Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 32 of 106
Found at i:5973937 original size:12 final size:12
Alignment explanation
Indices: 5973903--5973960 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
5973893 CTATTGTCTT
5973903 AAATC-AAATAA
1 AAATCAAAATAA
5973914 ATAAT--AAA-AA
1 A-AATCAAAATAA
5973924 AAATCAAAATAA
1 AAATCAAAATAA
5973936 AAAT-AAGAATAA
1 AAATCAA-AATAA
*
5973948 GAATCAAAATAA
1 AAATCAAAATAA
5973960 A
1 A
5973961 TAAAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 9 0.23
12 22 0.56
13 2 0.05
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.17
Consensus pattern (12 bp):
AAATCAAAATAA
Found at i:5973952 original size:24 final size:22
Alignment explanation
Indices: 5973903--5973963 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 22
5973893 CTATTGTCTT
5973903 AAATC-AAATAAATAATAAAAA
1 AAATCAAAATAAATAATAAAAA
5973924 AAATCAAAATAAA-AATAAGAATA
1 AAATCAAAATAAATAATAA-AA-A
5973947 AGAATCAAAATAAATAA
1 A-AATCAAAATAAATAA
5973964 AATAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.29
22 9 0.26
23 2 0.06
24 12 0.34
25 2 0.06
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (22 bp):
AAATCAAAATAAATAATAAAAA
Found at i:5973968 original size:5 final size:5
Alignment explanation
Indices: 5973916--5973973 Score: 57
Period size: 6 Copynumber: 11.0 Consensus size: 5
5973906 TCAAATAAAT
5973916 AATAA AA-AA AATCAA AATAAA AATAA GAATAA GAATCAA AAT-A AATAA
1 AATAA AATAA AAT-AA AAT-AA AATAA -AATAA -AAT-AA AATAA AATAA
5973964 AATAA AATAA
1 AATAA AATAA
5973974 CAAACAATTG
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
4 8 0.17
5 15 0.32
6 22 0.47
7 2 0.04
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:5977027 original size:35 final size:35
Alignment explanation
Indices: 5976982--5977053 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
5976972 GGTACTTAGA
5976982 CTTATCACCAATTAGATTCAGTGTAACAGAATTAT
1 CTTATCACCAATTAGATTCAGTGTAACAGAATTAT
* *
5977017 CTTATTACCAATTAGATTCAGTGTAACAGAGTTAT
1 CTTATCACCAATTAGATTCAGTGTAACAGAATTAT
5977052 CT
1 CT
5977054 CAAATGTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (35 bp):
CTTATCACCAATTAGATTCAGTGTAACAGAATTAT
Found at i:5978958 original size:24 final size:26
Alignment explanation
Indices: 5978911--5978968 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
5978901 CTTTAAAAAA
*
5978911 AGTGATAATAATAAAATACGTTATTAT
1 AGTGATAATAATAAAATAC-TTATGAT
* *
5978938 ATTGATAA-AATTAAATA-TTATGAT
1 AGTGATAATAATAAAATACTTATGAT
5978962 AGTGATA
1 AGTGATA
5978969 TAAAAATCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
26 8 0.30
27 7 0.26
ACGTcount: A:0.48, C:0.02, G:0.12, T:0.38
Consensus pattern (26 bp):
AGTGATAATAATAAAATACTTATGAT
Found at i:5987225 original size:3 final size:3
Alignment explanation
Indices: 5987184--5987211 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5987174 TTTCGTTTCT
5987184 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5987212 AAACATTTAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5987898 original size:12 final size:12
