Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003031.1 Hibiscus syriacus cultivar Beakdansim tig00006311_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: 114813
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:841 original size:2 final size:2
Alignment explanation
Indices: 834--864 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
824 TGGACTAAAC
*
834 TA TA TA TA TC 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 T
865 CCACCCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3843 original size:97 final size:94
Alignment explanation
Indices: 3715--3889 Score: 262
Period size: 97 Copynumber: 1.8 Consensus size: 94
3705 TTACATTTTT
* *
3715 CAGTGAAAGTTCCAATCTATCCATGGCACCCCAACCCCCGTCTCAGCCCAAGCGACCTCGAAGGT
1 CAGTGAAAGTTCCAATCTATCCATGGCACCCCAAACCCCGTCTCAGCCC-AG-GACCTCGAAGAT
3780 CTGCTGCAACAGACGCGGTCGTTGCACTTTG
64 CTGCTGCAACAGACGCGGTCGTTGCACTTTG
* * *
3811 CAGTGAAAGTTTTCGATCTAAT-CATGGCACCCCAAACCCCGTCTCAGCCCAGGCCCTCGAAGAT
1 CAGTGAAAG-TTCCAATCT-ATCCATGGCACCCCAAACCCCGTCTCAGCCCAGGACCTCGAAGAT
3875 CTGCTGCAACAGACG
64 CTGCTGCAACAGACG
3890 TGGTGGATAG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 25 0.35
96 11 0.15
97 34 0.47
98 2 0.03
ACGTcount: A:0.25, C:0.35, G:0.21, T:0.19
Consensus pattern (94 bp):
CAGTGAAAGTTCCAATCTATCCATGGCACCCCAAACCCCGTCTCAGCCCAGGACCTCGAAGATCT
GCTGCAACAGACGCGGTCGTTGCACTTTG
Found at i:4077 original size:16 final size:16
Alignment explanation
Indices: 4056--4137 Score: 107
Period size: 16 Copynumber: 5.3 Consensus size: 16
4046 ATAAATAACG
*
4056 AACATAAACGAGCACA
1 AACATAAACGAACACA
4072 AACATAAACGAACACA
1 AACATAAACGAACACA
*
4088 AACATAAACGAACACG
1 AACATAAACGAACACA
*
4104 AACATAAATG-A-AC-
1 AACATAAACGAACACA
*
4117 AACATAAACGAACATA
1 AACATAAACGAACACA
4133 AACAT
1 AACAT
4138 TGGACCCTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
13 9 0.16
14 3 0.05
15 2 0.03
16 44 0.76
ACGTcount: A:0.60, C:0.22, G:0.09, T:0.10
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:5172 original size:33 final size:33
Alignment explanation
Indices: 5121--5183 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
5111 GGCGACCTCG
* *
5121 AAGGTCTGCTGAAACAGACGCAGTGGATGCTCA
1 AAGGTCTGATGAAACAGACACAGTGGATGCTCA
* * *
5154 AAGGTCTGATGCATCAGACACGGTGGATGC
1 AAGGTCTGATGAAACAGACACAGTGGATGC
5184 ATCCTTTGCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.19
Consensus pattern (33 bp):
AAGGTCTGATGAAACAGACACAGTGGATGCTCA
Found at i:6766 original size:68 final size:68
Alignment explanation
Indices: 6649--6782 Score: 223
Period size: 68 Copynumber: 2.0 Consensus size: 68
6639 TTGCGAAGGT
* *
6649 ATTCCTTTCACGCTTGGAATTGTGATACTTTCAAAAACATTTCCACAAAGTGGGGCAAATTATTA
1 ATTCCTTTCACGCTTGGAATTGGGATACTTTCAAAAACATTGCCACAAAGTGGGGCAAATTATTA
6714 GCA
66 GCA
* **
6717 ATTCCTTTCACGCTTGGAATTGGGATACTTTTAAAAACATTGCTGCAAAGTGGGGCAAATTATTA
1 ATTCCTTTCACGCTTGGAATTGGGATACTTTCAAAAACATTGCCACAAAGTGGGGCAAATTATTA
6782 G
66 G
6783 TAATCAACAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (68 bp):
ATTCCTTTCACGCTTGGAATTGGGATACTTTCAAAAACATTGCCACAAAGTGGGGCAAATTATTA
GCA
Found at i:9314 original size:48 final size:48
Alignment explanation
Indices: 9262--9359 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
9252 AACTTTTACA
* *
9262 AATAATTGTTTGTACAGATATTAGATATCATTGCCGATTCCATGCCCT
1 AATAATTGTTTGTACAAATATTAGATATCAGTGCCGATTCCATGCCCT
*
9310 AATAATTGTTTGTACAAATGTTAGATATCAGTGCCGATTCCATGCCCT
1 AATAATTGTTTGTACAAATATTAGATATCAGTGCCGATTCCATGCCCT
9358 AA
1 AA
9360 AGTTTGATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (48 bp):
AATAATTGTTTGTACAAATATTAGATATCAGTGCCGATTCCATGCCCT
Found at i:11478 original size:34 final size:34
Alignment explanation
Indices: 11435--11506 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
11425 GTTTTGCTCT
11435 GTGGAAGATGATTGGTGGGGCAAGGAATAGAAGG
1 GTGGAAGATGATTGGTGGGGCAAGGAATAGAAGG
11469 GTGGAAGATGATTGGTGGGGCAAGGAATAGAAGG
1 GTGGAAGATGATTGGTGGGGCAAGGAATAGAAGG
11503 GTGG
1 GTGG
11507 CGCTTGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.31, C:0.03, G:0.49, T:0.18
Consensus pattern (34 bp):
GTGGAAGATGATTGGTGGGGCAAGGAATAGAAGG
Found at i:22841 original size:2 final size:2
Alignment explanation
Indices: 22834--22867 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22824 ACATACAAAC
22834 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
22868 TACAAACCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28053 original size:27 final size:25
Alignment explanation
Indices: 27991--28053 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
27981 ATTTAGTCAC
*
27991 TTTATGTATTTTGTTTTATTATTTA
1 TTTATGAATTTTGTTTTATTATTTA
*
28016 TTCATGAATTTTGTGTTGTATT-TTTAA
1 TTTATGAATTTTGT-TT-TATTATTT-A
*
28043 TTTATGCATTT
1 TTTATGAATTT
28054 AAATCACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 12 0.39
26 5 0.16
27 14 0.45
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.65
Consensus pattern (25 bp):
TTTATGAATTTTGTTTTATTATTTA
Found at i:30740 original size:22 final size:20
Alignment explanation
Indices: 30665--30742 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 20
30655 ATTTCCTTTG
30665 TTGCATTTA-CATTTTGCATT
1 TTGCA-TTAGCATTTTGCATT
**
30685 TTGCATTCCCATTTTTGCATCT
1 TTGCATTAGCA-TTTTGCAT-T
30707 TTGCATGT-GCATCTTTGCAATT
1 TTGCAT-TAGCAT-TTTGC-ATT
30729 TTGCATTAGCATTT
1 TTGCATTAGCATTT
30743 ATACATCGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
19 2 0.04
20 7 0.14
21 12 0.24
22 25 0.51
23 3 0.06
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (20 bp):
TTGCATTAGCATTTTGCATT
Found at i:32121 original size:13 final size:13
Alignment explanation
Indices: 32103--32153 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
32093 GAGAAAACAT
*
32103 AAAAGAAAGAGAG
1 AAAAGAAAGAAAG
32116 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
32129 AATAAGAAA-AAA-
1 AA-AAGAAAGAAAG
32141 ATAAAGAAAGAAA
1 A-AAAGAAAGAAA
32154 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 7 0.21
13 21 0.62
14 6 0.18
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:32124 original size:4 final size:4
Alignment explanation
Indices: 32104--32160 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
32094 AGAAAACATA
* * *
32104 AAAG AAAG AGAG AAAAG AAAG AAAG AATAAG AAAA AAAT AAAG AAAG AAA-
1 AAAG AAAG AAAG -AAAG AAAG AAAG -A-AAG AAAG AAAG AAAG AAAG AAAG
32154 AAAG AAA
1 AAAG AAA
32161 AAATAATTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
3 3 0.07
4 33 0.75
5 5 0.11
6 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:32146 original size:22 final size:23
