Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002126.1 Hibiscus syriacus cultivar Beakdansim tig00004355_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: 1482737
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:3676 original size:35 final size:35
Alignment explanation
Indices: 3623--3697 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
3613 AAAATACTTC
* *
3623 AATTTAGGGGTTATAATGTAATTGAAGTATTTTAG
1 AATTTAGGGGTTAGAATGTAATTGAAATATTTTAG
* *
3658 AATTT-GGGGTTTAGAATGTAATTGAAATGTTTTGG
1 AATTTAGGGG-TTAGAATGTAATTGAAATATTTTAG
3693 AATTT
1 AATTT
3698 TGAACATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (35 bp):
AATTTAGGGGTTAGAATGTAATTGAAATATTTTAG
Found at i:4922 original size:30 final size:33
Alignment explanation
Indices: 4865--4940 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 33
4855 GATCCTTGAT
4865 TTTATTAAAATAA-AATTATATTATATTAATTA
1 TTTATTAAAATAAGAATTATATTATATTAATTA
*
4897 TTTATTAAAATAAGAA-TA-A-TATATTATTTA
1 TTTATTAAAATAAGAATTATATTATATTAATTA
* *
4927 CTAATTAAAATAAG
1 TTTATTAAAATAAG
4941 GGTACAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 22 0.55
31 1 0.03
32 15 0.38
33 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (33 bp):
TTTATTAAAATAAGAATTATATTATATTAATTA
Found at i:5733 original size:2 final size:2
Alignment explanation
Indices: 5726--5753 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5716 CATGTCATCA
5726 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5754 CCACTGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:12407 original size:31 final size:31
Alignment explanation
Indices: 12364--12427 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
12354 CAATACAGTC
*
12364 CCCCCAACATTTAGTCTATTTGCACTATGGT
1 CCCCCAACATTTAGTCTATTTGCAATATGGT
*
12395 CCCCTAACATTTAGTCTATTTGCAATATGGT
1 CCCCCAACATTTAGTCTATTTGCAATATGGT
12426 CC
1 CC
12428 ACGACGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.36
Consensus pattern (31 bp):
CCCCCAACATTTAGTCTATTTGCAATATGGT
Found at i:13570 original size:2 final size:2
Alignment explanation
Indices: 13563--13596 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13553 TGAATGTGCA
13563 AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13597 GGTAATTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14009 original size:3 final size:3
Alignment explanation
Indices: 14003--14062 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
13993 ACCCATTTTT
14003 TTA TTA TTGA -TA TTA TTA TTA TTA TT- TTA TTTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
**
14048 TTA AAA TTA TTA TTA
1 TTA TTA TTA TTA TTA
14063 CAAACATGCC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
2 3 0.06
3 42 0.86
4 4 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14504 original size:17 final size:19
Alignment explanation
Indices: 14473--14513 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
14463 AAGCGAGCGA
14473 CAGAGAGAGATACACACAG
1 CAGAGAGAGATACACACAG
14492 CAGAG-GAGA-ACACACAG
1 CAGAGAGAGATACACACAG
14509 -AGAGA
1 CAGAGA
14514 AAAGAAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.19
17 8 0.38
18 4 0.19
19 5 0.24
ACGTcount: A:0.49, C:0.20, G:0.29, T:0.02
Consensus pattern (19 bp):
CAGAGAGAGATACACACAG
Found at i:15726 original size:26 final size:28
Alignment explanation
Indices: 15661--15728 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 28
15651 AAAAAATAAA
15661 TATTTTAATATATAAATCTGTTTTTATAT
1 TATTTTAATAT-TAAATCTGTTTTTATAT
*
15690 TATTTT-CTATTAAAT-T-TTATTTAT-T
1 TATTTTAATATTAAATCTGTT-TTTATAT
15715 TATTTTAATATTAA
1 TATTTTAATATTAA
15729 GAAAGGAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
25 9 0.26
26 12 0.34
27 5 0.14
28 3 0.09
29 6 0.17
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (28 bp):
TATTTTAATATTAAATCTGTTTTTATAT
Found at i:16261 original size:31 final size:31
Alignment explanation
Indices: 16222--16288 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
16212 ACATACGTCA
* * *
16222 GGGG-CCATATTACAAACGGACTAAATGTTG
1 GGGGACCATAGTACAAACGAACTAAATGCTG
* *
16252 GGGGACCATAGTGCAAATGAACTAAATGCTG
1 GGGGACCATAGTACAAACGAACTAAATGCTG
16283 GGGGAC
1 GGGGAC
16289 TGTATTGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.19
Consensus pattern (31 bp):
GGGGACCATAGTACAAACGAACTAAATGCTG
Found at i:16652 original size:36 final size:36
Alignment explanation
Indices: 16605--16708 Score: 190
Period size: 36 Copynumber: 2.9 Consensus size: 36
16595 TTAGTTGAGT
* *
16605 ATATCAGCTTTGATACATTCGTTTATCAATGTTATC
1 ATATCAGCTTTGGTACATTCGTGTATCAATGTTATC
16641 ATATCAGCTTTGGTACATTCGTGTATCAATGTTATC
1 ATATCAGCTTTGGTACATTCGTGTATCAATGTTATC
16677 ATATCAGCTTTGGTACATTCGTGTATCAATGT
1 ATATCAGCTTTGGTACATTCGTGTATCAATGT
16709 CCAGCACCGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (36 bp):
ATATCAGCTTTGGTACATTCGTGTATCAATGTTATC
Found at i:18910 original size:23 final size:22
Alignment explanation
Indices: 18880--18959 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
18870 GCATGGCCTT
18880 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
18902 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
18924 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
18946 ATGCATTGATGCAC
1 GTGCATCGATGCAC
18960 TGTTAGGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 15 0.33
22 15 0.33
23 16 0.35
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:18934 original size:44 final size:42
Alignment explanation
Indices: 18858--18978 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
18848 CAAACCCGAT
* ** *
18858 GGATGCATCGATGCA-TGGCCTTGTGCATCGATGCACATTCAA
1 GGATGCATCGATGCACT-GTCAGGTGTATCGATGCACATTCAA
* *
18900 GGCGTGCATCGGTGCACCT-TCATGGTGTATCGATGCACATTCAA
1 GG-ATGCATCGATGCA-CTGTCA-GGTGTATCGATGCACATTCAA
* *
18944 GGATGCATTGATGCACTGTTAGGTGTATCGATGCA
1 GGATGCATCGATGCACTGTCAGGTGTATCGATGCA
18979 TGAAGCACAA
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
42 18 0.28
43 24 0.38
44 21 0.33
45 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (42 bp):
GGATGCATCGATGCACTGTCAGGTGTATCGATGCACATTCAA
Found at i:18936 original size:21 final size:20
Alignment explanation
Indices: 18880--18978 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 20
18870 GCATGGCCTT
18880 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTC-A-G
* *
18902 CGTGCATCGGTGCACCTTCATG
1 -GTGCATCGATGCACATTCA-G
*
18924 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTC-AG
* *
18945 GATGCATTGATGCAC-TGTTAG
1 G-TGCATCGATGCACAT-TCAG
*
18966 GTGTATCGATGCA
1 GTGCATCGATGCA
18979 TGAAGCACAA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
20 10 0.16
21 21 0.34
22 15 0.24
23 16 0.26
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCACATTCAG
Found at i:24698 original size:14 final size:15
Alignment explanation
Indices: 24673--24701 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24663 TTATTTTTGA
24673 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
24688 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
24702 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:25482 original size:65 final size:64
Alignment explanation
Indices: 25365--25554 Score: 219
Period size: 65 Copynumber: 2.9 Consensus size: 64
25355 TATCAAAGTG
*
25365 ATGCATCGATGCACCAATCCATGCATCGATGCAC-CATG-AATTAAATTG-AACATCGAATGCAT
1 ATGCATCGATGCACCAA-CCATGCATCGATGCACTCAGGCAATT---TTGAAACATCGAATGCAT
25427 TTC
62 TTC
* *
25430 ATGCATCGATGCA-CATACCATGCATCGATGCACTGAGG-ATTTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACCA-ACCATGCATCGATGCACTCAGGCAATTT-TG-AAACATCGAATGCATT
*
25493 TG
63 TC
* * *
25495 ATGCATCGATGCACCAGCCATGGATCGATGCACTCTGGCAATTTTGAAACATCGAATGCA
1 ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGCAATTTTGAAACATCGAATGCA
25555 CCGATGCACT
Statistics
Matches: 109, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 32 0.29
65 68 0.62
66 6 0.06
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (64 bp):
ATGCATCGATGCACCAACCATGCATCGATGCACTCAGGCAATTTTGAAACATCGAATGCATTTC
Found at i:26512 original size:20 final size:20
Alignment explanation
Indices: 26487--26537 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
26477 TTTGATGGTG
26487 CATCGATGCATTAAGGGGTC
1 CATCGATGCATTAAGGGGTC
*
26507 CATCGATGCATTAAGGGGTG
1 CATCGATGCATTAAGGGGTC
26527 CATCGATGCAT
1 CATCGATGCAT
26538 GGGAATTTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (20 bp):
CATCGATGCATTAAGGGGTC
Found at i:32522 original size:31 final size:31
Alignment explanation
Indices: 32469--32530 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32459 AAGAGGATAG
*
32469 AAATTGGTGAGGCTTATTAAACAATTTAATT
1 AAATTGGGGAGGCTTATTAAACAATTTAATT
*
32500 AAATTGGGGAGG-TTTTTGAAACAATTTAATT
1 AAATTGGGGAGGCTTATT-AAACAATTTAATT
32531 TTAAATTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (31 bp):
AAATTGGGGAGGCTTATTAAACAATTTAATT
Found at i:36984 original size:3 final size:3
Alignment explanation
Indices: 36976--37108 Score: 257
Period size: 3 Copynumber: 44.3 Consensus size: 3
36966 TACCCATATC
36976 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
37024 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
37072 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
37109 AATATCTTAA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 128 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37652 original size:15 final size:16