Alignment explanation
Indices: 5987860--5987900 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
5987850 ATAAGAAAAT
*
5987860 AAATAACTTAGA
1 AAATAATTTAGA
5987872 AAA-AA-TTAGA
1 AAATAATTTAGA
*
5987882 AAATAATTTAAA
1 AAATAATTTAGA
5987894 AAATAAT
1 AAATAAT
5987901 ATATTTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 8 0.31
11 4 0.15
12 14 0.54
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (12 bp):
AAATAATTTAGA
Found at i:5988368 original size:17 final size:18
Alignment explanation
Indices: 5988339--5988379 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
5988329 AAATTTTTCA
*
5988339 TTTTTTCATTTTTTTTG-
1 TTTTTTCATTTTTATTGC
5988356 TTTTTTC-TCTTTTATTGC
1 TTTTTTCAT-TTTTATTGC
5988374 TTTTTT
1 TTTTTT
5988380 TGCATTTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.67
18 6 0.29
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTTTCATTTTTATTGC
Found at i:5989889 original size:3 final size:3
Alignment explanation
Indices: 5989881--5989923 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
5989871 TGGTATAATC
5989881 ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
5989924 GATAGTTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5993982 original size:19 final size:19
Alignment explanation
Indices: 5993954--5994003 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
5993944 GGATTTGGCT
*
5993954 TAGGGCTTAGGAATTCACC
1 TAGGGTTTAGGAATTCACC
** *
5993973 TAGGGTTTAGGGTTTCACT
1 TAGGGTTTAGGAATTCACC
*
5993992 TAGGATTTAGGA
1 TAGGGTTTAGGA
5994004 TTTTGTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.34
Consensus pattern (19 bp):
TAGGGTTTAGGAATTCACC
Found at i:5994167 original size:30 final size:32
Alignment explanation
Indices: 5994128--5994187 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
5994118 CAGACTTTCG
*
5994128 AAATAAATTCGTA-CTTTATA-ATTTTCCTAA
1 AAATAAATTCGTATATTTATATATTTTCCTAA
* *
5994158 AAATTAATTCTTATATTTATATATTTTCCT
1 AAATAAATTCGTATATTTATATATTTTCCT
5994188 TTTCATTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (32 bp):
AAATAAATTCGTATATTTATATATTTTCCTAA
Found at i:5995945 original size:2 final size:2
Alignment explanation
Indices: 5995932--5995961 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5995922 TGATCTTTGG
*
5995932 AT AT AT AA 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
5995962 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5996053 original size:33 final size:33
Alignment explanation
Indices: 5995982--5996054 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
5995972 ATTAATACTA
* *
5995982 TTATA-TTATTATTTTTATATATTTTATATGTT
1 TTATATTTATTATTTTTATATATTTAAAATGTT
* * *
5996014 TCATATTTATTATTATTT-TTTATTTAAAATTTT
1 TTATATTTATTATT-TTTATATATTTAAAATGTT
5996047 TTATATTT
1 TTATATTT
5996055 TAATAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 4 0.12
33 26 0.79
34 3 0.09
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (33 bp):
TTATATTTATTATTTTTATATATTTAAAATGTT
