 3558297--3558336 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3558287 ATATATTTGT
*
3558297 GTTTGAATCTAGGGTTTTAGG
1 GTTTGAATCTAGGGATTTAGG
*
3558318 GTTTGAATTTAGGGATTTA
1 GTTTGAATCTAGGGATTTA
3558337 AAAGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.45
Consensus pattern (21 bp):
GTTTGAATCTAGGGATTTAGG
Found at i:3573604 original size:24 final size:22
Alignment explanation
Indices: 3573576--3573620 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
3573566 TGGGATGGTT
3573576 TTGAAACTAAATGAGCTATATTTA
1 TTGAAACTAAATGA-CTA-ATTTA
* *
3573600 TTGAAGCTTAATGACTAATTT
1 TTGAAACTAAATGACTAATTT
3573621 TAAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (22 bp):
TTGAAACTAAATGACTAATTTA
Found at i:3576364 original size:2 final size:2
Alignment explanation
Indices: 3576357--3576435 Score: 137
Period size: 2 Copynumber: 41.0 Consensus size: 2
3576347 ATCGGATTGA
3576357 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT 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
3576398 AT AT AT A- AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3576436 TAATTCAAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
1 3 0.04
2 71 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3583520 original size:22 final size:22
Alignment explanation
Indices: 3583468--3583520 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
3583458 TCAGGAGTTA
** *
3583468 CAGGAGTTATTTGATTTAATTT
1 CAGGAGTTACATGATATAATTT
3583490 CATGG-GTTACATGATATAATTT
1 CA-GGAGTTACATGATATAATTT
3583512 CAGGAGTTA
1 CAGGAGTTA
3583521 TAACAGCTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (22 bp):
CAGGAGTTACATGATATAATTT
Found at i:3600207 original size:20 final size:21
Alignment explanation
Indices: 3600182--3600222 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
3600172 CCGAATCGCG
3600182 ATTTTGAAACGACT-GAACGC
1 ATTTTGAAACGACTGGAACGC
3600202 ATTTTGAAACGACTGGAACGC
1 ATTTTGAAACGACTGGAACGC
3600223 GTTTGTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (21 bp):
ATTTTGAAACGACTGGAACGC
Found at i:3600227 original size:20 final size:20
Alignment explanation
Indices: 3600184--3600227 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3600174 GAATCGCGAT
*
3600184 TTTGAAACGACTGAACGCAT
1 TTTGAAACGACTGAACGCAG
3600204 TTTGAAACGACTGGAACGC-G
1 TTTGAAACGACT-GAACGCAG
3600224 TTTG
1 TTTG
3600228 TACTGCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (20 bp):
TTTGAAACGACTGAACGCAG
Found at i:3601576 original size:20 final size:20
Alignment explanation
Indices: 3601551--3601596 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3601541 AATTTAATGT
* *
3601551 GTTTTGTACTTACATTATCA
1 GTTTTGTACCTAAATTATCA
3601571 GTTTTGTACCTAAATTATCA
1 GTTTTGTACCTAAATTATCA
3601591 GTTTTG
1 GTTTTG
3601597 GTCCGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (20 bp):
GTTTTGTACCTAAATTATCA
Found at i:3602357 original size:17 final size:17
Alignment explanation
Indices: 3602335--3602368 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3602325 GTATCTCAAA
*
3602335 CATGCCAAAGAAGAAGC
1 CATGCCAAAAAAGAAGC
3602352 CATGCCAAAAAAGAAGC
1 CATGCCAAAAAAGAAGC
3602369 AATGTTAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.21, T:0.06
Consensus pattern (17 bp):
CATGCCAAAAAAGAAGC
Found at i:3608635 original size:21 final size:21
Alignment explanation
Indices: 3608609--3608653 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3608599 AAACTATGTG
3608609 TTTAGTATATAAACTATCAAT
1 TTTAGTATATAAACTATCAAT
* * *
3608630 TTTAGTATTTAAACTTTCATT
1 TTTAGTATATAAACTATCAAT
3608651 TTT
1 TTT
3608654 TAAATCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTAGTATATAAACTATCAAT
Found at i:3609071 original size:17 final size:17
Alignment explanation
Indices: 3609049--3609083 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3609039 TGTTATATCA
3609049 ATGTGTATAACATAAAG
1 ATGTGTATAACATAAAG
*
3609066 ATGTGTATAAGATAAAG
1 ATGTGTATAACATAAAG
3609083 A
1 A
3609084 ATTAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (17 bp):
ATGTGTATAACATAAAG
Found at i:3613502 original size:51 final size:51
Alignment explanation
Indices: 3613426--3613529 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
3613416 TGTTGAAGGG
*
3613426 TAAGTCATACCACTAACTACTCAACTATTTAGTCTTTTTATTTTTACCACA
1 TAAGTCATACCACTAACTACTCAACTATTTAGTCTTTTTATTTTTACAACA
*
3613477 TAAGTCATACCACTGACTACTCAACTATTTAGTCTTTTTATTTTTACAACA
1 TAAGTCATACCACTAACTACTCAACTATTTAGTCTTTTTATTTTTACAACA
3613528 TA
1 TA
3613530 TCTTTCAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (51 bp):
TAAGTCATACCACTAACTACTCAACTATTTAGTCTTTTTATTTTTACAACA
Found at i:3614141 original size:20 final size:20
Alignment explanation
Indices: 3614116--3614154 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3614106 TTATTCAAAT
3614116 AATATTTATATTAAATTTAA
1 AATATTTATATTAAATTTAA
* *
3614136 AATATTTTTATTAGATTTA
1 AATATTTATATTAAATTTA
3614155 TTTAAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AATATTTATATTAAATTTAA
Found at i:3617359 original size:16 final size:18
Alignment explanation
Indices: 3617340--3617388 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
3617330 AATTAGTGAA
3617340 TTTATTTAT-TATT-ATG
1 TTTATTTATATATTGATG
* *
3617356 TTTATATTATATTTTGTTG
1 TTTAT-TTATATATTGATG
3617375 TTTATTTATATATT
1 TTTATTTATATATT
3617389 TAGGTATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 5 0.19
17 4 0.15
18 11 0.41
19 7 0.26
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTATTTATATATTGATG
Found at i:3618470 original size:13 final size:12
Alignment explanation
Indices: 3618437--3618466 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3618427 AATTATTATA
3618437 TAAAAATA-AAC
1 TAAAAATACAAC
3618448 TAAAAATACAAC
1 TAAAAATACAAC
3618460 TAAAAAT
1 TAAAAAT
3618467 TACACGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAATACAAC
Found at i:3620918 original size:3 final size:3
Alignment explanation
Indices: 3620896--3620948 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
3620886 AGAATGAGTG
* *
3620896 GAA GAA TAA GAA GCA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
3620944 GAA GA
1 GAA GA
3620949 GTGTTGATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.64, C:0.02, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:3629114 original size:13 final size:13
Alignment explanation
Indices: 3629098--3629128 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3629088 GTCAACGGGT
*
3629098 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
3629111 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
3629124 CGGGT
1 CGGGT
3629129 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:3629161 original size:10 final size:10
Alignment explanation
Indices: 3629141--3629182 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
3629131 ACGGGTCGTG
3629141 ACCGGTC-AA
1 ACCGGTCAAA
3629150 ACCGGTCAAA
1 ACCGGTCAAA
* *
3629160 ACTGGT-TAA
1 ACCGGTCAAA
3629169 ACCGGTCAAA
1 ACCGGTCAAA
3629179 ACCG
1 ACCG
3629183 ATTTCCAGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 14 0.52
10 13 0.48
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:3631241 original size:51 final size:51
Alignment explanation
Indices: 3631182--3631282 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
3631172 TCAGGGGGAG
* *
3631182 AGTTACAAGGAATTTTAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTATT
*
3631233 AGTTACAAGGAATTTCAACTTGTTCAAACCGATATTTCTTTACAGCCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTAT
3631283 CATTTCCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTATT
Found at i:3633546 original size:16 final size:16
Alignment explanation
Indices: 3633508--3633551 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
3633498 TAACAGACTT
3633508 GTTTGTTTTCT--ACA
1 GTTTGTTTTCTACACA
