Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007890.1 Hibiscus syriacus cultivar Beakdansim tig00110272_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 286089
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:5143 original size:23 final size:23
Alignment explanation
Indices: 5086--5146 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
5076 CTCGTATAAA
5086 TGCATCGAAGTGCCACATAGAAT
1 TGCATCGAAGTGCCACATAGAAT
* * *
5109 TGCACCAAAGTGCCGCATAGAAT
1 TGCATCGAAGTGCCACATAGAAT
*
5132 TGCATCGTAGTGCCA
1 TGCATCGAAGTGCCA
5147 TATAAGATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (23 bp):
TGCATCGAAGTGCCACATAGAAT
Found at i:6007 original size:21 final size:21
Alignment explanation
Indices: 5929--5999 Score: 142
Period size: 21 Copynumber: 3.4 Consensus size: 21
5919 TTTATCCTTG
5929 GTGCATCGGTATACATTGAAT
1 GTGCATCGGTATACATTGAAT
5950 GTGCATCGGTATACATTGAAT
1 GTGCATCGGTATACATTGAAT
5971 GTGCATCGGTATACATTGAAT
1 GTGCATCGGTATACATTGAAT
5992 GTGCATCG
1 GTGCATCG
6000 ATGCACATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (21 bp):
GTGCATCGGTATACATTGAAT
Found at i:12071 original size:23 final size:23
Alignment explanation
Indices: 12045--12109 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
12035 CTCGTATAAA
12045 TGCACCGAAGTGCCATATAGAAT
1 TGCACCGAAGTGCCATATAGAAT
***
12068 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCATATAGAAT
* *
12091 TACACCGTAGTGCCATATA
1 TGCACCGAAGTGCCATATA
12110 AGATTGTCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (23 bp):
TGCACCGAAGTGCCATATAGAAT
Found at i:12814 original size:63 final size:62
Alignment explanation
Indices: 12742--12906 Score: 165
Period size: 63 Copynumber: 2.6 Consensus size: 62
12732 GATGCATCCC
* *
12742 TTAACGGGTGCATCGATGCACTATCTATGCATCGATACATAAATCATATTCGATGTTTGTA-T
1 TTAACGGGTGCATCGATGCACTATCTGTGCATCGATACATAAATCACATTCGATGTTT-TATT
* * * ** **
12804 TTAACGGGGTGCATTGATGCACAAGT-TGTGCATCAATACATTGATGGCATTCGATGTTTTATT
1 TTAAC-GGGTGCATCGATGCACTA-TCTGTGCATCGATACATAAATCACATTCGATGTTTTATT
* *
12867 TTAAAAGAGTGCATCGATGCACT-TCATGTGCATCGATACA
1 TT-AACGGGTGCATCGATGCACTATC-TGTGCATCGATACA
12907 CCTTGAACAA
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 7 0.08
63 72 0.87
64 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (62 bp):
TTAACGGGTGCATCGATGCACTATCTGTGCATCGATACATAAATCACATTCGATGTTTTATT
Found at i:14636 original size:18 final size:18
Alignment explanation
Indices: 14615--14650 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14605 AAATCAACGG
14615 TTCAATCAGGATCAATGA
1 TTCAATCAGGATCAATGA
* *
14633 TTCAGTCAGGGTCAATGA
1 TTCAATCAGGATCAATGA
14651 CTTGACTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
TTCAATCAGGATCAATGA
Found at i:25906 original size:11 final size:11
Alignment explanation
Indices: 25890--25919 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
25880 TTTCAATTTC
25890 TTTATCTTTTG
1 TTTATCTTTTG
25901 TTTATCTTTTG
1 TTTATCTTTTG
25912 TTTATCTT
1 TTTATCTT
25920 ATCTAATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTATCTTTTG
Found at i:28089 original size:18 final size:18
Alignment explanation
Indices: 28040--28089 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
28030 AAAATATTTA
*
28040 TATAAAAATAT-A-TAAT
1 TATAAAAATTTAATTAAT
* *
28056 TTTAAAACTATTAATTAAT
1 TATAAAAAT-TTAATTAAT
28075 TATAAAAATTTAATT
1 TATAAAAATTTAATT
28090 CAATAATGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 7 0.27
17 1 0.04
18 7 0.27
19 11 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAAAATTTAATTAAT
Found at i:28687 original size:61 final size:60
Alignment explanation
Indices: 28616--28765 Score: 169
Period size: 60 Copynumber: 2.5 Consensus size: 60
28606 CATATAGTTT
* * * * * *
28616 GGGAAGAAATTGGAATTTTTAGAGAGTTTAGGGA-TCAATTTAGAATGA-AGGTCATAATTTG
1 GGGATGAAATTGAAATGTTTA-AAAGTTTAAGGACT-AATTTAGAATGATA-GTCATAATTTA
* *
28677 GGGATGAAATTAAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGATAGTCATAGTTTA
1 GGGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGATAGTCATAATTTA
* *
28737 GGGATAAAATTGAAACGTTTAAAAGTTTA
1 GGGATGAAATTGAAATGTTTAAAAGTTTA
28766 TGAATGAAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
60 57 0.75
61 19 0.25
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.33
Consensus pattern (60 bp):
GGGATGAAATTGAAATGTTTAAAAGTTTAAGGACTAATTTAGAATGATAGTCATAATTTA
Found at i:28765 original size:29 final size:29
Alignment explanation
Indices: 28731--28795 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
28721 TGATAGTCAT
* *
28731 AGTTTAGGGATAAAATTGAAACGTTTAAA
1 AGTTTAGGAATAAAATTGAAACATTTAAA
* *
28760 AGTTTATGAATGAAATTGAAACATTTAAA
1 AGTTTAGGAATAAAATTGAAACATTTAAA
28789 AGTTTAG
1 AGTTTAG
28796 AGATTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (29 bp):
AGTTTAGGAATAAAATTGAAACATTTAAA
Found at i:29721 original size:19 final size:19
Alignment explanation
Indices: 29697--29752 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
29687 GAACGTTGGA
29697 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
29716 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
29737 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
29753 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:29732 original size:11 final size:11
Alignment explanation
Indices: 29697--29745 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
29687 GAACGTTGGA
29697 AACCGGTTTTG
1 AACCGGTTTTG
29708 -ACCGG-TTT-
1 AACCGGTTTTG
29716 AACCGGTTTTG
1 AACCGGTTTTG
29727 AACCGGTTTTG
1 AACCGGTTTTG
29738 -ACCGGTTT
1 AACCGGTTT
29746 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:29748 original size:9 final size:10
Alignment explanation
Indices: 29698--29752 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
29688 AACGTTGGAA
29698 ACCGGTTTTG
1 ACCGGTTTTG
*
29708 ACCGG-TTTA
1 ACCGGTTTTG
29717 ACCGGTTTTG
1 ACCGGTTTTG
29727 AACCGGTTTTG
1 -ACCGGTTTTG
29738 ACCGG-TTTG
1 ACCGGTTTTG
29747 ACCGGT
1 ACCGGT
29753 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:29783 original size:13 final size:13
Alignment explanation
Indices: 29765--29819 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
29755 CGACCCGTTT
*
29765 ACCCGTTTACCCG
1 ACCCGTTGACCCG
29778 ACCCGTTGACCCGACCCG
1 ACCCGTTGA--C---CCG
29796 ACCCGTTGACCCG
1 ACCCGTTGACCCG
29809 ACCCGTTGACC
1 ACCCGTTGACC
29820 GTTGACCGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
13 22 0.61
15 1 0.03
16 1 0.03
18 12 0.33
ACGTcount: A:0.16, C:0.47, G:0.20, T:0.16
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:29796 original size:18 final size:18
Alignment explanation
Indices: 29773--29813 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
29763 TTACCCGTTT
29773 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
29791 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
29809 ACCCG
1 ACCCG
29814 TTGACCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.51, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:29886 original size:28 final size:29
Alignment explanation
Indices: 29827--29891 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
29817 ACCGTTGACC
*** *
29827 GTGCTATTCTGGGAATTAATTCGGTTTTG
1 GTGCTATTCTGGGAATTAATTCGAAATGG
29856 GTGCTATTCT-GGAATTAATTCGAAATGG
1 GTGCTATTCTGGGAATTAATTCGAAATGG
29884 GTGCTATT
1 GTGCTATT
29892 TCGGTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.42
Consensus pattern (29 bp):
GTGCTATTCTGGGAATTAATTCGAAATGG
Found at i:36940 original size:19 final size:19
Alignment explanation
Indices: 36916--36971 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
36906 GAACGTTGGA
36916 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
36935 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
36956 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
36972 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:36951 original size:11 final size:11
Alignment explanation
Indices: 36916--36964 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
36906 GAACGTTGGA
36916 AACCGGTTTTG
1 AACCGGTTTTG
36927 -ACCGG-TTT-
1 AACCGGTTTTG
36935 AACCGGTTTTG
1 AACCGGTTTTG
36946 AACCGGTTTTG
1 AACCGGTTTTG
36957 -ACCGGTTT
1 AACCGGTTT
36965 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:36967 original size:9 final size:10
Alignment explanation
Indices: 36917--36971 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
36907 AACGTTGGAA
36917 ACCGGTTTTG
1 ACCGGTTTTG
*
36927 ACCGG-TTTA
1 ACCGGTTTTG
36936 ACCGGTTTTG
1 ACCGGTTTTG
36946 AACCGGTTTTG
1 -ACCGGTTTTG
36957 ACCGG-TTTG
1 ACCGGTTTTG
36966 ACCGGT
1 ACCGGT
36972 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:36992 original size:13 final size:13
Alignment explanation
Indices: 36974--37030 Score: 60
Period size: 13 Copynumber: 4.0 Consensus size: 13
36964 TGACCGGTCA
*
36974 CGACCCGTTTACC
1 CGACCCGTTGACC
36987 CGACCCGTTGACCCGACC
1 CGACCCGTTG-----ACC
37005 CGACCCGTTGACC
1 CGACCCGTTGACC
37018 CGACCCGTTGACC
1 CGACCCGTTGACC
37031 GTTGACCGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 25 0.66
18 13 0.34
ACGTcount: A:0.16, C:0.47, G:0.21, T:0.16
Consensus pattern (13 bp):
CGACCCGTTGACC
Found at i:36999 original size:31 final size:31
Alignment explanation
Indices: 36963--37031 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
36953 TTTGACCGGT
* *
36963 TTGACCGGTCACGACCCGTTTACCCGACCCG
1 TTGACCGGACACGACCCGTTGACCCGACCCG
* *
36994 TTGACCCGACCCGACCCGTTGACCCGACCCG
1 TTGACCGGACACGACCCGTTGACCCGACCCG
37025 TTGACCG
1 TTGACCG
37032 TTGACCGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.43, G:0.23, T:0.17
Consensus pattern (31 bp):
TTGACCGGACACGACCCGTTGACCCGACCCG
Found at i:37007 original size:18 final size:18
Alignment explanation
Indices: 36984--37024 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
36974 CGACCCGTTT
36984 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
37002 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
37020 ACCCG
1 ACCCG
37025 TTGACCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.51, G:0.22, T:0.10
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:37098 original size:29 final size:29
Alignment explanation
Indices: 37038--37103 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
37028 ACCGTTGACC
*** *
37038 GTGCTATTCTGGGAATTAATTCGGTTTTG
1 GTGCTATTCTGGGAATTAATTCGAAATGG
37067 GTGCTATTCTGGGAATTAATTCGAAATGG
1 GTGCTATTCTGGGAATTAATTCGAAATGG
37096 GTGCTATT
1 GTGCTATT
37104 TCGGTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (29 bp):
GTGCTATTCTGGGAATTAATTCGAAATGG
Found at i:44571 original size:9 final size:9
Alignment explanation
Indices: 44557--44607 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
44547 TTAATTCTTG
44557 AAAAGCGCT
1 AAAAGCGCT
*
44566 AAAAGC-AT
1 AAAAGCGCT
44574 AAAAAGCGCT
1 -AAAAGCGCT
*
44584 AAAAGC-AT
1 AAAAGCGCT
44592 AAAAAGCGCT
1 -AAAAGCGCT
44602 AAAAGC
1 AAAAGC
44608 ATAGGAAGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.55, C:0.18, G:0.18, T:0.10
Consensus pattern (9 bp):
AAAAGCGCT
Found at i:44617 original size:18 final size:18
Alignment explanation
Indices: 44557--44610 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
44547 TTAATTCTTG
44557 AAAAGCGCTAAAAGCATA
1 AAAAGCGCTAAAAGCATA
44575 AAAAGCGCTAAAAGCATA
1 AAAAGCGCTAAAAGCATA
44593 AAAAGCGCTAAAAGCATA
1 AAAAGCGCTAAAAGCATA
44611 GGAAGCGTGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.11
Consensus pattern (18 bp):
AAAAGCGCTAAAAGCATA
Found at i:47710 original size:10 final size:10
Alignment explanation
Indices: 47695--47725 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
47685 CCAATGAGCT
47695 ATTTTGGAAA
1 ATTTTGGAAA
47705 ATTTTGGAAA
1 ATTTTGGAAA
*
47715 ATTTTGTAAA
1 ATTTTGGAAA
47725 A
1 A
47726 GCGTTATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (10 bp):
ATTTTGGAAA
Found at i:48317 original size:43 final size:43
Alignment explanation
Indices: 48269--48351 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
48259 GTGTATTTAT
