Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 67 of 171
Found at i:24799555 original size:29 final size:31
Alignment explanation
Indices: 24799523--24799785 Score: 221
Period size: 29 Copynumber: 9.1 Consensus size: 31
24799513 CGAGTTTTAA
*
24799523 GGTCAAAAATGGAATTTTTGA-AAG-TTCAG
1 GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
*
24799552 GGTCAAAAAAAG-AA-TTTTG-GAAGTTTC-G
1 GGTC-AAAAATGTAATTTTTGAGAAGTTTCAG
*
24799580 AGGT--AAAATGTAATTTTTG-GAAGTTTTAG
1 -GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
*
24799609 GGTC-AAAATAG-AATTTAT-AGAAGTTTC-G
1 GGTCAAAAAT-GTAATTTTTGAGAAGTTTCAG
*
24799637 AGG-CAAAAATGTAATTTAT-AGAAGTTTCAG
1 -GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
*
24799667 GG-CAAAAATGGAATTTTTG-GAAGTTTCAG
1 GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
*
24799696 GGT-AAAAATGTAATTTTT-AGAAGTTTTAG
1 GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
* *
24799725 GGTTAAAAATGTAATTTTAGAGAAGTTT--G
1 GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
* *
24799754 GGGCAAAAATATAATTTTTG-GATAGTTT-AG
1 GGTCAAAAATGTAATTTTTGAGA-AGTTTCAG
24799784 GG
1 GG
24799786 ACTTTTAGGT
Statistics
Matches: 199, Mismatches: 14, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
26 5 0.03
27 2 0.01
28 29 0.15
29 130 0.65
30 25 0.13
31 8 0.04
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (31 bp):
GGTCAAAAATGTAATTTTTGAGAAGTTTCAG
Found at i:24799704 original size:87 final size:87
Alignment explanation
Indices: 24799584--24799785 Score: 250
Period size: 87 Copynumber: 2.3 Consensus size: 87
24799574 GTTTCGAGGT
*
24799584 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATAG-AATTTATAGAAGTTTCGA-GG-CAAAAA
1 AAAATGTAATTTTTGGAAG-TTTAGGGTAAAAAT-GTAATTTATAGAAGTTT-GAGGGTCAAAAA
*
24799646 TGTAA-TTTATAGAAGTTTCAGGGCA
63 TGTAATTTTAGAGAAGTTT-AGGGCA
* * * *
24799671 AAAATGGAATTTTTGGAAGTTTCAGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTTAAAAATG
1 AAAATGTAATTTTTGGAAGTTT-AGGGTAAAAATGTAATTTATAGAAGTTTGAGGGTCAAAAATG
*
24799736 TAATTTTAGAGAAGTTTGGGGCA
65 TAATTTTAGAGAAGTTTAGGGCA
*
24799759 AAAATATAATTTTTGGATAGTTTAGGG
1 AAAATGTAATTTTTGGA-AGTTTAGGG
24799786 ACTTTTAGGT
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
86 5 0.05
87 44 0.44
88 34 0.34
89 17 0.17
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (87 bp):
AAAATGTAATTTTTGGAAGTTTAGGGTAAAAATGTAATTTATAGAAGTTTGAGGGTCAAAAATGT
AATTTTAGAGAAGTTTAGGGCA
Found at i:24801694 original size:6 final size:6
Alignment explanation
Indices: 24801674--24801746 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
24801664 TTATTATTGT
* *
24801674 TTTAAA TTT-AA -TTAAA TTTAAA CTTAAA -ATAAA TTTAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
24801718 GCTAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24801747 ATCAATTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
4 2 0.04
5 15 0.28
6 36 0.68
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:24801708 original size:17 final size:17
Alignment explanation
Indices: 24801674--24801746 Score: 103
Period size: 17 Copynumber: 4.4 Consensus size: 17
24801664 TTATTATTGT
*
24801674 TTTAAATTT-AATTAAA
1 TTTAAATTTAAAATAAA
*
24801690 TTTAAACTTAAAATAAA
1 TTTAAATTTAAAATAAA
**
24801707 TTTAAATTTAAGCTAAA
1 TTTAAATTTAAAATAAA
24801724 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
24801741 TTTAAA
1 TTTAAA
24801747 ATCAATTTAT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
16 8 0.16
17 41 0.84
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:24801711 original size:11 final size:11
Alignment explanation
Indices: 24801692--24801755 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
24801682 TAATTAAATT
*
24801692 TAAACTTAAAA
1 TAAATTTAAAA
*
24801703 TAAATTTAAAT
1 TAAATTTAAAA
* ** *
24801714 TTAAGCTAAATT
1 TAAATTTAAA-A
24801726 TAAATTTAAAA
1 TAAATTTAAAA
24801737 TAAATTTAAAA
1 TAAATTTAAAA
*
24801748 TCAATTTA
1 TAAATTTA
24801756 TATCTTAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
11 34 0.81
12 8 0.19
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:24801729 original size:23 final size:24
Alignment explanation
Indices: 24801675--24801735 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
24801665 TATTATTGTT
24801675 TTAAATTT-AA-TTAAATTTAAAC
1 TTAAATTTAAATTTAAATTTAAAC
* *
24801697 TTAAA-ATAAATTTAAATTTAAGC
1 TTAAATTTAAATTTAAATTTAAAC
24801720 -TAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
24801736 ATAAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 1 0.03
22 11 0.33
23 21 0.64
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAATTTAAATTTAAATTTAAAC
Found at i:24801729 original size:34 final size:33
Alignment explanation
Indices: 24801674--24801746 Score: 119
Period size: 34 Copynumber: 2.2 Consensus size: 33
24801664 TTATTATTGT
*
24801674 TTTAAATTTAATTAAATTTAAACTTAAAATAAA
1 TTTAAATTTAACTAAATTTAAACTTAAAATAAA
*
24801707 TTTAAATTTAAGCTAAATTTAAATTTAAAATAAA
1 TTTAAATTTAA-CTAAATTTAAACTTAAAATAAA
24801741 TTTAAA
1 TTTAAA
24801747 ATCAATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
33 11 0.30
34 26 0.70
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (33 bp):
TTTAAATTTAACTAAATTTAAACTTAAAATAAA
Found at i:24806676 original size:81 final size:83
Alignment explanation
Indices: 24806539--24806705 Score: 311
Period size: 81 Copynumber: 2.0 Consensus size: 83
24806529 AGAGAGAGGC
24806539 AGAGATAGAGAGAGAAAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTA
1 AGAGATAGAGAGAG-AAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTA
24806604 TATCGCAGGTGGTTGATGG
65 TATCGCAGGTGGTTGATGG
24806623 AGAGATAGAGAGAG-A-GAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTAT
1 AGAGATAGAGAGAGAAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTAT
24806686 ATCGCAGGTGGTTGATGG
66 ATCGCAGGTGGTTGATGG
24806704 AG
1 AG
24806706 CACATTGTGT
Statistics
Matches: 83, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
81 68 0.82
82 1 0.01
84 14 0.17
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (83 bp):
AGAGATAGAGAGAGAAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTAT
ATCGCAGGTGGTTGATGG
Found at i:24813869 original size:21 final size:23
Alignment explanation
Indices: 24813827--24813869 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24813817 AATATTTAAA
24813827 AATATTAAAAACAACAATGAAAT
1 AATATTAAAAACAACAATGAAAT
24813850 AATATTAAAAAC-AC-ATGAAA
1 AATATTAAAAACAACAATGAAA
24813870 ATAACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 12 0.60
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (23 bp):
AATATTAAAAACAACAATGAAAT
Found at i:24813902 original size:21 final size:22
Alignment explanation
Indices: 24813846--24813902 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
24813836 AACAACAATG
* *
24813846 AAATAATATTAAAAACACATGA
1 AAATAATAATAAAAACACATAA
*
24813868 AAATAACAA-AAAAAGCA-ATAA
1 AAATAATAATAAAAA-CACATAA
*
24813889 AAATAATAGTAAAA
1 AAATAATAATAAAA
24813903 CAACAACAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.70, C:0.07, G:0.05, T:0.18
Consensus pattern (22 bp):
AAATAATAATAAAAACACATAA
Found at i:24813966 original size:19 final size:18
Alignment explanation
Indices: 24813937--24813978 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
24813927 CAAAACAATT
24813937 AAACAGTAAAAAAAATCA
1 AAACAGTAAAAAAAATCA
24813955 AAACAGTAAAAAAAAATCA
1 AAACAGT-AAAAAAAATCA
24813974 AAACA
1 AAACA
24813979 ACAATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.74, C:0.12, G:0.05, T:0.10
Consensus pattern (18 bp):
AAACAGTAAAAAAAATCA
Found at i:24817205 original size:30 final size:30
Alignment explanation
Indices: 24816930--24817188 Score: 394
Period size: 30 Copynumber: 8.6 Consensus size: 30
24816920 AAAAGATACG
**
24816930 GGGGT-AAAATGGTAATTTTTTAAAAGTTTT
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTT
*
24816960 GGGGTCAAAATGTAATTTTGGAAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
24816990 GGGGTCAAAATGTAATTCTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
24817020 GAGGTCAAAATGTAATTTTGGAAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
24817050 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
24817080 GGGGTCAAAATGTAATTTTAGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
24817110 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* * * *
24817140 AGGGTCAAAATATAATTTTAGAAAAGTTTC
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
24817170 GGGGTTAAAATGTAATTTT
1 GGGGTCAAAATGTAATTTT
24817189 TGGACAATTT
Statistics
Matches: 209, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
30 204 0.98
31 5 0.02
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.36
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:24817382 original size:33 final size:31
Alignment explanation
Indices: 24817332--24817392 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
24817322 AAGTTAATTT
* *
24817332 AAGGACTAAATTAAAATAAATTAAAAATAGA
1 AAGGACTAAATCAAAATAAACTAAAAATAGA
*
24817363 AAGGACTAAATGCAGAAATAAGCTAAAAAT
1 AAGGACTAAAT-CA-AAATAAACTAAAAAT
24817393 TGACACGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 11 0.44
32 1 0.04
33 13 0.52
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.20
Consensus pattern (31 bp):
AAGGACTAAATCAAAATAAACTAAAAATAGA
Found at i:24818187 original size:3 final size:3
Alignment explanation
Indices: 24818181--24818207 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24818171 CCTTTCGTTT
24818181 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
24818208 ATGTTTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24819038 original size:6 final size:6
Alignment explanation
Indices: 24819027--24819103 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
24819017 TTAAATTTGA
* *
24819027 TTAAAT TTAAAT TTAAA- ATAAAT TTAAA- -TAAAT TTAAAC TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
24819071 ATAAAT TTAAAT TTAAA- TAAAAT TTAAAA TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
24819104 TCTTAAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 42 0.72
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:24819048 original size:27 final size:27
Alignment explanation
Indices: 24819018--24819109 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 27
24819008 ATATTATTTT
*
24819018 TAAATTTGATTAAATTTAAATTTAAAA
1 TAAATTTAATTAAATTTAAATTTAAAA
* *
24819045 TAAATTTAAATAAATTTAAACTTAAAA
1 TAAATTTAATTAAATTTAAATTTAAAA
*
24819072 TAAATTTAAATTTAAA-TAAAATTTAAAA
1 TAAATTT-AA-TTAAATTTAAATTTAAAA
*
24819100 TTAATCTTAA
1 TAAAT-TTAA
24819110 AATAAACGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
27 31 0.56
28 18 0.33
29 6 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (27 bp):
TAAATTTAATTAAATTTAAATTTAAAA
Found at i:24819050 original size:11 final size:11
Alignment explanation
Indices: 24819034--24819115 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
24819024 TGATTAAATT
24819034 TAAATTTAAAA
1 TAAATTTAAAA
24819045 TAAATTT-AAA
1 TAAATTTAAAA
*
24819055 TAAATTTAAACT
1 TAAATTTAAA-A
* *
24819067 TAAA-ATAAATT
1 TAAATTTAAA-A
24819078 TAAATTT-AAA
1 TAAATTTAAAA
24819088 TAAAATTTAAAA
1 T-AAATTTAAAA
*
24819100 TTAATCTTAAAA
1 TAAAT-TTAAAA
24819112 TAAA
1 TAAA
24819116 CGAAATCCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
10 11 0.19
11 29 0.50
12 18 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:24819050 original size:17 final size:17
Alignment explanation
Indices: 24819027--24819103 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
24819017 TTAAATTTGA
*
24819027 TTAAATTTAAATTTAAA-
1 TTAAATTTAAA-ATAAAT
*
24819044 ATAAATTT-AAATAAAT
1 TTAAATTTAAAATAAAT
*
24819060 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
24819077 TTAAATTT-AAATAAAAT
1 TTAAATTTAAAAT-AAAT
*
24819094 TTAAAATTAA
1 TTAAATTTAA
24819104 TCTTAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
15 4 0.08
16 12 0.24
17 33 0.66
18 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:24819530 original size:31 final size:31
Alignment explanation
Indices: 24819492--24819610 Score: 107
Period size: 31 Copynumber: 3.7 Consensus size: 31
24819482 TATCCAACTC
24819492 TACTTCAATTTCAAGAGGATGACGTTGCTCT
1 TACTTCAATTTCAAGAGGATGACGTTGCTCT
* * * *
24819523 TACTTCAATTTCAGAGATGAAGACGTGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
* * *
24819559 CTACTTCAACTTCAAGGGGATGACATTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
24819591 TACTTCAATTTC-AGA-GATGA
1 TACTTCAATTTCAAGAGGATGA
24819611 AGACGTGTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
29 5 0.07
30 2 0.03
31 24 0.35
32 12 0.17
33 1 0.01
34 1 0.01
35 1 0.01
36 11 0.16
37 12 0.17
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGAGGATGACGTTGCTCT
Found at i:24819588 original size:68 final size:68
Alignment explanation
Indices: 24819447--24820222 Score: 964
Period size: 68 Copynumber: 10.9 Consensus size: 68
24819437 GGAAGAGATC
* * ** * *
24819447 TTGCTCTTACTTCAGTTTCGGAGATAAAGGTGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCC-ACTCTACTTCAATTTCAAGGGGAT
24819512 GACG
65 GACG
* * *
24819516 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAACTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
*
24819581 ACA
66 ACG
* * *
24819584 TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATCTCAAGCAGATA
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG--G---
24819649 GGACATGACG
61 GG--ATGACG
* * *
24819659 TT-ATGCTTACTTCAATTTC-GAAGATAAAGACGTACTATCCATCTTTACTTCAATTTCAAGGGG