* *
3633522 GTCTATTTTCTACACA
1 GTTTGTTTTCTACACA
3633538 GTTTGTTTTCTACA
1 GTTTGTTTTCTACA
3633552 ACTGCTAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 9 0.38
16 15 0.62
ACGTcount: A:0.18, C:0.18, G:0.11, T:0.52
Consensus pattern (16 bp):
GTTTGTTTTCTACACA
Found at i:3652472 original size:216 final size:215
Alignment explanation
Indices: 3652089--3652626 Score: 911
Period size: 216 Copynumber: 2.5 Consensus size: 215
3652079 GTGAAGCAAA
*
3652089 CCATCCATAAGACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAAT-AAAAAATGATGTTTTA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAAATGATGTTTTA
* *
3652153 AGAAGATGGAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
66 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
* *
3652218 GGCCATCAGTAAGTCTTTCGAGCATAATGCTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGC
131 GGCCATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGC
3652283 AAGATGATAAGTCCTTCGGG
196 AAGATGATAAGTCCTTCGGG
*
3652303 CCATCCGTAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAAAATGATGTTTT
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATG-AAAAAATGATGTTTT
* *
3652368 GAGAAGATGAAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTC
65 AAGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTC
*
3652433 GGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAG
130 GGGCCATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAG
3652498 CAAGATGATAAGTCCTTCGGG
195 CAAGATGATAAGTCCTTCGGG
* * * * * *
3652519 CCATCCATAAAACCTTCGGGTAGGATGTTTTTACATGAATTTGAAAATG--AAACTTATGTTTTA
1 CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAAATGATGTTTTA
3652582 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTT
66 AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTT
3652627 TATAATCAGT
Statistics
Matches: 304, Mismatches: 18, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
213 55 0.18
214 46 0.15
216 203 0.67
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (215 bp):
CCATCCATAAAACCTTCGGGTAAGATGTTTTCAAAAGAATTTGAAAATGAAAAAATGATGTTTTA
AGAAGATGAAATTTTTGAAAACGAAGAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCG
GGCCATCAATAAGTCTTTCGAGCATAATGCTTAAATCCTTCAGGTCATCTGTAAGCCTTTAGAGC
AAGATGATAAGTCCTTCGGG
Found at i:3653174 original size:53 final size:53
Alignment explanation
Indices: 3653111--3653423 Score: 405
Period size: 53 Copynumber: 5.9 Consensus size: 53
3653101 ATCAAACCAT
3653111 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * *
3653164 AAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCAAACCCGTAGACAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * *
3653217 AAGATTGTTTGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGCT-GGTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGGCAG
* * *
3653270 AAGATTATTCGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * * * ****
3653323 AAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCAAACCCATTTTTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * *
3653376 AAGATTGTTCGAGTTCCTTAATCCCGGAA-CAAGAGGGAGCGGACCCGT
1 AAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGAACCCGT
3653424 CATTTGAAGA
Statistics
Matches: 226, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
52 1 0.00
53 199 0.88
54 17 0.08
55 9 0.04
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
Found at i:3682559 original size:5 final size:5
Alignment explanation
Indices: 3682549--3682573 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3682539 TTGTTAGATG
3682549 ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT
3682574 GAATGTCGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:3683909 original size:114 final size:116
Alignment explanation
Indices: 3683707--3683918 Score: 304
Period size: 114 Copynumber: 1.8 Consensus size: 116
3683697 ATGTTTTTCG
** *
3683707 ATATCGACGTTAATGAAATTCGGATAAATATCAATTACGAATATGTATCTAACATATAACATGAT
1 ATATCGACGTTAATGAAATTCGGATAAATATCAATTACGAATATCAATATAACATATAACATGAT
* *
3683772 TCGACTTTTATAGACATATGTTTAGTATGTATATGATCATGATTTTCGATA
66 TCGACTTATATAGACATATGTTTAGTATCTATATGATCATGATTTTCGATA
* * *
3683823 ATATCGATGTTAATGAAATTCGGATGAATATCGAA-TAC-AA-ATCAATATAACATATGACATGA
1 ATATCGACGTTAATGAAATTCGGATAAATATC-AATTACGAATATCAATATAACATATAACATGA
* *
3683885 TTCGAGTTATATAGATATATGTTTAGTATCTATA
65 TTCGACTTATATAGACATATGTTTAGTATCTATA
3683919 AGAAAATGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
114 48 0.56
115 2 0.02
116 33 0.39
117 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (116 bp):
ATATCGACGTTAATGAAATTCGGATAAATATCAATTACGAATATCAATATAACATATAACATGAT
TCGACTTATATAGACATATGTTTAGTATCTATATGATCATGATTTTCGATA
Found at i:3692643 original size:20 final size:20
Alignment explanation
Indices: 3692608--3692645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3692598 AACCATTTCA
*
3692608 GTATCGATATCAAGGGGTGG
1 GTATCGATACCAAGGGGTGG
*
3692628 GTATCGATACCTAGGGGT
1 GTATCGATACCAAGGGGT
3692646 CAATACCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.13, G:0.37, T:0.26
Consensus pattern (20 bp):
GTATCGATACCAAGGGGTGG
Found at i:3694044 original size:104 final size:108
Alignment explanation
Indices: 3693868--3694177 Score: 355
Period size: 104 Copynumber: 2.9 Consensus size: 108
3693858 TTGGAAAATA
* * * * **
3693868 TATAATATAAAGTTTTTGAAAACTTATTTTTAAAAAAACATATA-ATATATAGTTTTTT-AAAGC
1 TATAATATATAGTTTTTTAAAAC-TAATTTT--GAAAACATATAGATA-A-AGTTTTTTGAAAAT
* * * *
3693931 AGTTTTGAAAACATATATTATATAGTTTTTAAAATAATTTTGAAAGCG
61 AATTTTGAAAACGTATAATATATAGTTTTTAAAATAATTTTGAAAACG
*
3693979 TATAATATATAGTTTTTTAAAA-TAATTTTGAAAACGTATA-ATAAAG-TTTTT-AAAATAATTT
1 TATAATATATAGTTTTTTAAAACTAATTTTGAAAACATATAGATAAAGTTTTTTGAAAATAATTT
*
3694040 TGAAAACGTAAAATATATAGTTTTTAAAATAATTTTGAAAACG
66 TGAAAACGTATAATATATAGTTTTTAAAATAATTTTGAAAACG
* ** **
3694083 TATAATATATAGTTTTTTAAAACTGATTTTGAAAACATATAGTATATGGTTTTTTGAAAATGGTT
1 TATAATATATAGTTTTTTAAAACTAATTTTGAAAACATATAG-ATAAAGTTTTTTGAAAATAATT
3694148 TTGAAAACGTATAATATATA-TATTTTAAAA
65 TTGAAAACGTATAATATATAGT-TTTTAAAA
3694178 ACGATTTTTG
Statistics
Matches: 174, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
104 73 0.42
105 18 0.10
106 1 0.01
107 16 0.09
108 6 0.03
109 40 0.23
111 20 0.11
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (108 bp):
TATAATATATAGTTTTTTAAAACTAATTTTGAAAACATATAGATAAAGTTTTTTGAAAATAATTT
TGAAAACGTATAATATATAGTTTTTAAAATAATTTTGAAAACG
Found at i:3694112 original size:37 final size:36
Alignment explanation
Indices: 3693856--3694245 Score: 350
Period size: 35 Copynumber: 10.8 Consensus size: 36
3693846 TCAAATATAG
* * * *
3693856 TTTTGGAAAATATATAATATAAAGTTTTTGAAAACTTAT
1 TTTT-GAAAACATATAATATATAGTTTTTTAAAA--TAA
* ** *
3693895 TTTTAAAAAAACATATAATATATAGTTTTTTAAAGCAG
1 TTTT--GAAAACATATAATATATAGTTTTTTAAAATAA
*
3693933 TTTTGAAAACATATATTATATAG-TTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATAA
* *
3693968 TTTTGAAAGCGTATAATATATAGTTTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATAA
*
3694004 TTTTGAAAACGTATAATA-A-AG-TTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATAA
* *
3694037 TTTTGAAAACGTAAAATATATAG-TTTTTAAAATAA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATAA
* *
3694072 TTTTGAAAACGTATAATATATAGTTTTTTAAAACTGA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAA-TAA
* * **
3694109 TTTTGAAAACATATAGTATATGGTTTTTTGAAAATGG
1 TTTTGAAAACATATAATATATAGTTTTTT-AAAATAA
* *
3694146 TTTTGAAAACGTATAATATATA-TATTTTAAAA-ACGA
1 TTTTGAAAACATATAATATATAGTTTTTTAAAATA--A
* * *
3694182 TTTTTGAGAACATATAA-ATA-A-TTTTTGAAAACATAT
1 -TTTTGAAAACATATAATATATAGTTTTT-TAAA-ATAA
* *
3694218 TTTTGAAAATATAGTATTATATAGTTTT
1 TTTTGAAAACATA-TAATATATAGTTTT
3694246 GTTTATTATA
Statistics
Matches: 296, Mismatches: 38, Indels: 34
0.80 0.10 0.09
Matches are distributed among these distances:
33 29 0.10