Alignment explanation
Indices: 32116--32163 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
32106 AGAAAGAGAG
*
32116 AAAAGAAAGAAAG-AATAAGAAA
1 AAAAGAAAGAAAGAAAAAAGAAA
*
32138 AAAATAAAGAAAGAAAAAAGAAA
1 AAAAGAAAGAAAGAAAAAAGAAA
32161 AAA
1 AAA
32164 TAATTCAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (23 bp):
AAAAGAAAGAAAGAAAAAAGAAA
Found at i:32157 original size:11 final size:12
Alignment explanation
Indices: 32103--32160 Score: 57
Period size: 13 Copynumber: 4.7 Consensus size: 12
32093 GAGAAAACAT
32103 AAAAGAAAGAGAG
1 AAAAGAAAGA-AG
32116 AAAAGAAAGAAAG
1 AAAAGAAAG-AAG
*
32129 AATAAGAAA-AAA
1 AA-AAGAAAGAAG
32141 ATAAAGAAAGAA-
1 A-AAAGAAAGAAG
32153 AAAAGAAA
1 AAAAGAAA
32161 AAATAATTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 7 0.17
12 10 0.25
13 16 0.40
14 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (12 bp):
AAAAGAAAGAAG
Found at i:32874 original size:20 final size:20
Alignment explanation
Indices: 32849--32982 Score: 144
Period size: 20 Copynumber: 6.7 Consensus size: 20
32839 AATTGGGAAA
32849 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
32869 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
32889 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
32909 ATCGTAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
32930 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
32950 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
32970 TTCGCAACGCGAT
1 ATCGCAATGCGAT
32983 TTACATAGCG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 83 0.84
21 12 0.12
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:33587 original size:19 final size:20
Alignment explanation
Indices: 33537--33587 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
33527 GCAACGAGAT
33537 AATCGCAATGCGAAATAAAA
1 AATCGCAATGCGAAATAAAA
* *
33557 AAT-GCAACGCGAAA-CAAA
1 AATCGCAATGCGAAATAAAA
*
33575 AATCGCATTGCGA
1 AATCGCAATGCGA
33588 TTTTTATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 6 0.23
19 17 0.65
20 3 0.12
ACGTcount: A:0.49, C:0.20, G:0.18, T:0.14
Consensus pattern (20 bp):
AATCGCAATGCGAAATAAAA
Found at i:33624 original size:38 final size:39
Alignment explanation
Indices: 33577--33666 Score: 155
Period size: 39 Copynumber: 2.3 Consensus size: 39
33567 GAAACAAAAA
* *
33577 TCGCATTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGCGGTTACGATTTTCATT
33615 TCGCGTTGCGATTTTTATTTCGCGGTTACGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGCGGTTACGATTTTCATT
33654 TCGCGTTGCGATT
1 TCGCGTTGCGATT
33667 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 22 0.45
39 27 0.55
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.48
Consensus pattern (39 bp):
TCGCGTTGCGATTTTTATTTCGCGGTTACGATTTTCATT
Found at i:33646 original size:20 final size:19
Alignment explanation
Indices: 33577--33761 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
33567 GAAACAAAAA
* *
33577 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
33596 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
33615 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
33634 TCGCGGTTACGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
33654 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
33670 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
33687 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
33701 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
33720 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
33740 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
33760 TC
1 TC
33762 AACCAAAAGA
Statistics
Matches: 135, Mismatches: 18, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 58 0.43
20 48 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:33677 original size:39 final size:39
Alignment explanation
Indices: 33577--33677 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
33567 GAAACAAAAA
* * ** *
33577 TCGCATTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
1 TCGCGTTGCGATTTCTAGGTCGCGGTTACGATTTTCATT
* **
33615 TCGCGTTGCGATTTTTATTTCGCGGTTACGATTTTCATT
1 TCGCGTTGCGATTTCTAGGTCGCGGTTACGATTTTCATT
33654 TCGCGTTGCGATTGTCT-GGTCGCG
1 TCGCGTTGCGATT-TCTAGGTCGCG
33678 ATAGTCATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
38 22 0.39
39 32 0.57
40 2 0.04
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.46
Consensus pattern (39 bp):
TCGCGTTGCGATTTCTAGGTCGCGGTTACGATTTTCATT
Found at i:33731 original size:34 final size:33
Alignment explanation
Indices: 33649--33736 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
33639 GTTACGATTT
* *
33649 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
33682 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
33715 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
33737 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:35821 original size:42 final size:42
Alignment explanation
Indices: 35761--35883 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
35751 GCCCGACTCG
* * * *
35761 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATTCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
35803 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATTCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
35845 ACTGTCATTGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATTCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
35884 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 63 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CCTATCATTCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:37259 original size:14 final size:14
Alignment explanation
Indices: 37240--37275 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
37230 ATTGTTTAAT
37240 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
37254 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
37268 TGATTTGT
1 TGATTTGT
37276 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:37482 original size:19 final size:18
Alignment explanation
Indices: 37460--37584 Score: 85
Period size: 19 Copynumber: 7.4 Consensus size: 18
37450 TAAATTTGTG
37460 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCG-A
**
37479 TTGCGA--TTC-CCTCG-
1 TTGCGATTTTCATTTCGA
37493 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
** *
37512 TTGCGAAATT-A--GCG-
1 TTGCGATTTTCATTTCGA
37526 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
37545 TTGCGATTTTC---TCG-
1 TTGCGATTTTCATTTCGA
37559 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
37578 TTGCGAT
1 TTGCGAT