Alignment explanation
Indices: 37632--37661 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37622 ACAGAACCGG
37632 AGAGAAA-AAAAAAAT
1 AGAGAAAGAAAAAAAT
37647 AGAGAAAGAAAAAAA
1 AGAGAAAGAAAAAAA
37662 AAACAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AGAGAAAGAAAAAAAT
Found at i:49935 original size:11 final size:11
Alignment explanation
Indices: 49915--49950 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
49905 ATGCTTGAAG
49915 AAAAAA-GAAA
1 AAAAAAGGAAA
49925 AAAAAAGGAAAA
1 AAAAAAGG-AAA
49937 AAAAAAGGAAA
1 AAAAAAGGAAA
49948 AAA
1 AAA
49951 TAGAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.25
11 7 0.29
12 11 0.46
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAAA
Found at i:49937 original size:12 final size:12
Alignment explanation
Indices: 49922--49950 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
49912 AAGAAAAAAG
49922 AAAAAAAAAGGA
1 AAAAAAAAAGGA
49934 AAAAAAAAAGGA
1 AAAAAAAAAGGA
49946 AAAAA
1 AAAAA
49951 TAGAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGGA
Found at i:49964 original size:16 final size:15
Alignment explanation
Indices: 49915--49984 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
49905 ATGCTTGAAG
*
49915 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAGAAA
* *
49930 AGGAAAAAAAAAAGGAA
1 A--AAAAAGAAAAGAAA
*
49947 AAAATAGAAAATGAAA
1 AAAAAAGAAAA-GAAA
*
49963 AAAAAAGAGAAGAAA
1 AAAAAAGAAAAGAAA
*
49978 AAGAAAG
1 AAAAAAG
49985 GGGGTCAAGG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
15 19 0.44
16 12 0.28
17 12 0.28
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AAAAAAGAAAAGAAA
Found at i:49968 original size:11 final size:10
Alignment explanation
Indices: 49915--49983 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
49905 ATGCTTGAAG
49915 AAAAAAGAAA
1 AAAAAAGAAA
*
49925 AAAAAAGGAA
1 AAAAAAGAAA
*
49935 AAAAAA-AAG
1 AAAAAAGAAA
* *
49944 GAAAAA-ATA
1 AAAAAAGAAA
* *
49953 GAAAATGAAA
1 AAAAAAGAAA
49963 AAAAAAGAGAA
1 AAAAAAGA-AA
*
49974 GAAAAAGAAA
1 AAAAAAGAAA
49984 GGGGGTCAAG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 12 0.26
10 25 0.54
11 9 0.20
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:49982 original size:27 final size:27
Alignment explanation
Indices: 49919--49983 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
49909 TTGAAGAAAA
49919 AAGAAAAA-AAAAGGAAAAAAAAAAGG
1 AAGAAAAAGAAAAGGAAAAAAAAAAGG
*
49945 AA-AAAATAGAAAATG-AAAAAAAAAGAG
1 AAGAAAA-AGAAAAGGAAAAAAAAAAG-G
49972 AAGAAAAAGAAA
1 AAGAAAAAGAAA
49984 GGGGGTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
25 4 0.12
26 13 0.38
27 13 0.38
28 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (27 bp):
AAGAAAAAGAAAAGGAAAAAAAAAAGG
Found at i:51273 original size:52 final size:52
Alignment explanation
Indices: 51213--51313 Score: 193
Period size: 52 Copynumber: 1.9 Consensus size: 52
51203 ATTTGCCAAT
*
51213 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
51265 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
51314 CAATCATTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (52 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
Found at i:51371 original size:134 final size:135
Alignment explanation
Indices: 51130--51395 Score: 498
Period size: 134 Copynumber: 2.0 Consensus size: 135
51120 GAGACTCAAT
51130 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAGTTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAGTTTA
*
51195 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGGACAG
66 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAG
51260 AATCA
131 AATCA
*
51265 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA-CAATCATTGAGTTTA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAGTTTA
*
51329 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
66 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAG
51394 AA
131 AA
51396 CAATTATTGA
Statistics
Matches: 128, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
134 79 0.62
135 49 0.38
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (135 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAGTTTA
GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAG
AATCA
Found at i:51405 original size:82 final size:82
Alignment explanation
Indices: 51265--51477 Score: 408
Period size: 82 Copynumber: 2.6 Consensus size: 82
51255 GACAGAATCA
51265 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAG
51330 AAGATGAATTTGCCAAT
66 AAGATGAATTTGCCAAT
* *
51347 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATTATTGAGTTTAG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAG
51412 AAGATGAATTTGCCAAT
66 AAGATGAATTTGCCAAT
51429 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
51478 TCAAGCATCT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 128 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (82 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAG
AAGATGAATTTGCCAAT
Found at i:51485 original size:134 final size:134
Alignment explanation
Indices: 51347--51619 Score: 510
Period size: 134 Copynumber: 2.0 Consensus size: 134
51337 ATTTGCCAAT
* * *
51347 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATTATTGAGTTTAG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAA
51412 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGA
66 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGA
51477 ATCA
131 ATCA
51481 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAA
*
51546 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGATAGA
66 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGA
51611 ATCA
131 ATCA
51615 AGCAT
1 AGCAT
51620 TGAATTTGGA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (134 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAA
AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGA
ATCA
Found at i:51489 original size:52 final size:52
Alignment explanation
Indices: 51429--51529 Score: 202
Period size: 52 Copynumber: 1.9 Consensus size: 52
51419 ATTTGCCAAT
51429 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
51481 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
51530 CAATCATTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCA
Found at i:51501 original size:216 final size:217
Alignment explanation
Indices: 51126--51684 Score: 1030
Period size: 216 Copynumber: 2.6 Consensus size: 217
51116 GAAAGAGACT
51126 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAG
51191 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGG
51256 ACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCAT
131 ACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCAT
*
51321 TGAGTTTAGAAGATGAATTTGC
196 TGAGTTTAAAAGATGAATTTGC
* **
51343 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATTATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAG
*
51407 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGG
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGG
51472 ACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCAT
131 ACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCAT
51537 TGAGTTTAAAAGATGAATTTGC
196 TGAGTTTAAAAGATGAATTTGC
* *
51559 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGATAGAATCAAGCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAG
* *
51624 TTTGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGA
66 TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGA
51685 AGAAGTGCAT
Statistics
Matches: 328, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
216 210 0.64
217 118 0.36
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (217 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATCAAGCATTGAG
TTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTGG
ACAGAATCAAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCAT
TGAGTTTAAAAGATGAATTTGC
Found at i:51667 original size:83 final size:82
Alignment explanation
Indices: 51481--51684 Score: 336
Period size: 83 Copynumber: 2.5 Consensus size: 82
51471 GACAGAATCA
* *
51481 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAATCATTGAGTTTAA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAAGCATTGAATTTAA
51546 AAGATGAATTTGCCAAT
66 AAGATGAATTTGCCAAT
* *
51563 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGATAGAATCAAGCATTGAATTTG
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA-CAAGCATTGAATTTA
* *
51628 GAAGATGAATTTGCTAAT
65 AAAGATGAATTTGCCAAT
*
51646 AGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGA
1 AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGA
51685 AGAAGTGCAT
Statistics
Matches: 114, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 48 0.42
83 66 0.58
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (82 bp):
AGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAACAAGCATTGAATTTAA
AAGATGAATTTGCCAAT
Found at i:52551 original size:113 final size:113
Alignment explanation
Indices: 52228--52789 Score: 842
Period size: 113 Copynumber: 5.0 Consensus size: 113
52218 ACAAAGATTC
* *
52228 AAATCCATCATTTGATGGATCAACATTGCCAGA-TAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
52292 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACTTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
*
52340 AAATTCATCATTTGATGGATCAACATTGCCAGA-TAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