34 3 0.01
35 86 0.29
36 68 0.23
37 67 0.23
38 11 0.04
39 8 0.03
40 24 0.08
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTTGAAAACATATAATATATAGTTTTTTAAAATAA
Found at i:3696516 original size:32 final size:34
Alignment explanation
Indices: 3696456--3696535 Score: 137
Period size: 32 Copynumber: 2.4 Consensus size: 34
3696446 TATATATATA
*
3696456 ATATTTTTTATATTAATTATATATATAATATTTT
1 ATATATTTTATATTAATTATATATATAATATTTT
3696490 ATATATTTTATATTAA-T-TATATATAATATTTT
1 ATATATTTTATATTAATTATATATATAATATTTT
3696522 ATATATTTTATATT
1 ATATATTTTATATT
3696536 TTTCTATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 29 0.64
33 1 0.02
34 15 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
ATATATTTTATATTAATTATATATATAATATTTT
Found at i:3701883 original size:133 final size:132
Alignment explanation
Indices: 3701698--3701956 Score: 477
Period size: 133 Copynumber: 2.0 Consensus size: 132
3701688 ATATCTCAGA
3701698 CAAGACATAGTTTTTCGAAAAATTGGTTAAAGGGACTGAAACGGTGTGGGACATCTCTAGGTTTC
1 CAAGACATAGTTTTTCGAAAAATTGGTTAAAGGGACTGAAACGGTGTGGGACATCTCTAGGTTTC
3701763 CAGTCTCTTC-TTTTCCATCATATGGG-CTATTGAGGGACGATTACGACATTTTGGCGACTCGAT
66 CAGTCTCTTCTTTTTCCAT-ATATGGGCCTATTGAGGGACGATTACGACATTTTGGCGACTCGAT
3701826 GGG
130 GGG
3701829 CAAGACATAGTTTTTCGAAAAAAATTGGTTAAAGGGACTGAAACGGTGTGGGACATCTCTAGGTT
1 CAAGACATAGTTTTTCG--AAAAATTGGTTAAAGGGACTGAAACGGTGTGGGACATCTCTAGGTT
3701894 TCCAGTCTCTTCTTTTTCCATATATGGGCCTATTGAGGGACGATTACGACATTTTGGCGACTC
64 TCCAGTCTCTTCTTTTTCCATATATGGGCCTATTGAGGGACGATTACGACATTTTGGCGACTC
3701957 TACGATGGGT
Statistics
Matches: 124, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
131 17 0.14
133 65 0.52
134 42 0.34
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (132 bp):
CAAGACATAGTTTTTCGAAAAATTGGTTAAAGGGACTGAAACGGTGTGGGACATCTCTAGGTTTC
CAGTCTCTTCTTTTTCCATATATGGGCCTATTGAGGGACGATTACGACATTTTGGCGACTCGATG
GG
Found at i:3704362 original size:3 final size:3
Alignment explanation
Indices: 3704354--3704395 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
3704344 TTCCAGAGTT
* * *
3704354 TTC TTC TTC TTC TTC TTC TTC TTC CTC TTC CTC TTC CTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3704396 CTTAGTACGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
TTC
Found at i:3704371 original size:12 final size:12
Alignment explanation
Indices: 3704355--3704395 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
3704345 TCCAGAGTTT
*
3704355 TCTTCTTCTTCT
1 TCTTCTTCTTCC
3704367 TCTTCTTCTTCC
1 TCTTCTTCTTCC
*
3704379 TCTTCCTCTTCC
1 TCTTCTTCTTCC
3704391 TCTTC
1 TCTTC
3704396 CTTAGTACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCTTCTTCC
Found at i:3706022 original size:32 final size:31
Alignment explanation
Indices: 3705979--3706074 Score: 149
Period size: 32 Copynumber: 3.1 Consensus size: 31
3705969 AAGAGTTGAG
3705979 GGTTACCTATGTCCTTCGGGACATATGGATA
1 GGTTACCTATGTCCTTCGGGACATATGGATA
*
3706010 GGATTACCTATGTCCTTCGGGACATATGGACA
1 GG-TTACCTATGTCCTTCGGGACATATGGATA
* *
3706042 -GTTACCTATGTTCTTCGGAACATATGGATA
1 GGTTACCTATGTCCTTCGGGACATATGGATA
3706072 GGT
1 GGT
3706075 CATTCGGGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.44
31 5 0.08
32 28 0.47
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGGGACATATGGATA
Found at i:3708943 original size:59 final size:58
Alignment explanation
Indices: 3708844--3709308 Score: 305
Period size: 59 Copynumber: 7.9 Consensus size: 58
3708834 ATATTCTATA
* * * * * *
3708844 GGAAATTCATACAATTAGTATAATTTCCTTATAATATTAGCACTTTTAGTGCTCTATCT
1 GGAAA-TCATATACTTAGTATGATTTCCTTATCATTTTAGCACATTTAGTGCTCTATCT
* * *** *
3708903 GGAATATCATATACTTAATATGATTTCCTTCTCATTTTAGCACACGAAGTGCCCTAT-T
1 GGAA-ATCATATACTTAGTATGATTTCCTTATCATTTTAGCACATTTAGTGCTCTATCT
** * * * * ** * * *
3708961 CAAAAATC-CATACATTAGTATGATTTCTTTACCATTTTAGCATATGAAATGCCCTATGT
1 -GGAAATCATATAC-TTAGTATGATTTCCTTATCATTTTAGCACATTTAGTGCTCTATCT
* * * * * *
3709020 GAAAATCCATA-CCATTAGTATGATTTCCTTATCCTTGTAGCACCTTTAGTGCTTTATCT
1 GGAAAT-CATATAC-TTAGTATGATTTCCTTATCATTTTAGCACATTTAGTGCTCTATCT
** * * * * *
3709079 -GAGAATCCATACGCTCAGTATGATTCCCTTACCATTTTAGCACATATAATG-TCCTATCT
1 GGA-AAT-CATATACTTAGTATGATTTCCTTATCATTTTAGCACATTTAGTGCT-CTATCT
* * * *
3709138 GGAAATCCATATA-TTAAATATGATTTCCTTATCATTTTAGCACACTTAGTGCTCCATAT
1 GGAAAT-CATATACTT-AGTATGATTTCCTTATCATTTTAGCACATTTAGTGCTCTATCT
* * * * * *
3709197 GGAAATTCATACACTTAGTATGATTTACTTATCATTTTAGCACACTCAGAT-CTCCATAT
1 GGAAA-TCATATACTTAGTATGATTTCCTTATCATTTTAGCACATTTAG-TGCTCTATCT
* * *
3709256 GGAAATTCATACACTCAGTATGATTTCCTTATCATTTTTAGCACATATAGTGC
1 GGAAA-TCATATACTTAGTATGATTTCCTTATCA-TTTTAGCACATTTAGTGC
3709309 CATTTGGTAA
Statistics
Matches: 321, Mismatches: 68, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
57 4 0.01
58 48 0.15
59 246 0.77
60 23 0.07
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (58 bp):
GGAAATCATATACTTAGTATGATTTCCTTATCATTTTAGCACATTTAGTGCTCTATCT
Found at i:3712045 original size:36 final size:36
Alignment explanation
Indices: 3712001--3712203 Score: 254
Period size: 35 Copynumber: 5.8 Consensus size: 36
3711991 TTATTTTTAA
* *
3712001 AAAACATATAATATGTAGTTTTTTAAAACAATTTTG
1 AAAACATATAATATATAGTTTTTTAAAATAATTTTG
*
3712037 AAAACATATAATATATA-ATTTTTAAAATAATTTTG
1 AAAACATATAATATATAGTTTTTTAAAATAATTTTG
** ***
3712072 AAAATGTATAATATATAG-TTTTTAAAACGTTTTTG
1 AAAACATATAATATATAGTTTTTTAAAATAATTTTG
*
3712107 AAAACATATAGTATATAGTTTTTTAAAATAATTTTG
1 AAAACATATAATATATAGTTTTTTAAAATAATTTTG
*
3712143 AAAACGTATAATA-A-AG-TTTTTAAAATAATTTTG
1 AAAACATATAATATATAGTTTTTTAAAATAATTTTG
* * *
3712176 AAAACGTATAATGTATAGTTTTTAAAAA
1 AAAACATATAATATATAGTTTTTTAAAA
3712204 AGGGCTTCGA
Statistics
Matches: 144, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
33 29 0.20
34 3 0.02
35 63 0.44
36 49 0.34
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.42
Consensus pattern (36 bp):
AAAACATATAATATATAGTTTTTTAAAATAATTTTG
Found at i:3712069 original size:35 final size:35
Alignment explanation
Indices: 3711933--3712202 Score: 229
Period size: 35 Copynumber: 7.5 Consensus size: 35
3711923 GTAGCATAGT
* * *
3711933 ATATATAATAATTTCAAATATAGTTTTGGAAAATATATA
1 ATATATAAT--TTTTAAA-ATAATTTT-GAAAACATATA
* * * *
3711972 ATATATAATTCTTGGAAACTTATTTTTAAAAAACATATA
1 ATATATAATT-TT-TAAA-ATAATTTT-GAAAACATATA
* * *
3712011 ATATGTAGTTTTTTAAAACAATTTTGAAAACATATA
1 ATATATA-ATTTTTAAAATAATTTTGAAAACATATA
**
3712047 ATATATAATTTTTAAAATAATTTTGAAAATGTATA
1 ATATATAATTTTTAAAATAATTTTGAAAACATATA
* ***
3712082 ATATATAGTTTTTAAAACGTTTTTGAAAACATATA
1 ATATATAATTTTTAAAATAATTTTGAAAACATATA
* * *
3712117 GTATATAGTTTTTTAAAATAATTTTGAAAACGTATA
1 ATATATA-ATTTTTAAAATAATTTTGAAAACATATA
* *
3712153 ATA-A-AGTTTTTAAAATAATTTTGAAAACGTATA
1 ATATATAATTTTTAAAATAATTTTGAAAACATATA
* *
3712186 ATGTATAGTTTTTAAAA
1 ATATATAATTTTTAAAA
3712203 AAGGGCTTCG
Statistics
Matches: 191, Mismatches: 34, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
33 29 0.15
34 2 0.01
35 71 0.37
36 41 0.21
37 6 0.03
38 5 0.03
39 35 0.18
40 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (35 bp):
ATATATAATTTTTAAAATAATTTTGAAAACATATA
Found at i:3712133 original size:71 final size:71
Alignment explanation
Indices: 3712001--3712203 Score: 277
Period size: 71 Copynumber: 2.9 Consensus size: 71
3711991 TTATTTTTAA
* * *
3712001 AAAACATATAATATGTAGTTTTTTAAAACAATTTTGAAAACATATAATATATA-ATTTTTAAAAT
1 AAAACGTATAATATATAG-TTTTTAAAACAATTTTGAAAACATATAATATATAGTTTTTTAAAAT
3712065 AATTTTG
65 AATTTTG
* ** *
3712072 AAAATGTATAATATATAGTTTTTAAAACGTTTTTGAAAACATATAGTATATAGTTTTTTAAAATA
1 AAAACGTATAATATATAGTTTTTAAAACAATTTTGAAAACATATAATATATAGTTTTTTAAAATA
3712137 ATTTTG
66 ATTTTG
* * * *
3712143 AAAACGTATAATA-A-AGTTTTTAAAATAATTTTGAAAACGTATAATGTATAGTTTTTAAAAA
1 AAAACGTATAATATATAGTTTTTAAAACAATTTTGAAAACATATAATATATAGTTTTTTAAAA
3712204 AGGGCTTCGA
Statistics
