Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_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: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 29
Found at i:2407823 original size:15 final size:16
Alignment explanation
Indices: 2407805--2407854 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
2407795 AATAATAATC
2407805 AAAATGAAAGAA-ATT
1 AAAATGAAAGAATATT
* *
2407820 AAAA-GCAATAATATT
1 AAAATGAAAGAATATT
*
2407835 AAAATGAAAAATATATT
1 AAAATGAAAGA-ATATT
2407852 AAA
1 AAA
2407855 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 4 0.14
17 8 0.29
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (16 bp):
AAAATGAAAGAATATT
Found at i:2407860 original size:16 final size:17
Alignment explanation
Indices: 2407830--2407864 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2407820 AAAAGCAATA
2407830 ATATTAAAATGAAAAAT
1 ATATTAAAATGAAAAAT
*
2407847 ATATT-AAATTAAAAAT
1 ATATTAAAATGAAAAAT
2407863 AT
1 AT
2407865 CAAAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATATTAAAATGAAAAAT
Found at i:2409188 original size:3 final size:3
Alignment explanation
Indices: 2409169--2409254 Score: 109
Period size: 3 Copynumber: 28.0 Consensus size: 3
2409159 TTGTAATATT
2409169 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** **
2409216 TAA TGA TAA TAA TAA TAA TTT TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2409255 AAATGAACTG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2420936 original size:10 final size:9
Alignment explanation
Indices: 2420901--2420999 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
2420891 GCTGCTGGAA
*
2420901 ACCGGTTTA
1 ACCGGTTTG
*
2420910 ACCGGTTTTCA
1 ACCGG-TTT-G
2420921 ACCGGTTCTG
1 ACCGGTT-TG
2420931 ACCGGTTTG
1 ACCGGTTTG
*
2420940 ACCGGTTTCA
1 ACCGGTTT-G
*
2420950 ACCGGTTCG
1 ACCGGTTTG
2420959 AACCGGTTTG
1 -ACCGGTTTG
*
2420969 ACCGGTCTG
1 ACCGGTTTG
*
2420978 AATCGGTTTG
1 -ACCGGTTTG
*
2420988 ACCGGTCTG
1 ACCGGTTTG
2420997 ACC
1 ACC
2421000 CGACCCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2420945 original size:19 final size:19
Alignment explanation
Indices: 2420902--2420999 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
2420892 CTGCTGGAAA
* * *
2420902 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
2420922 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
2420941 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
2420961 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
2420980 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
2420998 CC
1 CC
2421000 CGACCCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.58
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:2420963 original size:29 final size:30
Alignment explanation
Indices: 2420900--2420999 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
2420890 GGCTGCTGGA
*
2420900 AACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
2420931 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
2420959 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
2420988 -ACCGGTCTGACC
1 AACCGGTTTGACC
2421000 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:2421006 original size:5 final size:5
Alignment explanation
Indices: 2420996--2421080 Score: 80
Period size: 5 Copynumber: 15.8 Consensus size: 5
2420986 TGACCGGTCT
* *
2420996 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
* *
2421045 GACTC GACCGTT GACCC GACCC GACCC GACCC GACC
1 GACCC GACC--C GACCC GACCC GACCC GACCC GACC
2421081 GTTGACCGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
5 54 0.82
7 12 0.18
ACGTcount: A:0.19, C:0.51, G:0.22, T:0.08
Consensus pattern (5 bp):
GACCC
Found at i:2421028 original size:27 final size:27
Alignment explanation
Indices: 2421013--2421087 Score: 106
Period size: 22 Copynumber: 3.0 Consensus size: 27
2421003 CCCGACCGTT
2421013 GACCCGACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCCGACCGTTGACCC
*
2421040 GA-CC----CGACTCGACCGTTGACCC
1 GACCCGACCCGACCCGACCGTTGACCC
2421062 GACCCGACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCCGACCGTTGACC
2421088 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
22 19 0.46
23 2 0.05
26 2 0.05
27 18 0.44
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (27 bp):
GACCCGACCCGACCCGACCGTTGACCC
Found at i:2421087 original size:22 final size:22
Alignment explanation
Indices: 2420996--2421075 Score: 151
Period size: 22 Copynumber: 3.6 Consensus size: 22
2420986 TGACCGGTCT
2420996 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2421018 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
2421040 GACCCGACTCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
2421062 GACCCGACCCGACC
1 GACCCGACCCGACC
2421076 CGACCGTTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.19, C:0.50, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:2421089 original size:7 final size:7
Alignment explanation
Indices: 2421077--2421114 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
2421067 GACCCGACCC
2421077 GACCGTT
1 GACCGTT
2421084 GACCGTT
1 GACCGTT
2421091 GACCGTT
1 GACCGTT
2421098 GACCGTT
1 GACCGTT
*
2421105 GACCATT
1 GACCGTT
2421112 GAC
1 GAC
2421115 TTTCTTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2424286 original size:16 final size:16
Alignment explanation
Indices: 2424265--2424301 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2424255 GGTCAGGATT
*
2424265 GAGGGTTTGGCAGCAC
1 GAGGGTCTGGCAGCAC
2424281 GAGGGTCTGGCAGCAC
1 GAGGGTCTGGCAGCAC
*
2424297 AAGGG
1 GAGGG
2424302 GCACCAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.46, T:0.14
Consensus pattern (16 bp):
GAGGGTCTGGCAGCAC
Found at i:2430694 original size:45 final size:44
Alignment explanation
Indices: 2430640--2431233 Score: 386
Period size: 45 Copynumber: 13.4 Consensus size: 44
2430630 CATGAGGAGA
* *
2430640 AGTCAATCTTTAAGTGTTGTCTTTCTTGACTTTCTCGTGTAGAAG
1 AGTCAATCTTTTAGTGTTGT-TTTCTTGACTTTCTCGTGAAGAAG
* * * * *
2430685 AGTCAATCTTTTACTGTTATCTTTCTTGACTTTCTTGCGAAAAAG
1 AGTCAATCTTTTAGTGTTGT-TTTCTTGACTTTCTCGTGAAGAAG
* *
2430730 TAGTCGATCTTTT-G-G-TGTTATTCTTGAATTTCTCGTGAAG-AG
1 -AGTCAATCTTTTAGTGTTGTT-TTCTTGACTTTCTCGTGAAGAAG
* ** * * * *
2430772 AAGTCAACCTTTTAGTGACGTTATTTTTTATTTTCTCGTGAAGATG
1 -AGTCAATCTTTTAGTGTTGTT-TTCTTGACTTTCTCGTGAAGAAG
* * ** *
2430818 A-TCAATATTTTAGTGTTGTCTTCCTTGACTTTCTCACGAAGAGG
1 AGTCAATCTTTTAGTGTTGT-TTTCTTGACTTTCTCGTGAAGAAG
* * ** * **
2430862 AGTCGATCATTTCTTGATGTCCTCATTGACTTTCTCGTGAAG-AG
1 AGTCAATCTTTTAGTGTTGTTTTC-TTGACTTTCTCGTGAAGAAG
* * * *
2430906 AAGTCAACCTTTTAGTGATGTTATTATTAACTTTCTCGTGAAG-AG
1 -AGTCAATCTTTTAGTGTTGTT-TTCTTGACTTTCTCGTGAAGAAG
* * * * * * *
2430951 AAGTAAACCTTTTAGTGATGTTATCCTTGACTTTCTCGCGGAGAGG
1 -AGTCAATCTTTTAGTGTTGTT-TTCTTGACTTTCTCGTGAAGAAG
*
2430997 AGTCAATCTTTTGGTGTTG--TTCTTGACTTTCTCGTGAAG-AG
1 AGTCAATCTTTTAGTGTTGTTTTCTTGACTTTCTCGTGAAGAAG
* * * * ** *
2431038 AAGTAAACCTTTTAGTGATGTTATCCTTGACTTTCTTATGAAGAGG
1 -AGTCAATCTTTTAGTGTTGTT-TTCTTGACTTTCTCGTGAAGAAG
* * * * *
2431084 AGTTAATTTTTTAGTGTTGTGTTCCTTGACTTTCTCGCGAAGAGG
1 AGTCAATCTTTTAGTGTTGT-TTTCTTGACTTTCTCGTGAAGAAG
* * *
2431129 AGTCGATCTTTTGGTGTTG--TTCTTGTCTTTCTCGTGAAG-AG
1 AGTCAATCTTTTAGTGTTGTTTTCTTGACTTTCTCGTGAAGAAG
* * * ** **
2431170 AAGTCAACCTTTTAGTGATGTTATTCTCGACTTTCTCCAGAAGGGG
1 -AGTCAATCTTTTAGTGTTGTT-TTCTTGACTTTCTCGTGAAGAAG
2431216 AGTCAATCTTTTAGTGTT
1 AGTCAATCTTTTAGTGTT
2431234 ATGATTCTTG
Statistics
Matches: 423, Mismatches: 103, Indels: 46
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.00
42 77 0.18
43 19 0.04
44 35 0.08
45 273 0.65
46 17 0.04
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (44 bp):
AGTCAATCTTTTAGTGTTGTTTTCTTGACTTTCTCGTGAAGAAG
Found at i:2430823 original size:132 final size:132
Alignment explanation
Indices: 2430618--2431250 Score: 709
Period size: 132 Copynumber: 4.8 Consensus size: 132
2430608 TTCAATATTA
* * * * * * *
2430618 TTCTTGAC-TTCGCATGAGGAGAAGTCAATCTTTAAGTGTTGTCT-TTCTTGACTTTCTCGTGTA
1 TTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGT-TATTCTTGACTTTCTCGTGAA
* * * * * *
2430681 GAAGAGTCAATCTTTTACTGTTATCTTTCTTGACTTTCTTGCGAAAAAGTAGTCGATCTTTTGGT
65 GAGGAGTCAATCTTTTAGTGTTATGTTTCTTGACTTTCTCGCG-AAGAGGAGTCGATCTTTTGGT
*
2430746 GTTA
129 GTTG
* * * * *
2430750 TTCTTGAATTTCTCGTGAAGAGAAGTCAACCTTTTAGTGACGTTATTTTTTATTTTCTCGTGAAG
1 TTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAG
* * * * * * * ** *
2430815 ATGA-TCAATATTTTAGTGTTGTCTTCCTTGACTTTCTCACGAAGAGGAGTCGATCATTTCTTGA
66 AGGAGTCAATCTTTTAGTGTTATGTTTCTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTGGTGT
2430879 TG
131 TG
* *
2430881 TCCTCATTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTATTAACTTTCTCGTG
1 T--TC-TTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTG
* * * * *
2430946 AAGAGAAGTAAACCTTTTAGTG--ATGTTATCCTTGACTTTCTCGCGGAGAGGAGTCAATCTTTT
63 AAGAGGAGTCAATCTTTTAGTGTTATGTT-T-CTTGACTTTCTCGCGAAGAGGAGTCGATCTTTT
2431009 GGTGTTG
126 GGTGTTG
* * **
2431016 TTCTTGACTTTCTCGTGAAGAGAAGTAAACCTTTTAGTGATGTTATCCTTGACTTTCTTATGAAG
1 TTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAG
* * * *
2431081 AGGAGTTAATTTTTTAGTGTTGTGTTCCTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTGGTGT
66 AGGAGTCAATCTTTTAGTGTTATGTTTCTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTGGTGT
2431146 TG
131 TG
* * **
2431148 TTCTTGTCTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTCGACTTTCTCCAGAAG
1 TTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAG
* * *
2431213 GGGAGTCAATCTTTTAGTGTTATGATTCTTGATTTTCT
66 AGGAGTCAATCTTTTAGTGTTATGTTTCTTGACTTTCT
2431251 TGGAAAAATG
Statistics
Matches: 417, Mismatches: 74, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
131 19 0.05
132 237 0.57
133 53 0.13
134 63 0.15
135 45 0.11
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (132 bp):
TTCTTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAG
AGGAGTCAATCTTTTAGTGTTATGTTTCTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTGGTGT
TG
Found at i:2431159 original size:87 final size:86
Alignment explanation
Indices: 2430578--2431235 Score: 344
Period size: 87 Copynumber: 7.5 Consensus size: 86
2430568 GAAGCTTCAA
* ** *** * * * * *
2430578 CTTGACTCTCTCTTGAAGAGGAGTCAATCTTTCAATATTATTCTTGAC-TTCGCATGAGGAGAAG
1 CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTGGTGTTATCCTTGACTTTCTCGTGAAGAGAAG
* * * *
2430642 TCAATCTTTAAGTGTTGTCTTT
66 TCAACCTTTTAGTGATGT-TTC
* * * ** * * *
2430664 CTTGACTTTCTCGTGTAGAAGAGTCAATCTTTTACTGTTATCTTTCTTGACTTTCTTGCGAAAAA
1 CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTGGTGTTATC---CTTGACTTTCTCGTG-AAGA
* * * *
2430729 GTAGTCGATCTTTT-G-G-TGTTATT
62 GAAGTCAACCTTTTAGTGATGTT-TC
* * * * * ** * *
2430752 CTTGAATTTCTCGTGAAGAGAAGTCAACCTTTTAGTGACGTTATTTTTTATTTTCTCGTGAAGAT
1 CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTT-G-G-TGTTATCCTTGACTTTCTCGTGAAGA-
** *
2430817 G-A-TCAATATTTTAGTGTTGTCTTC
62 GAAGTCAACCTTTTAGTGATGT-TTC
* * * ** *
2430841 CTTGACTTTCTCACGAAGAGGAGTCGATCATTTCTTGATGTCCTCATTGACTTTCTCGTGAAGAG
1 CTTGACTTTCTCGCGAAGAGGAGTCAATC--TT-TTGGTGTTATCCTTGACTTTCTCGTGAAGAG
*
2430906 AAGTCAACCTTTTAGTGATGTTATT
63 AAGTCAACCTTTTAGTGATGTT-TC
* * * * * * * *
2430931 ATTAACTTTCTCGTGAAGAGAAGTAAACCTTTTAGTGATGTTATCCTTGACTTTCTCGCGGAGAG
1 CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTT-G-G-TGTTATCCTTGACTTTCTCGTGAAGAG
* * * *
2430996 GAGTCAATCTTTTGGTGTTG-TT-
63 AAGTCAACCTTTTAGTGATGTTTC
* * * * **
2431018 CTTGACTTTCTCGTGAAGAGAAGTAAACCTTTTAGTGATGTTATCCTTGACTTTCTTATGAAGAG
1 CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTT-G-G-TGTTATCCTTGACTTTCTCGTGAAGAG
* * ** *
2431083 GAGTTAATTTTTTAGTGTTGTGTTC
63 AAGTCAACCTTTTAGTGATGT-TTC
* * * *
2431108 CTTGACTTTCTCGCGAAGAGGAGTCGATCTTTTGGTGTTGTTCTTGTCTTTCTCGTGAAGAGAAG
1 CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTGGTGTTATCCTTGACTTTCTCGTGAAGAGAAG
*
2431173 TCAACCTTTTAGTGATGTTATT
66 TCAACCTTTTAGTGATGTT-TC
* * *
2431195 CTCGACTTTCTC-CAGAAGGGGAGTCAATCTTTTAGTGTTAT
1 CTTGACTTTCTCGC-GAAGAGGAGTCAATCTTTTGGTGTTAT
2431236 GATTCTTGAT
Statistics
Matches: 443, Mismatches: 101, Indels: 55