1 TTGCT-CTTACTTCAATTTCAG-AGATAAAGACGTATTATCCA-CTCTACTTCAATTTCAAGGGG
*
24819722 ATAGGAAGAGG
63 AT-----GACG
* *
24819733 TCTTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGAGGG
1 --TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG-GGG
24819798 -TGACG
63 ATGACG
*
24819803 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCA-CTCTACTTCAATTTCAAGGGGAT
*
24819868 AGGAAGAGG
65 -----GACG
* *
24819877 TCTTGTTCTTACTTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGG
1 --TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCA-CTCTACTTCAATTTCAAGGGG
*
24819942 ATAGGAAGAGG
63 AT-----GACG
*
24819953 TCTTGCTCTTACTTCAATTTCAGAGATAAAGATGTATTATCCACTCTACTTCAATTTCAAGGGGA
1 --TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGA
24820018 TGACG
64 TGACG
24820023 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
24820088 ACG
66 ACG
24820091 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
*
24820156 ATG
66 ACG
* *
24820159 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGAT
24820223 TGGAAATGAT
Statistics
Matches: 641, Mismatches: 37, Indels: 59
0.87 0.05 0.08
Matches are distributed among these distances:
68 320 0.50
69 55 0.09
70 7 0.01
71 2 0.00
73 2 0.00
74 9 0.01
75 78 0.12
76 166 0.26
77 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGATG
ACG
Found at i:24819950 original size:220 final size:218
Alignment explanation
Indices: 24819390--24820222 Score: 1052
Period size: 220 Copynumber: 3.9 Consensus size: 218
24819380 GCTTCTTTAG
* * * * ** *
24819390 AGAGATAAAGACTTGCTACCCAACTTTACTTCAATCTCAAGATGATGGGAAGA-GATCTTGCTCT
1 AGAGATAAAGACGTACTATCC-ACTCTACTTCAATCTCAAGGGGATAGGAAGACG-T-TTGCTCT
* * ** ** * *
24819454 TACTTCAGTTTCGGAGATAAAGGTGTGTTATCCAACTCTACTTCAATTTCAA---G--AGGATGA
63 TACTTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAGA
* * * *
24819514 CG--TTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAACTTCAAGGG
128 GGTCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGG
*
24819577 GATGACATTGCTCTTACTTCAATTTC
193 GATGACGTTGCTCTTACTTCAATTTC
* ** **
24819603 AGAGATGAAGACGTGTTATCCACTCTACTTCAATCTCAAGCAGATAGGACATGACGTTATG--CT
1 AGAGATAAAGACGTACTATCCACTCTACTTCAATCTCAAGGGGATAGGA-A-GACGTT-TGCTCT
*
24819666 TACTTCAATTTC-GAAGATAAAGACGTACTATCCATCTTTACTTCAATTTCAAGGGGATAGGAAG
63 TACTTCAATTTCAG-AGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAG
* *
24819730 AGGTCTTGCTCTTACTTCAATTTCAGAGATGAAGACGTATTATCCACTCTACTTCAATTTCGAGA
127 AGGTCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAG-
24819795 GGG-TGACGTTGCTCTTACTTCAATTTC
191 GGGATGACGTTGCTCTTACTTCAATTTC
* * *
24819822 AGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAGAGGTCTTGTTCTT
1 AGAGATAAAGACGTACTATCCA-CTCTACTTCAATCTCAAGGGGATAGGAAGACGT-TTGCTCTT
24819887 ACTTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAGAG
64 ACTTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAGAG
*
24819952 GTCTTGCTCTTACTTCAATTTCAGAGATAAAGATGTATTATCCACTCTACTTCAATTTCAAGGGG
129 GTCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGG
24820017 ATGACGTTGCTCTTACTTCAATTTC
194 ATGACGTTGCTCTTACTTCAATTTC
* *
24820042 AGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGAT-----GACG-TTGCTCTTAC
1 AGAGATAAAGACGTACTATCCACTCTACTTCAATCTCAAGGGGATAGGAAGACGTTTGCTCTTAC
*
24820101 TTCAATTTCAGAGATAAAGACGTATTATCCA-CTCTACTTCAATTTCAAGGGGAT-----GA--T
66 TTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAGAGGT
* * *
24820158 GTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGCGGAT
131 CTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGAT
24820223 TGGAAATGAT
Statistics
Matches: 561, Mismatches: 40, Indels: 47
0.87 0.06 0.07
Matches are distributed among these distances:
204 62 0.11
206 2 0.00
211 24 0.04
212 108 0.19
213 19 0.03
214 8 0.01
215 2 0.00
217 7 0.01
218 6 0.01
219 126 0.22
220 196 0.35
221 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (218 bp):
AGAGATAAAGACGTACTATCCACTCTACTTCAATCTCAAGGGGATAGGAAGACGTTTGCTCTTAC
TTCAATTTCAGAGATAAAGACGTACTATCCATCTCTACTTCAATTTCAAGGGGATAGGAAGAGGT
CTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCACTCTACTTCAATTTCAAGGGGAT
GACGTTGCTCTTACTTCAATTTC
Found at i:24820037 original size:31 final size:31
Alignment explanation
Indices: 24819999--24820178 Score: 135
Period size: 31 Copynumber: 5.4 Consensus size: 31
24819989 TTATCCACTC
24819999 TACTTCAATTTCAAGGGGATGACGTTGCTCT
1 TACTTCAATTTCAAGGGGATGACGTTGCTCT
*** * * *
24820030 TACTTCAATTTCAGAGATAAAGACGTATTATCCACT
1 TACTTCAATTTCA-AGGGGATGACG---T-TGCTCT
24820066 CTACTTCAATTTCAAGGGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGGGGATGACGTTGCTCT
*** * * *
24820098 TACTTCAATTTCAGAGATAAAGACGTATTATCCACT
1 TACTTCAATTTCA-AGGGGATGACG---T-TGCTCT
*
24820134 CTACTTCAATTTCAAGGGGATGATGTTGCTCT
1 -TACTTCAATTTCAAGGGGATGACGTTGCTCT
24820166 TACTTCAATTTCA
1 TACTTCAATTTCA
24820179 GAGATAAAGA
Statistics
Matches: 112, Mismatches: 25, Indels: 24
0.70 0.16 0.15
Matches are distributed among these distances:
31 39 0.35
32 22 0.20
33 2 0.02
35 2 0.02
36 21 0.19
37 26 0.23
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (31 bp):
TACTTCAATTTCAAGGGGATGACGTTGCTCT
Found at i:24832407 original size:30 final size:30
Alignment explanation
Indices: 24832323--24832610 Score: 424
Period size: 30 Copynumber: 9.7 Consensus size: 30
24832313 AAAGATACGA
*
24832323 GGGT-AAAATGGTAATTTTTG-AAAGTTTTG
1 GGGTCAAAAT-GTAATTTTGGAAAAGTTTTG
24832352 GGGTCAAAATGTAATTTT-G-AAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* *
24832380 GGGTCAAAGTGTAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
*
24832410 GGGTCAAAATGTAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
*
24832440 GGGTCAAAATGTAATTTTGGAAAAGTTTTA
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
*
24832470 GGGTTAAAATGTAATTTTGGAAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* *
24832500 GGGTCAAAATGTAATTTTAGAAAAGTTTCG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
*
24832530 AGGTCAAAATGTAATTTTGGAAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
* *
24832560 AGGTCAAAATGTAATTTTGGAAAAG-TTTC
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTG
24832589 GGGTCAAAATGTAATTTCTGGA
1 GGGTCAAAATGTAATTT-TGGA
24832611 CAATTTAGGG
Statistics
Matches: 242, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
28 27 0.11
29 32 0.13
30 183 0.76
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTTG
Found at i:24833604 original size:3 final size:3
Alignment explanation
Indices: 24833596--24833622 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24833586 TGTCCTTTCG
24833596 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
24833623 ATGTTTCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24834452 original size:6 final size:6
Alignment explanation
Indices: 24834441--24834517 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
24834431 TTAAATTTGA
* *
24834441 TTAAAT TTAAAT TTAAA- ATAAAT TTAAA- -TAAAT TTAAAC TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
24834485 ATAAAT TTAAAT TTAAA- TAAAAT TTAAAA TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
24834518 TCTTAAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.07
5 12 0.21
6 42 0.72
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:24834462 original size:27 final size:27
Alignment explanation
Indices: 24834432--24834523 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 27
24834422 ATATTATTTT
*
24834432 TAAATTTGATTAAATTTAAATTTAAAA
1 TAAATTTAATTAAATTTAAATTTAAAA
* *
24834459 TAAATTTAAATAAATTTAAACTTAAAA
1 TAAATTTAATTAAATTTAAATTTAAAA
*
24834486 TAAATTTAAATTTAAA-TAAAATTTAAAA
1 TAAATTT-AA-TTAAATTTAAATTTAAAA
*
24834514 TTAATCTTAA
1 TAAAT-TTAA
24834524 AATAAACGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
27 31 0.56
28 18 0.33
29 6 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (27 bp):
TAAATTTAATTAAATTTAAATTTAAAA
Found at i:24834464 original size:11 final size:11
Alignment explanation
Indices: 24834448--24834529 Score: 71
Period size: 11 Copynumber: 7.4 Consensus size: 11
24834438 TGATTAAATT
24834448 TAAATTTAAAA
1 TAAATTTAAAA
24834459 TAAATTT-AAA
1 TAAATTTAAAA
*
24834469 TAAATTTAAACT
1 TAAATTTAAA-A
* *
24834481 TAAA-ATAAATT
1 TAAATTTAAA-A
24834492 TAAATTT-AAA
1 TAAATTTAAAA
24834502 TAAAATTTAAAA
1 T-AAATTTAAAA
*
24834514 TTAATCTTAAAA
1 TAAAT-TTAAAA
24834526 TAAA
1 TAAA
24834530 CGAAATCCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
10 11 0.19
11 29 0.50
12 18 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:24834464 original size:17 final size:17
Alignment explanation
Indices: 24834441--24834517 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
24834431 TTAAATTTGA
*
24834441 TTAAATTTAAATTTAAA-
1 TTAAATTTAAA-ATAAAT
*
24834458 ATAAATTT-AAATAAAT
1 TTAAATTTAAAATAAAT
*
24834474 TTAAACTTAAAATAAAT
1 TTAAATTTAAAATAAAT
24834491 TTAAATTT-AAATAAAAT
1 TTAAATTTAAAAT-AAAT
*
24834508 TTAAAATTAA
1 TTAAATTTAA
24834518 TCTTAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
15 4 0.08
16 12 0.24
17 33 0.66
18 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:24835575 original size:25 final size:25
Alignment explanation
Indices: 24835523--24835578 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
24835513 TTATTTAAAA
24835523 TAAATATTTGATTTTAATTATTATT
1 TAAATATTTGATTTTAATTATTATT
*
24835548 TAAA-ATTTGGTTTTAATT-TTATACT
1 TAAATATTTGATTTTAATTATTAT--T
24835573 TAAATA
1 TAAATA
24835579 ATAAATTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 9 0.33
26 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (25 bp):
TAAATATTTGATTTTAATTATTATT
Found at i:24835951 original size:57 final size:57
Alignment explanation
Indices: 24835863--24835978 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
24835853 CATATGGGAC
*
24835863 ATTCATGCTCTATATGAATGAAGTATAAAATAGGACATTAAAATTATTAAAATATTA
1 ATTCATGATCTATATGAATGAAGTATAAAATAGGACATTAAAATTATTAAAATATTA
24835920 ATTCATGATCTATATGAATGAAGTATAAAATAGGACATTAAAATTATTAAAATATTA
1 ATTCATGATCTATATGAATGAAGTATAAAATAGGACATTAAAATTATTAAAATATTA
24835977 AT
1 AT
24835979 GATATAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (57 bp):
ATTCATGATCTATATGAATGAAGTATAAAATAGGACATTAAAATTATTAAAATATTA
Found at i:24844649 original size:29 final size:29
Alignment explanation
Indices: 24844607--24844672 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
24844597 ACGTGGTATA
* *
24844607 AAAAATTAAAAAAATTCAT-ATAATTATTT
1 AAAAATTAAAAAAAAT-ATAAAAATTATTT
* * *
24844636 TAAAATTTATAAAAATATAAAAATTATTT
1 AAAAATTAAAAAAAATATAAAAATTATTT
24844665 AAAAATTA
1 AAAAATTA
24844673 TCAAGAGTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTAAAAAAAATATAAAAATTATTT
Found at i:24844700 original size:8 final size:9
Alignment explanation
Indices: 24844607--24844707 Score: 62
Period size: 9 Copynumber: 10.6 Consensus size: 9
24844597 ACGTGGTATA
*
24844607 AAAAATTAA
1 AAAAATTAT
24844616 AAAAATTCAT
1 AAAAATT-AT
* *
24844626 ATAATTATTTT
1 A-AA-AATTAT
*
24844637 AAAATTTAT
1 AAAAATTAT
24844646 AAAAA-TAT
1 AAAAATTAT
24844654 AAAAATTATTT
1 AAAAATTA--T
24844665 AAAAATTAT
1 AAAAATTAT
* *
24844674 CAAGAGTTAT
1 -AAAAATTAT
24844684 AAGAAATTAT
1 AA-AAATTAT
24844694 -AAAATTATT
1 AAAAATTA-T
24844703 AAAAA
1 AAAAA
24844708 AGAAGTGTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
8 14 0.20
9 21 0.30
10 20 0.28
11 13 0.18
12 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24847014 original size:16 final size:17
Alignment explanation
Indices: 24846987--24847050 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
24846977 AAATTCAACT
*
24846987 TTTAATTTTA-TTTAAA
1 TTTAAATTTATTTTAAA
*
24847003 TTTGAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* ** * *
24847020 TTTAAATTCATGATGAG
1 TTTAAATTTATTTTAAA
24847037 TTTAAATTTATTTT
1 TTTAAATTTATTTT
24847051 GAATAAAAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
16 8 0.22
17 28 0.78
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:24848965 original size:29 final size:29
Alignment explanation
Indices: 24848914--24849201 Score: 165
Period size: 30 Copynumber: 9.8 Consensus size: 29
24848904 TTGACCCCCG
24848914 AACTTCCTAAAAATTACCA-TTTTACTCTCA
1 AACTTCC-AAAAATTACCATTTTTAC-CTCA
24848944 AACTTCCAAAAATT-CCATTTTTGACC-CA
1 AACTTCCAAAAATTACCATTTTT-ACCTCA
** *
24848972 GATTTTTCC-AAAATTACCATTTTTTACCCTCG
1 -A-ACTTCCAAAAATTACCA-TTTTTA-CCTCA
*
24849004 AACTTCCAAAAATT-CCATTTTTAACCTTGA
1 AACTTCCAAAAATTACCATTTTT-ACC-TCA
**
24849034 TCCTTCCAAAAATTACCA-TTTTACCCTCA
1 AACTTCCAAAAATTACCATTTTTA-CCTCA
* * *
24849063 AACTTTC-AAAATT-TCATTTTTGACCTCG
1 AACTTCCAAAAATTACCATTTTT-ACCTCA
* * *
24849091 ATCTCTCCAAAATTTACCA-TTTTACCCCCA
1 AACT-TCCAAAAATTACCATTTTTA-CCTCA
24849121 AACTTCCAAAAATT-CCATTTTTGACC-CA
1 AACTTCCAAAAATTACCATTTTT-ACCTCA
**
24849149 GATTTTTCC-AAAATTACCA-TTTTACCCTCCA
1 -A-ACTTCCAAAAATTACCATTTTTA-CCT-CA
*
24849180 AA-TGTCCAAAAATT-CTATTTTT
1 AACT-TCCAAAAATTACCATTTTT
24849202 GATCTCGATT
Statistics
Matches: 201, Mismatches: 27, Indels: 60
0.70 0.09 0.21
Matches are distributed among these distances:
27 2 0.01
28 29 0.14
29 70 0.35
30 78 0.39
31 21 0.10
32 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (29 bp):
AACTTCCAAAAATTACCATTTTTACCTCA
Found at i:24848994 original size:58 final size:57
Alignment explanation
Indices: 24848923--24849235 Score: 369
Period size: 59 Copynumber: 5.3 Consensus size: 57
24848913 GAACTTCCTA
*
24848923 AAAATTACCATTTTACTCTCAAACTTCCAAAAATTCCATTTTTGACCCAGATTTTTCC
