Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008120.1 Hibiscus syriacus cultivar Beakdansim tig00110670_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: 639723
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:2888 original size:29 final size:29
Alignment explanation
Indices: 2845--2927 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
2835 CTCACCTAAC
*
2845 TAAATTGATGTAAGCAGTGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
2875 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
2904 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
2928 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:4248 original size:2 final size:2
Alignment explanation
Indices: 4241--4269 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4231 TTTTATTCTG
4241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4270 GGATCTTTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4870 original size:20 final size:21
Alignment explanation
Indices: 4845--4896 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4835 TTTTCCCAAT
*
4845 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4865 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4886 TCGCAATGCGA
1 TCGCAATGCGA
4897 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4910 original size:20 final size:20
Alignment explanation
Indices: 4885--4951 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
4875 AATTGGGAAA
4885 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
4905 ATCGCAAT--G---C-GA-T
1 ATCGCAATGCGATACTGACT
*
4918 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
4938 ATCGCAATGCGATA
1 ATCGCAATGCGATA
4952 ATACAAAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 9 0.23
14 2 0.05
15 2 0.05
18 2 0.05
19 1 0.03
20 23 0.59
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:4922 original size:13 final size:13
Alignment explanation
Indices: 4904--4931 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4894 CGATACTGAC
4904 TATCGCAATGCGA
1 TATCGCAATGCGA
4917 TATCGCAATGCGA
1 TATCGCAATGCGA
4930 TA
1 TA
4932 CTTACTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (13 bp):
TATCGCAATGCGA
Found at i:4927 original size:33 final size:33
Alignment explanation
Indices: 4885--4951 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
4875 AATTGGGAAA
4885 ATCGCAATGCGATACTGACTATCGCAATGCGAT
1 ATCGCAATGCGATACTGACTATCGCAATGCGAT
*
4918 ATCGCAATGCGATACTTACTATCGCAATGCGAT
1 ATCGCAATGCGATACTGACTATCGCAATGCGAT
4951 A
1 A
4952 ATACAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (33 bp):
ATCGCAATGCGATACTGACTATCGCAATGCGAT
Found at i:5004 original size:40 final size:41
Alignment explanation
Indices: 4918--5005 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
4908 GCAATGCGAT
* * * *
4918 ATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAACGAGATACTGACTATCGCAACGCGATAATACAAA
*
4959 ATCGCAACGAGATACTGACTTTCGCAACGC-ATAATACAAA
1 ATCGCAACGAGATACTGACTATCGCAACGCGATAATACAAA
4999 ATCGCAA
1 ATCGCAA
5006 TGCGATTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.40
41 25 0.60
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.22
Consensus pattern (41 bp):
ATCGCAACGAGATACTGACTATCGCAACGCGATAATACAAA
Found at i:5197 original size:22 final size:22
Alignment explanation
Indices: 5169--5212 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
5159 CACTCTCTCA
5169 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
5191 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
5213 TATCTCATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:5496 original size:20 final size:20
Alignment explanation
Indices: 5452--5515 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
5442 GCGATTTTAG
* *
5452 TTTCGCGTTGCAATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
5472 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
5492 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
5512 TTTC
1 TTTC
5516 AGAAAACTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:5706 original size:25 final size:26
Alignment explanation
Indices: 5650--5706 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
5640 TTATGTTTAT
*
5650 TATGTTTTTGGTATATCTCACAGTTG
1 TATGTTTTTGGTATATCTCACACTTG
5676 TA-GTTTTTGGTATATCT-A-ACTTAG
1 TATGTTTTTGGTATATCTCACACTT-G
5700 TATGTTT
1 TATGTTT
5707 ATTTTTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 4 0.14
25 19 0.68
26 2 0.07
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53
Consensus pattern (26 bp):
TATGTTTTTGGTATATCTCACACTTG
Found at i:6908 original size:21 final size:21
Alignment explanation
Indices: 6893--6952 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
6883 AGCAGTTTAA
* *
6893 GGTGCTAACATGGCAGTCCAC
1 GGTGCTAACATGACAGTTCAC
*
6914 GATGCTAACATGACAGTTCAC
1 GGTGCTAACATGACAGTTCAC
6935 GGTGCTGAA-ATGACAGTT
1 GGTGCT-AACATGACAGTT
6953 TAGGGTGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (21 bp):
GGTGCTAACATGACAGTTCAC
Found at i:7651 original size:2 final size:2
Alignment explanation
Indices: 7641--7678 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7631 AAATAAAAAA
7641 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7679 ATAAACTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8499 original size:19 final size:20
Alignment explanation
Indices: 8475--8524 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
8465 GTCATCTAAG
8475 TAATATAAAATAAA-ATAAA
1 TAATATAAAATAAATATAAA
*
8494 TAATAT-AAATAAATTTAAA
1 TAATATAAAATAAATATAAA
*
8513 -AATGTAAAATAA
1 TAATATAAAATAA
8525 TGTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
TAATATAAAATAAATATAAA
Found at i:11541 original size:28 final size:28
Alignment explanation
Indices: 11483--11541 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11473 TTTAATTAGG
* * ** *
11483 AATTTGATTCCAAATTTAGTGTTTATTT
1 AATTTGATTCCAAATATAGTCTAGATCT
11511 AATTTGATTCCAAATATAGTCTAGATCT
1 AATTTGATTCCAAATATAGTCTAGATCT
11539 AAT
1 AAT
11542 ATTATTATCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (28 bp):
AATTTGATTCCAAATATAGTCTAGATCT
Found at i:12252 original size:2 final size:2
Alignment explanation
Indices: 12245--12296 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
12235 CCATCAAATA
12245 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
12287 AT AT AT AT AT
1 AT AT AT AT AT
12297 GAATGATAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15394 original size:21 final size:21
Alignment explanation
Indices: 15370--15423 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15360 TCAAATGGAG
15370 AAATTTAATTTTTTAAAATAA
1 AAATTTAATTTTTTAAAATAA
* * * *
15391 AAATTCATTTTTTTAGAATCA
1 AAATTTAATTTTTTAAAATAA
15412 AAATCTTAATTT
1 AAAT-TTAATTT
15424 CATTTTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTTAATTTTTTAAAATAA
Found at i:16821 original size:2 final size:2
Alignment explanation
Indices: 16814--16871 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
16804 CCATCAAATA
16814 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
16856 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
16872 GAATGCTAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27008 original size:36 final size:36
Alignment explanation
Indices: 26961--27115 Score: 231
Period size: 36 Copynumber: 4.3 Consensus size: 36
26951 AGTCAATCCT
26961 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* *
26997 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
27033 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCAT-
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATC-TG
* * * *
27069 AAGTCTTCACCAGAGAGTAGTGAAGCAAACCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
27105 AAGTCTTCACC
1 AAGCCTTCACC
27116 AAAAAGTAGT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
35 1 0.01
36 108 0.98
37 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:27411 original size:51 final size:51
Alignment explanation
Indices: 27346--28218 Score: 826
Period size: 51 Copynumber: 16.6 Consensus size: 51
27336 AAGATTATTT
* *
27346 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
27397 GAGTTCTATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
27448 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * *
27499 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * *
27551 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * *
27603 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* * * **
27654 GAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATG-T-TC
* * *
27706 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATTC
1 -GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
* *
27758 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGCTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
*
27809 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAG---ATGTTC
*
27863 GAGTTCCATACTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGA-TGTTC
* * * ** *
27918 GAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTTC
1 GAGTTCTATACTCCCTAGAGAAAGAG-GGAGCGAACCCGT---TTGAAGATGTTC
* *
27973 GAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTC
1 GAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGAT-GTTC
* * * * *
28028 GAGTTCTATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTC
1 GAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTT---GAAGA-TGTTC
* * * ** * *
28084 GAGTTCTATACTCCTTAAAGAAA-A---AGGGAATTCGCTTACAGAAGATTATTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCG-TT--TGAAGA-TGTTC
* * * **
28135 AAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCTGTAAGAAGAAGATGTTC
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGT---TTGAAGATGTTC
* * *
28189 GAGTTCCATAATCCCTAGAGAAATAGGGAG
1 GAGTTCTATACTCCCTAGAGAAAGAGGGAG
28219 TAGACCCGAT
Statistics
Matches: 702, Mismatches: 80, Indels: 77
0.82 0.09 0.09
Matches are distributed among these distances:
50 2 0.00
51 352 0.50
52 10 0.01
53 87 0.12
54 89 0.13
55 98 0.14
56 59 0.08
57 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
Found at i:27626 original size:155 final size:155
Alignment explanation
Indices: 27346--28218 Score: 939
Period size: 155 Copynumber: 5.5 Consensus size: 155
27336 AAGATTATTT
* * *
27346 GAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTG-A-AGATGT-TCGAGTTCTATAC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCT-GAGTTCCATAC
*
27408 TCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
65 TCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGA
27473 AGGAGCGAACCCGTTTGAAGATGTTC
130 AGGAGCGAACCCGTTTGAAGATGTTC
* *
27499 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
*
27564 CCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
27629 GGAGCGAACCCGTTTGAAGATGTTC
131 GGAGCGAACCCGTTTGAAGATGTTC
* **
27654 GAGTTCCATACTCCTTAAAGAAAGAATGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
* * *
27719 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATTCGAGTTCTATACTCCCTAAAGAAAGAG
66 CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
*
27784 GGAGCGAACCCGTTTGAAGATGCTC
131 GGAGCGAACCCGTTTGAAGATGTTC
* * * *
27809 GAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGT-TCGAGTTCCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* *
27873 CTCCCT-GAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGAT-TGTTCGAGTTCTATACTTCC-TG
64 CTCCCTAG-AGAAAGAGGGAGCGAACCCG-TGT--GAAGATATG--CGAGTTCTATAC-TCCTTA
* ** *
27935 GAGAAAG-AGCGAAGCGAACCCGTAAGAAGAAGATCTTC
122 AAGAAAGAAG-G-AGCGAACCCGT---TTGAAGATGTTC
* * * * *
27973 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCAT-TC-GAGTTCTA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCG-TTT--GAAGA-GATGTCTGAGTTCCA
* * * * * *
28036 TACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCTATACTCCTTA
62 TACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGT---GAAGA-TATGCGAGTTCTATACTCCTTA
** * *
28101 AAGAAA-AA-G-G-GAATTCGCTTACAGAAGATTATTC
122 AAGAAAGAAGGAGCGAACCCG-TT--TGAAGA-TGTTC
* * * * * **
28135 AAGTTCTATACTCCCTAGAGAAAGAGGGAGCAAACCTGTAAGAAGAAGATGT-TCGAGTTCCATA
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAG-AGATGTCT-GAGTTCCATA
* *
28199 ATCCCTAGAGAAATAGGGAG
64 CTCCCTAGAGAAAGAGGGAG
28219 TAGACCCGAT
Statistics
Matches: 625, Mismatches: 58, Indels: 67
0.83 0.08 0.09
Matches are distributed among these distances:
153 38 0.06
154 1 0.00
155 297 0.48
156 42 0.07
157 2 0.00
158 1 0.00
159 13 0.02
160 34 0.05
161 39 0.06
162 38 0.06
164 43 0.07
165 23 0.04
166 46 0.07
167 7 0.01
168 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (155 bp):
GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAGATGTCTGAGTTCCATACT
CCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
GGAGCGAACCCGTTTGAAGATGTTC
Found at i:27699 original size:206 final size:205
Alignment explanation
Indices: 27345--28218 Score: 894
Period size: 206 Copynumber: 4.2 Consensus size: 205
27335 GAAGATTATT
* *
27345 TGAGTTCCATACTCCCTAGAGAGAGAGGGAGCGAACCCGTTTGAAGAT-GTTCGAGTTCTATACT
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATCATTCGAGTTCTATACT
* * * *
27409 CCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAA
66 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATTCGAGTTCCATACTCCTTAAAGAAAGAA
* *
27474 GGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
131 GGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCC-TAGAGAAAGAAGGAGCGAACCCGTA
27539 TGAAGAGATGTC
195 TGAAGAGAT-TC
* * *
27551 TGAGTTCCATACTCCCTAGAGAAAGAAGGAGCGAACCCGTGTGAAGAT-ATGCGAGTTCTATACT
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATCATTCGAGTTCTATACT
* *
27615 CCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAA
66 CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATTCGAGTTCCATACTCCTTAAAGAAAGAA
* *
27680 TGAGCGAACCCGTTTGAAGA-GATGTCTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCC
131 GGAGCGAACCCGTTTGAAGATG-T-TC-GAGTTCCATACT-CCTAGAGAAAGAAGGAGCGAACCC
* *
27744 GTGTGAAGATATTC
192 GTATGAAGAGATTC
* *
27758 -GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGC--TCGAGTTCTATAC
1 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAT-CATTCGAGTTCTATAC
* ** * *
27820 TCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTTCGAGTTCCATACTCCCTGAAGAA
65 TCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATA--TTCGAGTTCCATACTCCTTAAAGAA
* * *
27885 AGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTTCCTGGAGAAAG-AGCGAAG
127 AGAAGGAGCGAACCCG-TTT--GAAGA-TGTTCGAGTTCCATAC-TCCTAGAGAAAGAAG-G-AG
*
27949 CGAACCCGTAAGAAGAAGA-TC
185 CGAACCCGTATGAAG-AGATTC
* *
27970 TTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATTCGAGTTC
1 -T-GAGTTCCATACTCCCTAG-AGAAAGAGGGAGCGAACCCG-TTT--GAAGATCATTCGAGTTC
* * * * *
28034 TATACTTCCTGAAAGAAAGAGGGAGCAAACCCGTTTCCAAAAGATTATTCGAGTTCTATACTCCT
60 TATACTCCCT-AAAGAAAGAAGGAGCGAACCCGTTT---GAAGA-TATTCGAGTTCCATACTCCT
** * * * *
28099 TAAAGAAA-AA-G-G-GAATTCGCTTACAGAAGATTATTCAAGTTCTATACTCCCTAGAGAAAGA
120 TAAAGAAAGAAGGAGCGAACCCG-TT--TGAAGA-TGTTCGAGTTCCATACT-CCTAGAGAAAGA
* * * *
28160 GGGAGCAAACCTGTAAGAAGAAGATGT-
180 AGGAGCGAACCCGTATGAAG-AGAT-TC
* *
28187 TCGAGTTCCATAATCCCTAGAGAAATAGGGAG
1 T-GAGTTCCATACTCCCTAGAGAAAGAGGGAG
28219 TAGACCCGAT
Statistics
Matches: 569, Mismatches: 60, Indels: 68
0.82 0.09 0.10
Matches are distributed among these distances:
205 1 0.00
206 223 0.39
207 6 0.01
208 42 0.07
209 39 0.07
210 4 0.01
211 21 0.04
212 25 0.04
213 3 0.01
214 1 0.00
215 35 0.06
216 50 0.09
217 40 0.07
218 9 0.02
219 18 0.03
220 23 0.04
221 23 0.04
222 1 0.00
223 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (205 bp):
TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATCATTCGAGTTCTATACT
CCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATTCGAGTTCCATACTCCTTAAAGAAAGAA
GGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCTAGAGAAAGAAGGAGCGAACCCGTAT
GAAGAGATTC
Found at i:28269 original size:55 final size:55
Alignment explanation
Indices: 28207--28818 Score: 599
Period size: 55 Copynumber: 11.2 Consensus size: 55
28197 TAATCCCTAG
* * *
28207 AGAAATAGGGAGTAGACCCGATTGTTGAAGTTTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
28262 A-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTTGAGTCTCATACTCTCTGA
1 AGA-AATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
28317 A-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGA-AATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * * * *
28372 AGGAATAGGGAGCATACACG-TT-TTCAAAAGATT-TTCGAGT-TCTATACTCCCTGG
1 AGAAATAGGGAGCAGACGCGATTGTT--GAAGATTGTTCGAGTCT-TATACTCTCTGA
* * * *
28426 AGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTG-T-GGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAG-ACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
28479 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * *
28534 AGAAATAGGG-GACAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCCGA
1 AGAAATAGGGAG-CAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * * **
28587 AGAAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATACTCTCTGA
1 AG-AAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAG-TCTTATACTCTCTGA
* * * * *
28643 AGAAATAGGGGGCAGATGCGATTGATGAAGATT-AT-GGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * *
28696 AGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* * ** * * *
28751 AGAAATAGGGGGCATACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGA
1 AGAAATAGGGAGCAGACGCGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGA
28806 AGAAATAGGGAGC
1 AGAAATAGGGAGC
28819 GAACCCATTT
Statistics
Matches: 467, Mismatches: 67, Indels: 46
0.81 0.12 0.08
Matches are distributed among these distances:
53 105 0.22
54 74 0.16
55 269 0.58
56 19 0.04
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (55 bp):
AGAAATAGGGAGCAGACGCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
Found at i:28529 original size:217 final size:215
Alignment explanation
Indices: 28180--28818 Score: 677
Period size: 217 Copynumber: 2.9 Consensus size: 215
28170 CTGTAAGAAG
* * * * *
28180 AAGATGTTCGAGTTCCATAATCCCTAGAGAAATAGGGA-GTAGACCCGATTGTTGAAGTTTGTTC
1 AAGATTTTCGAGTTCTATACTCCCTGGAGAAATAGGGACG-AGACCCGATTGTTGAAGATTG-T-
* * * * * * * *
28244 GAGTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTTGAGTCTCAT
63 GGGTCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTAT
* *
28308 ACTCTCTGAA-AGAATAGGGAGTAGACACGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
127 ACTCTCTGAAGA-AATAGGG-GCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
* ***
28372 AGGAATAGGGAGCATACACGTTTTCA-A
190 AGAAATAGGGAGC--ACACGCAATCATA
*
28399 AAGATTTTCGAGTTCTATACTCCCTGGAGAAAGAGGGAACGA-ACCCGATTGTTGAAGATTGTGG
1 AAGATTTTCGAGTTCTATACTCCCTGGAGAAATAGGG-ACGAGACCCGATTGTTGAAGATTGTGG
28463 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
65 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
** * * *
28528 CTCTGAAGAAATAGGGGACAGATGCGATTGATGAAGATTG-T-GGGTCTTATACTCTCCGAAGAA
130 CTCTGAAGAAATAGGGG-CAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG-A
* * * *
28591 AAAAGGGGGCAGACGCAATCATTG
193 AATAGGGAGCACACGCAATCA-TA
* * * * ** * *
28615 AAGATTGTTCG-GATCTTATACTCTCTGAAGAAATAGGG-GGCAGATGCGATTGATGAAGATTAT
1 AAGATT-TTCGAGTTC-TATACTCCCTGGAGAAATAGGGACG-AGACCCGATTGTTGAAGATTGT
28678 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATA
63 GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATA
* * * * *
28743 CTCTCTGAAGAAATAGGGGGCATACAAGTTTGTTGAAGA-TGATTCAAGTCTTATACCCTCTGAA
128 CTCTCTGAAGAAATA-GGGGCAGACACGATTGTTGAAGATTG-TTCGAGTCTTATACTCTCTGAA
28807 GAAATAGGGAGC
191 GAAATAGGGAGC
28819 GAACCCATTT
Statistics
Matches: 354, Mismatches: 50, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
214 7 0.02
215 18 0.05
216 22 0.06
217 221 0.62
218 17 0.05
219 66 0.19
220 2 0.01
221 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (215 bp):
AAGATTTTCGAGTTCTATACTCCCTGGAGAAATAGGGACGAGACCCGATTGTTGAAGATTGTGGG
TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTC
TCTGAAGAAATAGGGGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAT
AGGGAGCACACGCAATCATA
Found at i:28639 original size:109 final size:108
Alignment explanation
Indices: 28246--28761 Score: 582
Period size: 109 Copynumber: 4.8 Consensus size: 108
28236 GTTTGTTCGA
* * * * * * *
28246 GTCTTATACTCTCTGAA-AGAATAGGGAGCAGACACGATTGTTGAAGATTATTTGAGTCTCATAC
1 GTCTTATACTCTCTGAAGA-AATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATAC
* ** * *
28310 TCTCTGAA-AGAATA-GGGAGTAGACACGATTGTTGAAGATTGTTCGA
65 TCTCTGAAGA-AATAGGGGA-CAGATGCGATTGATGAAGATTG-T-GG
* * * * * * * *
28356 GTCTCATACTCTCTGAAGGAATAGGGAGCATACAC-GT-TTTCAAAAGATT-TTCGAGT-TCTAT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT--GAAGATTGTTCGAGTCT-TAT
* * * * ** *
28417 ACTCCCTGGAGAAAGAGGGAAC-GAACCCGATTGTTGAAGATTGTGG
63 ACTCTCTGAAGAAATAGGGGACAG-ATGCGATTGATGAAGATTGTGG
28463 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
28528 CTCTGAAGAAATAGGGGACAGATGCGATTGATGAAGATTGTGG
66 CTCTGAAGAAATAGGGGACAGATGCGATTGATGAAGATTGTGG
* * *