Found at i:5996100 original size:17 final size:17
Alignment explanation
Indices: 5995967--5996102 Score: 52
Period size: 17 Copynumber: 8.0 Consensus size: 17
5995957 TATATTAAAA
*
5995967 ATATTATTAATACTATT
1 ATATTATTATTACTATT
**
5995984 ATATTATTATTTTTATAT
1 ATATTATTATTACTAT-T
* * *
5996002 ATTTTATATGTTTCATATT
1 ATATTAT-TATTAC-TATT
*
5996021 -TATTATTATT--TTTT
1 ATATTATTATTACTATT
** *
5996035 AT-TTAAAATT--TTTT
1 ATATTATTATTACTATT
* *
5996049 ATATT-TTAATAATATT
1 ATATTATTATTACTATT
5996065 ATTATTATCATATTTACTATT
1 A-TATTAT--TA-TTACTATT
5996086 ATATTATTATTACTATT
1 ATATTATTATTACTATT
5996103 TTTGAATTTA
Statistics
Matches: 90, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
14 17 0.19
15 3 0.03
16 4 0.04
17 28 0.31
18 15 0.17
19 5 0.06
20 11 0.12
21 7 0.08
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (17 bp):
ATATTATTATTACTATT
Found at i:5997044 original size:21 final size:17
Alignment explanation
Indices: 5997000--5997033 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5996990 GATGGTGATT
5997000 CTTTAAGGAATAAGCTC
1 CTTTAAGGAATAAGCTC
5997017 CTTTAAGGAATAAGCTC
1 CTTTAAGGAATAAGCTC
5997034 TTCGATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (17 bp):
CTTTAAGGAATAAGCTC
Found at i:5997467 original size:20 final size:21
Alignment explanation
Indices: 5997430--5997468 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5997420 TGAATCTTTC
* *
5997430 TTTTTTTTTTGTATTTTTGAG
1 TTTTTTTTTTGCACTTTTGAG
5997451 TTTTTTTTTT-CACTTTTG
1 TTTTTTTTTTGCACTTTTG
5997469 GAAAATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.08, C:0.05, G:0.10, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTGCACTTTTGAG
Found at i:6001163 original size:15 final size:14
Alignment explanation
Indices: 6001140--6001179 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
6001130 AACTGAGAAC
6001140 ATAATTAAAAAATA
1 ATAATTAAAAAATA
6001154 ATATATT-AAAAATA
1 ATA-ATTAAAAAATA
*
6001168 ATAAATAAAAAA
1 ATAATTAAAAAA
6001180 AAACCTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAATTAAAAAATA
Found at i:6002704 original size:21 final size:21
Alignment explanation
Indices: 6002678--6002718 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6002668 GACAAAATTA
6002678 ATTATTATAGTAATAAGATTG
1 ATTATTATAGTAATAAGATTG
*
6002699 ATTATTATAGTAATGAGATT
1 ATTATTATAGTAATAAGATT
6002719 AAAATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
ATTATTATAGTAATAAGATTG
Found at i:6003099 original size:24 final size:25
Alignment explanation
Indices: 6003063--6003109 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
6003053 ACAACAATAT
6003063 TTTTAGTTCATAATGTA-ATAATACA
1 TTTTAGTTCATAAT-TATATAATACA
*
6003088 TTTTA-TTTATAATTATATAATA
1 TTTTAGTTCATAATTATATAATA
6003110 TTTATTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.65
25 5 0.25
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTTAGTTCATAATTATATAATACA
Found at i:6003350 original size:12 final size:12
Alignment explanation
Indices: 6003333--6003358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6003323 GAGTAAAAAA