*
48269 TGCACCGAATTCAAGCTGACAATTGTTGAAAAGTGGATGGAAA
1 TGCACCAAATTCAAGCTGACAATTGTTGAAAAGTGGATGGAAA
*
48312 TGCACCAAATTCAAGTTGACAATTGTTGAAAAGTGGATGG
1 TGCACCAAATTCAAGCTGACAATTGTTGAAAAGTGGATGG
48352 GGAAATTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (43 bp):
TGCACCAAATTCAAGCTGACAATTGTTGAAAAGTGGATGGAAA
Found at i:53347 original size:189 final size:192
Alignment explanation
Indices: 53108--53563 Score: 479
Period size: 189 Copynumber: 2.4 Consensus size: 192
53098 CATGGTAATT
* * * *
53108 GGTAAGAAAAACAGTTACAACCTAAAATGTTACCCTAATTTCTCAAATGAAAAAAACTCA-ATAT
1 GGTAAGAAAAACAGTTACAACCTAAAATATTACCCTAATTTCTAAAATGAAAAAAAATCAGA-AC
* * * * * *
53172 TCATGGT-AATTTTTTAGGTTTTAATCTAAAAT-GT-TACTCAATCTATAGGATTTATTATGT-G
65 TCATGGTCAA-TCTTTAGGTTTCAAGCTAAAATAGTAT-C-CAATCTACAGG-TTT-TTATATAC
* * *
53233 C-AACATAACATTTTATATTCCAACCTAAAATGTTAACCGTTTCAACCT-AAAAAA-TTATGTA-
125 CAAACATAACATTTTATATTCCAACCTAAAATATTAACCGTTCCAAACTAAAAAAAGTTATGTAT
53294 TTA
190 TTA
* * * *
53297 GGTAAGAAAAACGGTTACAACCTAAAATTTTACTCTAGTTTCTAAAATGAAAAAAAATCAGAACT
1 GGTAAGAAAAACAGTTACAACCTAAAATATTACCCTAATTTCTAAAATGAAAAAAAATCAGAACT
* *
53362 CATGGTCAATCTTTAGGTTTCAAGCTAAAATAGTATCCAATCTACATGTTTTTATATACCAAACG
66 CATGGTCAATCTTTAGGTTTCAAGCTAAAATAGTATCCAATCTACAGGTTTTTATATACCAAACA
* * * *
53427 TAACATTTTATGTTCTAACCTAAAATATTAATCGTTCCAAACTAAAAAAAGTTATGTATTTT
131 TAACATTTTATATTCCAACCTAAAATATTAACCGTTCCAAACTAAAAAAAGTTATGTATTTA
* * * * *
53489 GGATATA-AAAAACATTTACAACCTAAAATATTA-CCTCGATTT-TCAAAT-AAAAAAATTCAAA
1 GG-TA-AGAAAAACAGTTACAACCTAAAATATTACCCT-AATTTCTAAAATGAAAAAAAATCAGA
53550 ACTCATGGTGCAAT
63 ACTCATGGT-CAAT
53564 ACCCCAAATT
Statistics
Matches: 223, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
187 5 0.02
188 4 0.02
189 130 0.58
190 12 0.05
191 28 0.13
192 15 0.07
193 28 0.13
194 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (192 bp):
GGTAAGAAAAACAGTTACAACCTAAAATATTACCCTAATTTCTAAAATGAAAAAAAATCAGAACT
CATGGTCAATCTTTAGGTTTCAAGCTAAAATAGTATCCAATCTACAGGTTTTTATATACCAAACA
TAACATTTTATATTCCAACCTAAAATATTAACCGTTCCAAACTAAAAAAAGTTATGTATTTA
Found at i:55651 original size:23 final size:21
Alignment explanation
Indices: 55598--55662 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 21
55588 GTATTTTTGT
*
55598 AAGAGTACTTCGTGTACT-TG
1 AAGAGTACTTTGTGTACTATG
*
55618 GAGTAGTACTTTGTGTACTATG
1 AAG-AGTACTTTGTGTACTATG
55640 ACAAGAGTACTTTGTGTACTATG
1 --AAGAGTACTTTGTGTACTATG
55663 GCACTTTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
20 2 0.05
21 14 0.37
22 2 0.05
23 18 0.47
24 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (21 bp):
AAGAGTACTTTGTGTACTATG
Found at i:57473 original size:187 final size:190
Alignment explanation
Indices: 57121--57484 Score: 486
Period size: 186 Copynumber: 1.9 Consensus size: 190
57111 ATCTCGTTTT
* * * *
57121 AACCTAAAAAGTTAAGTATTCGGTAAGAAAATCAGTTACAACATAAAATGTTATCATAGTTTCTC
1 AACCTAAAAAATTAAGTATTCGGTAAGAAAATCAATTACAACATAAAATGTTACCATAATTTCTC
* * ** *
57186 AAATGAAAAATAAAATAAAATAAACGGTAACTTTTTAGGTTTTAACCTAAAATCTTATTCAATCT
66 AAATGAAAAATAAAATAAAATAAACGATAACTTTTTAGGTTTCAACCTAAAATAGTATCCAATCT
**
57251 ACATGATTTATTATGTCCAACGTAATATTTTAGGTTCCAACCTAAAATTTTATCTATTCC
131 ACATGATTTATTATACCCAACGTAATATTTTAGGTTCCAACCTAAAATTTTATCTATTCC
* * *
57311 AACCTAAAAAATTACGTAATT-GGT-A-AAAA-CAATTACAACCTAAAATGTTACCCTAATTTCT
1 AACCTAAAAAATTAAGT-ATTCGGTAAGAAAATCAATTACAACATAAAATGTTACCATAATTTCT
* ** * * *
57372 CAAATGAAAAA-AACATAAAATTCATGATAACTTTTTAGGTTTCAACTTAAAATAGTATCCAATT
65 CAAATGAAAAATAAAATAAAATAAACGATAACTTTTTAGGTTTCAACCTAAAATAGTATCCAATC
*
57436 TACATGATTTATTATACCCAACGTAAATATTTTAGGTTCTAACCTAAAA
130 TACATGATTTATTATACCCAACGT-AATATTTTAGGTTCCAACCTAAAA
57485 AGTTACGTAT
Statistics
Matches: 151, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
186 64 0.42
187 61 0.40
188 4 0.03
189 1 0.01
190 18 0.12
191 3 0.02
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (190 bp):
AACCTAAAAAATTAAGTATTCGGTAAGAAAATCAATTACAACATAAAATGTTACCATAATTTCTC
AAATGAAAAATAAAATAAAATAAACGATAACTTTTTAGGTTTCAACCTAAAATAGTATCCAATCT
ACATGATTTATTATACCCAACGTAATATTTTAGGTTCCAACCTAAAATTTTATCTATTCC
Found at i:57645 original size:55 final size:57
Alignment explanation
Indices: 57585--57711 Score: 186
Period size: 55 Copynumber: 2.2 Consensus size: 57
57575 TTTTTAGCTT
*
57585 TTCAACCTAAAATGATACTCAATCTACATGATTTA-TA-ACAATGTAATATTTTAGG
1 TTCAACCTAAAATGATACTCAATCTACATGATTTATTATACAATGTAACATTTTAGG
* *
57640 TTCAACCTAAAATGATACTCAATCTACATTATTTATTATTCACAATGTAGCATTTTAGG
1 TTCAACCTAAAATGATACTCAATCTACATGATTTATTA-T-ACAATGTAACATTTTAGG
*
57699 TTCAGCCTAAAAT
1 TTCAACCTAAAAT
57712 ATTACCCTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
55 34 0.53
56 2 0.03
59 28 0.44
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (57 bp):
TTCAACCTAAAATGATACTCAATCTACATGATTTATTATACAATGTAACATTTTAGG
Found at i:57908 original size:22 final size:22
Alignment explanation
Indices: 57880--57921 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57870 ACATTTTAGG
*
57880 TTCCAACCTTAAATGCTACTCC
1 TTCCAACCTAAAATGCTACTCC
*
57902 TTCCAACCTAAAATGTTACT
1 TTCCAACCTAAAATGCTACT
57922 TAATCAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (22 bp):
TTCCAACCTAAAATGCTACTCC
Found at i:57982 original size:183 final size:183
Alignment explanation
Indices: 57643--57982 Score: 443
Period size: 183 Copynumber: 1.9 Consensus size: 183
57633 TTTTAGGTTC
* * * *
57643 AACCTAAAATGATACTCAATCTACATTATTTATTATTCACAATGTAGCATTTTAGGTTCAGCCTA
1 AACCTAAAATGATACCCAATCTACATGATTTATTATTCACAATGTAACATTTTAGGTTCAACCTA
* * * * *
57708 AAATATTACCCTTTCAACCTAAAAAGTCACGTATTCGATAAGAAAACAGTTATAACCTAAACTGT
66 AAATACTACCCTTCCAACCTAAAAAGTCACGTAATCAATAAGAAAACAGTTATAACCTAAAATGT
* *
57773 TACCTTAGTTTCTCAAATGAAAAAAAACTGAAAACTTATGGTGCCTAGGTTAA
131 TACCATACTTTCTCAAATGAAAAAAAACTGAAAACTTATGGTGCCTAGGTTAA
* *
57826 AACCTAAAATGTTACCCAATCTATATGATTTATTA-TC-CAATGTAACATTTTAGGTTCCAACCT
1 AACCTAAAATGATACCCAATCTACATGATTTATTATTCACAATGTAACATTTTAGGTT-CAACCT
* * * * * *
57889 TAAATGCTACTCCTTCCAACCTAAAATGTTACTTAATCAATAAGAATAA-ATGTTATAATCTAAA
65 AAAATACTAC-CCTTCCAACCTAAAAAGTCACGTAATCAATAAGAA-AACA-GTTATAACCTAAA
*
57953 ATGTTACCATACTTTCTCAAATTAAAAAAA
127 ATGTTACCATACTTTCTCAAATGAAAAAAA
57983 TATATCAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
181 18 0.14
182 14 0.11
183 61 0.46
184 40 0.30
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (183 bp):
AACCTAAAATGATACCCAATCTACATGATTTATTATTCACAATGTAACATTTTAGGTTCAACCTA
AAATACTACCCTTCCAACCTAAAAAGTCACGTAATCAATAAGAAAACAGTTATAACCTAAAATGT
TACCATACTTTCTCAAATGAAAAAAAACTGAAAACTTATGGTGCCTAGGTTAA
Found at i:65307 original size:15 final size:15
Alignment explanation
Indices: 65287--65357 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
65277 GGTTTTATTA
65287 ATATGTGAATATGTT
1 ATATGTGAATATGTT
*
65302 ATATGTCAATATGTT
1 ATATGTGAATATGTT
* * *
65317 CTACGTGAAAATGTT
1 ATATGTGAATATGTT
* * *
65332 TTATGTTAATGTGTT
1 ATATGTGAATATGTT
*
65347 CTATGTGAATA
1 ATATGTGAATA
65358 AATGATACTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (15 bp):
ATATGTGAATATGTT
Found at i:65325 original size:30 final size:30
Alignment explanation
Indices: 65291--65357 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
65281 TTATTAATAT
65291 GTGAATATGTTATATGTCAATATGTTCTAC
1 GTGAATATGTTATATGTCAATATGTTCTAC
* * * * *
65321 GTGAAAATGTTTTATGTTAATGTGTTCTAT
1 GTGAATATGTTATATGTCAATATGTTCTAC
65351 GTGAATA
1 GTGAATA
65358 AATGATACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (30 bp):
GTGAATATGTTATATGTCAATATGTTCTAC
Found at i:65491 original size:22 final size:23
Alignment explanation
Indices: 65460--65524 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 23
65450 GAGTTGAGGG
*
65460 TTCTACGTGGTTCTTCGGGAC-A
1 TTCTACGTGGTCCTTCGGGACAA
* * *
65482 TTCTATGTGGTCCTCCGAGACAA
1 TTCTACGTGGTCCTTCGGGACAA
*
65505 TTCTACGCGGTCCTTCGGGA
1 TTCTACGTGGTCCTTCGGGA
65525 TAAATCTATG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.32
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:65566 original size:24 final size:24
Alignment explanation
Indices: 65529--65604 Score: 107
Period size: 24 Copynumber: 3.2 Consensus size: 24
65519 TCGGGATAAA
* *
65529 TCTATGTAGCACTTTGGTGCATAT
1 TCTATGTGGCACTTCGGTGCATAT
*
65553 TCTATGTGGAACTTCGGTGCATAT
1 TCTATGTGGCACTTCGGTGCATAT
* *
65577 TCTACGTGGCACTTCGGTGCAAAT
1 TCTATGTGGCACTTCGGTGCATAT
65601 TCTA
1 TCTA
65605 AGCGGCAGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (24 bp):
TCTATGTGGCACTTCGGTGCATAT
Found at i:68079 original size:134 final size:134
Alignment explanation
Indices: 67515--68068 Score: 745
Period size: 134 Copynumber: 4.1 Consensus size: 134
67505 ATTGTTCTTT
* * *
67515 AGGGAAGATTGAATCGAGGCAGACTTGTTCCATTGTTACTTAAGAAATATCAAATCTTGAAAGAG
1 AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGAAATATCAAATCTTGAAAGAG
* * * *
67580 AGAGATATGTTCCACTTCTTCTTGAGGTAAAATTAGATCTGGGGACGTTGATTCAGTCCACTATT
66 AGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTATT
67645 ACTC
131 ACTC
* * * * * *
67649 AAGGAAGATTGGATCAAGACAGACTTGTTCAACTGTTACTCAAGG-AATATCAAATCTTAAAAGA
1 AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTC-AGGAAATATCAAATCTTGAAAGA
* * * * *
67713 TATG-GATCTATTCCGCTTTTTCTTGAGGGAAAATCAGATATGGGGACGTTGATTCATTCCACTA
65 GA-GAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTA
67777 TTACTC
129 TTACTC
** * * *
67783 AGGGAAGATTGAATCGAGATAAACTTTTTCCACTGTTACTCAGGGAATATCAAATCTTGAAAGAG
1 AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGAAATATCAAATCTTGAAAGAG
* * *
67848 AGGGATATGTTCCGCTTCTTCTTGAGGGAAAATCATATCTGGGGACATTGATTCATTCCACTATT
66 AGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTATT
*
67913 ACTT
131 ACTC
*
67917 AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGAAATATCAAATATTGAAAGAG
1 AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGAAATATCAAATCTTGAAAGAG
* * * * * *
67982 AGAGATCTGTTCCGCTTCTTAC-TAAGGAAAAATCAGATCTAGGGATGTTGATTCATTCCACTGT
66 AGAGATATGTTCCGCTTCTT-CTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTAT
*
68046 TCCTC
130 TACTC
68051 AGGGAAGATTGAATCGAG
1 AGGGAAGATTGAATCGAG
68069 TTCGATTTGT
Statistics
Matches: 364, Mismatches: 51, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
133 4 0.01
134 356 0.98
135 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (134 bp):
AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTACTCAGGAAATATCAAATCTTGAAAGAG
AGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTATT
ACTC
Found at i:68457 original size:41 final size:43
Alignment explanation
Indices: 68392--68472 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 43
68382 ATCCTACCCG
* * *
68392 AAGGTCTTATGGATGGCCCAAAGGACTTA-TCATCTTGCTTAA
1 AAGGTCTTATAGATGACCCAAAGGACTTACTCATCATGCTTAA
* *
68434 AAGG-CTTATAGATGACCCGAAGGATTTACTCATCATGCT
1 AAGGTCTTATAGATGACCCAAAGGACTTACTCATCATGCT
68473 CGAAAGACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (43 bp):
AAGGTCTTATAGATGACCCAAAGGACTTACTCATCATGCTTAA
Found at i:68838 original size:16 final size:15
Alignment explanation
Indices: 68817--68863 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
68807 ATGTAAGAAT
68817 TATGTATGCATGTATG
1 TATGTATGCATG-ATG
*
68833 TATGTATGAAATGATG
1 TATGTATG-CATGATG
68849 TATG-ATGCAATGATG
1 TATGTATGC-ATGATG
68864 AAAATCCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.33
16 15 0.56
17 3 0.11
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (15 bp):
TATGTATGCATGATG
Found at i:70795 original size:19 final size:19
Alignment explanation
Indices: 70771--70810 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
70761 ATCCTTTGTC
70771 TTCAAGACATTATTCAAAA
1 TTCAAGACATTATTCAAAA
*
70790 TTCAAGACGTTATTCAAAA
1 TTCAAGACATTATTCAAAA
70809 TT
1 TT
70811 TTACATCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (19 bp):
TTCAAGACATTATTCAAAA
Found at i:71441 original size:20 final size:21
Alignment explanation
Indices: 71399--71441 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
