Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 40 of 126
Found at i:8063322 original size:26 final size:25
Alignment explanation
Indices: 8063284--8063334 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
8063274 TCGTTTGTGA
*
8063284 ATATTAAATGAACATGTTCATGAAT
1 ATATTAAACGAACATGTTCATGAAT
8063309 ATATATAAACGAACATGTTCATGAAT
1 ATAT-TAAACGAACATGTTCATGAAT
8063335 GATAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (25 bp):
ATATTAAACGAACATGTTCATGAAT
Found at i:8063505 original size:21 final size:21
Alignment explanation
Indices: 8063462--8063508 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8063452 TACTGAATTA
* *
8063462 TAAAAAAACATAAACAAATCC
1 TAAACAAACATAAACAAACCC
**
8063483 TAAACAAACATAAATGAACCC
1 TAAACAAACATAAACAAACCC
8063504 TAAAC
1 TAAAC
8063509 GAATGAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.62, C:0.21, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAACAAACATAAACAAACCC
Found at i:8067777 original size:21 final size:21
Alignment explanation
Indices: 8067753--8067793 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8067743 TGGGTTTGGA
8067753 TTATTCTCAAACTCAAATCAT
1 TTATTCTCAAACTCAAATCAT
* * *
8067774 TTATTTTTAAAGTCAAATCA
1 TTATTCTCAAACTCAAATCA
8067794 AATTAGACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTCTCAAACTCAAATCAT
Found at i:8067973 original size:98 final size:95
Alignment explanation
Indices: 8067863--8068051 Score: 254
Period size: 98 Copynumber: 2.0 Consensus size: 95
8067853 TTCAAAATTA
*
8067863 TATTTTTTTCAACTTGCAGCATATCTTAAAATTTGATTTTTGATATCATAAATATATATATTT-T
1 TATTTTTATCAACTTGCAGCATATCTTAAAATTTGATTTTTGATATCATAAATATATATATTTAT
*
8067927 TATATATAATTGTAAAAAACACTTATTTATGGTT
66 GATATATAA-T-TAAAAAACA-TT-TTTATGGTT
* * * * * *
8067961 TATTTTTATCAACTTGTAGCATATCTTCAATTTTGCTTTTTGATATCATAAGTATATTTATTTAT
1 TATTTTTATCAACTTGCAGCATATCTTAAAATTTGATTTTTGATATCATAAATATATATATTTAT
*
8068026 GATATATCATTAAAAAACATTTTTAT
66 GATATATAATTAAAAAACATTTTTAT
8068052 TACGGAGTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
95 5 0.06
96 2 0.02
97 9 0.11
98 57 0.70
99 8 0.10
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (95 bp):
TATTTTTATCAACTTGCAGCATATCTTAAAATTTGATTTTTGATATCATAAATATATATATTTAT
GATATATAATTAAAAAACATTTTTATGGTT
Found at i:8068451 original size:3 final size:3
Alignment explanation
Indices: 8068443--8068550 Score: 75
Period size: 3 Copynumber: 37.3 Consensus size: 3
8068433 TTGCTTTTAG
* * * * *
8068443 TAT TAT TAT TATT TGT TAT TAT TAT TGT TAC TAG CAT TA- TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
8068488 TAT TAT TA- TAG TA- TAG TA- TAT TAT TAT TCAT T-G TAG TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
8068529 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
8068551 TGCTTTCTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
2 11 0.13
3 71 0.82
4 5 0.06
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:8069301 original size:29 final size:30
Alignment explanation
Indices: 8069263--8069339 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 30
8069253 TATGTTTTCC
*
8069263 TTTTTCTATTTTAATTTTA-ATTTTTGATT
1 TTTTTATATTTTAATTTTATATTTTTGATT
*
8069292 TTTTTATATTTTAAGTTATATATTTTTGATT
1 TTTTTATATTTTAA-TTTTATATTTTTGATT
8069323 TTTTTA-ATTTT-ATTTTA
1 TTTTTATATTTTAATTTTA
8069340 CTGTTTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.09
29 14 0.33
30 9 0.21
31 16 0.37
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (30 bp):
TTTTTATATTTTAATTTTATATTTTTGATT
Found at i:8073382 original size:19 final size:19
Alignment explanation
Indices: 8073355--8073412 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
8073345 AAAAAATCCA
8073355 AAAAGAAAAAAGGAAAAAA-
1 AAAA-AAAAAAGGAAAAAAG
8073374 AATAAAAAAAAGGAAAGAAAG
1 AA-AAAAAAAAGGAAA-AAAG
8073395 AAAAAAAAAAGAGAAAAA
1 AAAAAAAAAAG-GAAAAA
8073413 GGAAGACTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 13 0.37
20 16 0.46
21 6 0.17
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAGGAAAAAAG
Found at i:8073411 original size:28 final size:27
Alignment explanation
Indices: 8073354--8073416 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
8073344 AAAAAAATCC
8073354 AAAAA-GAAAAAAGGAAAAAAAATAAA
1 AAAAAGGAAAAAAGGAAAAAAAATAAA
8073380 AAAAAGGAAAGAAA-GAAAAAAAA-AAGA
1 AAAAAGGAAA-AAAGGAAAAAAAATAA-A
8073407 GAAAAAGGAA
1 -AAAAAGGAA
8073417 GACTTCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.21
27 14 0.42
28 12 0.36
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (27 bp):
AAAAAGGAAAAAAGGAAAAAAAATAAA
Found at i:8074160 original size:14 final size:14
Alignment explanation
Indices: 8074141--8074170 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8074131 CATACATCTG
8074141 CATCATTGCATTAT
1 CATCATTGCATTAT
8074155 CATCATTGCATTAT
1 CATCATTGCATTAT
8074169 CA
1 CA
8074171 CTTATCACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (14 bp):
CATCATTGCATTAT
Found at i:8074248 original size:55 final size:55
Alignment explanation
Indices: 8074188--8074295 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 55
8074178 CTCATTTTTT
* * *
8074188 ATCTTGGCTCA-ACCTAGATCATTTTATTGACTTGTGGTTCAATCCTGATCATTTG
1 ATCTTGGCTCAGACC-AGATCATTTTACTAACTTGTGGTTCAATCCTAATCATTTG
* * * * *
8074243 ATCTTGGCTTAGTCCATATCATTTTCCTAACTTGTGGTTCAATTCTAATCATT
1 ATCTTGGCTCAGACCAGATCATTTTACTAACTTGTGGTTCAATCCTAATCATT
8074296 CATCTTCGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
55 42 0.95
56 2 0.05
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (55 bp):
ATCTTGGCTCAGACCAGATCATTTTACTAACTTGTGGTTCAATCCTAATCATTTG
Found at i:8074713 original size:120 final size:121
Alignment explanation
Indices: 8074402--8074787 Score: 384
Period size: 121 Copynumber: 3.2 Consensus size: 121
8074392 CGATCTTCGT
* * * * *
8074402 AGTCCATATCATTTTCCTGAGTTGTGGTTTAGTCTTGGTCATTCGTCTTTGACCTTGACTCGATC
1 AGTCCAAATCATTTTCTTGACTTGTGGTTTAGTCTCGGTCATTCATCTTTGACCTTGACTCGATC
* * * * * * *
8074467 CTGGTCACTTTATCTTTTAGACTCGTAATTCAATCCCAATCGTTCGATCTTGACTC
66 ATGGTCATTTTATCTTTCAAACTCGTAATTCAATCCCAAACGTTCAATCTAGACTC
* * *
8074523 AGTCTAAATCATTTTCTTGACTTGTGGTTCAGTCTCGGTCATTCATATTTGACCTTGACTCGATC
1 AGTCCAAATCATTTTCTTGACTTGTGGTTTAGTCTCGGTCATTCATCTTTGACCTTGACTCGATC
* * ** *** *
8074588 TTGGTCATTTTATCTTTCAAATTCGTGGTTCAATTTTAAACGTTCAATCTCAG-TTC
66 ATGGTCATTTTATCTTTCAAACTCGTAATTCAATCCCAAACGTTCAATCT-AGACTC
* * * *
8074644 AGTCCAAATCA-TTTCTTGACTTGTGGTTTAGTCCCAGTCGTTCATCTTCGACCTTGACTCGATC
1 AGTCCAAATCATTTTCTTGACTTGTGGTTTAGTCTCGGTCATTCATCTTTGACCTTGACTCGATC
* * ** **** * * *
8074708 ATGGTC-TCTTTATCTTTCAGACTTGTTTTTCAATCCTGGTCATTCAATCTTGGCTC
66 ATGGTCAT-TTTATCTTTCAAACTCGTAATTCAATCCCAAACGTTCAATCTAGACTC
8074764 AGTCCAAATCATTTTC-TGACTTGT
1 AGTCCAAATCATTTTCTTGACTTGT
8074788 AGCTCAGTCC
Statistics
Matches: 218, Mismatches: 43, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
119 2 0.01
120 104 0.48
121 111 0.51
122 1 0.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (121 bp):
AGTCCAAATCATTTTCTTGACTTGTGGTTTAGTCTCGGTCATTCATCTTTGACCTTGACTCGATC
ATGGTCATTTTATCTTTCAAACTCGTAATTCAATCCCAAACGTTCAATCTAGACTC
Found at i:8074797 original size:120 final size:121
Alignment explanation
Indices: 8074357--8074805 Score: 415
Period size: 120 Copynumber: 3.7 Consensus size: 121
8074347 TCAATCCAGA
* ** * * * * * * *
8074357 TTATCTTTCAGACTTATGGTTCAGTCCCAATCATTCGATCTTCG-T-AGTCCATATCATTTTCCT
1 TTATCTTTCAGACTTGTAATTCAATCCTAATCGTTCAATCTTGGCTCAGTCCAAATCATTTTCTT
* * *** * * *
8074420 GAGTTGTGGTTTAGTCTTGGTCATTCGTCTTTGACCTTGACTCGATCCTGGTCACT
66 GACTTGTGGTTCAGTCCCAGTCATTCATCTTTGACCTTGACTCGATCATGGTCTCT
* * * * * *
8074476 TTATCTTTTAGACTCGTAATTCAATCCCAATCGTTCGATCTTGACTCAGTCTAAATCATTTTCTT
1 TTATCTTTCAGACTTGTAATTCAATCCTAATCGTTCAATCTTGGCTCAGTCCAAATCATTTTCTT
* * * *
8074541 GACTTGTGGTTCAGTCTCGGTCATTCATATTTGACCTTGACTCGATCTTGGTCAT-T
66 GACTTGTGGTTCAGTCCCAGTCATTCATCTTTGACCTTGACTCGATCATGGTC-TCT
* ** ** * ** *
8074597 TTATCTTTCA-AATTCGTGGTTCAATTTTAAACGTTCAATCTCAGTTCAGTCCAAATCA-TTTCT
1 TTATCTTTCAGACTT-GTAATTCAATCCTAATCGTTCAATCTTGGCTCAGTCCAAATCATTTTCT
* * *
8074660 TGACTTGTGGTTTAGTCCCAGTCGTTCATCTTCGACCTTGACTCGATCATGGTCTCT
65 TGACTTGTGGTTCAGTCCCAGTCATTCATCTTTGACCTTGACTCGATCATGGTCTCT
** ** *
8074717 TTATCTTTCAGACTTGTTTTTCAATCCTGGTCATTCAATCTTGGCTCAGTCCAAATCATTTTC-T
1 TTATCTTTCAGACTTGTAATTCAATCCTAATCGTTCAATCTTGGCTCAGTCCAAATCATTTTCTT
* *
8074781 GACTTGTAGCTCAGTCCCAGTCATT
66 GACTTGTGGTTCAGTCCCAGTCATT
8074806 TTTGCTTATT
Statistics
Matches: 266, Mismatches: 57, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
119 36 0.14
120 120 0.45
121 110 0.41
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (121 bp):
TTATCTTTCAGACTTGTAATTCAATCCTAATCGTTCAATCTTGGCTCAGTCCAAATCATTTTCTT
GACTTGTGGTTCAGTCCCAGTCATTCATCTTTGACCTTGACTCGATCATGGTCTCT
Found at i:8074957 original size:3 final size:3
Alignment explanation
Indices: 8074949--8075165 Score: 95
Period size: 3 Copynumber: 75.3 Consensus size: 3
8074939 TTGTTTTTAG
* * * * *
8074949 TAT TAT TAT TGTT TGT TAT TAT TAT TGT TAC TAG TAT TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
8074994 TAT TAT AAGA TAG TA- TAG TA- TAT TAT TA- TAG TA- TAGA TAT TA-
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
8075036 TAT TA- TAT TAT TA- TAT TAT TATT TAT T-G TAGT CCAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T -TAT TAT TAT TAT
* * *
8075081 TAT TA- TAT TA- TAG TAT TAC TA- TAT TAT TA- TAT TA- TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
8075124 TAT TAA TAT TAT TAT TAA AAT TGT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8075166 TTCTTTTCTC
Statistics
Matches: 164, Mismatches: 29, Indels: 42
0.70 0.12 0.18
Matches are distributed among these distances:
2 28 0.17
3 126 0.77
4 9 0.05
5 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:8075049 original size:8 final size:8
Alignment explanation
Indices: 8075012--8075138 Score: 87
Period size: 8 Copynumber: 14.4 Consensus size: 8