37585 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
14 25 0.31
15 1 0.01
16 11 0.14
17 11 0.14
18 1 0.01
19 32 0.40
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGA
Found at i:37501 original size:33 final size:31
Alignment explanation
Indices: 37459--37584 Score: 171
Period size: 33 Copynumber: 3.9 Consensus size: 31
37449 TTAAATTTGT
*
37459 GTTGCGATTTTCATTTCGTATTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATT--CTC
**
37492 GTTGCGATTTTCATTTCGCATTGCGAAATTAGC
1 GTTGCGATTTTCATTTCGCATTGCG--ATTCTC
37525 GTTGCGATTTTCATTTCGCATTGCGATTTTCTC
1 GTTGCGATTTTCATTTCGCATTGCGA--TTCTC
37558 GTTGCGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
37585 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.02
33 79 0.94
35 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (31 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTC
Found at i:37548 original size:66 final size:66
Alignment explanation
Indices: 37459--37583 Score: 223
Period size: 66 Copynumber: 1.9 Consensus size: 66
37449 TTAAATTTGT
*
37459 GTTGCGATTTTCATTTCGTATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
37524 C
66 C
**
37525 GTTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
37584 TAGTAATTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (66 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
C
Found at i:39894 original size:12 final size:12
Alignment explanation
Indices: 39877--39901 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39867 TCTTCGGGGA
39877 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39889 CTTTTTCTTCTT
1 CTTTTTCTTCTT
39901 C
1 C
39902 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:40110 original size:24 final size:24
Alignment explanation
Indices: 40083--40128 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
40073 ATCATCAAAA
* *
40083 TCCGTGTATTGACCAATATCAATG
1 TCCGGGTATTGACCAAGATCAATG
40107 TCCGGGTATTGACCAAGATCAA
1 TCCGGGTATTGACCAAGATCAA
40129 ATTTCGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
TCCGGGTATTGACCAAGATCAATG
Found at i:41211 original size:20 final size:20
Alignment explanation
Indices: 41186--41223 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
41176 ATTCATTTGA
*
41186 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
41206 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
41224 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:41266 original size:14 final size:16
Alignment explanation
Indices: 41246--41319 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
41236 TGAAAATCGC
41246 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
41261 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
41278 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
41297 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
41313 -TTGCGAT
1 ATTGCGAT
41320 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:41283 original size:19 final size:19
Alignment explanation
Indices: 41242--41309 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
41232 GAAATGAAAA
41242 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
41258 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
41275 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
41294 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
41310 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:41285 original size:52 final size:52
Alignment explanation
Indices: 41223--41337 Score: 131
Period size: 52 Copynumber: 2.2 Consensus size: 52
41213 AACGAGAAAA
* ***
41223 TCGCAATGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
** ** **
41275 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
41327 TCGCGTTGCGA
1 TCGCATTGCGA
41338 TAGTCTGTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:43365 original size:20 final size:19
Alignment explanation
Indices: 43330--43396 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
43320 GAAACTTAAA
43330 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
43349 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* * **
43369 ATCCCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
43388 ATCGCAACG
1 ATCGCAACG
43397 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:43404 original size:14 final size:14
Alignment explanation
Indices: 43385--43442 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
43375 ATGCGAAATG
43385 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
43399 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
43415 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
43431 AAAATCGCAACG
1 AAAATCGCAACG
43443 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:43427 original size:32 final size:33
Alignment explanation
Indices: 43377--43447 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 33
43367 CTATCCCAAT
43377 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
43410 GCGAAATG-AAATCGCAACGACAAAATCGCAAC
1 GCGAAATGAAAATCGCAACGACAAAATCGCAAC
43442 GCGAAA
1 GCGAAA
43448 CACAAATCGC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 30 0.79
33 8 0.21
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.08
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGACAAAATCGCAAC
Found at i:43476 original size:19 final size:17
Alignment explanation
Indices: 43454--43549 Score: 78
Period size: 19 Copynumber: 5.6 Consensus size: 17
43444 GAAACACAAA
43454 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGA-TTTCATT
*
43473 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
43489 TCG-TTGCGATTTCATT
1 TCGCTTGCGATTTCATT
*
43505 TCGCGTTGCGATTT--TG
1 TCGC-TTGCGATTTCATT
43521 TCG-TTGCGATTTTCATT
1 TCGCTTGCGA-TTTCATT
43538 TCGCATTGCGAT
1 TCGC-TTGCGAT
43550 AGCCATTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
14 15 0.24
15 3 0.05
16 12 0.19
17 4 0.06
18 13 0.21
19 16 0.25
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (17 bp):
TCGCTTGCGATTTCATT
Found at i:43495 original size:14 final size:14
Alignment explanation
Indices: 43476--43533 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
43466 TTTCATTTCG
43476 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
43490 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
43506 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
43522 CGTTGCGATTTT
1 CGTTGCGATTTT
43534 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:43540 original size:33 final size:33
Alignment explanation
Indices: 43459--43549 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
43449 ACAAATCGCA