71389 CTCTATTATT
**
71399 TTTTCTTTTTCTATTTCTATA
1 TTTTCTTTTTCTATGACTATA
*
71420 TTTTCTTTTT-TATGACTTTA
1 TTTTCTTTTTCTATGACTATA
71440 TT
1 TT
71442 GGATGAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTCTTTTTCTATGACTATA
Found at i:79090 original size:23 final size:23
Alignment explanation
Indices: 79063--79117 Score: 56
Period size: 27 Copynumber: 2.2 Consensus size: 23
79053 TTAATTTTTG
*
79063 ATTTTTCCGATCGAGCTTAATAA
1 ATTTTTCCGATAGAGCTTAATAA
*
79086 ATTTTAAGTTTCGATAGAGCTTAATAA
1 A-TTT---TTCCGATAGAGCTTAATAA
79113 ATTTT
1 ATTTT
79118 AAGTTTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
23 2 0.08
24 3 0.12
26 3 0.12
27 18 0.69
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (23 bp):
ATTTTTCCGATAGAGCTTAATAA
Found at i:79100 original size:27 final size:27
Alignment explanation
Indices: 79070--79123 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
79060 TTGATTTTTC
*
79070 CGATCGAGCTTAATAAATTTTAAGTTT
1 CGATAGAGCTTAATAAATTTTAAGTTT
79097 CGATAGAGCTTAATAAATTTTAAGTTT
1 CGATAGAGCTTAATAAATTTTAAGTTT
79124 GCAAGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (27 bp):
CGATAGAGCTTAATAAATTTTAAGTTT
Found at i:82643 original size:19 final size:20
Alignment explanation
Indices: 82607--82654 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
82597 TCTAAATCCT
* *
82607 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
82627 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
82646 CTTTCAAAA
1 TTTTCAAAA
82655 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:84129 original size:40 final size:39
Alignment explanation
Indices: 84065--84140 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
84055 CTTCCTTTAC
* *
84065 CTTTGGTATCGATACCATATGAACAGTATCGATACTGTT
1 CTTTGGTATCGATACCATAAGAACAATATCGATACTGTT
* *
84104 CTTTAGGTATCGATACTATAAGAACAATATCGGTACT
1 CTTT-GGTATCGATACCATAAGAACAATATCGATACT
84141 ACTTGTCTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (39 bp):
CTTTGGTATCGATACCATAAGAACAATATCGATACTGTT
Found at i:90658 original size:23 final size:23
Alignment explanation
Indices: 90602--90669 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
90592 AGACCTAAAG
* *
90602 AATAAATCAAAAAATAAT-ATTAAT
1 AATAAAT-ATAAAATAATAAAT-AT
*
90626 AAT-AACATAAAATAATAAATAT
1 AATAAATATAAAATAATAAATAT
90648 AATAAATATAAAATAATAAATA
1 AATAAATATAAAATAATAAATA
90670 AGACTATACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 14 0.37
23 21 0.55
24 3 0.08
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (23 bp):
AATAAATATAAAATAATAAATAT
Found at i:90818 original size:21 final size:21
Alignment explanation
Indices: 90794--90865 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
90784 AAAAGTCATA
* *
90794 TATATTATATGTTTTCAAAAC
1 TATATAATATATTTTCAAAAC
90815 TATATAATATATTTTC-AAA-
1 TATATAATATATTTTCAAAAC
*
90834 GAT-T-ATATATTTTCAAAAAC
1 TATATAATATATTTTC-AAAAC
* *
90854 CATATATTATAT
1 TATATAATATAT
90866 ACAATTTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
17 10 0.24
18 1 0.02
19 5 0.12
20 5 0.12
21 15 0.37
22 5 0.12
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (21 bp):
TATATAATATATTTTCAAAAC
Found at i:90825 original size:23 final size:22
Alignment explanation
Indices: 90794--90842 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
90784 AAAAGTCATA
* *
90794 TATATTATATGTTTTCAAA-AC
1 TATATAATATATTTTCAAAGAC
*
90815 TATATAATATATTTTCAAAGAT
1 TATATAATATATTTTCAAAGAC
90837 TATATA
1 TATATA
90843 TTTTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (22 bp):
TATATAATATATTTTCAAAGAC
Found at i:90858 original size:17 final size:17
Alignment explanation
Indices: 90821--90861 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
90811 AAACTATATA
* **
90821 ATATATTTTCAAAGATT
1 ATATATTTTCAAAAACC
90838 ATATATTTTCAAAAACC
1 ATATATTTTCAAAAACC
90855 ATATATT
1 ATATATT
90862 ATATACAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATATTTTCAAAAACC
Found at i:91613 original size:79 final size:80
Alignment explanation
Indices: 91477--91648 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 80
91467 CTCATTCACT
* *
91477 GTGAAGTTGAGTCGATCTCGAGTATCTTGGGCACAATATCCTTCAATGTGAAGTTGAAATCT-TG
1 GTGAAGTTGAGTCCATCTCGAATATCTTGGGCACAATATCCTTCAATGTGAAGTTGAAAT-TGTG
91541 AGAG-GCTCCTTCATC
65 AGAGAGCTCCTTCATC
* * * ** * *
91556 GTGAAGTTGAGTCCATCTGGAATGTCTTGGGCACGATATCCTTCGTTGTGAATTTGAAATTGTGG
1 GTGAAGTTGAGTCCATCTCGAATATCTTGGGCACAATATCCTTCAATGTGAAGTTGAAATTGTGA
* * *
91621 GTGATCTCCTTCTTC
66 GAGAGCTCCTTCATC
91636 GTGAAGTTGAGTC
1 GTGAAGTTGAGTC
91649 AAGATTGAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.01
79 56 0.71
80 22 0.28
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (80 bp):
GTGAAGTTGAGTCCATCTCGAATATCTTGGGCACAATATCCTTCAATGTGAAGTTGAAATTGTGA
GAGAGCTCCTTCATC
Found at i:96200 original size:4 final size:4
Alignment explanation
Indices: 96188--96340 Score: 184
Period size: 4 Copynumber: 38.8 Consensus size: 4
96178 CACACACACA
* * * *
96188 CACG GACG CACG CACG CACG CACG CAGG CAGG CACG CACG CACG CAGG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
* * *
96236 CATG CACG CAGG CACG CAGG CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
* * * *
96284 CACG CACG CACG CACG CA-- CACA CACG CACG CACA CACA CACG CACA
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
*
96330 CACA CACG CAC
1 CACG CACG CAC
96341 ACGCACACAC
Statistics
Matches: 131, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
2 2 0.02
4 129 0.98
ACGTcount: A:0.29, C:0.46, G:0.25, T:0.01
Consensus pattern (4 bp):
CACG
Found at i:96341 original size:8 final size:8
Alignment explanation
Indices: 96169--96806 Score: 347
Period size: 8 Copynumber: 77.8 Consensus size: 8
96159 ATACATACAT
*
96169 ACACACAC
1 ACACACGC
*
96177 ACACACAC
1 ACACACGC
*
96185 ACACACGG
1 ACACACGC
*
96193 ACGCACGC
1 ACACACGC
*
96201 ACGCACGC
1 ACACACGC
* *
96209 ACGCAGGC
1 ACACACGC
**
96217 AGGCACGC
1 ACACACGC
*
96225 ACGCACGC
1 ACACACGC
96233 AGGCATGCACGC
1 A--CA--CACGC
**
96245 AGGCACGC
1 ACACACGC
**
96253 AGGCACGC
1 ACACACGC
*
96261 ACGCACGC
1 ACACACGC
*
96269 ACGCACGC
1 ACACACGC
*
96277 ACGCACGC
1 ACACACGC
*
96285 ACGCACGC
1 ACACACGC
*
96293 ACGCACGC
1 ACACACGC
96301 ACACA--C
1 ACACACGC
*
96307 ACGCACGC
1 ACACACGC
*
96315 ACACACAC
1 ACACACGC
* *
96323 ACGCACAC
1 ACACACGC
96331 ACACACGC
1 ACACACGC
* *
96339 ACACGCAC
1 ACACACGC
*
96347 ACACACAC
1 ACACACGC
*
96355 ACACACAC
1 ACACACGC
* *
96363 ATACACAC
1 ACACACGC
*
96371 ACACACAC
1 ACACACGC
*
96379 ACACACAC
1 ACACACGC
*
96387 ACACACAC
1 ACACACGC
96395 ACACACGC
1 ACACACGC
96403 ACACA--C
1 ACACACGC
96409 ACACACGC
1 ACACACGC
*
96417 ACACACAC
1 ACACACGC
*
96425 ACACACAC
1 ACACACGC
* *
96433 ACGCACAC
1 ACACACGC
96441 ACACACGCAC
1 ACACACG--C
96451 ACACACGCAC
1 ACACACG--C
96461 ACACACGC
1 ACACACGC
* *
96469 ATACACAC
1 ACACACGC
96477 ACACACGC
1 ACACACGC
96485 ACACACGC
1 ACACACGC
** *
96493 ACATGCAC
1 ACACACGC
*
96501 ACACGCGC
1 ACACACGC
96509 ACACACGC
1 ACACACGC
** *
96517 ACATGCAC
1 ACACACGC
*
96525 ACACGCGC
1 ACACACGC
96533 ACACACGAGC
1 ACACAC--GC
*
96543 ACATACGCGC
1 AC--ACACGC
96553 ACACACGCGC
1 ACACA--CGC
96563 ACACACGCGC
1 ACACA--CGC
96573 ACACACGC
1 ACACACGC
*
96581 GCACA--C
1 ACACACGC
* *
96587 ACACGCAC
1 ACACACGC
*
96595 ACACGCGC
1 ACACACGC
96603 ACGCACACGC
1 A--CACACGC
*
96613 ACGCACGC
1 ACACACGC
96621 ACACGCACGC
1 ACA--CACGC
96631 ACACGCACGTAC
1 ACA--CACG--C
96643 ACACACGC
1 ACACACGC
*
96651 ACACACAC
1 ACACACGC
* *
96659 GCACACAC
1 ACACACGC
* *
96667 ACGCACAC
1 ACACACGC
* *
96675 ACACGCAC
1 ACACACGC
96683 ACACACGC
1 ACACACGC
*
96691 ACACACAC
1 ACACACGC
*
96699 ACACGCGC
1 ACACACGC
96707 ACACACG-
1 ACACACGC
* *
96714 -CGCGCGC
1 ACACACGC
*
96721 ACACACAC
1 ACACACGC
*
96729 ACACACAC
1 ACACACGC
*
96737 ACACACAC
1 ACACACGC
*
96745 ACACACAC
1 ACACACGC
*
96753 ACACACAC
1 ACACACGC
*
96761 ACACACAC
1 ACACACGC
*
96769 ACACACAC
1 ACACACGC
*
96777 ACACACAC
1 ACACACGC
*
96785 ACACACAC
1 ACACACGC
*
96793 ACACACAC
1 ACACACGC
96801 ACACAC
1 ACACAC
96807 ACATACATAC
Statistics
Matches: 533, Mismatches: 71, Indels: 52
0.81 0.11 0.08
Matches are distributed among these distances:
6 19 0.04
8 431 0.81
10 70 0.13
12 13 0.02
ACGTcount: A:0.38, C:0.48, G:0.13, T:0.01
Consensus pattern (8 bp):
ACACACGC
Found at i:96809 original size:10 final size:10
Alignment explanation
Indices: 96300--96809 Score: 498
Period size: 10 Copynumber: 50.8 Consensus size: 10
96290 CGCACGCACG
*
96300 CACACACACG
1 CACACACACA
*
96310 CACGCACACA
1 CACACACACA
*
96320 CACACGCACA
1 CACACACACA
*
96330 CACACACGCA
1 CACACACACA
*
96340 CACGCACACA
1 CACACACACA
96350 CACACACACA
1 CACACACACA
*
96360 CACATACACA
1 CACACACACA
96370 CACACACACA
1 CACACACACA
96380 CACACACACA
1 CACACACACA
96390 CACACACACA
1 CACACACACA
*
96400 CGCACACACA
1 CACACACACA
*
96410 CACACGCACA
1 CACACACACA
96420 CACACACACA
1 CACACACACA
*
96430 CACACGCACA
1 CACACACACA
*
96440 CACACACGCA
1 CACACACACA
*
96450 CACACACGCA
1 CACACACACA
*
96460 CACACACGCA
1 CACACACACA
*
96470 TACACACACA
1 CACACACACA
*
96480 CACGCACACA
1 CACACACACA
* **
96490 CGCACATGCA
1 CACACACACA
* *
96500 CACACGCGCA
1 CACACACACA
*
96510 CACACGCACA
1 CACACACACA
** *
96520 TGCACACACG
1 CACACACACA
*
96530 CGCACACACGA
1 CACACACAC-A
* * *
96541 GCACATACGCG
1 -CACACACACA
* *
96552 CACACACGCG
1 CACACACACA
* *
96562 CACACACGCG
1 CACACACACA
* *
96572 CACACACGCG
1 CACACACACA
*
96582 CACACACACG
1 CACACACACA
* *
96592 CACACACGCG
1 CACACACACA
* *
96602 CACGCACACG
1 CACACACACA
* *
96612 CACGCACGCA
1 CACACACACA
* *
96622 CACGCACGCA
1 CACACACACA
* **
96632 CACGCACGTA
1 CACACACACA
*
96642 CACACACGCA
1 CACACACACA
*
96652 CACACACGCA
1 CACACACACA
*
96662 CACACACGCA
1 CACACACACA
*
96672 CACACACGCA
1 CACACACACA
*
96682 CACACACGCA
1 CACACACACA
96692 CACACACACA
1 CACACACACA
* *
96702 CGCGCACACA
1 CACACACACA
* * * *
96712 CGCGCGCGCA
1 CACACACACA
96722 CACACACACA
1 CACACACACA
96732 CACACACACA
1 CACACACACA
96742 CACACACACA
1 CACACACACA
96752 CACACACACA
1 CACACACACA
96762 CACACACACA
1 CACACACACA
96772 CACACACACA
1 CACACACACA
96782 CACACACACA
1 CACACACACA
96792 CACACACACA
1 CACACACACA
96802 CACACACA
1 CACACACA
96810 TACATACATA
Statistics
Matches: 439, Mismatches: 59, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
10 433 0.99
12 6 0.01
ACGTcount: A:0.40, C:0.49, G:0.10, T:0.01
Consensus pattern (10 bp):
CACACACACA
Found at i:106681 original size:90 final size:88
Alignment explanation
Indices: 106525--106696 Score: 290
Period size: 90 Copynumber: 1.9 Consensus size: 88
106515 ACACACCCTT
106525 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
*
106590 ATTAATTAGAATTTAATAATCCTC
66 ATTAATTA-AATTAAATAATCCTC
* * *
106614 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTGTTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATATATTT
106679 AATTAATTAAATTAAATA
65 AATTAATTAAATTAAATA
106697 TTCGGGATTA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
89 38 0.49
90 40 0.51
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.44
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
ATTAATTAAATTAAATAATCCTC
Found at i:113551 original size:90 final size:88
Alignment explanation
Indices: 113399--113568 Score: 295
Period size: 90 Copynumber: 1.9 Consensus size: 88
113389 ACACACCCTT
113399 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
*
113464 ATTAATTAGAATTTAATAATCCTC
66 ATTAATT-GAAATTAATAATCCTC
* *
113488 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTATATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
113553 AATTAATTGAAATTAA
65 AATTAATTGAAATTAA
113569 ATATTCGAGA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
89 37 0.48
90 40 0.52
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (88 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAATAATCCTC
Found at i:115838 original size:16 final size:17
Alignment explanation
Indices: 115819--115852 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
115809 TTTGAAATTC