8075002 GATAGTATAG
8075012 TATATTAT
1 TATATTAT
*
8075020 TATAGTAT
1 TATATTAT
*
8075028 AGATATTATAT
1 -TATA-T-TAT
8075039 TATATTAT
1 TATATTAT
8075047 TATATTAT
1 TATATTAT
8075055 TAT-TTATT
1 TATATTA-T
8075063 GTAGTCCATTAT
1 -TA-T--ATTAT
8075075 TATTATTAT
1 TA-TATTAT
8075084 TATATTA-
1 TATATTAT
*
8075091 TAGTATTAC
1 TA-TATTAT
8075100 TATATTAT
1 TATATTAT
8075108 TATATTATGT
1 TATATTA--T
8075118 TATTATTAT
1 TA-TATTAT
8075127 TAATATTAT
1 T-ATATTAT
8075136 TAT
1 TAT
8075139 TAAAATTGTT
Statistics
Matches: 98, Mismatches: 6, Indels: 30
0.73 0.04 0.22
Matches are distributed among these distances:
7 5 0.05
8 46 0.47
9 24 0.24
10 8 0.08
11 11 0.11
12 1 0.01
13 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.57
Consensus pattern (8 bp):
TATATTAT
Found at i:8075135 original size:61 final size:63
Alignment explanation
Indices: 8074983--8075140 Score: 148
Period size: 61 Copynumber: 2.5 Consensus size: 63
8074973 TTGTTACTAG
* * *
8074983 TATTATATTATTATTATAAGATAGTA-TAGTATATTATTATAGTATAGATATTATATTATATTAT
1 TATTAT-TTATTATTATTA-ATATTATTA-T-TATTATTATAGTATAGATATTATACTATATTAT
8075047 TA
62 TA
* * *
8075049 TATTA-TTATTTATT-GTAGTCCATTATTATTATTATTATATTATAG-TA-T-TACTATATTATT
1 TATTATTTA-TTATTATTAAT--ATTATTATTATTATTATAGTATAGATATTATACTATATTATT
8075109 A
63 A
8075110 TATTATGTTATTATTATTAATATTATTATTA
1 TATTAT-TTATTATTATTAATATTATTATTA
8075141 AAATTGTTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
61 27 0.35
62 6 0.08
63 9 0.12
64 19 0.25
65 9 0.12
66 7 0.09
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (63 bp):
TATTATTTATTATTATTAATATTATTATTATTATTATAGTATAGATATTATACTATATTATTA
Found at i:8075991 original size:11 final size:12
Alignment explanation
Indices: 8075975--8076012 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 12
8075965 TTTCTCTTTC
8075975 TATTTTA-ATTT
1 TATTTTATATTT
8075986 TATTTTATATTT
1 TATTTTATATTT
8075998 TAAGTTTTATATTT
1 T-A-TTTTATATTT
8076012 T
1 T
8076013 TGAGTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 7 0.29
12 5 0.21
13 1 0.04
14 11 0.46
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:8076018 original size:15 final size:15
Alignment explanation
Indices: 8075988--8076025 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
8075978 TTTAATTTTA
8075988 TTTTATA-TTTTAAG
1 TTTTATATTTTTAAG
*
8076002 TTTTATATTTTTGAG
1 TTTTATATTTTTAAG
8076017 TTTT-TATTT
1 TTTTATATTT
8076026 ATTTATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (15 bp):
TTTTATATTTTTAAG
Found at i:8076023 original size:16 final size:14
Alignment explanation
Indices: 8075977--8076025 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
8075967 TCTCTTTCTA
8075977 TTTTA-ATTTT-A-
1 TTTTATATTTTAAG
8075988 TTTTATATTTTAAG
1 TTTTATATTTTAAG
*
8076002 TTTTATATTTTTGAG
1 TTTTATA-TTTTAAG
8076017 TTTT-TATTT
1 TTTTATATTT
8076026 ATTTATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 5 0.15
12 5 0.15
13 4 0.12
14 9 0.27
15 10 0.30
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (14 bp):
TTTTATATTTTAAG
Found at i:8076070 original size:34 final size:34
Alignment explanation
Indices: 8076002--8076070 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
8075992 ATATTTTAAG
* *
8076002 TTTTATATTTTTGAGTTTTTATTTATTTATTTTA
1 TTTTATATTTTTGAGTTTTTATTGATTTAATTTA
*
8076036 TTTTACTATTTTTTA-TTATTTATTGA-TTAATTTA
1 TTTTA-TATTTTTGAGTT-TTTATTGATTTAATTTA
8076070 T
1 T
8076071 GATCTATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (34 bp):
TTTTATATTTTTGAGTTTTTATTGATTTAATTTA
Found at i:8077451 original size:12 final size:12
Alignment explanation
Indices: 8077436--8077477 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
8077426 AGTTTTAATT
8077436 TTTTTATTAAAA
1 TTTTTATTAAAA
8077448 TTTTTATTAAATTA
1 TTTTTATTAAA--A
*
8077462 TTTTTA-AAAAA
1 TTTTTATTAAAA
8077473 TTTTT
1 TTTTT
8077478 TACAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.22
12 11 0.41
13 3 0.11
14 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTTATTAAAA
Found at i:8079027 original size:13 final size:13
Alignment explanation
Indices: 8079006--8079035 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8078996 ACTCTATTAC
8079006 TTTTCATTTTATT
1 TTTTCATTTTATT
*
8079019 TTTTTATTTTATT
1 TTTTCATTTTATT
8079032 TTTT
1 TTTT
8079036 GGTTTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCATTTTATT
Found at i:8080143 original size:18 final size:19
Alignment explanation
Indices: 8080102--8080143 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
8080092 CCAGAAGCAT
8080102 TTTTTGTATTTTTTTCATA
1 TTTTTGTATTTTTTTCATA
*
8080121 ATTTTGTA-TTTTTTCATA
1 TTTTTGTATTTTTTTCATA
8080139 TTTTT
1 TTTTT
8080144 CTTTCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTTGTATTTTTTTCATA
Found at i:8080174 original size:9 final size:10
Alignment explanation
Indices: 8080154--8080200 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
8080144 CTTTCAAAAA
8080154 TTTATATATT
1 TTTATATATT
8080164 TTTAT-TATT
1 TTTATATATT
*
8080173 TTTATTTCTATT
1 TTTA--TATATT
8080185 TTTCATATATT
1 TTT-ATATATT
8080196 TTTAT
1 TTTAT
8080201 TTTATTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
9 8 0.25
10 7 0.22
11 9 0.28
12 7 0.22
13 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATATATT
Found at i:8080179 original size:23 final size:22
Alignment explanation
Indices: 8080160--8080209 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
8080150 AAAATTTATA
8080160 TATTTTT-AT-TATTTTTATTT
1 TATTTTTCATATATTTTTATTT
8080180 CTATTTTTCATATATTTTTATTT
1 -TATTTTTCATATATTTTTATTT
8080203 TATTTTT
1 TATTTTT
8080210 GTGTGAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.26
22 9 0.33
23 11 0.41
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTTCATATATTTTTATTT
Found at i:8085664 original size:117 final size:116
Alignment explanation
Indices: 8085466--8085685 Score: 268
Period size: 117 Copynumber: 1.9 Consensus size: 116
8085456 ATCGATCCAG
* * *
8085466 TGCTTGGGTGATCGATCCCCTATGTGGGGGGATTGATCCTTTTTTGTTGATTTTCAAACCCATTT
1 TGCTTAGGTGATCGATCCCCTATGTGGGGGGATCGATCCCTTTTTGTTGATTTTCAAACCCATTT
* *
8085531 TCTATTCTATATAAAAAATAGATCGAT-CTCTTTAAGGGAGGGATTGATCCCA
66 GCTATTCTAT-TAAAAAATAAATCGATCCT-TTTAAGGGAGGGATTGATCCCA
* * *
8085583 TGCTTAGGTGATCGATCCCTTATGTGTGGGGATCGATCCCTTTTTG-TGAATTTT-AAACCGAGT
1 TGCTTAGGTGATCGATCCCCTATGTGGGGGGATCGATCCCTTTTTGTTG-ATTTTCAAACCCA-T
* * *
8085646 TTGC-ATTTTGTATAAAAAATAAATTGATCCTTTTAAGGGA
64 TTGCTATTCTAT-TAAAAAATAAATCGATCCTTTTAAGGGA
8085686 AGATCAATTG
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
116 37 0.42
117 52 0.58
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (116 bp):
TGCTTAGGTGATCGATCCCCTATGTGGGGGGATCGATCCCTTTTTGTTGATTTTCAAACCCATTT
GCTATTCTATTAAAAAATAAATCGATCCTTTTAAGGGAGGGATTGATCCCA
Found at i:8086251 original size:36 final size:32
Alignment explanation
Indices: 8086179--8086258 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 32
8086169 AATTAGGAAT
* **
8086179 TTTTCATACCATCAAGATTATCAATAAAAAGC
1 TTTTCATACCATCAAGATCATCAATAAAAAAA
8086211 TTTTCATACCATCAAGATCATCAATCAAATATAAAA
1 TTTTCATACCATCAAGATCATCAAT--AA-A-AAAA
8086247 TTTTCATACCAT
1 TTTTCATACCAT
8086259 TTCCTCTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
32 24 0.59
34 2 0.05
35 1 0.02
36 14 0.34
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.34
Consensus pattern (32 bp):
TTTTCATACCATCAAGATCATCAATAAAAAAA
Found at i:8086398 original size:19 final size:19
Alignment explanation
Indices: 8086374--8086410 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8086364 CAATCTTAAT
*
8086374 ATCAAGCAATATACCAATC
1 ATCAAGCAATAGACCAATC
8086393 ATCAAGCAATAGACCAAT
1 ATCAAGCAATAGACCAAT
8086411 TTCATAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.19
Consensus pattern (19 bp):
ATCAAGCAATAGACCAATC
Found at i:8086442 original size:14 final size:15
Alignment explanation
Indices: 8086408--8086443 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8086398 GCAATAGACC
*
8086408 AATTTCATAAGCCAT
1 AATTTCACAAGCCAT
8086423 AATTTCACAAGCCA-
1 AATTTCACAAGCCAT
8086437 AATTTCA
1 AATTTCA
8086444 AAGTGATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.31
Consensus pattern (15 bp):
AATTTCACAAGCCAT
Found at i:8092038 original size:9 final size:9
Alignment explanation
Indices: 8092015--8092065 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
8092005 TTGGATGGAT
*
8092015 ATTTTTATC
1 ATTTTTTTC
8092024 TATTTTTTTC
1 -ATTTTTTTC
*
8092034 CTTTTTTTC
1 ATTTTTTTC
*
8092043 ATTCTTTTC
1 ATTTTTTTC
8092052 ATTTTTTTC
1 ATTTTTTTC
*
8092061 CTTTT
1 ATTTT
8092066 GTTCTTCTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.75
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:8092616 original size:18 final size:19
Alignment explanation
Indices: 8092593--8092632 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8092583 AAGAAATAAT
8092593 AAAGAA-ACCCTTTTTTAA
1 AAAGAAGACCCTTTTTTAA
*
8092611 AAAGAAGTCCCTTTTTTAA
1 AAAGAAGACCCTTTTTTAA
8092630 AAA
1 AAA
8092633 AAATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (19 bp):
AAAGAAGACCCTTTTTTAA
Found at i:8096385 original size:3 final size:3
Alignment explanation
Indices: 8096377--8096411 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8096367 CCAAATGATA
* *
8096377 AAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8096412 ATTAAAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:8096759 original size:15 final size:15
Alignment explanation
Indices: 8096733--8096777 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 15
8096723 TTCCACTCAA
*
8096733 TCATTTTATTTCTTT
1 TCATTTTTTTTCTTT
*
8096748 TCTTTTTTTTTC-TT
1 TCATTTTTTTTCTTT
8096762 TCATTTTTTTTCTTT
1 TCATTTTTTTTCTTT
8096777 T
1 T
8096778 TTCTTTGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (15 bp):
TCATTTTTTTTCTTT
Found at i:8097172 original size:18 final size:19
Alignment explanation