6003333 ATGACCCTAACT
1 ATGACCCTAACT
6003345 ATGACCCTAACT
1 ATGACCCTAACT
6003357 AT
1 AT
6003359 AAAGCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (12 bp):
ATGACCCTAACT
Found at i:6007331 original size:144 final size:142
Alignment explanation
Indices: 6007086--6007495 Score: 412
Period size: 144 Copynumber: 2.8 Consensus size: 142
6007076 ATTGTATTGG
* ** * * *
6007086 GAAAATGTGAAATTACTAAAATACCCCTATAAGGGTATTCTTGTAATTTAACTTTTTCGAGCTTT
1 GAAAATGTGAAATTACCAAAATA-CCCTATAAGGGTATTCTCATAATTTGAC-CTTTCGAGCTTG
*
6007151 AATTTTCATGAAATTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTGCATTTGAAAT
64 AATTTTCATGAAACTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTGCATTTGAAAT
* *
6007216 TATAGTTA-TACCCT-
129 CATAG-CAGTA-CCTA
* ** * *
6007230 GAAAGTGTGAAATTACCAAAATATAACTATAAAGGTATTGTCATAATTTGACCTTCTCGAGCTTG
1 GAAAATGTGAAATTACCAAAATA-CCCTATAAGGGTATTCTCATAATTTGACCTT-TCGAGCTTG
* * * * * * *
6007295 AATTTTTAT-AAAGCTTTTCAAATCTTAATTTCATAATATTTCATTATTTTTTAGTGTATTTGAA
64 AATTTTCATGAAA-CTTTTCATATCTTAATTTTATAATATTTTATGA-TTTTTGGTGCATTTGAA
6007359 ATCATAGCAGTACCTAA
127 ATCATAGCAGTACCT-A
* * ** * * *
6007376 AAAAATATGAAATTATGAAAATACCCTTGTAAGGGTATTTTCATAATTTGACCTTTCCGAGCTCG
1 GAAAATGTGAAATTACCAAAATACCC-TATAAGGGTATTCTCATAATTTGACCTTT-CGAGCTTG
* * * *
6007441 GACTTTCATGAAACTCTTCATATATTAATTTTATAATATTTTATGATTTTTGGTG
64 AATTTTCATGAAACTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTG
6007496 TTTTAAAATC
Statistics
Matches: 214, Mismatches: 43, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
143 5 0.02
144 90 0.42
145 33 0.15
146 83 0.39
147 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (142 bp):
GAAAATGTGAAATTACCAAAATACCCTATAAGGGTATTCTCATAATTTGACCTTTCGAGCTTGAA
TTTTCATGAAACTTTTCATATCTTAATTTTATAATATTTTATGATTTTTGGTGCATTTGAAATCA
TAGCAGTACCTA
Found at i:6008186 original size:64 final size:64
Alignment explanation
Indices: 6008075--6008198 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
6008065 GAGGAAGCTA
* * *
6008075 CCACTACATACTAGTTTTCTTGTATGTTTACTGCCTTCACCACTATTGCATACTAGTTTTGCTG
1 CCACTACATACCAATTTTCTTGTATGTTTACTACCTTCACCACTATTGCATACTAGTTTTGCTG
* * * *
6008139 CCACTGCATACCAATTTTCTTTTATGTTTGCTACCTTTACC-CTTATTGCATACTAGTTTT
1 CCACTACATACCAATTTTCTTGTATGTTTACTACCTTCACCAC-TATTGCATACTAGTTTT
6008199 CTTTTATGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 51 0.98
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (64 bp):
CCACTACATACCAATTTTCTTGTATGTTTACTACCTTCACCACTATTGCATACTAGTTTTGCTG
Found at i:6008202 original size:42 final size:42
Alignment explanation
Indices: 6008143--6008239 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
6008133 TTGCTGCCAC
* * *
6008143 TGCATACCAATTTTCTTTTATGTTTGCTACCTTTACCCTTAT
1 TGCATACTAGTTTTCTTTTATGTTTGCTACCTTCACCCTTAT
6008185 TGCATACTAGTTTTCTTTTATGTTTGCTACCTTCACCCTTAT
1 TGCATACTAGTTTTCTTTTATGTTTGCTACCTTCACCCTTAT
* *
6008227 TGCAAACTGGTTT
1 TGCATACTAGTTT
6008240 CACTGCCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.19, C:0.23, G:0.10, T:0.48