28571 GTCTTATACTCTCCGAAGAAAAAAGGGGGCAGACGCAATCATTGAAGATTGTTCG-GATCTTATA
1 GTCTTATACTCTCTGAAG-AAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAG-TCTTATA
* *
28635 CTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGAAGATTATGG
64 CTCTCTGAAGAAATAGGGGACAGATGCGATTGATGAAGATTGTGG
28680 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
1 GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
28745 CTCTGAAGAAATAGGGG
66 CTCTGAAGAAATAGGGG
28762 GCATACAAGT
Statistics
Matches: 353, Mismatches: 38, Indels: 32
0.83 0.09 0.08
Matches are distributed among these distances:
107 37 0.10
108 131 0.37
109 144 0.41
110 41 0.12
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (108 bp):
GTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACT
CTCTGAAGAAATAGGGGACAGATGCGATTGATGAAGATTGTGG
Found at i:33058 original size:40 final size:40
Alignment explanation
Indices: 33013--33093 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
33003 TGATAATGGT
*
33013 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
1 ATCATTGTACAATTAATAAAATATTTGTGTCGTCGCAGAA
*
33053 ATCATTGTACAATTAATAAAATATTTGTGTTGTCGCAGAA
1 ATCATTGTACAATTAATAAAATATTTGTGTCGTCGCAGAA
33093 A
1 A
33094 AATAATCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (40 bp):
ATCATTGTACAATTAATAAAATATTTGTGTCGTCGCAGAA
Found at i:37017 original size:21 final size:21
Alignment explanation
Indices: 36951--37009 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
36941 GGCAGTTTAA
36951 GGTGCTAACATGACAGTCTAC
1 GGTGCTAACATGACAGTCTAC
*
36972 GATGCTAACATGACAGTCTAC
1 GGTGCTAACATGACAGTCTAC
36993 GGTGCTGAA-ATGACAGT
1 GGTGCT-AACATGACAGT
37010 TTAGGGTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (21 bp):
GGTGCTAACATGACAGTCTAC
Found at i:38623 original size:24 final size:24
Alignment explanation
Indices: 38587--38633 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
38577 CTAAGTAATA
38587 TAAAAATTAAAAATAAAATAAATT
1 TAAAAATTAAAAATAAAATAAATT
*
38611 TAAAAATGTAAAAATAAAGTAAA
1 TAAAAAT-TAAAAATAAAATAAA
38634 AAAATTACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (24 bp):
TAAAAATTAAAAATAAAATAAATT
Found at i:42676 original size:2 final size:2
Alignment explanation
Indices: 42671--42710 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
42661 TTTTTTGATA
42671 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
42711 TTGTCGAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43216 original size:21 final size:21
Alignment explanation
Indices: 43190--43275 Score: 56
Period size: 23 Copynumber: 4.2 Consensus size: 21
43180 ATTGGATTTC
43190 TAAATTGATAATGTAGTGTTT
1 TAAATTGATAATGTAGTGTTT
* * * *
43211 TAAATTTACTTATCGTAATTTTT
1 TAAATTGA-TAAT-GTAGTGTTT
* *
43234 TAAATTCAT-A---AGTGTTC
1 TAAATTGATAATGTAGTGTTT
*
43251 TAAATTGACAATGTAGT-TTT
1 TAAATTGATAATGTAGTGTTT
43271 TAAAT
1 TAAAT
43276 CTAAAAATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 13
0.67 0.15 0.18
Matches are distributed among these distances:
17 11 0.23
18 1 0.02
20 7 0.15
21 11 0.23
22 4 0.08
23 14 0.29
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (21 bp):
TAAATTGATAATGTAGTGTTT
Found at i:44135 original size:23 final size:22
Alignment explanation
Indices: 44113--44155 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44103 GGGAGGAAAT
44113 TTAATTTTTTTAAAATAAAAAA
1 TTAATTTTTTTAAAATAAAAAA
* * *
44135 TTCATTTTTTTAGAATCAAAA
1 TTAATTTTTTTAAAATAAAAA
44156 TCTAAATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (22 bp):
TTAATTTTTTTAAAATAAAAAA
Found at i:45587 original size:2 final size:2
Alignment explanation
Indices: 45580--45631 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
45570 CCATCAAATA
45580 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
45622 AT AT AT AT AT
1 AT AT AT AT AT
45632 GAATGCTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47583 original size:40 final size:40
Alignment explanation
Indices: 47538--47618 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
47528 TGATAATGGT
*
47538 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
1 ATCATTGTACAATTAATAAAATATTTGTGTCGTCGCAGAA
*
47578 ATCATTGTACAATTAATAAAATATTTGTGTTGTCGCAGAA
1 ATCATTGTACAATTAATAAAATATTTGTGTCGTCGCAGAA
47618 A
1 A
47619 AATAATCGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (40 bp):
ATCATTGTACAATTAATAAAATATTTGTGTCGTCGCAGAA
Found at i:49470 original size:16 final size:16
Alignment explanation
Indices: 49449--49482 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
49439 TATCTATACC
*
49449 TTATAAAATCATAACT
1 TTATAAAATCACAACT
49465 TTATAAAATCACAACT
1 TTATAAAATCACAACT
49481 TT
1 TT
49483 TTAGCTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (16 bp):
TTATAAAATCACAACT
Found at i:50972 original size:21 final size:21
Alignment explanation
Indices: 50948--51002 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
50938 GTTTAAGGTT
* *
50948 CTAACATGGCAGTCCACGATG
1 CTAACATGACAGTCAACGATG
*
50969 CTAACATGACAGTCAACGGTG
1 CTAACATGACAGTCAACGATG
50990 CTGAA-ATGACAGT
1 CT-AACATGACAGT
51003 TTAGGGTGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (21 bp):
CTAACATGACAGTCAACGATG
Found at i:51468 original size:2 final size:2
Alignment explanation
Indices: 51461--51487 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
51451 TTATTTTTAA
51461 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 A
51488 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51709 original size:18 final size:20
Alignment explanation
Indices: 51688--51732 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
51678 GAAAATTATG
51688 AATAAACATT-TA-ATATAA
1 AATAAACATTATATATATAA
* *
51706 AATAAAAATTATATATATAT
1 AATAAACATTATATATATAA
51726 AATAAAC
1 AATAAAC
51733 TGACTACTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 11 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAACATTATATATATAA
Found at i:52619 original size:18 final size:18
Alignment explanation
Indices: 52596--52649 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
52586 TAAGTAATAT
*
52596 TAAAATTAA-TAAAAATG
1 TAAAATAAATTAAAAATG
52613 ATAAAATAAATTTAAAAATG
1 -TAAAATAAA-TTAAAAATG
52633 TAAAAATAAAGTTAAAA
1 T-AAAATAAA-TTAAAA
52650 TATTACCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 22 0.71
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TAAAATAAATTAAAAATG
Found at i:52630 original size:20 final size:20
Alignment explanation
Indices: 52605--52649 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
52595 TTAAAATTAA
*
52605 TAAAAATG-ATAAAATAAATT
1 TAAAAATGTA-AAAATAAAGT
52625 TAAAAATGTAAAAATAAAGT
1 TAAAAATGTAAAAATAAAGT
52645 TAAAA
1 TAAAA
52650 TATTACCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
TAAAAATGTAAAAATAAAGT
Found at i:57208 original size:28 final size:27
Alignment explanation
Indices: 57169--57227 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 27
57159 AAATTTATTT
57169 TTTTTTTAAATCAAAATCAAAATTTCA
1 TTTTTTTAAATCAAAATCAAAATTTCA
*
57196 TTTTTTTAGAATCAAAATCTAAATTTCA
1 TTTTTTTA-AATCAAAATCAAAATTTCA
57224 TTTT
1 TTTT
57228 AGAATTTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 8 0.27
28 22 0.73
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (27 bp):
TTTTTTTAAATCAAAATCAAAATTTCA
Found at i:58962 original size:10 final size:10
Alignment explanation
Indices: 58947--58974 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
58937 ACTCAAACAC
58947 CAACCCATCT
1 CAACCCATCT
58957 CAACCCATCT
1 CAACCCATCT
58967 CAACCCAT
1 CAACCCAT
58975 TATCATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (10 bp):
CAACCCATCT
Found at i:59740 original size:40 final size:40
Alignment explanation
Indices: 59685--59765 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
59675 TGATAATGGT
59685 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
1 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
59725 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
1 ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
59765 A
1 A
59766 AATAATCGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (40 bp):
ATCATTGTACAATTGATAAAATATTTGTGTCGTCGCAGAA
Found at i:62153 original size:87 final size:87
Alignment explanation
Indices: 62046--62225 Score: 299
Period size: 87 Copynumber: 2.1 Consensus size: 87
62036 TTTTGAGGAG
62046 TCTTTTTGATTAATAATAAATATATTTATTTATGGTTTCATATTAATATAAATTTTATTTTATTT
1 TCTTTTTGATTAATAATAAATATATTTATTTATGGTTTCATATTAATATAAATTTTATTTTATTT
62111 TGT-GCAAAATATACATATTGGA
66 T-TAGCAAAATATACATATTGGA
* * *
62133 TCTTTTTTATTAATAGTAAATATATTTATTTATGGTTTCATATTAATATATATTTTATTTTATTT
1 TCTTTTTGATTAATAATAAATATATTTATTTATGGTTTCATATTAATATAAATTTTATTTTATTT
* *
62198 TTATCAATATATACATATTGGA
66 TTAGCAAAATATACATATTGGA
62220 TCTTTT
1 TCTTTT
62226 ATCATCTCTA
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
86 1 0.01
87 86 0.99
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (87 bp):
TCTTTTTGATTAATAATAAATATATTTATTTATGGTTTCATATTAATATAAATTTTATTTTATTT
TTAGCAAAATATACATATTGGA
Found at i:69508 original size:55 final size:54
Alignment explanation
Indices: 69414--69572 Score: 187
Period size: 55 Copynumber: 2.9 Consensus size: 54
69404 ATATTCGGAA
* * * *
69414 AACGGGTTCGCTCCCTCATTTTTTAGGGAGTATAGAACTCGAACAATTTTCTG-C
1 AACGAGTTCACTCCCTC-TTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
*
69468 GAACGAGTTCACTCCCTCTTTCTTCGGGGAGTATAGAACTCGAACAATCTTCTGTC
1 -AACGAGTTCACTCCCTCTTTCTT-AGGGAGTATAGAACTCGAACAATCTTCTGTC
* * * * *
69524 AACGGGTTCGCTCCCTCTTTCTTAGGGAGTA-GGAACTTGAAGAATCTTC
1 AACGAGTTCACTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTC
69573 ATCAATCGTG
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
53 15 0.16
54 12 0.13
55 63 0.69
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (54 bp):
AACGAGTTCACTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
Found at i:69627 original size:55 final size:55
Alignment explanation
Indices: 69566--70132 Score: 807
Period size: 55 Copynumber: 10.3 Consensus size: 55
69556 GAACTTGAAG
* *
69566 AATCTTCATCAATCGTGGT-TGCTCCCTATTTCCT-CAGAGAGTATAAGACCCAAAC
1 AATCTTCATCAATCGT-GTCTGCTCCCTATTT-CTGCAGAGAGTATAAGACTCGAAC
* * * *
69621 AATCTTCAACAAATCTTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCGAAC
1 AATCTTCATC-AATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* * * *
69677 AATCTTCATCAATCGTGTCTGCTCCCCATTCCTTCAGAGAGTATAAGACTTGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* *
69732 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCCAGC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* * *