115819 TATTATTTTC-TTCTTT
1 TATTATTTTCTTTCTTT
115835 TATTATTTTCTTTCTTT
1 TATTATTTTCTTTCTTT
115852 T
1 T
115853 TTTTCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTATTTTCTTTCTTT
Found at i:115853 original size:26 final size:26
Alignment explanation
Indices: 115824--115877 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
115814 AATTCTATTA
115824 TTTTCTTCTTTTATTATTT-TC-TTTCT
1 TTTTCTTCTTTT-TT-TTTGTCTTTTCT
*
115850 TTTTTTTCTTTTTTTTTGTCTTTTCT
1 TTTTCTTCTTTTTTTTTGTCTTTTCT
115876 TT
1 TT
115878 CTTTTTGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 3 0.12
25 4 0.16
26 18 0.72
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.81
Consensus pattern (26 bp):
TTTTCTTCTTTTTTTTTGTCTTTTCT
Found at i:117027 original size:33 final size:33
Alignment explanation
Indices: 116985--117062 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
116975 GCAGCTACTT
116985 GTGAAAAGGTACCTCTTGAGGTGGAAACTATTC
1 GTGAAAAGGTACCTCTTGAGGTGGAAACTATTC
117018 GTGAAAAGGTACCTCTTGAGGTGGAAACTATTC
1 GTGAAAAGGTACCTCTTGAGGTGGAAACTATTC
**
117051 GCAAAAAGGTAC
1 GTGAAAAGGTAC
117063 GATTTCACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (33 bp):
GTGAAAAGGTACCTCTTGAGGTGGAAACTATTC
Found at i:118037 original size:5 final size:5
Alignment explanation
Indices: 118027--118060 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
118017 AATGTTAAAC
118027 AATAA AATAA AATAA AATAA AATAA TAA-AA AATA
1 AATAA AATAA AATAA AATAA AATAA -AATAA AATA
118061 TTAAATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 2 0.07
5 23 0.85
6 2 0.07
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:118047 original size:15 final size:15
Alignment explanation
Indices: 118022--118060 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
118012 AAATTAATGT
*
118022 TAAACAATAAAATAA
1 TAAAAAATAAAATAA
118037 -AATAAAATAAAATAA
1 TAA-AAAATAAAATAA
118052 TAAAAAATA
1 TAAAAAATA
118061 TTAAATTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.10
15 17 0.81
16 2 0.10
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAAAATAAAATAA
Found at i:119255 original size:5 final size:5
Alignment explanation
Indices: 119245--119525 Score: 260
Period size: 5 Copynumber: 55.6 Consensus size: 5
119235 AAACCAAAAA
119245 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA- AT-AT AATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
119294 ATAAT ATAAT ATAAT ATAAT AATATAT ATAAT ATAATAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT -ATA-AT ATAAT AT-A-AT ATAAT ATAAT
* * *
119343 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AGAAT AGAAT ATGAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * * * * * *
119393 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * * * * * * *
119443 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
119493 ATGAT ATGAT ATGAT ATAAT GTAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
119526 TTTATTTATT
Statistics
Matches: 263, Mismatches: 6, Indels: 14
0.93 0.02 0.05
Matches are distributed among these distances:
3 1 0.00
4 2 0.01
5 244 0.93
6 10 0.04
7 6 0.02
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:119547 original size:28 final size:28
Alignment explanation
Indices: 119516--119604 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
119506 ATATAATGTA
119516 ATATAATATATTTAT-TTATTTAAAAACT
1 ATATAATATATTTATATT-TTTAAAAACT
* *
119544 ATATAACATATATTATATTTTTACAAAAAT
1 ATATAATATAT-TTATATTTTTA-AAAACT
119574 -TAT-ATATATTATATATGTTTTTAAAAACT
1 ATATAATATATT-TATA--TTTTTAAAAACT
119603 AT
1 AT
119605 TTTCAAAAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
27 1 0.02
28 19 0.38
29 16 0.32
30 14 0.28
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (28 bp):
ATATAATATATTTATATTTTTAAAAACT
Found at i:119572 original size:31 final size:30
Alignment explanation
Indices: 119521--119579 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
119511 ATGTAATATA
*
119521 ATATATTTATTTATTTAAAAACTATATAAC
1 ATATATTTATTTATTCAAAAACTATATAAC
*
119551 ATATATTATATTT-TTACAAAAATTATATA
1 ATATATT-TATTTATT-CAAAAACTATATA
119580 TATTATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATATTTATTTATTCAAAAACTATATAAC
Found at i:119665 original size:22 final size:21
Alignment explanation
Indices: 119625--119690 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
119615 CATATATGTT
*
119625 ATATGTTTTCAAAACTATATA
1 ATATATTTTCAAAACTATATA
119646 ATATATTTTCAAAA--AT-T-
1 ATATATTTTCAAAACTATATA
*
119663 ATATATTTTCAAAAACCATATA
1 ATATATTTTC-AAAACTATATA
*
119685 TTATAT
1 ATATAT
119691 ACATTTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 10 0.26
18 5 0.13
19 2 0.05
20 2 0.05
21 14 0.37
22 5 0.13
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATATTTTCAAAACTATATA
Found at i:119668 original size:17 final size:17
Alignment explanation
Indices: 119623--119677 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 17
119613 GCCATATATG
*
119623 TTATATGTTTTCAAAACTA
1 TTATATATTTTCAAAA--A
119642 TATAATATATTTTCAAAAA
1 T-T-ATATATTTTCAAAAA
119661 TTATATATTTTCAAAAA
1 TTATATATTTTCAAAAA
119678 CCATATATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 15 0.45
18 1 0.03
19 3 0.09
20 1 0.03
21 13 0.39
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (17 bp):
TTATATATTTTCAAAAA
Found at i:119683 original size:17 final size:17
Alignment explanation
Indices: 119646--119686 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
119636 AAACTATATA
**
119646 ATATATTTTCAAAAATT
1 ATATATTTTCAAAAACC
119663 ATATATTTTCAAAAACC
1 ATATATTTTCAAAAACC
119680 ATATATT
1 ATATATT
119687 ATATACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATATTTTCAAAAACC
Found at i:120107 original size:76 final size:76
Alignment explanation
Indices: 119972--120146 Score: 192
Period size: 76 Copynumber: 2.3 Consensus size: 76
119962 ATACTCTGGC
* ** * * *
119972 TATAGTCACGCACTCAGACGATCCAGGTCATTAACGCATCAAATATGACATACACATTCAATAAT
1 TATAGTCACGCATTCAGACGATCCAGAACAATAACACATCAAACATGACATACACATTCAATAAT
120037 TGTATACATAT
66 TGTATACATAT
* * * * **
120048 TATAGTCATGCATTCAGACGATCCAGAACAATAACACATCAAACAT-ATCGTGCATATTCAATCG
1 TATAGTCACGCATTCAGACGATCCAGAACAATAACACATCAAACATGA-CATACACATTCAATAA
120112 TTGTATACATAT
65 TTGTATACATAT
**
120124 TGA-AGTCACATATTCAGACGATC
1 T-ATAGTCACGCATTCAGACGATC
120147 AAAGATAGTA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
75 1 0.01
76 80 0.98
77 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (76 bp):
TATAGTCACGCATTCAGACGATCCAGAACAATAACACATCAAACATGACATACACATTCAATAAT
TGTATACATAT
Found at i:124201 original size:5 final size:6
Alignment explanation
Indices: 124186--124220 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
124176 TGAAAGCAAA
124186 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
124221 CTAAAAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:124207 original size:11 final size:11
Alignment explanation
Indices: 124178--124220 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
124168 GGAGGTAGTG
*
124178 AAAGCAAAA-A
1 AAAGAAAAAGA
124188 AAAGAAAAAGAA
1 AAAGAAAAAG-A
124200 AAAGAAAAAGA
1 AAAGAAAAAGA
124211 AAAGAAAAAG
1 AAAGAAAAAG
124221 CTAAAAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 8 0.27
11 11 0.37
12 11 0.37
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:124228 original size:18 final size:17
Alignment explanation
Indices: 124186--124220 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
124176 TGAAAGCAAA
124186 AAAAAGAAAAAGAAAAAG
1 AAAAAG-AAAAGAAAAAG
124204 AAAAAGAAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
124221 CTAAAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAG
Found at i:139604 original size:26 final size:24
Alignment explanation
Indices: 139575--139623 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
139565 TTTATAAAAT
*
139575 ATTTCTCTTTTATTTTTCAAGTTTTC
1 ATTTCTCTTTT-CTTTT-AAGTTTTC
*
139601 ATTTTTCTTTTCTTTTAAGTTTT
1 ATTTCTCTTTTCTTTTAAGTTTT
139624 GTTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.69
Consensus pattern (24 bp):
ATTTCTCTTTTCTTTTAAGTTTTC
Found at i:168679 original size:15 final size:15
Alignment explanation
Indices: 168661--168867 Score: 93
Period size: 15 Copynumber: 13.9 Consensus size: 15
168651 AGAATGATAG
168661 AAAAGAATAAGAAA-A
1 AAAAGAA-AAGAAAGA
* *
168676 AAAA-TAAAGAAATA
1 AAAAGAAAAGAAAGA
168690 AAGAA-AAAATG-AA-A
1 AA-AAGAAAA-GAAAGA
*
168704 AAATGAAAAAGAAAGA
1 AAAAGA-AAAGAAAGA
168720 AAAAGAAAAGAAAGA
1 AAAAGAAAAGAAAGA
168735 AAAAGAAAAGAAA-A
1 AAAAGAAAAGAAAGA
168749 GAAAAGAAAAGAATAAGGA
1 -AAAAGAAAAG-A-AA-GA
* *
168768 TAAAG-AAAGAAATA
1 AAAAGAAAAGAAAGA
168782 AAGAA-AAAATGAAA-A
1 AA-AAGAAAA-GAAAGA
* *
168797 AGAGAGAAAA-AACATA
1 A-AAAGAAAAGAA-AGA
*
168813 AAAAG-AAA-AATGA
1 AAAAGAAAAGAAAGA
*
168826 AGAAAGAAAA-AAATA
1 A-AAAGAAAAGAAAGA
*
168841 AAAA-TAAA-AAAGA
1 AAAAGAAAAGAAAGA
168854 AAAAGAAAAAGAAA
1 AAAAG-AAAAGAAA
168868 AGAAGGAGAA
Statistics
Matches: 152, Mismatches: 16, Indels: 47
0.71 0.07 0.22
Matches are distributed among these distances:
13 20 0.13
14 26 0.17
15 72 0.47
16 23 0.15
17 6 0.04
18 4 0.03
19 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAGAAAGA
Found at i:168730 original size:5 final size:5
Alignment explanation
Indices: 168710--168779 Score: 74
Period size: 5 Copynumber: 13.6 Consensus size: 5
168700 GAAAAAATGA
168710 AAAAG -AAAG AAAAAG AAAAG -AAAG AAAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG
168760 AATAAGG ATAAAG -AAAG AAA
1 AA-AA-G A-AAAG AAAAG AAA
168780 TAAAGAAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
4 12 0.21
5 29 0.51
6 11 0.19
7 4 0.07
8 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:168750 original size:84 final size:85
Alignment explanation
Indices: 168659--168868 Score: 218
Period size: 84 Copynumber: 2.4 Consensus size: 85
168649 GGAGAATGAT
*
168659 AGAAAAGAATAAGAAAAAAAATAAAGAAATAAAGAAAAAATGAAAAAATGAAAAAGAAAGAAAAA
1 AGAAAAGAATAAGAAAAAAAATAAA-AAAAAAAGAAAAAA-GAAAAAATGAAAAAGAAAGAAAAA
168724 GA-A-AAGAAAGAAAAA-G-A-AA
64 -ACATAA-AAAGAAAAATGAAGAA
* * *
168743 AGAAAAGAA-AAG-AAAAGAATAAGGATAAAGAAAGAAATAAAGAAAAAATGAAAAAGAGAGAAA
1 AGAAAAGAATAAGAAAAAAAATAA--A-AAAAAAAGAAA-AAAGAAAAAATGAAAAAGAAAGAAA
168806 AAACATAAAAAGAAAAATGAAGAA
62 AAACATAAAAAGAAAAATGAAGAA
* * *
168830 AGAAAAAAATAAAAATAAAAAAGAAAAAGAAAAAGAAAA
1 AGAAAAGAATAAGAA-AAAAAATAAAAA-AAAAAGAAAA
168869 GAAGGAGAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
82 9 0.09
83 4 0.04
84 53 0.50
85 6 0.06
86 1 0.01
87 13 0.12
88 11 0.10
89 1 0.01
90 7 0.07
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (85 bp):
AGAAAAGAATAAGAAAAAAAATAAAAAAAAAAGAAAAAAGAAAAAATGAAAAAGAAAGAAAAAAC
ATAAAAAGAAAAATGAAGAA
Found at i:168795 original size:8 final size:7
Alignment explanation
Indices: 168669--168868 Score: 110
Period size: 7 Copynumber: 27.0 Consensus size: 7
168659 AGAAAAGAAT
168669 AAGAAAA
1 AAGAAAA
*
168676 AA-AATA
1 AAGAAAA
168682 AAGAAATA
1 AAGAAA-A
168690 AAGAAAA
1 AAGAAAA
168697 AATGAAAA
1 AA-GAAAA
168705 AATG-AAA
1 AA-GAAAA
168712 AAGAAAGA
1 AAGAAA-A
168720 AA-AAGAA
1 AAGAA-AA
168727 AAGAAAGA
1 AAGAAA-A
168735 AA-AAGAA
1 AAGAA-AA
168742 AAGAAAA
1 AAGAAAA
168749 GAA-AAGAA
1 -AAGAA-AA
168757 AAGAATAA
1 AAGAA-AA
* *
168765 GGATAAAGA
1 -AAGAAA-A
168774 AAGAAATA
1 AAGAAA-A
168782 AAGAAAA
1 AAGAAAA
168789 AATGAAAAA
1 AA-G-AAAA
168798 GAGAGAAAA
1 -A-AGAAAA
*
168807 AACATAAA
1 AAGA-AAA
168815 AAGAAAA
1 AAGAAAA
* *
168822 ATGAAGA
1 AAGAAAA
168829 AAGAAAA
1 AAGAAAA
168836 AA-ATAAA
1 AAGA-AAA
*
168843 AATAAAA
1 AAGAAAA
168850 AAG-AAA
1 AAGAAAA
168856 AAG-AAA
1 AAGAAAA
168862 AAGAAAA
1 AAGAAAA
168869 GAAGGAGAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 46
0.72 0.07 0.21
Matches are distributed among these distances:
6 19 0.12
7 64 0.41
8 57 0.37
9 12 0.08
10 2 0.01
11 1 0.01
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (7 bp):
AAGAAAA
Found at i:168836 original size:28 final size:27
Alignment explanation