43459 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
43492 TTGCGA-TTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
*
43524 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
43550 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
Found at i:43568 original size:20 final size:19
Alignment explanation
Indices: 43534--43588 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
43524 TTGCGATTTT
*
43534 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
43553 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
43573 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
43589 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:44096 original size:18 final size:18
Alignment explanation
Indices: 44070--44114 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
44060 GTCGATCAGA
*
44070 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
44088 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
44106 TGATGGCTC
1 TGATGGCTC
44115 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:45458 original size:20 final size:20
Alignment explanation
Indices: 45433--45475 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
45423 AATAGTTTCT
45433 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
45453 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
45473 GAA
1 GAA
45476 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:45767 original size:22 final size:22
Alignment explanation
Indices: 45740--45783 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45730 GATGGAGATA
45740 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
45762 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
45784 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:46032 original size:20 final size:20
Alignment explanation
Indices: 45971--46039 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
45961 GATTATGTAT
45971 TATCGCGTTGCGAAAGTCAA-
1 TATCGCGTTGCGAAAGT-AAG
* *
45991 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
46011 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
46031 TATCTCGTT
1 TATCGCGTT
46040 ACGATTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:46086 original size:41 final size:41
Alignment explanation
Indices: 46011--46088 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
46001 CGAAAGTCAG
* * *
46011 TATCGCGTTGCGAAAGTAAGTATCTCGTTACGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCACATTACGATTTTTTAT
* * *
46052 TATCGCATTGCGATAGTCAGTATCACATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCACATTACGATTTT
46089 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCACATTACGATTTTTTAT
Found at i:46103 original size:21 final size:20
Alignment explanation
Indices: 46077--46125 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
46067 GTCAGTATCA
*
46077 CATTGCGATTTTCCCAATTCG
1 CATTGCGA-TTTACCAATTCG
**
46098 CATTGCGATTTACTTATTCG
1 CATTGCGATTTACCAATTCG
46118 CATTGCGA
1 CATTGCGA
46126 ATTGGGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.39
Consensus pattern (20 bp):
CATTGCGATTTACCAATTCG
Found at i:48027 original size:55 final size:55
Alignment explanation
Indices: 47966--48219 Score: 327
Period size: 55 Copynumber: 4.6 Consensus size: 55
47956 GCAATTTTTT
* * *
47966 AAAGAAACTAAGTCCAATTTTCGGAAGTTTCTTGATTATTTTTAAATGAGCTTTC
1 AAAGAAACTAAGTCCGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTC
* * * * *
48021 AAAGAAAATAAGTCTGATTTTCAGAA-TATTCCTGATGA-TTTTAAATGAGTTTTT
1 AAAGAAACTAAGTCCGATTTTCAGAAGT-TTCTTGATGATTTTTAAATGAGCTTTC
* * *
48075 AAAGAAACTAAGTTCGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTT
1 AAAGAAACTAAGTCCGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTC
*
48130 AAAGAAACTAAG-CCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATTAGCTTTC
1 AAAGAAACTAAGTCC-GATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTC
* *
48185 AAAGAAA-TCAAGTCTGATTTTCAGAGGTTTCTTGA
1 AAAGAAACT-AAGTCCGATTTTCAGAAGTTTCTTGA
48220 CATGATGAAT
Statistics
Matches: 173, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
54 48 0.28
55 124 0.72
56 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (55 bp):
AAAGAAACTAAGTCCGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAGCTTTC
Found at i:48107 original size:109 final size:110
Alignment explanation
Indices: 47961--48219 Score: 355
Period size: 109 Copynumber: 2.4 Consensus size: 110
47951 TTAATGCAAT
* * * *
47961 TTTTTAAAGAAACTAAGTCCAATTTTCGGAAGTTTCTTGATTATTTTTAAATGAGCTTTCAAAGA
1 TTTTTAAAGAAACTAAGTTCGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGA
*
48026 AAATAAGTCTGATTTTCAGAA-TATTCCTGATGA-TTTTAAATGAG
66 AAATAAGCCTGATTTTCAGAAGT-TTCCTGATGATTTTTAAATGAG
*
48070 TTTTTAAAGAAACTAAGTTCGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTTAAAGA
1 TTTTTAAAGAAACTAAGTTCGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGA
* * *
48135 AACTAAGCCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATTAG
66 AAATAAGCCTGATTTTCAGAAGTTTCCTGATGATTTTTAAATGAG
* * *
48180 CTTTCAAAGAAA-TCAAG-TCTGATTTTCAGAGGTTTCTTGA
1 TTTTTAAAGAAACT-AAGTTC-GATTTTCAGAAGTTTCTTGA
48220 CATGATGAAT
Statistics
Matches: 134, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
109 91 0.68
110 43 0.32
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (110 bp):
TTTTTAAAGAAACTAAGTTCGATTTTCAGAAGTTTCTTGATCATTTTTAAATGAGCTTTCAAAGA
AAATAAGCCTGATTTTCAGAAGTTTCCTGATGATTTTTAAATGAG
Found at i:48411 original size:53 final size:53
Alignment explanation
Indices: 48224--48848 Score: 773
Period size: 53 Copynumber: 11.9 Consensus size: 53
48214 TCTTGACATG
* * *
48224 ATGAATTTGAAAGAAGCTAAGCATGATTTTCAGGGGTTTCTTGATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* * * *
48277 A-G-----GAAAAAAGCTAAGCTTAATTTTTAGAGGTTT-ATGATATTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
** *
48323 ATGAATAATAAAAAAAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
1 ATGAAT--TTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* ** *
48378 ATAAATTTGAAAGAATTTAAGCTTGATTTTTAGGGGTTTCTTGATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* *
48431 ATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTTATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
*
48484 ATGAATTTGAAAGAAGCTAAG-TCTAATTTTTAAGGGTTTCTTGATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCT-TAATTTTTAGGGGTTTCTTGATGTTTTCAA
* *
48537 ATGAATTTGAAAGAAGCTAAGCATAATTTTTAGGGGTTTCTTGATGTATT-AA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* * * *
48589 ATGAATTTGAAAGAGGCTAACCTTGATTTTAAGGGGTTTCTTGATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* * * * *