52404 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
52452 AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * ** *
52517 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTAATCT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * * *** *
52565 GAATTCATCACTGGATGGATTATTTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* ***
52630 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
* * * * *
52678 GAATTCATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
52743 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACC-TTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
52790 GATACTATCA
Statistics
Matches: 418, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
112 147 0.35
113 271 0.65
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
AAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
Found at i:53113 original size:3 final size:3
Alignment explanation
Indices: 53105--53270 Score: 296
Period size: 3 Copynumber: 55.3 Consensus size: 3
53095 TACCCATATC
53105 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
53153 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
53201 ATT ATT ATC ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
53249 ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
53271 AATATCTTAA
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 155 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:53814 original size:15 final size:16
Alignment explanation
Indices: 53794--53823 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53784 ACAGAACCGG
53794 AGAGAAA-AAAAAAAC
1 AGAGAAAGAAAAAAAC
53809 AGAGAAAGAAAAAAA
1 AGAGAAAGAAAAAAA
53824 AACAACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAAAAAC
Found at i:54702 original size:19 final size:19
Alignment explanation
Indices: 54664--54699 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
54654 TAATTTAGTC
54664 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
54683 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
54700 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:54765 original size:20 final size:21
Alignment explanation
Indices: 54728--54768 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
54718 AGAATTTTTC
**
54728 TTTTATTATATTGTTAAATAT
1 TTTTATTATATTCATAAATAT
54749 TTTTA-TATATTCATAAATAT
1 TTTTATTATATTCATAAATAT
54769 ATATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATTATATTCATAAATAT
Found at i:54968 original size:16 final size:17
Alignment explanation
Indices: 54949--54981 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54939 TTTTTTTCTG
*
54949 ATAT-TTTTTTAAATAA
1 ATATATTTTTGAAATAA
54965 ATATATTTTTGAAATAA
1 ATATATTTTTGAAATAA
54982 TAAGATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
ATATATTTTTGAAATAA
Found at i:58655 original size:29 final size:29
Alignment explanation
Indices: 58620--58705 Score: 145
Period size: 29 Copynumber: 2.9 Consensus size: 29
58610 AAACTAAATT
*
58620 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
58649 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
58678 GATGTCATTGCTTACATCAATTTAATTA
1 GATGTCATTGCTTACATC-ATTTAATTA
58706 GGTGAGAGTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
29 45 0.83
30 9 0.17
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:60012 original size:15 final size:15
Alignment explanation
Indices: 59989--60018 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59979 ACGAGGCTGG
59989 AATTACAACAACAAC
1 AATTACAACAACAAC
*
60004 AATTCCAACAACAAC
1 AATTACAACAACAAC
60019 TATGAGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTACAACAACAAC
Found at i:63413 original size:29 final size:29
Alignment explanation
Indices: 63378--63459 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
63368 AAACTAAATT
* *
63378 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
63407 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
63436 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
63460 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:63804 original size:2 final size:2
Alignment explanation
Indices: 63799--63839 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
63789 AAGTGTTTTC
63799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63840 CACTTTCTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64745 original size:22 final size:21
Alignment explanation
Indices: 64720--64769 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
64710 AATTAAAACT
*
64720 TTAAATTAATAAATTTTATCAA
1 TTAAATTAATAAATTTAATC-A
*
64742 TTAAATTATTAAATTTAATCA
1 TTAAATTAATAAATTTAATCA
64763 TTAAATT
1 TTAAATT
64770 TTAATGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATTAATAAATTTAATCA
Found at i:68609 original size:25 final size:24
Alignment explanation
Indices: 68577--68636 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
68567 ATTTAAGGGG
68577 ATTT-TATTTTTTAAAATATATAAA
1 ATTTATATTTTTTAAAATAT-TAAA
* *
68601 ATTTATATTTTTTTAAATCTTAAA
1 ATTTATATTTTTTAAAATATTAAA
68625 ATTTAGTATTTT
1 ATTTA-TATTTT
68637 ATTTTCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTTATATTTTTTAAAATATTAAA
Found at i:74935 original size:21 final size:21
Alignment explanation
Indices: 74911--74951 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
74901 GATTAATAAT
74911 AAAAAAATAATAGAAAAAACA
1 AAAAAAATAATAGAAAAAACA
* * *
74932 AAAATAATTATAGATAAAAC
1 AAAAAAATAATAGAAAAAAC
74952 TTAACTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (21 bp):
AAAAAAATAATAGAAAAAACA
Found at i:75446 original size:32 final size:32
Alignment explanation
Indices: 75329--75447 Score: 132
Period size: 32 Copynumber: 3.7 Consensus size: 32
75319 ACCCAAACTG
* *
75329 AAAATCAACCGATCTTATATTGACTCGACCC-
1 AAAATCAACCGATCTGATATTGACCCGACCCA
* * * * * *
75360 AAAATCTAAACGATCTGTTGTTAACCCGATCTA
1 AAAATC-AACCGATCTGATATTGACCCGACCCA
*
75393 AAAATCAACTGATCTGATATTGACCCGACCCA
1 AAAATCAACCGATCTGATATTGACCCGACCCA
*
75425 AAAATCAACCGATCCGATATTGA
1 AAAATCAACCGATCTGATATTGA
75448 TCTAAATCGA
Statistics
Matches: 69, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
31 6 0.09
32 57 0.83
33 6 0.09
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (32 bp):
AAAATCAACCGATCTGATATTGACCCGACCCA
Found at i:75607 original size:15 final size:15
Alignment explanation
Indices: 75584--75615 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
75574 TCTAGACTCG
75584 AAATAACCCGACCCA
1 AAATAACCCGACCCA
*
75599 AAATGACCCGACCCA
1 AAATAACCCGACCCA
75614 AA
1 AA
75616 CCCAATCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.38, G:0.09, T:0.06
Consensus pattern (15 bp):
AAATAACCCGACCCA
Found at i:75834 original size:37 final size:37
Alignment explanation
Indices: 75748--75821 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
75738 TTTTTCAAAA
*
75748 TCATACTTAAAATTTAGTTTTTGTTTCATATTAGTATC
1 TCAT-CTTAAAAATTAGTTTTTGTTTCATATTAGTATC
* *
75786 TCATCGTTAAAAATTATTTTTTGTTTCATTTTAGTA
1 TCATC-TTAAAAATTAGTTTTTGTTTCATATTAGTA
75822 CATCTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.54
Consensus pattern (37 bp):
TCATCTTAAAAATTAGTTTTTGTTTCATATTAGTATC
Found at i:76459 original size:18 final size:18
Alignment explanation
Indices: 76438--76473 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76428 GTAGAACACA
*
76438 TATGTCCCGTAGGACCAC
1 TATGTCCCGAAGGACCAC
*
76456 TATGTCCTGAAGGACCAC
1 TATGTCCCGAAGGACCAC
76474 GTAGAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:77617 original size:19 final size:19
Alignment explanation
Indices: 77593--77644 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
77583 TTTTAAGGGG
*
77593 ATGCATCAATGCACTCCTT
1 ATGCATCGATGCACTCCTT
77612 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTCCTT
*
77631 ATGTATCGATGCAC
1 ATGCATCGATGCAC
77645 GAATTACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTT
Found at i:85259 original size:21 final size:21
Alignment explanation
Indices: 85233--85304 Score: 135
Period size: 21 Copynumber: 3.4 Consensus size: 21
85223 CCCTCTCCAA
85233 CAACTCTTCCATCTGTTGCTG
1 CAACTCTTCCATCTGTTGCTG
85254 CAACTCTTCCATCTGTTGCTG
1 CAACTCTTCCATCTGTTGCTG
*
85275 CAACTCTTCAATCTGTTGCTG
1 CAACTCTTCCATCTGTTGCTG
85296 CAACTCTTC
1 CAACTCTTC
85305 AGCCTCCTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.17, C:0.33, G:0.12, T:0.38
Consensus pattern (21 bp):
CAACTCTTCCATCTGTTGCTG
Found at i:88017 original size:20 final size:19
Alignment explanation
Indices: 87990--88027 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
87980 ATGAGTTAAA
87990 GTGATATAAGTTG-GTTTGG
1 GTGATAT-AGTTGAGTTTGG
88009 GTGAGTATAGTTGAGTTTG
1 GTGA-TATAGTTGAGTTTG
88028 ATATACTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (19 bp):
GTGATATAGTTGAGTTTGG
Found at i:90484 original size:261 final size:262
Alignment explanation
Indices: 90018--90538 Score: 965
Period size: 261 Copynumber: 2.0 Consensus size: 262
90008 TTTTCTCTTC
*
90018 GAAAATTATTTTTGAAATCAATTTTGAAAAATTCCTCCCCCTTACTTTATTATCCCCCTTTTTGT
1 GAAAATTATTTTTGAAATCAATTTTGAAAAATTCCTCCCCCTTACTTTATTATCCCCCTTTTTAT
90083 TAAATCAAAAAGACTCTATGAAAAAAAGTTTTTAAACAAGATTTTAAGAAAATAACCAATTGATT
66 TAAATCAAAAAGAC-CTATGAAAAAAAGTTTTTAAACAAGATTTTAAGAAAATAACCAATTGATT
*
90148 TATATATAGATATAACTATAGCTGCCAAGATCACAATCAAGAGAATTGTTAGCCATTAGTCCATA