Indices: 168669--168863 Score: 123
Period size: 30 Copynumber: 6.8 Consensus size: 27
168659 AGAAAAGAAT
168669 AAGAAAAAA-AATAAAGAAATAAAGA-AAA
1 AAGAAAAAAGAA-AAAGAAA-AAA-ATAAA
168697 AATGAAAAAATGAAAAAGAAAGAAAA-AGAA
1 AA-GAAAAAA-GAAAAAGAAA-AAAATA-AA
*
168727 AAGAAAGAAAAAGAAAAGAAAAGAAA-AGAA
1 AAGAAA-AAAGA-AAAAGAAAA-AAATA-AA
* * * *
168757 AAGAATAAGGATAAAGAAAGAAAT--A
1 AAGAAAAAAGAAAAAGAAAAAAATAAA
168782 AAGAAAAAATGAAAAAGAGAGAAAAAACATAAA
1 AAGAAAAAA-G--AAA-A-AGAAAAAA-ATAAA
*
168815 AAGAAAAATGAAGAAAGAAAAAAATAAA
1 AAGAAAAAAGAA-AAAGAAAAAAATAAA
*
168843 AATAAAAAAGAAAAAGAAAAA
1 AAGAAAAAAGAAAAAGAAAAA
168864 GAAAAGAAGG
Statistics
Matches: 136, Mismatches: 14, Indels: 35
0.74 0.08 0.19
Matches are distributed among these distances:
25 8 0.06
26 1 0.01
27 12 0.09
28 26 0.19
29 27 0.20
30 47 0.35
31 5 0.04
32 1 0.01
33 9 0.07
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (27 bp):
AAGAAAAAAGAAAAAGAAAAAAATAAA
Found at i:168849 original size:13 final size:13
Alignment explanation
Indices: 168661--168868 Score: 105
Period size: 13 Copynumber: 15.7 Consensus size: 13
168651 AGAATGATAG
*
168661 AAAAGAATAAGAA
1 AAAAGAAAAAGAA
168674 AAAA-AATAAAGAA
1 AAAAGAA-AAAGAA
168687 ATAAAGAAAAAATGAA
1 A-AAAG-AAAAA-GAA
168703 AAAATGAAAAAG--
1 AAAA-GAAAAAGAA
168715 -AAAGAAAAAGAAA
1 AAAAGAAAAAG-AA
168728 AGAAAGAAAAAGAA
1 A-AAAGAAAAAGAA
*
168742 AAGAA-AAGAAA-AG
1 AA-AAGAA-AAAGAA
* *
168755 AAAAGAATAAGGA
1 AAAAGAAAAAGAA
*
168768 TAAAG--AAAGAA
1 AAAAGAAAAAGAA
168779 ATAAAGAAAAA-ATGA
1 A-AAAGAAAAAGA--A
*
168794 AAAAGAGAGAA-AA
1 AAAAGA-AAAAGAA
* *
168807 AACATAAAAAGAA
1 AAAAGAAAAAGAA
*
168820 AAATGAAGAAAGAAA
1 AAAAGAA-AAAG-AA
* *
168835 AAAATAAAAATAA
1 AAAAGAAAAAGAA
168848 AAAAGAAAAAG-A
1 AAAAGAAAAAGAA
168860 AAAAGAAAA
1 AAAAGAAAA
168869 GAAGGAGAAA
Statistics
Matches: 150, Mismatches: 21, Indels: 49
0.68 0.10 0.22
Matches are distributed among these distances:
10 7 0.05
11 7 0.05
12 23 0.15
13 45 0.30
14 27 0.18
15 34 0.23
16 7 0.05
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:168865 original size:92 final size:92
Alignment explanation
Indices: 168661--168867 Score: 228
Period size: 92 Copynumber: 2.2 Consensus size: 92
168651 AGAATGATAG
* *
168661 AAAAGAATAAGAAAAAAAATAAAGAAATAAAGAAAAAATGAAAAAATGAAAAAGAAAGAAAAAGA
1 AAAAGAAT-A-AAGAAAAAGAAAGAAATAAAGAAAAAATGAAAAAATGAAAAAGAAAGAAAAAGA
* *
168726 AAAGAAAGAAAAAGAAAAGAAAAGAAAAG
64 AAAGAAAGAAAAAGAAAAGAAAAAAAAAA
* * *
168755 AAAAGAATAAGGATAAAGAAAGAAATAAAGAAAAAATGAAAAAGA-GAGAAAA-AACATAAAAAG
1 AAAAGAATAAAGAAAAAGAAAGAAATAAAGAAAAAATGAAAAA-ATGA-AAAAGAA-AGAAAAAG
*
168818 -AAA-AATGAAGAAAGAAAA-AAATAAAAATAA
63 AAAAGAAAGAA-AAAGAAAAGAAA-AAAAA-AA
168848 AAAAGAA-AAAGAAAAAGAAA
1 AAAAGAATAAAGAAAAAGAAA
168868 AGAAGGAGAA
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
91 8 0.08
92 60 0.62
93 21 0.22
94 8 0.08
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (92 bp):
AAAAGAATAAAGAAAAAGAAAGAAATAAAGAAAAAATGAAAAAATGAAAAAGAAAGAAAAAGAAA
AGAAAGAAAAAGAAAAGAAAAAAAAAA
Found at i:168871 original size:5 final size:6
Alignment explanation
Indices: 168661--168868 Score: 102
Period size: 6 Copynumber: 34.5 Consensus size: 6
168651 AGAATGATAG
* *
168661 AAAAGA ATAAGA AAAAAA ATAAAGAA ATAAAGAA AAAATGAA AAAATGA
1 AAAAGA AAAAGA AAAAGA A-AAAG-A A-AAAG-A AAAA-G-A AAAA-GA
168710 AAAAG- -AAAGA AAAAG- AAAAG- -AAAGA AAAAG- AAAAG- AAAAG-
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * *
168750 AAAAG- AAAAGA ATAAGGA TAAAGA AAGAA-A TAAAGAA AAAATGA AAAAGA
1 AAAAGA AAAAGA A-AAAGA AAAAGA AA-AAGA AAAAG-A AAAA-GA AAAAGA
* * * *
168800 GAGAAA-A AACATA AAAAGA AAAATGA AGAAAGA AAAA-A ATAA-A AATA-A
1 -A-AAAGA AAAAGA AAAAGA AAAA-GA A-AAAGA AAAAGA AAAAGA AAAAGA
168848 AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAA
168869 GAAGGAGAAA
Statistics
Matches: 166, Mismatches: 17, Indels: 38
0.75 0.08 0.17
Matches are distributed among these distances:
4 8 0.05
5 40 0.24
6 58 0.35
7 34 0.20
8 26 0.16
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (6 bp):
AAAAGA
Found at i:168881 original size:25 final size:24
Alignment explanation
Indices: 168661--168882 Score: 122
Period size: 25 Copynumber: 8.9 Consensus size: 24
168651 AGAATGATAG
168661 AAAAGAATAAGAAAA-AAAATAAAGA
1 AAAAGAA-AAGAAAAGAAAA-AAAGA
* *
168686 AATAA-AGAAA-AAATGAAAAAATGA
1 AA-AAGA-AAAGAAAAGAAAAAAAGA
168710 AAAAG-AAAGAAAAAGAAAAGAAAGA
1 AAAAGAAAAG-AAAAGAAAA-AAAGA
168735 AAAAGAAAAGAAAAGAAAAGAAAAGA
1 AAAAGAAAAGAAAAG-AAA-AAAAGA
* *
168761 ATAAGGATAAAG-AAAGAAATAAAGAA
1 A-AAAGA-AAAGAAAAGAAAAAAAG-A
* *
168787 AAAATGAAAA-AGAGAGAAAAAACATA
1 AAAA-GAAAAGA-AAAGAAAAAA-AGA
*
168813 AAAAGAAAA-ATGAAGAAAGAAAA-A
1 AAAAGAAAAGA-AAAGAAA-AAAAGA
* *
168837 AATA-AAAATAAAA-AAGAAAAAGA
1 AAAAGAAAAGAAAAGAA-AAAAAGA
*
168860 AAAAGAAAAGAAGGAGAAAAAAA
1 AAAAGAAAAGAA-AAGAAAAAAA
168883 ATTAAAAGGA
Statistics
Matches: 155, Mismatches: 18, Indels: 48
0.70 0.08 0.22
Matches are distributed among these distances:
22 9 0.06
23 13 0.08
24 28 0.18
25 50 0.32
26 41 0.26
27 10 0.06
28 4 0.03
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.06
Consensus pattern (24 bp):
AAAAGAAAAGAAAAGAAAAAAAGA
Found at i:171004 original size:66 final size:66
Alignment explanation
Indices: 170893--171067 Score: 162
Period size: 66 Copynumber: 2.6 Consensus size: 66
170883 TTTATCTCAC
* *
170893 TTGAGATTGTTTTTCACGAAATAAATTTTGTCTCACTTGAGACAATCTT-CCTTAAAACATAAAC
1 TTGAGATTGTTTTTCACGAAATAAATTTTATCTCACTTGAGACAATCTTCCCTTAAAACA-AAAA
170957 AT
65 AT
* * * * *
170959 TTGAGATTGTTTTTCTC-AAA-ACCATTTTCATCTCACTTGATACAATTTTCCCTTTAAACAAAA
1 TTGAGATTGTTTTTCACGAAATA-AATTTT-ATCTCACTTGAGACAATCTTCCCTTAAAACAAAA
171022 AAT
64 AAT
* * * *
171025 TTAAAATT-TGTTTCACTTGAAACCAAA-TTTATCTCACTTGAGA
1 TTGAGATTGTTTTTCAC--GAAA-TAAATTTTATCTCACTTGAGA
171068 TTGTTTTTCT
Statistics
Matches: 88, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
64 1 0.01
65 14 0.16
66 44 0.50
67 21 0.24
68 6 0.07
69 1 0.01
70 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (66 bp):
TTGAGATTGTTTTTCACGAAATAAATTTTATCTCACTTGAGACAATCTTCCCTTAAAACAAAAAA
T
Found at i:171073 original size:103 final size:101
Alignment explanation
Indices: 170959--171174 Score: 256
Period size: 103 Copynumber: 2.1 Consensus size: 101
170949 ACATAAACAT
** * *
170959 TTGAGATTGTTTTTCTCAAAA-CCATTTTCATC-TCACTTGATACAATTTTCCCTTTAAACAAAA
1 TTGAGATTGTTTTTCTCAAAATAAATTTT-ATCATCA-TTGAGACAATTTTCCCTTGAAACAAAA
*
171022 AATTTAAAATTTGTTTCACTTGAAACCAAATTTATCTCAC
64 AATTTAAAA-TTG-TTCACTCGAAACCAAATTTATCTCAC
* * * * * *
171062 TTGAGATTGTTTTTCTTAAAATAAATTTTGTCATGATTGAGATAATTTTCCCTTGGAACATAAAA
1 TTGAGATTGTTTTTCTCAAAATAAATTTTATCATCATTGAGACAATTTTCCCTTGAAACAAAAAA
*
171127 TTTGAAATTGTTCACTCGAAACCAAATTTATCTCAC
66 TTTAAAATTGTTCACTCGAAACCAAATTTATCTCAC
* *
171163 CTGAGATAGTTT
1 TTGAGATTGTTT
171175 CTCTTGAAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 35 0.36
102 3 0.03
103 52 0.54
104 7 0.07
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (101 bp):
TTGAGATTGTTTTTCTCAAAATAAATTTTATCATCATTGAGACAATTTTCCCTTGAAACAAAAAA
TTTAAAATTGTTCACTCGAAACCAAATTTATCTCAC
Found at i:171189 original size:101 final size:103
Alignment explanation
Indices: 171002--171190 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 103
170992 CACTTGATAC
* * *
171002 AATTTTCCCTTTAAACAAAAAATTTAAAATTTGTTTCACTTGAAACCAAATTTATCTCACTTGAG
1 AATTTTCCCTTGAAACAAAAAATTTAAAATTTGTTTCACTCGAAACCAAATTTATCTCACCTGAG
* * *
171067 ATTGTTTTTCTTAAAATAAATTTTGTCATGATTGAGAT
66 ATAGTTTCTCTTAAAACAAATTTTGTCATGATTGAGAT
* * *
171105 AATTTTCCCTTGGAACATAAAATTTGAAA-TTG-TTCACTCGAAACCAAATTTATCTCACCTGAG
1 AATTTTCCCTTGAAACAAAAAATTTAAAATTTGTTTCACTCGAAACCAAATTTATCTCACCTGAG
*
171168 ATAGTTTCTCTTGAAACAAATTT
66 ATAGTTTCTCTTAAAACAAATTT
171191 CTTATTCATT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
101 48 0.63
102 3 0.04
103 25 0.33
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (103 bp):
AATTTTCCCTTGAAACAAAAAATTTAAAATTTGTTTCACTCGAAACCAAATTTATCTCACCTGAG
ATAGTTTCTCTTAAAACAAATTTTGTCATGATTGAGAT
Found at i:171633 original size:45 final size:44
Alignment explanation
Indices: 171519--171641 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 44
171509 TTGTTCGCCT
* ** * *
171519 TTTTGTTCGATTCTATCACAGAATAAGGTAGATCAGTATCAACA
1 TTTTGATCGATTCTATCACAGAAGGAGGTGGATCAATATCAACA
* ** * * * * *
171563 TTTTGTTTAATTCCATTACAAAAGGAGGTGGATCAATATTATCA
1 TTTTGATCGATTCTATCACAGAAGGAGGTGGATCAATATCAACA
171607 TTCTTGATCGATTCTATCACAGAAGGAGGTGGATC
1 TT-TTGATCGATTCTATCACAGAAGGAGGTGGATC
171642 GTCATTTCCA
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
44 35 0.57
45 26 0.43
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (44 bp):
TTTTGATCGATTCTATCACAGAAGGAGGTGGATCAATATCAACA
Found at i:171801 original size:208 final size:208
Alignment explanation
Indices: 171414--171803 Score: 575
Period size: 208 Copynumber: 1.9 Consensus size: 208
171404 ATTCAAATCC
* *
171414 ATCACAGAAGGAGGTGGATCAATATTTCCAATGGAAGGGTTCATAATGAGAAGAAATCATCCGAA
1 ATCACAGAAGGAGGTGGATCAATATTTCCAATGAAAGGGTTCATAATGAGAAGAAATAATCCGAA
* * * * *
171479 GAGGAAGAAGAAGTTCATAATGAGAATAACTTGTTCGCCTTTTTGTTCGATTCTATCACAGAATA
66 GAGGAAGAAGAAGTTCATAATGAGAATAACATGTTCACCCTTTTGCTCGATTCTATAACAGAATA
* * * *
171544 AGGTAGATCAGTATCAACATTTTGTTTAATTCCATTACAAAAGGAGGTGGATCAATATTATCATT
131 AGATAGATCAGCATCAACATTTTGTTCAATTCCATCACAAAAGGAGGTGGATCAATATTATCATT
171609 CTTGATCGATTCT
196 CTTGATCGATTCT
* * * * *
171622 ATCACAGAAGGAGGTGGATC-GTCATTTCCAATGAAATGGTTCATAATGAGAATAACTAATCTGA
1 ATCACAGAAGGAGGTGGATCAAT-ATTTCCAATGAAAGGGTTCATAATGAGAAGAAATAATCCGA
*
171686 AGAGGGAGAAGAAGTTCATAATGAGAATAACATGTTCACCCTTTTGCTCGATTCTATAACAGAAT
65 AGAGGAAGAAGAAGTTCATAATGAGAATAACATGTTCACCCTTTTGCTCGATTCTATAACAGAAT
* * * *
171751 GAGATAGATCAGCATCAACATTTTGTTCAATTCCATCATAGAATGAGGTGGAT
130 AAGATAGATCAGCATCAACATTTTGTTCAATTCCATCACAAAAGGAGGTGGAT
171804 TAACATTTCC
Statistics
Matches: 160, Mismatches: 21, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
207 1 0.01
208 159 0.99
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (208 bp):
ATCACAGAAGGAGGTGGATCAATATTTCCAATGAAAGGGTTCATAATGAGAAGAAATAATCCGAA
GAGGAAGAAGAAGTTCATAATGAGAATAACATGTTCACCCTTTTGCTCGATTCTATAACAGAATA
AGATAGATCAGCATCAACATTTTGTTCAATTCCATCACAAAAGGAGGTGGATCAATATTATCATT
CTTGATCGATTCT
Found at i:171816 original size:163 final size:162
Alignment explanation
Indices: 171605--172283 Score: 660
Period size: 163 Copynumber: 4.1 Consensus size: 162
171595 TCAATATTAT
* * ** *
171605 CATTCTTGATCGATTCTATCACAGAAGGAGGTGGATCGTCATTTCCAATGAAATGGTTCATAATG
1 CATT-TTGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTCCAATG-AAGGGTTCATAATG
* ** * * * *
171670 AGAATAACTAATCTGAAGAGGGAGAAGAAGTTCATAATGAGAATAACATGTTCACCCTTTTGCTC
64 AGAAGAACTAATCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
* * *
171735 GATTCTATAACAGAATGAGATAGATCAGCATCAA
129 GACTCTATCACAGAAGGAGATAGATCAGCATCAA
* * * * *
171769 CATTTTGTTCAATTCCATCATAGAATGAGGTGGATTAACATTTCCAATGGAGGGGTTCATAATGA
1 CATTTTGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTCCAAT-GAAGGGTTCATAATGA
* * *
171834 GAAGAACTCATCCAAAGAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGATCG
65 GAAGAACTAATCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
* * **
171899 ACTCTATCGCATAAAAAGATAGATCAGCATCAA
130 ACTCTATCACAGAAGGAGATAGATCAGCATCAA
* * * * * * ** *
171932 CATTTTCTTTGATTCCATCACACAATGAGGTGGATCAATATTGT-CATTCTTGCAAGACTTCATC
1 CATTTTGTTCGATTCCATCACAGAAGGAGGTGGATCAACATT-TCCA---ATG-AAGGGTTCATA
* ** * * *
171996 A-CAGAAGGAGGTGGATCAGCATAATCGAAGGAATAAAAAGTTCATAATGAGAAGAACTTGTTCA
61 ATGAGAA-GAACT-AATC--CA-AA--GAAGG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * *** *
172060 ACCATTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAATGTCTA
118 ACC--TTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCATCAA
* * * *
172107 CATTTTGTTCGATTCCATCACATAAGGAGGTGAATCAAAATTTCCAATTGAGGGGTTCATAATGA
1 CATTTTGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTCCAA-TGAAGGGTTCATAATGA
*