48642 ATAAATTTGAAAGAAGTTAAGCCTAATTTTTAGGGGTTTATTAATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* * * * *
48695 ATGAATTTGAAAGAAACTAAGCATGATTTTCAGGGGTTTCTTGAAGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* * * *
48748 ATGAATTTGAAAGAAACTAAGCATGATTTTCAGGGGTTTCTTGATGTTTTCAA
1 ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
* * * *
48801 ATTAATTTTTAAAGAAGCTAAGCCTGATATTTTAGGGGTTTCTTGATG
1 ATGAA-TTTGAAAGAAGCTAAGCTTAAT-TTTTAGGGGTTTCTTGATG
48849 ATAACTATAA
Statistics
Matches: 498, Mismatches: 60, Indels: 26
0.85 0.10 0.04
Matches are distributed among these distances:
46 12 0.02
47 27 0.05
52 47 0.09
53 330 0.66
54 48 0.10
55 34 0.07
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (53 bp):
ATGAATTTGAAAGAAGCTAAGCTTAATTTTTAGGGGTTTCTTGATGTTTTCAA
Found at i:48643 original size:211 final size:212
Alignment explanation
Indices: 48224--48848 Score: 813
Period size: 211 Copynumber: 3.0 Consensus size: 212
48214 TCTTGACATG
* * * *
48224 ATGAATTTGAAAGAAGCTAAGCATGATTTTCAGGGGTTTCTTGATGTTTTCAAA-G-----GAAA
1 ATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTGAAA
* * * * ** *
48283 AAAGCTAAGCTTAATTTTT-AGAGGTTT-ATGATATTTTCAAATGAATAATAAAAAAAAGCTAAG
66 GAAGCTAAGCATAATTTTTAAG-GGTTTCTTGATGTTTTCAAATGAAT--TTGAAAGAAGCTAAG
* ** *
48346 CTTAATTTTTAGGGGTTTCTTGATGTTTTCAAATAAATTTGAAAGAATTTAAGCTTGATTTTTAG
128 CATAATTTTTAGGGGTTTCTTGATGTTTTCAAATAAATTTGAAAGAAGCTAACCTTGATTTTTAG
48411 GGGTTTCTTGATGTTTTCAA
193 GGGTTTCTTGATGTTTTCAA
*
48431 ATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTTATGTTTTCAAATGAATTTGAAA
1 ATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTGAAA
48496 GAAGCTAAGTC-TAATTTTTAAGGGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCA
66 GAAGCTAAG-CATAATTTTTAAGGGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCA
* * * *
48560 TAATTTTTAGGGGTTTCTTGATGTATT-AAATGAATTTGAAAGAGGCTAACCTTGATTTTAAGGG
130 TAATTTTTAGGGGTTTCTTGATGTTTTCAAATAAATTTGAAAGAAGCTAACCTTGATTTTTAGGG
48624 GTTTCTTGATGTTTTCAA
195 GTTTCTTGATGTTTTCAA
* * *
48642 ATAAATTTGAAAGAAGTTAAGCCTAATTTTTAGGGGTTTATTAATGTTTTCAAATGAATTTGAAA
1 ATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTGAAA
* * * * * *
48707 GAAACTAAGCATGATTTTCAGGGGTTTCTTGAAGTTTTCAAATGAATTTGAAAGAAACTAAGCAT
66 GAAGCTAAGCATAATTTTTAAGGGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCAT
* * * *
48772 GATTTTCAGGGGTTTCTTGATGTTTTCAAATTAATTTTTAAAGAAGCTAAGCC-TGATATTTTAG
131 AATTTTTAGGGGTTTCTTGATGTTTTCAAA-TAAATTTGAAAGAAGCTAA-CCTTGAT-TTTTAG
48836 GGGTTTCTTGATG
193 GGGTTTCTTGATG
48849 ATAACTATAA
Statistics
Matches: 368, Mismatches: 36, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
207 50 0.14
208 1 0.00
210 1 0.00
211 190 0.52
212 42 0.11
213 44 0.12
214 40 0.11
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (212 bp):
ATGAATTTGAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTGAAA
GAAGCTAAGCATAATTTTTAAGGGTTTCTTGATGTTTTCAAATGAATTTGAAAGAAGCTAAGCAT
AATTTTTAGGGGTTTCTTGATGTTTTCAAATAAATTTGAAAGAAGCTAACCTTGATTTTTAGGGG
TTTCTTGATGTTTTCAA
Found at i:48962 original size:42 final size:41
Alignment explanation
Indices: 48915--49020 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 41
48905 TGAGTAAGTT
* *
48915 CTTCGGGCCATC-AGTAAGCCTTTCGAGCATGATGCTTAAATC
1 CTTCGGGCCATCTA-TAAGCCTTTCGAGCAAGATG-ATAAATC
* ** *
48957 CTTCGGGTCATCTATAAGTTTTTCGAGCAAGATGATAAGTC
1 CTTCGGGCCATCTATAAGCCTTTCGAGCAAGATGATAAATC
* *
48998 TTTCGGGCCATCCATAAGACCTT
1 CTTCGGGCCATCTATAAG-CCTT
49021 CCGGCAGAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 20 0.39
42 30 0.59
43 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (41 bp):
CTTCGGGCCATCTATAAGCCTTTCGAGCAAGATGATAAATC
Found at i:53344 original size:2 final size:2
Alignment explanation
Indices: 53337--53362 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53327 AATTTGAAAG
53337 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
53363 TGTTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53867 original size:23 final size:21
Alignment explanation
Indices: 53826--53867 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
53816 TAATAAAAAA
*
53826 ATAAAAATAAAATTTTATTTT
1 ATAAAAATAAAATTATATTTT
53847 ATAAAAATATATAATTATATT
1 ATAAAAATA-A-AATTATATT
53868 GGTGTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 1 0.06
23 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAAAAATAAAATTATATTTT
Found at i:53954 original size:53 final size:55
Alignment explanation
Indices: 53887--53989 Score: 124
Period size: 53 Copynumber: 1.9 Consensus size: 55
53877 ATGTTTTTAT
*
53887 AATTTTAAAGAAATAAAAATAA-TAA-A-AAAAATATATTAAGTTAGTTGTATACA
1 AATTTTAAAGAAATAAAAATAATTAATAGAAAAATATATTAA-TTACTTGTATACA
* * *
53940 AATTTTATAA-AAATATATATAATTAATAGAAAATTATATTAATTACTTGT
1 AATTTTA-AAGAAATAAAAATAATTAATAGAAAAATATATTAATTACTTGT
53990 GTAATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
53 17 0.40
54 5 0.12
55 8 0.19
56 12 0.29
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (55 bp):
AATTTTAAAGAAATAAAAATAATTAATAGAAAAATATATTAATTACTTGTATACA
Found at i:55188 original size:2 final size:2
Alignment explanation
Indices: 55181--55218 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
55171 AAATAACTTA
55181 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
55219 TATTTCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56932 original size:15 final size:15
Alignment explanation
Indices: 56914--56953 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
56904 CATATTAGGG
56914 ATTTTATTATTTTAA
1 ATTTTATTATTTTAA
56929 ATTTTA-TATTTTAA
1 ATTTTATTATTTTAA
*
56943 AATTTATTATT
1 ATTTTATTATT
56954 AAATATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTTATTATTTTAA
Found at i:56993 original size:35 final size:35
Alignment explanation
Indices: 56952--57022 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
56942 AAATTTATTA
56952 TTAAATATGATTTTAAGTTGATTTAGATGAAACAT
1 TTAAATATGATTTTAAGTTGATTTAGATGAAACAT
56987 TTAAATATGATTTTAAGTTGATTTAGATGAAACAT
1 TTAAATATGATTTTAAGTTGATTTAGATGAAACAT
57022 T
1 T
57023 AAAAAGTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (35 bp):
TTAAATATGATTTTAAGTTGATTTAGATGAAACAT
Found at i:58387 original size:14 final size:14
Alignment explanation
Indices: 58347--58389 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
58337 TAATACTTAA
*
58347 ATCAACTAATATTG
1 ATCAACTAATATTT
**
58361 ATCTTCT-ATATTT
1 ATCAACTAATATTT
58374 ATCAACTAATATTT
1 ATCAACTAATATTT
58388 AT
1 AT
58390 TATCCCTATT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (14 bp):