Indices: 8097141--8097178 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8097131 CTCTTCTTAG
8097141 TTTTTTTCAAAAAATTTTA
1 TTTTTTTCAAAAAATTTTA
* *
8097160 TTTTTTTCCAAAATTTTTA
1 TTTTTTTCAAAAAATTTTA
8097179 AGTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTTTCAAAAAATTTTA
Found at i:8097184 original size:20 final size:19
Alignment explanation
Indices: 8097137--8097186 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
8097127 TTTTCTCTTC
8097137 TTAGTTTTTTTCAAAAAATT
1 TTAG-TTTTTTCAAAAAATT
* * *
8097157 TTATTTTTTTCCAAAATTT
1 TTAGTTTTTTCAAAAAATT
8097176 TTAAGTTTTTT
1 TT-AGTTTTTT
8097187 TTGGATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (19 bp):
TTAGTTTTTTCAAAAAATT
Found at i:8102124 original size:17 final size:15
Alignment explanation
Indices: 8102079--8102175 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 15
8102069 TCTATCTTGT
8102079 TTATTATTTTATTATA
1 TTATTATTTTATT-TA
8102095 TTATTATTGTTATTTA
1 TTATTATT-TTATTTA
8102111 TCTATTATATTTATTT-
1 T-TATTAT-TTTATTTA
*
8102127 TTACATTTATTTTCCTTTA
1 TT--A-TTATTTT-ATTTA
*
8102146 TCTATTTTTTTATTTCTA
1 T-TATTATTTTA-TT-TA
*
8102164 TTATTATCTTAT
1 TTATTATTTTAT
8102176 CTTTAATTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
15 1 0.02
16 13 0.20
17 37 0.57
18 12 0.18
19 1 0.02
20 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (15 bp):
TTATTATTTTATTTA
Found at i:8103944 original size:209 final size:209
Alignment explanation
Indices: 8103564--8103947 Score: 628
Period size: 209 Copynumber: 1.8 Consensus size: 209
8103554 AATTTTTTTT
* * *
8103564 AAAAGAATAATTTTTTTTCAATTCTTCCAAACAATTAAAGGATTTAAACTTTTGAGTTAAATCTT
1 AAAAAAATAAATTTTTTTCAATCCTTCCAAACAATTAAAGGATTTAAACTTTTGAGTTAAATCTT
* * *
8103629 ACTATACTATTGGAAGATTTAATGACCTTTATTTTTTTTAATTTTCATAAAGAAGGTTTTCAAGT
66 ACTAAACTATTAGAAGATTTAATGACCTTTATTTTTTTTAATTTTCATAAAGAAGGTTTTCAAAT
*
8103694 AAAAATTTCACCAAATGATTAAGGGATATGCATCAATATAAAATCCTACCAAATAATTGGAGCAC
131 AAAAATTCCACCAAATGATTAAGGGATATGCATCAATATAAAATCCTACCAAATAATTGGAGCAC
8103759 TTTATGAAATTAAA
196 TTTATGAAATTAAA
* *
8103773 AAAAAAATAAATTTTTTTCAATCCTTTCAAACAATTGAAGGATTTAAACTTTTGAGTTAAATCTT
1 AAAAAAATAAATTTTTTTCAATCCTTCCAAACAATTAAAGGATTTAAACTTTTGAGTTAAATCTT
8103838 ACTAAACTATTAGAAGA-TTAATGACCTTTATTTTTTTTTAATTTTCATCAAA-AAGGTTTTCAA
66 ACTAAACTATTAGAAGATTTAATGACCTTTA-TTTTTTTTAATTTTCAT-AAAGAAGGTTTTCAA
* * *
8103901 ATAAAAATTCCACCAAATGATTAGGGGATATGTATCGATATAAAATC
129 ATAAAAATTCCACCAAATGATTAAGGGATATGCATCAATATAAAATC
8103948 TTGCCAAACA
Statistics
Matches: 161, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
208 13 0.08
209 145 0.90
210 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.38
Consensus pattern (209 bp):
AAAAAAATAAATTTTTTTCAATCCTTCCAAACAATTAAAGGATTTAAACTTTTGAGTTAAATCTT
ACTAAACTATTAGAAGATTTAATGACCTTTATTTTTTTTAATTTTCATAAAGAAGGTTTTCAAAT
AAAAATTCCACCAAATGATTAAGGGATATGCATCAATATAAAATCCTACCAAATAATTGGAGCAC
TTTATGAAATTAAA
Found at i:8107582 original size:13 final size:13
Alignment explanation
Indices: 8107564--8107588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8107554 ATCTTCTTTC
8107564 TTGAAAAGAAAAA
1 TTGAAAAGAAAAA
8107577 TTGAAAAGAAAA
1 TTGAAAAGAAAA
8107589 GGTGAGATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
TTGAAAAGAAAAA
Found at i:8108820 original size:29 final size:28
Alignment explanation
Indices: 8108788--8108857 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
8108778 TTACTCAATG
8108788 AAATAATAAAATGAATAATAAAAAACTAA
1 AAATAATAAAATGAA-AATAAAAAACTAA
* *
8108817 AAATAAAATAAAAT-AAAATATAAAACTTA
1 AAAT--AATAAAATGAAAATAAAAAACTAA
8108846 AAAT-ATAAAATG
1 AAATAATAAAATG
8108858 GTAAAGAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 7 0.19
29 19 0.53
30 2 0.06
31 8 0.22
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (28 bp):
AAATAATAAAATGAAAATAAAAAACTAA
Found at i:8108829 original size:17 final size:17
Alignment explanation
Indices: 8108809--8108841 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8108799 TGAATAATAA
8108809 AAAACTAAAA-ATAAAAT
1 AAAA-TAAAATATAAAAT
8108826 AAAATAAAATATAAAA
1 AAAATAAAATATAAAA
8108842 CTTAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAATATAAAAT
Found at i:8108830 original size:31 final size:31
Alignment explanation
Indices: 8108792--8108856 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
8108782 TCAATGAAAT
8108792 AATAAAATGAATAATAAAAAAC-TAAAA-ATAA
1 AATAAAAT-AA-AATAAAAAACTTAAAATATAA
*
8108823 AATAAAATAAAATATAAAACTTAAAATATAA
1 AATAAAATAAAATAAAAAACTTAAAATATAA
8108854 AAT
1 AAT
8108857 GGTAAAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 9 0.29
30 7 0.23
31 15 0.48
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (31 bp):
AATAAAATAAAATAAAAAACTTAAAATATAA
Found at i:8110888 original size:35 final size:34
Alignment explanation
Indices: 8110816--8110896 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 34
8110806 CAAGAATGGA
* *
8110816 AGATTCGCAAGATTTCAAGTTTCATAGAAGTTCT
1 AGATTCACAAGATTTCAAGTTTCATAGAACTTCT
* *
8110850 AGATTCACAAAGATTTCAAGTTCTCA-AGGACTTTT
1 AGATTCAC-AAGATTTCAAGTT-TCATAGAACTTCT
*
8110885 AGATTCATAAGA
1 AGATTCACAAGA
8110897 AGAAAGAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
34 11 0.28
35 26 0.65
36 3 0.08
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (34 bp):
AGATTCACAAGATTTCAAGTTTCATAGAACTTCT
Found at i:8110919 original size:89 final size:90
Alignment explanation
Indices: 8110815--8110993 Score: 245
Period size: 89 Copynumber: 2.0 Consensus size: 90
8110805 GCAAGAATGG
* *
8110815 AAGATTCGCAAGATTTCAAGTTTCA-TAGAAGTTCTAGATTCACAAAGATTTCAAGTTCTCAAGG
1 AAGATTCGCAAGATTTCAA-TTTCAGCAGAAGTTCTAGATTCACAAAGATTTCAAGTTCGCAAGG
* *
8110879 ACTTTTAGATTCATAAGAA-GAAAGA
65 ACTTTGAGATTCACAAGAATGAAAGA
* * * * *
8110904 AAGATTTGCATGATTTCAATTTTAGCAGAAGTTCTAGATTCGCAAAGATTTCAAGTTCGCAATGA
1 AAGATTCGCAAGATTTCAATTTCAGCAGAAGTTCTAGATTCACAAAGATTTCAAGTTCGCAAGGA
*
8110969 GTTTGAGATTCACAAGAATGAAAGA
66 CTTTGAGATTCACAAGAATGAAAGA
8110994 TTCACAAGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
88 4 0.05
89 68 0.87
90 6 0.08
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (90 bp):
AAGATTCGCAAGATTTCAATTTCAGCAGAAGTTCTAGATTCACAAAGATTTCAAGTTCGCAAGGA
CTTTGAGATTCACAAGAATGAAAGA
Found at i:8111209 original size:55 final size:54
Alignment explanation
Indices: 8111150--8111342 Score: 162
Period size: 55 Copynumber: 3.5 Consensus size: 54
8111140 CACGAGTCAG
* *
8111150 AAAAATGATCTGA-ATTGAGCCAAGATCTAATGATCGAGACTAAGCCACAAGTAAAA
1 AAAAATGATCTGAGATTAAGCCAAGATC-AATGATCGAGA-TAAGTCACAAGT-AAA
* * *
8111206 AAAAATGATC-GAGACTAAGCCAAGATCAGATGATCGAAATTAAGTCACAAGTTAA
1 AAAAATGATCTGAGATTAAGCCAAGATCA-ATGATCGAGA-TAAGTCACAAGTAAA
* * * * * *
8111261 AAAAACGATCT-AGATTAAACCAAGATCGGATGA-CAGAGATAAAATCATAAATAAA
1 AAAAATGATCTGAGATTAAGCCAAGATC-AATGATC-GAGAT-AAGTCACAAGTAAA
* *
8111316 AAAAATGATCTG-GATTGAGACAAGATC
1 AAAAATGATCTGAGATTAAGCCAAGATC
8111343 GAATAATTGT
Statistics
Matches: 111, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
54 2 0.02
55 67 0.60
56 42 0.38
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (54 bp):
AAAAATGATCTGAGATTAAGCCAAGATCAATGATCGAGATAAGTCACAAGTAAA
Found at i:8111215 original size:56 final size:56
Alignment explanation
Indices: 8111150--8111293 Score: 150
Period size: 56 Copynumber: 2.6 Consensus size: 56
8111140 CACGAGTCAG
* * *
8111150 AAAAATGATCTGA-ATTGAGCCAAGATCTA-ATGATCGAGACTAAGCCACAAGTAAAA
1 AAAAATGATC-GAGACTAAGCCAAGATC-AGATGATCGAAACTAAGCCACAAGTAAAA
* * *
8111206 AAAAATGATCGAGACTAAGCCAAGATCAGATGATCGAAATTAAGTCACAAGT-TAA
1 AAAAATGATCGAGACTAAGCCAAGATCAGATGATCGAAACTAAGCCACAAGTAAAA
* * * * *
8111261 AAAAACGATCTAGATTAAACCAAGATCGGATGA
1 AAAAATGATCGAGACTAAGCCAAGATCAGATGA
8111294 CAGAGATAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
55 33 0.44
56 42 0.56
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.19
Consensus pattern (56 bp):
AAAAATGATCGAGACTAAGCCAAGATCAGATGATCGAAACTAAGCCACAAGTAAAA
Found at i:8115150 original size:14 final size:13
Alignment explanation
Indices: 8115131--8115180 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
8115121 TAAAATGAAT
8115131 AATAAAAAACTAA
1 AATAAAAAACTAA
*
8115144 AACTAAAAAAATAA
1 AA-TAAAAAACTAA
*
8115158 AATATAAAACTTAA
1 AATAAAAAAC-TAA
8115172 AATATAAAA
1 AATA-AAAA
8115181 TGATAAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.27
14 19 0.63
15 3 0.10
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAAAACTAA
Found at i:8115165 original size:21 final size:21
Alignment explanation
Indices: 8115131--8115187 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
8115121 TAAAATGAAT
*
8115131 AATAAAAAACTAAAACTAAAAA
1 AATAAAATA-TAAAACTAAAAA
*
8115153 AATAAAATATAAAACTTAAAA
1 AATAAAATATAAAACTAAAAA
*
8115174 TATAAAATGATAAA
1 AATAAAAT-ATAAA
8115188 GAATAAAGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAAAATATAAAACTAAAAA
Found at i:8116760 original size:51 final size:51
Alignment explanation
Indices: 8116677--8116789 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
8116667 AGTTCTCTCT
* ** * *
8116677 ATCATTTTTAATGCTAATTGATTTTAAAATTAAATTTCAAAAATTTTTCAAC
1 ATCA-TTTTAATGCTAATTGATTCTAAAATTAAATCCCAAAAATCTCTCAAC
* * *
8116729 ATTATTTTAATG-TGAATTGATTCTAAGATTAAATCCCATAAATCTCTCAAC
1 ATCATTTTAATGCT-AATTGATTCTAAAATTAAATCCCAAAAATCTCTCAAC
8116780 ATCATTTTAA
1 ATCATTTTAA
8116790 CCATATTTCA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 1 0.02
51 47 0.92
52 3 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (51 bp):
ATCATTTTAATGCTAATTGATTCTAAAATTAAATCCCAAAAATCTCTCAAC
Found at i:8117990 original size:32 final size:32
Alignment explanation
Indices: 8117953--8118070 Score: 101
Period size: 32 Copynumber: 3.7 Consensus size: 32
8117943 TCAATCTCTA
* *
8117953 TCATTTTTATTTTCGATCTTGGCTCAGTCCGG
1 TCATTTTTATTTTCAACCTTGGCTCAGTCCGG
* *
8117985 TCATTTTTATTTTCAACCTTGGCTTAGTCTGG
1 TCATTTTTATTTTCAACCTTGGCTCAGTCCGG