69787 AATCTTCAACAGTCGTGTCTGCTCCTTATTTCTGCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* * * * *
69842 AATTTTCATCAATCGTGTCTGCTCCCCATTCCTTCAGAGAGTATAAGACTTGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
69897 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* *
69952 AATCTTCAACAGTCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* * * *
70007 AATCTTCAACAATCGTGTCTGCTCCTTATTTCTGTAGAGAGTATAAGAGTCGAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
* * * *
70062 AATCTTCAACAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
70117 AATCTTCAAT-AATCGT
1 AATCTTC-ATCAATCGT
70133 TGGGAAATCT
Statistics
Matches: 461, Mismatches: 47, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
55 414 0.90
56 47 0.10
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (55 bp):
AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
Found at i:69791 original size:110 final size:110
Alignment explanation
Indices: 69479--70132 Score: 820
Period size: 110 Copynumber: 6.0 Consensus size: 110
69469 AACGAGTTCA
* * * ** * *
69479 CTCCCTCTTTCTTCGGGGAGTAT-AGAACTCGAACAATCTTCTGTCAA-CGGGT-TCGCTCCCTC
1 CTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACAATCGTGTCT-GCTCCCTA
* ** * *
69541 TTTCTT-AGGGAGTAGGA-ACTTGAAGAATCTTCATCAATCGTGGT-TG
63 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGT-GTCTG
* * * *
69587 CTCCCTATTTCCTCAGAGAGTATAAGACCCAAACAATCTTCAACAAATCTTGTCTGCTCCCTATT
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATCGTGTCTGCTCCCTATT
*
69652 TCTTCAGAGAGTATAAGACCCGAACAATCTTCATCAATCGTGTCTG
65 TCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * *
69698 CTCCCCATTCCTTCAGAGAGTATAAGACTTGAACAATCTTCATCAATCGTGTCTGCTCCCTATTT
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT
* * * * *
69763 CTGCAGAGAGTATAAGACTCCAGCAATCTTCAACAGTCGTGTCTG
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * * * *
69808 CTCCTTATTTCTGCAGAGAGTATAAGACTCGAACAATTTTCATCAATCGTGTCTGCTCCCCATTC
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT
*
69873 CTTCAGAGAGTATAAGACTTGAACAATCTTCATCAATCGTGTCTG
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* *
69918 CTCCCTATTTCTGCAGAGAGTATAAGACTCGAACAATCTTCAACAGTCGTGTCTGCTCCCTATTT
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT
* *
69983 CTGCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTG
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * *
70028 CTCCTTATTTCTGT-AGAGAGTATAAGAGTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATT
1 CTCCCTATTTCT-TCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
*
70092 TCTTCAGAGAGTATAAGACTCGATCAATCTTCAAT-AATCGT
65 TCTTCAGAGAGTATAAGACTCGAACAATCTTC-ATCAATCGT
70133 TGGGAAATCT
Statistics
Matches: 475, Mismatches: 62, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
107 1 0.00
108 34 0.07
109 18 0.04
110 361 0.76
111 61 0.13
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (110 bp):
CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT
CTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
Found at i:71161 original size:9 final size:8
Alignment explanation
Indices: 71142--71166 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
71132 TTTTCATTCA
71142 TTTTTTAT
1 TTTTTTAT
71150 TTTTTTAT
1 TTTTTTAT
71158 TTTTTTAT
1 TTTTTTAT
71166 T
1 T
71167 ATATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:81178 original size:16 final size:16
Alignment explanation
Indices: 81157--81194 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
81147 AACCTTATTC
81157 ACATGATATCTACCCA
1 ACATGATATCTACCCA
81173 ACATGATATCTACCCA
1 ACATGATATCTACCCA
81189 ATCATG
1 A-CATG
81195 CTTTAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:86895 original size:13 final size:13
Alignment explanation
Indices: 86877--86915 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
86867 AATGATGCTC
86877 AATGCGCGTCATA
1 AATGCGCGTCATA
*
86890 AATGCGTGTCATA
1 AATGCGCGTCATA
*
86903 AATGTGCGTCATA
1 AATGCGCGTCATA
86916 GATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:86895 original size:85 final size:85
Alignment explanation
Indices: 86748--86905 Score: 244
Period size: 85 Copynumber: 1.9 Consensus size: 85
86738 ACGACGCACG
* * *
86748 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATACATGCGTG
1 AATGTGTGTCATCTTCATTTATGACGGGGACTTCAATGACACGCAATGCAAGTCATAAATGCGTG
86813 TCATAAATTTATGACACACA
66 TCATAAATTTATGACACACA
** * **
86833 AATGTGTGTCATCTTCATTTATGACGGGGACTTCAATGATGCTCAATGCGCGTCATAAATGCGTG
1 AATGTGTGTCATCTTCATTTATGACGGGGACTTCAATGACACGCAATGCAAGTCATAAATGCGTG
86898 TCATAAAT
66 TCATAAAT
86906 GTGCGTCATA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (85 bp):
AATGTGTGTCATCTTCATTTATGACGGGGACTTCAATGACACGCAATGCAAGTCATAAATGCGTG
TCATAAATTTATGACACACA
Found at i:89446 original size:12 final size:13
Alignment explanation
Indices: 89418--89450 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
89408 ATATTGCTTT
89418 ATAATAATATGTGA
1 ATAAT-ATATGTGA
89432 ATAATATAT-TGA
1 ATAATATATGTGA
89444 ATAATAT
1 ATAATAT
89451 TTTTAATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 4 0.21
14 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (13 bp):
ATAATATATGTGA
Found at i:90295 original size:16 final size:16
Alignment explanation
Indices: 90276--90306 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90266 ACATAATTGC
*
90276 AAAATATAATTAAATA
1 AAAAAATAATTAAATA
90292 AAAAAATAATTAAAT
1 AAAAAATAATTAAAT
90307 TTCAAGTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATAATTAAATA
Found at i:90391 original size:38 final size:39
Alignment explanation
Indices: 90343--90447 Score: 135
Period size: 39 Copynumber: 2.7 Consensus size: 39
90333 TTTAAAAAAT
90343 AATTTAGAATGTTAAT-GTGAAATAATTTAAG-AATTAAA
1 AATTTAGAATGTT-ATGGTGAAATAATTTAAGAAATTAAA
* * **
90381 AATTTGGAATGTTATGGTAGGAA-AATTTAAGAAATTAGG
1 AATTTAGAATGTTATGGT-GAAATAATTTAAGAAATTAAA
90420 AATTTAGAATGTTATGGTGAAATAATTT
1 AATTTAGAATGTTATGGTGAAATAATTT
90448 GAAAAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.04
38 25 0.44
39 30 0.53
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (39 bp):
AATTTAGAATGTTATGGTGAAATAATTTAAGAAATTAAA
Found at i:99864 original size:16 final size:17
Alignment explanation
Indices: 99820--99858 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
99810 TTAAATATTA
*
99820 TTTTA-AATAAT-TTAT
1 TTTTACAATAATAATAT
99835 TTTTACAATAATAATAT
1 TTTTACAATAATAATAT
99852 TTTTACA
1 TTTTACA
99859 TCATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATAATAT
Found at i:101766 original size:6 final size:7
Alignment explanation
Indices: 101749--101773 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
101739 GATTCCCTCT
101749 TTTTTGG
1 TTTTTGG
101756 TTTTTGG
1 TTTTTGG
101763 TTTTTGG
1 TTTTTGG
101770 TTTT
1 TTTT
101774 CATCTATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (7 bp):
TTTTTGG
Found at i:109352 original size:30 final size:30
Alignment explanation
Indices: 109284--109358 Score: 116
Period size: 29 Copynumber: 2.5 Consensus size: 30
109274 CGTCCCTGGG
109284 GGTAGGTCGCCATGCACGCCCAGCGACCTA
1 GGTAGGTCGCCATGCACGCCCAGCGACCTA
** *
109314 -CCAGGTCGCCATGCACGCCCAGTGACCTA
1 GGTAGGTCGCCATGCACGCCCAGCGACCTA
109343 GGTAGGTCGCCATGCA
1 GGTAGGTCGCCATGCA
109359 ATCCATGTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (30 bp):
GGTAGGTCGCCATGCACGCCCAGCGACCTA
Found at i:109419 original size:10 final size:10
Alignment explanation
Indices: 109406--109496 Score: 89
Period size: 10 Copynumber: 8.7 Consensus size: 10
109396 ACACGCTGGG
109406 CATCCGAGGC
1 CATCCGAGGC
109416 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
*
109430 CATCCGAAAG-
1 CATCCG-AGGC
109440 CATCCGAGGC
1 CATCCGAGGC
109450 CATCCGAGAG-
1 CATCCGAG-GC
109460 CATCCGAGGC
1 CATCCGAGGC
109470 CATCCGAGAG-
1 CATCCGAG-GC
109480 CATCCGAGGC
1 CATCCGAGGC
109490 CATCCGA
1 CATCCGA
109497 CCAAGGCCAT
Statistics
Matches: 69, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
9 4 0.06
10 49 0.71
11 6 0.09
13 2 0.03
14 8 0.12
ACGTcount: A:0.25, C:0.37, G:0.27, T:0.10
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:109428 original size:14 final size:14
Alignment explanation
Indices: 109409--109436 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
109399 CGCTGGGCAT
109409 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
109423 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
109437 AAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:109448 original size:20 final size:20
Alignment explanation
Indices: 109423--109496 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
109413 GGCCATCCGA
*
109423 CCGAGGCCATCCGAAAGCAT
1 CCGAGGCCATCCGAGAGCAT
109443 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
109463 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
109483 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
109497 CCAAGGCCAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.26, C:0.36, G:0.28, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:109538 original size:23 final size:23
Alignment explanation
Indices: 109505--109558 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
109495 GACCAAGGCC
*
109505 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGG-A
109529 A-CCGAGCGAGCTATGCGAGGGA
1 ATCCGAGCGAGCTATGCGAGGGA
109551 ATCCGAGC
1 ATCCGAGC
109559 AACCGAGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 2 0.07
23 25 0.89
24 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.35, T:0.11
Consensus pattern (23 bp):
ATCCGAGCGAGCTATGCGAGGGA
Found at i:109654 original size:23 final size:23
Alignment explanation
Indices: 109616--109673 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
109606 CTCGGTTGCC
* *
109616 CGGATTCCCTCACATAGCTCGCT
1 CGGATGCCCTCGCATAGCTCGCT
* *
109639 CGGTTGCCCTCGCATAGCTCGTT
1 CGGATGCCCTCGCATAGCTCGCT
*
109662 CGGATGGCCTCG
1 CGGATGCCCTCG
109674 ATCGGATGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.12, C:0.36, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGATGCCCTCGCATAGCTCGCT
Found at i:109678 original size:14 final size:14
Alignment explanation
Indices: 109656--109687 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
109646 CCTCGCATAG
*
109656 CTCGTTCGGATGGC
1 CTCGATCGGATGGC
109670 CTCGATCGGATGGC
1 CTCGATCGGATGGC
109684 CTCG
1 CTCG
109688 GACGCCCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.25
Consensus pattern (14 bp):
CTCGATCGGATGGC
Found at i:110556 original size:2 final size:2