1 AAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCC-GATTTTTCC
* * * **
24848981 AAAATTACCATTTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTTGATCCTTCC
1 AAAATTACCA--TTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACC-CGATTTTTCC
* * * *
24849041 AAAAATTACCATTTTACCCTCAAACTTTC-AAAATTTCATTTTTGACCTCGATCTCTCC
1 -AAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACC-CGATTTTTCC
*
24849099 AAAATTTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCAGATTTTTCC
1 AAAA-TTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCC-GATTTTTCC
* * *
24849158 AAAATTACCATTTTACCCTCCAAA-TGTCCAAAAATTCTATTTTTGATCTCGATTTTTCTA
1 AAAATTACCATTTTACCCT-CAAACT-TCCAAAAATTCCATTTTTGA-CCCGATTTTTC-C
*
24849218 AAAATTACTATTTTACCC
1 AAAATTACCATTTTACCC
24849236 CAGATGTCTA
Statistics
Matches: 221, Mismatches: 23, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
57 4 0.02
58 72 0.33
59 75 0.34
60 60 0.27
61 10 0.05
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (57 bp):
AAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCGATTTTTCC
Found at i:24849142 original size:59 final size:59
Alignment explanation
Indices: 24848917--24849236 Score: 373
Period size: 58 Copynumber: 5.4 Consensus size: 59
24848907 ACCCCCGAAC
* *
24848917 TTCCTAAAAATTACCATTTTACTCTCAAACTTCCAAAAATTCCATTTTTGACC-CAGATTT
1 TTCC-AAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTC-GATTT
* * * * **
24848977 TTCC-AAAATTACCATTTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCTTGATCC
1 TTCCAAAAATTACCA--TTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTCGATTT
* * * *
24849037 TTCCAAAAATTACCATTTTACCCTCAAACTTTC-AAAATTTCATTTTTGACCTCGATCT
1 TTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTCGATTT
* *
24849095 CTCCAAAATTTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACC-CAGATTT
1 TTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTC-GATTT
* *
24849154 TTCC-AAAATTACCATTTTACCCTCCAAA-TGTCCAAAAATTCTATTTTTGATCTCGATTT
1 TTCCAAAAATTACCATTTTACCC-CCAAACT-TCCAAAAATTCCATTTTTGACCTCGATTT
* *
24849213 TTCTAAAAATTACTATTTTACCCC
1 TTCCAAAAATTACCATTTTACCCC
24849237 AGATGTCTAA
Statistics
Matches: 226, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
58 79 0.35
59 74 0.33
60 63 0.28
61 10 0.04
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (59 bp):
TTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCTCGATTT
Found at i:24853483 original size:21 final size:21
Alignment explanation
Indices: 24853457--24853498 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24853447 AAGACCATAA
24853457 CCCCCTTAATGTAGCTTCCCT
1 CCCCCTTAATGTAGCTTCCCT
24853478 CCCCCTTAATGTAGCTTCCCT
1 CCCCCTTAATGTAGCTTCCCT
24853499 AAATAAGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.43, G:0.10, T:0.33
Consensus pattern (21 bp):
CCCCCTTAATGTAGCTTCCCT
Found at i:24856592 original size:51 final size:51
Alignment explanation
Indices: 24856528--24856861 Score: 596
Period size: 51 Copynumber: 6.5 Consensus size: 51
24856518 GAATCTATAA
* *
24856528 ACTCACGATGACACTTAGTCATCGGACCTTTAATCCATACAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* *
24856579 ACGCACGATGACACTTAGTCATCAGACCATTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* *
24856630 ACTCATGATGACACTTAGTCATCGGGCCATTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
24856681 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
* *
24856732 ACTCACGATGACACTTAGTCATCGGGCCATTAATCCATAAAAGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
24856783 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
24856834 ACTCACGATGACACTTAGTCATCGGACC
1 ACTCACGATGACACTTAGTCATCGGACC
24856862 CTTTCGTTTA
Statistics
Matches: 269, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 269 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (51 bp):
ACTCACGATGACACTTAGTCATCGGACCATTAATCCATAAAGGATTCATTT
Found at i:24860335 original size:26 final size:26
Alignment explanation
Indices: 24860305--24860357 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24860295 ATTTAATCTA
24860305 TTCAACTCCCTTCTTGCATCTGTAGT
1 TTCAACTCCCTTCTTGCATCTGTAGT
24860331 TTCAACTCCCTTCTTGCATCTGTAGT
1 TTCAACTCCCTTCTTGCATCTGTAGT
24860357 T
1 T
24860358 GTAGATAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.11, T:0.43
Consensus pattern (26 bp):
TTCAACTCCCTTCTTGCATCTGTAGT
Found at i:24861649 original size:22 final size:21
Alignment explanation
Indices: 24861608--24861650 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
24861598 TTTTTTATAA
* *
24861608 TTTTAAAAAATTAAATTAAAT
1 TTTTAAAAAATAAAAATAAAT
24861629 TTTTATAAAAATAAAAATAAAT
1 TTTTA-AAAAATAAAAATAAAT
24861651 AAATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAAATAAAAATAAAT
Found at i:24865711 original size:49 final size:49
Alignment explanation
Indices: 24865560--24865856 Score: 168
Period size: 49 Copynumber: 6.1 Consensus size: 49
24865550 ATGTCATCGT
* * *
24865560 GGTACTAGATTCTTCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGA
1 GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
** * ** * *
24865609 GGTA-TAAGG-TTCACCATTGCGATTTAAACCTTTCCCTT--TG-TATCTTCA
1 GGTACT--GGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCT-TC-TGA
*
24865657 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCGGA
1 -GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
* * * ** * * * * ** *
24865707 GGTACAAGGTTTAC--CATTGCAACTTAAACTTTTTTCTTTGTATTTTTC-GT
1 GGTAC-TGGATT-CGTCGTTGCGGCTTAAA-TCTTTCCCTT-CATGCTTCTGA
* * * * *
24865757 GGTACTAGATTTGCCGTTACGGCTTAAATCTTTCCCTT--TG-TATCTGT
1 GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCT-TCTGA
24865804 GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCAT-CTTCTGA
1 GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
24865852 GGTAC
1 GGTAC
24865857 AAGGTTAGCC
Statistics
Matches: 181, Mismatches: 46, Indels: 43
0.67 0.17 0.16
Matches are distributed among these distances:
45 1 0.01
46 4 0.02
47 40 0.22
48 14 0.08
49 81 0.45
50 30 0.17
51 10 0.06
52 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (49 bp):
GGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTGA
Found at i:24865734 original size:98 final size:99
Alignment explanation
Indices: 24865559--24865794 Score: 321
Period size: 98 Copynumber: 2.4 Consensus size: 99
24865549 AATGTCATCG
* * * *
24865559 TGGTACTAGATTCTTCGTTGTGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTATAAGGTTCACC
1 TGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCGGAGGTACAAGGTTCACC
* *
24865624 ATTGCGATTTAAACCTTTCCCTTTGTA-TCTTCA
66 ATTGCAACTTAAACCTTTCCCTTTGTATTCTTCA
* *
24865657 TGGTACTGGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCGGAGGTACAAGGTTTACC
1 TGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCGGAGGTACAAGGTTCACC
* ** * *
24865722 ATTGCAACTTAAACTTTTTTCTTTGTATTTTTCG
66 ATTGCAACTTAAACCTTTCCCTTTGTATTCTTCA
* * *
24865756 TGGTACTAGATTTGCCGTTACGGCTTAAATCTTTCCCTT
1 TGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTT
24865795 TGTATCTGTG
Statistics
Matches: 120, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
98 81 0.68
99 39 0.32
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (99 bp):
TGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCGGAGGTACAAGGTTCACC
ATTGCAACTTAAACCTTTCCCTTTGTATTCTTCA
Found at i:24878533 original size:14 final size:13
Alignment explanation
Indices: 24878514--24878544 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
24878504 TAGGCTTTTG
24878514 TTAATTAATTAAGA
1 TTAATTAATTAA-A
24878528 TTAATTAATTAAA
1 TTAATTAATTAAA
24878541 TTAA
1 TTAA
24878545 AGGTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:24880997 original size:50 final size:50
Alignment explanation
Indices: 24880864--24881055 Score: 219
Period size: 50 Copynumber: 3.8 Consensus size: 50
24880854 CTTGTTGATC
* *
24880864 TAAATTGTTTTGTTCAGATTTGGTGTTATATATATAAAAATTAAATATTTATC
1 TAAATTGTTTTGTTCAGATTTGGTGTT-T-TATATAAATA-TAAATATTTATT
* *
24880917 TAAATTGTTTTTGTTCAAATCTGGTGTTTTATATAAATATAAATATTT-TT
1 TAAATTG-TTTTGTTCAGATTTGGTGTTTTATATAAATATAAATATTTATT
* *
24880967 TAAAATTGTTTTGTTCAGATTTGGTGTTTTACAGAAATATAAATATTTATT
1 T-AAATTGTTTTGTTCAGATTTGGTGTTTTATATAAATATAAATATTTATT
* * * *
24881018 TATATT-TTTTGTTCATATCTT-GTATTTTATGTAAATAT
1 TAAATTGTTTTGTTCAGAT-TTGGTGTTTTATATAAATAT
24881056 TTTATATTTA
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 24 0.20
50 44 0.36
51 18 0.15
52 9 0.07
53 8 0.07
54 18 0.15
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (50 bp):
TAAATTGTTTTGTTCAGATTTGGTGTTTTATATAAATATAAATATTTATT
Found at i:24881053 original size:99 final size:104
Alignment explanation
Indices: 24880865--24881055 Score: 266
Period size: 99 Copynumber: 1.9 Consensus size: 104
24880855 TTGTTGATCT
* *
24880865 AAATTGTTTTGTTCAGATTTGGTGTTATATATATAAAAATTAAATATTTATCTAAATTGTTTTTG
1 AAATTGTTTTGTTCAGATTTGGTGTTATATACAGAAAAATTAAATATTTATCTAAATTGTTTTTG
*
24880930 TTCAAATCTGGTGTTTTATATAAATATAAATATTTTTTA
66 TTCAAATCTGGTATTTTATATAAATATAAATATTTTTTA
* * *
24880969 AAATTGTTTTGTTCAGATTTGGTGTT-T-TACAGAAATA-TAAATATTTATTTATA-T-TTTTTG
1 AAATTGTTTTGTTCAGATTTGGTGTTATATACAGAAAAATTAAATATTTATCTAAATTGTTTTTG
* * *
24881029 TTCATATCTTGTATTTTATGTAAATAT
66 TTCAAATCTGGTATTTTATATAAATAT
24881056 TTTATATTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
99 29 0.37
100 1 0.01
101 14 0.18
102 7 0.09
103 1 0.01
104 26 0.33
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.52
Consensus pattern (104 bp):
AAATTGTTTTGTTCAGATTTGGTGTTATATACAGAAAAATTAAATATTTATCTAAATTGTTTTTG
TTCAAATCTGGTATTTTATATAAATATAAATATTTTTTA
Found at i:24881621 original size:81 final size:83
Alignment explanation
Indices: 24881514--24881709 Score: 283
Period size: 81 Copynumber: 2.4 Consensus size: 83
24881504 TAAAAATTAA
* * * **
24881514 AATTGAATAAATCTATTTCA-GGATTTATTCTCGTCGTTCAGTAAATTTTATTCTATTTT-GATT
1 AATTGAATAATTCTGTTTCAGGGATTTATTCCCGTCGTTCAACAAATTTTATTCTATTTTGGATT
*
24881577 TGTTTTCAAACAAGGATT
66 TGTTTTCAAACAAAGATT
* * *
24881595 AATTGAATATTTTTG-TTCAGGGATTTATTCCCGTCGTTCAACAAATTTTATTCTATTTTGGTTT
1 AATTGAATAATTCTGTTTCAGGGATTTATTCCCGTCGTTCAACAAATTTTATTCTATTTTGGATT
24881659 TGTTTTCAAACAAAGATT
66 TGTTTTCAAACAAAGATT
24881677 AATTGAATAATTCTGTTTC-GGGATTTATTCCCG
1 AATTGAATAATTCTGTTTCAGGGATTTATTCCCG
24881710 CTATTCAACA
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
80 4 0.04
81 47 0.47
82 47 0.47
83 3 0.03
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (83 bp):
AATTGAATAATTCTGTTTCAGGGATTTATTCCCGTCGTTCAACAAATTTTATTCTATTTTGGATT
TGTTTTCAAACAAAGATT
Found at i:24887465 original size:5 final size:5
Alignment explanation
Indices: 24887455--24887480 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24887445 AATGATGTAC
24887455 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
24887481 AGGTGGTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:24891339 original size:2 final size:2
Alignment explanation
Indices: 24891332--24891365 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
24891322 AACATGTGAA
* *
24891332 AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24891366 TAACATCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24893674 original size:6 final size:6
Alignment explanation
Indices: 24893656--24893769 Score: 76
Period size: 6 Copynumber: 19.0 Consensus size: 6
24893646 TTAAATTGAT
24893656 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAA--A
* * * * * *
24893703 TTTAAA TTT-AC TTTGAA TTTAAA TTAAAA TTAAAA TTAAAA TACTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* *
24893751 TTTAACA TTAAAA ATTAAA
1 TTTAA-A TTTAAA TTTAAA
24893770 AGTCCAATGT
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
4 6 0.07
5 6 0.07
6 59 0.67
7 11 0.12
8 6 0.07
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:24893674 original size:17 final size:16
Alignment explanation
Indices: 24893656--24893727 Score: 94
Period size: 17 Copynumber: 4.5 Consensus size: 16
24893646 TTAAATTGAT
24893656 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
24893672 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
*
24893689 TTTAAATTTAATT--A
1 TTTAAATTTATTTAAA
*
24893703 TTTAAATTTACTTTGAA
1 TTTAAATTTA-TTTAAA
24893720 TTTAAATT
1 TTTAAATT
24893728 AAAATTAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 13 0.26
17 24 0.48
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:24893701 original size:11 final size:11
Alignment explanation
Indices: 24893646--24893735 Score: 56
Period size: 11 Copynumber: 7.9 Consensus size: 11
24893636 TCATTTAGAG
* *
24893646 TTAAATTGATT
1 TTAAATTTAAT
24893657 TTAAATTT-AT
1 TTAAATTTAAT
24893667 TTAAATTTAAAT
1 TTAAATTT-AAT
** *
24893679 TTATCTTAAAT
1 TTAAATTTAAT
24893690 TTAAATTTAATTAT
1 TTAAATTT-A--AT
*
24893704 TTAAATTTACT
1 TTAAATTTAAT
* *
24893715 TTGAATTTAAA
1 TTAAATTTAAT
*
24893726 TTAAAATTAA
1 TTAAATTTAA
24893736 AATTAAAATA
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
10 9 0.15
11 32 0.53
12 8 0.13
13 1 0.02
14 10 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:24893725 original size:37 final size:37
Alignment explanation
Indices: 24893663--24893733 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
24893653 GATTTTAAAT
*
24893663 TTATTTAAATTTAAATTTATCTTAAATTTAAATTTAA
1 TTATTTAAATTTAAATTTATCTTAAATTAAAATTTAA
*
24893700 TTATTTAAATTT-ACTTTGAAT-TTAAATTAAAATT
1 TTATTTAAATTTAAATTT--ATCTTAAATTAAAATT
24893734 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 4 0.13
37 24 0.80
38 2 0.07