130 TATATATAGATAAAACTATAGCTGCCAAGATCACAATCAAGAGAATTGTTAGCCATTAGTCCATA
90213 AAAAATATTCATAAACAATGTGTAATAGTAATTGGTCATTTTATGTCTAATATGTAAATGATGCA
195 AAAAATATTCATAAACAATGTGTAATAGTAATTGGTCATTTTATGTCTAATATGTAAATGATGCA
90278 TTT
260 TTT
*
90281 GAAAATTATTTTTGAAGTCAATTTTGAAAAATTCCTCCCCCTTACTTTATTAT-CCCCTTTTTAT
1 GAAAATTATTTTTGAAATCAATTTTGAAAAATTCCTCCCCCTTACTTTATTATCCCCCTTTTTAT
90345 TAAATCAAAAAGA-CTATGAAAAAAATGTTTTTAAACAAGATTTTAAGAAAATAACCAATTGATT
66 TAAATCAAAAAGACCTATGAAAAAAA-GTTTTTAAACAAGATTTTAAGAAAATAACCAATTGATT
*
90409 TATATATATATAAAACTATAGCTGCCAAGATCACAATCAAGAGAATTGTTAGCCATTAGTCCATA
130 TATATATAGATAAAACTATAGCTGCCAAGATCACAATCAAGAGAATTGTTAGCCATTAGTCCATA
*
90474 AAAAATATTCATAAACAATGTGTAATGGTAATTGGTCATTTTATGTCTAATATGTAAATGATGCA
195 AAAAATATTCATAAACAATGTGTAATAGTAATTGGTCATTTTATGTCTAATATGTAAATGATGCA
90539 CATACTAACA
Statistics
Matches: 252, Mismatches: 5, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
260 12 0.05
261 165 0.65
262 23 0.09
263 52 0.21
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (262 bp):
GAAAATTATTTTTGAAATCAATTTTGAAAAATTCCTCCCCCTTACTTTATTATCCCCCTTTTTAT
TAAATCAAAAAGACCTATGAAAAAAAGTTTTTAAACAAGATTTTAAGAAAATAACCAATTGATTT
ATATATAGATAAAACTATAGCTGCCAAGATCACAATCAAGAGAATTGTTAGCCATTAGTCCATAA
AAAATATTCATAAACAATGTGTAATAGTAATTGGTCATTTTATGTCTAATATGTAAATGATGCAT
TT
Found at i:92631 original size:21 final size:22
Alignment explanation
Indices: 92577--92631 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
92567 CCCTCTAGGG
*
92577 GTATCGATACTCATTCAAAAGAT
1 GTATCGATACACATTC-AAAGAT
*
92600 GTATC-AGTACACATTC-AAGGT
1 GTATCGA-TACACATTCAAAGAT
92621 GTATCGATACA
1 GTATCGATACA
92632 TAGCAAGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 13 0.46
22 2 0.07
23 13 0.46
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (22 bp):
GTATCGATACACATTCAAAGAT
Found at i:94878 original size:30 final size:30
Alignment explanation
Indices: 94842--94902 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
94832 ATTAATATTA
94842 TGCATCGATACGCTACAGTAACTACTACAG
1 TGCATCGATACGCTACAGTAACTACTACAG
* *
94872 TGCATCGATACGCTACGGTAACTGCTACAG
1 TGCATCGATACGCTACAGTAACTACTACAG
94902 T
1 T
94903 AATTTTCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (30 bp):
TGCATCGATACGCTACAGTAACTACTACAG
Found at i:95471 original size:33 final size:33
Alignment explanation
Indices: 95434--95500 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
95424 ACCGTAGTGC
*
95434 TAATCCGTATGACACATAAGGTCGTGTCCACCA
1 TAATCCGTATGACACATAAGGTAGTGTCCACCA
95467 TAATCCGTATGACACATAAGGTAGTGTCCACCA
1 TAATCCGTATGACACATAAGGTAGTGTCCACCA
95500 T
1 T
95501 CTGTACTAGG
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:0.25, G:0.18, T:0.25
Consensus pattern (33 bp):
TAATCCGTATGACACATAAGGTAGTGTCCACCA
Found at i:97511 original size:30 final size:30
Alignment explanation
Indices: 97475--97563 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
97465 ATTTGTAATT
* *
97475 TTTCCAAAATTTATATTTTGGTC-CTTGAAC
1 TTTCCAAAATTTATAATTTGGTCAC-TAAAC
* * *
97505 TTTCCAAAGTTTATACTTTGATCACTAAAC
1 TTTCCAAAATTTATAATTTGGTCACTAAAC
*
97535 TTTACC-AAATTTATAATTTGGTCATTAAA
1 TTT-CCAAAATTTATAATTTGGTCACTAAA
97564 TAAATCCATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.44
Consensus pattern (30 bp):
TTTCCAAAATTTATAATTTGGTCACTAAAC
Found at i:100157 original size:18 final size:18
Alignment explanation
Indices: 100116--100158 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
100106 AACTCCAACG
*
100116 TTCTTCTTTTTCTCTGTC
1 TTCTTCTTTGTCTCTGTC
*
100134 TCCTTCTTTGTCTC-GTCC
1 TTCTTCTTTGTCTCTGT-C
100152 TTCTTCT
1 TTCTTCT
100159 CGAGGTCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.60
Consensus pattern (18 bp):
TTCTTCTTTGTCTCTGTC
Found at i:104803 original size:167 final size:167
Alignment explanation
Indices: 104479--104808 Score: 628
Period size: 168 Copynumber: 2.0 Consensus size: 167
104469 TGACCTTAGC
104479 GTCTTTGCATGATGATGTTGATCTCTGGGTCATGTTGGAGCCACTTTTTGAACCCCGAATAATCT
1 GTCTTTGCATGATGATGTTGATCTCTGGGTCATGTTGGAGCCACTTTTTGAACCCCGAATAATCT
104544 CTAATAAAGTGGTCTAAGGAACTGTGATTAAATCAATCTCTAGATCCTACTTGTATGTCCCCATG
66 CTAATAAAGTGGTCTAAGGAACTGTGATTAAATCAATCTCTAGATCCTACTTGTATGTCCCCATG
104609 TGTTTCCTCCTACACTAAGCATAGATTAGATGATAAT
131 TGTTTCCTCCTACACTAAGCATAGATTAGATGATAAT
104646 GTCTTTGCATGGATGATGTTGATCTCTGGGTCAATGTTGGAGCCACTTTTTGAA-CCCGAATAAT
1 GTCTTTGCAT-GATGATGTTGATCTCTGGGTC-ATGTTGGAGCCACTTTTTGAACCCCGAATAAT
104710 CTCTAATAAAGTGGTCTAAGGAACTGTGATTAAATCAATCTCTAGATCCTACTTGTATGT-CCCA
64 CTCTAATAAAGTGGTCTAAGGAACTGTGATTAAATCAATCTCTAGATCCTACTTGTATGTCCCCA
104774 TGTGTTTCCTCCTACACTAAGCATAGATTAGATGA
129 TGTGTTTCCTCCTACACTAAGCATAGATTAGATGA
104809 AATACTCTCA
Statistics
Matches: 161, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
167 49 0.30
168 91 0.57
169 21 0.13
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (167 bp):
GTCTTTGCATGATGATGTTGATCTCTGGGTCATGTTGGAGCCACTTTTTGAACCCCGAATAATCT
CTAATAAAGTGGTCTAAGGAACTGTGATTAAATCAATCTCTAGATCCTACTTGTATGTCCCCATG
TGTTTCCTCCTACACTAAGCATAGATTAGATGATAAT
Found at i:108403 original size:25 final size:26
Alignment explanation
Indices: 108383--108432 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
108373 CTAATTGTAT
108383 TTAAAAA-GTTT-GGATCAAATTGCA
1 TTAAAAATGTTTGGGATCAAATTGCA
*
108407 TTAAAAATGTTTGGGCTCAAATTGCA
1 TTAAAAATGTTTGGGATCAAATTGCA
108433 CGTCAATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 4 0.17
26 12 0.52
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (26 bp):
TTAAAAATGTTTGGGATCAAATTGCA
Found at i:122695 original size:41 final size:41
Alignment explanation
Indices: 122625--122738 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 41
122615 TTCTCTAAGT
* * *
122625 GATCGATCATTTTGAAAA-ATGATCGATCCTTTCTCCCGAGG
1 GATCGATCCTTTTGAAAAGGT-ATCAATCCTTTCTCCCGAGG
* *
122666 GATCGATCCTTTTGAAAAGGTATCAATCCTTTTTCTCGAGG
1 GATCGATCCTTTTGAAAAGGTATCAATCCTTTCTCCCGAGG
* * * *
122707 TATCAATCCTTTTGTAAAGGGATCAATCCTTT
1 GATCGATCCTTTTGAAAAGGTATCAATCCTTT
122739 GCTGGACAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 62 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (41 bp):
GATCGATCCTTTTGAAAAGGTATCAATCCTTTCTCCCGAGG
Found at i:122696 original size:20 final size:20
Alignment explanation
Indices: 122671--122738 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
122661 CGAGGGATCG
*
122671 ATCCTTTTGAAAAGGTATCA
1 ATCCTTTTGTAAAGGTATCA
* **
122691 ATCCTTTTTCTCGAGGTATCA
1 ATCC-TTTTGTAAAGGTATCA
*
122712 ATCCTTTTGTAAAGGGATCA
1 ATCCTTTTGTAAAGGTATCA
122732 ATCCTTT
1 ATCCTTT
122739 GCTGGACAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (20 bp):
ATCCTTTTGTAAAGGTATCA
Found at i:125059 original size:18 final size:18
Alignment explanation
Indices: 125048--125106 Score: 118
Period size: 18 Copynumber: 3.3 Consensus size: 18
125038 TCCCATAGGG
125048 CCACTATGTCCCGAAGGA
1 CCACTATGTCCCGAAGGA
125066 CCACTATGTCCCGAAGGA
1 CCACTATGTCCCGAAGGA
125084 CCACTATGTCCCGAAGGA
1 CCACTATGTCCCGAAGGA
125102 CCACT
1 CCACT
125107 GATAATCCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.27, C:0.36, G:0.20, T:0.17
Consensus pattern (18 bp):
CCACTATGTCCCGAAGGA
Found at i:127932 original size:31 final size:31
Alignment explanation
Indices: 127859--127985 Score: 107
Period size: 31 Copynumber: 4.1 Consensus size: 31
127849 AGAGTCGAGG
*
127859 GTATACATATGTTCT-ACGGAACATATGGACA
1 GTATACCTATGTTCTAAC-GAACATATGGACA
** **
127890 AAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTAACGA-ACATATGGACA
*
127922 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAACGAACATATGGACA
* * * *
127953 GTTTACCTAGGTTCT-TCGGAACCTATGGACA
1 GTATACCTATGTTCTAAC-GAACATATGGACA
127984 GT
1 GT
127986 TGCCAAGGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
31 52 0.68
32 25 0.32
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTAACGAACATATGGACA
Found at i:128027 original size:30 final size:30
Alignment explanation
Indices: 127973--128044 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
127963 GTTCTTCGGA
* * *
127973 ACCTATGGACAGTTGCCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
128003 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
128033 ACCTCTGGATAG
1 ACCTCTGGATAG
128045 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:131516 original size:19 final size:19
Alignment explanation
Indices: 131492--131542 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
131482 ATGCAATTAG
131492 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
131511 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
131530 TGCATCGATGCAT
1 TGCATCGATGCAT
131543 CTAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCATAAGGCA
Found at i:132850 original size:31 final size:31
Alignment explanation
Indices: 132726--132850 Score: 146
Period size: 31 Copynumber: 4.0 Consensus size: 31
132716 GTCGAGGGTA
*
132726 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
132758 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
*
132789 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * *
132820 TACCTAGGTTCTTCGGAACCTATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
132851 GCCAAGGATC
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
31 53 0.67
32 26 0.33
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:133970 original size:23 final size:23
Alignment explanation