Alignment explanation
Indices: 110551--110587 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
110541 TATCTGTGTG
110551 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110588 GTTTTACCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:111699 original size:25 final size:25
Alignment explanation
Indices: 111654--111705 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
111644 TTTATTACTA
*
111654 TTGGTTAAAGAATTTTCAAAGAATT
1 TTGGTTAAAGAATCTTCAAAGAATT
*
111679 TTGGTTAAGGAACTCTT-AAAGAATT
1 TTGGTTAAAGAA-TCTTCAAAGAATT
111704 TT
1 TT
111706 ATTTTTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (25 bp):
TTGGTTAAAGAATCTTCAAAGAATT
Found at i:113235 original size:3 final size:3
Alignment explanation
Indices: 113227--113278 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
113217 AATTACTATT
113227 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
113275 ATA A
1 ATA A
113279 AATTAGATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:119669 original size:9 final size:9
Alignment explanation
Indices: 119651--119688 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
119641 AAGAATGAAG
119651 AAAT-AAAT
1 AAATAAAAT
119659 AAATAAAAT
1 AAATAAAAT
119668 AAA-AAACAT
1 AAATAAA-AT
119677 AAATAAAAT
1 AAATAAAAT
119686 AAA
1 AAA
119689 AAGGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.26
9 17 0.63
10 3 0.11
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:119711 original size:22 final size:18
Alignment explanation
Indices: 119655--119713 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
119645 ATGAAGAAAT
119655 AAATAAATAAAATAAAAA
1 AAATAAATAAAATAAAAA
*
119673 ACATAAATAAAATAAAAA
1 AAATAAATAAAATAAAAA
119691 GGAAATAACATAATAATAAAAA
1 --AAATAA-ATAA-AATAAAAA
119713 A
1 A
119714 TATATGCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 17 0.49
20 6 0.17
21 4 0.11
22 8 0.23
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATAAATAAAATAAAAA
Found at i:119803 original size:18 final size:17
Alignment explanation
Indices: 119780--119813 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
119770 AAATATATAT
119780 AAATAAAAAGGATAAAAC
1 AAATAAAAAGG-TAAAAC
119798 AAATAAAAAGGTAAAA
1 AAATAAAAAGGTAAAA
119814 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
AAATAAAAAGGTAAAAC
Found at i:121884 original size:84 final size:84
Alignment explanation
Indices: 121793--122691 Score: 955
Period size: 84 Copynumber: 10.7 Consensus size: 84
121783 TCTTTCCTTG
* *
121793 AGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGCAGGTCTTTTGTTGGCA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
121858 GATAACCCTTCTCGACTTA
66 GATAACCCTTCTCGACTTA
* * * * * * *
121877 AGCTATGCTGCAAATGATGTACCTTGGAGCTGAGTGGAATCAAACTCAAAGGTCTTTGGTTGGAA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
*
121942 GATAGCCCTTCTCGACTTA
66 GATAACCCTTCTCGACTTA
* * *
121961 AGTTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT-TTGACA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
* * * *
122025 GATAACCCTTTTAGCCTTG
66 GATAACCCTTCTCGACTTA
* * * * * * * * *
122044 AGTTATACTGTAAATGATGTGCCATTGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGGCA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
* * *
122109 GATAACCCTTCTAGCCTTG
66 GATAACCCTTCTCGACTTA
* * * * * ** * * *
122128 AG-TCATGTTGCAAATGATATGTCTTAGAGTTGAGCATAGTCGTACTCGAAGGTCTTTGGTTGGC
1 AGCT-ATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGC
*
122192 AGATAGCCCTTCTCGACTTA
65 AGATAACCCTTCTCGACTTA
* * * * *
122212 AGCTATGCTGCAAACGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGTTGACA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
* * * *
122276 TATAACCCTTCTAGCCTTG
66 GATAACCCTTCTCGACTTA
* * * * * *
122295 AGTTATGCTGTAAATAATGTGCCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGAA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
* *
122360 GATAGCCCTTATCGACTTA
66 GATAACCCTTCTCGACTTA
* * * * *** *
122379 ATCTATGCTGCAAATGATGCGTCTTTGAGCTGGGAAAAATCGAACTCGAAGGTC-TTTGTTGACA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
*
122443 GATAACCCTTCT--ATCATTG
66 GATAACCCTTCTCGA-C-TTA
* * * * * * * * *
122462 AGTTATGCTGTAAATGGTGTGCCTTGGAGTTGAGTATAATCGAACTTGAAGGTATTTGGTTGGCA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
*
122527 GATAGCCCTTCTCGACTTA
66 GATAACCCTTCTCGACTTA
* *
122546 AGCTATACTGCAATTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
* * *
122611 GATAACCCTTCTAGCCTTG
66 GATAACCCTTCTCGACTTA
* * * * *
122630 AGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTG
1 AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTG
122692 CCTTAAGCTA
Statistics
Matches: 665, Mismatches: 141, Indels: 18
0.81 0.17 0.02
Matches are distributed among these distances:
81 1 0.00
82 1 0.00
83 196 0.29
84 464 0.70
85 2 0.00
86 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
AGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCA
GATAACCCTTCTCGACTTA
Found at i:122025 original size:251 final size:251
Alignment explanation
Indices: 121768--122850 Score: 1069
Period size: 251 Copynumber: 4.4 Consensus size: 251
121758 AACAATTTTA
* * *
121768 TTGACAGATATCCCTTCTTTCCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
1 TTGACAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
* * * * *
121833 CGAACTCGCAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTA
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG
* *** * *
121898 CCTTGGAGCTGAGTGGAATCAAACTCAAAGGTCTTTGGTTGGAAGATAGCCCTTCTCGACTTAAG
131 CCTTAGAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTCGACTTAAG
* *
121963 TTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTT
196 TTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* * * *
122019 TTGACAGATAACCCTT-TTAGCCTTGAGTTATACTGTAAATGATGTGCCATTGAGCTGAGCGTAG
1 TTGACAGATAACCCTTCTT-GCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAA
* * * * *
122083 TCGAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGAG-TCATGTTGCAAATGATA
65 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGCT-ATGCTGCAAATGATA
* * * * *
122147 TGTCTTAGAGTTGAGCATAGTCGTACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTA
129 TGCCTTAGAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTCGACTTA
* * * * *
122212 AGCTATGCTGCAAACGATGTGCCTTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
194 AGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* * * * * *
122270 TTGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTGCCTTGGAGCTGAGTGTAAT
1 TTGACAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
* * * * * **
122335 CGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTATCGACTTAATCTATGCTGCAAATGATGCG
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG
* * * * * *
122400 TCTTTGAGCTGGGAAAAATCGAACTCGAAGGTCTTT-GTT-GACAGATAACCCTTCT--ATCATT
131 CCTTAGAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTTGGA-AGATAGCCCTTCTCGA-C-TT
* * * * * * * *
122461 GAGTTATGCTGTAAATGGTGTGCCTTGGAGTTGAGTATAATCGAACTTGAAGGTATTTGG
193 AAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G
* * * * * * *
122521 TTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAATTGATGTGCCTTTGAGCTGAGTGTAAT
1 TTGACAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
* * * *
122586 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATG
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG
* * *
122651 CCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC--T--TT------T-G----T-T-GCCTTAAG
131 CCTTAGAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTCGACTTAAG
* * * * * * *
122699 CTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTG
196 TTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTG
* * * * * * * * * *
122756 TAGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGACAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
* * * *
122821 TGAACTTGAAGGTCTTTTGATGGCAGATAA
66 CGAACTCGAAGGTCTTTGGTTGGCAGATAA
122851 TGTAACACCC
Statistics
Matches: 687, Mismatches: 135, Indels: 36
0.80 0.16 0.04
Matches are distributed among these distances:
235 127 0.18
236 5 0.01
237 1 0.00
242 1 0.00
248 3 0.00
249 3 0.00
250 65 0.09
251 480 0.70
252 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (251 bp):
TTGACAGATAACCCTTCTTGCCTTGAGCTATACTGTAAATGATGTGCCTTTGAGCTGAGTGTAAT
CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATG
CCTTAGAGCTGAGCATAATCGAACTCGAAGGTCTTTGGTTGGAAGATAGCCCTTCTCGACTTAAG
TTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
Found at i:122120 original size:167 final size:166
Alignment explanation
Indices: 121772--122849 Score: 1137
Period size: 167 Copynumber: 6.5 Consensus size: 166
121762 ATTTTATTGA
* ** * * *
121772 CAGATATCCCTTCTTTCCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * *
121837 CTCGCAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTACCTT
66 CTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * * *
121902 GGAGCTGAGTGGAATCAAACTCAAAGGTCTTTGGTTGG
130 TGAGCTGAGCGTAATCGAACTCAAAGGTCTTT-GTTGG
* * * * * * *
121940 AAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * * * * * * * * *
122005 CTCGAAGGTCTTTTTTGACAGATAACCCTTTTAGCCTTGAGTTATACTGTAAATGATGTGCCATT
66 CTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTT
* *
122070 GAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTGG
131 GAGCTGAGCGTAATCGAACTCAAAGGTCTTT-GTTGG
* * * * * * ** * *
122107 CAGATAACCCTTCTAGCCTTGAGTCATGTTGCAAATGATATGTCTTAGAGTTGAGCATAGTCGTA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* *
122172 CTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAACGATGTGCCTT
66 CTCGAAGGTCTTT-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* *
122237 TGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGA
130 TGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGG
* * *
122274 CATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATAATGTGCCTTGGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * * * * *
122339 CTCGAAGGTCTTTGGTTGGAAGATAGCCCTTATCGACTTAATCTATGCTGCAAATGATGCGTCTT
66 CTCGAAGGTCTTT-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* *** * *
122404 TGAGCTGGGAAAAATCGAACTCGAAGGTCTTTGTTGA
130 TGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGG
* * * * * *
122441 CAGATAACCCTTCTATCATTGAGTTATGCTGTAAATGGTGTGCCTTGGAGTTGAGTATAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * * * *
122506 CTTGAAGGTATTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAATTGATGTGCCTT
66 CTCGAAGGTCTTT-TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* *