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (37 bp):
TTATTTAAATTTAAATTTATCTTAAATTAAAATTTAA
Found at i:24895575 original size:59 final size:57
Alignment explanation
Indices: 24895503--24895812 Score: 390
Period size: 59 Copynumber: 5.3 Consensus size: 57
24895493 GCAAAACTTC
*
24895503 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACTCCGATTTCA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTTAC-CCGATTTCA
** * *
24895561 CAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCA
1 C-AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTTA-CCCGATTTCA
* * *
24895620 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTTACCCCGAAACTTC-
1 -CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTTA-CCCG--ATTTCA
* *
24895680 CAAAAATTACCATTTCA-CCCTCAAACTTTCCAAAATTCCATTTTTTACCTCGATTTCA
1 CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTTACC-CGATTTCA
* *
24895738 TCAAAAATTACCATTTTACCCCTGAACTTTCCAAATTTCCATTTTTAACCTCGATTTCA
1 -CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTTACC-CGATTTCA
*
24895797 CCAAAATTACCATTTT
1 CAAAAATTACCATTTT
24895813 TGTCCTCGGG
Statistics
Matches: 222, Mismatches: 20, Indels: 20
0.85 0.08 0.08
Matches are distributed among these distances:
57 4 0.02
58 21 0.09
59 187 0.84
60 6 0.03
61 4 0.02
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTTACCCGATTTCA
Found at i:24895730 original size:29 final size:28
Alignment explanation
Indices: 24895448--24895784 Score: 160
Period size: 29 Copynumber: 11.5 Consensus size: 28
24895438 AACAGTCTAG
* * * **
24895448 AAATTGCATTTTGACCCCAAAATTTTGGA
1 AAATTCCATTTTTACCCC-AAACTTTCCA
* * *
24895477 AAATTACATTTTGACCGCAAAAC-TTCCAA
1 AAATTCCATTTTTACC-CCAAACTTTCC-A
*
24895506 AAATTACCA-TTTTACCCCTGAACTTTCCA
1 AAATT-CCATTTTTACCCC-AAACTTTCCA
* *
24895535 AAATTCCATTTTTAACTCC-GA-TTTCACAAA
1 AAATTCCATTTTT-ACCCCAAACTTTC-C--A
24895565 AAATTACCA-TTTTACCCCCAAACTTTCCA
1 AAATT-CCATTTTTA-CCCCAAACTTTCCA
*
24895594 AAATCCCATTTTTTACCCC-AA-TTTCACCAA
1 AAATTCCA-TTTTTACCCCAAACTTT--CC-A
* *
24895624 AAATTACCA-TTTTACCCCCGAACCTTCCA
1 AAATT-CCATTTTTA-CCCCAAACTTTCCA
24895653 AAATTCCATTTTTTACCCCGAAAC-TTCCAA
1 AAATTCCA-TTTTTACCCC-AAACTTTCC-A
*
24895683 AAATTACCA-TTTCACCCTCAAACTTTCCA
1 AAATT-CCATTTTTACCC-CAAACTTTCCA
* *
24895712 AAATTCCATTTTTTACCTC-GA-TTTCATCAA
1 AAATTCCA-TTTTTACCCCAAACTTTC--C-A
*
24895742 AAATTACCA-TTTTACCCCTGAACTTTCCA
1 AAATT-CCATTTTTACCCC-AAACTTTCCA
*
24895771 AATTTCCATTTTTA
1 AAATTCCATTTTTA
24895785 ACCTCGATTT
Statistics
Matches: 244, Mismatches: 24, Indels: 80
0.70 0.07 0.23
Matches are distributed among these distances:
27 11 0.05
28 23 0.09
29 111 0.45
30 72 0.30
31 17 0.07
32 10 0.04
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (28 bp):
AAATTCCATTTTTACCCCAAACTTTCCA
Found at i:24895810 original size:30 final size:29
Alignment explanation
Indices: 24895709--24895813 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 29
24895699 CTCAAACTTT
24895709 CCAAAATT-CCATTTTTTACCTCGATTTCA
1 CCAAAATTACCA-TTTTTACCTCGATTTCA
* *
24895738 TCAAAAATTACCA-TTTTACCCCTGAACTTT--
1 -CCAAAATTACCATTTTTACCTC-G-A-TTTCA
*
24895768 CC-AAATTTCCATTTTTAACCTCGATTTCA
1 CCAAAATTACCATTTTT-ACCTCGATTTCA
24895797 CCAAAATTACCATTTTT
1 CCAAAATTACCATTTTT
24895814 GTCCTCGGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
27 3 0.05
28 9 0.15
29 16 0.27
30 25 0.42
31 4 0.07
32 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (29 bp):
CCAAAATTACCATTTTTACCTCGATTTCA
Found at i:24895850 original size:177 final size:176
Alignment explanation
Indices: 24895496--24895812 Score: 453
Period size: 177 Copynumber: 1.8 Consensus size: 176
24895486 TTTGACCGCA
* *
24895496 AAACTTCCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACTCCGATTTCA
1 AAACTTCCAAAAATTACCATTTCACCCCTAAACTTTCCAAAATTCCATTTTTAACTCCGATTTCA
*
24895561 CAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCACCAAAA
66 CAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
* **
24895626 ATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTTACCCCG
131 ATTACCATTTTACCCCCG-ACCTTCCAAAATCCCATTTTCAACCCCG
*
24895673 AAACTTCCAAAAATTACCATTTCA-CCCTCAAACTTTCCAAAATTCCATTTTTTAC-CTCGATTT
1 AAACTTCCAAAAATTACCATTTCACCCCT-AAACTTTCCAAAATTCCATTTTTAACTC-CGATTT
** * * * *
24895736 CATC-AAAAATTACCATTTTACCCCTGAACTTTCCAAATTTCCATTTTTAACCTCGATTTCACC-
64 CA-CAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCA
24895799 AAAATTACCATTTT
128 AAAATTACCATTTT
24895813 TGTCCTCGGG
Statistics
Matches: 127, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
176 19 0.15
177 107 0.84
178 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (176 bp):
AAACTTCCAAAAATTACCATTTCACCCCTAAACTTTCCAAAATTCCATTTTTAACTCCGATTTCA
CAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
ATTACCATTTTACCCCCGACCTTCCAAAATCCCATTTTCAACCCCG
Found at i:24895857 original size:118 final size:117
Alignment explanation
Indices: 24895503--24895812 Score: 453
Period size: 118 Copynumber: 2.6 Consensus size: 117
24895493 GCAAAACTTC
24895503 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAA-CTCCGATTTCACAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCT-CGATTTCAC-AAAA
* * *
24895567 ATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCAC
64 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTTACCCCGATTTCAT
* * * * *
24895621 CAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTTACCCCGAAACTTC-CAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCG--ATTTCACAAAA
* * *
24895685 ATTACCATTTCACCCTCAAACTTTCCAAAATTCCATTTTTTACCTCGATTTCAT
64 ATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTTACCCCGATTTCAT
* *
24895739 CAAAAATTACCATTTTACCCCTGAACTTTCCAAATTTCCATTTTTAACCTCGATTTCACCAAAAT
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACAAAAAT
24895804 TACCATTTT
66 TACCATTTT
24895813 TGTCCTCGGG
Statistics
Matches: 169, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
116 4 0.02
117 14 0.08
118 145 0.86
119 2 0.01
120 4 0.02
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (117 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACAAAAAT
TACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTTACCCCGATTTCAT
Found at i:24913759 original size:38 final size:38
Alignment explanation
Indices: 24913641--24913759 Score: 104
Period size: 38 Copynumber: 3.2 Consensus size: 38
24913631 CCTAGAAGTC
* *
24913641 AAGTAAGAGCAAGATCTTTTCCTGTCCGCTTGAAATTG
1 AAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTG
* * * * *
24913679 AAGTAGAGTGGGTAACA-CGTCTT--TAT-CTC-TGAAATTG
1 AAGT--AG-GAGCAAGATC-TTTTCCTATCCGCTTGAAATTG
24913716 AAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTG
1 AAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTG
24913754 AAGTAG
1 AAGTAG
24913760 AGTTGGATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
34 8 0.13
35 3 0.05
36 3 0.05
37 14 0.23
38 20 0.33
39 2 0.03
40 2 0.03
41 8 0.13
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (38 bp):
AAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTG
Found at i:24913936 original size:76 final size:76
Alignment explanation
Indices: 24913641--24914319 Score: 866
Period size: 76 Copynumber: 9.2 Consensus size: 76
24913631 CCTAGAAGTC
* * * *
24913641 AAGTAAGAGCAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAGAG-TGGGTAACACGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24913705 CTCTGAAATTG
66 CTCTGAAATTG
* *
24913716 AAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24913781 CTCTGAAATTG
66 CTCTGAAATTG
* * * *
24913792 AAGTAAGAGC-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGCCTTCAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24913850 CTCTGAAATTG
66 CTCTGAAATTG
* *
24913861 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24913926 CTCTGAAATTG
66 CTCTGAAATTG
*
24913937 AAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24914002 CTCTGAAATTG
66 CTCTGAAATTG
* * * * *
24914013 AAGTATGAGC-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGCCTTCAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24914071 CTCTGAAATTG
66 CTCTGAAATTG
* * *
24914082 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTCGAGTTGGATAACACGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
24914147 CTCTGAAATTG
66 CTCTGAAATTG
* *
24914158 AAGTAAGAGTAACG-TCA--TCC--T---CTTGAAATTGAAGTAG-GGTGGATAACAAGTCTTTA
1 AAGTAAGAGCAA-GATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
*
24914214 TCTCAGAAATTG
65 TCTCTGAAATTG
* * * * * * *
24914226 AAGTAAGAACAAGATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGAATAACAAGCCTTTG
1 AAGTAAGAGCAAGATCA-TTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
24914291 TCCCTCTGAAATTG
65 T--CTCTGAAATTG
*
24914305 AAGTAAGAGTAAGAT
1 AAGTAAGAGCAAGAT
24914320 AAAGCACCAA
Statistics
Matches: 531, Mismatches: 45, Indels: 52
0.85 0.07 0.08
Matches are distributed among these distances:
67 1 0.00
68 41 0.08
69 134 0.25
70 4 0.01
71 7 0.01
72 2 0.00
73 3 0.01
74 7 0.01
75 48 0.09
76 244 0.46
77 17 0.03
79 23 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (76 bp):
AAGTAAGAGCAAGATCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
CTCTGAAATTG
Found at i:24914025 original size:221 final size:221
Alignment explanation
Indices: 24913641--24914233 Score: 997
Period size: 221 Copynumber: 2.7 Consensus size: 221
24913631 CCTAGAAGTC
* ** *
24913641 AAGTAAGAGCAAGATCTTTTCCTGTCCGCTTGAAATTGAAGTAGAG-TGGGTAACACGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTAT
*
24913705 CTCTGAAATTGAAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
66 CTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
24913770 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGG
131 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGG
24913835 ATATCAAGCCTTCATCTCTGAAATTG
196 ATATCAAGCCTTCATCTCTGAAATTG
* *
24913861 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTAT
24913926 CTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
66 CTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
*
24913991 CAAGTCTTTATCTCTGAAATTGAAGTATGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGG
131 CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGG
24914056 ATATCAAGCCTTCATCTCTGAAATTG
196 ATATCAAGCCTTCATCTCTGAAATTG
*
24914082 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTCGAGTTGGATAACACGTCTTTAT
1 AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTAT
* * * *
24914147 CTCTGAAATTGAAGTAAGAG-TA-A-C--GT-C-ATCCTCTTGAAATTGAAGTAG-GGTGGATAA
66 CTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
*
24914204 CAAGTCTTTATCTCAGAAATTGAAGTAAGA
131 CAAGTCTTTATCTCTGAAATTGAAGTAAGA
24914234 ACAAGATCAT
Statistics
Matches: 355, Mismatches: 17, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
213 36 0.10
214 20 0.06
215 1 0.00
216 1 0.00
218 1 0.00
219 1 0.00
220 44 0.12
221 251 0.71
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (221 bp):
AAGTAAGAGCAAGATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTAT
CTCTGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAA
CAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGG
ATATCAAGCCTTCATCTCTGAAATTG
Found at i:24914248 original size:145 final size:146
Alignment explanation
Indices: 24913641--24914313 Score: 843
Period size: 145 Copynumber: 4.6 Consensus size: 146
24913631 CCTAGAAGTC
* * *
24913641 AAGTAAGAGCAAGATC-TTTTCCTGTCCGCTTGAAATTGAAGTAGAG-TGGGTAACACGTCTTTA
1 AAGTAAGAGCAAGATCATTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
* *
24913704 TCTCTGAAATTGAAGTAGGAGCAAGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATA
66 TCTCTGAAATTGAAGTAAGAGC-A-A-C--GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATA
24913769 ACAAGTCTTTATCTCTGAAATTG
124 ACAAGTCTTTATCTCTGAAATTG
* * * *
24913792 AAGTAAGAGC-A-A-C---GT-C-ATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGCCTTCA
1 AAGTAAGAGCAAGATCATTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
24913849 TCTCTGAAATTGAAGTAAGAGCAA-GATCATTTCCTAACCGCTTGAAATTGAAGTAGAGTTGGAT
66 TCTCTGAAATTGAAGTAAGAGCAACG-TCA-----T--CCGCTTGAAATTGAAGTAGAGTTGGAT
*
24913913 ATCAAGTCTTTATCTCTGAAATTG
123 AACAAGTCTTTATCTCTGAAATTG
24913937 AAGTAAGAGCAAGATC-TTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
1 AAGTAAGAGCAAGATCATTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
* * *
24914001 TCTCTGAAATTGAAGTATGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGCC
66 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
*
24914066 TTCATCTCTGAAATTG
131 TTTATCTCTGAAATTG
* * *
24914082 AAGTAAGAGCAAGATCA-TTTCCTAACCGCTTGAAATTGAAGTCGAGTTGGATAACACGTCTTTA
1 AAGTAAGAGCAAGATCATTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
* * *
24914146 TCTCTGAAATTGAAGTAAGAGTAACGTCATCCTCTTGAAATTGAAGTAG-GGTGGATAACAAGTC
66 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
*
24914210 TTTATCTCAGAAATTG
131 TTTATCTCTGAAATTG
* * * * * * *
24914226 AAGTAAGAACAAGATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGAATAACAAGCCTTTG
1 AAGTAAGAGCAAGATCATTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
24914291 TCCCTCTGAAATTGAAGTAAGAG
66 T--CTCTGAAATTGAAGTAAGAG
24914314 TAAGATAAAG
Statistics
Matches: 463, Mismatches: 38, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
138 1 0.00
139 1 0.00
140 1 0.00
143 2 0.00
144 65 0.14
145 288 0.62
146 2 0.00
147 22 0.05
148 2 0.00
149 1 0.00
150 2 0.00
151 11 0.02
152 64 0.14
153 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (146 bp):
AAGTAAGAGCAAGATCATTTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA
TCTCTGAAATTGAAGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
TTTATCTCTGAAATTG
Found at i:24914382 original size:50 final size:50
Alignment explanation
Indices: 24914290--24914384 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
24914280 ACAAGCCTTT
* * *
24914290 GTCCCTCTGAAATTGAAGTAAGAGTAAGATAAAGCACCAACATCATTTTC
1 GTCCCTCTGAAATTGAAGTAAGAGCAAGACAAAGCACAAACATCATTTTC
* *
24914340 GTCCTTCTGAAATTGAAGTAAGAGCAAGACGAAGC-CTAAACATCA
1 GTCCCTCTGAAATTGAAGTAAGAGCAAGACAAAGCAC-AAACATCA
24914385 GACCCTACTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 1 0.03
50 38 0.97
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (50 bp):
GTCCCTCTGAAATTGAAGTAAGAGCAAGACAAAGCACAAACATCATTTTC
Found at i:24914664 original size:6 final size:6
Alignment explanation
Indices: 24914646--24914748 Score: 54
Period size: 6 Copynumber: 17.0 Consensus size: 6
24914636 TTAAATTGAT
*
24914646 TTTAAA TTT--A TTTAAA TTTAAA TTT--A TCTTAAA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA
* * * * *
24914690 TTTGAAGAA TTTAAA TTAAAA TTAAAA TTAAAA TACTAAA TTTAACA TTAAAA
1 TTT--A-AA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA
*
24914743 ATTAAA
1 TTTAAA
24914749 AGTCCAATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
4 6 0.08
5 6 0.08
6 49 0.64
7 12 0.16
9 4 0.05
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:24914665 original size:16 final size:17
Alignment explanation
Indices: 24914646--24914688 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
24914636 TTAAATTGAT
24914646 TTTAAATTTAT-TTAAA
1 TTTAAATTTATCTTAAA
24914662 TTTAAATTTATCTTAAA
1 TTTAAATTTATCTTAAA
24914679 TTTAAATTTA
1 TTTAAATTTA
24914689 CTTTGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATCTTAAA
Found at i:24916487 original size:29 final size:29
Alignment explanation
Indices: 24916427--24916530 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
24916417 AACAGTCTAG
* * ***
24916427 AAATTGCATTTTGACCCCAAAATTTTGGA
1 AAATTACATTTTGACCCCAAAACTTCCAA
*
24916456 AAATTACATTTTGACCGCAAAACTTCCAA
1 AAATTACATTTTGACCCCAAAACTTCCAA
**
24916485 AAATTACCATTTT-ACCCCTGAACTTTCC-A
1 AAATTA-CATTTTGACCCCAAAAC-TTCCAA
* *
24916514 AAATTCCATTTTAACCC
1 AAATTACATTTTGACCC
24916531 TGATTTCACA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 6 0.10
29 46 0.74
30 10 0.16
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (29 bp):
AAATTACATTTTGACCCCAAAACTTCCAA
Found at i:24916559 original size:29 final size:29
Alignment explanation
Indices: 24916479--24916809 Score: 153
Period size: 29 Copynumber: 11.2 Consensus size: 29
24916469 ACCGCAAAAC
24916479 TTCCAAAAATTACCATTTTACCCCTGAACT
1 TTCCAAAAATTACCATTTTA-CCCTGAACT
24916509 TTCC-AAAATT-CCATTTTAACCCTG-A-T
1 TTCCAAAAATTACCATTTT-ACCCTGAACT
**
24916535 TTCACAAAAAATTACCATTTTACCCCCAAACT
1 TTC-C-AAAAATTACCATTTTA-CCCTGAACT
* *
24916567 TTCC-AAAA-TCCCATTTTTTACCC-CAA-T
1 TTCCAAAAATTACCA--TTTTACCCTGAACT
*
24916594 TTCACCAAAAATTACCATTTTACCCCCGAACT
1 TT--CCAAAAATTACCATTTTA-CCCTGAACT
* * *
24916626 TTCC--AAATTTCCATTTTCAACCTCG--GT
1 TTCCAAAAATTACCATTTT-ACCCT-GAACT
* * * *
24916653 TTCACCAAAAATTACCATCTTACCCCCGACCC
1 TT--CCAAAAATTACCATTTTA-CCCTGAACT
*
24916685 TTCC-AAAATTA-CATTTTTTACCCCGAAAC-
1 TTCCAAAAATTACCA--TTTTACCCTG-AACT
* *
24916714 TTCCAAAAATTACCATTTCACCCTCTAACT
1 TTCCAAAAATTACCATTTTACCCT-GAACT
24916744 TTCC-AAAATT-CCATTTTTTA-CCTCG-A-T
1 TTCCAAAAATTACCA--TTTTACCCT-GAACT
*
24916771 TTCATCAAAAATTACCATTTTACCCCCGAACT
1 TTC--CAAAAATTACCATTTTA-CCCTGAACT
24916803 TTCCAAA
1 TTCCAAA
24916810 TTTCCATTTT
Statistics
Matches: 234, Mismatches: 24, Indels: 86
0.68 0.07 0.25
Matches are distributed among these distances:
26 4 0.02
27 12 0.05
28 38 0.16
29 74 0.32
30 64 0.27
31 29 0.12
32 13 0.06
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (29 bp):
TTCCAAAAATTACCATTTTACCCTGAACT
Found at i:24916618 original size:59 final size:59
Alignment explanation
Indices: 24916481--24916892 Score: 483
Period size: 59 Copynumber: 7.0 Consensus size: 59
24916471 CGCAAAACTT
* *
24916481 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
24916539 CAAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
24916598 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAATTTCCATTTTCAACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
24916657 CCAAAAATTACCATCTTACCCCCGACCCTTCCAAAATTACATTTTTTACCCCGAAACTT--
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCG--ATTTCA
* * * * *
24916716 CCAAAAATTACCATTTCACCCTCTAACTTTCCAAAATTCCATTTTTTACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
24916775 TCAAAAATTACCATTTTACCCCCGAACTTTCCAAATTTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** * * *
24916834 CC-AAAATTACCATTTTTACCCCCG-GGTATCCAAAAATCCCATTTTCAACCCCGATTTCA
1 CCAAAAATTACCA-TTTTACCCCCGAACTTTCC-AAAATTCCATTTTTAACCCCGATTTCA
24916893 TCGTTGCTCA
Statistics
Matches: 298, Mismatches: 49, Indels: 13
0.83 0.14 0.04
Matches are distributed among these distances:
57 3 0.01
58 51 0.17
59 242 0.81
61 2 0.01
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:24916782 original size:177 final size:176
Alignment explanation
Indices: 24916481--24916857 Score: 544
Period size: 177 Copynumber: 2.1 Consensus size: 176
24916471 CGCAAAACTT
* * * * *
24916481 CCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTAACCCTGATTTCACAAAAAA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTACATTTTAACCCCGACTTCACAAAAAA
*
24916546 TTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCACCAAAAATTACCA
66 TTACCATTTCACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCACCAAAAATTACCA
*
24916611 TTTTACCCCCGAACTTTCCAAATTTCCATTTTCAACCTCGGTTTCA
131 TTTTACCCCCGAACTTTCCAAATTTCCATTTTCAACCTCGATTTCA
* * *
24916657 CCAAAAATTACCATCTTACCCCCGACCCTTCCAAAATTACATTTTTTACCCCGAAACTTC-C-AA
1 CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTACA-TTTTAACCCCG--ACTTCACAAA
* * * * * *
24916720 AAATTACCATTTCACCCTCTAACTTTCCAAAATTCCATTTTTTACCTCGATTTCATCAAAAATTA
63 AAATTACCATTTCACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCACCAAAAATTA
*
24916785 CCATTTTACCCCCGAACTTTCCAAATTTCCATTTTTAACCTCGATTTCA
128 CCATTTTACCCCCGAACTTTCCAAATTTCCATTTTCAACCTCGATTTCA
24916834 CC-AAAATTACCATTTTTACCCCCG
1 CCAAAAATTACCA-TTTTACCCCCG
24916858 GGTATCCAAA
Statistics
Matches: 179, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
176 46 0.26
177 128 0.72
178 1 0.01
179 4 0.02
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.34
Consensus pattern (176 bp):
CCAAAAATTACCATTTTACCCCCGAACCTTCCAAAATTACATTTTAACCCCGACTTCACAAAAAA
TTACCATTTCACCCCCAAACTTTCCAAAATCCCATTTTTTACCCCAATTTCACCAAAAATTACCA
TTTTACCCCCGAACTTTCCAAATTTCCATTTTCAACCTCGATTTCA
Found at i:24916847 original size:30 final size:30
Alignment explanation
Indices: 24916746--24916851 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 30
24916736 CTCTAACTTT
*
24916746 CCAAAATT-CCATTTTTTACCTCGATTTCA
1 CCAAAATTACCATTTTTAACCTCGATTTCA
* * *
24916775 TCAAAAATTACCA-TTTTACCCCCGAACTTT--
1 -CCAAAATTACCATTTTTAACCTCG-A-TTTCA
*
24916805 CC-AAATTTCCATTTTTAACCTCGATTTCA
1 CCAAAATTACCATTTTTAACCTCGATTTCA
24916834 CCAAAATTACCATTTTTA
1 CCAAAATTACCATTTTTA
24916852 CCCCCGGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
27 3 0.05
28 9 0.15
29 12 0.20
30 29 0.48
31 4 0.07
32 3 0.05
ACGTcount: A:0.31, C:0.27, G:0.03, T:0.39
Consensus pattern (30 bp):
CCAAAATTACCATTTTTAACCTCGATTTCA
Found at i:24925490 original size:20 final size:20
Alignment explanation
Indices: 24925462--24925520 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
24925452 TAAAATTTCG
* *
24925462 AACCATAAACCATAAACTCA
1 AACCCTAAACCATAAACCCA
24925482 AACCCTAAACCA-ACAACCCCA
1 AACCCTAAACCATA-AA-CCCA
24925503 AACCCTTAAACC-TAAACC
1 AACCC-TAAACCATAAACC
24925521 TTGAATCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
19 1 0.03
20 15 0.45
21 10 0.30
22 7 0.21
ACGTcount: A:0.49, C:0.39, G:0.00, T:0.12
Consensus pattern (20 bp):
AACCCTAAACCATAAACCCA
Found at i:24930639 original size:18 final size:18
Alignment explanation
Indices: 24930572--24930632 Score: 113
Period size: 18 Copynumber: 3.4 Consensus size: 18
24930562 TTGATTTAAG
24930572 TAAATTTTTATATAAAAA
1 TAAATTTTTATATAAAAA
24930590 TAAATTTTTATATAAAAA
1 TAAATTTTTATATAAAAA
*
24930608 AAAATTTTTATATAAAAA
1 TAAATTTTTATATAAAAA
24930626 TAAATTT
1 TAAATTT
24930633 ACTTATAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATTTTTATATAAAAA
Found at i:24937317 original size:48 final size:47
Alignment explanation
Indices: 24937244--24937336 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
24937234 CTCCCCTCCC
*
24937244 CTCCCTCTCCCTCTTCCCCACCATCCTTCCCCCTACTCTGATTCTCT
1 CTCCCTCTCCCTCTTCCCCACCATCCATCCCCCTACTCTGATTCTCT
*
24937291 CTCCCTCTGCCCCTCTT-CCCACCATCCATCCTCCTACTCTGATTCT
1 CTCCCTCT--CCCTCTTCCCCACCATCCATCCCCCTACTCTGATTCT
24937337 TTTCCTCTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
47 8 0.19
48 27 0.64
49 7 0.17
ACGTcount: A:0.10, C:0.54, G:0.03, T:0.33
Consensus pattern (47 bp):
CTCCCTCTCCCTCTTCCCCACCATCCATCCCCCTACTCTGATTCTCT
Found at i:24954964 original size:58 final size:58
Alignment explanation
Indices: 24954894--24955382 Score: 628
Period size: 58 Copynumber: 8.4 Consensus size: 58
24954884 ATTTGGACTC
* * * *
24954894 TCGAGGGCAAAAT-GTAATTTTGG-GAAAATTTGGGGTTTAAAAT-GAGATTTTGGAAGGT
1 TCGAGGGTAAAATGGTAATTTTGGTG-AAA-TCGGGGTTAAAAATGGA-ATTTTGGAAAGT
* * * *
24954952 TCGAGGGTAAAATGATAATTTTGGTGAAATCGAGGTCAAAAATGGAGTTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * * * *
24955010 TCG-GGGCTAAAATAGTGATTTTCGATGAAATCGAGGTTAAAAATGGAATTTTGGAAATT
1 TCGAGGG-TAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* **
24955069 TTGAGGGTAAAATGGTAATTTTGGTGAAATCAAGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* *
24955127 TCG-GGGCTAAAACGGTAATTTTCGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGG-TAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * * *
24955186 TTGAGGGTAAAAATGGTAATTTTGGTAAAATTGGGGTTAAAAATGGATTTTTGGAAAGT
1 TCGAGGGT-AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24955245 TCGAGGGTAAAACGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24955303 TCGAGGGTAAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * *
24955361 TCGAGTGTATAACGGTAATTTT
1 TCGAGGGTAAAATGGTAATTTT
24955383 TGGACTGTTT
Statistics
Matches: 379, Mismatches: 42, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
57 6 0.02
58 217 0.57
59 136 0.36
60 20 0.05
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (58 bp):
TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
Found at i:24955380 original size:29 final size:29
Alignment explanation
Indices: 24954894--24955382 Score: 266
Period size: 29 Copynumber: 16.8 Consensus size: 29
24954884 ATTTGGACTC
* *
24954894 TCGAGGGCAAAAT-GTAATTTTGGGAAAAT
1 TCGAGGGTAAAATGGTAATTTT-GGAAAGT
* *
24954923 TTG-GGGTTTAAAAT-G-AGATTTTGGAAGGT
1 TCGAGGG--TAAAATGGTA-ATTTTGGAAAGT
*
24954952 TCGAGGGTAAAATGATAATTTTGGTGAAA--
1 TCGAGGGTAAAATGGTAATTTT-G-GAAAGT
*
24954981 TCGA-GGTCAAAAATGG-AGTTTTGGAAAGT
1 TCGAGGGT--AAAATGGTAATTTTGGAAAGT
* *
24955010 TCG-GGGCTAAAATAGTGATTTTCGATGAAA--
1 TCGAGGG-TAAAATGGTAATTTT-G--GAAAGT
* *
24955040 TCGAGGTTAAAAATGG-AATTTTGGAAATT
1 TCGAGGGT-AAAATGGTAATTTTGGAAAGT
*
24955069 TTGAGGGTAAAATGGTAATTTTGGTGAAA--
1 TCGAGGGTAAAATGGTAATTTT-G-GAAAGT
* *
24955098 TCAAGGTTAAAAATGG-AATTTTGGAAAGT
1 TCGAGGGT-AAAATGGTAATTTTGGAAAGT
*
24955127 TCG-GGGCTAAAACGGTAATTTTCGATGAAA--
1 TCGAGGG-TAAAATGGTAATTTT-G--GAAAGT
24955157 TCG-GGGTTAAAAATGG-AATTTTGGAAAGT
1 TCGAGGG-T-AAAATGGTAATTTTGGAAAGT
* *
24955186 TTGAGGGTAAAAATGGTAATTTTGGTAAAAT
1 TCGAGGGT-AAAATGGTAATTTTGG-AAAGT
*
24955217 T-G-GGGTTAAAAATGG-ATTTTTGGAAAGT
1 TCGAGGG-T-AAAATGGTAATTTTGGAAAGT
*
24955245 TCGAGGGTAAAACGGTAATTTTGGTGAAA--
1 TCGAGGGTAAAATGGTAATTTT-G-GAAAGT
24955274 TCG-GGGTTAAAAATGG-AATTTTGGAAAGT
1 TCGAGGG-T-AAAATGGTAATTTTGGAAAGT
24955303 TCGAGGGTAAAATGGTAATTTTGGTGAAA--
1 TCGAGGGTAAAATGGTAATTTT-G-GAAAGT
24955332 TC-AGGGTTAAAAATGG-AATTTTGGAAAGT
1 TCGAGGG-T-AAAATGGTAATTTTGGAAAGT
* * *
24955361 TCGAGTGTATAACGGTAATTTT
1 TCGAGGGTAAAATGGTAATTTT
24955383 TGGACTGTTT
Statistics
Matches: 366, Mismatches: 35, Indels: 118
0.71 0.07 0.23
Matches are distributed among these distances:
27 24 0.07
28 67 0.18
29 133 0.36
30 100 0.27
31 34 0.09
32 8 0.02
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
TCGAGGGTAAAATGGTAATTTTGGAAAGT
Found at i:24955385 original size:117 final size:117
Alignment explanation
Indices: 24954925--24955382 Score: 656
Period size: 117 Copynumber: 3.9 Consensus size: 117
24954915 GGGAAAATTT
* * *
24954925 GGGGTTTAAAAT-GAGATTTTGGAAGGTTCGAGGGTAAAATGATAATTTTGGTGAAATC-GAGGT
1 GGGGTTAAAAATGGA-ATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTGAAATCAG-GGT
* * ** *
24954988 CAAAAATGGAGTTTTGGAAAGTTCGGGGCTAAAATAGTGATTTTCGATGAAATC
64 TAAAAATGGAATTTTGGAAAGTTCGGGGCTAAAACGGTAATTTTCGATGAAATC
* * * *
24955042 GAGGTTAAAAATGGAATTTTGGAAATTTTGAGGGTAAAATGGTAATTTTGGTGAAATCAAGGTTA
1 GGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTGAAATCAGGGTTA
24955107 AAAATGGAATTTTGGAAAGTTCGGGGCTAAAACGGTAATTTTCGATGAAATC
66 AAAATGGAATTTTGGAAAGTTCGGGGCTAAAACGGTAATTTTCGATGAAATC
* * **
24955159 GGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAAATGGTAATTTTGGTAAAATTGGGGTT
1 GGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT-AAAATGGTAATTTTGGTGAAATCAGGGTT
* *
24955224 AAAAATGGATTTTTGGAAAGTTCGAGGG-TAAAACGGTAATTTT-GGTGAAATC