ATCAACTAATATTT
Found at i:62722 original size:3 final size:3
Alignment explanation
Indices: 62714--62801 Score: 95
Period size: 3 Copynumber: 28.7 Consensus size: 3
62704 TTCATTTAAA
* * * * *
62714 TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT AAT TAT AAT TAC TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
62762 TAT TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
62802 CAAACGAGCC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:64873 original size:20 final size:21
Alignment explanation
Indices: 64850--64901 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
64840 AGAAATTAAA
64850 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
64870 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
64892 -ATT-ATTTATT
1 AATTCATTTATT
64902 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:75135 original size:114 final size:113
Alignment explanation
Indices: 74935--75737 Score: 1112
Period size: 112 Copynumber: 7.0 Consensus size: 113
74925 TAGCAAAGAT
* *
74935 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
75000 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG-TTCAACCTTTTGC
75049 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
75114 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
** * * * * * * *
75163 TTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
*
75228 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75279 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAGTTCATAATGAGAAGAACTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC---AGAAAAAGTTCATAATGAGAAGAACTCATC
* **
75344 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75394 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAGTTCATAATGAGAAGAACT
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC-------AGAAAAAGTTCATAATGAGAAGAACT
* * **
75459 CATATGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
59 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75513 TCAAATCCATCA-CTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
75577 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75626 TCAAATCCATCA-CTTGATGGAGCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
75689 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
75738 ATAATTCTAT
Statistics
Matches: 627, Mismatches: 49, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
112 143 0.23
113 48 0.08
114 143 0.23
115 37 0.06
116 72 0.11
117 52 0.08
118 1 0.00
119 131 0.21
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:75583 original size:231 final size:226
Alignment explanation
Indices: 74935--75737 Score: 1089
Period size: 231 Copynumber: 3.5 Consensus size: 226
74925 TAGCAAAGAT
* * * *
74935 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
75000 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTCAACCTTTTGCTCAAATCCATCATCTG
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG-TTCAACCTTTTGCTCAAATCCATCATCTG
*
75065 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGT
130 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
*
75130 TCATAATGAGAAGAACTTGTTCAACCTTTTGGT
195 TCATAATGAGAAGAACTTGTTCAACCTTTT-GC
** * * * * ** *
75163 TTGAATTCATCATT-TGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TCAAATCCATC-TTCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAA--C-TCAT
*
75227 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCTT
62 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCAT
*
75292 CTGATGGATCAGCTTTTCCAAAAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
127 CTGATGGATCAGCTTTTCC---AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* *
75357 AAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
189 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
75394 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAGTTCATAATGAGAAGAACT
1 TCAAATCCATCTTCTGATGGATCAGCTTTTCC-------AAAAAAAGTTCATAATGAGAAGAACT
* **
75459 CATATGAAGAAGGAAGAA-AAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGCTCAAATCCA
59 CATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
* *
75522 TCA-CTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
123 TCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
75586 GAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
187 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* * * *
75626 TCAAATCCATC-ACTTGATGGAGCAGCTTTTCC-AGAGAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCTTC-TGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTG
* * *
75689 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
75738 ATAATTCTAT
Statistics
Matches: 507, Mismatches: 47, Indels: 45
0.85 0.08 0.08
Matches are distributed among these distances:
224 63 0.12
225 7 0.01
228 43 0.08
229 1 0.00
230 47 0.09
231 137 0.27
232 36 0.07
233 72 0.14
234 36 0.07
235 43 0.08
236 1 0.00
238 21 0.04
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (226 bp):
TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGA
TGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:75586 original size:347 final size:341
Alignment explanation
Indices: 74935--75737 Score: 1136
Period size: 347 Copynumber: 2.3 Consensus size: 341
74925 TAGCAAAGAT
* * *
74935 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATC-TCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
75000 AGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTTCAACCTTTTGCTCAAATCCATCATCT
65 AGAAGGAAGAA-AAAGTTCATAATGAGAAGAATTTG-TTCAACCTTTTGCTCAAATCCATCATCT
* * *
75064 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAG
128 GATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAAAAG
* ** * *
75129 TTCATAATGAGAAGAACTTGTTCAACCTTTTGGTTTGAATTCATCATTTGATGGATCAACATTGC
193 TTCATAATGAGAAGAACTTGTTCAACCTTTTGGCTCAAATCCATCACTTGATGGATCAACATTGC
*
75194 CAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
258 CAGGAAGAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAA
75259 GAATTTGTTCAACCTTTTGC
322 GAATTTGTTCAACCTTTTGC
75279 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAGTTCATAATGAGAAGAACTCATC
1 TCAAATCCATC-TCTGATGGATCAGCTTTTCC---AAAAAAAGTTCATAATGAGAAGAACTCATC
** *
75344 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGCTCAAATCCATCTTC
62 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATC
*
75408 TGATGGATCAGCTTTTCCAAAAAAAAAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGA
127 TGATGGATCAGCTTTTCC-------AAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
*
75473 AGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTT-GCTCAAATCCATCACTTGATGGATC