122571 TGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGG
130 TGAGCTGAGCGTAATCGAACTCAAAGGTC-TTTGTTGG
* * * *
122609 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* * * *
122674 CTCGAAGGTC---TTT------T-G----T-T-GCCTTAAGCTATGTTGTAAATGATGTGCCTTG
66 CTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTT
* *
122723 GAGCTGAGCGTAGTCGAACTCGAAA-GTCTTTTGTAGG
131 GAGCTGAGCGTAATCGAACTC-AAAGGTC-TTTGTTGG
* * * *
122760 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTTGAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
* *
122825 CTTGAAGGTCTTTTGATGGCAGATA
66 CTCGAAGGTCTTTT-TTGGCAGATA
122850 ATGTAACACC
Statistics
Matches: 767, Mismatches: 129, Indels: 34
0.82 0.14 0.04
Matches are distributed among these distances:
151 128 0.17
152 3 0.00
153 1 0.00
154 1 0.00
155 1 0.00
157 1 0.00
158 1 0.00
161 1 0.00
164 2 0.00
167 419 0.55
168 209 0.27
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (166 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTT
GAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGG
Found at i:122816 original size:151 final size:151
Alignment explanation
Indices: 122542--122839 Score: 488
Period size: 151 Copynumber: 2.0 Consensus size: 151
122532 CCCTTCTCGA
* * * * *
122542 CTTAAGCTATACTGCAATTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTT
1 CTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCGAAAGTCTTTTGTA
122607 GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCG
66 GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCG
122672 AACTCGAAGGTCTTTTGTTGC
131 AACTCGAAGGTCTTTTGTTGC
** * *
122693 CTTAAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTTGTA
1 CTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCGAAAGTCTTTTGTA
* *
122758 GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTTG
66 GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCG
*
122823 AACTTGAAGGTCTTTTG
131 AACTCGAAGGTCTTTTG
122840 ATGGCAGATA
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 135 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (151 bp):
CTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCGAAAGTCTTTTGTA
GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCG
AACTCGAAGGTCTTTTGTTGC
Found at i:123753 original size:31 final size:31
Alignment explanation
Indices: 123699--123799 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
123689 TAGGTCCCGA
*
123699 AGAACCTAGGTA-ACTGTCCATATGTTCCTT
1 AGAACATAGGTATACTGTCCATATGTTCCTT
* *
123729 AGAACATAGGTATACTATCCATATG-TCCTG
1 AGAACATAGGTATACTGTCCATATGTTCCTT
* * *
123759 AAAGACATAGGTAATTA-TGTTCATATGTTCCGT
1 AGA-ACATAGGT-A-TACTGTCCATATGTTCCTT
123792 AGAACATA
1 AGAACATA
123800 TGTAAACCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
30 17 0.30
31 19 0.33
32 14 0.25
33 7 0.12
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (31 bp):
AGAACATAGGTATACTGTCCATATGTTCCTT
Found at i:125188 original size:19 final size:19
Alignment explanation
Indices: 125160--125287 Score: 247
Period size: 19 Copynumber: 6.7 Consensus size: 19
125150 CCTTAATATG
125160 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
*
125179 TGCATTGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
125198 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
125217 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
125236 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
125255 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
125274 TGCATCGATGCACT
1 TGCATCGATGCACT
125288 AATTGCATTC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 107 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.32
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:127492 original size:95 final size:97
Alignment explanation
Indices: 127287--127519 Score: 283
Period size: 95 Copynumber: 2.4 Consensus size: 97
127277 GGCTAGCTGG
* * * *
127287 ATCCATAAAGACGGGGTGTTTAACCAATTGCTCTAGATGGACAACTCAATATCATTGTATAGATA
1 ATCCACAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATATCATTG-ATAGATA
127352 TTATAATCACCTTTATCAGACTAGCTGAATATT
65 TTATAATCACCTTTATCAGACTAGCTGAATATT
* * * *
127385 ATCCATAAAGCCGGTGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGTTTTATTG-T-G-TA
1 ATCCACAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA-TATCATTGATAGATA
* * * *
127447 TTATAATCGCCTTTTTCAGGCTAGCTGAATCTT
65 TTATAATCACCTTTATCAGACTAGCTGAATATT
* * * *
127480 ATCCACAAAGCCGGGGCATTTAACTAATTACTTTAGAGGG
1 ATCCACAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGG
127520 GCAGCTCACA
Statistics
Matches: 118, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
95 65 0.55
96 1 0.01
97 1 0.01
98 45 0.38
99 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (97 bp):
ATCCACAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATATCATTGATAGATAT
TATAATCACCTTTATCAGACTAGCTGAATATT
Found at i:127535 original size:95 final size:95
Alignment explanation
Indices: 127287--127549 Score: 260
Period size: 95 Copynumber: 2.7 Consensus size: 95
127277 GGCTAGCTGG
* * ** * * * *
127287 ATCCATAAAGACGGGGTGTTTAACCAATTGCTCTAGATGGACAACTCAATATCATTGTATAG-AT
1 ATCCACAAAGCCGGGGCATTTAACCAATTACTCTAGAGGGACAACTC-A-AGC-TT-TATTGTAT
127351 ATTATAATCACCTTTATCAGACTAGCTGAATATT
62 ATTATAATCACCTTTATCAGACTAGCTGAATATT
* * * * * *
127385 ATCCATAAAGCCGGTGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGTTTTATTGTGTATTA
1 ATCCACAAAGCCGGGGCATTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
* * * *
127450 TAATCGCCTTTTTCAGGCTAGCTGAATCTT
66 TAATCACCTTTATCAGACTAGCTGAATATT
* * * *
127480 ATCCACAAAGCCGGGGCATTTAACTAATTACTTTAGAGGGGCAGCTCACA-CTTTATTGTATATA
1 ATCCACAAAGCCGGGGCATTTAACCAATTACTCTAGAGGGACAACTCA-AGCTTTATTGTATAT-
127544 TATAAT
64 TATAAT
127550 TATAATTTGG
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
94 4 0.03
95 84 0.60
96 8 0.06
97 1 0.01
98 43 0.31
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCACAAAGCCGGGGCATTTAACCAATTACTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATCACCTTTATCAGACTAGCTGAATATT
Found at i:129003 original size:20 final size:20
Alignment explanation
Indices: 128974--129024 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
128964 TGTTATCAGG
128974 GTATCTATACCCCAGACAGA
1 GTATCTATACCCCAGACAGA
* * *
128994 GTATCAATACCCCAGGCAGG
1 GTATCTATACCCCAGACAGA
129014 GTATCTATACC
1 GTATCTATACC
129025 TCAATTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (20 bp):
GTATCTATACCCCAGACAGA
Found at i:129618 original size:22 final size:22
Alignment explanation
Indices: 129560--129620 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
129550 GAGGGTATAG
* * *
129560 TGGTTCTTCGGGACATATCCAG
1 TGGTCCTTCGGGACGTATCCAA
*
129582 TGGTCCTTCGTGACGTATCCAA
1 TGGTCCTTCGGGACGTATCCAA
*
129604 TGGTCTTTCGGGACGTA
1 TGGTCCTTCGGGACGTA
129621 GTGATTATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (22 bp):
TGGTCCTTCGGGACGTATCCAA
Found at i:135802 original size:20 final size:20
Alignment explanation
Indices: 135776--135830 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
135766 ATAATGTTAT
*
135776 CAGGGTATCTATACCCCATA
1 CAGGGTATCTATACCCCAGA
* * *
135796 TAGGGTATCAATACCCCAGG
1 CAGGGTATCTATACCCCAGA
135816 CAGGGTATCTATACC
1 CAGGGTATCTATACC
135831 TCAATTAGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
CAGGGTATCTATACCCCAGA
Found at i:135840 original size:20 final size:19
Alignment explanation
Indices: 135777--135840 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
135767 TAATGTTATC
*
135777 AGGGTATCTATACCCCATAT
1 AGGGTATCTATACCCAAT-T
* ***
135797 AGGGTATCAATACCCCAGGC
1 AGGGTATCTATA-CCCAATT
135817 AGGGTATCTATACCTCAATT
1 AGGGTATCTATACC-CAATT
135837 AGGG
1 AGGG
135841 ATGTACCGAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (19 bp):
AGGGTATCTATACCCAATT
Found at i:136247 original size:24 final size:25
Alignment explanation
Indices: 136220--136266 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
136210 ATAATCCAGG
136220 TATGT-TGAATAATGAAAA-TGATCA
1 TATGTGTGAAT-ATGAAAAGTGATCA
*
136244 TATGTGTGTATATGAAAAGTGAT
1 TATGTGTGAATATGAAAAGTGAT
136267 AAAAGAGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.36
Consensus pattern (25 bp):
TATGTGTGAATATGAAAAGTGATCA
Found at i:136492 original size:22 final size:22
Alignment explanation
Indices: 136364--136489 Score: 198
Period size: 22 Copynumber: 5.7 Consensus size: 22
136354 TCGAGGGTAT
*
136364 AGTGGTCCTTCGGGATATATCC
1 AGTGGTCCTTCGGGACATATCC
*
136386 AGTGGTCCTTCGGAACATATCC
1 AGTGGTCCTTCGGGACATATCC
*
136408 AGTGGTCCTTCGGGACGTATCC
1 AGTGGTCCTTCGGGACATATCC
136430 AGTGGTCCTTCGGGACATATCC
1 AGTGGTCCTTCGGGACATATCC
* * *
136452 AATGGTCATTCGGGACGTATCC
1 AGTGGTCCTTCGGGACATATCC
136474 AGTGGTCCTTCGGGAC
1 AGTGGTCCTTCGGGAC
136490 GTAGTGGTCA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 94 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACATATCC
Found at i:137473 original size:39 final size:39
Alignment explanation
Indices: 137426--137501 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
137416 TCTCCATCCA
* *
137426 TCTCCCTCATAAGAGGTTTCTTACTGGCCTCCCCATCTC
1 TCTCCCTCATAAGAGGTTTCTTACTAGCCTCCACATCTC
137465 TCTCCCTCATAAGAGGTTTCTTACTAGCCTCCACATC
1 TCTCCCTCATAAGAGGTTTCTTACTAGCCTCCACATC
137502 CTTAATCTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.18, C:0.37, G:0.12, T:0.33
Consensus pattern (39 bp):
TCTCCCTCATAAGAGGTTTCTTACTAGCCTCCACATCTC
Found at i:138108 original size:21 final size:22
Alignment explanation
Indices: 138064--138115 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
138054 GTAGTCATGG
* *
138064 TCTCCTCTAACTACCTTCATTT
1 TCTCCTCCAACTACCTTAATTT
*
138086 TCTCCTCCAACT-GCTTAATTT
1 TCTCCTCCAACTACCTTAATTT
*
138107 TCTTCTCCA
1 TCTCCTCCA
138116 TCTTCTTTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.17, C:0.37, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCCTCCAACTACCTTAATTT
Found at i:140498 original size:5 final size:5
Alignment explanation
Indices: 140483--140541 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
140473 AATGAAGAAA
*
140483 AAAAT -AAAT AAAAT AAAA- AACAT -AAAT AAAAT AAAA- AGGAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A--AAAT AAAAT
*
140531 AAAAA AAAAT A
1 AAAAT AAAAT A
140542 TATATGCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 11 0.25
5 29 0.66
6 3 0.07
7 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:140583 original size:7 final size:7
Alignment explanation
Indices: 140571--140604 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