** * ** * * *
8118017 TCACCTTCATTTTTTACCTTGACTCAGTCTGA
1 TCATTTTTATTTTCAACCTTGGCTCAGTCCGG
* **
8118049 TCATCTTTATTTTTTACCTTGG
1 TCATTTTTATTTTCAACCTTGG
8118071 TTTAGTCCAA
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.15, C:0.22, G:0.14, T:0.49
Consensus pattern (32 bp):
TCATTTTTATTTTCAACCTTGGCTCAGTCCGG
Found at i:8118108 original size:64 final size:64
Alignment explanation
Indices: 8117967--8118133 Score: 165
Period size: 64 Copynumber: 2.6 Consensus size: 64
8117957 TTTTATTTTC
* * *** **
8117967 GATCTTGGCTCAGTCCGGTCATTTTTATTTTCAACCTTGGCTTAGTCTGGTCACCTTCATTTTT
1 GATCTTGGCTCAGTCCGATCATCTTTATTTTCAACCTTGGCTTAGTCCAATCACCTTCATCATT
* * * * ** *
8118031 TACCTTGACTCAGTCTGATCATCTTTATTTTTTACCTTGGTTTAGTCCAATCACCTTCATCATT
1 GATCTTGGCTCAGTCCGATCATCTTTATTTTCAACCTTGGCTTAGTCCAATCACCTTCATCATT
* * *
8118095 GATCTTGGTTCAGTCCGATCA-CTTTCATCTTCGACCTTG
1 GATCTTGGCTCAGTCCGATCATCTTT-ATTTTCAACCTTG
8118134 ATTCGGTTCG
Statistics
Matches: 80, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
63 4 0.05
64 76 0.95
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (64 bp):
GATCTTGGCTCAGTCCGATCATCTTTATTTTCAACCTTGGCTTAGTCCAATCACCTTCATCATT
Found at i:8118222 original size:32 final size:32
Alignment explanation
Indices: 8118186--8118269 Score: 91
Period size: 32 Copynumber: 2.6 Consensus size: 32
8118176 AGTCACAATA
* * *
8118186 ATTTTCGACCTTGGCTCAGTTTGGTCAGCTTT-
1 ATTTTCGACCTTGGCTCAATTTAGACA-CTTTC
**
8118218 ATTTTCGATATTGGCTCAATTTAGACACTTTC
1 ATTTTCGACCTTGGCTCAATTTAGACACTTTC
8118250 A-TTTCTGACCTTGGCTCAAT
1 ATTTTC-GACCTTGGCTCAAT
8118270 CCAATAACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 8 0.19
32 35 0.81
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (32 bp):
ATTTTCGACCTTGGCTCAATTTAGACACTTTC
Found at i:8118434 original size:64 final size:64
Alignment explanation
Indices: 8118243--8118436 Score: 162
Period size: 64 Copynumber: 3.0 Consensus size: 64
8118233 TCAATTTAGA
* * * * * **
8118243 CACTTTCA-TTTCTGACCTTGGCTCAATCCAATAAC-TTTATCTTTGACATTGTTTCAGTCCAGC
1 CACTTTCATTTTC-AACCTTGGTTCAATCCGATCACTTTTATCTTTGACATTGGTTCAGTCCAAT
* * * ** *
8118306 CACTTTCATTTTCAACTTTGGTTCAATCCGATCACTTTTATTTTTTATTTTGGCTT-AGTTCAAT
1 CACTTTCATTTTCAACCTTGGTTCAATCCGATCACTTTTATCTTTGACATTGG-TTCAGTCCAAT
* * * ** *
8118370 CACTTTTATCTTT-GACCTTGGTTTAATTTGATCACTTTTATCTTTGACCTTGGTTCAGTCCAAT
1 CACTTTCAT-TTTCAACCTTGGTTCAATCCGATCACTTTTATCTTTGACATTGGTTCAGTCCAAT
8118434 CAC
1 CAC
8118437 CTTCGTCATT
Statistics
Matches: 102, Mismatches: 24, Indels: 9
0.76 0.18 0.07
Matches are distributed among these distances:
63 27 0.26
64 70 0.69
65 5 0.05
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.46
Consensus pattern (64 bp):
CACTTTCATTTTCAACCTTGGTTCAATCCGATCACTTTTATCTTTGACATTGGTTCAGTCCAAT
Found at i:8118436 original size:32 final size:32
Alignment explanation
Indices: 8118255--8118436 Score: 127
Period size: 32 Copynumber: 5.7 Consensus size: 32
8118245 CTTTCATTTC
* *
8118255 TGACCTTGGCTCAATCCAATAAC-TTTATCTT
1 TGACCTTGGTTCAATCCAATCACTTTTATCTT
* * * ** *
8118286 TGACATTGTTTCAGTCCAGCCACTTTCAT-TT
1 TGACCTTGGTTCAATCCAATCACTTTTATCTT
* * * *
8118317 TCAACTTTGGTTCAATCCGATCACTTTTATTTT
1 T-GACCTTGGTTCAATCCAATCACTTTTATCTT
* ** * *
8118350 TTATTTTGGCTT-AGTTCAATCACTTTTATCTT
1 TGACCTTGG-TTCAATCCAATCACTTTTATCTT
* ***
8118382 TGACCTTGGTTTAATTTGATCACTTTTATCTT
1 TGACCTTGGTTCAATCCAATCACTTTTATCTT
*
8118414 TGACCTTGGTTCAGTCCAATCAC
1 TGACCTTGGTTCAATCCAATCAC
8118437 CTTCGTCATT
Statistics
Matches: 113, Mismatches: 33, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
31 21 0.19
32 87 0.77
33 5 0.04
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.46
Consensus pattern (32 bp):
TGACCTTGGTTCAATCCAATCACTTTTATCTT
Found at i:8118601 original size:32 final size:32
Alignment explanation
Indices: 8118554--8118619 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
8118544 AATCCATATA
8118554 ATCATGTTTTAACTTTTCG-CTCTGTCCAAATC
1 ATCATGTTTTAACTTTTCGCCT-TGTCCAAATC
* * *
8118586 ATCATTTTTTGACTTTTGGCCTTGTCCAAATC
1 ATCATGTTTTAACTTTTCGCCTTGTCCAAATC
8118618 AT
1 AT
8118620 TCCAATTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 28 0.93
33 2 0.07
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (32 bp):
ATCATGTTTTAACTTTTCGCCTTGTCCAAATC
Found at i:8118906 original size:36 final size:33
Alignment explanation
Indices: 8118839--8118906 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
8118829 AACCTGATAA
*
8118839 TTGATTTTTTTATTTTATTTTTAATTATCTTTC
1 TTGATTTTTTTATTTTATTTTGAATTATCTTTC
*
8118872 TTGATTTTTTTATTATTATTTCATGAATTTTCTTT
1 TTGATTTTTTTATT-TTATTT--TGAATTATCTTT
8118907 TATTTGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 14 0.47
34 6 0.20
36 10 0.33
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (33 bp):
TTGATTTTTTTATTTTATTTTGAATTATCTTTC
Found at i:8118982 original size:18 final size:17
Alignment explanation
Indices: 8118948--8119024 Score: 63
Period size: 18 Copynumber: 4.5 Consensus size: 17
8118938 TTGTTTATTG
8118948 TTTTATTATAT-TA-TTA
1 TTTTATT-TATCTATTTA
8118964 TTGTTATTTATCTATTTA
1 TT-TTATTTATCTATTTA
*
8118982 TATTTATTTTTAC-ATTTA
1 T-TTTATTTAT-CTATTTA
*
8119000 TTTTCCTTTATCTATTT-
1 TTTT-ATTTATCTATTTA
8119017 TTTTATTT
1 TTTTATTT
8119025 CTATTATTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
16 8 0.16
17 15 0.30
18 25 0.50
19 2 0.04
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.70
Consensus pattern (17 bp):
TTTTATTTATCTATTTA
Found at i:8119715 original size:2 final size:2
Alignment explanation
Indices: 8119710--8119744 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8119700 CTGTGAATGT
*
8119710 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
8119745 CCAAAGGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8121448 original size:2 final size:2
Alignment explanation
Indices: 8121443--8121469 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8121433 TTTTTAAATG
8121443 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8121470 TGCCATTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8123022 original size:26 final size:25
Alignment explanation
Indices: 8122937--8123013 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 25
8122927 TTTGTTTATT
** *
8122937 TTTTTTAATTTTTAAAAATATTTTCATA
1 TTTTTTAATTTTTATTAA-ATTTT-A-G
8122965 TTTTTTAATTTTTATTAAATTTTAAG
1 TTTTTTAATTTTTATTAAATTTT-AG
8122991 TTTTTTAATTTTTATTAAATTTT
1 TTTTTTAATTTTTATTAAATTTT
8123014 TTTGATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.51
27 6 0.13
28 16 0.36
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (25 bp):
TTTTTTAATTTTTATTAAATTTTAG
Found at i:8123109 original size:21 final size:19
Alignment explanation
Indices: 8123065--8123111 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
8123055 ATTTTTCAAA
*
8123065 AAAAATTAGAATTTTTTTT
1 AAAAATTAGAATTTTTTTC
*
8123084 TAAAATTAGCAGATTTTTTTC
1 AAAAATTAG-A-ATTTTTTTC
8123105 AAAAATT
1 AAAAATT
8123112 TTATAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 14 0.61
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (19 bp):
AAAAATTAGAATTTTTTTC
Found at i:8123646 original size:22 final size:23
Alignment explanation
Indices: 8123604--8123646 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8123594 CTGAAACTTT
* *
8123604 TTAAAATTACTTTTAATAATTTA
1 TTAAAATTACATTCAATAATTTA
8123627 TTAAAATTA-ATTCAATAATT
1 TTAAAATTACATTCAATAATT
8123647 AATCAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAAAATTACATTCAATAATTTA
Found at i:8123833 original size:30 final size:30
Alignment explanation
Indices: 8123703--8123844 Score: 77
Period size: 30 Copynumber: 4.9 Consensus size: 30
8123693 AGATTCATTC
8123703 AATTTAT-T-TAAATAAACTTTTATATTTTT
1 AATTTATATCTAAATAAACTTTTA-ATTTTT
** *
8123732 -A-TTGCA-CTTAAATAAATTTTTAA-TTTT
1 AATTTATATC-TAAATAAACTTTTAATTTTT
* * * *
8123759 AATTTACA-CAGAAATAAA-TACTTAATGTCTT
1 AATTTATATC-TAAATAAACT-TTTAAT-TTTT
* *
8123790 -ATTTGTATTTAAATAAACTTTTAATTTTT
1 AATTTATATCTAAATAAACTTTTAATTTTT
**
8123819 AATTTATATCTAAATAAGTTTTTAAT
1 AATTTATATCTAAATAAACTTTTAAT
8123845 ATAAATTAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
27 6 0.07
28 4 0.05
29 32 0.38
30 38 0.45
31 4 0.05
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (30 bp):
AATTTATATCTAAATAAACTTTTAATTTTT
Found at i:8123859 original size:19 final size:20
Alignment explanation
Indices: 8123837--8123893 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
8123827 TCTAAATAAG
*
8123837 TTTTT-AATATAAATTAATT
1 TTTTTAAATATAAATAAATT
8123856 TTTTTGAAA-ATAAA-AAATT
1 TTTTT-AAATATAAATAAATT
8123875 TTATTTAAATATAAATAAA
1 TT-TTTAAATATAAATAAA
8123894 AAATAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 14 0.44
20 13 0.41
21 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TTTTTAAATATAAATAAATT
Found at i:8123868 original size:20 final size:21
Alignment explanation
Indices: 8123842--8123893 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
8123832 ATAAGTTTTT
*
8123842 AATATAAATTAATTTT-TTTGA
1 AATATAAATAAATTTTATTT-A
8123863 AA-ATAAA-AAATTTTATTTA
1 AATATAAATAAATTTTATTTA
8123882 AATATAAATAAA
1 AATATAAATAAA
8123894 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 9 0.33
20 13 0.48
21 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
AATATAAATAAATTTTATTTA
Found at i:8123919 original size:28 final size:30
Alignment explanation
Indices: 8123862--8123934 Score: 98
Period size: 28 Copynumber: 2.5 Consensus size: 30
8123852 AATTTTTTTG
*
8123862 AAAATAAAAAATTTTATTTAAATATAAATAA
1 AAAATAAAAAA-TTTATTAAAATATAAATAA
8123893 AAAATAAAAAA-TTATTAAAATAT-AATAA
1 AAAATAAAAAATTTATTAAAATATAAATAA
*
8123921 AATAT-AAAAATTTA
1 AAAATAAAAAATTTA
8123935 GTTCATAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.13
28 12 0.31
29 11 0.28
31 11 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATAAAAAATTTATTAAAATATAAATAA
Found at i:8123921 original size:10 final size:10