0.74 0.17 0.09
Matches are distributed among these distances:
86 44 0.10
87 157 0.35
88 51 0.12
89 59 0.13
90 109 0.25
91 21 0.05
92 2 0.00
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (86 bp):
CTTGACTTTCTCGCGAAGAGGAGTCAATCTTTTGGTGTTATCCTTGACTTTCTCGTGAAGAGAAG
TCAACCTTTTAGTGATGTTTC
Found at i:2431241 original size:45 final size:43
Alignment explanation
Indices: 2430578--2431250 Score: 249
Period size: 45 Copynumber: 15.3 Consensus size: 43
2430568 GAAGCTTCAA
* ** * * * *
2430578 CTTGACTCTCTCTTGAAGAGGAGTCAATCTTTCAATAT-TATT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTGTGTGTT
* * * * *
2430620 CTTGAC-TTC-GCATGAGGAGAAGTCAATCTTTAAGTGTTGTCTTT
1 CTTGACTTTCTCCA-GAAGAGGAGTCAATCTTTTAGTG-TGT-GTT
** * * * * *
2430664 CTTGACTTTCTCGTGTAGAAGAGTCAATCTTTTACTGTTATCTTT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TGT-GTT
* * * * * *
2430709 CTTGACTTTCTTGC-GAAAAAGTAGTCGATCTTTTGGTGT-TATT
1 CTTGACTTTC-TCCAG-AAGAGGAGTCAATCTTTTAGTGTGTGTT
* ** * * * *
2430752 CTTGAATTTCTCGTGAAGAGAAGTCAACCTTTTAGTGACGTTATT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TG-TGTT
* * * ** * * *
2430797 TTTTATTTTCTCGTGAAGATGA-TCAATATTTTAGTGTTGTCTT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TGTGTT
* * ** **
2430840 CCTTGACTTTCT-CACGAAGAGGAGTCGATCATTTCTTGATGTCCT
1 -CTTGACTTTCTCCA-GAAGAGGAGTCAATCTTTTAGTG-TGTGTT
** * * *
2430885 CATTGACTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATT
1 C-TTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TG-TGTT
* * ** * * *
2430931 ATTAACTTTCTCGTGAAGAGAAGTAAACCTTTTAGTGATGT-TAT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TGTGT-T
* *
2430975 CCTTGACTTTCTCGC-GGAGAGGAGTCAATCTTTTGGTGT-TGTT
1 -CTTGACTTTCTC-CAGAAGAGGAGTCAATCTTTTAGTGTGTGTT
** * * *
2431018 CTTGACTTTCTCGTGAAGAGAAGTAAACCTTTTAGTGATGT-TAT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TGTGT-T
* * *
2431062 CCTTGACTTTCT-TATGAAGAGGAGTTAATTTTTTAGTGTTGTGTT
1 -CTTGACTTTCTCCA-GAAGAGGAGTCAATCTTTTAGTG-TGTGTT
* *
2431107 CCTTGACTTTCTCGC-GAAGAGGAGTCGATCTTTTGGTGT-TGTT
1 -CTTGACTTTCTC-CAGAAGAGGAGTCAATCTTTTAGTGTGTGTT
* ** * * *
2431150 CTTGTCTTTCTCGTGAAGAGAAGTCAACCTTTTAGTGATGTTATT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TG-TGTT
* * *
2431195 CTCGACTTTCTCCAGAAGGGGAGTCAATCTTTTAGTGTTATGATT
1 CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTG-TGTG-TT
*
2431240 CTTGATTTTCT
1 CTTGACTTTCT
2431251 TGGAAAAATG
Statistics
Matches: 475, Mismatches: 120, Indels: 69
0.72 0.18 0.10
Matches are distributed among these distances:
41 20 0.04
42 85 0.18
43 26 0.05
44 46 0.10
45 279 0.59
46 19 0.04
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (43 bp):
CTTGACTTTCTCCAGAAGAGGAGTCAATCTTTTAGTGTGTGTT
Found at i:2432212 original size:132 final size:134
Alignment explanation
Indices: 2432026--2432805 Score: 620
Period size: 132 Copynumber: 5.9 Consensus size: 134
2432016 TAAAGGGCAA
* * * *
2432026 TGGAGCGAATTCTTTTTCTTTCAAAATTGGTCTTCCTGAAGAGCAGCGAAGCAAATCACGTGCAA
1 TGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCACGTTCAA
* * *
2432091 TTCAATCTTCCCTGAAAAGCAGCGAAGTGGATCAAAATTTTCTTGAGTCTGATCT-CCCTAAAGA
66 TTCAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGA
2432155 GTAG
131 GTAG
* * * * * * * *
2432159 TTGAG-AAATTCTTCTTCTTTCATATTTGTTTTTCCTGAAGTGCAACGACGCAAATCACGTTCTA
1 TGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCACGTTCAA
* * * * *
2432223 TTCAATCTTCCTTGAAGAGAAGCAAAGTGGATCAAAATTTTCTCGAGTTTGATCTCCCCTAGAGC
66 TTCAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGA
2432288 GTAG
131 GTAG
* * * * * * *
2432292 TGGAGCATATTGTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGTAGCGAAGCGAATAATGTTCGA
1 TGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCACGTTCAA
* * * * *
2432357 TTCAATCTTCCCTGAAGAGCATCAAAGTGGATCAAAATTTTCTCGAGTCTGATATTCTCTAAAGT
66 TTCAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGA
*
2432422 GTAA
131 GTAG
* * * * * * *
2432426 TAGAGCATATTATAT-TTTTTTC-GATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCA-TTTCC
1 TGGAGCAAATTCT-TCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCACGTT-C
* * ** * * **
2432488 AAATTCAATCTTCCCCGAAGAGCA-CTGAAGTGGATCAAAA--TT-AAGTGTTTGATCTCCTATA
64 -AATTCAATCTTCCCTGAAGAGCAGC-AAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCCTA
2432549 AAGAGTAG
127 AAGAGTAG
*** ** * * * ** * * *
2432557 TGGAGGGGATTAATCTTCTTTTAGATTTGGTCTTCCTTAAGAGCAATGAATCTAATCGAC-TTCG
1 TGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATC-ACGTTCA
* * ** * * *
2432621 ATTCAATCTTCTCTGAAGAGAAGTGAAGTGGAACACAA--TTCTACGAGTCTGATCTACCCTAAA
65 ATTCAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAATTTTCT-CGAGTCTGATCTCCCCTAAA
*
2432684 GAATAG
129 GAGTAG
* * * * ** * *
2432690 TGGAGCATA-TCCTCTTTCTTT-AGATTTAGTCTTATTGAAGAG-AACTGAAGCAAATCAAGTTC
1 TGGAGCAAATTCTTC-TTCTTTCAAATTTGGTCTTCCTGAAGAGCAGC-GAAGCAAATCACGTTC
** * * * * *
2432752 GGTCCAGTCTTCCCTGAAGAGCAGCGAAGTGAATCAAAATTTTCTAGA-TCTGAT
64 AATTCAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCTGAT
2432806 TACCTGAAAG
Statistics
Matches: 515, Mismatches: 114, Indels: 37
0.77 0.17 0.06
Matches are distributed among these distances:
130 1 0.00
131 67 0.13
132 199 0.39
133 87 0.17
134 160 0.31
135 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (134 bp):
TGGAGCAAATTCTTCTTCTTTCAAATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCACGTTCAA
TTCAATCTTCCCTGAAGAGCAGCAAAGTGGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGA
GTAG
Found at i:2442508 original size:3 final size:3
Alignment explanation
Indices: 2442500--2442567 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
2442490 AGGTTAATAA
2442500 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
2442548 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
2442568 AGATTATACA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2445361 original size:45 final size:45
Alignment explanation
Indices: 2445304--2445593 Score: 256
Period size: 45 Copynumber: 6.5 Consensus size: 45
2445294 TTTACTATTA
* * * *
2445304 TTCTTGACTTTCTCATGAGGATAAGTCAATCTTTAAGTGTTATCT
1 TTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAGTGTTGTCT
2445349 TTCTTGACTTTCT-AGTGAAGA-AGAGTCAATCTTTTAGTGTTGTCT
1 TTCTTGACTTTCTCA-TGAAGAGA-AGTCAATCTTTTAGTGTTGTCT
* * *
2445394 TCCTTGACTTTCTCACGAAGAGAAATCAATCTTTT-G-G-TGT-T
1 TTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAGTGTTGTCT
* * *
2445435 ATTCTTGACTTTCTCGTGAAGAGAAGTCAA-CATTTTCGTGATGT-T
1 -TTCTTGACTTTCTCATGAAGAGAAGTCAATC-TTTTAGTGTTGTCT
* * * *
2445480 ATTCTTGACTTTATCATGAAAAGGAGTCAATATTTTAGTGTTGTCT
1 -TTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAGTGTTGTCT
* ** * * * *
2445526 TCCTTGACTTTCTCACAAAGTGTAGTCGATCTTTT-GTTGTTGTCC
1 TTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAG-TGTTGTCT
* *
2445571 TTCTTTACTTTCTCGTGAAGAGA
1 TTCTTGACTTTCTCATGAAGAGA
2445594 CAGTGTTGTT
Statistics
Matches: 199, Mismatches: 34, Indels: 24
0.77 0.13 0.09
Matches are distributed among these distances:
41 2 0.01
42 32 0.16
43 2 0.01
44 5 0.03
45 155 0.78
46 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (45 bp):
TTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTTAGTGTTGTCT
Found at i:2445507 original size:132 final size:134
Alignment explanation
Indices: 2445301--2445593 Score: 346
Period size: 132 Copynumber: 2.2 Consensus size: 134
2445291 TTTTTTACTA
* * * * *
2445301 TTATTCTTGACTTTCTCATGAGGATAAGTCAATCTTTAAGTGTTATCTTTCTTGACTTTCTAGTG
1 TTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTAAGTGATATCTTTCTTGACTTTATAGTG
* *
2445366 AAGAAGAGTCAATCTTTTAGTGTTGTCTTCCTTGACTTTCTCACGAAGAGAAATCAATCTTTTG-
66 AAGAAGAGTCAATATTTTAGTGTTGTCTTCCTTGACTTTCTCACAAAGAGAAATCAATCTTTTGT
2445430 G-TG
131 GTTG
** *
2445433 TTATTCTTGACTTTCTCGTGAAGAGAAGTCAA-CATTTTCGTGATGT-TATTCTTGACTTTATCA
1 TTATTCTTGACTTTCTCGTGAAGAGAAGTCAATC-TTTAAGTGATATCT-TTCTTGACTTTAT-A
* * * *
2445496 -TGAA-AAGGAGTCAATATTTTAGTGTTGTCTTCCTTGACTTTCTCACAAAGTGTAGTCGATCTT
63 GTGAAGAA-GAGTCAATATTTTAGTGTTGTCTTCCTTGACTTTCTCACAAAGAGAAATCAATCTT
2445559 TTGTTGTTG
127 TTG-TGTTG
** *
2445568 TCCTTCTTTACTTTCTCGTGAAGAGA
1 TTATTCTTGACTTTCTCGTGAAGAGA
2445594 CAGTGTTGTT
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
131 4 0.03
132 106 0.77
133 1 0.01
134 1 0.01
135 25 0.18
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (134 bp):
TTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTTAAGTGATATCTTTCTTGACTTTATAGTG
AAGAAGAGTCAATATTTTAGTGTTGTCTTCCTTGACTTTCTCACAAAGAGAAATCAATCTTTTGT
GTTG
Found at i:2445666 original size:45 final size:45
Alignment explanation
Indices: 2445597--2446185 Score: 203
Period size: 45 Copynumber: 13.2 Consensus size: 45
2445587 GAAGAGACAG
* * *
2445597 TGTTGTTCTTCACTTTCTCA-TGAAGAAAAATCAACCTTTTAGTGA
1 TGTTATTCTTGACTTTCT-AGTGAAGAAAAGTCAACCTTTTAGTGA
* * * * *
2445642 TGTTATTCTTTACTTTCTAGTGAAGAGAATTCAACCATTTAGTGT
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* ** * *
2445687 TGTT-TTCCTTGACTTTTTTTTTTCTGAA-AAAGAGTCAATCTTTTAGTGT
1 TGTTATT-CTTGAC----TTTCTAGTGAAGAAA-AGTCAACCTTTTAGTGA
* * *
2445736 TGTTA---TTGTCTTTCTTGTGAAGAGAAGTCAACCTTTTAGTGA
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* * ** * * *
2445778 TGTTATCCTTGACTTTCTCGTGAAGATGAGTTAATCTTTTAGTGT
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* * * * * ****
2445823 TG-TCTTCATTGGCTTTCTCGCGAA-AAGGAGTTGTTC-TTT--TGA
1 TGTTATTC-TTGACTTTCTAGTGAAGAA-AAGTCAACCTTTTAGTGA
* * * * * * *
2445865 TGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGA
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* * *** *
2445910 TGTTATTATTGACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGA
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* * * ** *
2445955 TGTTATCCTTGACTTTCTCGTGAAGAGGAA-TCAATGTTTTAGTGG
1 TGTTATTCTTGACTTTCTAGTGAAGA-AAAGTCAACCTTTTAGTGA
* * * ** * *
2446000 TGTCT-TCCTTAACTTTCTCA-CGAAGAGGAGTCGATCTTTT-G-G-
1 TGT-TATTCTTGACTTTCT-AGTGAAGAAAAGTCAACCTTTTAGTGA
* * * * * * * *
2446042 TGTTGTTCTTTACTTTATCGTGAATAGAAGTCAAACTTTTAGTTA
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* * *** * *
2446087 TGTTATTCTTGACTTTCTCGCGAAGGGGAGTAAATCTTTTAGT-A
1 TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
* *
2446131 TTGTGATTCTTGACTTTCTCA--GAA-AAAGGAGTTAACCTTTTAGTGA
1 -TGTTATTCTTGACTTTCT-AGTGAAGAAA--AGTCAACCTTTTAGTGA
*
2446177 TGTCATTCT
1 TGTTATTCT
2446186 AAACTTGACT
Statistics
Matches: 421, Mismatches: 90, Indels: 66
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.00
42 79 0.19
43 11 0.03
44 17 0.04
45 277 0.66
46 8 0.02
48 2 0.00
49 26 0.06
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (45 bp):
TGTTATTCTTGACTTTCTAGTGAAGAAAAGTCAACCTTTTAGTGA
Found at i:2445968 original size:177 final size:177
Alignment explanation
Indices: 2445733--2446150 Score: 541
Period size: 177 Copynumber: 2.4 Consensus size: 177
2445723 AATCTTTTAG
* * * * * *
2445733 TGTTGTTATTGTCTTTCTTGTGAAGAGAAGTCAACCTTTTAGTGATGTTATCCTTGACTTTCTCG
1 TGTTATTATTGACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGATGTTATCCTTGACTTTCTCG
* * * * ** * * *
2445798 TGAAGATGAGTTAATCTTTTAGTGTTGTCTTCATTGGCTTTCTCGCGAAAAGGAGTTGTTCTTTT
66 TGAAGAGGAATCAATCTTTTAGTGGTGTCTTCATTAACTTTCTCACGAAAAGGAGTCGATCTTTT
*
2445863 GATGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGA
131 GATGTTGTTATTGACTTTATCGTGAAGAGAAGTAAAACTTTTAATGA
2445910 TGTTATTATTGACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGATGTTATCCTTGACTTTCTCG
1 TGTTATTATTGACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGATGTTATCCTTGACTTTCTCG
* * *
2445975 TGAAGAGGAATCAATGTTTTAGTGGTGTCTTCCTTAACTTTCTCACGAAGAGGAGTCGATCTTTT
66 TGAAGAGGAATCAATCTTTTAGTGGTGTCTTCATTAACTTTCTCACGAAAAGGAGTCGATCTTTT
* * * * * * *
2446040 GGTGTTGTTCTTTACTTTATCGTGAATAGAAGTCAAACTTTTAGTTA
131 GATGTTGTTATTGACTTTATCGTGAAGAGAAGTAAAACTTTTAATGA
* * * * *
2446087 TGTTATTCTTGACTTTCTCGCGAAGGGGAGTAAATCTTTTAGT-ATTGTGATTCTTGACTTTCTC
1 TGTTATTATTGACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGA-TGTTATCCTTGACTTTCTC
2446151 AGAAAAAGGA
Statistics
Matches: 209, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