185 AGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGCTCAAATCCATCACTTGATGGATC
*** * *
75536 AGTTTTTCCAGAGAA-AGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCAT
250 AACATTGCCAG-GAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAATTCAT
75598 AATAAGAAGAATTTGTTCAACCTTTTGC
314 AATAAGAAGAATTTGTTCAACCTTTTGC
* * * *
75626 TCAAATCCATCACTTGATGGAGCAGCTTTTCC-AGAGAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCTC-TGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
75690 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
65 AGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
75738 ATAATTCTAT
Statistics
Matches: 413, Mismatches: 32, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
343 67 0.16
344 36 0.09
345 36 0.09
346 11 0.03
347 141 0.34
348 1 0.00
350 45 0.11
351 6 0.01
352 70 0.17
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (341 bp):
TCAAATCCATCTCTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATCTGAT
GGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAAAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTTTGGCTCAAATCCATCACTTGATGGATCAACATTGCCAG
GAAGAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAAT
TTGTTCAACCTTTTGC
Found at i:75750 original size:112 final size:113
Alignment explanation
Indices: 74935--75737 Score: 1066
Period size: 114 Copynumber: 7.0 Consensus size: 113
74925 TAGCAAAGAT
* *
74935 TCAAATCCATCA-TCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTG
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCCAG-AAAAGTTCATAATGAGAAGAACTCATCTG
*
74999 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG-TTCAACCTTTTGC
75049 TCAAATCCATCA-TCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCCAG-AAAAGTTCATAATGAGAAGAACTCATCTG
* * *
75113 AAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
** * * * * * *
75163 TTGAATTCATCA-TTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCAT
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCCA-GAAAAGTTCATAATGAGAAGAA--C-TCAT
*
75227 CTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
62 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75279 TCAAATCCATC-TTCTGATGGATCAGCTTTTCCAAAAAAAAAAGTTCATAATGAGAAGAACTCAT
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCC----AGAAAAGTTCATAATGAGAAGAACTCAT
* **
75343 CTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
62 CTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75394 TCAAATCCATC-TTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAGTTCATAATGAGAAGAAC
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCC--------AGAAAAGTTCATAATGAGAAGAAC
* * **
75458 TCATATGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
58 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
75513 TCAAATCCATCACT-TGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCCAGA-AAAGTTCATAATGAGAAGAACTCATCTG
*
75577 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
75626 TCAAATCCATCACT-TGATGGAGCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTCTGATGGATCAGCTTTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTGA
* *
75690 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
75738 ATAATTCTAT
Statistics
Matches: 628, Mismatches: 44, Indels: 36
0.89 0.06 0.05
Matches are distributed among these distances:
111 2 0.00
112 141 0.22
113 49 0.08
114 142 0.23
115 38 0.06
116 72 0.11
117 52 0.08
119 130 0.21
120 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTCTGATGGATCAGCTTTTCCAGAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:76473 original size:76 final size:76
Alignment explanation
Indices: 76145--76936 Score: 1376
Period size: 76 Copynumber: 10.5 Consensus size: 76
76135 CTATTTCCCA
*
76145 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76209 AGCCTTAGGGT
66 AGCCTTCGGGT
*
76220 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76284 AGCCTTAGGGT
66 AGCCTTCGGGT
* *
76295 CATCTGTAAGTCCTTCAGTGCATGATGTTCCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76359 AGCCTTAGGGT
66 AGCCTTCGGGT
*
76370 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76435 ATCCTTCGGGT
66 AGCCTTCGGGT
*
76446 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76511 ATCCTTCGGGT
66 AGCCTTCGGGT
*
76522 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76587 ATCCTTCGGGT
66 AGCCTTCGGGT
*
76598 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76663 ATCCTTCGGGT
66 AGCCTTCGGGT
*
76674 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
76739 AGCC-TCAGGGT
66 AGCCTTC-GGGT
76750 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
76815 AGCCTTCGGGT
66 AGCCTTCGGGT
*
76826 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
76891 AGCCTTCAGGT
66 AGCCTTCGGGT
*
76902 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
76937 CATTTCCATC
Statistics
Matches: 700, Mismatches: 14, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
75 210 0.30
76 488 0.70
77 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:77070 original size:3 final size:3
Alignment explanation
Indices: 77062--77152 Score: 101
Period size: 3 Copynumber: 29.7 Consensus size: 3
77052 TTCATTTAAA
* * * *
77062 TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT AAT TAT AAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
77110 TAA TAT TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
77153 CAAACGGGCC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
3 68 0.92
4 6 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:79227 original size:20 final size:21
Alignment explanation
Indices: 79204--79255 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
79194 AGAAATTAAA
79204 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
79224 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
79246 -ATT-ATTTATT
1 AATTCATTTATT
79256 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:89489 original size:114 final size:113
Alignment explanation
Indices: 89289--90092 Score: 1105
Period size: 112 Copynumber: 7.0 Consensus size: 113
89279 TAGCAAAGAT
* *
89289 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATTAGAAGAGCTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
89354 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTG-TTCAACCTTTTGC
89403 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
89468 AGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
** * * * * * * *
89517 TTGAATTCATCATTTGATGGATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAA--C-TCATC
*