Alignment explanation
Indices: 8123881--8123927 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
8123871 AATTTTATTT
8123881 AAATATAAATA
1 AAATAT-AATA
*
8123892 AAAAATAA-A
1 AAATATAATA
*
8123901 AAAT-TATTA
1 AAATATAATA
8123910 AAATATAATA
1 AAATATAATA
8123920 AAATATAA
1 AAATATAA
8123928 AAATTTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
8 2 0.07
9 9 0.30
10 14 0.47
11 5 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATATAATA
Found at i:8123930 original size:18 final size:18
Alignment explanation
Indices: 8123889--8123931 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
8123879 TTAAATATAA
8123889 ATAAAAA-ATAAAAAATT
1 ATAAAAATATAAAAAATT
*
8123906 ATTAAAATATAATAAAA-T
1 ATAAAAATATAA-AAAATT
8123924 ATAAAAAT
1 ATAAAAAT
8123932 TTAGTTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 12 0.55
19 4 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATATAAAAAATT
Found at i:8123952 original size:32 final size:28
Alignment explanation
Indices: 8123865--8123956 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 28
8123855 TTTTTTGAAA
* *
8123865 ATAAAAAATTTTATTTAAATATAAATAAAAA
1 ATAAAAAA--TTATTAAAATA-AAATAAAAT
*
8123896 ATAAAAAATTATTAAAATATAATAAAAT
1 ATAAAAAATTATTAAAATAAAATAAAAT
*
8123924 ATAAAAATTTAGTTCATAGAATAAAATAAAAT
1 ATAAAAAATTA-TT-A-A-AATAAAATAAAAT
8123956 A
1 A
8123957 AATTTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 17 0.33
29 12 0.23
30 1 0.02
31 9 0.17
32 13 0.25
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (28 bp):
ATAAAAAATTATTAAAATAAAATAAAAT
Found at i:8125653 original size:125 final size:124
Alignment explanation
Indices: 8125458--8125925 Score: 407
Period size: 125 Copynumber: 3.7 Consensus size: 124
8125448 AAAAAATGCT
* * * ** * * * *
8125458 TTGAATTATCTTTTACAAAAAATTAAATGAGATTATTTAAGGTATTTTTTACCAAAAATATTTTA
1 TTGAATAATCTCTTACAAAAAATTGAATGAGGCTATTCAAGG--TTTTTGACTAAAAATACTTTA
*
8125523 AATAATCCCCTTC-AATTTTT-TAGAGGAAATTATTCAATATATTTTTTGCTAGAAAAAATA
64 AATAATCCCCTTCTAATTTTTAT-GAGGAAATTATTCAATATATTTTTTGCTAGAAAAAGTA
* * *
8125583 TTGAATAATGC-CTTACAAAAAATTGAATAACGTTATTCAATGCGTTTTTGACTAAAAATACTTT
1 TTGAATAAT-CTCTTACAAAAAATTGAATGAGGCTATTCAA-G-GTTTTTGACTAAAAATACTTT
* * *** *
8125647 GAATAATCTCC-TCTAATTTTTATGA--AATGATTATTCAAGGCATTTTTGGCTA-AAAAACGTA
63 AAATAATCCCCTTCTAATTTTTATGAGGAA--ATTATTCAATATATTTTTTGCTAGAAAAA-GTA
* * * *
8125708 TTGAATAATCTTTTACAAAAAATTGAATGAGGCTATTCAAGGTATTTTTAGTCAAAA-ACATCTT
1 TTGAATAATCTCTTACAAAAAATTGAATGAGGCTATTCAAGGT-TTTTGACTAAAAATAC-T-TT
* * ** * *
8125772 AAATAAT-CCCTTCTAATTTTTATGAGGAGACTATTCAATATATTTTTTTATCAGAAAATGTC
63 AAATAATCCCCTTCTAATTTTTATGAGGAAATTATTCAATATATTTTTTGCT-AGAAAAAGTA
* * * * * *
8125834 GTGAATAATCTCTTATAAAAAATTGAATGGGGCTATTCAAGATATTTTTGACAAAAAATACTTTG
1 TTGAATAATCTCTTACAAAAAATTGAATGAGGCTATTCAAG--GTTTTTGACTAAAAATACTTTA
*
8125899 AATAATCCCCTTC-AATGTTTATGAGGA
64 AATAATCCCCTTCTAATTTTTATGAGGA
8125926 GATCATTTAA
Statistics
Matches: 275, Mismatches: 47, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
123 6 0.02
124 22 0.08
125 158 0.57
126 64 0.23
127 22 0.08
128 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (124 bp):
TTGAATAATCTCTTACAAAAAATTGAATGAGGCTATTCAAGGTTTTTGACTAAAAATACTTTAAA
TAATCCCCTTCTAATTTTTATGAGGAAATTATTCAATATATTTTTTGCTAGAAAAAGTA
Found at i:8125856 original size:251 final size:250
Alignment explanation
Indices: 8125364--8126008 Score: 643
Period size: 251 Copynumber: 2.6 Consensus size: 250
8125354 TTAAAGAGGA
* * *
8125364 TTATTCAAGACGTTTTT-AGTCAAAAATA-TATTAAATAATCCCTTTCAATTTTTATGATAGGAT
1 TTATTCAAGACGTTTTTGACT-AAAAATACT-TTGAATAATCCC-TTCAATTTTTATGAAAGGAT
* * * *
8125427 TATTCAAGGGTTTTTGGTCAAAAAAAATGCTTTGAATTATCTTTTACAAAAAATTAAATGAGATT
63 TATTCAAGGATTTTTGGTCAAAAAAAACGCTTTGAATAATCTTTTACAAAAAATTAAATGAGACT
* * * *
8125492 ATTTAAGGTATTTTTTACCAAAAATATTTTAAATAATCCCCTTCAATTTTTTAGAGGAAATTATT
128 ATTCAAGGTATTTTTTACCAAAAACATCTTAAATAATCCCCTTCAATTTTTTAGAGGAAACTATT
* *
8125557 CAATATATTTTTTGCTAGAAAAAATATTGAATAATGCCTTACAAAAAATTGAATAACG
193 CAATATATTTTTTGATAGAAAAAATAGTGAATAATGCCTTACAAAAAATTGAATAACG
*
8125615 TTATTCAATG-CGTTTTTGACTAAAAATACTTTGAATAATCTCC-TCTAATTTTTATGAAATGAT
1 TTATTCAA-GACGTTTTTGACTAAAAATACTTTGAATAATC-CCTTC-AATTTTTATGAAAGGAT
* * *
8125678 TATTCAAGGCATTTTTGG-C-TAAAAAACG-TATTGAATAATCTTTTACAAAAAATTGAATGAGG
63 TATTCAAGG-ATTTTTGGTCAAAAAAAACGCT-TTGAATAATCTTTTACAAAAAATTAAATGAGA
* *
8125740 CTATTCAAGGTA-TTTTTAGTCAAAAACATCTTAAATAAT-CCCTTCTAA-TTTTTATGAGGAGA
126 CTATTCAAGGTATTTTTTA-CCAAAAACATCTTAAATAATCCCCTTC-AATTTTTTA-GAGGAAA
* ** * * ***
8125802 CTATTCAATATATTTTTTTATCAGAAAATGTCGTGAATAAT-CTCTTATAAAAAATTGAATGGGG
188 CTATTCAATATATTTTTTGAT-AGAAAAAATAGTGAATAATGC-CTTACAAAAAATTGAATAACG
* ** * * * *
8125866 CTATTCAAGATATTTTTGACAAAAAATACTTTGAATAATCCCCTTCAATGTTTATG-AGGAGATC
1 TTATTCAAGACGTTTTTGACTAAAAATACTTTGAATAAT-CCCTTCAATTTTTATGAAAG-GATT
* * * * * * * *
8125930 ATTTAAGGTAATTTTT-ATAAAAAAAAATGCCTTGAATAATCTCTTACCAAAAATTAAAT-AGGG
64 ATTCAAGG--ATTTTTGGTCAAAAAAAACGCTTTGAATAATCTTTTACAAAAAATTAAATGA-GA
*
8125993 TTATTCAAGGTATTTT
126 CTATTCAAGGTATTTT
8126009 CTGATAAAAA
Statistics
Matches: 326, Mismatches: 46, Indels: 41
0.79 0.11 0.10
Matches are distributed among these distances:
249 19 0.06
250 94 0.29
251 142 0.44
252 23 0.07
253 45 0.14
254 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (250 bp):
TTATTCAAGACGTTTTTGACTAAAAATACTTTGAATAATCCCTTCAATTTTTATGAAAGGATTAT
TCAAGGATTTTTGGTCAAAAAAAACGCTTTGAATAATCTTTTACAAAAAATTAAATGAGACTATT
CAAGGTATTTTTTACCAAAAACATCTTAAATAATCCCCTTCAATTTTTTAGAGGAAACTATTCAA
TATATTTTTTGATAGAAAAAATAGTGAATAATGCCTTACAAAAAATTGAATAACG
Found at i:8125881 original size:126 final size:126
Alignment explanation
Indices: 8125385--8126050 Score: 389
Period size: 125 Copynumber: 5.3 Consensus size: 126
8125375 GTTTTTAGTC
* * * * ** * *
8125385 AAAAATA-TATTAAATAATCCCTTTCAATTTTTATGA-TAGGATTATTCAAG-GGTTTTTGGTCA
1 AAAAATACT-TTAAATAATCCCCTTCAATGTTTATGAGGA-GATCATTCAAGTAATTTTT-ATAA
** * * * * ** * * *
8125447 AAAAAAATGCTTTGAATTATCTTTTACAAAAAATTAAATGAGATTATTTAAGGTATTTTTTACC
63 AAAAAAATGCCGTGAATAATCTCTTACAAAAAATTGAATGGGGCTATTCAAGGTATTTTTGACA
* * * * *
8125511 AAAAATATTTTAAATAATCCCCTTCAAT-TTTTTAGAGGAAATTATTCAA-TATATTTTTTGCTA
1 AAAAATACTTTAAATAATCCCCTTCAATGTTTAT-GAGGAGATCATTCAAGTA-A-TTTTT-ATA
* *** * * **
8125574 GAAAAAATAT----TGAATAATGC-CTTACAAAAAATTGAATAACGTTATTCAATGCGTTTTTGA
62 -AAAAAAAATGCCGTGAATAAT-CTCTTACAAAAAATTGAATGGGGCTATTCAAGGTATTTTTGA
*
8125634 CT
125 CA
* * * * * ** ****
8125636 AAAAATACTTTGAATAATCTCC-TCTAATTTTTATGA-AATGATTATTCAAGGCATTTTT-GGCT
1 AAAAATACTTTAAATAATCCCCTTC-AATGTTTATGAGGA-GATCATTCAAGTAATTTTTATAAA
* *** * * *
8125698 AAAAAACGTATTGAATAATCTTTTACAAAAAATTGAATGAGGCTATTCAAGGTATTTTTAGTCA
64 AAAAAATGCCGTGAATAATCTCTTACAAAAAATTGAATGGGGCTATTCAAGGTATTTTT-GACA
* *
8125762 AAAACAT-C-TTAAATAAT-CCCTTCTAATTTTTATGAGGAGA-CTATTCAA-TATATTTTTTTA
1 AAAA-ATACTTTAAATAATCCCCTTC-AATGTTTATGAGGAGATC-ATTCAAGTA-ATTTTTATA
** * * * *
8125822 TCAGAAAATGTCGTGAATAATCTCTTATAAAAAATTGAATGGGGCTATTCAAGATATTTTTGACA
62 AAAAAAAATGCCGTGAATAATCTCTTACAAAAAATTGAATGGGGCTATTCAAGGTATTTTTGACA
* *
8125887 AAAAATACTTTGAATAATCCCCTTCAATGTTTATGAGGAGATCATTTAAGGTAATTTTTATAAAA
1 AAAAATACTTTAAATAATCCCCTTCAATGTTTATGAGGAGATCATTCAA-GTAATTTTTATAAAA
* * * * * *
8125952 AAAAATGCCTTGAATAATCTCTTACCAAAAATTAAATAGGGTTATTCAAGGTATTTTCTGATA
65 AAAAATGCCGTGAATAATCTCTTACAAAAAATTGAATGGGGCTATTCAAGGTATTTT-TGACA
* * * *
8126015 AAAAA-AATCTTGAATACTCCCCTTTAATGTTTATGA
1 AAAAATACT-TTAAATAATCCCCTTCAATGTTTATGA
8126051 AAGGATTATT
Statistics
Matches: 426, Mismatches: 82, Indels: 62
0.75 0.14 0.11
Matches are distributed among these distances:
121 5 0.01
124 13 0.03
125 159 0.37
126 128 0.30
127 70 0.16
128 43 0.10
129 8 0.02
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (126 bp):
AAAAATACTTTAAATAATCCCCTTCAATGTTTATGAGGAGATCATTCAAGTAATTTTTATAAAAA
AAAATGCCGTGAATAATCTCTTACAAAAAATTGAATGGGGCTATTCAAGGTATTTTTGACA
Found at i:8126118 original size:61 final size:63
Alignment explanation
Indices: 8125867--8126127 Score: 161
Period size: 63 Copynumber: 4.2 Consensus size: 63
8125857 TGAATGGGGC
* * * *
8125867 TATTCAAGATATTTT-TGACAAAAAATA-CTTTGAATAATCCCCTTCAATGTTTATG-AGGAGAT
1 TATTCAAGGTATTTTCTGATAAAAAAAATC-TTGAATAATCCCCTTTAATGTTTATGAAGG-GAT
* * * * *** *
8125929 CATTTAAGGTAATTTT-T-ATAAAAAAAAATGCCTTGAATAAT-CTCTTACCAAAAATTA-AATA
1 TATTCAAGGT-ATTTTCTGAT-AAAAAAAAT--CTTGAATAATCCCCTT--TAATGTTTATGA-A
8125990 GGG-T
59 GGGAT
* *
8125994 TATTCAAGGTATTTTCTGATAAAAAAAATCTTGAATACTCCCCTTTAATGTTTATGAAAGGAT
1 TATTCAAGGTATTTTCTGATAAAAAAAATCTTGAATAATCCCCTTTAATGTTTATGAAGGGAT
* * * *
8126057 TATTCAAGGTATTTT-TG-TCAAAAATA-CATTGAATAAT-CTCTTCTAAT-TTTTTAGAAGGGA
1 TATTCAAGGTATTTTCTGATAAAAAAAATC-TTGAATAATCCCCTT-TAATGTTTAT-GAAGGGA
8126117 T
63 T
8126118 TATTCAAGGT
1 TATTCAAGGT
8126128 GTTAACGTCT
Statistics
Matches: 156, Mismatches: 26, Indels: 35
0.72 0.12 0.16
Matches are distributed among these distances:
60 9 0.06
61 36 0.23
62 18 0.12
63 39 0.25
64 13 0.08
65 28 0.18
66 10 0.06
67 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (63 bp):
TATTCAAGGTATTTTCTGATAAAAAAAATCTTGAATAATCCCCTTTAATGTTTATGAAGGGAT
Found at i:8126382 original size:42 final size:43
Alignment explanation
Indices: 8126336--8126423 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 43
8126326 TTTTGAGAAG
8126336 AAACACCTTAAATAATAATCATTTAAAGCATTTCTTCAAC-CC
1 AAACACCTTAAATAATAATCATTTAAAGCATTTCTTCAACTCC
* * * * *
8126378 AAACACCTTGAATGATCATCATTTAAAGCGTTTCTTTAACTCC
1 AAACACCTTAAATAATAATCATTTAAAGCATTTCTTCAACTCC
8126421 AAA
1 AAA
8126424 TTTATTTGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 35 0.88
43 5 0.12
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.32
Consensus pattern (43 bp):
AAACACCTTAAATAATAATCATTTAAAGCATTTCTTCAACTCC
Found at i:8131780 original size:63 final size:63
Alignment explanation
Indices: 8131661--8131781 Score: 138