Indices: 133916--133984 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
133906 CACCACAGCT
* * *
133916 CATATAATTACACCAAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* *
133939 CATATAATTGCACCGAAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* *
133962 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
133985 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:134171 original size:103 final size:103
Alignment explanation
Indices: 134000--134217 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
133990 TAATGTCCAT
* * *
134000 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCTCCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCACGGATCAAGTATGTGTCTCACCA
134065 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
134103 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCACGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCACGGATCAAGTATGTGTCTCACCA
134168 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
134206 AAGGACCACATA
1 AAGGACCACATA
134218 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCACGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:138017 original size:19 final size:18
Alignment explanation
Indices: 137982--138025 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
137972 ATTTAATACA
*
137982 TAAACTTTCAATTTTTTT
1 TAAAATTTCAATTTTTTT
138000 TAAAATTTCAATTTTTTT
1 TAAAATTTCAATTTTTTT
138018 TAAAATTT
1 TAAAATTT
138026 AACGTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
TAAAATTTCAATTTTTTT
Found at i:140082 original size:20 final size:20
Alignment explanation
Indices: 140057--140101 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
140047 TATGTACACT
*
140057 TAGTATCGATGTTGTTCATC
1 TAGTATCGATATTGTTCATC
140077 TAGTATCGATATTGTTCATC
1 TAGTATCGATATTGTTCATC
140097 TAGTA
1 TAGTA
140102 CCCATACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.44
Consensus pattern (20 bp):
TAGTATCGATATTGTTCATC
Found at i:140599 original size:2 final size:2
Alignment explanation
Indices: 140592--140625 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
140582 TTCGTTTGTT
*
140592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
140626 CTTTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:142618 original size:91 final size:92
Alignment explanation
Indices: 142357--142734 Score: 362
Period size: 95 Copynumber: 4.1 Consensus size: 92
142347 AAATGAAATA
* * * * * *
142357 ACCGATAATGCTGATGCA-TACCGATACGGT-AAAACAGAATGCTATAATGGTA-TCGATATCAT
1 ACCGATACTGCTGAGGTAGTACCG-TACTGTCAAAACAGAATGCTAAAATGGTACT-GATACCAT
142419 ATAGGATATCGATACTACTTAGAGTAGTAGT
64 AT--GATATCGATACTACTTAGAGTAGTAGT
* * * **
142450 ACCGATACT-CTGAGTTATGGTACCGGTACTGTC-AAACAGAATGCTAAATTGATACTGATATTA
1 ACCGATACTGCTGAGGTA--GTACC-GTACTGTCAAAACAGAATGCTAAAATGGTACTGATACCA
*
142513 TAT-ATGATTGATACTACTTAGAGTAGTAGT
63 TATGAT-ATCGATACTACTTAGAGTAGTAGT
* * *
142543 ACTGATACTGCTGAGGCAGTATCG-ACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATAT
1 ACCGATACTGCTGAGGTAGTACCGTACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATAT
142607 GATATCGATACTACTT--AG-AGTAGT
66 GATATCGATACTACTTAGAGTAGTAGT
* * * * * *
142631 ACCGATACTGCTGAGGTAGTACCGATACTATTAAAATATAATGCTAGAATGGTACCGATACCATA
1 ACCGATACTGCTGAGGTAGTACCG-TACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATA
* * *
142696 TGTAATATCGATACCACTTAGATTAGTAGC
65 TG--ATATCGATACTACTTAGAGTAGTAGT
*
142726 ACTGATACT
1 ACCGATACT
142735 ATGAGTAATT
Statistics
Matches: 236, Mismatches: 32, Indels: 32
0.79 0.11 0.11
Matches are distributed among these distances:
88 27 0.11
89 2 0.01
90 41 0.17
91 42 0.18
92 27 0.11
93 39 0.17
94 7 0.03
95 49 0.21
96 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (92 bp):
ACCGATACTGCTGAGGTAGTACCGTACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATAT
GATATCGATACTACTTAGAGTAGTAGT
Found at i:142651 original size:20 final size:21
Alignment explanation
Indices: 142612--142660 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
142602 CATATGATAT
*
142612 CGATACTACTTAGAGTAGTAC
1 CGATACTACTGAGAGTAGTAC
*
142633 CGATACTGCTGAG-GTAGTAC
1 CGATACTACTGAGAGTAGTAC
142653 CGATACTA
1 CGATACTA
142661 TTAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (21 bp):
CGATACTACTGAGAGTAGTAC
Found at i:148585 original size:28 final size:31
Alignment explanation
Indices: 148553--148609 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
148543 CCATTCAATG
148553 ACTGAAATGCAAA-TTTA-CAAA-ACAAAAC
1 ACTGAAATGCAAACTTTACCAAATACAAAAC
*
148581 ACTGAAATGTAAACTTTACCAAATACAAA
1 ACTGAAATGCAAACTTTACCAAATACAAA
148610 CCTTTTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 12 0.48
29 4 0.16
30 4 0.16
31 5 0.20
ACGTcount: A:0.54, C:0.18, G:0.07, T:0.21
Consensus pattern (31 bp):
ACTGAAATGCAAACTTTACCAAATACAAAAC
Found at i:149757 original size:3 final size:3
Alignment explanation
Indices: 149743--149795 Score: 61
Period size: 3 Copynumber: 16.3 Consensus size: 3
149733 GATTCTCGTT
*
149743 TTA TTAA TTA TTA TTAA ATA TTA TTA TTA TTTA TTA TTA TTA TTA TTAA
1 TTA TT-A TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A
149792 TTA T
1 TTA T
149796 ATTTTACACA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 33 0.75
4 11 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:149758 original size:10 final size:10
Alignment explanation
Indices: 149743--149795 Score: 63
Period size: 10 Copynumber: 5.1 Consensus size: 10
149733 GATTCTCGTT
149743 TTATTAATTA
1 TTATTAATTA
*
149753 TTATTAAATA
1 TTATTAATTA
149763 TTATT-ATTA
1 TTATTAATTA
149772 TTTATTATTATTA
1 -TTATTA--ATTA
149785 TTATTAATTA
1 TTATTAATTA
149795 T
1 T
149796 ATTTTACACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 3 0.08
10 24 0.65
12 6 0.16
13 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTAATTA
Found at i:149785 original size:13 final size:13
Alignment explanation
Indices: 149743--149799 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
149733 GATTCTCGTT
*
149743 TTATTAATTATTA
1 TTATTTATTATTA
**
149756 TTAAATATTATTA
1 TTATTTATTATTA
149769 TTATTTATTATTA
1 TTATTTATTATTA
149782 TTA-TTATTAATTA
1 TTATTTATT-ATTA
149795 -TATTT
1 TTATTT
149800 TACACATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 7 0.19
13 30 0.81
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:158018 original size:15 final size:15
Alignment explanation
Indices: 157998--158029 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
157988 ATCAATACCT
157998 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
158013 TTTTGCATACATTCA
1 TTTTGCATACATGCA
158028 TT
1 TT
158030 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:161481 original size:3 final size:3
Alignment explanation
Indices: 161473--161572 Score: 150
Period size: 3 Copynumber: 33.7 Consensus size: 3
161463 TTTTTATCCA
* *
161473 TAT TAT TAT TAT TAT TAT TAT TATT TAT TAT TAT CAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
161519 TAT TAT TAT TA- TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
161565 TAT TAT TA
1 TAT TAT TA
161573 ATATATTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.05
3 81 0.92
4 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:174018 original size:16 final size:16
Alignment explanation
Indices: 173997--174028 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
173987 TATGCTTAAA
173997 AAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
*
174013 AAAAAAGAAAAAAGAG
1 AAAAAAAAAAAAAGAG
174029 GGTCAAGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:174366 original size:16 final size:17
Alignment explanation
Indices: 174347--174388 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
174337 CTATTTCAAG
*
174347 TTCAATTTATTT-GAGA
1 TTCAATTTATTTGGAAA
*
174363 TTCAATTATTTTTGGAAA
1 TTCAATT-TATTTGGAAA
174381 TTCAATTT
1 TTCAATTT
174389 TCTTTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 10 0.45
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (17 bp):
TTCAATTTATTTGGAAA
Found at i:175290 original size:52 final size:52
Alignment explanation
Indices: 175228--175529 Score: 496
Period size: 52 Copynumber: 5.9 Consensus size: 52
175218 AGATGAATGT
175228 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
*
175280 CATAGCATCTTATGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
175332 CA-A--A-CTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
175379 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAA
*
175431 CATA--ATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTGGACAGAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
*
175481 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
175530 AAATCAAGTA
Statistics
Matches: 235, Mismatches: 5, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
47 30 0.13
48 15 0.06
49 1 0.00
50 47 0.20
51 20 0.09
52 120 0.51
53 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
Found at i:175367 original size:99 final size:102
Alignment explanation
Indices: 175234--175529 Score: 512
Period size: 99 Copynumber: 2.9 Consensus size: 102
175224 ATGTCATAGC
*
175234 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATAGCATCTTATGGAAG
1 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAGCATCTTCTGGAAG
175298 TGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA-A
65 TGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATA
175335 A-CTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGT
1 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGT
175398 GTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATA
66 GTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATA
*
175435 ATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGT
1 ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGT
*
175500 GTTCTTTGAGTTATCTGATCTGATTGGACA
66 GTTCTTTGAGTTATCTGATCTGGTTGGACA
175530 AAATCAAGTA
Statistics
Matches: 186, Mismatches: 3, Indels: 11
0.93 0.01 0.05
Matches are distributed among these distances:
98 2 0.01
99 75 0.40
100 19 0.10
101 16 0.09
102 72 0.39
103 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (102 bp):
ATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGT
GTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATA
Found at i:176621 original size:119 final size:118
Alignment explanation
Indices: 176139--177022 Score: 1511
Period size: 119 Copynumber: 7.5 Consensus size: 118
176129 TTAGCAAAGA
176139 CTTGAATTCAT-AATTTGATGGATCATCATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCGTC
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTC
*
176202 ATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
*
176255 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGA-AAGAACTCGT
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGT
176319 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
176373 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTC
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTC
176438 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
176491 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGT
176556 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* *
176610 CTTGAATTCATC-ACTTGATGGATCATTCTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-T
1 CTTGAATTCATCAATTTGATGGATCA-TCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGT
176670 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* ** *
176724 CTTGAATTCATC-ACTTGATGGATCATTTTTTTTCAGAGGAAGAGTTCATAATGAGAAGAACTCG
1 CTTGAATTCATCAATTTGATGGATCA-TCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCG
176788 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
64 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
*
176843 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAG-AAGAGTTCATAATGAGAAGAACTCGT
*
176908 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* **
176962 CTTGAATTCATC-ATTTGATGGAACATCATCCCCAGCAGAA-AGTTCATAATGAGAAGAACTC
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAG-AGAAGAGTTCATAATGAGAAGAACTC
177023 ATCTGGAGAA
Statistics
Matches: 738, Mismatches: 16, Indels: 27
0.94 0.02 0.03
Matches are distributed among these distances:
114 90 0.12
115 4 0.01
116 29 0.04
117 79 0.11
118 241 0.33
119 283 0.38
120 12 0.02
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (118 bp):
CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTC
ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
Found at i:176867 original size:352 final size:350
Alignment explanation
Indices: 176139--177041 Score: 1530
Period size: 352 Copynumber: 2.6 Consensus size: 350
176129 TTAGCAAAGA
176139 CTTGAATTCAT-AATTTGATGGATCATCATTTCCAGA-GAA-AGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
*
176201 CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
176266 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGA-AAGAACTCGTCATCTGAAGAA
131 C-AATTGATGGATCATCATTTCCAGA-GAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
*
176330 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAATTTGATGG
190 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAACTTGATGG
176395 ATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGT
255 ATCATCATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGT
176460 TCATAATGAGAAGAACTTGTTCAACCTTTTG
320 TCATAATGAGAAGAACTTGTTCAACCTTTTG
176491 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
176556 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
* *
176621 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
131 CAATTGATGGATCA-TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
176686 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATC-ACTTGATGGATCAT
195 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAACTTGATGGATCA-
** *
176750 TTTTTTTCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
259 TCATTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
176815 TAATGAGAAGAACTTGTTCAACCTTTTG
323 TAATGAGAAGAACTTGTTCAACCTTTTG
* *
176843 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
*
176908 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCAT
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
* * ** * *
176973 CATTTGATGGAACATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGGAGAA-AAAG
131 CAATTGATGGATCATCATTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
177037 AAGAA
195 AAGAA
177042 TTTATTCAAT
Statistics
Matches: 526, Mismatches: 17, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
350 12 0.02
351 90 0.17
352 266 0.51
353 37 0.07
354 23 0.04
355 98 0.19
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (350 bp):
CTTGAATTCATCAATTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
CAATTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCAACTTGATGGATCATC
ATTTCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTTG
Found at i:177185 original size:3 final size:3
Alignment explanation
Indices: 177177--177270 Score: 122
Period size: 3 Copynumber: 31.7 Consensus size: 3
177167 TTTTTATCCA
* *
177177 TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TA- TAT CAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
*
177222 CAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TATT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
177266 TAT TA
1 TAT TA
177271 ATATATTAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
2 6 0.08
3 69 0.86
4 5 0.06
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:178730 original size:20 final size:21
Alignment explanation
Indices: 178689--178733 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
178679 TGTTTTAGTG
**
178689 ATATTTTTATTATATTGTTAA
1 ATATTTTTATTATATTCATAA
178710 ATATTTTTA-TATATTCATAA
1 ATATTTTTATTATATTCATAA
178730 ATAT
1 ATAT
178734 ACATATAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATTTTTATTATATTCATAA
Found at i:181495 original size:6 final size:6
Alignment explanation
Indices: 181456--181533 Score: 88
Period size: 6 Copynumber: 12.5 Consensus size: 6
181446 GCTTGAAGAG
*
181456 AAGAAA AAGAAGA AAAAAA AAGAAGA AA-AAA AAGAAA AAGAAA AAGAGAA
1 AAGAAA AAGAA-A AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA AAGA-AA
181506 AA-AAGA AAGAAAA AAGAAA AAGAAA AAG
1 AAGAA-A AAG-AAA AAGAAA AAGAAA AAG
181534 GGGGGTCAAG
Statistics
Matches: 63, Mismatches: 2, Indels: 14
0.80 0.03 0.18
Matches are distributed among these distances:
5 4 0.06
6 41 0.65
7 16 0.25
8 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:181497 original size:37 final size:38
Alignment explanation
Indices: 181456--181533 Score: 124
Period size: 37 Copynumber: 2.1 Consensus size: 38
181446 GCTTGAAGAG
*
181456 AAGAAAAAGAAGAAAAAA-AAAGAAGAAA-AAAAAGAAA
1 AAGAAAAAG-AGAAAAAAGAAAGAAAAAAGAAAAAGAAA
181493 AAGAAAAAGAGAAAAAAGAAAGAAAAAAGAAAAAGAAA
1 AAGAAAAAGAGAAAAAAGAAAGAAAAAAGAAAAAGAAA
181531 AAG
1 AAG
181534 GGGGGTCAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
36 8 0.21
37 18 0.47
38 12 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (38 bp):
AAGAAAAAGAGAAAAAAGAAAGAAAAAAGAAAAAGAAA
Found at i:181527 original size:26 final size:24
Alignment explanation
Indices: 181459--181532 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 24
181449 TGAAGAGAAG
181459 AAAAAGAAGAAAA-AAAAAGAAGAAA
1 AAAAAGAA-AAAAGAAAAAGAA-AAA
181484 AAAAAG-AAAAAGAAAAAGAGAAAA
1 AAAAAGAAAAAAGAAAAAGA-AAAA
181508 AAGAAAGAAAAAAGAAAAAGAAAAA
1 AA-AAAGAAAAAAGAAAAAGAAAAA
181533 GGGGGGTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.09
24 13 0.29
25 15 0.33
26 13 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAAGAAAAAGAAAAA
Found at i:181530 original size:13 final size:12
Alignment explanation
Indices: 181459--181532 Score: 94
Period size: 13 Copynumber: 5.9 Consensus size: 12
181449 TGAAGAGAAG
181459 AAAAAGAAGAAAA
1 AAAAAGAA-AAAA
*
181472 AAAAAGAAGAAA
1 AAAAAGAAAAAA
*
181484 AAAAAGAAAAAG
1 AAAAAGAAAAAA
181496 AAAAAGAGAAAAA
1 AAAAAGA-AAAAA
*
181509 AGAAAGAAAAAA
1 AAAAAGAAAAAA
181521 GAAAAAGAAAAA
1 -AAAAAGAAAAA
181533 GGGGGGTCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
12 25 0.47
13 28 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:183102 original size:92 final size:91
Alignment explanation
Indices: 182896--183168 Score: 395
Period size: 92 Copynumber: 3.1 Consensus size: 91
182886 GCAATACGCC
182896 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T-----A-AAACCAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAACCAAT
*
182953 CATTGAATTT-AAAGATGAATGTGCT
66 CATTGAATTTGAAAGATGAATATGCT
*
182978 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACATAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA-AACCAA
183043 TCATTGAATTTGAAAGATGAATATGCT
65 TCATTGAATTTGAAAGATGAATATGCT