176 1 0.00
177 208 1.00
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (177 bp):
TGTTATTATTGACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGATGTTATCCTTGACTTTCTCG
TGAAGAGGAATCAATCTTTTAGTGGTGTCTTCATTAACTTTCTCACGAAAAGGAGTCGATCTTTT
GATGTTGTTATTGACTTTATCGTGAAGAGAAGTAAAACTTTTAATGA
Found at i:2445971 original size:132 final size:132
Alignment explanation
Indices: 2445725--2445983 Score: 351
Period size: 132 Copynumber: 2.0 Consensus size: 132
2445715 AAAGAGTCAA
* * * * * *
2445725 TCTTTTAGTGTTGTTATTGTCTTTCTTGTGAAGAGAAGTCAACCTTTTAGTGATGTTATCCTTGA
1 TCTTTTAGTGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGATGTTATCATTGA
* * * *
2445790 CTTTCTCGTGAAGATGAGTTAATCTTTTAGTGTTGTCTTCATTGGCTTTCTCGCGAAAAGGAGTT
66 CTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTCTTCATTGACTTTCTCGCGAAAAGGAGTT
2445855 GT
131 GT
*
2445857 TCTTTT-GATGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGATGTTATTATTG
1 TCTTTTAG-TGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGATGTTATCATTG
* * * *
2445921 ACTTTCTCGTGAAGGGGAGTCAATCTTTTAGTGATGT-TATCCTTGACTTTCTCGTGAAGAGGA
65 ACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTCT-TCATTGACTTTCTCGCGAAAAGGA
2445984 ATCAATGTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 2 0.02
132 108 0.98
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (132 bp):
TCTTTTAGTGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGATGTTATCATTGA
CTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTCTTCATTGACTTTCTCGCGAAAAGGAGTT
GT
Found at i:2446117 original size:87 final size:87
Alignment explanation
Indices: 2445596--2446185 Score: 336
Period size: 87 Copynumber: 6.6 Consensus size: 87
2445586 TGAAGAGACA
* * * * * * *
2445596 GTGTTGTTCTTCACTTTCTCATGAAGAAAAATCAACCTTTTAGTGATGTTATTCTTTACTTTCTA
1 GTGTTGTTCTTGACTTTCTCGTGAAGAGAAGTCAAACTTTTAGTGATGTTATTCTTGACTTTCTC
* * * * * *
2445661 GTGAAGAGAATTCAACCATTTA
66 GCGAAGAGGAGTCAATCTTTTG
* * * *
2445683 GTGTTGTTTTCCTTGACTTTTTTTTTTC-TGAA-AAAGAGTCAATCTTTTAGTGTTGTTA---TT
1 GTGTTG--TT-CTTGAC-----TTTCTCGTGAAGAGA-AGTCAAACTTTTAGTGATGTTATTCTT
* * * * *
2445743 GTCTTTCTTGTGAAGAGAAGTCAACCTTTTAG
57 GACTTTCTCGCGAAGAGGAGTCAATCTTTT-G
* * * * * * *
2445775 TGATGTTATCCTTGACTTTCTCGTGAAGATG-AGTTAATCTTTTAGTGTTG-TCTTCATTGGCTT
1 -G-TGTTGTTCTTGACTTTCTCGTGAAGA-GAAGTCAAACTTTTAGTGATGTTATTC-TTGACTT
* ***
2445838 TCTCGCGAAAAGGAGTTGTTCTTTTG
62 TCTCGCGAAGAGGAGTCAATCTTTTG
* * * * *
2445864 ATGTTGTTATTGACTTTCTCGTGAAGAGAAGTAAAACTTTTAATGATGTTATTATTGACTTTCTC
1 GTGTTGTTCTTGACTTTCTCGTGAAGAGAAGTCAAACTTTTAGTGATGTTATTCTTGACTTTCTC
* *
2445929 GTGAAGGGGAGTCAATCTTTTAG
66 GCGAAGAGGAGTCAATCTTTT-G
* * ** * * *
2445952 TGATGTTATCCTTGACTTTCTCGTGAAGAGGAA-TCAATGTTTTAGTGGTGTCT-TCCTTAACTT
1 -G-TGTTGTTCTTGACTTTCTCGTGAAGA-GAAGTCAAACTTTTAGTGATGT-TATTCTTGACTT
* *
2446015 TCTCACGAAGAGGAGTCGATCTTTTG
62 TCTCGCGAAGAGGAGTCAATCTTTTG
* * * *
2446041 GTGTTGTTCTTTACTTTATCGTGAATAGAAGTCAAACTTTTAGTTATGTTATTCTTGACTTTCTC
1 GTGTTGTTCTTGACTTTCTCGTGAAGAGAAGTCAAACTTTTAGTGATGTTATTCTTGACTTTCTC
* * *
2446106 GCGAAGGGGAGTAAATCTTTTA
66 GCGAAGAGGAGTCAATCTTTTG
* * * * * * *
2446128 GTATTGTGATTCTTGACTTTCTCAG-AAAAAGGAGTTAACCTTTTAGTGATGTCATTCT
1 GT-GT-TG-TTCTTGACTTTCTC-GTGAAGAGAAGTCAAACTTTTAGTGATGTTATTCT
2446186 AAACTTGACT
Statistics
Matches: 386, Mismatches: 85, Indels: 61
0.73 0.16 0.11
Matches are distributed among these distances:
86 11 0.03
87 157 0.41
88 7 0.02
89 6 0.02
90 130 0.34
91 38 0.10
92 1 0.00
93 4 0.01
94 27 0.07
95 5 0.01
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (87 bp):
GTGTTGTTCTTGACTTTCTCGTGAAGAGAAGTCAAACTTTTAGTGATGTTATTCTTGACTTTCTC
GCGAAGAGGAGTCAATCTTTTG
Found at i:2447085 original size:133 final size:131
Alignment explanation
Indices: 2446907--2447554 Score: 523
Period size: 133 Copynumber: 4.9 Consensus size: 131
2446897 AGATCTAGTT
* * * * * * * *
2446907 TCCCCTAAAGAGTAGTGGAGAAGATTCTATATCTTTCAAAATTGGTATTCTTGAAGAGCAGCGAA
1 TCCCCTAAAGAGTAGTGGAGAATATTATATTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * *
2446972 GCAAATCACATTCGATTCAATCTTCCCTGAAAAGCAGCGAAGTGGATCAATTTTTCTCAAGTCTT
66 GCAAATCA-ATTCGATTCAATCTTCCCTGAAAAGCAACGAAGTGGATCAA-TTTTCTCGAGTCTG
2447037 ATC
129 ATC
* * * * *
2447040 TCCACTAAAGATTAGTGGAGAATATTATTTTTCTTTCAGATTTGGTCTTCCTAAAGAGAAGTGAA
1 TCCCCTAAAGAGTAGTGGAGAATATTATATTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
* * * * * *
2447105 GTAAATCATGTTCGATTCAATCTTCCCTGAAGAGCAACAAAGTGGATCAAAATCTTATCGAGTCT
66 GCAAATCA-ATTCGATTCAATCTTCCCTGAAAAGCAACGAAGTGGATC--AATTTTCTCGAGTCT
2447170 GATC
128 GATC
* * * * *
2447174 TCCCCTAAAGAGTAATGGAGTAA-ATTATATTTCTCTCAGATTTGGTCTTCCAGAATAGCAGTAA
1 TCCCCTAAAGAGTAGTGGAG-AATATTATATTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGA
* * * * * * * *
2447238 AGCAAATCATTTCTAATTTAATCTT-CCTTAAAGAGCATCGAAATGGATCAA-TATGT--A-TCT
65 AGCAAATCAATTC-GATTCAATCTTCCCTGAAA-AGCAACGAAGTGGATCAATTTTCTCGAGTCT
2447298 GATC
128 GATC
* * *
2447302 TCCTCGAAAGAGTAGTGGA-ACATATTA-ATCTTCTTTCAGATTTGGTCTTCCTGAAGTGCAGTG
1 TCCCCTAAAGAGTAGTGGAGA-ATATTATAT-TTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTG
* * * * * * ** * *
2447365 AAGCCAATCGACTTCGGTTAAATCTTCTCTGAAGAA-TAATAAAGTGTATCACA-ATTCTACGAG
64 AAGCAAATC-AATTCGATTCAATCTTCCCTGAA-AAGCAACGAAGTGGATCA-ATTTTCT-CGAG
2447428 T-TCGATC
125 TCT-GATC
* * *
2447435 TCCCCTAAAGAGTAGTGGA-ACATATCT-TCTTTCTTTTAGATTTGGTCTTACTGAAGAGCAGTG
1 TCCCCTAAAGAGTAGTGGAGA-ATAT-TATATTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTG
* * * *
2447498 AAGCAAATCAAGTTC-AGTTCAATCTTCTCTGAAGAGCAGCGAAGTGAATCAAATTTT
64 AAGCAAATCAA-TTCGA-TTCAATCTTCCCTGAAAAGCAACGAAGTGGATC-AATTTT
2447555 TTGAGATCTG
Statistics
Matches: 405, Mismatches: 86, Indels: 47
0.75 0.16 0.09
Matches are distributed among these distances:
126 1 0.00
127 3 0.01
128 80 0.20
129 13 0.03
130 1 0.00
131 2 0.00
132 6 0.01
133 196 0.48
134 99 0.24
135 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (131 bp):
TCCCCTAAAGAGTAGTGGAGAATATTATATTTCTTTCAGATTTGGTCTTCCTGAAGAGCAGTGAA
GCAAATCAATTCGATTCAATCTTCCCTGAAAAGCAACGAAGTGGATCAATTTTCTCGAGTCTGAT
C
Found at i:2447391 original size:262 final size:261
Alignment explanation
Indices: 2447037--2447507 Score: 583
Period size: 262 Copynumber: 1.8 Consensus size: 261
2447027 CTCAAGTCTT
* * * *
2447037 ATCTCCACTAAAGATTAGTGGAGAATATTATTTTTCTTTCAGATTTGGTCTTCCTAAAGAGAAGT
1 ATCTCCACGAAAGAGTAGTGGAGAATATTAATCTTCTTTCAGATTTGGTCTTCCTAAAGAGAAGT
* * * *
2447102 GAAGTAAATCATGTTCGATTCAATCTTCCCTGAAGAGCAACAAAGTGGATCAAAA-TCTTATCGA
66 GAAGCAAATCATCTTCGATTAAATCTTCCCTGAAGAACAACAAAGTGGATCAAAATTC-TA-CGA
** *
2447166 G-TCTGATCTCCCCTAAAGAGTAATGGAGTAAAT-TATATTTCTCTCAGATTTGGTCTTCCAGAA
129 GTTC-GATCTCCCCTAAAGAGTAATGGAACAAATCT-TATTTCTCTCAGATTTGGTCTTACAGAA
*
2447229 TAGCAGTAAAGCAAATCATTTCTAATTTAATCTTCCTTAAAGAGCATCGAAATGGATCAATATGT
192 GAGCAGTAAAGCAAATCATTTCTAATTTAATCTTCCTTAAAGAGCATCGAAATGGATCAATATGT
2447294 ATCTG
257 ATCTG
* * * *
2447299 ATCTCCTCGAAAGAGTAGTGGA-ACATATTAATCTTCTTTCAGATTTGGTCTTCCTGAAGTGCAG
1 ATCTCCACGAAAGAGTAGTGGAGA-ATATTAATCTTCTTTCAGATTTGGTCTTCCTAAAGAGAAG
* * * * * * *
2447363 TGAAGCCAATCGA-CTTCGGTTAAATCTTCTCTGAAGAATAATAAAGTGTATCACAATTCTACGA
65 TGAAGCAAATC-ATCTTCGATTAAATCTTCCCTGAAGAACAACAAAGTGGATCAAAATTCTACGA
* * * * * *
2447427 GTTCGATCTCCCCTAAAGAGTAGTGGAACATATCTTCTTTCTTTTAGATTTGGTCTTACTGAAGA
129 GTTCGATCTCCCCTAAAGAGTAATGGAACAAATCTTATTTCTCTCAGATTTGGTCTTACAGAAGA
*
2447492 GCAGTGAAGCAAATCA
194 GCAGTAAAGCAAATCA
2447508 AGTTCAGTTC
Statistics
Matches: 174, Mismatches: 30, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
261 69 0.40
262 102 0.59
263 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (261 bp):
ATCTCCACGAAAGAGTAGTGGAGAATATTAATCTTCTTTCAGATTTGGTCTTCCTAAAGAGAAGT
GAAGCAAATCATCTTCGATTAAATCTTCCCTGAAGAACAACAAAGTGGATCAAAATTCTACGAGT
TCGATCTCCCCTAAAGAGTAATGGAACAAATCTTATTTCTCTCAGATTTGGTCTTACAGAAGAGC
AGTAAAGCAAATCATTTCTAATTTAATCTTCCTTAAAGAGCATCGAAATGGATCAATATGTATCT
G
Found at i:2459105 original size:52 final size:52
Alignment explanation
Indices: 2459006--2459105 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
2458996 GAGTATTCCA
* **
2459006 AAATACAGTTATGAATAGAATACAAAAGGTCCATATACAATTTATGCCATCT
1 AAATACAATTATGAATAGAATACAAAAGGTCCATATACAATACATGCCATCT
* * *
2459058 AAATACAATTATGACTCA-AATACAAAAGGTCTATATACAGTACATGCC
1 AAATACAATTATGAAT-AGAATACAAAAGGTCCATATACAATACATGCC
2459106 CAAAACTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 40 0.98
53 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (52 bp):
AAATACAATTATGAATAGAATACAAAAGGTCCATATACAATACATGCCATCT
Found at i:2461138 original size:24 final size:25
Alignment explanation
Indices: 2461098--2461153 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
2461088 AAATATAAAT
*
2461098 ATAAAAATCAAGATAAAA-ATAAGA
1 ATAAAAATCAAGATAAAATAAAAGA
*
2461122 ATAAAAATGAA-ACTAAAATAAAAGA
1 ATAAAAATCAAGA-TAAAATAAAAGA
*
2461147 AGAAAAA
1 ATAAAAA
2461154 AACAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 15 0.56
25 11 0.41
ACGTcount: A:0.73, C:0.04, G:0.09, T:0.14
Consensus pattern (25 bp):
ATAAAAATCAAGATAAAATAAAAGA
Found at i:2461163 original size:12 final size:12
Alignment explanation
Indices: 2461146--2461176 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2461136 AAAATAAAAG
2461146 AAGAAAAAAACA
1 AAGAAAAAAACA
2461158 AAGAAAAAAACA
1 AAGAAAAAAACA
2461170 AAGAAAA
1 AAGAAAA
2461177 TAATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAACA
Found at i:2461184 original size:2 final size:2
Alignment explanation
Indices: 2461179--2461206 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2461169 AAAGAAAATA
2461179 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
2461207 GGTATCTAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2465450 original size:21 final size:22
Alignment explanation
Indices: 2465424--2465476 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
2465414 AATATTTTAA
2465424 TTAGGATTTATTTT-CTT-TATT
1 TTAGGATTTATTTTCCTTGT-TT
*
2465445 TTAGGATTATCTTTTCCTTGTTT
1 TTAGGATT-TATTTTCCTTGTTT
2465468 TTAGGATTT
1 TTAGGATTT
2465477 TGAAGGCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.29
22 6 0.21
23 13 0.46
24 1 0.04
ACGTcount: A:0.17, C:0.08, G:0.13, T:0.62
Consensus pattern (22 bp):
TTAGGATTTATTTTCCTTGTTT
Found at i:2466363 original size:12 final size:12
Alignment explanation
Indices: 2466346--2466370 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2466336 AAACGATTTA
2466346 TATTTAATTATT
1 TATTTAATTATT
2466358 TATTTAATTATT
1 TATTTAATTATT
2466370 T
1 T
2466371 TATTCTTATC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTAATTATT
Found at i:2469632 original size:3 final size:3
Alignment explanation
Indices: 2469624--2469657 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
2469614 CTAAACTATG
2469624 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT A
2469658 ATAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ACT
Found at i:2469662 original size:3 final size:3
Alignment explanation
Indices: 2469656--2469762 Score: 91
Period size: 3 Copynumber: 36.0 Consensus size: 3
2469646 CTACTACTAC
*
2469656 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA T-A TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
2469702 -AGT TAA TAAA TAA TAA -AA TAA -AA TAA TAAA TAA AAA TATA TAA TCA
1 TA-A TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TAA TAA
2469748 TAA -AA TTAA TAA TAA
1 TAA TAA -TAA TAA TAA
2469763 ATCATAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
2 11 0.13
3 62 0.73
4 12 0.14
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2469683 original size:17 final size:17
Alignment explanation
Indices: 2469656--2469762 Score: 85
Period size: 17 Copynumber: 6.0 Consensus size: 17
2469646 CTACTACTAC
2469656 TAATAATAATAATAATAA
1 TAAT-ATAATAATAATAA
2469674 TAATATAATAATAATAA
1 TAATATAATAATAATAA
2469691 T-ATATTAATAAAGTTAATAAA
1 TAATA-TAAT-AA--TAAT-AA
*
2469712 TAATAAAATAA-AATAA
1 TAATATAATAATAATAA
*
2469728 TAA-ATAAAAATATATAA
1 TAATATAATAATA-ATAA
* *
2469745 TCATAAAATTAATAATAA
1 TAATATAA-TAATAATAA