89582 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
89633 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAGTTCATAATGAGAAGAACTCATC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC---AGAAAAAGTTCATAATGAGAAGAACTCATC
* **
89698 TGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
89748 TCAAATCCATCTTCTGATGGATCAGCTTTTCCAAAAAAAAAAAAAAAGTTCATAATGAGAAGAAC
1 TCAAATCCATCATCTGATGGATCAGCTTTTCC--------AGAAAAAGTTCATAATGAGAAGAAC
* * **
89813 TCATATGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGC
58 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
89868 TCAAATCCATCA-CTTGATGGATCAGTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
*
89932 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
89981 TCAAATCCATCA-CTTGATGGAGCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATC-TGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
90044 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
90093 ATAATTCTAT
Statistics
Matches: 627, Mismatches: 49, Indels: 30
0.89 0.07 0.04
Matches are distributed among these distances:
112 143 0.23
113 48 0.08
114 143 0.23
115 37 0.06
116 72 0.11
117 52 0.08
119 22 0.04
120 110 0.18
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:90830 original size:76 final size:76
Alignment explanation
Indices: 90502--91293 Score: 1367
Period size: 76 Copynumber: 10.5 Consensus size: 76
90492 CTATTTCCCA
*
90502 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90566 AGCCTTAGGGT
66 AGCCTTCGGGT
*
90577 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90641 AGCCTTAGGGT
66 AGCCTTCGGGT
* *
90652 CATCTGTAAGTCCTTCAGTGCATGATGTTCCCAAAAAGCCTTCGGGATCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90716 AGCCTTAGGGT
66 AGCCTTCGGGT
*
90727 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAGAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90792 ATCCTTCGGGT
66 AGCCTTCGGGT
* *
90803 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGCTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90868 ATCCTTCGGGT
66 AGCCTTCGGGT
*
90879 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
90944 ATCCTTCGGGT
66 AGCCTTCGGGT
*
90955 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
91020 ATCCTTCGGGT
66 AGCCTTCGGGT
*
91031 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
91096 AGCC-TCAGGGT
66 AGCCTTC-GGGT
91107 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
91172 AGCCTTCGGGT
66 AGCCTTCGGGT
*
91183 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
91248 AGCCTTCAGGT
66 AGCCTTCGGGT
*
91259 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
91294 CATTTCCATC
Statistics
Matches: 698, Mismatches: 16, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
75 210 0.30
76 486 0.70
77 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:91427 original size:3 final size:3
Alignment explanation
Indices: 91419--91506 Score: 104
Period size: 3 Copynumber: 28.7 Consensus size: 3
91409 TTCATTTAAA
* * * *
91419 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT AAT TAC TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
91467 TAT TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
91507 CAAACGGGCC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 67 0.92
4 6 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:93578 original size:20 final size:21
Alignment explanation
Indices: 93555--93606 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
93545 AGAAATTAAA
93555 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
93575 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
93597 -ATT-ATTTATT
1 AATTCATTTATT
93607 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:100455 original size:2 final size:2
Alignment explanation
Indices: 100400--100438 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
100390 ACATACATAC
*
100400 AT AT AT AT AT AT AT AT AC 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
100439 ATTATTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:104118 original size:24 final size:24
Alignment explanation
Indices: 104079--104145 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
104069 TCATCATGGG
*
104079 CTCCACATCATCTTGTCCACTAGA
1 CTCCACATCATATTGTCCACTAGA
* * * **
104103 CTCCATATTATTTTGTTTACTAGA
1 CTCCACATCATATTGTCCACTAGA
104127 CTCCACATCATATTGTCCA
1 CTCCACATCATATTGTCCA
104146 TGAGAATCAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.30, G:0.07, T:0.37
Consensus pattern (24 bp):
CTCCACATCATATTGTCCACTAGA
Found at i:105169 original size:17 final size:17
Alignment explanation
Indices: 105147--105183 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
105137 ATACACTGTA
*
105147 CAAGAATTTAAAAAGGG
1 CAAGAATTAAAAAAGGG
105164 CAAGAATTAAAAAAGGG
1 CAAGAATTAAAAAAGGG
105181 CAA
1 CAA
105184 CTTATAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.08, G:0.22, T:0.14
Consensus pattern (17 bp):
CAAGAATTAAAAAAGGG
Found at i:113196 original size:224 final size:224
Alignment explanation
Indices: 112776--113202 Score: 628
Period size: 224 Copynumber: 1.9 Consensus size: 224
112766 TGAAAACCAG
* * *
112776 ATCAGAGTATTGTAGCAAGTATGCTTTGCCAAAGAAAATGCTTCCCTATAGCCATAAGGAGACAC
1 ATCAGAATACTGTAGCAAGTATGCTTTGCCAAAGAAAAGGCTTCCCTATAGCCATAAGGAGACAC
* * *
112841 TGCATGTTAGCTATAGTAACAAATCATAATTCGTCTCAAAGACTGTCATTATACTTAGTTTCTCT
66 TGCATGTTAGCTACAATAACAAATCATAATTCGTCTCAAAGACTGTCATTATACTTAGTTTCTCG
* * * * ** * *
112906 GTCTAAGCTTTCGTGGTTTTTGATGCAATAGGATCCATATAAATGGCAAGTTGTAGAGCCTACAC
131 GTCTAAGATTTCATGGTTTTTGAAGCAATAGGATCCATATAAATGGAAAGTTACAAAGCATACAC
112971 CAGGAAAACTCAGTGGAGATCAAAATACA
196 CAGGAAAACTCAGTGGAGATCAAAATACA
*
113000 ATCAGAATACTGTAGCAAGTATG-TTATGCCAAA-AGAAAGGCTT-CCTCATAGCCATAAGGAGG
1 ATCAGAATACTGTAGCAAGTATGCTT-TGCCAAAGA-AAAGGCTTCCCT-ATAGCCATAAGGAGA
* *
113062 CACTGCTTGTTAGCTACAATAACAAATCATAATTCGTCTCAAAGATTGTCATTATACTTAGTTTC
63 CACTGCATGTTAGCTACAATAACAAATCATAATTCGTCTCAAAGACTGTCATTATACTTAGTTTC
*
113127 TCGGTCTAAGATTTCATGGTTTTTGAAGCGAATATGATCCATAT-AATGGAAAGTTACAAAGCAT
128 TCGGTCTAAGATTTCATGGTTTTTGAAGC-AATAGGATCCATATAAATGGAAAGTTACAAAGCAT
113191 ACACCAGGAAAA
192 ACACCAGGAAAA
113203 ATCATTAGAG
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
223 6 0.03
224 162 0.90
225 13 0.07
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (224 bp):
ATCAGAATACTGTAGCAAGTATGCTTTGCCAAAGAAAAGGCTTCCCTATAGCCATAAGGAGACAC
TGCATGTTAGCTACAATAACAAATCATAATTCGTCTCAAAGACTGTCATTATACTTAGTTTCTCG
GTCTAAGATTTCATGGTTTTTGAAGCAATAGGATCCATATAAATGGAAAGTTACAAAGCATACAC
CAGGAAAACTCAGTGGAGATCAAAATACA
Done.