183070 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACA-AACCA
*
183135 ATCATT-AGATATTGAAAGATGAATTTGCT
64 ATCATTGA-AT-TTGAAAGATGAATATGCT
*
183164 CATAG
1 AATAG
183169 TAGAAATAAG
Statistics
Matches: 172, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
82 46 0.27
84 1 0.01
89 1 0.01
90 1 0.01
91 17 0.10
92 65 0.38
93 20 0.12
94 21 0.12
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (91 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAAACCAAT
CATTGAATTTGAAAGATGAATATGCT
Found at i:183274 original size:116 final size:116
Alignment explanation
Indices: 183070--183367 Score: 580
Period size: 116 Copynumber: 2.6 Consensus size: 116
183060 TGAATATGCT
183070 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
183135 ATCATTAGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCC
66 ATCATTAGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCC
*
183186 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAAAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
183251 ATCATTAGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCC
66 ATCATTAGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCC
183302 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATG-AACCACAGAACCA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
183366 AT
66 AT
183368 TATTGAATTT
Statistics
Matches: 180, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 14 0.08
116 166 0.92
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (116 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
ATCATTAGATATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCC
Found at i:184842 original size:114 final size:116
Alignment explanation
Indices: 184166--185310 Score: 1446
Period size: 116 Copynumber: 10.0 Consensus size: 116
184156 GCAAAGATTC
* * * * ** *
184166 AAATCCATCAATTGATGGATTAACATTGCTAG-GTAGAGTTCATAATGAGAAGAACTCATCATCT
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAAC-CATCATCT
* **
184230 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * ** *
184282 AAATTCATCAATTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCATCT
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAAC-CATCATCT
* **
184346 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* ** *
184398 AAATTCATCAATTGATGGATTAACATTGT-CAG-GTAGAGTTCATAATGAGAAGAACTCATCATC
1 AAATTCATCAATTGATGGATCAACATT-TCCAGAAAAAAGTTCATAATGAGAAGAAC-CATCATC
* **
184461 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * ** *
184514 AAATTCATCAATTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCATCT
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAAC-CATCATCT
* **
184578 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTT
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * ** *
184630 AAATTCATCAATTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCATCT
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAAC-CATCATCT
184694 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * *
184746 GAATTCATCATTTGATGGATCAGCATTTCCAGAAAAAAGTTCATAATGAGAAGAA-C-TCATCTG
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAACCATCATCTG
* *
184809 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTTGCTT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * *
184860 GAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAA-C-TCATCTG
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAACCATCATCTG
* * *
184923 AAGGAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * *
184974 GAATTCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAA-C-TCATCTG
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAACCATCATCTG
* *
185037 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * * *
185088 AAATCCATCACTTGATAGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAA-C-TCATCTG
1 AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAACCATCATCTG
* * *
185151 AAGGAGAAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTG-TT
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
* * * *
185201 CAAATTCATCACTTGATGGATCAACCTTTACAGAAGAAAGTTCATAATGA-AAGAA-C-TCATCT
1 -AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAACCATCATCT
* * * *
185263 GAAGGA-GAAGAAGAAGTTCATAATGAGAAGAGCTTATTTAACCTTTTG
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
185311 AATGACTCTA
Statistics
Matches: 981, Mismatches: 44, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
112 39 0.04
113 19 0.02
114 421 0.43
115 1 0.00
116 482 0.49
117 19 0.02
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (116 bp):
AAATTCATCAATTGATGGATCAACATTTCCAGAAAAAAGTTCATAATGAGAAGAACCATCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTT
Found at i:185540 original size:3 final size:3
Alignment explanation
Indices: 185532--185598 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
185522 TTTACCCATT
* * * ** *
185532 TTA TTA TTA TTA TAA TTA TTA TCA TAA TTA TTA TTA AAA TTA -TA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
185579 TATA TATA TTA TTA TTA TTA
1 T-TA T-TA TTA TTA TTA TTA
185599 AAAAATATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 2 0.04
3 43 0.83
4 7 0.13
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:185551 original size:12 final size:12
Alignment explanation
Indices: 185534--185596 Score: 72
Period size: 12 Copynumber: 4.9 Consensus size: 12
185524 TACCCATTTT
185534 ATTATTATTATA
1 ATTATTATTATA
*
185546 ATTATTATCATA
1 ATTATTATTATA
*
185558 ATTATTATTAAA
1 ATTATTATTATA
185570 ATTATAATATATATA
1 ATTAT--TAT-TATA
185585 TATTATTATTAT
1 -ATTATTATTAT
185597 TAAAAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 26 0.60
13 3 0.07
14 6 0.14
15 3 0.07
16 5 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTATTATTATA
Found at i:191523 original size:16 final size:16
Alignment explanation
Indices: 191502--191535 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
191492 TTACTATTCA
*
191502 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
191518 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
191534 CG
1 CG
191536 GTCGGCGATA
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:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:194484 original size:21 final size:21
Alignment explanation
Indices: 194458--194506 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
194448 GTACGTTGAT
194458 GACATGCTCGTTGCAGGCTCA
1 GACATGCTCGTTGCAGGCTCA
*
194479 GACATGCTCGTTGCAGGCTTA
1 GACATGCTCGTTGCAGGCTCA
194500 GACATGC
1 GACATGC
194507 AAGAGATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (21 bp):
GACATGCTCGTTGCAGGCTCA
Found at i:205366 original size:17 final size:17
Alignment explanation
Indices: 205344--205379 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
205334 TATATATAAA
*
205344 ATTTTAAAAATTATTTT
1 ATTTTAAAAATTATATT
205361 ATTTTAAAAATTATATT
1 ATTTTAAAAATTATATT
205378 AT
1 AT
205380 AATTAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAAAAATTATATT
Found at i:208758 original size:37 final size:37
Alignment explanation
Indices: 208717--208791 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
208707 TAGAAAATAT
* *
208717 TTATATAT-TTTCTTTAAAAAATTTAAACTCATAAAAA
1 TTATATATATTTCTTTAAAAAATTAAAAAT-ATAAAAA
* *
208754 TTATATATATTTTTTTACAAAATTAAAAATATAAAAA
1 TTATATATATTTCTTTAAAAAATTAAAAATATAAAAA
208791 T
1 T
208792 GTTTAATGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 16 0.48
38 17 0.52
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (37 bp):
TTATATATATTTCTTTAAAAAATTAAAAATATAAAAA
Found at i:209687 original size:21 final size:21
Alignment explanation
Indices: 209663--209716 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
209653 GAAAACCGCA
209663 AGAAACGTGTCATAAGAGCATAG
1 AGAAACGTGTCATAAGAGC--AG
*
209686 AAAAACGTGTCATAAGAGCAG
1 AGAAACGTGTCATAAGAGCAG
*
209707 AGAAAAGTGT
1 AGAAACGTGT
209717 ATCACAATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.36
23 18 0.64
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (21 bp):
AGAAACGTGTCATAAGAGCAG
Found at i:209692 original size:23 final size:23
Alignment explanation
Indices: 209665--209712 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
209655 AAACCGCAAG
*
209665 AAACGTGTCATAAGAGCATAGAA
1 AAACGTGTCATAAGAGCAGAGAA
209688 AAACGTGTCATAAGAGCAGAGAA
1 AAACGTGTCATAAGAGCAGAGAA
209711 AA
1 AA
209713 GTGTATCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (23 bp):
AAACGTGTCATAAGAGCAGAGAA
Found at i:213430 original size:21 final size:20
Alignment explanation
Indices: 213406--213638 Score: 68
Period size: 21 Copynumber: 11.2 Consensus size: 20
213396 GATTCGCAAC
213406 GCGATAGGCGAAGTTCGCATT
1 GCGATAGGCGAAGTTCGC-TT
** * *
213427 GCGATTTATTCCAAATTCG-TT
1 GCGA--TAGGCGAAGTTCGCTT
213448 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGGCGAAGTTCGC-TT
** * *
213469 GCGATTCATTCCAA-ATCG-TT
1 GCGA-T-AGGCGAAGTTCGCTT
*
213489 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGGCGAAGTTCGC-TT
** * *
213510 GCGATTCATTCCAA-ATCG-TT
1 GCGA-T-AGGCGAAGTTCGCTT
* *
213530 GCGATAGGCAAAGTTCGTGTT
1 GCGATAGGCGAAGTTCG-CTT
** *
213551 GCGATTCATTCCAA-TTCG-TT
1 GCGA-T-AGGCGAAGTTCGCTT
213571 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGGCGAAGTTCGC-TT
** * *
213592 GCGATTCATTCCAAATTCG-TT
1 GCGA-T-AGGCGAAGTTCGCTT
213613 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGGCGAAGTTCGC-TT
213634 GCGAT
1 GCGAT