Matches: 116, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
69 40 0.34
70 32 0.28
71 44 0.38
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.42
Consensus pattern (71 bp):
AAAACGTATAATATATAGTTTTTAAAACAATTTTGAAAACATATAATATATAGTTTTTTAAAATA
ATTTTG
Found at i:3715741 original size:94 final size:96
Alignment explanation
Indices: 3715603--3715781 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 96
3715593 CCTGGTATCG
* * * *
3715603 ATACTTCTATACTGTGGTACCGATACTCCCTTTCAGTATCGATACCATTTCTACATTCTG-GATC
1 ATACTTCTATACTATAGTACCGATACTCCATTTCAGTATCGATACCATTTCTACATTCTGTAATC
*
3715667 CATGATATCGATA-CTTCTCTCCTAGTACCA
66 AATGATATCGATACCTTCTCTCCTAGTACCA
* * *
3715697 ATACTTCTATACTATATTACCGATACTCCATTAT-AGTATTGATACCATTTCTGCATTCTGTAAT
1 ATACTTCTATACTATAGTACCGATACTCCATT-TCAGTATCGATACCATTTCTACATTCTGTAAT
*
3715761 CAATGGTATCGATACCTTCTC
65 CAATGATATCGATACCTTCTC
3715782 CATAGTATCG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 52 0.71
95 15 0.21
96 6 0.08
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (96 bp):
ATACTTCTATACTATAGTACCGATACTCCATTTCAGTATCGATACCATTTCTACATTCTGTAATC
AATGATATCGATACCTTCTCTCCTAGTACCA
Found at i:3719610 original size:21 final size:21
Alignment explanation
Indices: 3719591--3719630 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
3719581 AACGAAAATA
*
3719591 AAATGAAATAAAT-AATAAAT
1 AAATAAAATAAATAAATAAAT
*
3719611 AAATAAAATAACTAAATAAA
1 AAATAAAATAAATAAATAAA
3719631 AATAAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAAAATAAATAAATAAAT
Found at i:3719649 original size:20 final size:19
Alignment explanation
Indices: 3719611--3719649 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
3719601 AATAATAAAT
*
3719611 AAATAAAATAACTAAATAA
1 AAATAAAAAAACTAAATAA
*
3719630 AAATAAACAAAACTATATAA
1 AAATAAA-AAAACTAAATAA
3719650 TACTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAAAAACTAAATAA
Found at i:3719694 original size:22 final size:22
Alignment explanation
Indices: 3719666--3719709 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3719656 ATTTTCAAAA
*
3719666 ATATGTTTTCAAAAATTATTTT
1 ATATGTTCTCAAAAATTATTTT
*
3719688 ATATGTTCTCAAAAATTGTTTT
1 ATATGTTCTCAAAAATTATTTT
3719710 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATGTTCTCAAAAATTATTTT
Found at i:3719911 original size:104 final size:105
Alignment explanation
Indices: 3719707--3720136 Score: 468
Period size: 104 Copynumber: 4.0 Consensus size: 105
3719697 CAAAAATTGT
* ** * *
3719707 TTTTAAAAAATATATATTATACGTTTTCAAAACCGTTTTCAAAAAACTGTATACTATATGTTTTC
1 TTTTAAAAACT-T-TATTATACGTTTTCAAAACTATTTTAAAAAAACTATATACTATATGTTTTC
** *
3719772 AAAATCATTTTTTAAAAACTATATATTATATGTTTTCAAAATTA
64 AAAA-C-CGTTTTAAAAACTATATATTATACGTTTTCAAAATTA
* * * **
3719816 TTTTATAAACTTTATTATACGTTTTCAAAATTATTTT-AAAAAACTATATATTATATGTTTTTTA
1 TTTTAAAAACTTTATTATACGTTTTCAAAACTATTTTAAAAAAACTATATACTATATGTTTTCAA
* * *
3719880 AACCGTTTTAAAAGCTATATATTAAACGTTTTCAATATTA
66 AACCGTTTTAAAAACTATATATTATACGTTTTCAAAATTA
* * *
3719920 TTTTAAAAACTTTATTATATGTTTTCAAAATTATTTTTAAAAAA-TATATACTATATGTTTTCAA
1 TTTTAAAAACTTTATTATACGTTTTCAAAACTATTTTAAAAAAACTATATACTATATGTTTTCAA
*
3719984 AATCGTTTTAAAAACTATATATTATACGTTTTCAAAATTA
66 AACCGTTTTAAAAACTATATATTATACGTTTTCAAAATTA
* * ** *
3720024 TTTTAAAAACAATATAGTATATATTTTCAAAACTATTTTAAAAAAACTATATATTATATGTTTAT
1 TTTTAAAAAC--TTTATTATACGTTTTCAAAACTATTTTAAAAAAACTATATACTATATG-TT-T
* ** * **
3720089 TAAAAATAAGTTTCCAAAAACTATATATTATATATTTTCCAAAATTA
62 TCAAAA-CCGTTT-TAAAAACTATATATTATACGTTTT-CAAAATTA
3720136 T
1 T
3720137 ATTTGAAATT
Statistics
Matches: 276, Mismatches: 36, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
104 129 0.47
105 7 0.03
106 54 0.20
107 34 0.12
108 3 0.01
109 15 0.05
110 4 0.01
111 21 0.08
112 9 0.03
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (105 bp):
TTTTAAAAACTTTATTATACGTTTTCAAAACTATTTTAAAAAAACTATATACTATATGTTTTCAA
AACCGTTTTAAAAACTATATATTATACGTTTTCAAAATTA
Found at i:3719924 original size:35 final size:35
Alignment explanation
Indices: 3719638--3720136 Score: 443
Period size: 35 Copynumber: 13.9 Consensus size: 35
3719628 AAAAATAAAC
* * *
3719638 AAAACTATATAATACTATATTTTCAAAAATATGTTTTCA
1 AAAACTATATATTA-TATGTTTTC-AAAAT-TATTTT-A
* * *
3719677 AAAA-T-TATTTTATATGTTCTCAAAAATTGTTTTTA
1 AAAACTATATATTATATGTTTTC-AAAATT-ATTTTA
* * ***
3719712 AAAAATATATATTATACGTTTTCAAAACCGTTTTCAA
1 AAAACTATATATTATATGTTTTCAAAATTATTTT--A
* * *
3719749 AAAACTGTATACTATATGTTTTCAAAATCATTTTTTA
1 AAAACTATATATTATATGTTTTCAAAAT--TATTTTA
3719786 AAAACTATATATTATATGTTTTCAAAATTATTTTA
1 AAAACTATATATTATATGTTTTCAAAATTATTTTA
* *
3719821 TAAACT-T-TATTATACGTTTTCAAAATTATTTTAA
1 AAAACTATATATTATATGTTTTCAAAATTATTTT-A
** ***
3719855 AAAACTATATATTATATGTTTTTTAAACCGTTTTA
1 AAAACTATATATTATATGTTTTCAAAATTATTTTA
* * * *
3719890 AAAGCTATATATTAAACGTTTTCAATATTATTTTA
1 AAAACTATATATTATATGTTTTCAAAATTATTTTA
3719925 AAAACT-T-TATTATATGTTTTCAAAATTATTTTTA
1 AAAACTATATATTATATGTTTTCAAAATTA-TTTTA
* * **
3719959 AAAAATATATACTATATGTTTTCAAAATCGTTTTA
1 AAAACTATATATTATATGTTTTCAAAATTATTTTA
*
3719994 AAAACTATATATTATACGTTTTCAAAATTATTTTA
1 AAAACTATATATTATATGTTTTCAAAATTATTTTA
* * * *
3720029 AAAACAATATAGTATATATTTTCAAAACTATTTTAAA
1 AAAACTATATATTATATGTTTTCAAAATTATTTT--A
* * *
3720066 AAAACTATATATTATATGTTTATTAAAAATAAGTTTCCA
1 AAAACTATATATTATATG-TT-TTCAAAATTA-TTT-TA
*
3720105 AAAACTATATATTATATATTTTCCAAAATTAT
1 AAAACTATATATTATATGTTTT-CAAAATTAT
3720137 ATTTGAAATT
Statistics
Matches: 373, Mismatches: 67, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
33 42 0.11
34 18 0.05
35 119 0.32
36 59 0.16
37 88 0.24
38 11 0.03
39 33 0.09
40 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (35 bp):
AAAACTATATATTATATGTTTTCAAAATTATTTTA
Found at i:3726469 original size:18 final size:19
Alignment explanation
Indices: 3726431--3726472 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
3726421 TATATTAATG
* *
3726431 AAGAAAATTTCGAGTTTTA
1 AAGAAAATTTCGAATTCTA
3726450 AAGAAAA-TTCGAATTCTA
1 AAGAAAATTTCGAATTCTA
3726468 AAGAA
1 AAGAA
3726473 TTTCAGGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (19 bp):
AAGAAAATTTCGAATTCTA
Found at i:3727618 original size:17 final size:17
Alignment explanation
Indices: 3727579--3727612 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3727569 ATCAGAAAAA
3727579 ACTTTTCAATATAACGT
1 ACTTTTCAATATAACGT
3727596 ACTTTTCAATATAACGT
1 ACTTTTCAATATAACGT
3727613 GTTTTTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
ACTTTTCAATATAACGT
Found at i:3733132 original size:36 final size:33
Alignment explanation
Indices: 3733092--3733165 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 33
3733082 AAAATACTTT
*
3733092 AATTTAGGGTTTAAAATGTAATTAAAGTATTTTTGG
1 AATTTAGGGTTTAAAATGTAA-T-AAGT-GTTTTGG
* *
3733128 AATTTTGGGTTTAGAATGTAATAAGTGTTTTGG
1 AATTTAGGGTTTAAAATGTAATAAGTGTTTTGG
3733161 AATTT
1 AATTT
3733166 TGAACATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 11 0.31
34 4 0.11
35 1 0.03
36 19 0.54
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (33 bp):
AATTTAGGGTTTAAAATGTAATAAGTGTTTTGG
Found at i:3734895 original size:64 final size:64
Alignment explanation
Indices: 3734822--3734943 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
3734812 GCATAAATCC
* * *
3734822 CATTTGATGTTTGTATTTT-AAGCAGGTGCATCGATGGACTACTTGTGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAAGCA-GTGCATCGATGCACTACATGTGCATCGATACACTGATGG
* * * *
3734886 CATTCGATGTTTTTATTTTAAAGGAGTGCATCGATGCATTTCATGTGCATCGATACAC
1 CATTCGATGTTTGTATTTTAAAGCAGTGCATCGATGCACTACATGTGCATCGATACAC
3734944 CTTGAACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 46 0.92
65 4 0.08
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAAGCAGTGCATCGATGCACTACATGTGCATCGATACACTGATGG
Found at i:3739099 original size:21 final size:21