2469763 ATCATAAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.07
16 9 0.12
17 27 0.37
18 13 0.18
19 4 0.05
20 6 0.08
21 6 0.08
22 3 0.04
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (17 bp):
TAATATAATAATAATAA
Found at i:2469683 original size:20 final size:20
Alignment explanation
Indices: 2469656--2469762 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
2469646 CTACTACTAC
2469656 TAATAATAATAATAATAATAA
1 TAATAATAATAATAAT-ATAA
*
2469677 T-ATAATAATAATAATATAT
1 TAATAATAATAATAATATAA
*
2469696 TAATAA-AGTTAATAA-ATAA
1 TAATAATA-ATAATAATATAA
2469715 TAA-AATAA-AATAATA-AA
1 TAATAATAATAATAATATAA
* * *
2469732 TAAAAATATATAATCATAAAA
1 TAATAATA-ATAATAATATAA
2469753 TTAATAATAA
1 -TAATAATAA
2469763 ATCATAAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
17 10 0.14
18 7 0.10
19 13 0.18
20 30 0.42
21 4 0.06
22 7 0.10
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
TAATAATAATAATAATATAA
Found at i:2473484 original size:18 final size:17
Alignment explanation
Indices: 2473440--2473489 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
2473430 ATTAGACGAT
**
2473440 AAATAATAAATAAATGTG
1 AAATAATAAA-AAATGAA
2473458 AAATGAATAAAAAATGAAA
1 AAAT-AATAAAAAATG-AA
2473477 AAATAATAAAAAA
1 AAATAATAAAAAA
2473490 CAGAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (17 bp):
AAATAATAAAAAATGAA
Found at i:2473495 original size:19 final size:19
Alignment explanation
Indices: 2473458--2473498 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2473448 AATAAATGTG
*
2473458 AAATGAATAAAAAATGAAA
1 AAATGAATAAAAAAAGAAA
2473477 AAAT-AATAAAAAACAGAAA
1 AAATGAATAAAAAA-AGAAA
2473496 AAA
1 AAA
2473499 CAAAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAATGAATAAAAAAAGAAA
Found at i:2473619 original size:27 final size:26
Alignment explanation
Indices: 2473583--2473639 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
2473573 AATAAAAAAT
*
2473583 AAAAATAAAAGAAGTAAAAAC-AACTA
1 AAAAATAAAAGAAAT-AAAACTAACTA
*
2473609 AAAAATAAAAAGAAATAATACTAACTA
1 AAAAAT-AAAAGAAATAAAACTAACTA
2473636 AAAA
1 AAAA
2473640 TAATGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (26 bp):
AAAAATAAAAGAAATAAAACTAACTA
Found at i:2475759 original size:84 final size:83
Alignment explanation
Indices: 2475647--2476127 Score: 470
Period size: 84 Copynumber: 5.8 Consensus size: 83
2475637 ATTTTATTGA
*** * * *
2475647 CAGATAACCCTTCTTTCCTTAGGCTATGCTGTAAATGATGTGCCCTAGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGCGTAGTCAAA
*
2475712 CTTGAAGGTCTTTGCTTGG
66 CTCGAAGGTCTTTG-TTGG
* * * * *
2475731 CAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGCGTAGTCAAA
* * *
2475796 CTCAAAGGTCTTTGGTGA
66 CTCGAAGGTCTTTGTTGG
* * * ** * * * *
2475814 CAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAG-AGCTGAGCGTAGTCAA
**
2475879 ACTCGGGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* * * * * *
2475895 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGCGTAGTCAAA
*
2475960 CTCAAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTT-GTTGG
* * * * *
2475979 CAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAG-AGCTGAGCGTAGTCAA
* **
2476044 ACTTGGGGGTC--T-TTGG
65 ACTCGAAGGTCTTTGTTGG
* ** * *
2476060 CAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGCGTAGTCAAA
2476125 CTC
66 CTC
2476128 AAAGTTATTT
Statistics
Matches: 316, Mismatches: 75, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
80 37 0.12
81 84 0.27
82 2 0.01
83 41 0.13
84 132 0.42
85 20 0.06
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (83 bp):
CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTAGAGCTGAGCGTAGTCAAA
CTCGAAGGTCTTTGTTGG
Found at i:2476071 original size:165 final size:165
Alignment explanation
Indices: 2475643--2476147 Score: 701
Period size: 165 Copynumber: 3.1 Consensus size: 165
2475633 GATAATTTTA
*** * * * * *
2475643 TTGACAGATAACCCTTCTTTCCTTAGGCTATGCTGTAAATGATGTGCCCTAG-AGCTGAGCGTAG
1 TTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
** * * *
2475707 TCAAACTTGAAGGTCTTTGCTTGGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATAT
66 TCAAACTTGGGGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATAT
2475772 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
127 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
* * **
2475811 -TGACAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
*
2475875 TCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
66 TCAAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
2475940 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
* * * * *
2475975 TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGACGTGCCCTCGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
* *
2476040 TCAAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTGCCT
66 TCAAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
* * *
2476105 TAGAGCTGAGCGTAGTCGAACTCAAAGTTATTTGG
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
2476140 TT-ACAGAT
1 TTGACAGAT
2476148 GTCCCCTCGA
Statistics
Matches: 303, Mismatches: 32, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
164 86 0.28
165 151 0.50
166 1 0.00
167 43 0.14
168 22 0.07
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (165 bp):
TTGACAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
TCAAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGG
Found at i:2476241 original size:130 final size:130
Alignment explanation
Indices: 2476021--2476271 Score: 396
Period size: 130 Copynumber: 1.9 Consensus size: 130
2476011 AAATGACGTG
* *
2476021 CCCTCGAAGCTGAGTGTAATCAAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCA
1 CCCTCGAAGCTGAGTATAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCA
* * *
2476086 TGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGTTATTTGGTTACAGATGTC
66 TACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTACAGATGTC
* * *
2476151 CCCTCGAAGCTGAGTATAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAGCTA
1 CCCTCGAAGCTGAGTATAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCA
* *
2476216 TACTGCAATTGATATGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTT
66 TACTGCAAATGATATGCC-TTAGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTT
2476272 GGGCACGATT
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
130 108 0.98
131 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (130 bp):
CCCTCGAAGCTGAGTATAATCAAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCCA
TACTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCAAAGGTATTTGGTTACAGATGTC
Found at i:2476483 original size:106 final size:106
Alignment explanation
Indices: 2476351--2477270 Score: 1498
Period size: 106 Copynumber: 8.7 Consensus size: 106
2476341 TTGGATATCA
* * ** *
2476351 TTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCATTCACTGTGAAGTTGAAATCGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* * * **
2476416 CCCTGAGATTGGGAAACTGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* * *
2476457 TTCGTCGAGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTTAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
2476522 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCAGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
2476563 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
2476628 CTCTGAAATTGAGAAGTTATTTATTGACAACCAGCGATCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* *
2476669 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTTAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
2476734 CTCTGAAATTGAGAAGTTGTTTATTTACAACCAGCGGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* * *
2476775 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCTTTCGTTGTAAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
* *
2476840 CTCTGAAATTGAGAAGTTGGTTATTGACAACCAGTGGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* *
2476881 TTCGTCGTGAAGTTGAACTTACGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
2476946 CTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* *
2476987 TTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
2477052 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
*
2477093 TTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
*
2477158 CTCTGAAATTGAGAAGTTGTTTATTTACAACCAGCGGTCCC
66 CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
* * * * * * *
2477199 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCTAATTTTCTTCGCTGCGAAGTTGAAATAGA
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
2477264 CTCTGAA
66 CTCTGAA
2477271 TAAAATTGGA
Statistics
Matches: 762, Mismatches: 52, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 762 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
CTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCC
Found at i:2480032 original size:17 final size:17
Alignment explanation
Indices: 2480006--2480038 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2479996 TGCGAATGAT
*
2480006 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
2480023 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
2480039 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:2481122 original size:18 final size:18
Alignment explanation
Indices: 2481096--2481149 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
2481086 AATAAATGTT
2481096 AAATGAATAAAAAATAAAA
1 AAAT-AATAAAAAATAAAA
*
2481115 AAATAATAAAAAAACAAAA
1 AAATAAT-AAAAAATAAAA
*
2481134 AAACAA-AAAAACATAA
1 AAATAATAAAAA-ATAA
2481150 TAAATAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 19 0.63
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (18 bp):
AAATAATAAAAAATAAAA
Found at i:2481242 original size:22 final size:22
Alignment explanation
Indices: 2481203--2481244 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2481193 GAAAAAGAAA
* *
2481203 AAAAATGAATGAAATAAAAAAT
1 AAAAATAAAAGAAATAAAAAAT
*
2481225 AAAAATAAAAGAAGTAAAAA
1 AAAAATAAAAGAAATAAAAA
2481245 CAACTAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (22 bp):
AAAAATAAAAGAAATAAAAAAT
Found at i:2481295 original size:28 final size:28
Alignment explanation
Indices: 2481225--2481299 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
2481215 AATAAAAAAT
* *
2481225 AAAAAT-AAAAGAAGTAAAAAC-AACTAA
1 AAAAATAAAAAGAAAT-AATACTAACTAA
2481252 AAAAATAAAAAGAAATAATACTAACTAA
1 AAAAATAAAAAGAAATAATACTAACTAA
* *
2481280 AAATAATGATAA-AAATAATA
1 AAA-AATAAAAAGAAATAATA
2481300 AAGTGAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.24
28 25 0.61
29 6 0.15
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (28 bp):
AAAAATAAAAAGAAATAATACTAACTAA
Found at i:2482775 original size:2 final size:2
Alignment explanation
Indices: 2482768--2482837 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
2482758 AATATAAATG
2482768 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
2482810 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
2482838 ACACATGTAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2483784 original size:27 final size:27
Alignment explanation
Indices: 2483737--2483795 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
2483727 AAACTACTAC
* *
2483737 TAATAAGTTTAGTTAGGATCATTAGAT
1 TAATAAGTTTAATTACGATCATTAGAT
*
2483764 TAATAAGTTTAATTACTATCATTAGAT
1 TAATAAGTTTAATTACGATCATTAGAT
2483791 TAATA
1 TAATA
2483796 CATTTACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (27 bp):
TAATAAGTTTAATTACGATCATTAGAT
Found at i:2486078 original size:3 final size:3
Alignment explanation
Indices: 2486070--2486131 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
2486060 CAAATTTAAA
2486070 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2486118 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
2486132 AACTAGGATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2493329 original size:32 final size:31
Alignment explanation
Indices: 2493283--2493369 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
2493273 TATTCTCGGA
* * *
2493283 TAGGCCCTGCGGCCCTAAGATGTGTTCTTAGG
1 TAGGCCCCGTGGCCCTAAAATGT-TTCTTAGG
* * *
2493315 TAGGCCCCGTGGCCCCAAAATCTTTCTTGGG
1 TAGGCCCCGTGGCCCTAAAATGTTTCTTAGG