65 AAAAATGGAATTTTGGAAAGTTCG-GGGCTAAAACGGTAATTTTCGATGAAATC
24955276 GGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTGAAATCAGGGTTA
1 GGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTGAAATCAGGGTTA
* *
24955341 AAAATGGAATTTTGGAAAGTTCGAGTG-TATAACGGTAATTTT
66 AAAATGGAATTTTGGAAAGTTCG-GGGCTAAAACGGTAATTTT
24955383 TGGACTGTTT
Statistics
Matches: 310, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
116 66 0.21
117 176 0.57
118 65 0.21
119 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (117 bp):
GGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTGGTGAAATCAGGGTTA
AAAATGGAATTTTGGAAAGTTCGGGGCTAAAACGGTAATTTTCGATGAAATC
Found at i:24956461 original size:31 final size:32
Alignment explanation
Indices: 24956401--24956465 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
24956391 TTTCTCTTTT
*
24956401 TTATTTAATAAAAATTATTATCACCATTAATG
1 TTATTTAATAAAAATTATTATCAACATTAATG
*
24956433 TTATTTAA-AAAAATTATTAAT-AATATTAATG
1 TTATTTAATAAAAATTATT-ATCAACATTAATG
24956464 TT
1 TT
24956466 GAAAATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (32 bp):
TTATTTAATAAAAATTATTATCAACATTAATG
Found at i:24957240 original size:6 final size:6
Alignment explanation
Indices: 24957224--24957284 Score: 81
Period size: 6 Copynumber: 10.0 Consensus size: 6
24957214 TTAAATTTGT
24957224 TTTATAA TTTAAA TTTAAA TTTAAA TTTAAA TAATTAAA TTTAAA TTTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA TTTAAA TTTAAA
24957275 --TAAA TTTAAA
1 TTTAAA TTTAAA
24957285 ATCAATTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.08
6 36 0.72
7 4 0.08
8 6 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:24957263 original size:20 final size:20
Alignment explanation
Indices: 24957224--24957277 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
24957214 TTAAATTTGT
24957224 TTTATAATTTAAAT--TTAAA
1 TTTA-AATTTAAATAATTAAA
24957243 TTTAAATTTAAATAATTAAA
1 TTTAAATTTAAATAATTAAA
24957263 TTTAAATTTAAATAA
1 TTTAAATTTAAATAA
24957278 ATTTAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.27
19 4 0.12
20 20 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAAATTTAAATAATTAAA
Found at i:24957867 original size:76 final size:76
Alignment explanation
Indices: 24957645--24958321 Score: 926
Period size: 76 Copynumber: 8.9 Consensus size: 76
24957635 CTTTGTCTAA
*
24957645 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGTTATCC-ACTCCACTTCAATTTCAA-ATGGAT
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA-GGAT
*
24957708 AGGAAAAGATCTTG
63 AGGAAATGATCTTG
** * *
24957722 CTCTTACTTCAATTTCAGAGATAAAGACACGTTATCC-ACTCTACTTCAATTTTAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
24957786 AAATGA-CGTTG
66 AAATGATC-TTG
* * *
24957797 CTCTTACTTCAATTTCAGAGATAACA-ACTTGCTGTCCAACTCTACTTCAATTTCAAGGGGATAG
1 CTCTTACTTCAATTTCAGAGATAA-AGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
* *
24957861 GCAATGATCTTA
65 GAAATGATCTTG
* * * *
24957873 CTCTTACTTCAATTCCAGAGATAAAGACTTGTTATCCAACCCTATTTCAATTTCAAGAGGATGGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
24957938 AAACT-ATCTTG
66 AAA-TGATCTTG
* *
24957949 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
24958014 AAATGATCTTG
66 AAATGATCTTG
* * * *
24958025 CTCTTACTTCAATTTCAGAGATAAAGACTTGATATCC-AGTTTACTTCAATTTCAAGAGGATGGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
*
24958089 AAACT-ATATTG
66 AAA-TGATCTTG
* * *
24958100 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATGGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
24958165 AAACT-ATCTTG
66 AAA-TGATCTTG
* *
24958176 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
* *
24958240 AAAAGATATTG
66 AAATGATCTTG
*
24958251 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAA-TCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
*
24958315 GAATGAT
66 AAATGAT
24958322 GTTGGTGCGG
Statistics
Matches: 538, Mismatches: 50, Indels: 26
0.88 0.08 0.04
Matches are distributed among these distances:
74 1 0.00
75 247 0.46
76 272 0.51
77 18 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (76 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGG
AAATGATCTTG
Found at i:24957960 original size:38 final size:37
Alignment explanation
Indices: 24957918--24958267 Score: 169
Period size: 38 Copynumber: 9.3 Consensus size: 37
24957908 CCAACCCTAT
24957918 TTCAATTTCAAGAGGATGGGAAACTATCTTGCTCTTAC
1 TTCAATTTCAAGAGGAT-GGAAACTATCTTGCTCTTAC
* * * *
24957956 TTCAATTTC-AGA-GAT-AAAGACGTGT-TATCCAACTCTAC
1 TTCAATTTCAAGAGGATGGAA-AC-TATCT-TGC-TCT-TAC
*
24957994 TTCAATTTCAAGCGGATAGGAAA-TGATCTTGCTCTTAC
1 TTCAATTTCAAGAGGAT-GGAAACT-ATCTTGCTCTTAC
* * *
24958032 TTCAATTTC-AGA-GAT-AAAGACTTGAT-ATCCAGT-TTAC
1 TTCAATTTCAAGAGGATGGAA-AC-T-ATCTTGC--TCTTAC
*
24958069 TTCAATTTCAAGAGGATGGGAAACTATATTGCTCTTAC
1 TTCAATTTCAAGAGGAT-GGAAACTATCTTGCTCTTAC
* **
24958107 TTCAATTTC-AGA-GAT-AAAGACTTGTTATCCAGCT-TTAC
1 TTCAATTTCAAGAGGATGGAA-AC----TATCTTGCTCTTAC
24958145 TTCAATTTCAAGAGGATGGGAAACTATCTTGCTCTTAC
1 TTCAATTTCAAGAGGAT-GGAAACTATCTTGCTCTTAC
* * * *
24958183 TTCAATTTC-AGA-GAT-AAAGACGTGT-TATCCACTCTAC
1 TTCAATTTCAAGAGGATGGAA-AC-TATCT-TGCTCT-TAC
* ** *
24958220 TTCAATTTCAAGCGGATAGGAAAAGATATTGCTCTTAC
1 TTCAATTTCAAGAGGAT-GGAAACTATCTTGCTCTTAC
24958258 TTCAATTTCA
1 TTCAATTTCA
24958268 GAGATAAAGA
Statistics
Matches: 237, Mismatches: 34, Indels: 82
0.67 0.10 0.23
Matches are distributed among these distances:
34 8 0.03
35 9 0.04
36 24 0.10
37 50 0.21
38 93 0.39
39 28 0.12
40 13 0.05
41 8 0.03
42 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (37 bp):
TTCAATTTCAAGAGGATGGAAACTATCTTGCTCTTAC
Found at i:24958149 original size:151 final size:150
Alignment explanation
Indices: 24957645--24958321 Score: 939
Period size: 151 Copynumber: 4.5 Consensus size: 150
24957635 CTTTGTCTAA
*
24957645 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGTTATCCACTCCACTTCAATTTCAA-ATGGATA
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGA-GGATA
* **
24957709 GGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACACGTTATCCACTCTACTTCAATTT
63 GGAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTT
* * **
24957774 TAAGCGGATAGGAAA-TGACGTTG
128 CAAGAGGATAGGAAACT-ATATTG
* * *
24957797 CTCTTACTTCAATTTCAGAGATAACA-ACTTGCTGTCCAACTCTACTTCAATTTCAAGGGGATAG
1 CTCTTACTTCAATTTCAGAGATAA-AGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAG
* * * * *
24957861 GCAATGATCTTACTCTTACTTCAATTCCAGAGATAAAGACTTGTTATCCAACCCTATTTCAATTT
64 GAAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTT
* *
24957926 CAAGAGGATGGGAAACTATCTTG
128 CAAGAGGATAGGAAACTATATTG
* *
24957949 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGG
* * *
24958014 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGTTTACTTCAATTTCA
65 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCA
*
24958079 AGAGGATGGGAAACTATATTG
130 AGAGGATAGGAAACTATATTG
* *
24958100 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATGGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA-CTCTACTTCAATTTCAAGAGGATAGG
*
24958165 AAACT-ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTC
65 AAA-TGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTC
* **
24958229 AAGCGGATAGGAAAAGATATTG
129 AAGAGGATAGGAAACTATATTG
* * *
24958251 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAATCTACTTCAATTTCAAGAGGATAGGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
24958316 AATGAT
66 AATGAT
24958322 GTTGGTGCGG
Statistics
Matches: 469, Mismatches: 47, Indels: 20
0.88 0.09 0.04
Matches are distributed among these distances:
149 1 0.00
150 45 0.10
151 273 0.58
152 149 0.32
153 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (150 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAAGAGGATAGGA
AATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCACTCTACTTCAATTTCAA
GAGGATAGGAAACTATATTG
Found at i:24970334 original size:27 final size:26
Alignment explanation
Indices: 24970304--24970359 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
24970294 AAAAAGGACT
*
24970304 TTTGAATATC-CGGGGGTAAAATGGTAA
1 TTTGAA-ATCTCGAGGGTAAAAT-GTAA
* *
24970331 TTTGGACTCTCGAGGGTAAAATGTAA
1 TTTGAAATCTCGAGGGTAAAATGTAA
24970357 TTT
1 TTT
24970360 TGGGAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (26 bp):
TTTGAAATCTCGAGGGTAAAATGTAA
Found at i:24970404 original size:58 final size:57
Alignment explanation
Indices: 24970340--24971063 Score: 868
Period size: 58 Copynumber: 12.4 Consensus size: 57
24970330 ATTTGGACTC
* * * *
24970340 TCGAGGGTAAAAT-GTAATTTTGGGAAAATTTGGGGTTTAAAAT-GAGATTTTAGAAGGT
1 TCGAGGGTAAAATGGTAATTTTGGG-AAA-TCGGGGTTAAAAATGGA-ATTTTGGAAAGT
* * * *
24970398 TCGAGGGTAAAATGATAATTTTAGTGAAATCGGGGTTAAAAATAGAGTTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTT-GGGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * *
24970456 TC-AGGGGTAAAATAGTAATTTTCGATGAAATCGGGGTTAAAAATAGAATTTTGGAAAGT
1 TCGA-GGGTAAAATGGTAATTTT-G-GGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * * *
24970515 TC-AGGGGTAAAACGGTAATTTTTGATGAAATTGGGGTTAAAAATGGAATTTTGAAAAGT
1 TCGA-GGGTAAAATGGTAA-TTTTG-GGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * *
24970574 TTGAGTGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAA-TTTGGAAAGTT
1 TCGAGGGTAAAATGGTAATTTTGG-GAAATCGGGGTTAAAAATGGAATTTTGGAAAG-T
* * *
24970632 TTG-GGGTAAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGT
1 TCGAGGGTAAAATGGTAA-TTTT-GGGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24970690 TCGAGGGTAAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGC
1 TCGAGGGT-AAAATGGTAATTTTGG-GAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* **
24970749 TCGGGGGTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGG-GAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * ** *
24970807 TCGAGGGTAAAAGGGTAGTTTTGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGG-GAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * *
24970865 TTG-GGGATAAAATGGTAATTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGG-TAAAATGGTAATTTTG-GGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24970923 TCGAGGGTAAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTG-GGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* *
24970981 TCGGGGGTAAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGAGGGTAAAATGGTAATTTTGG-GAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
24971039 TCGAGGGTAAAATGGTAAGTTTTGG
1 TCGAGGGTAAAATGGTAA-TTTTGG
24971064 ACTGTTTAGG
Statistics
Matches: 595, Mismatches: 51, Indels: 39
0.87 0.07 0.06
Matches are distributed among these distances:
57 25 0.04
58 382 0.64
59 171 0.29
60 17 0.03
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (57 bp):
TCGAGGGTAAAATGGTAATTTTGGGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
Found at i:24970437 original size:29 final size:28
Alignment explanation
Indices: 24970405--24971062 Score: 366
Period size: 29 Copynumber: 22.6 Consensus size: 28
24970395 GGTTCGAGGG
*
24970405 TAAAATGATAATTTTAGTGAAATCGGGGT
1 TAAAATGGTAATTTT-GTGAAATCGGGGT
* *
24970434 TAAAAATAG-AGTTTTG-GAAAGTTCAGGGG-
1 T-AAAATGGTAATTTTGTGAAA--TC-GGGGT
*
24970463 TAAAATAGTAATTTTCGATGAAATCGGGGT
1 TAAAATGGTAATTTT-G-TGAAATCGGGGT
*
24970493 TAAAAATAG-AATTTTG-GAAAGTTCAGGGG-
1 T-AAAATGGTAATTTTGTGAAA--TC-GGGGT
* *
24970522 TAAAACGGTAATTTTTGATGAAATTGGGGT
1 TAAAATGGTAA-TTTTG-TGAAATCGGGGT
* ** *
24970552 TAAAAATGG-AATTTTG-AAAAGTTTGAGT
1 T-AAAATGGTAATTTTGTGAAA-TCGGGGT
*
24970580 GTAAAATGGTAATTTTGGTGAAATTGGGGT
1 -TAAAATGGTAATTTT-GTGAAATCGGGGT
*
24970610 TAAAAATGG-AA-TTTG-GAAAGTTTTGGGG-
1 T-AAAATGGTAATTTTGTGAAA---TCGGGGT
24970638 TAAAATGGTAATTTTTAGTGAAATCGGGGT
1 TAAAATGGTAA-TTTT-GTGAAATCGGGGT
*
24970668 TAAAAATGG-AATTTT-AGAAAGTTCGAGGGT
1 T-AAAATGGTAATTTTGTGAAA--TCG-GGGT
*
24970698 AAAAATGGTAATTTTGGTGAAATCGGGGT
1 TAAAATGGTAATTTT-GTGAAATCGGGGT
*
24970727 TAAAAATGG-AATTTTG-GAAAGCTCGGGGG
1 T-AAAATGGTAATTTTGTGAAA--TCGGGGT
**
24970756 TAAAATGGTAATTTTGGTGAAATTAGGGT
1 TAAAATGGTAATTTT-GTGAAATCGGGGT
24970785 TAAAAATGG-AATTTTG-GAAAGTTCGAGGG-
1 T-AAAATGGTAATTTTGTGAAA--TCG-GGGT
* * **
24970814 TAAAAGGGTAGTTTTGGTGAAATCAAGGT
1 TAAAATGGTAATTTT-GTGAAATCGGGGT
* * *
24970843 TAAAAATAG-AATTTTG-GAAAGTTTGGGGA
1 T-AAAATGGTAATTTTGTGAAA--TCGGGGT
*
24970872 TAAAATGGTAATTTTGATGAAATCGAGGT
1 TAAAATGGTAATTTTG-TGAAATCGGGGT
24970901 TAAAAATGG-AATTTTG-GAAAGTTCGAGGG-
1 T-AAAATGGTAATTTTGTGAAA--TCG-GGGT
24970930 TAAAATGGTAATTTTGATGAAATCGGGGT
1 TAAAATGGTAATTTTG-TGAAATCGGGGT
*
24970959 TAAAAATGG-AATTTTG-GAAAGTTCGGGGG
1 T-AAAATGGTAATTTTGTGAAA--TCGGGGT
*
24970988 TAAAATGGTAATTTTGGTGAAATCAGGGT
1 TAAAATGGTAATTTT-GTGAAATCGGGGT
24971017 TAAAAATGG-AATTTTG-GAAAGTTCGAGGG-
1 T-AAAATGGTAATTTTGTGAAA--TCG-GGGT
24971046 TAAAATGGTAAGTTTTG
1 TAAAATGGTAA-TTTTG
24971063 GACTGTTTAG
Statistics
Matches: 503, Mismatches: 45, Indels: 161
0.71 0.06 0.23
Matches are distributed among these distances:
26 4 0.01
27 47 0.09
28 80 0.16
29 192 0.38
30 120 0.24
31 44 0.09
32 16 0.03
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (28 bp):
TAAAATGGTAATTTTGTGAAATCGGGGT
Found at i:24970496 original size:116 final size:115
Alignment explanation
Indices: 24970340--24971063 Score: 965
Period size: 116 Copynumber: 6.2 Consensus size: 115
24970330 ATTTGGACTC
* * * *
24970340 TCGAGGGTAAAAT-GTAATTTTGG-GAAAATTTGGGGTTTAAAAT-GAGATTTTAGAAGGTTCGA
1 TCGAGGGTAAAATGGTAATTTTGGTG-AAA-TCGGGGTTAAAAATGGA-ATTTTGGAAAGTTCG-
* * *
24970402 GGGTAAAATGATAATTTTAGTGAAATCGGGGTTAAAAATAGAGTTTTGGAAAGT
62 GGGTAAAATGGTAATTTTAGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * *
24970456 TC-AGGGGTAAAATAGTAATTTTCGATGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTCAGG
1 TCGA-GGGTAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GG
* * * *
24970520 GGTAAAACGGTAATTTTTGATGAAATTGGGGTTAAAAATGGAATTTTGAAAAGT
63 GGTAAAATGGTAATTTTAG-TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * * *
24970574 TTGAGTGTAAAATGGTAATTTTGGTGAAATTGGGGTTAAAAATGGAA-TTTGGAAAGTTTTGGGG
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGGGG
*
24970638 TAAAATGGTAATTTTTAGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGT
65 TAAAATGGTAA-TTTTAGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24970690 TCGAGGGTAAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGCTCGGGG
1 TCGAGGGT-AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GGG
* **
24970755 GTAAAATGGTAATTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGT
64 GTAAAATGGTAATTTTAGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
* * ** * *
24970807 TCGAGGGTAAAAGGGTAGTTTTGGTGAAATCAAGGTTAAAAATAGAATTTTGGAAAGTTTGGGGA
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGG-
*
24970872 TAAAATGGTAATTTT-GATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
65 TAAAATGGTAATTTTAG-TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24970923 TCGAGGGTAAAATGGTAATTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGG
1 TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC-GGGG
* *
24970988 TAAAATGGTAATTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGT
65 TAAAATGGTAATTTTAGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
24971039 TCGAGGGTAAAATGGTAAGTTTTGG
1 TCGAGGGTAAAATGGTAA-TTTTGG
24971064 ACTGTTTAGG
Statistics
Matches: 537, Mismatches: 53, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
115 6 0.01
116 280 0.52
117 171 0.32
118 78 0.15
119 2 0.00
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (115 bp):
TCGAGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGT
AAAATGGTAATTTTAGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
Found at i:24972132 original size:31 final size:32
Alignment explanation
Indices: 24972072--24972136 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
24972062 TTTTCTTTTT
*
24972072 TTATTTAATAAAAATTATTATCACCATTAATG
1 TTATTTAATAAAAATTATTATCAACATTAATG
*
24972104 TTATTTAA-AAAAATTATTAAT-AATATTAATG
1 TTATTTAATAAAAATTATT-ATCAACATTAATG
24972135 TT
1 TT
24972137 GAAAATAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (32 bp):
TTATTTAATAAAAATTATTATCAACATTAATG
Found at i:24972917 original size:11 final size:11
Alignment explanation
Indices: 24972879--24972993 Score: 72
Period size: 11 Copynumber: 9.8 Consensus size: 11
24972869 TTTATTTTAG
24972879 TTAATTTTAAAT
1 TTAA-TTTAAAT
**
24972891 TTGTTTTATAATT
1 TTAATTTA-AA-T
24972904 TTAATTTAAAT
1 TTAATTTAAAT
24972915 TTAAATTTAAGA-
1 TT-AATTTAA-AT
*
24972927 TAAATTTAAAT
1 TTAATTTAAAT
24972938 AATTAAATTTAAAT
1 --TT-AATTTAAAT
**
24972952 TTAAGATAAAT
1 TTAATTTAAAT
24972963 TTAAATTTAAA-
1 TT-AATTTAAAT
* *
24972974 TAAATTTAAAA
1 TTAATTTAAAT
24972985 TTAATTTAA
1 TTAATTTAA
24972994 CTTTTAAAGT
Statistics
Matches: 81, Mismatches: 12, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
10 9 0.11
11 32 0.40
12 22 0.27
13 9 0.11
14 9 0.11
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:24972923 original size:6 final size:6
Alignment explanation
Indices: 24972895--24972993 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
24972885 TTAAATTTGT
*
24972895 TTTATAA TTTTAA TTTAAA TTTAAA TTTAAGA --TAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA T--TTAAA
*
24972945 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA --TAAA TTTAAA ATT-AA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24972989 TTTAA
1 TTTAA
24972994 CTTTTAAAGT
Statistics
Matches: 77, Mismatches: 4, Indels: 23
0.74 0.04 0.22
Matches are distributed among these distances:
4 6 0.08
5 10 0.13
6 50 0.65
7 5 0.06
8 6 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:24972930 original size:17 final size:16
Alignment explanation
Indices: 24972910--24972988 Score: 108
Period size: 17 Copynumber: 4.9 Consensus size: 16
24972900 AATTTTAATT
24972910 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
*
24972927 TAAATTTAAA--TAAT
1 TAAATTTAAATTTAAA
24972941 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAA-A
24972958 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
24972974 TAAATTTAAAATTAA
1 TAAATTTAAATTTAA
24972989 TTTAACTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
14 10 0.18
15 3 0.05
16 18 0.32
17 25 0.45
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:24974376 original size:25 final size:25
Alignment explanation
Indices: 24974348--24974399 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24974338 TTAAAAAAAT
24974348 TATATGAATTTTTATATCTTACAAC
1 TATATGAATTTTTATATCTTACAAC
24974373 TATATGAATTTTTATATCTTACAAC
1 TATATGAATTTTTATATCTTACAAC
24974398 TA
1 TA
24974400 AATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.48
Consensus pattern (25 bp):
TATATGAATTTTTATATCTTACAAC
Found at i:24974411 original size:25 final size:25
Alignment explanation
Indices: 24974358--24974411 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
24974348 TATATGAATT
* **
24974358 TTTATATCTTACAACTATATGAATT
1 TTTATATCTTACAACTAAATGAAAA
*
24974383 TTTATATCTTACAACTAAATTAAAA
1 TTTATATCTTACAACTAAATGAAAA
24974408 TTTA
1 TTTA
24974412 AATATTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTATATCTTACAACTAAATGAAAA
Found at i:24976252 original size:9 final size:9
Alignment explanation
Indices: 24976240--24976283 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
24976230 AAAAATATAG
*
24976240 TTTTATAAT
1 TTTTATACT
24976249 TTTTATACT
1 TTTTATACT
24976258 TATTTAATACT
1 T-TTT-ATACT
*
24976269 TTTAATACT
1 TTTTATACT
24976278 TTTTAT
1 TTTTAT
24976284 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 19 0.63
10 5 0.17
11 6 0.20
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTATACT
Found at i:24976378 original size:19 final size:18
Alignment explanation
Indices: 24976338--24976389 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
24976328 GAACTATTTT
*
24976338 TTAAAAAT-TAAAAATCA
1 TTAAAAATATAAAAAGCA
24976355 TTAAAATTATATAAAAAGCA
1 TTAAAA--ATATAAAAAGCA
24976375 -TAAAAATATAAAAAG
1 TTAAAAATATAAAAAG
24976390 AATACTCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 16 0.52
19 7 0.23
20 8 0.26
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (18 bp):
TTAAAAATATAAAAAGCA
Found at i:24976762 original size:37 final size:37
Alignment explanation
Indices: 24976712--24976791 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
24976702 TGTGGGAATG
24976712 AGCGTGCTGCTGGCAACTGTGGGTAGTCGGGTCTGGA
1 AGCGTGCTGCTGGCAACTGTGGGTAGTCGGGTCTGGA
*
24976749 AGCGTGCTGCTGGCAACTGTGGGTAGTCTGGTCTGGA
1 AGCGTGCTGCTGGCAACTGTGGGTAGTCGGGTCTGGA
24976786 AGCGTG
1 AGCGTG
24976792 TTAGGCTAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.14, C:0.19, G:0.42, T:0.25
Consensus pattern (37 bp):
AGCGTGCTGCTGGCAACTGTGGGTAGTCGGGTCTGGA
Found at i:24977626 original size:21 final size:19
Alignment explanation
Indices: 24977577--24977628 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
24977567 TTTTAATATT
24977577 TTTTATTTTAAATTCTGAA
1 TTTTATTTTAAATTCTGAA
* *
24977596 TTTAAATTTATTAATTCT-AA
1 TTT-TATTT-TAAATTCTGAA
24977616 TATTTATTTTAAA
1 T-TTTATTTTAAA
24977629 ATTCATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
19 6 0.23
20 11 0.42
21 9 0.35
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTATTTTAAATTCTGAA
Found at i:24977708 original size:22 final size:23
Alignment explanation
Indices: 24977680--24977736 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 23
24977670 TACATAATAT
24977680 AATATTTAT-AATAAATATAAAA
1 AATATTTATAAATAAATATAAAA
* *
24977702 AATATTTAATTAAAATAAATTTAAAT
1 AATATTT-A-T-AAATAAATATAAAA
24977728 AATATTTAT
1 AATATTTAT
24977737 CTTAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 7 0.24
23 1 0.03
24 2 0.07
25 1 0.03
26 18 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATATTTATAAATAAATATAAAA
Found at i:24979064 original size:17 final size:17
Alignment explanation
Indices: 24979016--24979064 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
24979006 GTATAAAGCA
**
24979016 CAAAGATGATTTTGAAT
1 CAAAGATGCGTTTGAAT
* *
24979033 CAAAGATGTGATTGAAT
1 CAAAGATGCGTTTGAAT
*
24979050 CAAGGATGCGTTTGA
1 CAAAGATGCGTTTGA
24979065 GTTTTCATGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (17 bp):
CAAAGATGCGTTTGAAT
Found at i:24985359 original size:153 final size:154
Alignment explanation
Indices: 24985152--24985437 Score: 466
Period size: 153 Copynumber: 1.9 Consensus size: 154
24985142 AGTGTTTTGA
*
24985152 AAACTTTTGAAAAGGGATATCCGATTTGCATGAATTACGAAAATCACACTTAACACGTTAAAGCG
1 AAACTTTTGAAAAGGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCG
* *
24985217 CGATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGTTTTAAAATTATTTGTGATATAGATA
66 CGATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATA
24985282 TATAAAAATTGAAGGATGTTTCAG
131 TATAAAAATTGAAGGATGTTTCAG
* **
24985306 AAACTTTTGAAGA-GGATATTTGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCG
1 AAACTTTTGAAAAGGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCG
** * * *
24985370 CGATTTTTCGGAGTTTTCACATGACAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATA
66 CGATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATA
24985435 TAT
131 TAT
24985438 GTTTTGAGAA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
153 109 0.90
154 12 0.10
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (154 bp):
AAACTTTTGAAAAGGGATATCCGATTCGCATGAATTACGAAAATCACACTTAACACGTTAAAGCG
CGATTCCTCGAAGTTTTCACACGAAAGGACATTGCCTCGCTTTAAAATTATTTGTAATATAGATA
TATAAAAATTGAAGGATGTTTCAG
Found at i:24986002 original size:29 final size:29
Alignment explanation
Indices: 24985969--24986180 Score: 79
Period size: 29 Copynumber: 7.2 Consensus size: 29
24985959 ATAATGTAAT
24985969 TTTTGGTGAAATTGGGGTTAAAAATGGAA
1 TTTTGGTGAAATTGGGGTTAAAAATGGAA
* *
24985998 TTTT-G-GAAAGTTTGGGGGTAAAACA-GTAA
1 TTTTGGTGAAA--TTGGGGTTAAAA-ATGGAA
* ** * *
24986027 TTTTTAGTGAAACCGAGGTTAAAAATGGGA
1 -TTTTGGTGAAATTGGGGTTAAAAATGGAA
24986057 TTTT-G-GAAGATTTAGGGG-T-AAAATGGTAA
1 TTTTGGTGAA-A-TT-GGGGTTAAAAATGG-AA
** * *
24986086 TTTTGGGTGAAACCGGGGTTATAAATGGGA
1 TTTT-GGTGAAATTGGGGTTAAAAATGGAA
* *
24986116 TCTT-G-GAACGTTCGAGGG-T-AAAATGGTAA
1 TTTTGGTGAA-ATT-G-GGGTTAAAAATGG-AA
*
24986145 TTTTTGGTGAAATCGGGGTTAAAAAT-GAGA
1 -TTTTGGTGAAATTGGGGTTAAAAATGGA-A
24986175 TTTTGG
1 TTTTGG
24986181 AAGATTCAAG
Statistics
Matches: 132, Mismatches: 25, Indels: 52
0.63 0.12 0.25
Matches are distributed among these distances:
27 10 0.08
28 17 0.13
29 46 0.35
30 33 0.25
31 16 0.12
32 10 0.08
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.33
Consensus pattern (29 bp):
TTTTGGTGAAATTGGGGTTAAAAATGGAA
Found at i:24986016 original size:59 final size:60
Alignment explanation
Indices: 24985951--24986243 Score: 300
Period size: 59 Copynumber: 5.0 Consensus size: 60
24985941 TTTTGACTTC
*
24985951 CAGGGGTAATAAT-GTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAG-TT
1 CAGGGGTAA-AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGATT
** ** * * * *
24986010 TGGGGGTAAAACAGTAATTTTTAGTGAAACCGAGGTTAAAAATGGGATTTTGG-AAGATT
1 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGATT
* * * * * * *
24986069 TAGGGGTAAAATGGTAATTTTGGGTGAAACCGGGGTTATAAATGGGATCTTGGAACG-TT
1 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGATT
24986128 C-GAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAAT-GAGATTTTGG-AAGATT
1 CAG-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGA-ATTTTGGAAAGATT
* *
24986187 CAAGGGTAAAATGGTAA-TTTT--TGAAAGTTTCGGGGTTAAAAATGAAATTTTGGAAAG
1 CAGGGGTAAAATGGTAATTTTTGGTGAAA---TCGGGGTTAAAAATGGAATTTTGGAAAG
24986244 CCTGGGGACT
Statistics
Matches: 196, Mismatches: 26, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
56 5 0.03
58 13 0.07
59 172 0.88
60 6 0.03
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (60 bp):
CAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGATT
Found at i:24986135 original size:118 final size:118
Alignment explanation
Indices: 24985951--24986207 Score: 345
Period size: 118 Copynumber: 2.2 Consensus size: 118
24985941 TTTTGACTTC
* ** * * *
24985951 CAGGGGTAATAAT-GTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGG
1 CAGGGGTAA-AATGGTAATTTTGGGTGAAACCGGGGTTAAAAATGGAATCTTGGAAAGTTCGAGG
*
24986015 GTAAAACAGTAATTTTTAGTGAAACCGAGGTTAAAAATGGGATTTTGGAAGATT
65 GTAAAACAGTAATTTTTAGTGAAACCGAGGTTAAAAATGAGATTTTGGAAGATT
* * * *
24986069 TAGGGGTAAAATGGTAATTTTGGGTGAAACCGGGGTTATAAATGGGATCTTGGAACGTTCGAGGG
1 CAGGGGTAAAATGGTAATTTTGGGTGAAACCGGGGTTAAAAATGGAATCTTGGAAAGTTCGAGGG
** * * *
24986134 TAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTGGAAGATT
66 TAAAACAGTAATTTTTAGTGAAACCGAGGTTAAAAATGAGATTTTGGAAGATT
*
24986187 CAAGGGTAAAATGGTAATTTT
1 CAGGGGTAAAATGGTAATTTT
24986208 TGAAAGTTTC
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
117 3 0.03
118 117 0.98
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.32
Consensus pattern (118 bp):
CAGGGGTAAAATGGTAATTTTGGGTGAAACCGGGGTTAAAAATGGAATCTTGGAAAGTTCGAGGG
TAAAACAGTAATTTTTAGTGAAACCGAGGTTAAAAATGAGATTTTGGAAGATT
Found at i:24986236 original size:30 final size:30
Alignment explanation