140561 CAAGAAAGGA
140571 AGAAAAT
1 AGAAAAT
140578 AGAAAAT
1 AGAAAAT
140585 AGAAAAT
1 AGAAAAT
140592 AGAAAAT
1 AGAAAAT
140599 AGAAAA
1 AGAAAA
140605 ATTAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AGAAAAT
Found at i:141120 original size:22 final size:21
Alignment explanation
Indices: 141071--141120 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
141061 AACCCATAGA
* *
141071 TAATTATATAATATAATTTAT
1 TAATTATATAACATAATATAT
*
141092 AATATTATATAACATAATAATAT
1 TA-ATTATATAACATAAT-ATAT
141115 TAATTA
1 TAATTA
141121 AATCGGACGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.78
23 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTATATAACATAATATAT
Found at i:142589 original size:24 final size:24
Alignment explanation
Indices: 142562--142622 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
142552 ACAACCCAGA
142562 TTTTCTCTAATTGTGTGGTTCTCT
1 TTTTCTCTAATTGTGTGGTTCTCT
142586 TTTTCTCTAATTGTGTGGTTCTCT
1 TTTTCTCTAATTGTGTGGTTCTCT
*
142610 TGTTCTCTAATTG
1 TTTTCTCTAATTG
142623 AGATAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.57
Consensus pattern (24 bp):
TTTTCTCTAATTGTGTGGTTCTCT
Found at i:142699 original size:28 final size:29
Alignment explanation
Indices: 142637--142697 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
142627 AATGTATAAT
142637 TTTTAAAAAGATCAATTTTGAGCATCGTA
1 TTTTAAAAAGATCAATTTTGAGCATCGTA
142666 TTTTAAAAAGATCAATTTTGAGCATCGTA
1 TTTTAAAAAGATCAATTTTGAGCATCGTA
142695 TTT
1 TTT
142698 AACCTACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (29 bp):
TTTTAAAAAGATCAATTTTGAGCATCGTA
Found at i:143563 original size:18 final size:19
Alignment explanation
Indices: 143540--143577 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
143530 TTTACTCTCA
143540 TTTTTCCTTTCTTTT-TTT
1 TTTTTCCTTTCTTTTGTTT
*
143558 TTTTTCTTTTCTTTTGTTT
1 TTTTTCCTTTCTTTTGTTT
143577 T
1 T
143578 CGTGGGGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTTTCCTTTCTTTTGTTT
Found at i:145958 original size:22 final size:23
Alignment explanation
Indices: 145909--145958 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
145899 TATAGAATTA
145909 TATTAAAAATTAAAAAGTAAAAT
1 TATTAAAAATTAAAAAGTAAAAT
*
145932 T-TTAAAAA-TATAAAA-TTAAAT
1 TATTAAAAATTA-AAAAGTAAAAT
145953 TATTAA
1 TATTAA
145959 TATATACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 8 0.33
22 15 0.62
23 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
TATTAAAAATTAAAAAGTAAAAT
Found at i:147674 original size:14 final size:15
Alignment explanation
Indices: 147657--147688 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
147647 AAAATAAATA
147657 TTAAAATAA-TTTAT
1 TTAAAATAATTTTAT
147671 TTAAAATAATTTTAT
1 TTAAAATAATTTTAT
147686 TTA
1 TTA
147689 TTATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAAATAATTTTAT
Found at i:148967 original size:3 final size:3
Alignment explanation
Indices: 148959--149083 Score: 119
Period size: 3 Copynumber: 42.0 Consensus size: 3
148949 TAAATATATT
* * *
148959 TAA TAA TAA TAT TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
149007 TAT TTA TAA TAA TAA TAA TATT TAG TAA TAA TAA TAT TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
149053 TAA T-A TAA TAA T-A TTA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
149084 ACAAATCAAA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
2 4 0.04
3 91 0.94
4 2 0.02
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:149541 original size:110 final size:112
Alignment explanation
Indices: 149338--149982 Score: 779
Period size: 110 Copynumber: 5.8 Consensus size: 112
149328 TCTTGATGAG
*
149338 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTT-TT-TCATTATGATCTTTCTCT
1 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAAC-TTCTCT
* *
149400 AGAAAAGTTGATCCATCAAGTGATGGA-TTGAGCAAAAGGTTGAACAAA
64 GGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
149448 TTCTTCTCATTATGAACTTCTTC-TCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTTCTCTG
149511 GAAAAG-TGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* ** *
149558 TTCTTCTCATTATGAACTTCTTCTTCC-T-TAGATGACGAGTTCTTCTCATTATGAAC-TCTACC
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTCT--C
* * * * * * * *
149620 TGGCAATGTTAATCCAT--A-TGATGAATTTAAACAAAAGGGTGAACAAA
63 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
149667 TTCTTCTCATTATGAAC-TCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTG
* * *
149731 GAAAAGCTGATCCATTAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAA
65 GAAAAGCTGATCCATCAAGTGATGGATTTGA-GCAAAAGGTTGAACAAA
* * *
149779 TTCTTCCCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTG
* *
149844 GAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAG
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* * * *
149892 CTCTTCTCATTATGAACTTTTTC-TTCTTCTTCAGATGAGTTC-T-TCATTATGAAC-TCGAACT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--TCT
* * *
149953 GGAAAATCTAATCCATCAAGTAATGGATTT
64 GGAAAAGCTGATCCATCAAGTGATGGATTT
149983 AAATCTTTGC
Statistics
Matches: 470, Mismatches: 43, Indels: 44
0.84 0.08 0.08
Matches are distributed among these distances:
108 11 0.02
109 118 0.25
110 148 0.31
111 28 0.06
112 60 0.13
113 100 0.21
114 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:150908 original size:83 final size:82
Alignment explanation
Indices: 150764--151516 Score: 1194
Period size: 83 Copynumber: 9.2 Consensus size: 82
150754 CTTATTTCTA
*
150764 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAACCAGATCAGATAACTCAAA
150829 GAACACTTCCAGAAGATG
65 GAACACTTCCAGAAGATG
* * *
150847 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTTTGTCCAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAACCAGATCAGATAACTCAAA
*
150912 GAACACTTTCAGAAGATG
65 GAACACTTCCAGAAGATG
* *
150930 CTATTAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCC-AACCAGATCAGATAACTCAAA
150995 GAACACTTCCAGAAGATG
65 GAACACTTCCAGAAGATG
*
151013 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGC-CAACCAGATCAGATAACTCAAA
151078 GAACACTTCCAGAAGATG
65 GAACACTTCCAGAAGATG
*
151096 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGC-CAACCAGATCAGATAACTCAAA
151161 GAACACTTCCAGAAGATG
65 GAACACTTCCAGAAGATG
*
151179 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGC-CAACCAGATCAGATAACTCAAA
*
151244 GAACACTTCCAAAAGATG
65 GAACACTTCCAGAAGATG
* *
151262 CTATGAGCACATTCATCTTCCCAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGC-CAACCAGATCAGATAACTCAAA
* *
151327 GAACAATTCCAGAAGATA
65 GAACACTTCCAGAAGATG
*
151345 CTATGAGCACATTCATCTTCCCAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCC-AACCAGATCAGATAACTCAAA
*
151410 GAACACTTCCAGAAGATA
65 GAACACTTCCAGAAGATG
* * * *
151428 CTATGATCACATTCATCTTCCCAATTC-ATGATTGGTT-TGACAAACAGATCAGATAACTC--A-
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAACCAGATCAGATAACTCAAAG
151488 AACACTTCCAG-AGATG
66 AACACTTCCAGAAGATG
*
151504 CTATGAGTACATT
1 CTATGAGCACATT
151517 GCTTATTCCA
Statistics
Matches: 646, Mismatches: 21, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
76 15 0.02
77 11 0.02
78 1 0.00
80 17 0.03
81 3 0.00
82 12 0.02
83 587 0.91
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (82 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATG
Found at i:152620 original size:15 final size:15
Alignment explanation
Indices: 152595--152637 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
152585 CCCCTTTTTC
152595 TTTTTTC-TTTCTTT
1 TTTTTTCTTTTCTTT
152609 TTTTTTCTTTTCTTT
1 TTTTTTCTTTTCTTT
*
152624 TTTTTTTTTTTCTT
1 TTTTTTCTTTTCTT
152638 CAAGCATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 7 0.26
15 20 0.74
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:152633 original size:19 final size:19
Alignment explanation
Indices: 152597--152632 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
152587 CCTTTTTCTT
152597 TTTTCTTTCTTTTTTTTTC
1 TTTTCTTTCTTTTTTTTTC
152616 TTTTCTTT-TTTTTTTTT
1 TTTTCTTTCTTTTTTTTT
152633 TTCTTCAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTTTTC
Found at i:152633 original size:20 final size:21
Alignment explanation
Indices: 152590--152637 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 21
152580 TTGACCCCCT
152590 TTTTCTTTTTTCTTTCTTTTT
1 TTTTCTTTTTTCTTTCTTTTT
152611 TTTTCTTTTCTT-TTT-TTTTT
1 TTTTCTTTT-TTCTTTCTTTTT
152631 TTTTCTT
1 TTTTCTT
152638 CAAGCATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.46
21 12 0.46
22 2 0.08
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTCTTTTTTCTTTCTTTTT
Found at i:163060 original size:19 final size:18
Alignment explanation
Indices: 163025--163083 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
163015 AAATAAAATG
*
163025 AAATATTAATAATATATAT
1 AAATATTAA-AAAATATAT
*
163044 AAATATTATAAAAATATGT
1 AAATATTA-AAAAATATAT
* *
163063 ATATATAAAAAAAT-TAT
1 AAATATTAAAAAATATAT
163080 AAAT
1 AAAT
163084 TAAATATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 21 0.64
20 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATTAAAAAATATAT
Found at i:163745 original size:13 final size:13
Alignment explanation
Indices: 163708--163747 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
163698 TTGATATTGA
163708 AAAATAAATA-TT
1 AAAATAAATATTT
*
163720 AAAATAATTTATTT
1 AAAATAA-ATATTT
163734 AAAATAAATATTT
1 AAAATAAATATTT
163747 A
1 A
163748 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:164924 original size:16 final size:16
Alignment explanation
Indices: 164903--164946 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
164893 ACCGTCGGCT
164903 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
164919 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
164935 GAGGCGGCTGGA
1 GAGGCGGCTGGA
164947 TTAGGGTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.57, T:0.07
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:165053 original size:2 final size:2
Alignment explanation
Indices: 165048--165077 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
165038 TTTATGTGTG
165048 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
165078 ATAATATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:165083 original size:3 final size:3
Alignment explanation
Indices: 165075--165180 Score: 122
Period size: 3 Copynumber: 35.3 Consensus size: 3
165065 ATATATATAT
* * * * *
165075 ATA ATA ATA TTA ATA ATA ATA TTT ATA ATA ATA ATA ATA ATA ATA TTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