* *
2493346 TAGGCTCTC-TGGCCCTAATATGTT
1 TAGGC-CCCGTGGCCCTAAAATGTT
2493370 CCCATATGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
31 24 0.55
32 20 0.45
ACGTcount: A:0.16, C:0.28, G:0.26, T:0.30
Consensus pattern (31 bp):
TAGGCCCCGTGGCCCTAAAATGTTTCTTAGG
Found at i:2496921 original size:30 final size:31
Alignment explanation
Indices: 2496877--2496969 Score: 152
Period size: 31 Copynumber: 3.0 Consensus size: 31
2496867 CCCGAAGGAC
* *
2496877 CAGTCCATAGATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
2496908 CAGT-CATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
*
2496938 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATATCCCGAAGAACATAGGTAAA
2496969 C
1 C
2496970 CCTCGACCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
30 28 0.48
31 30 0.52
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (31 bp):
CAGTCCATATATCCCGAAGAACATAGGTAAA
Found at i:2497734 original size:64 final size:63
Alignment explanation
Indices: 2497626--2497802 Score: 203
Period size: 64 Copynumber: 2.8 Consensus size: 63
2497616 TAATGAAGGT
* * ** * * * **
2497626 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTGCTGAG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTT-TCACTATTAATGAG
* *
2497690 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTTTCACTATTAATGAG
*
2497754 ATACATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT
2497803 CTTTTTTATA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
63 3 0.03
64 94 0.97
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTTTCACTATTAATGAG
Found at i:2497825 original size:64 final size:63
Alignment explanation
Indices: 2497689--2497850 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
2497679 TTATTGCTGA
* * *
2497689 GATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTTTCACTATAAAAGG
* *** *
2497753 GATACATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTTTTATAAAAGT
1 GATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT-TTCACTATAAAAGG
** *
2497818 G-TGCATCGATGCACTACCAATGCATCGGTGCAC
1 GATGCATCGATGCACTACTTATGCATCGATGCAC
2497851 ATTCAAACAA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.02
64 73 0.87
65 9 0.11
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (63 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTTTCACTATAAAAGG
Found at i:2499735 original size:31 final size:31
Alignment explanation
Indices: 2499687--2499841 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
2499677 TTCGAAGGAC
*
2499687 CAGTCCATA-GAT-CCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
2499717 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2499748 CAGTCCATATGTCCCGAAGAACATATGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2499779 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2499810 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2499841 C
1 C
2499842 CCTCGACCCT
Statistics
Matches: 118, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
30 9 0.08
31 109 0.92
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2500606 original size:64 final size:63
Alignment explanation
Indices: 2500498--2500722 Score: 211
Period size: 64 Copynumber: 3.5 Consensus size: 63
2500488 TAATGAAGGT
* * * ** * * **
2500498 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGTATTATTGCTGAG
1 ATGCATCGATACACTACTTATGCATCGATGCACGAATTGCATTCGATGTT-TATTATTAATGAG
* * *
2500562 ATGCATCGATACACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATACACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTTT-ATTATTAATGAG
* * *
2500626 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTATTATAAAAGAG
1 ATGCATCGATACACTACTTATGCATCGATGCACGAATTGCATTCGATG--TTTATTATTAATGAG
* * ** *
2500691 -TGTATCGATGCACTACCAATGCATCGGTGCAC
1 ATGCATCGATACACTACTTATGCATCGATGCAC
2500723 ATTCAAACAA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
63 3 0.02
64 120 0.90
65 8 0.06
66 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (63 bp):
ATGCATCGATACACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTATTATTAATGAG
Found at i:2503857 original size:23 final size:20
Alignment explanation
Indices: 2503812--2503866 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
2503802 TAATAATAAC
*
2503812 TTTAAATTATTAATTATTTA
1 TTTAAATTATTAATGATTTA
2503832 TTTAAATTAATTTGAATGATTTA
1 TTTAAATT-A-TT-AATGATTTA
*
2503855 TTTAATTTATTA
1 TTTAAATTATTA
2503867 TATTATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 9 0.30
21 3 0.10
22 3 0.10
23 15 0.50
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAAATTATTAATGATTTA
Found at i:2519033 original size:16 final size:16
Alignment explanation
Indices: 2519012--2519051 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2519002 TGTTTTATAT
*
2519012 AATCTTCACAACCCTA
1 AATCTTCACAACCCCA
2519028 AATCTTCACAACCCCA
1 AATCTTCACAACCCCA
2519044 AATCTTCA
1 AATCTTCA
2519052 TAAAAGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
AATCTTCACAACCCCA
Found at i:2524838 original size:26 final size:26
Alignment explanation
Indices: 2524809--2524861 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
2524799 AGAATTTGGG
2524809 ATCTTTGAACACAAACCAAATTAGCA
1 ATCTTTGAACACAAACCAAATTAGCA
*
2524835 ATCTTTGAACACAAATCAAATTAGCA
1 ATCTTTGAACACAAACCAAATTAGCA
2524861 A
1 A
2524862 GTAATAATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.25
Consensus pattern (26 bp):
ATCTTTGAACACAAACCAAATTAGCA
Found at i:2533076 original size:18 final size:19
Alignment explanation
Indices: 2533055--2533090 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2533045 CAAGCCTTTT
2533055 TCTAAAAG-TTAACATATG
1 TCTAAAAGATTAACATATG
*
2533073 TCTAAAAGATTAAGATAT
1 TCTAAAAGATTAACATAT
2533091 ACTAAGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (19 bp):
TCTAAAAGATTAACATATG
Found at i:2540018 original size:20 final size:20
Alignment explanation
Indices: 2539989--2540066 Score: 84
Period size: 20 Copynumber: 3.6 Consensus size: 20
2539979 CATTTATGGA
2539989 ATCATTTCATGCCTTAATGC
1 ATCATTTCATGCCTTAATGC
* *
2540009 ATCCTTTCATGCATTTTAGTTATGGC
1 ATCATTTCATGC--CTTA---AT-GC
2540035 ATCATTTCATGCCTTAATGC
1 ATCATTTCATGCCTTAATGC
2540055 ATCATTTCATGC
1 ATCATTTCATGC
2540067 ATTTTAGTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 25 0.52
21 2 0.04
22 3 0.06
24 3 0.06
25 2 0.04
26 13 0.27
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (20 bp):
ATCATTTCATGCCTTAATGC
Found at i:2540032 original size:46 final size:46
Alignment explanation
Indices: 2539982--2540087 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
2539972 TTAATTTCAT
*
2539982 TTATGGAATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGAATCATTTCATGCCTTAATGCATCATTTCATGCATTTTAG
*
2540028 TTATGGCATCATTTCATGCCTTAATGCATCATTTCATGCATTTTAG
1 TTATGGAATCATTTCATGCCTTAATGCATCATTTCATGCATTTTAG
*
2540074 TTATGGATTCATTT
1 TTATGGAATCATTT
2540088 TATAGTAGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (46 bp):
TTATGGAATCATTTCATGCCTTAATGCATCATTTCATGCATTTTAG
Found at i:2540037 original size:26 final size:26
Alignment explanation
Indices: 2540007--2540087 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
2539997 ATGCCTTAAT
*
2540007 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCATTTCATGCATTTTAGTTATG
*
2540033 GCATCATTTCATGC--CTTA---AT-
1 GCATCATTTCATGCATTTTAGTTATG
2540053 GCATCATTTCATGCATTTTAGTTATG
1 GCATCATTTCATGCATTTTAGTTATG
2540079 G-ATTCATTT
1 GCA-TCATTT
2540088 TATAGTAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
20 14 0.31
21 2 0.04
22 3 0.07
24 3 0.07
25 3 0.07
26 20 0.44
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.46
Consensus pattern (26 bp):
GCATCATTTCATGCATTTTAGTTATG
Found at i:2546375 original size:14 final size:14
Alignment explanation
Indices: 2546356--2546390 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2546346 AATGCTCGTG
2546356 ATGTATTTACAAAC
1 ATGTATTTACAAAC
2546370 ATGTATTTACAAAC
1 ATGTATTTACAAAC
2546384 ATGTATT
1 ATGTATT
2546391 AAGGACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (14 bp):
ATGTATTTACAAAC
Found at i:2547922 original size:3 final size:3
Alignment explanation
Indices: 2547908--2547949 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
2547898 TGTAAAATTG
2547908 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2547950 GTAATTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2555414 original size:5 final size:5
Alignment explanation
Indices: 2555404--2555479 Score: 66
Period size: 5 Copynumber: 15.2 Consensus size: 5
2555394 GGTCAACGGA
* * * *
2555404 CGGGT CGGGT CGGGT CAACGAT CGGGT CGGGT CGGGT TGGGT C-GGT CGTGT
1 CGGGT CGGGT CGGGT C--GGGT CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT
* *
2555455 CGAGT -TGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT CGGGT CGGGT CGGGT C
2555480 AGACTGGTCA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
4 6 0.11
5 47 0.84
7 3 0.05
ACGTcount: A:0.05, C:0.20, G:0.51, T:0.24
Consensus pattern (5 bp):
CGGGT
Found at i:2555422 original size:22 final size:22
Alignment explanation
Indices: 2555394--2555440 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
2555384 GGAAGTCAAC
2555394 GGTCAACGGA-CGGGTCGGGTCG
1 GGTCAAC-GATCGGGTCGGGTCG
2555416 GGTCAACGATCGGGTCGGGTCG
1 GGTCAACGATCGGGTCGGGTCG
2555438 GGT
1 GGT
2555441 TGGGTCGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.13, C:0.21, G:0.49, T:0.17
Consensus pattern (22 bp):
GGTCAACGATCGGGTCGGGTCG
Found at i:2555456 original size:19 final size:19
Alignment explanation
Indices: 2555425--2555478 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2555415 GGGTCAACGA
2555425 TCGGGTCGGGTCGGGTTGGG
1 TCGGGTCGGGTCGGGTT-GG
* *
2555445 TC-GGTCGTGTCGAGTTGG
1 TCGGGTCGGGTCGGGTTGG
2555463 TCGGGTCGGGTCGGGT
1 TCGGGTCGGGTCGGGT
2555479 CAGACTGGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.14
19 23 0.79
20 2 0.07
ACGTcount: A:0.02, C:0.17, G:0.54, T:0.28
Consensus pattern (19 bp):
TCGGGTCGGGTCGGGTTGG
Found at i:2555516 original size:19 final size:19
Alignment explanation
Indices: 2555478--2555535 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
2555468 TCGGGTCGGG
*
2555478 TCAGACTGGTC-AAACTGGT
1 TCAGACCGGTCAAAAC-GGT
2555497 TCAGACCGGTCAAAACGGT
1 TCAGACCGGTCAAAACGGT
* *
2555516 TC-GAACCAGTCAAACCGGT
1 TCAG-ACCGGTCAAAACGGT
2555535 T
1 T
2555536 TCCAGCAGCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.03
19 29 0.85
20 4 0.12
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (19 bp):
TCAGACCGGTCAAAACGGT
Found at i:2562682 original size:5 final size:5
Alignment explanation
Indices: 2562672--2562732 Score: 63
Period size: 5 Copynumber: 12.2 Consensus size: 5
2562662 AAAAGTCAAC
* * *
2562672 GGTCG GGTCG GGTCG GGTCAAG GGTCG GGTCA GGTC- GGTCG GGTAG GGT-T
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
2562722 GGTCG GGTCG G
1 GGTCG GGTCG G
2562733 ATCAGACCGG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.15
5 36 0.75
7 5 0.10
ACGTcount: A:0.07, C:0.16, G:0.56, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:2562697 original size:22 final size:22
Alignment explanation
Indices: 2562666--2562709 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2562656 CGTCAAAAAA
*
2562666 GTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCGGGTCAGGTCGG
*
2562688 GTCAAGGGTCGGGTCAGGTCGG
1 GTCAACGGTCGGGTCAGGTCGG
2562710 TCGGGTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.50, T:0.18
Consensus pattern (22 bp):
GTCAACGGTCGGGTCAGGTCGG
Found at i:2562698 original size:12 final size:12
Alignment explanation
Indices: 2562666--2562703 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2562656 CGTCAAAAAA
*
2562666 GTCAACGGTCGG
1 GTCAAGGGTCGG
2562678 GTC--GGGTCGG
1 GTCAAGGGTCGG
2562688 GTCAAGGGTCGG
1 GTCAAGGGTCGG
2562700 GTCA
1 GTCA
2562704 GGTCGGTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 9 0.39
12 14 0.61
ACGTcount: A:0.13, C:0.21, G:0.47, T:0.18
Consensus pattern (12 bp):
GTCAAGGGTCGG
Found at i:2562713 original size:14 final size:14
Alignment explanation
Indices: 2562672--2562730 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