Period size: 63 Copynumber: 1.9 Consensus size: 63
8131651 AAAAAAAAAA
* * * *
8131661 TTCAATAATCTCCTTCATTTTTTATGAAGTAATTATTAAAGGCGTTTTGTGTAAAAAAACGCC
1 TTCAATAATCTCCTTCATTTTTTATGAAGGAATTATTAAAGGCATTTAGTGCAAAAAAACGCC
* * * *
8131724 TTCAATAATCTCTTTCAATTTTTTATG-AGGGATTATTGAAGGTATTTCAG-GCAAAAAA
1 TTCAATAATCTCCTTC-ATTTTTTATGAAGGAATTATTAAAGGCATTT-AGTGCAAAAAA
8131782 TACTTTGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
63 37 0.77
64 11 0.23
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (63 bp):
TTCAATAATCTCCTTCATTTTTTATGAAGGAATTATTAAAGGCATTTAGTGCAAAAAAACGCC
Found at i:8132027 original size:44 final size:44
Alignment explanation
Indices: 8131964--8132047 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
8131954 GTTGTCAATT
*
8131964 AACATACAATCGTTAATCATAAAGTTATAGGTTCGATCTCATAA
1 AACATACAATCGTTAATCATAAAGTTATAGATTCGATCTCATAA
* * * *
8132008 AACATACAATTGTTAATCATAAGGTTGTAGATTTGATCTC
1 AACATACAATCGTTAATCATAAAGTTATAGATTCGATCTC
8132048 TCTCTTCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (44 bp):
AACATACAATCGTTAATCATAAAGTTATAGATTCGATCTCATAA
Found at i:8132759 original size:2 final size:2
Alignment explanation
Indices: 8132752--8132790 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
8132742 AATGTAAGTA
8132752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8132791 AACTATGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8133073 original size:3 final size:3
Alignment explanation
Indices: 8133067--8133120 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
8133057 ATCGTCGTTG
8133067 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8133115 TTA TTA
1 TTA TTA
8133121 ATAGTAATAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8145160 original size:29 final size:32
Alignment explanation
Indices: 8145128--8145193 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
8145118 TAATTTATTC
*
8145128 TTAAATTTTAAAAATA-T-A-TAATATAATAT
1 TTAAATTATAAAAATATTAATTAATATAATAT
**
8145157 TTAAATTATAAATTTATTAATTAATATAATAT
1 TTAAATTATAAAAATATTAATTAATATAATAT
8145189 TTAAA
1 TTAAA
8145194 ATATTATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 13 0.42
30 1 0.03
31 1 0.03
32 16 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
TTAAATTATAAAAATATTAATTAATATAATAT
Found at i:8145202 original size:44 final size:43
Alignment explanation
Indices: 8145140--8145223 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
8145130 AAATTTTAAA
*
8145140 AATATATAATATAATATTTAAATTATAAATTTATTAATTAATAT
1 AATATATAAAATAATATTTAAATTATAAA-TTATTAATTAATAT
* * * * *
8145184 AATATTTAAAATATTATTTATATTATATATTATTATTTAA
1 AATATATAAAATAATATTTAAATTATAAATTATTAATTAA
8145224 AATTAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 10 0.29
44 24 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (43 bp):
AATATATAAAATAATATTTAAATTATAAATTATTAATTAATAT
Found at i:8145242 original size:28 final size:28
Alignment explanation
Indices: 8145141--8145255 Score: 97
Period size: 32 Copynumber: 3.8 Consensus size: 28
8145131 AATTTTAAAA
* *
8145141 ATATATAATATAATATTTAAATTATAAATTT
1 ATAT-TAATATTATATTTAAA-TATTAA-TT
* *
8145172 ATTAATTAATATAATATTTAAAATATTATTT
1 A-T-ATTAATATTATATTT-AAATATTAATT
8145203 ATATTATATATTATTATTTAAA-ATTAATT
1 ATATTA-ATATTA-TATTTAAATATTAATT
*
8145232 ATGTTAATATTATAGTTTAAATAT
1 ATATTAATATTATA-TTTAAATAT
8145256 ACATTAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
27 2 0.03
28 12 0.17
29 17 0.24
30 9 0.12
31 9 0.12
32 18 0.25
33 5 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
ATATTAATATTATATTTAAATATTAATT
Found at i:8148991 original size:12 final size:11
Alignment explanation
Indices: 8148973--8149026 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
8148963 TAAAAGCCCA
8148973 TAATTTTAATT
1 TAATTTTAATT
8148984 TGAATTTTAATTT
1 T-AATTTTAA-TT
*
8148997 TAACTTTAATT
1 TAATTTTAATT
*
8149008 TAATTTTGATT
1 TAATTTTAATT
*
8149019 TTATTTTA
1 TAATTTTA
8149027 TTTTTATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 18 0.50
12 15 0.42
13 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (11 bp):
TAATTTTAATT
Found at i:8149011 original size:5 final size:6
Alignment explanation
Indices: 8148973--8149032 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
8148963 TAAAAGCCCA
* * *
8148973 TAATTT TAATTT GAATTT TAATTT TAACTT TAA-TT TAATTT TGATTT
1 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT TAATTT
*
8149020 T-ATTT TATTTT TA
1 TAATTT TAATTT TA
8149033 TCAAATTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 10 0.21
6 37 0.79
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (6 bp):
TAATTT
Found at i:8149031 original size:17 final size:17
Alignment explanation
Indices: 8148973--8149032 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
8148963 TAAAAGCCCA
8148973 TAATTTTAA-TTTGAATTT
1 TAATTTTAACTTT--ATTT
*
8148991 TAATTTTAACTTTAATT
1 TAATTTTAACTTTATTT
* *
8149008 TAATTTTGATTTTATTT
1 TAATTTTAACTTTATTT
*
8149025 TATTTTTA
1 TAATTTTA
8149033 TCAAATTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
17 23 0.66
18 9 0.26
19 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (17 bp):
TAATTTTAACTTTATTT
Found at i:8152580 original size:182 final size:182
Alignment explanation
Indices: 8152343--8152705 Score: 485
Period size: 182 Copynumber: 2.0 Consensus size: 182
8152333 TTGTAATCCT
* * *
8152343 ACCAAAGTTTAAAGTTTTTGAGTTTGAAAAGTATAATGGCACTAAGTGTCTGATAACTCATGTTA
1 ACCAAAGTTTAAAGTTTTTAAGTTCGAAAAGTATAATGGCACTAAGTGTCTGATAACTCATGTCA
* * * * *
8152408 CCATGTACTATTGAAAAATAGCTAT-CTACATCAGTGATTAAAAGCTATTAATGCATGTGTTCCA
66 CCATATACTATCGAAAAATAGCT-TCCTACATCAATGATGAAAAGCTATTAATGCATATGTTCCA
* * * * *
8152472 AAATAACCTTACTGGCTCAGTTGCAAATGGTATGTTCAATTAGATCGAACTCC
130 AAATAACCTTACTAGCTCAGCTACAAATGGTATGTTCAATGAGATCAAACTCC
* * * *
8152525 ACCAAAGTTTAAGGTTTTTAAGTTCGAGAAGTATAATGGTATTAAGTGTCTGATAACTCATGTCA
1 ACCAAAGTTTAAAGTTTTTAAGTTCGAAAAGTATAATGGCACTAAGTGTCTGATAACTCATGTCA
* * **
8152590 CCATATACTATCGAAAAATGGCTTCCTACATCAATGATGAAAAGCTATTGATGCATATGTTTTAA
66 CCATATACTATCGAAAAATAGCTTCCTACATCAATGATGAAAAGCTATTAATGCATATGTTCCAA
* * * *
8152655 AATAGCCTTATTAGCTCAGCTACAAGTGGTATGTTCAGTGAGATCAAACTC
131 AATAACCTTACTAGCTCAGCTACAAATGGTATGTTCAATGAGATCAAACTC
8152706 ATATTCGCTC
Statistics
Matches: 155, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
181 1 0.01
182 154 0.99
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (182 bp):
ACCAAAGTTTAAAGTTTTTAAGTTCGAAAAGTATAATGGCACTAAGTGTCTGATAACTCATGTCA
CCATATACTATCGAAAAATAGCTTCCTACATCAATGATGAAAAGCTATTAATGCATATGTTCCAA
AATAACCTTACTAGCTCAGCTACAAATGGTATGTTCAATGAGATCAAACTCC
Found at i:8154617 original size:8 final size:8
Alignment explanation
Indices: 8154604--8154641 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
8154594 AAGATGTGTA
8154604 AAAAAATG
1 AAAAAATG
8154612 AAAAAATG
1 AAAAAATG
8154620 AAAAAA-G
1 AAAAAATG
*
8154627 AAATAAAAG
1 AAA-AAATG
8154636 AAAAAA
1 AAAAAA
8154642 AAGAAGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.14
8 20 0.71
9 4 0.14
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:8155844 original size:90 final size:90
Alignment explanation
Indices: 8155677--8155845 Score: 198
Period size: 90 Copynumber: 1.9 Consensus size: 90
8155667 AATAAAAATT
* * * * *
8155677 TTTGAAATTTTGGATGTGAAACCTAAAACTTTTTTAAATGAGAATTTTTAAAATTTTGGATGTGA
1 TTTGAAACTTTGGATGTGAAACCTAAAACTTTGTTAAATGAAAATCTTTAAAATCTTGGATGTGA
* *
8155742 AGCCATAGAGTTTTGAAAAAGAACC
66 AGACATAAAGTTTTGAAAAAGAACC
* * * *
8155767 TTTGAAACTTTGGATGTGAATCTCTAAAA-TTTGTTAGATGAAAATCTTTGAAATCTTGGTTGTG
1 TTTGAAACTTTGGATGTGAAAC-CTAAAACTTTGTTAAATGAAAATCTTTAAAATCTTGGATGTG
*
8155831 AA-ATATTAAAGTTTT
65 AAGACA-TAAAGTTTT
8155846 TTAATGTGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 1 0.02
90 58 0.89
91 6 0.09
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.40
Consensus pattern (90 bp):
TTTGAAACTTTGGATGTGAAACCTAAAACTTTGTTAAATGAAAATCTTTAAAATCTTGGATGTGA
AGACATAAAGTTTTGAAAAAGAACC
Found at i:8155853 original size:23 final size:22
Alignment explanation
Indices: 8155827--8155877 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
8155817 AAATCTTGGT
*
8155827 TGTGAAATATTAAAGTTTTTTAA
1 TGTGAAATATTAAA-ATTTTTAA
* * *
8155850 TGTGAATTTTTAAAATTTTTGA
1 TGTGAAATATTAAAATTTTTAA
8155872 TGTGAA
1 TGTGAA
8155878 TTTCTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (22 bp):
TGTGAAATATTAAAATTTTTAA
Found at i:8155890 original size:22 final size:22
Alignment explanation
Indices: 8155839--8155893 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8155829 TGAAATATTA
* *
8155839 AAGTTTTTTAATGTGAATTTTT
1 AAGTTTTTTGATGTGAATTTCT
**
8155861 AAAATTTTTGATGTGAATTTCT
1 AAGTTTTTTGATGTGAATTTCT
8155883 AAGTTTTTTGA
1 AAGTTTTTTGA
8155894 AGAAATATCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (22 bp):
AAGTTTTTTGATGTGAATTTCT
Found at i:8155952 original size:135 final size:134
Alignment explanation
Indices: 8155661--8155953 Score: 301
Period size: 136 Copynumber: 2.2 Consensus size: 134
8155651 TTAAAAGAGT
* * * *
8155661 TTTTCAAATAAAAATTTTTGAAATTTTGGATGTGAAACCTAAAACTTTTTTAAATGAGAATTTTT
1 TTTTCAAATGAAAATATTTGAAATCTTGGATGTGAAACATAAAACTTTTTTAAATGAGAATTTTT
8155726 AAAATTTTGGATGTGAAGCCATAGAGTTTTGAAAAAGAACCTTTGAAACTTTGGATGTGAATCTC
66 AAAATTTTGGATGTGAAGCCATAGAGTTTTGAAAAAGAACCTTT-AAACTTTGGATGTGAATCTC
8155791 TAAAA
130 TAAAA
* * * * * * * *
8155796 TTTGTTAGATGAAAATCTTTGAAATCTTGGTTGTGAAATATTAAAGTTTTTT-AATGTGAATTTT
1 TTT-TCAAATGAAAATATTTGAAATCTTGGATGTGAAACATAAAACTTTTTTAAATGAGAATTTT
* ** * *
8155860 TAAAATTTTTGATGTGAATTTC-TA-AGTTTTTTGAAGAAA-TATCTTT-AACTTTTGGATGTGA
65 TAAAATTTTGGATGTGAA-GCCATAGAG--TTTTGAA-AAAGAACCTTTAAAC-TTTGGATGTG-
8155921 AATC-CTGAAAA
124 AATCTCT-AAAA
*
8155932 TTTTCAAATGAGAATATTTGAA
1 TTTTCAAATGAAAATATTTGAA
8155954 TTTTGGCCAT
Statistics
Matches: 130, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
134 5 0.04
135 60 0.46