Alignment explanation
Indices: 3739071--3739120 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
3739061 TTCTAAATCT
3739071 ATAT-AGTAATACATTGATAC
1 ATATCAGTAATACATTGATAC
3739091 ATATCAGTAATACATTGATAC
1 ATATCAGTAATACATTGATAC
3739112 ATATCAGTA
1 ATATCAGTA
3739121 TACTAATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (21 bp):
ATATCAGTAATACATTGATAC
Found at i:3743016 original size:2 final size:2
Alignment explanation
Indices: 3743009--3743034 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3742999 TTTCCAAATG
3743009 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3743035 CCCGAAGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3743682 original size:64 final size:64
Alignment explanation
Indices: 3743614--3743735 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
3743604 GTATAAATCT
* *
3743614 CATTCGATGTTTGTATTTT-AAGCAGGTGCATCGATACACTACTTATGCATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAAGCA-GTACATCGATACACTACATATGCATCGATACACTGATGG
* * * * *
3743678 CATTCGATGTTTTTATTTTAAAGGAGTACATCGATGCACTTCATGTGCATCGATACAC
1 CATTCGATGTTTGTATTTTAAAGCAGTACATCGATACACTACATATGCATCGATACAC
3743736 CTTGAACAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 46 0.92
65 4 0.08
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAAGCAGTACATCGATACACTACATATGCATCGATACACTGATGG
Found at i:3744314 original size:21 final size:21
Alignment explanation
Indices: 3744288--3744342 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
3744278 TTACACTTAG
3744288 GGAACCGATTCCCTATGATGA
1 GGAACCGATTCCCTATGATGA
3744309 GGAACCGATTCCCTATGATGA
1 GGAACCGATTCCCTATGATGA
3744330 GGAACCGATTCCC
1 GGAACCGATTCCC
3744343 CCCACGCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (21 bp):
GGAACCGATTCCCTATGATGA
Found at i:3751980 original size:18 final size:18
Alignment explanation
Indices: 3751957--3751992 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3751947 CAAGAAAAAC
3751957 GCAAAGGAACCGTGAAAG
1 GCAAAGGAACCGTGAAAG
3751975 GCAAAGGAACCGTGAAAG
1 GCAAAGGAACCGTGAAAG
3751993 TGAAGCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.33, T:0.06
Consensus pattern (18 bp):
GCAAAGGAACCGTGAAAG
Found at i:3756311 original size:28 final size:30
Alignment explanation
Indices: 3756278--3756369 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 30
3756268 AAATTATCTC
3756278 TTTATTTTTGTTTTAACTTATT-AAT-T-TT
1 TTTATTTTT-TTTTAACTTATTAAATATATT
*
3756306 TTTATTTTTTTCTTAATTTATTAAATATATT
1 TTTATTTTTTT-TTAACTTATTAAATATATT
3756337 TTT-TTTTTATTTTAA--TA-TAAATATATAT
1 TTTATTTTT-TTTTAACTTATTAAATATAT-T
3756365 TTTAT
1 TTTAT
3756370 CTTTATCATC
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
27 11 0.20
28 24 0.43
29 4 0.07
30 10 0.18
31 7 0.12
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (30 bp):
TTTATTTTTTTTTAACTTATTAAATATATT
Found at i:3756336 original size:25 final size:27
Alignment explanation
Indices: 3756308--3756372 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
3756298 TTAATTTTTT
3756308 TATTTTTTTCTTAATTT-AT-TAAATA
1 TATTTTTTTCTTAATTTAATATAAATA
* *
3756333 TATTTTTTTTTTATTTTAATATAAATA
1 TATTTTTTTCTTAATTTAATATAAATA
*
3756360 TATATTTTATCTT
1 TAT-TTTTTTCTT
3756373 TATCATCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 15 0.45
26 2 0.06
27 9 0.27
28 7 0.21
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTTTTTTCTTAATTTAATATAAATA
Found at i:3756557 original size:29 final size:28
Alignment explanation
Indices: 3756513--3756592 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
3756503 ATTTTTAAAA
* * *
3756513 AATTAAGATAATAATAAAATATATTTTT
1 AATTAAAATAAGAATAAAATATAATTTT
*
3756541 AATTTAAAATAAGAATAAAATAAAATTTT
1 AA-TTAAAATAAGAATAAAATATAATTTT
*
3756570 AAGTAAAGATAAGAATAAAATAT
1 AATTAAA-ATAAGAATAAAATAT
3756593 TATATATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.14
29 38 0.86
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
AATTAAAATAAGAATAAAATATAATTTT
Found at i:3756807 original size:27 final size:27
Alignment explanation
Indices: 3756753--3756810 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
3756743 ACATTAAAAT
* * *
3756753 AAAAAATATATTTAATAAATTAATACA
1 AAAAAAAATATTTAATAAATAAAAACA
*
3756780 AAAAAAAATATTTAATAAGTAAAAACA
1 AAAAAAAATATTTAATAAATAAAAACA
3756807 AAAA
1 AAAA
3756811 TAAAGAGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (27 bp):
AAAAAAAATATTTAATAAATAAAAACA
Found at i:3757761 original size:2 final size:2
Alignment explanation
Indices: 3757754--3757779 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3757744 AAACTACTAA
3757754 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3757780 TAACTAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3762385 original size:19 final size:19
Alignment explanation
Indices: 3762361--3762406 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
3762351 ATTTAGTTTC
3762361 CTAAATTATAGCATAATTA
1 CTAAATTATAGCATAATTA
*
3762380 CTAAATTATAGCCTAATTA
1 CTAAATTATAGCATAATTA
3762399 CTAAATTA
1 CTAAATTA
3762407 ATAAAACCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.37
Consensus pattern (19 bp):
CTAAATTATAGCATAATTA
Found at i:3765828 original size:74 final size:73
Alignment explanation
Indices: 3765694--3765839 Score: 202
Period size: 74 Copynumber: 2.0 Consensus size: 73
3765684 AGGTACAATT
* * * * * *
3765694 AAAATTTCAGGGTGGGCACCATTAGTAAAATAAGTAACTAATCGAAGAAAACTCATATTTCAGGG
1 AAAATTTCAGGGTGGACACCATCAGTAAAATAAGCAACTAATCAAAGAAAACTCAGATTTCAGGA
3765759 TGGGCACA
66 TGGGCACA
* * *
3765767 AAAATTTTCAGGGTGGACGCCATCAGTAAAATAAGCAACTAATCAAAGAAAATTCGGATTTCAGG
1 AAAA-TTTCAGGGTGGACACCATCAGTAAAATAAGCAACTAATCAAAGAAAACTCAGATTTCAGG
3765832 ATGGGCAC
65 ATGGGCAC
3765840 GTGCCCACCC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
73 4 0.06
74 59 0.94
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.23
Consensus pattern (73 bp):
AAAATTTCAGGGTGGACACCATCAGTAAAATAAGCAACTAATCAAAGAAAACTCAGATTTCAGGA
TGGGCACA
Found at i:3779425 original size:37 final size:40
Alignment explanation
Indices: 3779356--3779449 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 40
3779346 TTTAGGAACC
* *
3779356 ATTTTATAATATTTTAATAATTTTAAAGATTATCTTATAATA
1 ATTTTATAA-ACTTTAAT-ATTTTAAAGATTATCTTAAAATA
* *
3779398 ATTTTATAAA-TTTAAT-TTTTAAA-ATTATTTTAAAATT
1 ATTTTATAAACTTTAATATTTTAAAGATTATCTTAAAATA
3779435 ATTTTA-AAACTTTAA
1 ATTTTATAAACTTTAA
3779450 CGTTCATTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 3 0.06
37 22 0.46
38 7 0.15
40 6 0.12
41 1 0.02
42 9 0.19
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (40 bp):
ATTTTATAAACTTTAATATTTTAAAGATTATCTTAAAATA
Found at i:3779430 original size:11 final size:11
Alignment explanation
Indices: 3779375--3779443 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 11
3779365 TATTTTAATA
3779375 ATTTTAAAGATT
1 ATTTTAAA-ATT
* * *
3779387 ATCTTATAATA
1 ATTTTAAAATT
3779398 ATTTTATAAATTT
1 ATTTTA-AAA-TT
3779411 AATTTTTAAAATT
1 -A-TTTTAAAATT
3779424 ATTTTAAAATT
1 ATTTTAAAATT
3779435 ATTTTAAAA
1 ATTTTAAAA
3779444 CTTTAACGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
11 26 0.55
12 9 0.19
13 3 0.06
14 4 0.09
15 5 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:3783494 original size:30 final size:29
Alignment explanation
Indices: 3783460--3783535 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 29
3783450 AAGAGCTTAA
3783460 AAATAAATAGACAACCTTAATTCAGAAAAT
1 AAATAAATA-ACAACCTTAATTCAGAAAAT
*
3783490 AAATAAATAAC-A--TTAATTTAGAAAAT
1 AAATAAATAACAACCTTAATTCAGAAAAT
3783516 AAATAAATAAGCAACCTTAA
1 AAATAAATAA-CAACCTTAA
3783536 AAATAATGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 23 0.56
27 1 0.02
28 2 0.05
29 2 0.05
30 13 0.32
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (29 bp):
AAATAAATAACAACCTTAATTCAGAAAAT
Found at i:3785141 original size:2 final size:2