2562662 AAAAGTCAAC
*
2562672 GGTCGGGTCGGGTCG
1 GGTCAGGTC-GGTCG
*
2562687 GGTCAAG--GGTCG
1 GGTCAGGTCGGTCG
2562699 GGTCAGGTCGGTCG
1 GGTCAGGTCGGTCG
*
2562713 GGT-AGGGTTGGTCG
1 GGTCA-GGTCGGTCG
2562727 GGTC
1 GGTC
2562731 GGATCAGACC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 11 0.31
13 1 0.03
14 19 0.53
15 5 0.14
ACGTcount: A:0.07, C:0.17, G:0.54, T:0.22
Consensus pattern (14 bp):
GGTCAGGTCGGTCG
Found at i:2562760 original size:19 final size:18
Alignment explanation
Indices: 2562738--2562798 Score: 86
Period size: 19 Copynumber: 3.2 Consensus size: 18
2562728 GTCGGATCAG
*
2562738 ACCGGTCAAAACGGTTCGA
1 ACCGGTCAAAACGG-TCAA
2562757 ACCGGTCAAAACCGGTCAA
1 ACCGGTCAAAA-CGGTCAA
2562776 ACCGGTCAAAACCGGTCAA
1 ACCGGTCAAAA-CGGTCAA
2562795 ACCG
1 ACCG
2562799 ATTTCCAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 37 0.93
20 3 0.08
ACGTcount: A:0.34, C:0.31, G:0.23, T:0.11
Consensus pattern (18 bp):
ACCGGTCAAAACGGTCAA
Found at i:2562769 original size:10 final size:10
Alignment explanation
Indices: 2562738--2562795 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
2562728 GTCGGATCAG
2562738 ACCGGTCAAA
1 ACCGGTCAAA
*
2562748 A-CGGTTC-GA
1 ACCGG-TCAAA
2562757 ACCGGTCAAA
1 ACCGGTCAAA
2562767 ACCGGTC-AA
1 ACCGGTCAAA
2562776 ACCGGTCAAA
1 ACCGGTCAAA
2562786 ACCGGTCAAA
1 ACCGGTCAAA
2562796 CCGATTTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 16 0.38
10 26 0.62
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.12
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:2562781 original size:29 final size:29
Alignment explanation
Indices: 2562738--2562795 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2562728 GTCGGATCAG
*
2562738 ACCGGTCAAAACGGTTC-GAACCGGTCAAA
1 ACCGGTCAAAACGG-TCAAAACCGGTCAAA
*
2562767 ACCGGTCAAACCGGTCAAAACCGGTCAAA
1 ACCGGTCAAAACGGTCAAAACCGGTCAAA
2562796 CCGATTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.12
Consensus pattern (29 bp):
ACCGGTCAAAACGGTCAAAACCGGTCAAA
Found at i:2581595 original size:54 final size:54
Alignment explanation
Indices: 2581513--2581960 Score: 524
Period size: 54 Copynumber: 8.2 Consensus size: 54
2581503 CCGAATGAGA
* *
2581513 ACTATGTGTGCAACCTCAA-AAATTCATAATTAGCTTATGAA-TTTCTGTATTGGC
1 ACTATGTGTGCAACCT-AAGAAATTCATAATGAGTTTATGAATTTTC-GTATTGGC
* * *
2581567 ACTATGTGTGCAACTTAAGAAATTCATAATGGGTTTATGAATTTTCATATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * * * *
2581621 ACTGTGTTTGCAACTTAAGAAATTCATAACGAGTTTATGAATTTTCGTATTGGA
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
*
2581675 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTCATGAA-TTTCTGTATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATTGGC
* ** * *
2581729 ACTATCTGTGCAATTTAAGAAATTCATAACGAGTTTATTAATTTTCGTATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * *
2581783 ACTATGTGTGCAACCTAAGAAATTCATATTGAGTATATGAATTTTCGTTTTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * * * * *
2581837 ACTATCTCTGCAACCCCCACGAAATTCATAATGAGTTTATGAATTTCCGTATTGAC
1 ACTATGTGTGCAA--CCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
* * * * * **
2581893 ACTATGTGTACAACCCCATGTACTTCATAATGAGTTTATGAATTACCGTATTGGC
1 ACTATGTGTGCAA-CCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
*
2581948 ACTAAGTGTGCAA
1 ACTATGTGTGCAA
2581961 AAACCGTGAA
Statistics
Matches: 338, Mismatches: 50, Indels: 11
0.85 0.13 0.03
Matches are distributed among these distances:
53 6 0.02
54 232 0.69
55 56 0.17
56 44 0.13
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.37
Consensus pattern (54 bp):
ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCGTATTGGC
Found at i:2583648 original size:30 final size:30
Alignment explanation
Indices: 2583613--2583679 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
2583603 AATTGTCTAA
2583613 AGAGATCCAGAGATAGATCAGTGCAAACTG
1 AGAGATCCAGAGATAGATCAGTGCAAACTG
*
2583643 AGAGATCTAGAGATAGATCAGTGCAAACTG
1 AGAGATCCAGAGATAGATCAGTGCAAACTG
2583673 AGAGATC
1 AGAGATC
2583680 AGTAGCAGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.18
Consensus pattern (30 bp):
AGAGATCCAGAGATAGATCAGTGCAAACTG
Found at i:2584532 original size:77 final size:78
Alignment explanation
Indices: 2584398--2584541 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 78
2584388 AAAAAATATG
* *
2584398 GTTTAATTAATTCAAATTAAATATAGATTAAATACTTATAATCTAAATTACAATC-TTTAACGTT
1 GTTTAATTAATTCAAATTAAATATAGATTAAAGACTTATAATCAAAATTACAATCTTTTAACGTT
2584462 TATTTAAACTCTT
66 TATTTAAACTCTT
* * * * * *
2584475 GTTTAATT-ATTCGAATTAAATAT-GAATTAAAAGAGTTGTAATCAAAATTGCATTCTTTTAATG
1 GTTTAATTAATTCAAATTAAATATAG-ATT-AAAGACTTATAATCAAAATTACAATCTTTTAACG
2584538 TTTA
64 TTTA
2584542 CTTACTATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
75 1 0.02
76 17 0.30
77 28 0.50
78 10 0.18
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (78 bp):
GTTTAATTAATTCAAATTAAATATAGATTAAAGACTTATAATCAAAATTACAATCTTTTAACGTT
TATTTAAACTCTT
Found at i:2590524 original size:56 final size:54
Alignment explanation
Indices: 2590177--2590618 Score: 436
Period size: 53 Copynumber: 8.3 Consensus size: 54
2590167 TACCGAATGA
* * *
2590177 GCACTATGTGTGCAACCTCACGAAATTTATAATGAGTTTATGAATTTCTGTATTG
1 GCACTATGTGTGCAACCT-AAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * * *
2590232 GCACTATGAGTGCAACTTAAGAAATT-ATAATAAGTTTATGAATTTCCATATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * * * * ** *
2590285 GAACGATGTATGCAA-TTAACAAATTTTTAATGAGTTTATGAATTTCCATATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * *
2590338 GCAC-ATGTGTGCAACGTAAGAAATTCATAATGGGTTCATGAATTTCCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * * * *
2590391 GAATTATATGTACAACTTAAGAAATTCATAATGAGTTTATGAATTT-C----T-
1 GCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * *
2590439 GCACTATGTTTGCAACCTAACAAATTCATAATGAGTTTATAAATTTCCGTATTG
1 GCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * * *
2590493 GCACTATGTGTGCTACCCCCATGAAATTCATAATGAGTTTATGAATTTCCGTACTG
1 GCACTATGTGTGC-A-ACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
* * ** * *
2590549 GAATTATGTGTGCAACCCCATATACTTCATAATGAGTTTATGAATTAT-CGTATTG
1 GCACTATGTGTGCAACCTAAGA-AATTCATAATGAGTTTATGAATT-TCCGTATTG
*
2590604 GCACTAAGTGTGCAA
1 GCACTATGTGTGCAA
2590619 AAACCATGGA
Statistics
Matches: 319, Mismatches: 55, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
48 38 0.12
49 2 0.01
52 18 0.06
53 98 0.31
54 59 0.18
55 58 0.18
56 46 0.14
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
GCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTG
Found at i:2592862 original size:18 final size:18
Alignment explanation
Indices: 2592841--2592875 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2592831 AAATATTGGT
*
2592841 CTTTGTGTGTAGATAAAG
1 CTTTGTGAGTAGATAAAG
*
2592859 CTTTGTGAGTATATAAA
1 CTTTGTGAGTAGATAAA
2592876 ACAACCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (18 bp):
CTTTGTGAGTAGATAAAG
Found at i:2595689 original size:21 final size:21
Alignment explanation
Indices: 2595645--2595703 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
2595635 AGTCTAGTTG
*
2595645 TTGCATGTTGTGTTGTATTTTGTT
1 TTGCAT-TT-TGTT-TACTTTGTT
2595669 TTGCATTTTGTTTACTTTGTT
1 TTGCATTTTGTTTACTTTGTT
* *
2595690 ATGCATTTCGTTTA
1 TTGCATTTTGTTTA
2595704 AACCATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.62
22 4 0.12
23 2 0.06
24 6 0.19
ACGTcount: A:0.12, C:0.08, G:0.19, T:0.61
Consensus pattern (21 bp):
TTGCATTTTGTTTACTTTGTT
Found at i:2597668 original size:23 final size:23
Alignment explanation
Indices: 2597638--2597742 Score: 123
Period size: 23 Copynumber: 4.7 Consensus size: 23
2597628 CGCATTTTCT
2597638 TAAGAGTACTTTGTGTACTATGG
1 TAAGAGTACTTTGTGTACTATGG
2597661 TAAGAGTACTTTGTGTACT-TGG
1 TAAGAGTACTTTGTGTACTATGG
* *
2597683 --AGTAGTACTTTGTGAACAATGG
1 TAAG-AGTACTTTGTGTACTATGG
*
2597705 TAAGAGTACTTTGTATACTA-GG
1 TAAGAGTACTTTGTGTACTATGG
2597727 --AGTAGTACTTTGTGTA
1 TAAG-AGTACTTTGTGTA
2597743 TTACGACACT
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
20 4 0.06
21 25 0.35
22 8 0.11
23 32 0.45
24 2 0.03
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (23 bp):
TAAGAGTACTTTGTGTACTATGG
Found at i:2597705 original size:44 final size:44
Alignment explanation
Indices: 2597642--2597740 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
2597632 TTTTCTTAAG
* * * *
2597642 AGTACTTTGTGTACTATGGTAAGAGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGAACAATGGTAAGAGTACTTTGTATACTAGGAGT
2597686 AGTACTTTGTGAACAATGGTAAGAGTACTTTGTATACTAGGAGT
1 AGTACTTTGTGAACAATGGTAAGAGTACTTTGTATACTAGGAGT
2597730 AGTACTTTGTG
1 AGTACTTTGTG
2597741 TATTACGACA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.38
Consensus pattern (44 bp):
AGTACTTTGTGAACAATGGTAAGAGTACTTTGTATACTAGGAGT
Found at i:2602485 original size:19 final size:21
Alignment explanation
Indices: 2602458--2602508 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
2602448 CTAAATTTGA
*
2602458 TATCGATACTC-AAAGG-GAG
1 TATCAATACTCTAAAGGTGAG
* **
2602477 TATCAATACCCTTCAGGTGAG
1 TATCAATACTCTAAAGGTGAG
2602498 TATCAATACTC
1 TATCAATACTC
2602509 GTGCAAGGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 9 0.36
20 3 0.12
21 13 0.52
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (21 bp):
TATCAATACTCTAAAGGTGAG
Found at i:2616302 original size:29 final size:29
Alignment explanation
Indices: 2616247--2616302 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
2616237 CAAATTTTGG
* ** *
2616247 TTAGTGACCAAAATGTAATTTTTGAAAGT
1 TTAGTGACCAAAATATAAAATTGGAAAGT
*
2616276 TTAGTGACCAAAGTATAAAATTGGAAA
1 TTAGTGACCAAAATATAAAATTGGAAA
2616303 AATTCAAGGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (29 bp):
TTAGTGACCAAAATATAAAATTGGAAAGT
Found at i:2618012 original size:15 final size:15
Alignment explanation
Indices: 2617992--2618037 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
2617982 CCTACTATCT
2617992 TTATTATTATTAATA
1 TTATTATTATTAATA
* *
2618007 TTATTACTCTTAATA
1 TTATTATTATTAATA
*
2618022 ATATTATTATTAATA
1 TTATTATTATTAATA
2618037 T
1 T
2618038 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATTATTAATA
Found at i:2620513 original size:89 final size:87
Alignment explanation
Indices: 2620383--2620689 Score: 409
Period size: 89 Copynumber: 3.5 Consensus size: 87
2620373 TGAAGGCTGG
* * **
2620383 ATTGAATTGAAAAGAATTTGTTTCACTACTCTTCCGCGAAGATCAAATGCAATGCTGATTTGCTT
1 ATTGACTTGAAAAGAATATGTTTCACTACTCTTCCATGAAGATCAAAT-CAATG-TGATTTGCTT
2620448 CCACTACTCTTCCGTGGAGATTGA
64 CCACTACTCTTCCGTGGAGATTGA
* * * * * *
2620472 ATTGACTTGAAAATAATATGTTTCACCATTCTTCCGTGAAGATCAGACTCGAGAT-TAATTTGCT
1 ATTGACTTGAAAAGAATATGTTTCACTACTCTTCCATGAAGATCA-AATC-A-ATGTGATTTGCT
2620536 TCCACTACTCTTCCGTGGAGATTGA
63 TCCACTACTCTTCCGTGGAGATTGA
* * *
2620561 ATTGACTTGAAAAGAATATGTTTTACTACTCTTTCATGAAGATCAGATTCAATGTTGATTTGCTT
1 ATTGACTTGAAAAGAATATGTTTCACTACTCTTCCATGAAGATCA-AATCAATG-TGATTTGCTT
2620626 CCACTACTCTTCCGTGGAGATTGA
64 CCACTACTCTTCCGTGGAGATTGA
* *
2620650 ATTGACTTCAAAAGAATTTGTTTCACTACTCTTCCATGAA
1 ATTGACTTGAAAAGAATATGTTTCACTACTCTTCCATGAA
2620690 TACTAAACTC
Statistics
Matches: 193, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
87 2 0.01
88 1 0.01
89 185 0.96
90 3 0.02
91 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (87 bp):
ATTGACTTGAAAAGAATATGTTTCACTACTCTTCCATGAAGATCAAATCAATGTGATTTGCTTCC
ACTACTCTTCCGTGGAGATTGA
Found at i:2620593 original size:46 final size:46
Alignment explanation
Indices: 2620355--2620684 Score: 175
Period size: 46 Copynumber: 7.4 Consensus size: 46
2620345 GGATTTGCAA
** * ** * *
2620355 TGTTTCACTACTCTTTTGTGAAGGCTGGATTGAATTGAAAAGAATT
1 TGTTTCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATT
* * * * * **
2620401 TGTTTCACTACTCTTCCGCGAAGA-TCAAATG-CAATG--CTG-ATT
1 TGTTTCACTACTCTTCCGTGGAGATTGAATTGAC-TTGAAAAGAATT
* * *
2620443 TGCTTCCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAATAATA
1 TG-TTTCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATT
* * * * * * **
2620490 TGTTTCACCATTCTTCCGTGAAGA-T-CA--GACTCGAGATTAATT