136 62 0.48
137 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (134 bp):
TTTTCAAATGAAAATATTTGAAATCTTGGATGTGAAACATAAAACTTTTTTAAATGAGAATTTTT
AAAATTTTGGATGTGAAGCCATAGAGTTTTGAAAAAGAACCTTTAAACTTTGGATGTGAATCTCT
AAAA
Found at i:8156135 original size:17 final size:18
Alignment explanation
Indices: 8156109--8156150 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
8156099 CAAATCTAAG
*
8156109 TTCTTGCAAA-AATGAAA
1 TTCTTACAAATAATGAAA
**
8156126 TTCTTACAAATCTTGAAA
1 TTCTTACAAATAATGAAA
8156144 TTCTTAC
1 TTCTTAC
8156151 GAATCTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (18 bp):
TTCTTACAAATAATGAAA
Found at i:8156144 original size:18 final size:18
Alignment explanation
Indices: 8156121--8156156 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8156111 CTTGCAAAAA
8156121 TGAAATTCTTACAAATCT
1 TGAAATTCTTACAAATCT
*
8156139 TGAAATTCTTACGAATCT
1 TGAAATTCTTACAAATCT
8156157 AAAAACCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (18 bp):
TGAAATTCTTACAAATCT
Found at i:8156264 original size:17 final size:17
Alignment explanation
Indices: 8156094--8156268 Score: 86
Period size: 17 Copynumber: 10.2 Consensus size: 17
8156084 AATTTGTAAA
*
8156094 TCTTGCAAATCT-AAGT
1 TCTTGCAAATCTGAAAT
**
8156110 TCTTGCAAAAATGAAAT
1 TCTTGCAAATCTGAAAT
*
8156127 TCTTACAAATCTTGAAAT
1 TCTTGCAAATC-TGAAAT
* * * *
8156145 TCTTACGAATCTAAAAA
1 TCTTGCAAATCTGAAAT
* * ***
8156162 CCTTGCGAATCTTCCAT
1 TCTTGCAAATCTGAAAT
*** * *
8156179 TCTTATGAACCTAAAAT
1 TCTTGCAAATCTGAAAT
*
8156196 TCTTGCAAAT-TCGAAAG
1 TCTTGCAAATCT-GAAAT
* *
8156213 TCTTGCAAATCTTTAAGT
1 TCTTGCAAATC-TGAAAT
* *
8156231 TTTTACGAAAT-TGAAAT
1 TCTTGC-AAATCTGAAAT
8156248 TCTTGCAAATCTGAAAT
1 TCTTGCAAATCTGAAAT
8156265 TCTT
1 TCTT
8156269 ACGAATATGA
Statistics
Matches: 115, Mismatches: 37, Indels: 13
0.70 0.22 0.08
Matches are distributed among these distances:
16 15 0.13
17 73 0.63
18 22 0.19
19 5 0.04
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (17 bp):
TCTTGCAAATCTGAAAT
Found at i:8156279 original size:17 final size:17
Alignment explanation
Indices: 8156233--8156279 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
8156223 CTTTAAGTTT
8156233 TTACGAA-ATTGAAATTC
1 TTACGAATA-TGAAATTC
* * *
8156250 TTGCAAATCTGAAATTC
1 TTACGAATATGAAATTC
8156267 TTACGAATATGAA
1 TTACGAATATGAA
8156280 TATCTTTGTG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (17 bp):
TTACGAATATGAAATTC
Found at i:8156434 original size:18 final size:18
Alignment explanation
Indices: 8156393--8156434 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
8156383 GAAATTTTGC
* *
8156393 AAATCTGGAACTTCTATG
1 AAATTTGGAACCTCTATG
*
8156411 -AATTTGGAACCTCTGTG
1 AAATTTGGAACCTCTATG
8156428 AAATTTG
1 AAATTTG
8156435 AAATTTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (18 bp):
AAATTTGGAACCTCTATG
Found at i:8156449 original size:51 final size:52
Alignment explanation
Indices: 8156284--8156450 Score: 157
Period size: 51 Copynumber: 3.2 Consensus size: 52
8156274 TATGAATATC
* *
8156284 TTTGTGAATTTAGAAC-TTTGA-GAATATGGAAACCTTTGTG-AATTTGAATAT
1 TTTGTGAATCTAGAACATTTAATGAATATGG-AACCTTTGTGAAATTTGAA-AT
* *
8156335 CTTTGTGAATCTAGAACATTTAATGAATCA-AGAACCTTTGTGAAACTTGAAAT
1 -TTTGTGAATCTAGAACATTTAATGAAT-ATGGAACCTTTGTGAAATTTGAAAT
** * * *
8156388 TTTGCAAATCTGGAAC-TTCT-ATGAATTTGGAACCTCTGTGAAATTTGAAAT
1 TTTGTGAATCTAGAACATT-TAATGAATATGGAACCTTTGTGAAATTTGAAAT
*
8156439 TTTATGAATCTA
1 TTTGTGAATCTA
8156451 AAACCTTTGC
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
51 36 0.38
52 29 0.31
53 16 0.17
54 12 0.13
55 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (52 bp):
TTTGTGAATCTAGAACATTTAATGAATATGGAACCTTTGTGAAATTTGAAAT
Found at i:8156464 original size:17 final size:17
Alignment explanation
Indices: 8156444--8156492 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
8156434 GAAATTTTAT
*
8156444 GAATCTAAAACCTTTGC
1 GAATCTGAAACCTTTGC
*
8156461 GAATCTGAAATCTTTGC
1 GAATCTGAAACCTTTGC
* *
8156478 AAATTTGAAACCTTT
1 GAATCTGAAACCTTT
8156493 ATGAAACTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
GAATCTGAAACCTTTGC
Found at i:8156511 original size:35 final size:35
Alignment explanation
Indices: 8156469--8156630 Score: 100
Period size: 35 Copynumber: 4.5 Consensus size: 35
8156459 GCGAATCTGA
8156469 AATCTTTGCAAATTTGAAACCTTTATGAAACTTAG
1 AATCTTTGCAAATTTGAAACCTTTATGAAACTTAG
** * * *
8156504 AATCTTTGTGAATTTGGAACCTCTGA-GAATCTTA-
1 AATCTTTGCAAATTTGAAACCT-TTATGAAACTTAG
* * * * **
8156538 AATTATTTACAAACTTTTAGAATCTTTGCGAAACTTAG
1 AA-TCTTTGCAAA-TTTGA-AACCTTTATGAAACTTAG
* *
8156576 AAT-TCTTG-AGAATCTAGAAACCTTTATGAATCTT-G
1 AATCT-TTGCA-AAT-TTGAAACCTTTATGAAACTTAG
8156611 AATCTTTGCAAATTTTGAAA
1 AATCTTTGCAAA-TTTGAAA
8156631 TCATTACAAA
Statistics
Matches: 92, Mismatches: 23, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
34 2 0.02
35 46 0.50
36 24 0.26
37 18 0.20
38 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (35 bp):
AATCTTTGCAAATTTGAAACCTTTATGAAACTTAG
Found at i:8157186 original size:11 final size:11
Alignment explanation
Indices: 8157155--8157186 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8157145 TGCCCAGAAT
*
8157155 TTTAATTTTAA
1 TTTAATTTTGA
8157166 TTTAATTTTGA
1 TTTAATTTTGA
8157177 TTTAATTTTG
1 TTTAATTTTG
8157187 TTTTTATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (11 bp):
TTTAATTTTGA
Found at i:8157605 original size:10 final size:10
Alignment explanation
Indices: 8157590--8157625 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
8157580 GTGGATTGGT
8157590 GTTTTTAGGA
1 GTTTTTAGGA
8157600 GTTTTTAGGA
1 GTTTTTAGGA
*
8157610 GTTTTCAGG-
1 GTTTTTAGGA
8157619 GTTTTTA
1 GTTTTTA
8157626 ATTTTCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.53
Consensus pattern (10 bp):
GTTTTTAGGA
Found at i:8162582 original size:21 final size:19
Alignment explanation
Indices: 8162548--8162595 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
8162538 ATAAATTTAC
* *
8162548 ATTAATTTTATATTAGATTT
1 ATTAATTATATATTA-AATT
*
8162568 ATTTAATTATGTATTAAATT
1 A-TTAATTATATATTAAATT
8162588 ATTAATTA
1 ATTAATTA
8162596 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.29
20 5 0.21
21 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTAATTATATATTAAATT
Found at i:8164419 original size:3 final size:3
Alignment explanation
Indices: 8164411--8164438 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8164401 ATAAAAAATT
8164411 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8164439 GAAAATCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8164601 original size:3 final size:3
Alignment explanation
Indices: 8164593--8164662 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
8164583 CCCCAAAAAC
8164593 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
8164641 ATA ATA ATA ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
8164663 AATGATTAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8167207 original size:15 final size:15
Alignment explanation
Indices: 8167187--8167221 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
8167177 ATAAAACAAC
*
8167187 AAAAAAGGAAAAAGGA
1 AAAAAAAGAAAAA-GA
8167203 AAAAAAAGAAAAAGA
1 AAAAAAAGAAAAAGA
8167218 AAAA
1 AAAA
8167222 GAAAAGGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAGA
Found at i:8167708 original size:7 final size:7
Alignment explanation
Indices: 8167696--8167805 Score: 53
Period size: 7 Copynumber: 14.9 Consensus size: 7
8167686 TGGATCCACT
8167696 AAAAGAA
1 AAAAGAA
8167703 AAAAGAA
1 AAAAGAA
*
8167710 AAGATGAA
1 AA-AAGAA
*
8167718 AGAATGAA
1 A-AAAGAA
*
8167726 AAAGGAA
1 AAAAGAA
8167733 AAGTGAAGAA
1 AA---AAGAA
*
8167743 CAAGAGAA
1 -AAAAGAA
*
8167751 AAATGAA
1 AAAAGAA
8167758 AGAAAGAA
1 A-AAAGAA
*
8167766 GAAA-AA
1 AAAAGAA
*
8167772 AATA-AA
1 AAAAGAA
*
8167778 TAAAGAA
1 AAAAGAA
8167785 AAAAGAA
1 AAAAGAA
*
8167792 GAAAGAA
1 AAAAGAA
8167799 AAGAAGA
1 AA-AAGA
8167806 TAAACAAAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
6 8 0.10
7 40 0.51
8 24 0.30
9 1 0.01
10 4 0.05
11 2 0.03
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (7 bp):
AAAAGAA
Found at i:8167721 original size:19 final size:19
Alignment explanation
Indices: 8167697--8167805 Score: 66
Period size: 19 Copynumber: 5.6 Consensus size: 19
8167687 GGATCCACTA
8167697 AAAGAAAAAAGAAAAGATG
1 AAAGAAAAAAGAAAAGATG
8167716 AAAGAATGAAAAAGGAAAAG-TG
1 AAAG-A--AAAAA-GAAAAGATG
*
8167738 -AAGAACAAGAGAAAA-ATG
1 AAAGAA-AAAAGAAAAGATG
* *
8167756 AAAGAAAGAAGAAAAAAAT-
1 AAAGAAAAAAG-AAAAGATG
* * *
8167775 AAATAAAGAA-AAAAGAAG
1 AAAGAAAAAAGAAAAGATG
8167793 AAAGAAAAGAAGA
1 AAAGAAAA-AAGA
8167806 TAAACAAAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
17 5 0.07
18 17 0.24
19 27 0.39
20 5 0.07
21 3 0.04
22 7 0.10
23 6 0.09
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.06
Consensus pattern (19 bp):
AAAGAAAAAAGAAAAGATG
Found at i:8167766 original size:26 final size:23
Alignment explanation
Indices: 8167737--8167800 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 23
8167727 AAGGAAAAGT
8167737 GAAGAACAAGAGAAAAATGAAAGAAA
1 GAAGAA-AA-AGAAAAAT-AAAGAAA
8167763 GAAGAAAAA-AATAAATAAAGAAA
1 GAAGAAAAAGAA-AAATAAAGAAA
*
8167786 AAAGAAGAAAGAAAA
1 GAAGAA-AAAGAAAA
8167801 GAAGATAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.41
24 10 0.29
25 4 0.12
26 6 0.18
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (23 bp):
GAAGAAAAAGAAAAATAAAGAAA
Found at i:8167814 original size:26 final size:26
Alignment explanation
Indices: 8167696--8167814 Score: 77
Period size: 26 Copynumber: 4.7 Consensus size: 26
8167686 TGGATCCACT
*
8167696 AAAAGAAA-AAAG--AAAAGATGAAA
1 AAAAGAAATAAAGAAAAAAGAAGAAA
* * * ** *
8167719 GAATGAAA-AAGGAAAAGTGAAGAAC
1 AAAAGAAATAAAGAAAAAAGAAGAAA
* *
8167744 AAGAGAAA-AATGAAAGAAAGAAGAAA
1 AAAAGAAATAAAGAAA-AAAGAAGAAA
*
8167770 AAAATAAATAAAGAAAAAAGAAGAAA
1 AAAAGAAATAAAGAAAAAAGAAGAAA
*
8167796 GAAAAGAAGATAAACAAAA