Alignment explanation
Indices: 3785130--3785163 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3785120 ATTTAAATAA
3785130 AT AT -T AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3785164 TTGGTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3785738 original size:22 final size:22
Alignment explanation
Indices: 3785690--3786050 Score: 521
Period size: 22 Copynumber: 16.5 Consensus size: 22
3785680 TATTTAAATC
*
3785690 TATTTTAAAATATGGATTGA-T
1 TATTTTAAAATATGAATTGATT
3785711 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGAATTGATT
*
3785733 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
***
3785755 TATTTTAAAATATGAAAAAATT
1 TATTTTAAAATATGAATTGATT
*
3785777 TATTTTAAAATATGTATTGATT
1 TATTTTAAAATATGAATTGATT
*** *
3785799 TATTTTAAAATATGAAAAAAAT
1 TATTTTAAAATATGAATTGATT
3785821 TATTTTAAAATAT-AGATTGATT
1 TATTTTAAAATATGA-ATTGATT
*
3785843 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
*
3785865 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
**
3785887 TATTTTAAAATATGGAA-AAATT
1 TATTTTAAAATAT-GAATTGATT
* *
3785909 CATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
*
3785931 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
3785953 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGAATTGATT
3785975 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGAATTGATT
3785997 TATTTTAAAATATGAATTGATT
1 TATTTTAAAATATGAATTGATT
*
3786019 TATTTTAAAATATGGATTGATT
1 TATTTTAAAATATGAATTGATT
3786041 TATTTTAAAA
1 TATTTTAAAA
3786051 AAATTATTAT
Statistics
Matches: 305, Mismatches: 30, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
21 22 0.07
22 281 0.92
23 2 0.01
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
TATTTTAAAATATGAATTGATT
Found at i:3795898 original size:40 final size:41
Alignment explanation
Indices: 3795732--3795916 Score: 198
Period size: 43 Copynumber: 4.4 Consensus size: 41
3795722 TGAGAACAAA
* *
3795732 AAACGCCGCAATAGGTCAATATCTATAGCGGCG-TTTTTGAAAC
1 AAACGCCGCAAAATGTCAATA--TATAGCGGCGTTTTTTG-AAC
*
3795775 AAACGCCGCAAAATGTGTCACAT-T-TAGCGACGTTTTTTGGAAC
1 AAACGCCGCAAAA--TGTCA-ATATATAGCGGCGTTTTTT-GAAC
* * *
3795818 AAACGCCGCAAAATGTCGAGATCTTTAGCGGCATTTTTTGAAC
1 AAACGCCGCAAAATGTC-A-ATATATAGCGGCGTTTTTTGAAC
3795861 AAACGCCGCAAAATGTC-ATATATAGCGGCGTTTTTTGAAC
1 AAACGCCGCAAAATGTCAATATATAGCGGCGTTTTTTGAAC
*
3795901 AAACGCCGTAAAATGT
1 AAACGCCGCAAAATGT
3795917 GAGGCATGTC
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
40 35 0.28
41 4 0.03
42 10 0.08
43 56 0.45
44 13 0.10
45 4 0.03
46 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
AAACGCCGCAAAATGTCAATATATAGCGGCGTTTTTTGAAC
Found at i:3795932 original size:86 final size:85
Alignment explanation
Indices: 3795732--3795916 Score: 241
Period size: 86 Copynumber: 2.2 Consensus size: 85
3795722 TGAGAACAAA
* * * * *
3795732 AAACGCCGCAATAGGTCAATATCTATAGCGGCGTTTTTGAAACAAACGCCGCAAAATGTGTCACA
1 AAACGCCGCAAAATGTCGAGATCTTTAGCGGCGTTTTTGAAACAAACGCCGCAAAA-GTGTCACA
*
3795797 TTTAGCGACGTTTTTTGGAAC
65 TATAGCGACGTTTTTTGGAAC
* *
3795818 AAACGCCGCAAAATGTCGAGATCTTTAGCGGCATTTTTTG-AACAAACGCCGCAAAA-TGTCATA
1 AAACGCCGCAAAATGTCGAGATCTTTAGCGGC-GTTTTTGAAACAAACGCCGCAAAAGTGTCACA
*
3795881 TATAGCGGCGTTTTTT-GAAC
65 TATAGCGACGTTTTTTGGAAC
*
3795901 AAACGCCGTAAAATGT
1 AAACGCCGCAAAATGT
3795917 GAGGCATGTC
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
83 19 0.22
84 20 0.23
86 43 0.49
87 6 0.07
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (85 bp):
AAACGCCGCAAAATGTCGAGATCTTTAGCGGCGTTTTTGAAACAAACGCCGCAAAAGTGTCACAT
ATAGCGACGTTTTTTGGAAC
Found at i:3796346 original size:16 final size:16
Alignment explanation
Indices: 3796325--3796356 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3796315 ATCTCGTCAG
*
3796325 TCTTCCATAAGTTACT
1 TCTTCCAGAAGTTACT
3796341 TCTTCCAGAAGTTACT
1 TCTTCCAGAAGTTACT
3796357 ATGGATCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (16 bp):
TCTTCCAGAAGTTACT
Found at i:3797114 original size:33 final size:32
Alignment explanation
Indices: 3797068--3797183 Score: 119
Period size: 33 Copynumber: 3.5 Consensus size: 32
3797058 AATAAATGAA
3797068 CATAAACGAACATAAACCACAACAACAATAAT
1 CATAAACGAACATAAACCACAACAACAATAAT
* ** *
3797100 CATTAAAGGAACATAAATGAACAA-AACAA-ACGAA
1 CA-TAAACGAACATAAA-CCACAACAACAATA--AT
*
3797134 CATAAATGAACATAAACCACAACAACAATAAT
1 CATAAACGAACATAAACCACAACAACAATAAT
3797166 CACGTAAACGAACATAAA
1 CA--TAAACGAACATAAA
3797184 TGAACAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
32 10 0.15
33 36 0.54
34 21 0.31
ACGTcount: A:0.59, C:0.21, G:0.07, T:0.13
Consensus pattern (32 bp):
CATAAACGAACATAAACCACAACAACAATAAT
Found at i:3797206 original size:66 final size:66
Alignment explanation
Indices: 3797065--3797206 Score: 232
Period size: 66 Copynumber: 2.2 Consensus size: 66
3797055 CACAATAAAT
* * *
3797065 GAACATAAACGAACATAAACCACAACAACAATAATCATTAAAGGAACATAAATGAACAAAACAAA
1 GAACATAAATGAACATAAACCACAACAACAATAATCAGTAAACGAACATAAATGAACAAAACAAA
3797130 C
66 C
3797131 GAACATAAATGAACATAAACCACAACAACAATAATCACGTAAACGAACATAAATGAACAAAA-AA
1 GAACATAAATGAACATAAACCACAACAACAATAATCA-GTAAACGAACATAAATGAACAAAACAA
*
3797195 AG
65 AC
3797197 GAACATAAAT
1 GAACATAAAT
3797207 AAATTTATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 49 0.69
67 22 0.31
ACGTcount: A:0.61, C:0.18, G:0.08, T:0.13
Consensus pattern (66 bp):
GAACATAAATGAACATAAACCACAACAACAATAATCAGTAAACGAACATAAATGAACAAAACAAA
C
Found at i:3797539 original size:14 final size:14
Alignment explanation
Indices: 3797520--3797605 Score: 57
Period size: 14 Copynumber: 5.7 Consensus size: 14
3797510 AAAGTTGGCT
3797520 TAAACATAAATGAA
1 TAAACATAAATGAA
* **
3797534 TAAACAAAAACAAA
1 TAAACATAAATGAA
*
3797548 TGAAA-GTAAATGCACA
1 T-AAACATAAATG-A-A
3797564 TAAACGAACATAAATGAA
1 TAAAC--A--TAAATGAA
*
3797582 CAAACATAAATGAA
1 TAAACATAAATGAA
3797596 TAAACATAAA
1 TAAACATAAA
3797606 CGATAAAATG
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
14 32 0.59
15 7 0.13
16 3 0.06
18 5 0.09
19 1 0.02
20 6 0.11
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (14 bp):
TAAACATAAATGAA
Found at i:3798527 original size:36 final size:33
Alignment explanation
Indices: 3798494--3798570 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 33
3798484 ATGAAAAATT
3798494 ATCTCAAGAGATAGAAAATTTGTTTTAATAAAAACA
1 ATCTCAAGA-A-A-AAAATTTGTTTTAATAAAAACA
* *
3798530 ATCTTAAGAAAAAAATTTGTTTTAAGAAAAACA
1 ATCTCAAGAAAAAAATTTGTTTTAATAAAAACA
*
3798563 ATCACAAG
1 ATCTCAAG
3798571 TGAGATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 27 0.73
34 1 0.03
35 1 0.03
36 8 0.22
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (33 bp):
ATCTCAAGAAAAAAATTTGTTTTAATAAAAACA
Found at i:3798587 original size:36 final size:36
Alignment explanation
Indices: 3798494--3798648 Score: 145
Period size: 36 Copynumber: 4.3 Consensus size: 36
3798484 ATGAAAAATT
* * * * *
3798494 ATCTCAAGAGATAGAAAATTTGTTTTAATAAAAACA
1 ATCTCAAGTGAGATAAAATATGTTTTAAGAAAAACA
* * *
3798530 ATCTTAA--GA-AAAAAATTTGTTTTAAGAAAAACA
1 ATCTCAAGTGAGATAAAATATGTTTTAAGAAAAACA
* * * *
3798563 ATCACAAGTGAGATAAAATATGTTTTATGCAAAATA
1 ATCTCAAGTGAGATAAAATATGTTTTAAGAAAAACA
*
3798599 ATCTCAAGTGAGATAAAATATGTTTTAAGAAGAAAAAAA
1 ATCTCAAGTGAGATAAAATATGTTTT---AAGAAAAACA
3798638 ATCTCAAGTGA
1 ATCTCAAGTGA
3798649 AAAAAATCTT
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
33 27 0.27
34 2 0.02
35 2 0.02
36 50 0.51
39 18 0.18
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (36 bp):
ATCTCAAGTGAGATAAAATATGTTTTAAGAAAAACA
Found at i:3798757 original size:44 final size:44
Alignment explanation
Indices: 3798709--3798879 Score: 160
Period size: 44 Copynumber: 4.0 Consensus size: 44
3798699 TCTCAAGCGA
* * *
3798709 GATGATGTTGATCCAACTCCTTATGCGATGGATTTGAGAGAAAT
1 GATGATGTTGATCCAACTCCTTATGCGATGAAATCGAGAGAAAT