165123 ATA GTA ATA ATA ATA TTT ATA GTA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
165171 ATA ATA ATA A
1 ATA ATA ATA A
165181 ACAAATCAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:165084 original size:12 final size:12
Alignment explanation
Indices: 165048--165176 Score: 91
Period size: 12 Copynumber: 11.2 Consensus size: 12
165038 TTTATGTGTG
165048 TATATAT-AT-A
1 TATATATAATAA
165058 TATATAT-ATATA
1 TATATATAATA-A
165070 TATATATAATAA
1 TATATATAATAA
165082 TAT-TAATAATAA
1 TATAT-ATAATAA
*
165094 TATTTATAATAA
1 TATATATAATAA
165106 TA-ATAATAATAA
1 TATAT-ATAATAA
* *
165118 TATTTATAGT-A
1 TATATATAATAA
165129 -ATA-ATAAT-A
1 TATATATAATAA
*
165138 TTTATAGTAATAA
1 TATATA-TAATAA
165151 TA-ATAATAATAA
1 TATAT-ATAATAA
165163 TAGTA-ATAATAA
1 TA-TATATAATAA
165175 TA
1 TA
165177 ATAAACAAAT
Statistics
Matches: 98, Mismatches: 7, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
9 5 0.05
10 13 0.13
11 4 0.04
12 67 0.68
13 8 0.08
14 1 0.01
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (12 bp):
TATATATAATAA
Found at i:165084 original size:18 final size:16
Alignment explanation
Indices: 165051--165180 Score: 108
Period size: 15 Copynumber: 8.1 Consensus size: 16
165041 ATGTGTGTAT
165051 ATATATATATATATATATA
1 ATATATA-ATA-ATA-ATA
*
165070 TATATATAATAATATTA
1 -ATATATAATAATAATA
* *
165087 ATA-ATAATATTTATA
1 ATATATAATAATAATA
165102 ATA-ATAATAATAATA
1 ATATATAATAATAATA
*
165117 ATATTTATAGTAATAATA
1 ATA--TATAATAATAATA
* *
165135 ATAT-TTATAGTAATA
1 ATATATAATAATAATA
165150 ATA-ATAATAATAATA
1 ATATATAATAATAATA
*
165165 GTA-ATAATAATAATA
1 ATATATAATAATAATA
165180 A
1 A
165181 ACAAATCAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
15 59 0.64
16 4 0.04
17 2 0.02
18 17 0.18
19 3 0.03
20 7 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATATATAATAATAATA
Found at i:167967 original size:54 final size:57
Alignment explanation
Indices: 167855--167968 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 57
167845 CATAATTTGG
* *** *
167855 ATTATATTTGAGCTATATCTTTATTATTATGGGAAACTGATATTTTGAATATATTTAAT
1 ATTATATTTGAGCTATATCTTTATTATTAT--GAAACTGATAATCACAATATAATTAAT
* *
167914 ATTATATTTGAGCTAT-TCTTTATTATT-T-AAACTGATAATCACTATTTAATTAAT
1 ATTATATTTGAGCTATATCTTTATTATTATGAAACTGATAATCACAATATAATTAAT
167968 A
1 A
167969 ATTAAAAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 20 0.42
57 1 0.02
58 11 0.23
59 16 0.33
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (57 bp):
ATTATATTTGAGCTATATCTTTATTATTATGAAACTGATAATCACAATATAATTAAT
Found at i:170030 original size:34 final size:33
Alignment explanation
Indices: 169954--170060 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 33
169944 GTGGTAAGAA
* *
169954 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
169988 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
170023 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
170057 ATTT
1 ATTT
170061 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 33 0.54
35 9 0.15
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:170042 original size:36 final size:34
Alignment explanation
Indices: 169987--170065 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
169977 TTTAAATAGT
*
169987 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
170019 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
170053 TATTATTTATTTA
1 TATTATTTTTTTA
170066 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:170227 original size:17 final size:17
Alignment explanation
Indices: 170205--170258 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
170195 AATGTTAATA
170205 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
170222 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
170239 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
170256 TTT
1 TTT
170259 TATAATGTAT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:177384 original size:19 final size:19
Alignment explanation
Indices: 177374--177441 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
177364 TCGTAATTCT
177374 TTTTCAGATTCATAAATCA
1 TTTTCAGATTCATAAATCA
*
177393 TTTTCAGATTCA-AAGCTCA
1 TTTTCAGATTCATAA-ATCA
*
177412 ATTTCATG-TTCA-AAACTCA
1 TTTTCA-GATTCATAAA-TCA
177431 TTTTCAGATTC
1 TTTTCAGATTC
177442 TTGACTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.07
19 37 0.90
20 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.41
Consensus pattern (19 bp):
TTTTCAGATTCATAAATCA
Found at i:196917 original size:24 final size:24
Alignment explanation
Indices: 196890--196941 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
196880 GACATGTCCT
* *
196890 TTGACGTTCCAATAGATATGCCAC
1 TTGACGTTCAAAAAGATATGCCAC
* * *
196914 TTGATGTTCAAAAAGATGTGTCAC
1 TTGACGTTCAAAAAGATATGCCAC
196938 TTGA
1 TTGA
196942 AGTGCTAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (24 bp):
TTGACGTTCAAAAAGATATGCCAC
Found at i:199689 original size:12 final size:14
Alignment explanation
Indices: 199657--199687 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
199647 GTCCCCTATA
199657 TATATTTTTTTAAT
1 TATATTTTTTTAAT
*
199671 TATATTTTTTTATT
1 TATATTTTTTTAAT
199685 TAT
1 TAT
199688 TTACTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATATTTTTTTAAT
Found at i:199727 original size:14 final size:14
Alignment explanation
Indices: 199708--199747 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
199698 CCTCTTTTTT
199708 TTATTTATATTATA
1 TTATTTATATTATA
*
199722 TTATTTTTATTATA
1 TTATTTATATTATA
199736 TATATCTTATAT
1 T-TAT-TTATAT
199748 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:199928 original size:13 final size:13
Alignment explanation
Indices: 199910--199934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
199900 TTACTTTATT
199910 TTATTTTTTTCTA
1 TTATTTTTTTCTA
199923 TTATTTTTTTCT
1 TTATTTTTTTCT
199935 TAATATCATG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:200183 original size:48 final size:48
Alignment explanation
Indices: 200110--200210 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 48
200100 ATCTGTGTCT
* *
200110 TTATTTTTTAACATTTTATTCATTTTGTTTATTTTTATTATTTTA-TTA
1 TTATTTTTTAACATTTTATTCATTTTCTAT-TTTTTATTATTTTATTTA
* * *
200158 TTATTTTTT-ACGTATTTTGTT-ATTTTCTATTTTTTCTTGTTTTATTTA
1 TTATTTTTTAAC--ATTTTATTCATTTTCTATTTTTTATTATTTTATTTA
200206 TTATT
1 TTATT
200211 CTCACGTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
47 14 0.31
48 24 0.53
49 7 0.16
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (48 bp):
TTATTTTTTAACATTTTATTCATTTTCTATTTTTTATTATTTTATTTA
Found at i:200210 original size:22 final size:22
Alignment explanation
Indices: 200141--200210 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
200131 ATTTTGTTTA
*
200141 TTTTTATTATTTTA-TTATTAT
1 TTTTTCTTATTTTATTTATTAT
*
200162 TTTTTACGTATTTTGTTATTT-TCTAT
1 TTTTT-C-T-TATT-TTATTTAT-TAT
*
200188 TTTTTCTTGTTTTATTTATTAT
1 TTTTTCTTATTTTATTTATTAT
200210 T
1 T
200211 CTCACGTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
21 5 0.13
22 10 0.26
23 5 0.13
24 4 0.10
25 5 0.13
26 10 0.26
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTTCTTATTTTATTTATTAT
Found at i:203234 original size:13 final size:14
Alignment explanation
Indices: 203203--203253 Score: 63
Period size: 13 Copynumber: 3.8 Consensus size: 14
203193 ATCAGAACAA
*
203203 AAAGAGAAAAAAAGC
1 AAAGAGAAAATAA-C
203218 AAAGAGAAAATAA-
1 AAAGAGAAAATAAC
203231 AAAGAGAAAA-AAC
1 AAAGAGAAAATAAC
203244 AAAG-GAAAAT
1 AAAGAGAAAAT
203254 TGAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.21
13 14 0.42
15 12 0.36
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAGAAAATAAC
Found at i:203240 original size:26 final size:26
Alignment explanation
Indices: 203201--203253 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 26
203191 CAATCAGAAC
203201 AAAAAGAGAAAAAAAGCAAAGAGAAAAT
1 AAAAAGAGAAAAAAA-CAAAG-GAAAAT
203229 AAAAAGAG-AAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAAACAAAGGAAAAT
203254 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 6 0.24
28 8 0.32
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (26 bp):
AAAAAGAGAAAAAAACAAAGGAAAAT
Found at i:204948 original size:37 final size:38
Alignment explanation
Indices: 204901--204975 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
204891 GAAGATTTTA
* *
204901 TCTCGCTTGAGATAGTTTCCCTTAAAACA-AAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTAAAACATAAATATTG
* *
204938 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAATATTG
1 TCTCCCTTGAGACAGTTTCCCTTAAAACATAAATATTG
204976 AAAACATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
37 25 0.76
38 8 0.24
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTTAAAACATAAATATTG
Found at i:205029 original size:36 final size:37
Alignment explanation
Indices: 204982--205067 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
204972 ATTGAAAACA
* * *
204982 TTTCCCTTGAAACG-AATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACGAAATTTTGTATCCCTTGAGACAG
*
205018 TTTCCCTTGAAATGAAATTTTGTATCCCTTGAGACAG
1 TTTCCCTTGAAACGAAATTTTGTATCCCTTGAGACAG
*
205055 TTTCTCTTGAAAC
1 TTTCCCTTGAAAC
205068 ATAAACATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACGAAATTTTGTATCCCTTGAGACAG
Found at i:205049 original size:37 final size:36
Alignment explanation
Indices: 204982--205269 Score: 137
Period size: 36 Copynumber: 8.4 Consensus size: 36
204972 ATTGAAAACA
* * *
204982 TTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTGTATCCCTTGAGACAG
*
205018 TTTCCCTTGAAATGAAATTTTGTATCCCTTGAGACAG
1 TTTCCCTTGAAACG-AATTTTGTATCCCTTGAGACAG
* ** * *
205055 TTTCTCTTGAAAC--A-----TAAACATTGAAAACA-
1 TTTCCCTTGAAACGAATTTTGTATCCCTTG-AGACAG
** * *
205084 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTGTATCCCTTGAGACAG
* *
205120 TTTCCCTTGAAAC-AA--AT-TAT---TTGA-ATATG
1 TTTCCCTTGAAACGAATTTTGTATCCCTTGAGACA-G
*** * *
205149 TTTTATTTGAAAC-AAATTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTGTATCCCTTGAGACAG
** * * *
205184 TTTCTTTTGGAACTAAGTTT-TATCTCTCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTGTATC-C-CTTGAGACAG
* * *
205221 TTTCTCTTGAAAC-AATTTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACGAATTTT-GTATCCCTTGAGACAG
205257 TTTCCCTTGAAAC
1 TTTCCCTTGAAAC
205270 AAAATCTTTG
Statistics
Matches: 190, Mismatches: 39, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
28 2 0.01
29 34 0.18
30 4 0.02
31 2 0.01
32 4 0.02
33 1 0.01
34 1 0.01
35 24 0.13
36 64 0.34
37 51 0.27
38 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTGTATCCCTTGAGACAG
Done.