213639 TCATTCCAAA
Statistics
Matches: 153, Mismatches: 36, Indels: 46
0.65 0.15 0.20
Matches are distributed among these distances:
18 13 0.08
19 30 0.20
20 19 0.12
21 47 0.31
22 14 0.09
23 30 0.20
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (20 bp):
GCGATAGGCGAAGTTCGCTT
Found at i:213490 original size:20 final size:20
Alignment explanation
Indices: 213465--213534 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
213455 GCGAAGTTCG
213465 CGTTGCGATTCATTCCAAAT
1 CGTTGCGATTCATTCCAAAT
* * *
213485 CGTTGCGA-T-AGTCGAAGTT
1 CGTTGCGATTCATTCCAA-AT
213504 CGCGTTGCGATTCATTCCAAAT
1 --CGTTGCGATTCATTCCAAAT
213526 CGTTGCGAT
1 CGTTGCGAT
213535 AGGCAAAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 17 0.44
21 8 0.21
22 2 0.05
23 5 0.13
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAAAT
Found at i:213501 original size:41 final size:42
Alignment explanation
Indices: 213406--213661 Score: 446
Period size: 41 Copynumber: 6.2 Consensus size: 42
213396 GATTCGCAAC
* *
213406 GCGATAGGCGAAGTTCGCATTGCGATTTATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
213448 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
*
213489 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
213530 GCGATAGGCAAAGTTCGTGTTGCGATTCATTCC-AATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
213571 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
213613 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
213655 GCGATAG
1 GCGATAG
213662 TCCAAATATT
Statistics
Matches: 204, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
40 2 0.01
41 111 0.54
42 91 0.45
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (42 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:213750 original size:6 final size:6
Alignment explanation
Indices: 213739--213775 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
213729 GACACGTATT
213739 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
213776 CAACCCGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:213762 original size:18 final size:16
Alignment explanation
Indices: 213739--213788 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
213729 GACACGTATT
213739 ACCACGACCACGACCACG
1 ACCACGACC-CGACC-CG
213757 ACCACGACCCGACCCG
1 ACCACGACCCGACCCG
*
213773 ACC-CAACCCGACCCG
1 ACCACGACCCGACCCG
213788 A
1 A
213789 GACGGGACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
15 12 0.39
16 5 0.16
17 5 0.16
18 9 0.29
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (16 bp):
ACCACGACCCGACCCG
Found at i:213771 original size:5 final size:5
Alignment explanation
Indices: 213743--213788 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
213733 CGTATTACCA
*
213743 CGACC ACGACC ACGACC ACGACC CGACC CGACC CAACC CGACC CGA
1 CGACC -CGACC -CGACC -CGACC CGACC CGACC CGACC CGACC CGA
213789 GACGGGACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 21 0.55
6 17 0.45
ACGTcount: A:0.28, C:0.54, G:0.17, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:214480 original size:6 final size:6
Alignment explanation
Indices: 214464--214495 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
214454 TCCCGTCTCG
214464 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
214496 AATACGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:214625 original size:42 final size:42
Alignment explanation
Indices: 214573--214667 Score: 154
Period size: 42 Copynumber: 2.3 Consensus size: 42
214563 AATATTTGGA
214573 CTATCGCAACGAATTTGGAATGAATCACAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCACAACGCGAACTTCGC
* * *
214615 CTATCACAACGAATTTGGAATGAATCGCAACGCGAGCTTCGC
1 CTATCGCAACGAATTTGGAATGAATCACAACGCGAACTTCGC
*
214657 CTGTCGCAACG
1 CTATCGCAACG
214668 CGAGCTTCGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCACAACGCGAACTTCGC
Found at i:214645 original size:21 final size:21
Alignment explanation
Indices: 214579--214646 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
214569 TGGACTATCG
214579 CAACGAATTTGGAATGAATCA
1 CAACGAATTTGGAATGAATCA
* * **
214600 CAACGCGAACTTCGCCT--ATCA
1 CAA--CGAATTTGGAATGAATCA
*
214621 CAACGAATTTGGAATGAATCG
1 CAACGAATTTGGAATGAATCA
214642 CAACG
1 CAACG
214647 CGAGCTTCGC
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 8 0.24
21 18 0.53
23 8 0.24
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
CAACGAATTTGGAATGAATCA
Found at i:214663 original size:21 final size:21
Alignment explanation
Indices: 214639--214688 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
214629 TTGGAATGAA
214639 TCGCAACGCGAGCTTCGCCTG
1 TCGCAACGCGAGCTTCGCCTG
214660 TCGCAACGCGAGCTTCGCCTG
1 TCGCAACGCGAGCTTCGCCTG
214681 TCGCAACG
1 TCGCAACG
214689 AATTGGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.16, C:0.38, G:0.28, T:0.18
Consensus pattern (21 bp):
TCGCAACGCGAGCTTCGCCTG
Found at i:214709 original size:41 final size:41
Alignment explanation
Indices: 214660--214833 Score: 276
Period size: 41 Copynumber: 4.2 Consensus size: 41
214650 GCTTCGCCTG
*
214660 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
* *
214701 TCGCAACGCAAACTTCGCCTGTCGCAACGATTTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
*
214742 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
* * *
214783 TCGCAACGCGAACTTCGACTATCGTAACGAATTTGGAATGAA
1 TCGCAACGCGAACTTCGCCTGTCGCAACGAA-TTGGAATGAA
214825 TCGCAACGC
1 TCGCAACGC
214834 AAAATTCGAC
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
41 103 0.84
42 19 0.16
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (41 bp):
TCGCAACGCGAACTTCGCCTGTCGCAACGAATTGGAATGAA
Found at i:214718 original size:62 final size:63
Alignment explanation
Indices: 214600--214729 Score: 208
Period size: 62 Copynumber: 2.1 Consensus size: 63
214590 GAATGAATCA
* *
214600 CAACGCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCGAGCTTCGCCTGTCG
1 CAACGCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCAAACTTCGCCTGTCG
* * *
214663 CAACGCGAGCTTCGCCTGTCGCAACGAA-TTGGAATGAATCGCAACGCAAACTTCGCCTGTCG
1 CAACGCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCAAACTTCGCCTGTCG
214725 CAACG
1 CAACG
214730 ATTTGGAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
62 37 0.60
63 25 0.40
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (63 bp):
CAACGCGAACTTCGCCTATCACAACGAATTTGGAATGAATCGCAACGCAAACTTCGCCTGTCG
Found at i:214727 original size:21 final size:21
Alignment explanation
Indices: 214639--214729 Score: 89
Period size: 21 Copynumber: 4.4 Consensus size: 21
214629 TTGGAATGAA
*
214639 TCGCAACGCGAGCTTCGCCTG
1 TCGCAACGCGAACTTCGCCTG
*
214660 TCGCAACGCGAGCTTCGCCTG
1 TCGCAACGCGAACTTCGCCTG
* **
214681 TCGCAA--CGAA-TTGGAATG
1 TCGCAACGCGAACTTCGCCTG
*
214699 AATCGCAACGCAAACTTCGCCTG
1 --TCGCAACGCGAACTTCGCCTG
214722 TCGCAACG
1 TCGCAACG
214730 ATTTGGAATG
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
18 5 0.09
19 3 0.05
20 6 0.11
21 35 0.61
22 3 0.05
23 5 0.09
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGCCTG
Found at i:214754 original size:82 final size:83
Alignment explanation
Indices: 214660--214833 Score: 305
Period size: 82 Copynumber: 2.1 Consensus size: 83
214650 GCTTCGCCTG
* *
214660 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCAAACTTCGCCTGTCG
1 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCAAACTTCGACTATCG
214725 CAACG-ATTTGGAATGAA
66 CAACGAATTTGGAATGAA
*
214742 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCGAACTTCGACTATCG
1 TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCAAACTTCGACTATCG
*
214807 TAACGAATTTGGAATGAA
66 CAACGAATTTGGAATGAA
214825 TCGCAACGC
1 TCGCAACGC
214834 AAAATTCGAC
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 66 0.76
83 21 0.24
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (83 bp):
TCGCAACGCGAGCTTCGCCTGTCGCAACGAATTGGAATGAATCGCAACGCAAACTTCGACTATCG
CAACGAATTTGGAATGAA
Found at i:217263 original size:20 final size:20
Alignment explanation
Indices: 217211--217263 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
217201 CTAACTGAGA
* *
217211 TATAGATACCTTATCTATAG
1 TATAGATACCCTGTCTATAG
*
217231 TATAGATACCCTGTCTATGG
1 TATAGATACCCTGTCTATAG
217251 TATAGATACCCTG
1 TATAGATACCCTG
217264 ATAATATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (20 bp):
TATAGATACCCTGTCTATAG
Found at i:219417 original size:14 final size:14
Alignment explanation
Indices: 219392--219429 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
219382 ACCATATAAT
219392 TAATACATTTTTCTA
1 TAATA-ATTTTTCTA
219407 TAATAATTTTTCTA
1 TAATAATTTTTCTA
*
219421 TAATCATTT
1 TAATAATTT
219430 ATATAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATAATTTTTCTA
Found at i:221698 original size:22 final size:21
Alignment explanation
Indices: 221652--221698 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
221642 GAGATAAACA
*
221652 TTTA-TCAAATTAAATTTTAG
1 TTTATTCAAATTAAATTTAAG
*
221672 TTTATTCAAATTTAATTTAAG
1 TTTATTCAAATTAAATTTAAG
221693 TATTAT
1 T-TTAT
221699 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTATTCAAATTAAATTTAAG
Found at i:222495 original size:2 final size:2
Alignment explanation
Indices: 222488--222529 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
222478 TAATTATGCG
222488 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
222530 AACTAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.