172172 GAAGAACTCATCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
65 GAAGAACTAATCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCG
* *
172237 ACTCTATCGCAGAAGGAGATAGATCAGTATCAA
130 ACTCTATCACAGAAGGAGATAGATCAGCATCAA
* *
172270 TATTTTGTTTGATT
1 CATTTTGTTCGATT
172284 TCATTATAAA
Statistics
Matches: 415, Mismatches: 81, Indels: 39
0.78 0.15 0.07
Matches are distributed among these distances:
163 216 0.52
164 6 0.01
165 38 0.09
166 17 0.04
167 3 0.01
168 2 0.00
169 4 0.01
170 2 0.00
171 3 0.01
172 16 0.04
173 38 0.09
174 1 0.00
175 69 0.17
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (162 bp):
CATTTTGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTCCAATGAAGGGTTCATAATGAG
AAGAACTAATCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGA
CTCTATCACAGAAGGAGATAGATCAGCATCAA
Found at i:172385 original size:338 final size:336
Alignment explanation
Indices: 171705--172335 Score: 760
Period size: 338 Copynumber: 1.9 Consensus size: 336
171695 AGAAGTTCAT
* * * * *
171705 AATGAGAATAACATGTTC-ACCCTTTTGCTCGATTCTATAACAGAATGAGATAGATCAGCATCAA
1 AATGAGAAGAAC-TGTTCAACCATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAACATCAA
* * * * *
171769 CATTTTGTTCAATTCCATCATAGAATGAGGTGGATTAACATTTCCAATGGAGGGGTTCATAATGA
65 CATTTTGTTCAATTCCATCACAGAAGGAGGTGAATCAAAATTTCCAATGGAGGGGTTCATAATGA
171834 GAAGAACTCATCCAAAGAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGATCG
130 GAAGAACTCATCCAAAGAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGATCG
* * *
171899 ACTCTATCGCATAAAAAGATAGATCAGCATCAACATTTTCTTTGATTCCATCACACAATGAGGTG
195 ACTCTATCGCAGAAAAAGATAGATCAGCATCAACATTTTCTTTGATTCCATCACAAAAGGAGGTG
* ** ** ** * * * ** * *
171964 GATCAATATTGTCATTCTTGCAAGACTTCATCACAGAAGGAGGTGGATCAGCATAATCGAAGGAA
260 GATCAACATAATCAAACAAGAAAAACTTCATAACAGAAGGAACTGGATCACCATAATCGAACGAA
* *
172029 TAAAAAGTTCAT
325 TAAAAAGTACAA
* ** *
172041 AATGAGAAGAACTTGTTCAACCATTTTTGCTCGATTCTATCACAGAAGGAGGTAGATCAATGTCT
1 AATGAGAAGAAC-TGTTCAACCA-TTTTGCTCGATTCTATCACAGAATGAGGTAGATCAACATCA
* * *
172106 ACATTTTGTTCGATTCCATCACATAAGGAGGTGAATCAAAATTTCCAATTGAGGGGTTCATAATG
64 ACATTTTGTTCAATTCCATCACAGAAGGAGGTGAATCAAAATTTCCAATGGAGGGGTTCATAATG
* *
172171 AGAAGAACTCATCCAAAGAAGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTC
129 AGAAGAACTCATCCAAAGAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGATC
** * * * * * * *
172236 GACTCTATCGCAGAAGGAGATAGATCAGTATCAATATTTTGTTTGATTTCATTATAAAAGGATGT
194 GACTCTATCGCAGAAAAAGATAGATCAGCATCAACATTTTCTTTGATTCCATCACAAAAGGAGGT
* * * *
172301 GTATCAGCATAATCGAAAGAAGAAAAAGTTCATAA
259 GGATCAACATAATC-AAACAAGAAAAACTTCATAA
172336 TGAGAAGAAC
Statistics
Matches: 246, Mismatches: 46, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
336 16 0.07
337 3 0.01
338 216 0.88
339 11 0.04
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (336 bp):
AATGAGAAGAACTGTTCAACCATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAACATCAAC
ATTTTGTTCAATTCCATCACAGAAGGAGGTGAATCAAAATTTCCAATGGAGGGGTTCATAATGAG
AAGAACTCATCCAAAGAAGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGATCGA
CTCTATCGCAGAAAAAGATAGATCAGCATCAACATTTTCTTTGATTCCATCACAAAAGGAGGTGG
ATCAACATAATCAAACAAGAAAAACTTCATAACAGAAGGAACTGGATCACCATAATCGAACGAAT
AAAAAGTACAA
Found at i:173711 original size:29 final size:29
Alignment explanation
Indices: 173655--173716 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
173645 TAAAATTGGT
* *
173655 CACTGATTTTTATTATGTTTCAAATTAAC
1 CACTGATTTTTATTATCTTGCAAATTAAC
* **
173684 CACTGATTTTTATTTTCTTGCACCTTAAC
1 CACTGATTTTTATTATCTTGCAAATTAAC
173713 CACT
1 CACT
173717 ATTATATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (29 bp):
CACTGATTTTTATTATCTTGCAAATTAAC
Found at i:174124 original size:14 final size:14
Alignment explanation
Indices: 174107--174136 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
174097 ACCCTTCATG
174107 TTTTAGTACTTTAA
1 TTTTAGTACTTTAA
*
174121 TTTTAGTCCTTTAA
1 TTTTAGTACTTTAA
174135 TT
1 TT
174137 ATTGCGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTAGTACTTTAA
Found at i:175167 original size:18 final size:19
Alignment explanation
Indices: 175144--175182 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
175134 TTTAAATAGT
*
175144 AATAAAAACTATTAAA-TA
1 AATAAAAACAATTAAAGTA
*
175162 AATAAAAGCAATTAAAGTA
1 AATAAAAACAATTAAAGTA
175181 AA
1 AA
175183 AATAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (19 bp):
AATAAAAACAATTAAAGTA
Found at i:176962 original size:20 final size:19
Alignment explanation
Indices: 176915--176963 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
176905 TTCTCTCTTT
176915 TTTTTCTTTTTCGAACATTA
1 TTTTT-TTTTTCGAACATTA
* *
176935 TCTCTTTTTTTCGAACTGTTA
1 T-TTTTTTTTTCGAAC-ATTA
176956 TTTTTTTT
1 TTTTTTTT
176964 CGGTGACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTTTTTTTCGAACATTA
Found at i:188067 original size:23 final size:23
Alignment explanation
Indices: 188037--188094 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
188027 AAAACGTGTC
*
188037 ATAAAGGCAGAAGAAGATCTGTG
1 ATAAAGGCAGAAGAAGATCTGCG
*
188060 ATAAAGGCAGAAGAAGATGTGCG
1 ATAAAGGCAGAAGAAGATCTGCG
188083 ATAAAGGCAGAA
1 ATAAAGGCAGAA
188095 TTATTTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.31, T:0.14
Consensus pattern (23 bp):
ATAAAGGCAGAAGAAGATCTGCG
Found at i:189898 original size:20 final size:20
Alignment explanation
Indices: 189872--189923 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
189862 TGATTCAATT
*
189872 GGTATCGATACCGAAGGG-G
1 GGTATCGATACCGAAGGGAA
*
189891 GAGTATCGATACTGAAGGGAA
1 G-GTATCGATACCGAAGGGAA
189912 GGTATCGATACC
1 GGTATCGATACC
189924 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (20 bp):
GGTATCGATACCGAAGGGAA
Found at i:190490 original size:45 final size:45
Alignment explanation
Indices: 190435--190593 Score: 230
Period size: 45 Copynumber: 3.5 Consensus size: 45
190425 ATGAACAAAC
* *
190435 AATAATGCATATGGGTGCATTATCGGCATGAAATGATTCCAAAAT
1 AATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAAAAT
*
190480 AATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAAT
1 AATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAAAAT
* * **
190525 AATAATGCATATGGGTGCAATATTGGCATGAAAGGATGCCATAGTT
1 AATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCA-AAAT
*
190571 GA-AATGCATATGGGTGCATTATC
1 AATAATGCATATGGGTGCATTATC
190594 AACATAAAAG
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 99 0.97
46 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
AATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCAAAAT
Found at i:190618 original size:45 final size:45
Alignment explanation
Indices: 190438--190653 Score: 204
Period size: 45 Copynumber: 4.8 Consensus size: 45
190428 AACAAACAAT
** * * * *
190438 AATGCATATGGGTGCATTATCGGCATGAAATGATTCCA-AAATAA
1 AATGCATATGGGTGCATTATCAACATGAAAGGATGCCATAATTGA
* * *
190482 TAATGCATATGGGTGCATTATCGACATGAAAGGATGCCA-AAATAA
1 -AATGCATATGGGTGCATTATCAACATGAAAGGATGCCATAATTGA
* *** *
190527 TAATGCATATGGGTGCAATATTGGCATGAAAGGATGCCATAGTTGA
1 -AATGCATATGGGTGCATTATCAACATGAAAGGATGCCATAATTGA
* * *
190573 AATGCATATGGGTGCATTATCAACATAAAAGTATGCTATAATTGAA
1 AATGCATATGGGTGCATTATCAACATGAAAGGATGCCATAATTG-A
* *
190619 AATGCATAAT-GGTGCATTATAAACATGAATGGATG
1 AATGCAT-ATGGGTGCATTATCAACATGAAAGGATG
190654 TTATTAATGA
Statistics
Matches: 147, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
45 113 0.77
46 32 0.22
47 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACATGAAAGGATGCCATAATTGA
Found at i:195648 original size:14 final size:14
Alignment explanation
Indices: 195629--195667 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
195619 TAATGGGGAG
195629 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
195643 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
195657 GAATCTCTGCA
1 TAATCCCTGCA
195668 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:200317 original size:33 final size:33
Alignment explanation
Indices: 200249--200317 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
200239 CTTATTGAAT
* *
200249 TTTATTTCAATTTGGTCATCATTTTGGATTCTG
1 TTTATTTCAAATTGGTCATCATTTTGGATTATG
* * *
200282 TTTATTTTAAATTGGTCACTGATTTT-TATTATG
1 TTTATTTCAAATTGGTCA-TCATTTTGGATTATG
200315 TTT
1 TTT
200318 CGAATTAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 24 0.80
34 6 0.20
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.58
Consensus pattern (33 bp):
TTTATTTCAAATTGGTCATCATTTTGGATTATG
Found at i:200489 original size:4 final size:4
Alignment explanation
Indices: 200480--200505 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
200470 TGCTAACTTG
200480 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
200506 TTGAACCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:200812 original size:2 final size:2
Alignment explanation
Indices: 200805--200866 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
200795 AGTCCCATGA
200805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
200847 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
200867 GCATGTTTCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:207043 original size:20 final size:21
Alignment explanation
Indices: 207018--207077 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
207008 TTTTGGTGCA
207018 GAGGGAATCGATACCCCC-AT
1 GAGGGAATCGATACCCCCTAT
* * *
207038 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATACCCCCTAT
207059 GAAGGGAATCGATACCCCC
1 G-AGGGAATCGATACCCCC
207078 CTAGGGTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 16 0.48
21 2 0.06
22 15 0.45
ACGTcount: A:0.27, C:0.32, G:0.25, T:0.17
Consensus pattern (21 bp):
GAGGGAATCGATACCCCCTAT
Found at i:211403 original size:19 final size:20
Alignment explanation
Indices: 211379--211419 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
211369 TTTAAATAGT
**
211379 AATAAAAATGATTAAA-TAA
1 AATAAAAACAATTAAAGTAA
211398 AATAAAAACAATTAAAGTAA
1 AATAAAAACAATTAAAGTAA
211418 AA
1 AA
211420 ATAAGATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (20 bp):
AATAAAAACAATTAAAGTAA
Found at i:221749 original size:25 final size:24
Alignment explanation
Indices: 221703--221819 Score: 128
Period size: 25 Copynumber: 4.6 Consensus size: 24
221693 ATTACTTAGA
221703 AAAACTATATATATACTATTTTT-
1 AAAACTATATATATACTATTTTTC
*
221726 AAAATTATATACTATACTATTTTTC
1 AAAACTATATA-TATACTATTTTTC
*
221751 AAAACTATATATATATATATATTATTTTC
1 AAAAC--TATATATATA-CTA-T-TTTTC
221780 AAAACTATATAATATACTATTTTTC
1 AAAACTATAT-ATATACTATTTTTC
*
221805 AAAACCTTTATATAT
1 AAAA-CTATATATAT
221820 TATTTTATTT
Statistics
Matches: 80, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.12
24 12 0.15
25 17 0.21
26 10 0.12
27 15 0.19
28 6 0.08
29 10 0.12
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAACTATATATATACTATTTTTC
Found at i:221766 original size:54 final size:55
Alignment explanation
Indices: 221708--221819 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 55
221698 TTAGAAAAAC
* * *
221708 TATATATATACTATTTTTAAAATTATATACTATACTATTTTTCAAAA-CTATATA
1 TATATATATACTATTTTCAAAACTATATAATATACTATTTTTCAAAACCTATATA
* *
221762 TATATATATATTATTTTCAAAACTATATAATATACTATTTTTCAAAACCTTTATA
1 TATATATATACTATTTTCAAAACTATATAATATACTATTTTTCAAAACCTATATA
221817 TAT
1 TAT
221820 TATTTTATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
54 43 0.83
55 9 0.17
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (55 bp):
TATATATATACTATTTTCAAAACTATATAATATACTATTTTTCAAAACCTATATA
Found at i:222208 original size:37 final size:37
Alignment explanation
Indices: 222158--222309 Score: 234
Period size: 37 Copynumber: 4.1 Consensus size: 37
222148 GATCAGACTG
* *
222158 AGATTGATTTGTTTAACTACTCTTCTGTGAAGGCTTA
1 AGATTGATTTGTTTCACTACTCTTCCGTGAAGGCTTA
*
222195 AGATTAATTTGTTTCACTACTCTTCCGTGAAGGCTTA
1 AGATTGATTTGTTTCACTACTCTTCCGTGAAGGCTTA
* **
222232 AGATTGATTTGCTTCACTACTCTTCCGTGAAGAATTA
1 AGATTGATTTGTTTCACTACTCTTCCGTGAAGGCTTA
222269 AGATTGATTT-TTTCACTACTCTTCCGTGAAGGCTTA