Consensus pattern (42 bp):
TGCATACTAGTTTTCTTTTATGTTTGCTACCTTCACCCTTAT
Found at i:6011435 original size:70 final size:70
Alignment explanation
Indices: 6011349--6011485 Score: 265
Period size: 70 Copynumber: 2.0 Consensus size: 70
6011339 AGAACTTTTT
6011349 AGATGTATAAATTCTCACTCAGAATATCGTGAATTCTAGGAGACCAGCTTTAGGTAGAACCATGC
1 AGATGTATAAATTCTCACTCAGAATATCGTGAATTCTAGGAGACCAGCTTTAGGTAGAACCATGC
6011414 CAGCA
66 CAGCA
*
6011419 AGATGTATAAATTCTCACTCAGAATATCGTGAATTCTAGGAGACCAGCTTTAGGTATAACCATGC
1 AGATGTATAAATTCTCACTCAGAATATCGTGAATTCTAGGAGACCAGCTTTAGGTAGAACCATGC
6011484 CA
66 CA
6011486 ATCCTTTTTA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (70 bp):
AGATGTATAAATTCTCACTCAGAATATCGTGAATTCTAGGAGACCAGCTTTAGGTAGAACCATGC
CAGCA
Found at i:6012204 original size:30 final size:30
Alignment explanation
Indices: 6012168--6012226 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
6012158 GTAGTGCATG
6012168 CACATCAATGGATAGTACATGCATCCCATC
1 CACATCAATGGATAGTACATGCATCCCATC
*
6012198 CACATCAATGGATAGTACATGCATTCCAT
1 CACATCAATGGATAGTACATGCATCCCAT
6012227 GTTATGCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (30 bp):
CACATCAATGGATAGTACATGCATCCCATC
Found at i:6012283 original size:120 final size:120
Alignment explanation
Indices: 6012070--6012290 Score: 417
Period size: 120 Copynumber: 1.8 Consensus size: 120
6012060 CATGCATTGT
*
6012070 ATCCCATCCATATCAATGGATAGTACATGCATTCCATGTTATGCACATGTTGATAAATGATACAT
1 ATCCCATCCACATCAATGGATAGTACATGCATTCCATGTTATGCACATGTTGATAAATGATACAT
6012135 GCCTCATGTGTATGTCTTAATAGGTAGTGCATGCACATCAATGGATAGTACATGC
66 GCCTCATGTGTATGTCTTAATAGGTAGTGCATGCACATCAATGGATAGTACATGC
6012190 ATCCCATCCACATCAATGGATAGTACATGCATTCCATGTTATGCACATGTTGATAAATGATACAT
1 ATCCCATCCACATCAATGGATAGTACATGCATTCCATGTTATGCACATGTTGATAAATGATACAT
6012255 GCCT-ACTGTGTATGTCTTAATAGGTAGTGCATGCAC
66 GCCTCA-TGTGTATGTCTTAATAGGTAGTGCATGCAC
6012291 TCTATTTCAT
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
119 1 0.01
120 98 0.99
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (120 bp):
ATCCCATCCACATCAATGGATAGTACATGCATTCCATGTTATGCACATGTTGATAAATGATACAT
GCCTCATGTGTATGTCTTAATAGGTAGTGCATGCACATCAATGGATAGTACATGC
Found at i:6016924 original size:6 final size:6
Alignment explanation
Indices: 6016896--6016955 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
6016886 GGTTGTAACA
* * * *
6016896 AAAAAT AAAGAAT AAAAAC AAAAAT AAAAAT AAAAA- CAAAAT GAAAAC
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
6016944 AAAAAC AAAAAT
1 AAAAAT AAAAAT
6016956 GAGCTTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
5 4 0.09
6 35 0.78
7 6 0.13
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:6016927 original size:18 final size:18
Alignment explanation
Indices: 6016896--6016955 Score: 86
Period size: 17 Copynumber: 3.3 Consensus size: 18
6016886 GGTTGTAACA
6016896 AAAAATAAAGAATAAAAAC
1 AAAAATAAA-AATAAAAAC
6016915 AAAAATAAAAATAAAAAC
1 AAAAATAAAAATAAAAAC
* *
6016933 -AAAATGAAAACAAAAAC