1 TGTTTCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATT
* *
2620532 TGCTTCCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATA
1 TG-TTTCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATT
* * * * * * * **
2620579 TGTTTTACTACTCTTTCATGAAGA-TCAGATTCA-ATG--TTG-ATT
1 TGTTTCACTACTCTTCCGTGGAGATTGA-ATTGACTTGAAAAGAATT
* *
2620621 TGCTTCCACTACTCTTCCGTGGAGATTGAATTGACTTCAAAAGAATT
1 TG-TTTCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATT
2620668 TGTTTCACTACTCTTCC
1 TGTTTCACTACTCTTCC
2620685 ATGAATACTA
Statistics
Matches: 202, Mismatches: 63, Indels: 38
0.67 0.21 0.13
Matches are distributed among these distances:
42 22 0.11
43 60 0.30
44 12 0.06
45 13 0.06
46 74 0.37
47 21 0.10
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (46 bp):
TGTTTCACTACTCTTCCGTGGAGATTGAATTGACTTGAAAAGAATT
Found at i:2629823 original size:26 final size:28
Alignment explanation
Indices: 2629770--2629823 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
2629760 CTTTGAATAT
*
2629770 TTTATAAAATGAGAAAATCAATACATGA
1 TTTATAAAATGAGAAAATCAATAAATGA
2629798 TTTAT-AAATG-GAACAAT-AATAAATGA
1 TTTATAAAATGAGAA-AATCAATAAATGA
2629824 CATACATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 11 0.46
27 8 0.33
28 5 0.21
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.30
Consensus pattern (28 bp):
TTTATAAAATGAGAAAATCAATAAATGA
Found at i:2629858 original size:3 final size:3
Alignment explanation
Indices: 2629850--2629878 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2629840 TGATTAAACA
2629850 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2629879 GATACTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2635051 original size:13 final size:13
Alignment explanation
Indices: 2635035--2635066 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2635025 TCTGCTCGCA
2635035 TTTGCTGCCTCTG
1 TTTGCTGCCTCTG
2635048 TTTGCTGCCTCTG
1 TTTGCTGCCTCTG
2635061 TTTGCT
1 TTTGCT
2635067 TACACATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.22, T:0.50
Consensus pattern (13 bp):
TTTGCTGCCTCTG
Found at i:2635502 original size:243 final size:242
Alignment explanation
Indices: 2635074--2635555 Score: 939
Period size: 243 Copynumber: 2.0 Consensus size: 242
2635064 GCTTACACAT
2635074 GCAATCTGGCATGGGAAATGTGTAAACTGCAGCGCTGGGTTTCTTCAATTCCCTTCCCTTCACAT
1 GCAATCTGGCATGGGAAATGTGTAAACTGCAGCGCTGGGTTTCTTCAATTCCCTTCCCTTCACAT
2635139 CGCTATACCGAAGCATATCTTTCATCTGCCGTTTGAAGGTTTCCCACCTACGAAACAAACACAAC
66 CGCTATACCGAAGCATATCTTTCATCTGCCGTTTGAAGGTTTCCCACCTACGAAACAAACACAAC
2635204 GAACATAGACTTGGGATCGAGCATAGAATGACCATATATTAACTCATTACACAATAAAGGGAATT
131 GAACATAGACTTGGGATCGAGCATAGAATGACCATATATTAACTCATTACACAATAAAGGGAATT
2635269 TAATACCAGAGTGAAATGAGAGCAGAAGGGAACTATTTACCTGATATG
196 TAATACCAGAGTGAAATGAGAGCA-AAGGGAACTATTTACCTGATATG
2635317 GCAATCTGGCATGGGAAATGTGTAAACTGCAGCGCTGGGTTTCTTCAATTCCCTTCCCTTCACAT
1 GCAATCTGGCATGGGAAATGTGTAAACTGCAGCGCTGGGTTTCTTCAATTCCCTTCCCTTCACAT
2635382 CGCTATACCGAAGCATATCTTTCATCTGCCGTTTGAAGGTTTCCCACCTACGAAACAAACACAAC
66 CGCTATACCGAAGCATATCTTTCATCTGCCGTTTGAAGGTTTCCCACCTACGAAACAAACACAAC
2635447 GAACATAGACTTGGGATCGAGCATAGAATGACCATA-ATATAACTCATTACACAATAAAGGGAAT
131 GAACATAGACTTGGGATCGAGCATAGAATGACCATATAT-TAACTCATTACACAATAAAGGGAAT
2635511 TTAATACCAGAGTGAAATGAGAGCAAAGGGAACTATTTACCTGAT
195 TTAATACCAGAGTGAAATGAGAGCAAAGGGAACTATTTACCTGAT
2635556 GAGGGCTATC
Statistics
Matches: 238, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
242 22 0.09
243 216 0.91
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (242 bp):
GCAATCTGGCATGGGAAATGTGTAAACTGCAGCGCTGGGTTTCTTCAATTCCCTTCCCTTCACAT
CGCTATACCGAAGCATATCTTTCATCTGCCGTTTGAAGGTTTCCCACCTACGAAACAAACACAAC
GAACATAGACTTGGGATCGAGCATAGAATGACCATATATTAACTCATTACACAATAAAGGGAATT
TAATACCAGAGTGAAATGAGAGCAAAGGGAACTATTTACCTGATATG
Found at i:2636859 original size:85 final size:84
Alignment explanation
Indices: 2636745--2636915 Score: 299
Period size: 85 Copynumber: 2.0 Consensus size: 84
2636735 TTATCATAAG
*
2636745 ATAGTTCAATTTTCAATAATTCGGCTGTACCTCTCAGGATCATCAAATGATTCTCCTTCATTGGT
1 ATAGTTCAATTTTCAATAATTCGGCTGTACCTCTCAGGATCATCAAATGATTCTCATTCATTGGT
2636810 TAATTGTAGATTAGGAACC
66 TAATTGTAGATTAGGAACC
*
2636829 ATAGTTCAATTCTTCAATAATTC-GCATGTACCTCTCAGGATCATCAAATGATTCTCATTCTTTG
1 ATAGTTCAATT-TTCAATAATTCGGC-TGTACCTCTCAGGATCATCAAATGATTCTCATTCATTG
2636893 GTTAATTGTAGATTAGGAACC
64 GTTAATTGTAGATTAGGAACC
2636914 AT
1 AT
2636916 CGGAGTGTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
84 13 0.16
85 70 0.84
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (84 bp):
ATAGTTCAATTTTCAATAATTCGGCTGTACCTCTCAGGATCATCAAATGATTCTCATTCATTGGT
TAATTGTAGATTAGGAACC
Found at i:2648219 original size:16 final size:16
Alignment explanation
Indices: 2648194--2648232 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
2648184 TAGATAAGTT
* *
2648194 CTTTTTGTTGCAATAG
1 CTTTTAGTTGCAAAAG
2648210 CTTTTAGTTGCAAAAG
1 CTTTTAGTTGCAAAAG
2648226 CTTTTAG
1 CTTTTAG
2648233 CTTTTAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (16 bp):
CTTTTAGTTGCAAAAG
Found at i:2659673 original size:192 final size:191
Alignment explanation
Indices: 2659268--2659764 Score: 542
Period size: 192 Copynumber: 2.6 Consensus size: 191
2659258 TTTAGAATTC
* * * * * *
2659268 TTGACAAAATCGATTTCAATTTGAGAAAACCGGTAAAGAGCTACCAGAATTGTTGACAGTATCAA
1 TTGACAAAATCTATTTCAATTTGAAAAAACCGGTAAAGAGATACCAGAATTGTTGAAAATATCGA
* * * *
2659333 TAATTTTATAAGTATATATACCAAAGTATTGATATATAGGAATTTAAAACAACTACAATAATAAC
66 TACTTTTATAAGTATATGTACCAAAGTATAGATATATAGGAATTGAAAACAACTACAATAATAAC
* * * *
2659398 GGCTAAATAGTATCGATACCTTACACACACTTGTCGATATGACAATATAACAAGTTGAAAT
131 GGCTAAATAGTATCGATACATTACAAACACTTATCGACATGACAATATAACAAGTTGAAAT
* * * * *
2659459 TTGACGAAAT-TAGTTTCAATTTGACAAAACCGGTAAAGAGATACC-GAAATTATTGATAATGTC
1 TTGACAAAATCTA-TTTCAATTTGAAAAAACCGGTAAAGAGATACCAG-AATTGTTGAAAATATC
* * * * **
2659522 GATACTTTTATAAGTATGTGTA-CAAAGTATCGATACTGTAGGAATTGAAAATAA-TTGAATAAT
64 GATACTTTTATAAGTATATGTACCAAAGTATAGATA-TATAGGAATTGAAAACAACTACAATAAT
* * * *
2659585 AGC-GCATATAA-AGTTTCGATACATTAGAAACA-TGTATCGACACATGACAATATAACATGTTG
128 AACGGC-TA-AATAGTATCGATACATTACAAACACT-TATCG--ACATGACAATATAACAAGTTG
2659647 AAAT
188 AAAT
* *
2659651 TTGAAAAAATCTATTTCAATTTGAAAAAACCGGTAAAGCGATACCAGAATTGTTGAAAATATCGA
1 TTGACAAAATCTATTTCAATTTGAAAAAACCGGTAAAGAGATACCAGAATTGTTGAAAATATCGA
* * * *
2659716 TACTTGTATAAATATATGTACCATAGTATAG-TATTTTAGGAATTGAAAA
66 TACTTTTATAAGTATATGTACCAAAGTATAGATA-TATAGGAATTGAAAA
2659765 GAAATGAAAA
Statistics
Matches: 255, Mismatches: 40, Indels: 21
0.81 0.13 0.07
Matches are distributed among these distances:
189 3 0.01
190 46 0.18
191 86 0.34
192 109 0.43
193 11 0.04
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (191 bp):
TTGACAAAATCTATTTCAATTTGAAAAAACCGGTAAAGAGATACCAGAATTGTTGAAAATATCGA
TACTTTTATAAGTATATGTACCAAAGTATAGATATATAGGAATTGAAAACAACTACAATAATAAC
GGCTAAATAGTATCGATACATTACAAACACTTATCGACATGACAATATAACAAGTTGAAAT
Found at i:2660615 original size:18 final size:18
Alignment explanation
Indices: 2660592--2660634 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2660582 GATGTAGTTT
*
2660592 TTCTCAACCAATGTCA-TC
1 TTCTCAACCAAGGT-ATTC
2660610 TTCTCAACCAAGGTATTC
1 TTCTCAACCAAGGTATTC
2660628 TTCTCAA
1 TTCTCAA
2660635 GTAAGGTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (18 bp):
TTCTCAACCAAGGTATTC
Found at i:2663198 original size:18 final size:18
Alignment explanation
Indices: 2663172--2663207 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2663162 GTATATGCAG
2663172 ATTTCAATTTCAACTTGA
1 ATTTCAATTTCAACTTGA
* *
2663190 ATTTGAATTTCAATTTGA
1 ATTTCAATTTCAACTTGA
2663208 GCTCACTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTTCAATTTCAACTTGA
Found at i:2663609 original size:81 final size:81
Alignment explanation
Indices: 2663511--2663676 Score: 253
Period size: 81 Copynumber: 2.0 Consensus size: 81
2663501 CGTTTAGTCC
* * *
2663511 TTTACCCAAAGGCATTTAGA-CTTTCATCTAACTTGCATAATTGACACCTTTCTGCCAAATGCAC
1 TTTACCCAAAGGCATTTA-ACCTTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGCAC
*
2663575 AGCTAGGCCATTAATAT
65 AGCTAAGCCATTAATAT
* *
2663592 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGCACA
1 TTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGCACA
*
2663657 GCTAAGCCATTAATCT
66 GCTAAGCCATTAATAT
2663673 TTTA
1 TTTA
2663677 TTTTTAAATA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 76 0.99
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (81 bp):
TTTACCCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGCACA
GCTAAGCCATTAATAT
Found at i:2664051 original size:20 final size:20
Alignment explanation
Indices: 2664026--2664072 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2664016 GTTATGGCAC
2664026 CCTTTCATGCCTTAATGCAT
1 CCTTTCATGCCTTAATGCAT
2664046 CCTTTCATGCCTTAATGCAT
1 CCTTTCATGCCTTAATGCAT
*
2664066 CATTTCA
1 CCTTTCA
2664073 CATTTTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (20 bp):
CCTTTCATGCCTTAATGCAT
Found at i:2664143 original size:46 final size:44
Alignment explanation
Indices: 2664043--2664146 Score: 127
Period size: 46 Copynumber: 2.3 Consensus size: 44
2664033 TGCCTTAATG
* * *
2664043 CATCCTTTCATGCCTTAATGCATCATTTCACATTTTTTGTTATGG
1 CATCCTTTCATG-CGTAATGCATCATTTCACATTTTTAGTTATGA
* * *
2664088 TATCATTTCATGCGTAATGCATCCTTTCATGCATTTTTAGTTATGA
1 CATCCTTTCATGCGTAATGCATCATTTCA--CATTTTTAGTTATGA
2664134 CATCCTTTCATGC
1 CATCCTTTCATGC
2664147 CTATAATGCA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 15 0.31
45 10 0.20
46 24 0.49
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.45
Consensus pattern (44 bp):
CATCCTTTCATGCGTAATGCATCATTTCACATTTTTAGTTATGA
Found at i:2664541 original size:45 final size:45
Alignment explanation
Indices: 2664116--2664539 Score: 650
Period size: 45 Copynumber: 9.3 Consensus size: 45
2664106 GCATCCTTTC
* * *
2664116 ATGCATTTTTAGTTATGACATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTA-TTTTGGCATCCTTTCATGCCTATAATGCACCCAT
*
2664162 ATGCATTATTATTTTGGTATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* *
2664207 ATGAATTATTATTATTTTGGCATCCTTTCATGCCTATAATGCATCCAT
1 ATG---CATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
2664255 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* * *
2664300 CTGCATTATTATGTTGGCATCCTTTCAAGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* * *
2664345 ATGCATTATTATTTTGGTATCCTTTCATGCCTATAATTCACACAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
2664390 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* * *
2664435 ATGCATTATTATTTTGGGACCCTTTCATGCTTATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
* * *
2664480 ATGCATTATTATTTTTGCATCATTTCATGCATATAATGCACCCAT
1 ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
2664525 ATGCATTATTATTTT
1 ATGCATTATTATTTT
2664540 TGTTCATTCC
Statistics
Matches: 346, Mismatches: 29, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
45 294 0.85
46 10 0.03
48 42 0.12
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.42
Consensus pattern (45 bp):
ATGCATTATTATTTTGGCATCCTTTCATGCCTATAATGCACCCAT
Found at i:2665650 original size:64 final size:63
Alignment explanation
Indices: 2665580--2665734 Score: 204
Period size: 64 Copynumber: 2.4 Consensus size: 63
2665570 CTAAGAGTGA
* * * * *
2665580 ATCGATGCATGAAGTGAATTCGATGTTTCA-AACAAGCCCGAGTGCATCGATGCATGGTCTGTGC
1 ATCGATGCATAAAATGAATTCGATGTTTCATAA-AA-CCCGAGCGCATAGATGCATGGTATGTGC
* *
2665644 ATCGATGCATAAAATGTATTCGATGTTTTCATAAAACCTGAGCGCATAGATGCATGGTATGTGC
1 ATCGATGCATAAAATGAATTCGATG-TTTCATAAAACCCGAGCGCATAGATGCATGGTATGTGC
*
2665708 ATCGATGCATAAAATGCATTCGATGTT
1 ATCGATGCATAAAATGAATTCGATGTT
2665735 CAATTTATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 2 0.02
64 70 0.86
65 7 0.09
66 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (63 bp):
ATCGATGCATAAAATGAATTCGATGTTTCATAAAACCCGAGCGCATAGATGCATGGTATGTGC
Found at i:2670662 original size:33 final size:33
Alignment explanation
Indices: 2670615--2670690 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
2670605 AAACACTCAT
* *
2670615 ACTAGCATGTCCTAGTCTTTTATGCCGTAACCA