1 AGATTGATTTGTTTCACTACTCTTCCGTGAAGGCTTA
222305 TAGAT
1 -AGAT
222310 GGCCCGAAGG
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
36 23 0.22
37 81 0.78
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (37 bp):
AGATTGATTTGTTTCACTACTCTTCCGTGAAGGCTTA
Found at i:224438 original size:2 final size:2
Alignment explanation
Indices: 224433--224472 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
224423 GTGTGTGTGC
224433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
224473 ATCTCCTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:231382 original size:29 final size:30
Alignment explanation
Indices: 231350--231406 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
231340 AGATGTGACA
*
231350 TTTTAA-TAAAAAATTATATAC-ATATATTT
1 TTTTAACT-AAAAATTATAAACTATATATTT
*
231379 TTTTAACTATAAATTATAAACTATATAT
1 TTTTAACTAAAAATTATAAACTATATAT
231407 ATATTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTTAACTAAAAATTATAAACTATATATTT
Found at i:233248 original size:23 final size:22
Alignment explanation
Indices: 233195--233239 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 22
233185 AATTATATAT
233195 ATATATACTATTTTTAAAACTA
1 ATATATACTATTTTTAAAACTA
233217 CATACTATACTATTTTTCAAAAC
1 -ATA-TATACTATTTTT-AAAAC
233240 CTTTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.15
24 12 0.60
25 5 0.25
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATATACTATTTTTAAAACTA
Found at i:236778 original size:2 final size:2
Alignment explanation
Indices: 236771--236799 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
236761 TTTCAACACC
236771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
236800 AAGTAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:238123 original size:87 final size:87
Alignment explanation
Indices: 237977--238139 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 87
237967 TATGTTATAT
*
237977 TATTTAACCGAAAATATTATTAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
238042 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
238064 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
238129 AGCGCTTATAT
66 AGCGCTTATAT
238140 TGACCTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (87 bp):
TATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:238588 original size:182 final size:182
Alignment explanation
Indices: 238275--240585 Score: 3862
Period size: 182 Copynumber: 12.8 Consensus size: 182
238265 TGCATTCACC
** * * *
238275 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
238340 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAA-TCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
*
238404 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
238457 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
238522 TTTATAAAGTATCGACACTTTATTGGCACTAAAACTTCTTCTCTTTTAAATTCCAAAAGCGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
238587 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
238639 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTTACATGTTATATTGTTATGGATTGATACAT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATA-TTTTTACATGTTATATTGTTATGGATCGATACAT
*
238704 TTTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTC
65 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTC
238766 GATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
129 GATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
238820 TTTTTTCATTTTGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
238885 TTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TATTCTCTTTTAAATTCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
238949 TACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
239001 TTTTGTCATTTCGAGACCGG--TTGTCATATTTTTACATGTTATATTGTTATGGATCGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
239064 TTTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
239129 TACTTATAATAAATTATCGATACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
239181 TTTTGTCATTTCGAGACCGATTTTGTCATATTATTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
239246 TTTATAACGTATCGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
239311 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
239363 TTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
239428 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
*
239490 ATACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
239543 TTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
239608 TTTATAAAGTATCGACACTTTATTGACGTTATAAC-TCTTCTCTTTTAAATTCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * *
239672 TACGTATAATAAATTATCGAAACTTTCAACATAACCGGCAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
239724 TTTTGTCATTTCGAGACCGG--TTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
239787 TTTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
239852 TACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
239904 TTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGACCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * * *
239969 TTTATAAAATATAGACACTTTATTGGCACTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
240034 TACTTATAATAAATTATCGACACTTTCAACATAACTGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
240086 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
240151 TTTATAAAGTATCGACACGTTATTGACGCTATAACTTCTTCTCTTATT-AATTTCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
240213 ATACTTTTAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
240266 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
240331 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * * * *
240396 TATTTATAATAAATTATCGATACTTTCAACATATCTGGTAGCTCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
240448 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
240513 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
240578 TACTTATA
131 TACTTATA
240586 TGTCAGGTGT
Statistics
Matches: 1997, Mismatches: 112, Indels: 40
0.93 0.05 0.02
Matches are distributed among these distances:
178 4 0.00
179 186 0.09
180 577 0.29
181 235 0.12
182 905 0.45
183 88 0.04
184 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:239337 original size:362 final size:364
Alignment explanation
Indices: 238275--240585 Score: 3846
Period size: 362 Copynumber: 6.4 Consensus size: 364
238265 TGCATTCACC
** * * *
238275 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATATATT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
238340 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAA-TCCAAAAGTGTCG
65 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCG
*
238404 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTC
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTC
* *
238469 GAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
195 GAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
* *
238534 CGACACTTTATTGGCACTAAAACTTCTTCTCTTTTAAATTCCAAAAGCGTCGATACTTATAATAA
260 CGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
*
238599 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATG
325 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
238639 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTTACATGTTATATTGTTATGGATTGATACAT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATA-TTTTTACATGTTATATTGTTATGGATCGATACAT
*
238704 TTTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTC
64 TTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTC
*
238766 GATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTTTCATTT
129 GATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTT
*
238831 TGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTA
194 CGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTA
** * * *
238896 TCGACACTTTATTGGCGTTATAAC-TATTCTCTTTTAAATTCTAAAAGTGTCGATACGTATAATA
259 TCGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATA
238960 AATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
324 AATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
239001 TTTTGTCATTTCGAGACCGG-TTGTCATATTTTTACATGTTATATTGTTATGGATCGATATATTT
1 TTTTGTCATTTCGAGACCGGTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
* *
239065 TTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCGA
66 TTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCGA
* *
239129 TACTTATAATAAATTATCGATACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* * *
239194 AGACCGATTTTGTCATATTATTACATGTTATATTGTTATGGATCGATACATTTTTATAACGTATC
196 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
239259 GACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
261 GACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
*
239324 TTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTG
326 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
239363 TTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
239428 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
65 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCG
* *
239490 ATACTTATAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTT
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTC
*
239555 GAGACCGGTTTTATCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
195 GAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
* ** * *
239620 CGACACTTTATTGACGTTATAAC-TCTTCTCTTTTAAATTCTAAAAGTGTCGATACGTATAATAA
260 CGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
* *
239684 ATTATCGAAACTTTCAACATAACCGGCAGCGCTTTACCTG
325 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
239724 TTTTGTCATTTCGAGACCGG-TTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
1 TTTTGTCATTTCGAGACCGGTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
* *
239788 TTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCGA
66 TTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCGA
* * *
239852 TACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTGTTTTTTCATTTCG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* * * *
239917 AGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGACCGATACATTTTTATAAAATATA
196 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
*
239982 GACACTTTATTGGCACTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
261 GACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
*
240047 TTATCGACACTTTCAACATAACTGGTAGCGCTTTACCTG
326 TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
240086 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* * *
240151 TTTATAAAGTATCGACACGTTATTGACGCTATAACTTCTTCTCTTATT-AATTTCAAAA--GTCG
65 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCG
* *
240213 ATACTTTTAATAAATTATCGACACTTTCAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTC
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTC
*
240278 GAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
195 GAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
* *
240343 CGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATATTTATAATAA
260 CGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
* * * *
240408 ATTATCGATACTTTCAACATATCTGGTAGCTCTTTACCTG
325 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
240448 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
240513 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCG
65 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCG
240577 ATACTTATA
130 ATACTTATA
240586 TGTCAGGTGT
Statistics
Matches: 1820, Mismatches: 108, Indels: 38
0.93 0.05 0.02
Matches are distributed among these distances:
358 4 0.00
359 180 0.10
360 8 0.00
361 389 0.21
362 772 0.42
363 149 0.08
364 228 0.13
365 90 0.05
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (364 bp):
TTTTGTCATTTCGAGACCGGTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
TTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
GACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
TTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:239749 original size:723 final size:724