1 -AAAAGAA-ATAAAGAAAA
8167815 GGGTGGAAAG
Statistics
Matches: 71, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
23 9 0.13
25 18 0.25
26 23 0.32
27 12 0.17
28 9 0.13
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (26 bp):
AAAAGAAATAAAGAAAAAAGAAGAAA
Found at i:8168760 original size:22 final size:22
Alignment explanation
Indices: 8168735--8168796 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
8168725 AGTTGGCATA
*
8168735 TAAGCCTAGATTAGCTAACATG
1 TAAGCCTAGATTAGCTAACACG
* *
8168757 TAAGTCC-AGATTAACTGACACG
1 TAAG-CCTAGATTAGCTAACACG
8168779 TAAG-CTCAGATTAGCTAA
1 TAAGCCT-AGATTAGCTAA
8168797 AAAATATACA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (22 bp):
TAAGCCTAGATTAGCTAACACG
Found at i:8168995 original size:32 final size:32
Alignment explanation
Indices: 8168959--8169323 Score: 102
Period size: 32 Copynumber: 11.7 Consensus size: 32
8168949 CTACCCATGT
8168959 TTTAAGCCCAGTTTAGTTGGCACCAATGAAAA
1 TTTAAGCCCAGTTTAGTTGGCACCAATGAAAA
* * * * * *
8168991 TTTAAACCCA-ATTATTTAGCACCCA-G--AT
1 TTTAAGCCCAGTTTAGTTGGCACCAATGAAAA
* ** * ** **
8169019 TTTAAGCCTAACTTAGCTAACACTTATGAAAA
1 TTTAAGCCCAGTTTAGTTGGCACCAATGAAAA
* * *
8169051 TTTGAGCCCACTTTAGTTTGCACCAAT-ACAAA
1 TTTAAGCCCAGTTTAGTTGGCACCAATGA-AAA
* ** ** * *
8169083 TTTAAGCCTAAATTAACTAGCACCCAAGGAAAA
1 TTTAAGCCCAGTTTAGTTGGCA-CCAATGAAAA
* * ** * *
8169116 TTTATGCCCAATACACTTGGCATCAAATGAAAA
1 TTTAAGCCCAGTTTAGTTGGCA-CCAATGAAAA
* * *
8169149 TTTAATCCTAGTTTAGCTGGCACCCAAT-AAGAA
1 TTTAAGCCCAGTTTAGTTGGCA-CCAATGAA-AA
* ** * *
8169182 TTTAAACCCAGTTTAACTGACACCTAAGGAAAA
1 TTTAAGCCCAGTTTAGTTGGCACC-AATGAAAA
*
8169215 TTTAAG-CC-----A---GGCACTCAAT-AAAT
1 TTTAAGCCCAGTTTAGTTGGCAC-CAATGAAAA
* * *
8169238 TTTAAGCCAAAG--TATTTGGTATCCAATGAAAA
1 TTTAAGCC-CAGTTTAGTTGGCA-CCAATGAAAA
* *
8169270 TTTAAGCTCAGTTTAGTTGGTACCAAT-AAAA
1 TTTAAGCCCAGTTTAGTTGGCACCAATGAAAA
*
8169301 TTTTAAGCCTAGTTTAGTTGGCA
1 -TTTAAGCCCAGTTTAGTTGGCA
8169324 TCCATGTTTT
Statistics
Matches: 238, Mismatches: 71, Indels: 48
0.67 0.20 0.13
Matches are distributed among these distances:
23 9 0.04
24 7 0.03
25 1 0.00
27 1 0.00
28 10 0.04
29 9 0.04
30 2 0.01
31 25 0.11
32 87 0.37
33 84 0.35
34 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (32 bp):
TTTAAGCCCAGTTTAGTTGGCACCAATGAAAA
Found at i:8169170 original size:33 final size:33
Alignment explanation
Indices: 8169133--8169219 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
8169123 CCAATACACT
* * * *
8169133 TGGCATCAAATGAAAATTTAATCCTAGTTTAGC
1 TGGCACCAAATGAAAATTTAAACCCAGTTTAAC
*
8169166 TGGCACCCAAT-AAGAATTTAAACCCAGTTTAAC
1 TGGCACCAAATGAA-AATTTAAACCCAGTTTAAC
* * *
8169199 TGACACCTAAGGAAAATTTAA
1 TGGCACCAAATGAAAATTTAA
8169220 GCCAGGCACT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 2 0.05
33 40 0.91
34 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (33 bp):
TGGCACCAAATGAAAATTTAAACCCAGTTTAAC
Found at i:8169516 original size:31 final size:31
Alignment explanation
Indices: 8169455--8169553 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 31
8169445 CCTAGATTAG
* * * * *
8169455 CGATCACGTCACTCGAGTTGTGGTTCAGTCT
1 CGATCACCTCATTCGACTTGTAGTTTAGTCT
8169486 CGATCACCTCATTCGACTTGTAGTTTAGTCT
1 CGATCACCTCATTCGACTTGTAGTTTAGTCT
* * * * * * *
8169517 CAATCACTTCATTTGACCTATAGTTTAATTT
1 CGATCACCTCATTCGACTTGTAGTTTAGTCT
8169548 CGATCA
1 CGATCA
8169554 TCCTTATATT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
CGATCACCTCATTCGACTTGTAGTTTAGTCT
Found at i:8169879 original size:14 final size:13
Alignment explanation
Indices: 8169858--8169958 Score: 62
Period size: 15 Copynumber: 7.2 Consensus size: 13
8169848 ACAAAAAACC
8169858 AAAT-TAAAAAAT
1 AAATATAAAAAAT
8169870 AAATAGTAAAAATAT
1 AAATA-TAAAAA-AT
8169885 AAAATATAAAATAAT
1 -AAATATAAAA-AAT
* *
8169900 AATAAATATAAATAT
1 AA-ATATA-AAAAAT
8169915 AAATATAAAAAAAT
1 AAATAT-AAAAAAT
** *
8169929 AGCTCGACAAAAAAT
1 AAAT--ATAAAAAAT
8169944 AAA-ATAAAAAAT
1 AAATATAAAAAAT
8169956 AAA
1 AAA
8169959 AAAATTGAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 15 0.22
14 18 0.26
15 26 0.38
16 10 0.14
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (13 bp):
AAATATAAAAAAT
Found at i:8169910 original size:6 final size:6
Alignment explanation
Indices: 8169879--8169923 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
8169869 TAAATAGTAA
8169879 AAATAT AAAATAT AAA-AT -AATAAT AAATAT AAATAT AAATAT AAA
1 AAATAT -AAATAT AAATAT AAAT-AT AAATAT AAATAT AAATAT AAA
8169924 AAAATAGCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
6 22 0.63
7 9 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:8169913 original size:10 final size:11
Alignment explanation
Indices: 8169879--8169929 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
8169869 TAAATAGTAA
8169879 AAATATAAAAT
1 AAATATAAAAT
*
8169890 ATAAAATAATAAT
1 A-AATATAA-AAT
8169903 AAATATAAATAT
1 AAATATAAA-AT
8169915 AAATATAAAA-
1 AAATATAAAAT
8169925 AAATA
1 AAATA
8169930 GCTCGACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 5 0.14
11 3 0.09
12 23 0.66
13 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:8170667 original size:158 final size:158
Alignment explanation
Indices: 8170454--8170772 Score: 410
Period size: 158 Copynumber: 2.0 Consensus size: 158
8170444 TATAGCTATG
*
8170454 TTTATAATGTAAACACCGCTAATAGGCATTTTTACACTCCTTAAAAAACCCTTAAAATGCTA-AA
1 TTTATAATGTAAACACCGCTAACAGGCATTTTTACACTCCTTAAAAAACCCTTAAAATGCTAGAA
* * * *
8170518 AGAAAGGATTGAACTTAGGACCTTAT-AGTTAATAGCCGTATGCTCTAACTAACTAAACTGCTTC
66 AG-AAGGATCGAACCTAGAACCTTATGA-TTAATAGCCGTATACTCTAACTAACTAAACTGC-TC
* *
8170582 TG-TATTTTTAGCAAAAAATTATTCAAGGCA
128 CGATATTTTTAGCAAAAAATTATGCAAGGCA
* * ** *
8170612 TTTATAATGTAAACACTGGTAACAGGTGTTTTTACACTTCTTAAAAAACCCTTAAAATGCTAGAA
1 TTTATAATGTAAACACCGCTAACAGGCATTTTTACACTCCTTAAAAAACCCTTAAAATGCTAGAA
* * * * *
8170677 AGAAGGATCGAACCTAGAACCTTATGATTAATAGCCTTATACTTTAACTTACTGAATTGCTCCGA
66 AGAAGGATCGAACCTAGAACCTTATGATTAATAGCCGTATACTCTAACTAACTAAACTGCTCCGA
* * *
8170742 TGTTTTTAGCTAAAGATTATGCAAGGCA
131 TATTTTTAGCAAAAAATTATGCAAGGCA
8170770 TTT
1 TTT
8170773 TTGACAAAAA
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
157 3 0.02
158 130 0.94
159 5 0.04
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (158 bp):
TTTATAATGTAAACACCGCTAACAGGCATTTTTACACTCCTTAAAAAACCCTTAAAATGCTAGAA
AGAAGGATCGAACCTAGAACCTTATGATTAATAGCCGTATACTCTAACTAACTAAACTGCTCCGA
TATTTTTAGCAAAAAATTATGCAAGGCA
Found at i:8173307 original size:20 final size:19
Alignment explanation
Indices: 8173284--8173326 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
8173274 ATTTAGCAGC
*
8173284 AAAAGGCAAAATAATAAAAA-
1 AAAAAGCAAAA-AA-AAAAAG
8173304 AAAAAGCAAAAAAAAAAAG
1 AAAAAGCAAAAAAAAAAAG
8173323 AAAA
1 AAAA
8173327 TGAAGGCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.81, C:0.05, G:0.09, T:0.05
Consensus pattern (19 bp):
AAAAAGCAAAAAAAAAAAG
Found at i:8177062 original size:35 final size:36
Alignment explanation
Indices: 8177010--8177080 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
8177000 ATCTAAATAC
8177010 TTATAAACTTTAGTTTGAAAAAATAAAGTA-TAAAA
1 TTATAAACTTTAGTTTGAAAAAATAAAGTATTAAAA
* *
8177045 TTATAAA-TTTTGATTTGAAAAAATATAGTATTAAAA
1 TTATAAACTTTAG-TTTGAAAAAATAAAGTATTAAAA
8177081 AAAATATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 4 0.12
35 23 0.72
36 5 0.16
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.38
Consensus pattern (36 bp):
TTATAAACTTTAGTTTGAAAAAATAAAGTATTAAAA
Found at i:8182525 original size:20 final size:20
Alignment explanation
Indices: 8182497--8182551 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 20
8182487 ATTAGGAACA
8182497 TTCAAAGATTCACAAAAGAG
1 TTCAAAGATTCACAAAAGAG
* *
8182517 TTTAAAGATT--CATAAGAG
1 TTCAAAGATTCACAAAAGAG
8182535 TTCAAAGATTCACAAAA
1 TTCAAAGATTCACAAAA
8182552 TTTTAAAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 16 0.55
20 13 0.45
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (20 bp):
TTCAAAGATTCACAAAAGAG
Found at i:8182535 original size:18 final size:18
Alignment explanation
Indices: 8182500--8182560 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
8182490 AGGAACATTC
8182500 AAAGATTCACAAAAGAGTTT
1 AAAGATTCAC--AAGAGTTT
* *
8182520 AAAGATTCATAAGAGTTC
1 AAAGATTCACAAGAGTTT
* *
8182538 AAAGATTCACAAAATTTT
1 AAAGATTCACAAGAGTTT
8182556 AAAGA
1 AAAGA
8182561 CTTACAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 26 0.74
20 9 0.26
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (18 bp):
AAAGATTCACAAGAGTTT
Found at i:8182610 original size:56 final size:58
Alignment explanation
Indices: 8182538--8182679 Score: 188
Period size: 56 Copynumber: 2.5 Consensus size: 58
8182528 ATAAGAGTTC
8182538 AAAGATTCAC-AA-AATTTTAAAGACTT-ACAAATGAAATTTCT-AAA-TTT-CAATTGT
1 AAAGATTCACAAATAATTTTAAAGA-TTCACAAATGAAATTT-TAAAATTTTGCAATTGT
* *
8182592 AAAGATTGACAAATAATTTCAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGT
1 AAAGATTCACAAATAATTTTAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGT
*
8182650 AATGATTCACAAATAATTTTGAAAGATTCA
1 AAAGATTCACAAATAATTTT-AAAGATTCA
8182680 TATTGAAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
54 9 0.12
55 5 0.07
56 26 0.34
57 3 0.04
58 24 0.32
59 9 0.12
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (58 bp):
AAAGATTCACAAATAATTTTAAAGATTCACAAATGAAATTTTAAAATTTTGCAATTGT
Found at i:8182785 original size:24 final size:22
Alignment explanation
Indices: 8182721--8182785 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 22
8182711 ATTCACATTC
8182721 AAAGATTCATATCTAAAAATTT
1 AAAGATTCATATCTAAAAATTT
* * *
8182743 AAAGATTCACATTTGAAAACTTTT
1 AAAGATTCATATCT-AAAA-ATTT
*
8182767 AAAGATTCATATCCAAAAA
1 AAAGATTCATATCTAAAAA
8182786 GAAAATTTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
22 12 0.35
23 8 0.24
24 14 0.41
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (22 bp):
AAAGATTCATATCTAAAAATTT
Done.