1 ACTATCATGTCCTAGTCTTTTATGCCATAACCA
2670648 ACTATCATGTCCTAGTCTTTTATGCCATAACCA
1 ACTATCATGTCCTAGTCTTTTATGCCATAACCA
2670681 ACTATCATGT
1 ACTATCATGT
2670691 TCATCCTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (33 bp):
ACTATCATGTCCTAGTCTTTTATGCCATAACCA
Found at i:2673519 original size:63 final size:63
Alignment explanation
Indices: 2673434--2673591 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 63
2673424 GGCACTAAGA
* * * * * * *
2673434 GTGCATTGATGCATGAAGTGCATTTGATGTTTCA-AACAAGCC-GAGTGCCTCGATACATGGTCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCATAA-AA-CCTGAGCGCATCGATACATGGTAT
* * *
2673497 TTGCATCGATGCATAAAATGCATTCAATGTTTTCATAAAACCTGAGCGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCATAAAACCTGAGCGCATCGATACATGGTAT
2673561 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
2673592 CAATTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
63 27 0.34
64 51 0.64
65 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAAACCTGAGCGCATCGATACATGGTAT
Found at i:2677275 original size:81 final size:81
Alignment explanation
Indices: 2677136--2677301 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 81
2677126 TTATAATTCC
* * * ** *
2677136 TTTACCCAAAGGCATTTAGACTTTAATCTAACTTGCATAATTGATACCTTTTTACCAAATGCATA
1 TTTACCCAAAGGCATTTAGACTTTAATCTAACTGGCATAATTGACACATTCCTACCAAATGCACA
*
2677201 GCTAGGCCATTAATAT
66 GCTAGACCATTAATAT
* * * *
2677217 TTTACTCAAAGGTATTTA-ACCTTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGCAC
1 TTTACCCAAAGGCATTTAGA-CTTTAATCTAACTGGCATAATTGACACATTCCTACCAAATGCAC
* *
2677281 AGTTAGACCATTAATCT
65 AGCTAGACCATTAATAT
2677298 TTTA
1 TTTA
2677302 TTTTTAAACA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 70 0.99
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (81 bp):
TTTACCCAAAGGCATTTAGACTTTAATCTAACTGGCATAATTGACACATTCCTACCAAATGCACA
GCTAGACCATTAATAT
Found at i:2677641 original size:45 final size:45
Alignment explanation
Indices: 2677536--2677933 Score: 513
Period size: 45 Copynumber: 8.9 Consensus size: 45
2677526 ATTTTAGTTA
* ** * *
2677536 TGGCATTCTTTCATGCCT-TAATGCATCCTTTCATGCATTTTTTAGTTA
1 TGGCATCCTTTCATGCCTATAATGCA-CCCAT-ATGCA-TTATTA-TTT
*
2677584 TGGCATCCTTTCATGCCTATAATGCACTCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
* *
2677629 TGGCATCATTTCATGCCTATAATGCACCCATATGAATTATTATTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
*
2677674 TGGCATCCTTTTATGCCTATAATGCACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
* *
2677719 TTGCATCCTTTCATGCCTATAATACACCCATATGCATTATTATTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
* * * * *
2677764 TGACATCCTTTCATGCTTGTAATGCACCCACATGTATTATTATTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
* * *
2677809 TGGAATCTTTTCATGCCTATAATGCGCCCATATGCATTATT-TTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
** *
2677853 TTTCACCCTTTCATGCCTATAATG----C-TATGCATTATTATTT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
2677893 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATT
1 TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATT
2677934 TGTTTTGTTC
Statistics
Matches: 305, Mismatches: 38, Indels: 17
0.85 0.11 0.05
Matches are distributed among these distances:
39 11 0.04
40 25 0.08
44 23 0.08
45 210 0.69
46 5 0.02
47 5 0.02
48 19 0.06
49 7 0.02
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (45 bp):
TGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATTATTT
Found at i:2680457 original size:2 final size:2
Alignment explanation
Indices: 2680450--2680489 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2680440 ATCCTTTCGA
2680450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2680490 CCCTTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2680798 original size:16 final size:17
Alignment explanation
Indices: 2680768--2680802 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2680758 TAAAAATAGT
*
2680768 GAAAAAAGGGGAAAAAA
1 GAAAAAAGGGAAAAAAA
2680785 GAAAAAA-GGAAAAAAA
1 GAAAAAAGGGAAAAAAA
2680801 GA
1 GA
2680803 TGAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAAAAGGGAAAAAAA
Found at i:2680829 original size:14 final size:12
Alignment explanation
Indices: 2680793--2680859 Score: 61
Period size: 11 Copynumber: 5.7 Consensus size: 12
2680783 AAGAAAAAAG
*
2680793 GAAAAAAAG-AT
1 GAAAAAAAGAAA
2680804 GAAAAAAAGAAA
1 GAAAAAAAGAAA
2680816 GAAAAATAATGAAA
1 GAAAAA-AA-GAAA
*
2680830 G-AAAAAA-ATA
1 GAAAAAAAGAAA
2680840 G-AAAAAAGAAA
1 GAAAAAAAGAAA
2680851 GAACAAAAA
1 GAA-AAAAA
2680860 AATATAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 9 0.19
11 12 0.26
12 10 0.21
13 11 0.23
14 5 0.11
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:2682397 original size:36 final size:36
Alignment explanation
Indices: 2682291--2682401 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 36
2682281 GCAAATATCA
* *
2682291 AAAATTTATCTCACTTGAGAGTGTTTTTCTTAAAAC
1 AAAATTTATCTCACTTGAGAATGTTTTTCTCAAAAC
** * * * ** *
2682327 AACTTTTACCTCACTAGAGACATCTTTCCCTCAAAAT
1 AAAATTTATCTCACTTGAGA-ATGTTTTTCTCAAAAC
*
2682364 AAAATTTATCTCACTTGAGATTGTTTTTCTCAAAAC
1 AAAATTTATCTCACTTGAGAATGTTTTTCTCAAAAC
2682400 AA
1 AA
2682402 GTTTCGTCTC
Statistics
Matches: 55, Mismatches: 19, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
36 29 0.53
37 26 0.47
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (36 bp):
AAAATTTATCTCACTTGAGAATGTTTTTCTCAAAAC
Found at i:2682769 original size:73 final size:72
Alignment explanation
Indices: 2682291--2682753 Score: 396
Period size: 73 Copynumber: 6.3 Consensus size: 72
2682281 GCAAATATCA
* * *** * * *
2682291 AAAATTTATCTCACTTGAGA-GTGTTTTTCTTAAAA-CAACTTTTACCTCACTAGAGACATCTTT
1 AAAATTTATCTCAATCGAGATG-GTTTTTCTTAAAACCAA-TTTCGTCTCGCTTGAGACA-GTTT
** *
2682354 CCCTCAAAAT
63 CCCTTGAAAC
* * * * * * *
2682364 AAAATTTATCTCACTTGAGATTGTTTTTCTCAAAA-CAAGTTTCGTCTCACTGGAGACAATTTCC
1 AAAATTTATCTCAATCGAGATGGTTTTTCTTAAAACCAA-TTTCGTCTCGCTTGAGACAGTTTCC
2682428 CTTGAAAC
65 CTTGAAAC
* * * * * * * *
2682436 AAGAAATTTTATCTTATTGGATATGTTTTTTCTTAAAAACCAGTTTCGTCTCACTAGAGACAGTT
1 -A-AAA-TTTATCTCAATCGAGATGGTTTTTCTT-AAAACCAATTTCGTCTCGCTTGAGACAGTT
2682501 TCCCTTGAAAC
62 TCCCTTGAAAC
* *
2682512 AAGAAATTTTATCTCACTCGAGATGGTTTTTCTTAAAACCTAA-TTCGTCTCGCTTTAGACAGTT
1 -A-AAA-TTTATCTCAATCGAGATGGTTTTTCTTAAAACC-AATTTCGTCTCGCTTGAGACAG-T
2682576 TTCCCTTGAAAC
61 TTCCCTTGAAAC
* * ** * * * *
2682588 AAAATGTATCTCACTTAAGATGGTTTTTATTAAAACCAACTTCATCTCGCTTGAGATAGTTTCCC
1 AAAATTTATCTCAATCGAGATGGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
2682653 TTGAAAC
66 TTGAAAC
* *
2682660 AAAATTTATCT-AACTCGAGATGTTTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGATAGTTTT
1 AAAATTTATCTCAA-TCGAGATG-GTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAG-TTT
*
2682724 CCCTCGAAAC
63 CCCTTGAAAC
2682734 AAAATTTATCTCAATCGAGA
1 AAAATTTATCTCAATCGAGA
2682754 GAGCTTCTCT
Statistics
Matches: 331, Mismatches: 46, Indels: 25
0.82 0.11 0.06
Matches are distributed among these distances:
71 1 0.00
72 41 0.12
73 129 0.39
74 35 0.11
75 45 0.14
76 78 0.24
77 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (72 bp):
AAAATTTATCTCAATCGAGATGGTTTTTCTTAAAACCAATTTCGTCTCGCTTGAGACAGTTTCCC
TTGAAAC
Found at i:2683234 original size:117 final size:118
Alignment explanation
Indices: 2683027--2683418 Score: 536
Period size: 117 Copynumber: 3.3 Consensus size: 118
2683017 AAGATAAACC
* * *
2683027 GATCAACATTTCTAATGGATAGTTCATAATGAGAAGAACTTATCCGATAGAGGGACAAAAAGTTC
1 GATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGACAAAAAGTTC
*
2683092 ATAATGAGAAGAACTTGTTCAACCTTGGATCGATTCCATCACAGAAGGAGGTG
66 ATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTG
* * *
2683145 GATCAACATTTCCAATGGAGAGTTCATAAGGAGAAGAACTCATCTGA-AGAGGGAGAAAAAGTTC
1 GATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGACAAAAAGTTC
* * * *
2683209 ATAATGAGAAGAATTTGTTCAACCTTGGTTCAATTCCATCACAGAAGAAGATG
66 ATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTG
* * ** *
2683262 GATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATA-AGATATAAAAAGTTC
1 GATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGACAAAAAGTTC
* ** * * * *
2683326 ATAATGAGAAGAACTGGTTCAGTCTTTGTTTGATTGCATCACAGAAAGAGGTG
66 ATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTG
* * *
2683379 GATCATCATTCCCAATAGAGAGTTCATAATGAGAAGAACT
1 GATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACT
2683419 TGTTAAACCT
Statistics
Matches: 239, Mismatches: 34, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
117 196 0.82
118 43 0.18
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (118 bp):
GATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGACAAAAAGTTC
ATAATGAGAAGAACTTGTTCAACCTTGGTTCGATTCCATCACAGAAGGAGGTG
Found at i:2683930 original size:3 final size:3
Alignment explanation
Indices: 2683922--2683947 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2683912 TAAACACCAT
2683922 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2683948 TGTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2683961 original size:21 final size:20
Alignment explanation
Indices: 2683922--2683977 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
2683912 TAAACACCAT
* * *
2683922 TTATTATTATTATTATTATTA
1 TTATT-TTATTTTTTTTATCA
*
2683943 TTATTTGTTTTTTTTTTATCA
1 TTATTT-TATTTTTTTTATCA
2683964 TTATTTTATTTTTT
1 TTATTTTATTTTTT
2683978 AAAAAAGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (20 bp):
TTATTTTATTTTTTTTATCA
Found at i:2685002 original size:15 final size:15
Alignment explanation
Indices: 2684973--2685012 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
2684963 TATTTTTATT
*
2684973 TTTAATTTA-TGTTA
1 TTTATTTTACTGTTA
2684987 TTTATTTTACTGTTA
1 TTTATTTTACTGTTA
2685002 TTTATTTTACT
1 TTTATTTTACT
2685013 TGTTCTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTATTTTACTGTTA
Found at i:2685010 original size:20 final size:20
Alignment explanation
Indices: 2684961--2685010 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
2684951 TTGTACTTAT
2684961 TTTATTTTTATTTTTAATTTA
1 TTTA-TTTTATTTTTAATTTA
*
2684982 TGTTA-TTTA-TTTTACTGTTA
1 T-TTATTTTATTTTTAAT-TTA
2685002 TTTATTTTA
1 TTTATTTTA
2685011 CTTGTTCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 9 0.36
20 12 0.48
21 1 0.04
22 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (20 bp):
TTTATTTTATTTTTAATTTA
Found at i:2687353 original size:16 final size:16
Alignment explanation
Indices: 2687328--2687370 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
2687318 TATATAATAC
2687328 ATACTAATAATAT-TA
1 ATACTAATAATATGTA
*
2687343 ATACATAATAAAATGTA
1 ATAC-TAATAATATGTA
2687360 ATACTAATAAT
1 ATACTAATAAT
2687371 GTGCAGTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.17
16 14 0.58
17 6 0.25
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (16 bp):
ATACTAATAATATGTA
Found at i:2687666 original size:7 final size:7
Alignment explanation
Indices: 2687658--2687698 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
2687648 AATATATGTA
*
2687658 ATATATA
1 ATATATG
2687665 ATATATG
1 ATATATG
* *
2687672 ACATGTG
1 ATATATG
2687679 ATATATG
1 ATATATG
2687686 ATATATG
1 ATATATG
2687693 ATATAT
1 ATATAT
2687699 AACATGGTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.41
Consensus pattern (7 bp):
ATATATG
Found at i:2687682 original size:14 final size:14
Alignment explanation
Indices: 2687665--2687704 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2687655 GTAATATATA
2687665 ATATATGACATGTG
1 ATATATGACATGTG
* *
2687679 ATATATGATATATG
1 ATATATGACATGTG
*
2687693 ATATATAACATG
1 ATATATGACATG
2687705 GTATGTAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (14 bp):
ATATATGACATGTG
Found at i:2687682 original size:21 final size:21
Alignment explanation
Indices: 2687653--2687693 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2687643 TACAAAATAT
2687653 ATGTAATATATAATATATGAC
1 ATGTAATATATAATATATGAC
* *
2687674 ATGTGATATATGATATATGA
1 ATGTAATATATAATATATGA
2687694 TATATAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (21 bp):
ATGTAATATATAATATATGAC
Done.