* *
3798753 GATGATGTTGATTCAACTCCTTATGCGATGAAATCGAGTGAAAT
1 GATGATGTTGATCCAACTCCTTATGCGATGAAATCGAGAGAAAT
* **
3798797 -AGTGATGTTGATCCAACT-C-T-T--GATGGAATCGACCGAAA-
1 GA-TGATGTTGATCCAACTCCTTATGCGATGAAATCGAGAGAAAT
* * *
3798835 GAATGATGTTGTTCCAACTCCTTATGTGAT-AGAATCGAGCGAAAT
1 G-ATGATGTTGATCCAACTCCTTATGCGATGA-AATCGAGAGAAAT
3798880 AAAATTTTGT
Statistics
Matches: 105, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
39 29 0.28
40 2 0.02
41 2 0.02
42 2 0.02
43 2 0.02
44 68 0.65
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (44 bp):
GATGATGTTGATCCAACTCCTTATGCGATGAAATCGAGAGAAAT
Found at i:3801986 original size:41 final size:41
Alignment explanation
Indices: 3801911--3802065 Score: 247
Period size: 41 Copynumber: 3.7 Consensus size: 41
3801901 ACTATAAAGT
*
3801911 TTACCTTTGCACACAGCAAAAAGGGACCTGGGAAACTGTAAGGC
1 TTACCTTTG--CACA-CAAAAAGGAACCTGGGAAACTGTAAGGC
*
3801955 TTACCTTTGCACACAAAAAGGAACCTAGGAAACTGTAAGGC
1 TTACCTTTGCACACAAAAAGGAACCTGGGAAACTGTAAGGC
*
3801996 TTACCTTTGCACACACAAAGGAACCTGGGAAACTGTAAGGC
1 TTACCTTTGCACACAAAAAGGAACCTGGGAAACTGTAAGGC
3802037 TTACCTTTGCACACAACAAAGGAACCTGG
1 TTACCTTTGCACACAA-AAAGGAACCTGG
3802066 TAATACTTCC
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
41 80 0.76
42 16 0.15
44 9 0.09
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (41 bp):
TTACCTTTGCACACAAAAAGGAACCTGGGAAACTGTAAGGC
Found at i:3803031 original size:29 final size:28
Alignment explanation
Indices: 3802989--3803146 Score: 133
Period size: 29 Copynumber: 5.5 Consensus size: 28
3802979 GTCAAACATT
**
3802989 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCCTTTTCGAAATAA
*
3803018 TTACCAATATAGCACCCTTTTCGAATTAA
1 TTACCAA-ATAGCACCCTTTTCGAAATAA
* ** *
3803047 TTCCCAAAATAGCACCAATTTCGAATTAA
1 TTACC-AAATAGCACCCTTTTCGAAATAA
* *
3803076 TTACCAGAATATCA--CTTTTTGAAA-AA
1 TTACCA-AATAGCACCCTTTTCGAAATAA
* *
3803102 TTACCAAAATAGCACCCATTTCGAATTAA
1 TTACC-AAATAGCACCCTTTTCGAAATAA
*
3803131 TTCCCAGAATAGCACC
1 TTACCA-AATAGCACC
3803147 AAAACTAATT
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
26 13 0.12
27 7 0.07
28 12 0.12
29 70 0.67
30 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTCGAAATAA
Found at i:3803221 original size:17 final size:17
Alignment explanation
Indices: 3803181--3803221 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3803171 CACCGGTCAA
*
3803181 CGGGTCAGGTCAACCGT
1 CGGGTCGGGTCAACCGT
*
3803198 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACCGT
3803215 CGGGTCG
1 CGGGTCG
3803222 TGACCGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.27, G:0.44, T:0.17
Consensus pattern (17 bp):
CGGGTCGGGTCAACCGT
Found at i:3809401 original size:42 final size:42
Alignment explanation
Indices: 3809311--3809479 Score: 248
Period size: 42 Copynumber: 4.0 Consensus size: 42
3809301 GAGCCTAGAA
* * * * *
3809311 AAACTGTAAAGTTTACCTTTGCACACAGCAAAAAGGGACATGGG
1 AAACTGTAAGGCTTACCTTTGCACACA--ACAAAGGAACCTGGG
3809355 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
1 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
* *
3809397 AAACTGTAAGGCTTACCTTTCCACACAGCAAAGGAACCTGGG
1 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
*
3809439 AAACTGTAAGGCTTACCTTTGCACACAGCAAAGGAACCTGG
1 AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGG
3809480 TAATACTTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
42 92 0.79
44 25 0.21
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (42 bp):
AAACTGTAAGGCTTACCTTTGCACACAACAAAGGAACCTGGG
Found at i:3810447 original size:29 final size:28
Alignment explanation
Indices: 3810405--3810562 Score: 90
Period size: 29 Copynumber: 5.5 Consensus size: 28
3810395 GTCAAACATT
*
3810405 TTACACAAATAGCACCCTTTTTAAAATAA
1 TTAC-CAAATAGCACCCTTTTGAAAATAA
* *
3810434 TTACCAATATAGCACCCTTTTGGAATTAA
1 TTACCAA-ATAGCACCCTTTTGAAAATAA
* ** ** *
3810463 TTCCCAAAATAGCACCAATTTCTAATTAA
1 TTACC-AAATAGCACCCTTTTGAAAATAA
* * *
3810492 TTCCCAGAATATCA-CTTTTTG-AAA-AA
1 TTACCA-AATAGCACCCTTTTGAAAATAA
* *
3810518 TTACCAAAATAGCACCCATTTCG-AATTAA
1 TTACC-AAATAGCACCC-TTTTGAAAATAA
*
3810547 TTCCCAGAATAGCACC
1 TTACCA-AATAGCACC
3810563 AAAACTAATT
Statistics
Matches: 102, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
26 12 0.12
27 4 0.04
28 15 0.15
29 69 0.68
30 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTGAAAATAA
Found at i:3810619 original size:17 final size:17
Alignment explanation
Indices: 3810597--3810650 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
3810587 CACCGGTCAA
3810597 CGGGTCGGGTCAAAAGT
1 CGGGTCGGGTCAAAAGT
3810614 CGGGTCGGGTC--AA--
1 CGGGTCGGGTCAAAAGT
**
3810627 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAAAAGT
3810644 CGGGTCG
1 CGGGTCG
3810651 TGACCGGTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 11 0.35
15 2 0.06
17 18 0.58
ACGTcount: A:0.15, C:0.22, G:0.46, T:0.17
Consensus pattern (17 bp):
CGGGTCGGGTCAAAAGT
Found at i:3810627 original size:30 final size:30
Alignment explanation
Indices: 3810591--3810650 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
3810581 GAATAACACC
3810591 GGTCAACGGGTCGGGTCAAAAGTCGGGTCG
1 GGTCAACGGGTCGGGTCAAAAGTCGGGTCG
**
3810621 GGTCAACGGGTCGGGTCAACGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAAAAGTCGGGTCG
3810651 TGACCGGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.17
Consensus pattern (30 bp):
GGTCAACGGGTCGGGTCAAAAGTCGGGTCG
Found at i:3810646 original size:12 final size:13
Alignment explanation
Indices: 3810591--3810649 Score: 75
Period size: 13 Copynumber: 4.3 Consensus size: 13
3810581 GAATAACACC
3810591 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3810604 GGTCAAAAGTCGGGTCG
1 GGTC--AA--CGGGTCG
3810621 GGTCAACGGGTCG
1 GGTCAACGGGTCG
3810634 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
3810646 GGTC
1 GGTC
3810650 GTGACCGGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.21
13 18 0.43
15 4 0.10
17 11 0.26
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:3816878 original size:29 final size:28
Alignment explanation
Indices: 3816846--3816914 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
3816836 ATTAAATATA
3816846 TAAAGATATAAAAATAAATAAATA-ATTAC
1 TAAA-ATATAAAAATAAA-AAATATATTAC
* * *
3816875 TAAAATAAATAAAATTAAAAATATATTAT
1 TAAAATATA-AAAATAAAAAATATATTAC
3816904 TAAAATATAAA
1 TAAAATATAAA
3816915 CGGTAACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 11 0.32
29 23 0.68
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (28 bp):
TAAAATATAAAAATAAAAAATATATTAC
Found at i:3816895 original size:16 final size:16
Alignment explanation
Indices: 3816839--3816897 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 16
3816829 AATAATAATT
*
3816839 AAATATATAAAGATATAA
1 AAATAAATAAA-AT-TAA
3816857 AAATAAATAAATAATTACTA
1 AAATAAAT-AA-AATTA--A
3816877 AAATAAATAAAATTAA
1 AAATAAATAAAATTAA
3816893 AAATA
1 AAATA
3816898 TATTATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 6 0.17
18 14 0.39
19 6 0.17
20 10 0.28
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATAAATAAAATTAA
Found at i:3818462 original size:134 final size:132
Alignment explanation
Indices: 3818113--3818554 Score: 487
Period size: 137 Copynumber: 3.2 Consensus size: 132
3818103 ATCAAGCAAA
* * * * * *
3818113 AAGGTCGAACAATTTATTCTCATTATGAACTTCTCCTCCCTCATCGGATGAGCTCTTCTCGTTAT
1 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCT--T-CCTCTTCAGATGAGTTCTTCTCATTAT
* *
3818178 GAACTCTCCACT-AGAAATGTTGATCCCTTCAAGTGAGGTG--TTGATTCAACTCCATATGTGAT
63 GAACT-TTCTCTGA-AAATGTTGAT-CC-TCAAGTGAGGTGTCTTGATTCAACTCCATATGTGAT
3818240 GAATTGAA-C
124 GAATT-AAGC
* * * *
3818249 TAAGGTTGAACAAGTTCTTCTTACTGTGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTA
1 -AAGGTCGAACAAGTTCTTCTCATTATGAACTTC---TTCCTCTTCAGATGAGTTCTTCTCATTA
*