Indices: 24986157--24986243 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
24986147 TTTGGTGAAA
* *
24986157 TCGGGGTTAAAAATGAGA-TTTTGGAAGAT
1 TCGGGGTTAAAAATGAAATTTTTGAAAGAT
* * *
24986186 TCAAGGG-T-AAAATGGTAATTTTTGAAAGTT
1 TC-GGGGTTAAAAAT-GAAATTTTTGAAAGAT
*
24986216 TCGGGGTTAAAAATGAAATTTTGGAAAG
1 TCGGGGTTAAAAATGAAATTTTTGAAAG
24986244 CCTGGGGACT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
28 5 0.11
29 8 0.18
30 27 0.60
31 5 0.11
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (30 bp):
TCGGGGTTAAAAATGAAATTTTTGAAAGAT
Found at i:24987442 original size:25 final size:27
Alignment explanation
Indices: 24987406--24987456 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
24987396 ATAAAGACAT
24987406 TAAATCATTATAAATA-ATA-ATATAA
1 TAAATCATTATAAATATATATATATAA
24987431 TAAAT-ATATATAAATATATATATATA
1 TAAATCAT-TATAAATATATATATATA
24987457 TATATGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 13 0.57
26 3 0.13
27 5 0.22
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAATCATTATAAATATATATATATAA
Found at i:24987445 original size:10 final size:10
Alignment explanation
Indices: 24987424--24987461 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
24987414 TATAAATAAT
24987424 AATATA-ATA
1 AATATATATA
24987433 AATATATATA
1 AATATATATA
24987443 AATATATATA
1 AATATATATA
*
24987453 TATATATAT
1 AATATATAT
24987462 GTTAATACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 6 0.22
10 21 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATATATA
Found at i:24987522 original size:12 final size:12
Alignment explanation
Indices: 24987505--24987533 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
24987495 TTAAGGAAAA
24987505 TAAATAATGTAT
1 TAAATAATGTAT
24987517 TAAAT-ATGTAT
1 TAAATAATGTAT
24987528 TAAATA
1 TAAATA
24987534 CCTTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
TAAATAATGTAT
Found at i:24988213 original size:16 final size:17
Alignment explanation
Indices: 24988194--24988227 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24988184 TTTAAATATG
24988194 AATTC-AAATAAATTTA
1 AATTCAAAATAAATTTA
24988210 AATTCAAAATAAATTTA
1 AATTCAAAATAAATTTA
24988227 A
1 A
24988228 TCTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTCAAAATAAATTTA
Found at i:24989706 original size:158 final size:158
Alignment explanation
Indices: 24989418--24989748 Score: 493
Period size: 158 Copynumber: 2.1 Consensus size: 158
24989408 GTAATCATAT
* * * * * *
24989418 ATGCTCACACAAGCTGTGAAATGGGCCTACTCACACGAGTTGTGGGTTGAGATGTGTGGCTAGAC
1 ATGCTCACACGAGCTGTGAAATGAGACTACTCACACGAGTTGTGAGTCGAGATGTGTGGCTACAC
* *** *
24989483 GATGCTGCTCACACGAGCTGTGAAGAATCCGCAATAAATGTTGGACCTCAGCCATCGGTAAGACA
66 GATGCTGCTCACACGAGCTGTGAAGAATCCGCAACAAATGCAAGACCTCAACCATCGGTAAGACA
*
24989548 TCTAAGACCAGCACCCATATAACCTGTA
131 TCTAAGACCAGCACCCATATAACATGTA
* *
24989576 ATGCTCACACGAGCTGTGAAATGAGACTGCTCACATGAGTTGTGAGTCGAGATGT-TAGGCTACA
1 ATGCTCACACGAGCTGTGAAATGAGACTACTCACACGAGTTGTGAGTCGAGATGTGT-GGCTACA
* * *
24989640 CGATGCTGCTCACATGAGCTGTGAAGAATCCGCAACCAATGCAAGACCTCAACCATCGGTAGGAC
65 CGATGCTGCTCACACGAGCTGTGAAGAATCCGCAACAAATGCAAGACCTCAACCATCGGTAAGAC
24989705 ATCTAAGACCAGCACCCATATAACATGTA
130 ATCTAAGACCAGCACCCATATAACATGTA
24989734 ATGCTCACACGAGCT
1 ATGCTCACACGAGCT
24989749 ATAACTGTAA
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
157 1 0.01
158 154 0.99
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (158 bp):
ATGCTCACACGAGCTGTGAAATGAGACTACTCACACGAGTTGTGAGTCGAGATGTGTGGCTACAC
GATGCTGCTCACACGAGCTGTGAAGAATCCGCAACAAATGCAAGACCTCAACCATCGGTAAGACA
TCTAAGACCAGCACCCATATAACATGTA
Found at i:24990001 original size:2 final size:2
Alignment explanation
Indices: 24989994--24990028 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24989984 CATATTTTTC
24989994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24990029 CTTAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24992024 original size:146 final size:145
Alignment explanation
Indices: 24991775--24992055 Score: 413
Period size: 146 Copynumber: 1.9 Consensus size: 145
24991765 CGATACTCGG
* *
24991775 GGGCAAAATGGTAATTTTAGACTTTCGAGGACAAAATAGTAATTTTGGAAAAATTTGGGGTTAAA
1 GGGCAAAATGGTAAATTTAGACTTTCGAGGACAAAATAGTAATTTTGGAAAAATTTAGGGTTAAA
* * * *
24991840 AATGATATTTTAGACACTTAAGGGTAAAATGGTAATTTTT-GAAAGAATCGAGATCA-AAACGAG
66 AATAACATTTTAGACAATTAAGAGTAAAATGGTAATTTTTAGAAA-AATCGAGATCAGAAACGAG
24991903 ACTTTTTATATGTCCGA
130 A-TTTTTATATGTCCGA
* * * *
24991920 GGGCAAAATGGTAAATTTAGACTTTTGGGGGCAAAATGGTAATTTTGGAAAAAATTTAGGGTTAA
1 GGGCAAAATGGTAAATTTAGACTTTCGAGGACAAAATAGTAATTTTGG-AAAAATTTAGGGTTAA
* *
24991985 AAATAACATTTTAGACAATTGAGAGTAAAATGGTAATTTTTAGAAAAATCGAGATCAGAAATGAG
65 AAATAACATTTTAGACAATTAAGAGTAAAATGGTAATTTTTAGAAAAATCGAGATCAGAAACGAG
24992050 ATTTTT
130 ATTTTT
24992056 GAACATTTGA
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
145 43 0.36
146 67 0.55
147 11 0.09
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (145 bp):
GGGCAAAATGGTAAATTTAGACTTTCGAGGACAAAATAGTAATTTTGGAAAAATTTAGGGTTAAA
AATAACATTTTAGACAATTAAGAGTAAAATGGTAATTTTTAGAAAAATCGAGATCAGAAACGAGA
TTTTTATATGTCCGA
Found at i:24992026 original size:29 final size:30
Alignment explanation
Indices: 24991993--24992083 Score: 84
Period size: 29 Copynumber: 3.1 Consensus size: 30
24991983 AAAAATAACA
24991993 TTTTAG-ACAATTGAGAGTAAAATGGTAAT
1 TTTTAGAACAATTGAGAGTAAAATGGTAAT
* *
24992022 TTTTAGAAAAATCGAGA-TCAGAAAT-G-AGAT
1 TTTTAGAACAATTGAGAGT-A-AAATGGTA-AT
* *
24992052 TTTT-GAACATTTGAGGGTAAAATGGTAAT
1 TTTTAGAACAATTGAGAGTAAAATGGTAAT
24992081 TTT
1 TTT
24992084 GACAGTTTCG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
28 4 0.08
29 23 0.47
30 18 0.37
31 4 0.08
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTTAGAACAATTGAGAGTAAAATGGTAAT
Found at i:24992097 original size:28 final size:29
Alignment explanation
Indices: 24992066--24992198 Score: 125
Period size: 28 Copynumber: 4.7 Consensus size: 29
24992056 GAACATTTGA
*
24992066 GGGT-AAAATGGTAATTTT-GACAGTTTCG
1 GGGTAAAAATGGTAATTTTGGA-AGTTTAG
* *
24992094 GGGTCAAAAATGG-AATTTTTGGAATTTTGG
1 GGGT-AAAAATGGTAA-TTTTGGAAGTTTAG
* *
24992124 GGGCAAAAAT-GTAATTTTAGAAGTTTAG
1 GGGTAAAAATGGTAATTTTGGAAGTTTAG
*
24992152 GGGTAAAAAT-GTAATTTTTGGAAGTTTTG
1 GGGTAAAAATGGTAA-TTTTGGAAGTTTAG
*
24992181 GGGTCAAAATGG-AATTTT
1 GGGTAAAAATGGTAATTTT
24992199 TAAACAATTT
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
28 33 0.38
29 33 0.38
30 20 0.23
31 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGGTAATTTTGGAAGTTTAG
Found at i:24992174 original size:57 final size:58
Alignment explanation
Indices: 24992061--24992198 Score: 174
Period size: 58 Copynumber: 2.4 Consensus size: 58
24992051 TTTTTGAACA
* * *
24992061 TTTGAGGGTAAAATGGTAATTTTGACAGTTTCGGGGTCAAAAATGGAATTTTTGGAA-T
1 TTTGGGGGCAAAAT-GTAATTTTGACAGTTTAGGGGTCAAAAATGGAATTTTTGGAAGT
*
24992119 TTTGGGGGCAAAAATGTAATTTTAGA-AGTTTAGGGGT-AAAAATGTAATTTTTGGAAGT
1 TTTGGGGGC-AAAATGTAATTTT-GACAGTTTAGGGGTCAAAAATGGAATTTTTGGAAGT
* *
24992177 TTTGGGGTCAAAATGGAATTTT
1 TTTGGGGGCAAAATGTAATTTT
24992199 TAAACAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
57 30 0.42
58 34 0.48
59 7 0.10
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.37
Consensus pattern (58 bp):
TTTGGGGGCAAAATGTAATTTTGACAGTTTAGGGGTCAAAAATGGAATTTTTGGAAGT
Found at i:24992199 original size:29 final size:29
Alignment explanation
Indices: 24992061--24992199 Score: 135
Period size: 29 Copynumber: 4.8 Consensus size: 29
24992051 TTTTTGAACA
24992061 TTTGAGGGT-AAAATGGTAA-TTTT-GACAGT
1 TTTG-GGGTCAAAATGG-AATTTTTGGA-AGT
*
24992090 TTCGGGGTCAAAAATGGAATTTTTGGAA-T
1 TTTGGGGTC-AAAATGGAATTTTTGGAAGT
* * *
24992119 TTTGGGGGCAAAAATGTAA-TTTTAGAAGT
1 TTTGGGGTC-AAAATGGAATTTTTGGAAGT
* * *
24992148 TTAGGGGTAAAAATGTAATTTTTGGAAGT
1 TTTGGGGTCAAAATGGAATTTTTGGAAGT
24992177 TTTGGGGTCAAAATGGAATTTTT
1 TTTGGGGTCAAAATGGAATTTTT
24992200 AAACAATTTA
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
28 20 0.22
29 58 0.63
30 12 0.13
31 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (29 bp):
TTTGGGGTCAAAATGGAATTTTTGGAAGT
Found at i:24992200 original size:58 final size:58
Alignment explanation
Indices: 24992061--24992198 Score: 176
Period size: 57 Copynumber: 2.4 Consensus size: 58
24992051 TTTTTGAACA
*
24992061 TTTGAGGGT-AAAATGGTAATTTT-GACAGTTTCGGGGTCAAAAATGGAATTTTTGGAAT
1 TTTG-GGGTCAAAATGG-AATTTTAGACAGTTTAGGGGTCAAAAATGGAATTTTTGGAAT
* * *
24992119 TTTGGGGGCAAAAATGTAATTTTAGA-AGTTTAGGGGT-AAAAATGTAATTTTTGGAAGT
1 TTTGGGGTC-AAAATGGAATTTTAGACAGTTTAGGGGTCAAAAATGGAATTTTTGGAA-T
24992177 TTTGGGGTCAAAATGGAATTTT
1 TTTGGGGTCAAAATGGAATTTT
24992199 TAAACAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
57 33 0.47
58 29 0.41
59 8 0.11
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.37
Consensus pattern (58 bp):
TTTGGGGTCAAAATGGAATTTTAGACAGTTTAGGGGTCAAAAATGGAATTTTTGGAAT
Found at i:24994082 original size:17 final size:17
Alignment explanation
Indices: 24994045--24994100 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
24994035 TTTTCTTTCT
24994045 AAATTTATAA-TAATATT-
1 AAATTTA-AATTAA-ATTA
24994062 AAATTTAAATTAAATTA
1 AAATTTAAATTAAATTA
* *
24994079 AAATTAAAATTGAATTTA
1 AAATTTAAATT-AAATTA
24994097 AAAT
1 AAAT
24994101 AAATTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 5 0.15
17 20 0.59
18 9 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AAATTTAAATTAAATTA
Found at i:24994103 original size:17 final size:17
Alignment explanation
Indices: 24994076--24994121 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
24994066 TTAAATTAAA
24994076 TTAAAATTAAAATTGAAT
1 TTAAAA-TAAAATTGAAT
*
24994094 TTAAAAT-AAATTTAAT
1 TTAAAATAAAATTGAAT
24994110 TTCAAAATAAAA
1 TT-AAAATAAAA
24994122 ATGGTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TTAAAATAAAATTGAAT
Found at i:24998698 original size:158 final size:158
Alignment explanation
Indices: 24998405--24998737 Score: 393
Period size: 158 Copynumber: 2.1 Consensus size: 158
24998395 AACATGTAAT
* * * *
24998405 CATAT-ATGCTCACACGAGCTGTGAAATGGGCCTACTCACATGAGTTGTGGGTCGAGATGTGGGG
1 CATATAATGCTCACACGAGCTGTGAAATAGGCCTACTCACACGAGCTGTGGGTCGAGATGTGAGG
* * * * * *
24998469 CTACACGATACTACTTACACAAGATGTGGATAATCTGCAATAAATATCGGACCTCAACCATCTGT
66 CTACACGACACTACTCACACAAGATGTGGAGAATCTGCAACAAATAGCAGACCTCAACCATCTGT
*
24998534 AAGACATCTAAGACCAGTACCCATATAA
131 AAGACATCTAAGACCAGCACCCATATAA
* * * * * *
24998562 CCTGTAATGCTCACACGAGCTTTGAAATAGGTCTGCTCACACGAGCTGTGGGTCGAGATGTTAGG
1 CATATAATGCTCACACGAGCTGTGAAATAGGCCTACTCACACGAGCTGTGGGTCGAGATGTGAGG
* * * * * *
24998627 CTACGCGACGCTGCTCACACGAGATGTGGAGAATCTGCAACCAAT-GCAAGACCTTAACCATC-G
66 CTACACGACACTACTCACACAAGATGTGGAGAATCTGCAACAAATAGC-AGACCTCAACCATCTG
* *
24998690 CTAGGACATCTAAGACTAGCACCCATATAA
130 -TAAGACATCTAAGACCAGCACCCATATAA
*
24998720 CATATAATGTTCACACGA
1 CATATAATGCTCACACGA
24998738 ACTATAACTA
Statistics
Matches: 145, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
157 5 0.03
158 140 0.97
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (158 bp):
CATATAATGCTCACACGAGCTGTGAAATAGGCCTACTCACACGAGCTGTGGGTCGAGATGTGAGG
CTACACGACACTACTCACACAAGATGTGGAGAATCTGCAACAAATAGCAGACCTCAACCATCTGT
AAGACATCTAAGACCAGCACCCATATAA
Found at i:25000435 original size:59 final size:60
Alignment explanation
Indices: 25000311--25000455 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 60
25000301 TTGGGTATCC
* * * * * *
25000311 GGGGGTAAAATGGTAATTTTTGGGAAGAATCGAGATCAAAAATGAAATTTTTCTAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGAAAGAACCAAGATCAAAAATGAAATTTTGCGAAGCTT
* * * * * *
25000371 AGGGGTGAAATGGTAA-TTTTGGAAAGAACCAAGGTCAATAATGGAATTTTGGGAAGCTT
1 GGGGGTAAAATGGTAATTTTTGGAAAGAACCAAGATCAAAAATGAAATTTTGCGAAGCTT
25000430 GGGGGTAAAATGGTAATTTTTGGAAA
1 GGGGGTAAAATGGTAATTTTTGGAAA
25000456 AATGGGGTTA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
59 47 0.67
60 23 0.33
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (60 bp):
GGGGGTAAAATGGTAATTTTTGGAAAGAACCAAGATCAAAAATGAAATTTTGCGAAGCTT
Found at i:25000454 original size:29 final size:29
Alignment explanation
Indices: 25000410--25000536 Score: 100
Period size: 29 Copynumber: 4.4 Consensus size: 29
25000400 CAAGGTCAAT
* *
25000410 AATGG-AATTTTGGGAAGCTTGGGGGTAA
1 AATGGTAATTTTTGGAAACTTGGGGGTAA
** *
25000438 AATGGTAATTTTTGGAAAAATGGGGTTAAA
1 AATGGTAATTTTTGGAAACTTGGGGGT-AA
* * * *
25000468 AATGG-ACTTTTT-AAAAGTTTGAGGGTAA
1 AATGGTAATTTTTGGAAA-CTTGGGGGTAA
*
25000496 AATGGTAATTTTTGGAAACTTTGGGGTTAA
1 AATGGTAATTTTTGGAAAC-TTGGGGGTAA
*
25000526 AAT-ATAATTTT
1 AATGGTAATTTT
25000537 AAAAAAGTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
28 15 0.20
29 40 0.53
30 21 0.28
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
AATGGTAATTTTTGGAAACTTGGGGGTAA
Found at i:25000528 original size:58 final size:59
Alignment explanation
Indices: 25000432--25000571 Score: 162
Period size: 58 Copynumber: 2.4 Consensus size: 59
25000422 GGAAGCTTGG
* * * *
25000432 GGGTAAAATGGTAATTTTTGGAAAAATGGGGTTAAAAATGGACTTTT-TAAAAGTTTGA
1 GGGTAAAATGGTAATTTTTGGAAAAATGGGGTTAAAAATAGAATTTTAAAAAAGTTTAA
** *
25000490 GGGTAAAATGGTAATTTTTGGAAACTTTGGGGTT-AAAATATAATTTTAAAAAAGTTTAA
1 GGGTAAAATGGTAATTTTTGGAAA-AATGGGGTTAAAAATAGAATTTTAAAAAAGTTTAA
*
25000549 GGGTTAAAAT-ATAA-TTTTGGAAA
1 GGG-TAAAATGGTAATTTTTGGAAA
25000572 GTTCAGGGAC
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 43 0.61
59 22 0.31
60 6 0.08
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGAAAAATGGGGTTAAAAATAGAATTTTAAAAAAGTTTAA
Done.