1 AAAAATAAAAATAAAAAC
6016950 AAAAAT
1 AAAAAT
6016956 GAGCTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.39
18 14 0.37
19 9 0.24
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (18 bp):
AAAAATAAAAATAAAAAC
Found at i:6017774 original size:10 final size:10
Alignment explanation
Indices: 6017745--6017806 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
6017735 TCTATTCAAC
6017745 TAAAAAAAAA
1 TAAAAAAAAA
*
6017755 CT-TAAAAAAA
1 -TAAAAAAAAA
*
6017765 TAAAATAAAA
1 TAAAAAAAAA
6017775 TAAAATAAAAA
1 TAAAA-AAAAA
*
6017786 -ATAAAAAAA
1 TAAAAAAAAA
6017795 TGAAAAAAAAA
1 T-AAAAAAAAA
6017806 T
1 T
6017807 GAAAGGAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
9 6 0.15
10 21 0.51
11 14 0.34
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:6017800 original size:9 final size:8
Alignment explanation
Indices: 6017757--6017803 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
6017747 AAAAAAAACT
6017757 TAAAAAAA
1 TAAAAAAA
*
6017765 TAAAATAA
1 TAAAAAAA
*
6017773 -AATAAAA
1 TAAAAAAA
6017780 T-AAAAAA
1 TAAAAAAA
6017787 TAAAAAAA
1 TAAAAAAA
6017795 TGAAAAAAA
1 T-AAAAAAA
6017804 AATGAAAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
7 11 0.34
8 14 0.44
9 7 0.22
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:6017897 original size:28 final size:24
Alignment explanation
Indices: 6017833--6017881 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6017823 AAGAATAAAA
6017833 TAAAGAAAAATAAAGATGAATGGG
1 TAAAGAAAAATAAAGATGAATGGG
6017857 TAAAGAAAAATAAAGATGAATGGG
1 TAAAGAAAAATAAAGATGAATGGG
6017881 T
1 T
6017882 GGAAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.24, T:0.18
Consensus pattern (24 bp):
TAAAGAAAAATAAAGATGAATGGG
Found at i:6019320 original size:83 final size:84
Alignment explanation
Indices: 6019224--6019418 Score: 329
Period size: 84 Copynumber: 2.3 Consensus size: 84
6019214 TCACATTTGT
* * *
6019224 ATCATGAGAAAGACATTTACATCTACATCATA-AAAAAAGAGGACATTGACATTTGCATCACTCA
1 ATCATGAGAAAGACATTTGCATCTACATCATATAAAAAAGAGGACAATCACATTTGCATCACTCA
*
6019288 CATTCGTACTTACATGTGC
66 CATTCATACTTACATGTGC
6019307 ATCATGAGAAAGACATTTGCATCTACATCATATAAAAAAGAGGACAATCACATTTGCATCACTCA
1 ATCATGAGAAAGACATTTGCATCTACATCATATAAAAAAGAGGACAATCACATTTGCATCACTCA
6019372 CATTCATACTTACATGTGC
66 CATTCATACTTACATGTGC
* *
6019391 ATCATGAGAAAAACATTTGCATTTACAT
1 ATCATGAGAAAGACATTTGCATCTACAT
6019419 TTACATTGCT
Statistics
Matches: 105, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 31 0.30
84 74 0.70
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (84 bp):
ATCATGAGAAAGACATTTGCATCTACATCATATAAAAAAGAGGACAATCACATTTGCATCACTCA
CATTCATACTTACATGTGC
Found at i:6019571 original size:105 final size:99
Alignment explanation
Indices: 6019354--6019579 Score: 272
Period size: 99 Copynumber: 2.2 Consensus size: 99
6019344 AAGAGGACAA
** *
6019354 TCACATTTGCATCACTCACATTCATACTTACATGTGCATCATGAGAAAAACATTTGCATTTACAT
1 TCACATTTGCATCACTTGCATTCACACTTACATGTGCATCATGAGAAAAACATTTGCATTTACAT
** ** *
6019419 TTACATTGCTTGCATCTGCATCAAAAAAGGATAT