3818314 TGAACTTTCTCTGAAAATGTTGATCCTCAAGTGAGGTGTCATTGATTCAACTTCATATGTGATGA
62 TGAACTTTCTCTGAAAATGTTGATCCTCAAGTGAGGTGTC-TTGATTCAACTCCATATGTGATGA
3818379 ATTAAGGC
126 ATTAA-GC
* * *
3818387 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTATTCTCATTATGAA
1 AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
3818452 CTTTCTCTGAAAATGTTGATCCTCAAGAGAGGTTCTTCTTTCATTCAACTCCATAGGTGATGAAT
66 CTTTCTCTGAAAATGTTGATCCTCAAGTGAGG-T-GTC-TTGATTCAACTCCATATGTGATGAAT
* *
3818517 CAAGTT
128 TAAG-C
*
3818523 AAGGTCAAACAAGTTCTTCTCATTATGAACTT
1 AAGGTCGAACAAGTTCTTCTCATTATGAACTT
3818555 TCTCTGGAAA
Statistics
Matches: 265, Mismatches: 28, Indels: 25
0.83 0.09 0.08
Matches are distributed among these distances:
134 73 0.28
135 4 0.02
136 73 0.28
137 112 0.42
138 2 0.01
140 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (132 bp):
AAGGTCGAACAAGTTCTTCTCATTATGAACTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGAAAATGTTGATCCTCAAGTGAGGTGTCTTGATTCAACTCCATATGTGATGAATTAA
GC
Found at i:3818932 original size:113 final size:112
Alignment explanation
Indices: 3818728--3818984 Score: 383
Period size: 113 Copynumber: 2.3 Consensus size: 112
3818718 AGAGTCATGC
*
3818728 AAAGGTTGAACAAGTTTTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
* * * *
3818793 TGAACTTTCTCTGGCAATGCTAATCCATTGAGTGATGAATTCGAGCA
66 TGAACTTACTCTGGCAATGCTAATCCATCGAATGATGAATTCAAGCA
* *
3818840 AAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTT-TTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTTCTTCC-TCTTCAGATAAGTTCTTCTCAT
* *
3818904 TATGAACTCTAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGCA
64 TATGAACT-TACTCTGGCAATGCTAATCCATCGAATGATGAATTCAAGCA
*
3818953 AAAGGTTGAACAAGTTCGTCTCATTATGAACT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACT
3818985 CTACCTGGCA
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
112 35 0.27
113 94 0.72
114 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (112 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTA
TGAACTTACTCTGGCAATGCTAATCCATCGAATGATGAATTCAAGCA
Found at i:3819184 original size:102 final size:104
Alignment explanation
Indices: 3819030--3819228 Score: 285
Period size: 102 Copynumber: 1.9 Consensus size: 104
3819020 TGGAAGTGGA
* * * *
3819030 ATCAAGCAAAAGGTTAAACACGCTCTTCTCATTTATGAACTTCTTCTTCCTCTTTAGATTAGTTC
1 ATCAAGCAAAAGGTTAAACAAGCTCTTCTCATTTATAAACTTCTTCTTCCTCTTCAGATGAGTTC
3819095 TTCCCATTATGAACTCTACCTGGAAATGTTGATACATCG
66 TTCCCATTATGAACTCTACCTGGAAATGTTGATACATCG
* * * *
3819134 ATCAAGCTAAA-GTTAAATAAGTTCTTCTCA-TTATAAACTTCTTCTTCCTCTTCAGGTGAGTTC
1 ATCAAGCAAAAGGTTAAACAAGCTCTTCTCATTTATAAACTTCTTCTTCCTCTTCAGATGAGTTC
* * *
3819197 TTCTCATTATGAACTTTATCTGGAAATGTTGA
66 TTCCCATTATGAACTCTACCTGGAAATGTTGA
3819229 CCCATAGAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 58 0.69
103 16 0.19
104 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (104 bp):
ATCAAGCAAAAGGTTAAACAAGCTCTTCTCATTTATAAACTTCTTCTTCCTCTTCAGATGAGTTC
TTCCCATTATGAACTCTACCTGGAAATGTTGATACATCG
Found at i:3819651 original size:22 final size:22
Alignment explanation
Indices: 3819615--3819690 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
3819605 TAAAGCTTTT
*
3819615 ATCTTT-AAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
3819636 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
3819658 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
3819680 ATCTTTGAAGA
1 ATCTTTGAAGA
3819691 ATGTAGATGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
21 6 0.11
22 47 0.89
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATCTATC
Found at i:3820202 original size:54 final size:54
Alignment explanation
Indices: 3820090--3820282 Score: 208
Period size: 54 Copynumber: 3.6 Consensus size: 54
3820080 ACTTCTGTAT
* * *
3820090 AGATGTTTCGTAAAATATTTGGCAACACATTCATCATCTCATGTGGTTTATGCCC
1 AGATG-TTCGTAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTGCCC
* * *
3820145 AGATGTTCGTAAAATATTTGACAACACATTCATCATCTCATGTGGTTTCTTCTC
1 AGATGTTCGTAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTGCCC
* ** * * * * *
3820199 AGATGCTAATAAAACATTTGATAATACATTCATCCTTTTC-TGTGGCTTCTGCCC
1 AGATGTTCGTAAAACATTTGACAACACATTCAT-CATCTCATGTGGTTTCTGCCC
* * *
3820253 ATATGTTTGTAAAACATTTGACAATACATT
1 AGATGTTCGTAAAACATTTGACAACACATT
3820283 TATCCAGTTG
Statistics
Matches: 117, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 108 0.92
55 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (54 bp):
AGATGTTCGTAAAACATTTGACAACACATTCATCATCTCATGTGGTTTCTGCCC
Found at i:3826383 original size:20 final size:20
Alignment explanation
Indices: 3826355--3826393 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3826345 GCAAAGATGC
* *
3826355 AAATGCAAAAATGAAAATGT
1 AAATACAAAAATAAAAATGT
*
3826375 AAATACAAACATAAAAATG
1 AAATACAAAAATAAAAATG
3826394 CAAAATGCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (20 bp):
AAATACAAAAATAAAAATGT
Found at i:3831319 original size:56 final size:52
Alignment explanation
Indices: 3831244--3831354 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 52
3831234 CAAATGGAGT
3831244 AAACCAAATATTATGTATATTAAAAAAATTAAAATTTAAATACTAAAATGAAATAA
1 AAACCAAATATTATGTATATTAAAAAAATTAAAA-TT--ATACTAAAAT-AAATAA
* *
3831300 AAACTAAATATTATGTATATTAAAAAAATTAAAATTATACTAAAATAAATTA
1 AAACCAAATATTATGTATATTAAAAAAATTAAAATTATACTAAAATAAATAA
3831352 AAA
1 AAA
3831355 TTACTAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
52 8 0.15
53 10 0.19
55 2 0.04
56 33 0.62
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (52 bp):
AAACCAAATATTATGTATATTAAAAAAATTAAAATTATACTAAAATAAATAA
Found at i:3831338 original size:20 final size:21
Alignment explanation
Indices: 3831315--3831357 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3831305 AAATATTATG
*
3831315 TATATTAAAA-AAATTAAAAT
1 TATACTAAAATAAATTAAAAT
3831335 TATACTAAAATAAATTAAAAT
1 TATACTAAAATAAATTAAAAT
3831356 TA
1 TA
3831358 CTAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TATACTAAAATAAATTAAAAT
Found at i:3831375 original size:56 final size:55
Alignment explanation
Indices: 3831244--3831375 Score: 144
Period size: 56 Copynumber: 2.4 Consensus size: 55
3831234 CAAATGGAGT
* * *
3831244 AAACCAAATATTATGTATATTAAAAAAATTAAAATTTAAATACTAAAATGAAATAA
1 AAACTAAATAATATATATATTAAAAAAATTAAAATTT-AATACTAAAATGAAATAA
* *
3831300 AAACTAAATATTATGTATATTAAAAAAATTAAAA-TT-ATACTAAAAT-AAATTAA
1 AAACTAAATAATATATATATTAAAAAAATTAAAATTTAATACTAAAATGAAA-TAA
*
3831353 AATTACTAATTTAATATATATAT
1 AA--ACTAA-ATAATATATATAT
3831376 ATATATATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
52 3 0.04
53 15 0.22
55 7 0.10
56 43 0.63
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (55 bp):
AAACTAAATAATATATATATTAAAAAAATTAAAATTTAATACTAAAATGAAATAA
Found at i:3831689 original size:23 final size:23
Alignment explanation
Indices: 3831663--3831714 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
3831653 TCCTTCAATA
3831663 TTTAAATGAT-TAA-TTTTAATCTT
1 TTTAAATG-TCTAATTTTTAAT-TT
*
3831686 TTT-AATGTCTAATTTTTTATTT
1 TTTAAATGTCTAATTTTTAATTT
3831708 TTTAAAT
1 TTTAAAT
3831715 CATATTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 12 0.48
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTAAATGTCTAATTTTTAATTT
Found at i:3839597 original size:60 final size:60
Alignment explanation
Indices: 3839496--3839608 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
3839486 AATATATGAA
* * * **
3839496 TAGTCGAGTGATCATTTTGTAACTTTTAATAGTCGAGGGACTGGATAAAGCAACACATTT
1 TAGTCGAGGGACCATTTTGTAACTTTTAATAGTCGAAGGACTCAATAAAGCAACACATTT
*
3839556 TAGTCGAGGGACCATTTTGTAACTTTTAATAGTTGAAGGACTCAATAAAGCAA
1 TAGTCGAGGGACCATTTTGTAACTTTTAATAGTCGAAGGACTCAATAAAGCAA
3839609 TATCATATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (60 bp):
TAGTCGAGGGACCATTTTGTAACTTTTAATAGTCGAAGGACTCAATAAAGCAACACATTT
Done.