Alignment explanation
Indices: 238275--240585 Score: 4115
Period size: 723 Copynumber: 3.2 Consensus size: 724
238265 TGCATTCACC
** * * *
238275 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATATATT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
238340 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAAA-TCCAAAAGTGTCG
65 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCTAAAAGTGTCG
238404 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTC
129 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTC
238469 GAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
194 GAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
* *
238534 CGACACTTTATTGGCACTAAAACTTCTTCTCTTTTAAATTCCAAAAGCGTCGATACTTATAATAA
259 CGACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
*
238599 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACATGTTTTGTCATTTCGAGACCGGTTTTG
324 ATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTG
*
238664 TCATATTTTTTACATGTTATATTGTTATGGATTGATACATTTTTATAAAGTATCGACACGTTATT
389 TCATA-TTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTATT
238729 GGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTT
453 GGCGCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTT
* *
238794 CAACATAACCGGTAGCGCTTTACCTGTTTTTTCATTTTGAGACCGGTTTTGTCATATTTTTACAT
518 CAACATAACCAGTAGCGCTTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACAT
*
238859 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGTTATAACTATT
583 GTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGTTATAACTCTT
*
238924 CTCTTTTAAATTCTAAAAGTGTCGATACGTATAATAAATTATCGACACTTTCAACATAACCGGTA
648 CTCTTTTAAATTCTAAAAGTGTCGATACGTATAATAAATTATCGAAACTTTCAACATAACCGGTA
238989 GCGCTTTACCTG
713 GCGCTTTACCTG
*
239001 TTTTGTCATTTCGAGACCGG-TTGTCATATTTTTACATGTTATATTGTTATGGATCGATATATTT
1 TTTTGTCATTTCGAGACCGGTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
*
239065 TTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGAT
66 TTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGAT
*
239130 ACTTATAATAAATTATCGATACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
131 ACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
* * *
239195 GACCGATTTTGTCATATTATTACATGTTATATTGTTATGGATCGATACATTTTTATAACGTATCG
196 GACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
239260 ACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAT
261 ACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAT
* *
239325 TATCGACACTTTCAACATAACCGGTAGCGTTTTACCTGTTTTGTCATTTCGAGATCGGTTTTGTC
326 TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
239390 ATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGC
391 ATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGC
239455 GCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAA
456 GCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAA
*
239520 CATAACCAGTAGCGCTTTACCTGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACATGTT
521 CATAACCAGTAGCGCTTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACATGTT
*
239585 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGACGTTATAACTCTTCTC
586 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGTTATAACTCTTCTC
*
239650 TTTTAAATTCTAAAAGTGTCGATACGTATAATAAATTATCGAAACTTTCAACATAACCGGCAGCG
651 TTTTAAATTCTAAAAGTGTCGATACGTATAATAAATTATCGAAACTTTCAACATAACCGGTAGCG
239715 CTTTACCTG
716 CTTTACCTG
239724 TTTTGTCATTTCGAGACCGG-TTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
1 TTTTGTCATTTCGAGACCGGTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
*
239788 TTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGAT
66 TTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGAT
* *
239853 ACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTGTTTTTTCATTTCGA
131 ACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
* * * *
239918 GACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGACCGATACATTTTTATAAAATATAG
196 GACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
*
239983 ACACTTTATTGGCACTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAT
261 ACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAT
*
240048 TATCGACACTTTCAACATAACTGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
326 TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
*
240113 ATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGAC
391 ATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGC
* *
240178 GCTATAACTTCTTCTCTTATTAATTTCAAAAGTCGATACTTTTAATAAATTATCGACACTTTCAA
456 GCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAA
* *
240243 CATAACCAGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTT
521 CATAACCAGTAGCGCTTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACATGTT
*
240308 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCT
586 ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGTTATAAC-TCTTCT
* ** * * *
240373 CTTTTAAATTCCAAAAGTGTCGATATTTATAATAAATTATCGATACTTTCAACATATCTGGTAGC
650 CTTTTAAATTCTAAAAGTGTCGATACGTATAATAAATTATCGAAACTTTCAACATAACCGGTAGC
*
240438 TCTTTACCTG
715 GCTTTACCTG
*
240448 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGG-TTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
240513 TTTATAAAATATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
65 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGA
240578 TACTTATA
130 TACTTATA
240586 TGTCAGGTGT
Statistics
Matches: 1524, Mismatches: 57, Indels: 8
0.96 0.04 0.01
Matches are distributed among these distances:
723 947 0.62
724 446 0.29
726 131 0.09
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (724 bp):
TTTTGTCATTTCGAGACCGGTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTT
TTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGAT
ACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCGA
GACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCG
ACACTTTATTGGCACTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAAT
TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGTC
ATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACGTTATTGGC
GCTATAACTTCTTCTCTTATTAATTCCAAAAGTCGATACTTATAATAAATTATCGACACTTTCAA
CATAACCAGTAGCGCTTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACATGTT
ATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGGCGTTATAACTCTTCTC
TTTTAAATTCTAAAAGTGTCGATACGTATAATAAATTATCGAAACTTTCAACATAACCGGTAGCG
CTTTACCTG
Found at i:245715 original size:17 final size:18
Alignment explanation
Indices: 245676--245722 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
245666 TGTTTTTGAG
*
245676 GGAATTGAAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
245694 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
245711 GGAATTGGAATC
1 GGAATTGGAATC
245723 CAATTCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:245752 original size:38 final size:39
Alignment explanation
Indices: 245709--245792 Score: 98
Period size: 43 Copynumber: 2.1 Consensus size: 39
245699 TGGAATCTGT
* *
245709 CAGG-AATTGGAATCCAATTCCATATTCTGTTTGGTTGG
1 CAGGAAATTAGAATCCAATTCCATATTCTGTTTGGTTCG
*
245747 CAGGAATTAAATTAGAATCCAATTCCATATTTTGTTTGGTTCG
1 CAGG----AAATTAGAATCCAATTCCATATTCTGTTTGGTTCG
245790 CAG
1 CAG
245793 ACATTTCAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
38 4 0.11
43 34 0.89
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (39 bp):
CAGGAAATTAGAATCCAATTCCATATTCTGTTTGGTTCG
Found at i:248034 original size:13 final size:13
Alignment explanation
Indices: 248016--248040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
248006 AAGTGTTATG
248016 TTAATTATTAGGT
1 TTAATTATTAGGT
248029 TTAATTATTAGG
1 TTAATTATTAGG
248041 AAAGTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTAATTATTAGGT
Found at i:252091 original size:58 final size:58
Alignment explanation
Indices: 251982--252134 Score: 146
Period size: 58 Copynumber: 2.6 Consensus size: 58
251972 CTCTAGACTT
** * * *
251982 TGACTCTCATTTTAAATTGATCCTTAATTTTTTTAATATTTTAATTGCATCCAAATTA
1 TGACTCTCATTTTAAATTGATCCTTAAACTTTTGAACATTTCAATTGCATCCAAATTA
* * *
252040 TGACTCTCATTTTAAATT-AGTCTTTAAACTTTTGAACATTTCAATTTCATCCCAAACTA
1 TGACTCTCATTTTAAATTGA-TCCTTAAACTTTTGAACATTTCAATTGCAT-CCAAATTA
* * * * * **
252099 TAACCCTTATTTTAATTTGGTCCCAAAACTTTTGAA
1 TGACTCTCATTTTAAATTGATCCTTAAACTTTTGAA
252135 TTTTCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
57 1 0.01
58 41 0.54
59 34 0.45
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (58 bp):
TGACTCTCATTTTAAATTGATCCTTAAACTTTTGAACATTTCAATTGCATCCAAATTA
Found at i:254617 original size:2 final size:2
Alignment explanation
Indices: 254610--254659 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
254600 AATTAACCCT
254610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
254652 TA TA TA TA
1 TA TA TA TA
254660 CTTTCAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:264638 original size:139 final size:140
Alignment explanation
Indices: 264343--264643 Score: 324
Period size: 139 Copynumber: 2.2 Consensus size: 140
264333 TTAATCCAGA
* * * * *
264343 TCAATTTTAAAAAATTATTGAGTCGAATAGTCGAAATGGAACCTTGAGCATAAGCAAGGACCAAA
1 TCAATTTTAATAAATTATTGAATCGAATAATCAAAATGGAACCTTGAGCAAAAGCAAGGACCAAA
* * * * * *
264408 TAAAAAATTCTCCTAAATTTAAGGATGAGTTATAGAATTAACCCTAAACATGGAGGCTCTAAAAA
66 TAAAAAATTCCCCTAAATTAAAAGATAAGTTATAGAATTAAACCTAAACATAGAGGCTCTAAAAA
264473 TTACCCTAAT
131 TTACCCTAAT
** * **
264483 T-AATTTTAATTGATTATTGAATCGAATAATTAAAATGGAA-CTTGGAGCAAAAGTGAGGACCAA
1 TCAATTTTAATAAATTATTGAATCGAATAATCAAAATGGAACCTT-GAGCAAAAGCAAGGACCAA
* * *
264546 ATTAAAAATTCCCCTAAATTAAAAGACTAATTTAT-GAAATTAAACCT-AACATAGAGGCTCTAT
65 ATAAAAAATTCCCCTAAATTAAAAGA-TAAGTTATAG-AATTAAACCTAAACATAGAGGCTCTAA
* * *
264609 TAATTA-GCTTAT
128 AAATTACCCTAAT
* *
264621 TCAATTTTAATCAATTATGGAAT
1 TCAATTTTAATAAATTATTGAAT
264644 ATTCAAATAA
Statistics
Matches: 132, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
138 8 0.06
139 108 0.82
140 16 0.12
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (140 bp):
TCAATTTTAATAAATTATTGAATCGAATAATCAAAATGGAACCTTGAGCAAAAGCAAGGACCAAA
TAAAAAATTCCCCTAAATTAAAAGATAAGTTATAGAATTAAACCTAAACATAGAGGCTCTAAAAA
TTACCCTAAT
Found at i:264788 original size:45 final size:45
Alignment explanation
Indices: 264739--264882 Score: 123
Period size: 45 Copynumber: 3.1 Consensus size: 45
264729 GGATAAAAAT
264739 GCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACTTAAATAG
1 GCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACTTAAATAG
* * * * *** * *
264784 GCTATCAAGGACTAAAT-TAAACTATGG-T-AACCTAAATCAGGATAAAAAT
1 GCTATTAA-GTCTAAATCT--A--AGGGTTCAATCTAAA--AACTTAAATAG
264833 GCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACTTAAATAG
1 GCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACTTAAATAG
264878 GCTAT
1 GCTAT
264883 CAAGGACTAA
Statistics
Matches: 71, Mismatches: 18, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
45 22 0.31
46 8 0.11
47 16 0.23
48 8 0.11
49 17 0.24
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (45 bp):
GCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACTTAAATAG
Found at i:264814 original size:94 final size:94
Alignment explanation
Indices: 264712--264901 Score: 380
Period size: 94 Copynumber: 2.0 Consensus size: 94
264702 AATTAAATGA
264712 TATGGTAACCTAAATCAGGATAAAAATGCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACT
1 TATGGTAACCTAAATCAGGATAAAAATGCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACT
264777 TAAATAGGCTATCAAGGACTAAATTAAAC
66 TAAATAGGCTATCAAGGACTAAATTAAAC
264806 TATGGTAACCTAAATCAGGATAAAAATGCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACT
1 TATGGTAACCTAAATCAGGATAAAAATGCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACT
264871 TAAATAGGCTATCAAGGACTAAATTAAAC
66 TAAATAGGCTATCAAGGACTAAATTAAAC
264900 TA
1 TA
264902 AATTAAAATT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (94 bp):
TATGGTAACCTAAATCAGGATAAAAATGCTATTAAGTCTAAATCTAAGGGTTCAATCTAAAAACT
TAAATAGGCTATCAAGGACTAAATTAAAC
Done.