66 TTACATCACTTGCATCTGCATCAAAAAAAAAAAT
* * * * *
6019453 TCGCATTTGCATCACTTGTATTCACACTTACGTGTGCATCATGAGCAAGACATTTGCATTCACAT
1 TCACATTTGCATCACTTGCATTCACACTTACATGTGCATCATGAGAAAAACATTTGCATT----T
*
6019518 ATGCATTTGCATCACTTGCATCTGCATCAAAAAAAAAAAT
62 A--CATTTACATCACTTGCATCTGCATCAAAAAAAAAAAT
6019558 TCACATTTGCATCACTTGCATT
1 TCACATTTGCATCACTTGCATT
6019580 TGCAACACAA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
99 52 0.50
103 2 0.02
105 51 0.49
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (99 bp):
TCACATTTGCATCACTTGCATTCACACTTACATGTGCATCATGAGAAAAACATTTGCATTTACAT
TTACATCACTTGCATCTGCATCAAAAAAAAAAAT
Found at i:6019609 original size:43 final size:40
Alignment explanation
Indices: 6019521--6019622 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
6019511 TTCACATATG
* *
6019521 CATTTGCATCACTTGCATCTGCATCAAAAAAAAAAATTCA
1 CATTTGCATCACTTGCATTTGCAACAAAAAAAAAAATTCA
*
6019561 CATTTGCATCACTTGCATTTGCAACACAAAAAAAAGATATTCG
1 CATTTGCATCACTTGCATTTGCAACA-AAAAAAAA-A-ATTCA
* * *
6019604 TATTTGTATCATTTGCATT
1 CATTTGCATCACTTGCATT
6019623 CTCACTTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 24 0.45
41 8 0.15
42 1 0.02
43 20 0.38
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (40 bp):
CATTTGCATCACTTGCATTTGCAACAAAAAAAAAAATTCA
Found at i:6019768 original size:132 final size:126
Alignment explanation
Indices: 6019626--6019874 Score: 300
Period size: 132 Copynumber: 1.9 Consensus size: 126
6019616 TTGCATTCTC
** * *
6019626 ACTTGCATATGCATCAAGAGAAAGACATTTGCTTTTAGCTTTACATCATAAAGAAAAAAAAAGAA
1 ACTTGCATATGCATCAAGAGAAAGACATTTGCACTCAACTTTACATC----A-AAAAAAAAAGAA
* * **
6019691 ATTTACATTTTCGTTGCTTGCATCTACATTAAAAAGGGACATTCACATTTGCAGCATTCATATTC
61 ATTTACATTTGCGTTGCTTGCAT-TACATCAAAAAAAGACATTCACATTTGCAGCATTCATATTC
6019756 AT
125 AT
* * * * *
6019758 ACTTGTATATGTATCATGAGAAAGACATTTGCACTCAACTTTACATCACAAAAAAAAGACATTTA
1 ACTTGCATATGCATCAAGAGAAAGACATTTGCACTCAACTTTACATCAAAAAAAAAAGAAATTTA
* * *
6019823 CATTTGCTTTGCTTGCATTGCATCAAAAAAAGACATTCACATTTGCATCATT
66 CATTTGCGTTGCTTGCATTACATCAAAAAAAGACATTCACATTTGCAGCATT
6019875 TGCATTCCCA
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
126 29 0.29
127 31 0.31
128 1 0.01
132 40 0.40
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (126 bp):
ACTTGCATATGCATCAAGAGAAAGACATTTGCACTCAACTTTACATCAAAAAAAAAAGAAATTTA
CATTTGCGTTGCTTGCATTACATCAAAAAAAGACATTCACATTTGCAGCATTCATATTCAT
Found at i:6020050 original size:41 final size:41
Alignment explanation
Indices: 6019999--6020129 Score: 154
Period size: 41 Copynumber: 3.2 Consensus size: 41
6019989 TTTGCATTCA
* **
6019999 CATCTACATCACAAAAAAGACATTTGCATTTGCATCGGTTG
1 CATCTGCATCACAAAAAAGACATTTGCATTTGCATCACTTG
* *
6020040 CATCTGCATCACAAGAAAGACATTTGTATTTGCATCACTTG
1 CATCTGCATCACAAAAAAGACATTTGCATTTGCATCACTTG
* * * ** *
6020081 CATTTGCCTCACAACAAAGACATTCACATTTACATCACTTG
1 CATCTGCATCACAAAAAAGACATTTGCATTTGCATCACTTG
*
6020122 CATTTGCA
1 CATCTGCA
6020130 CTTGTATAAG
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (41 bp):
CATCTGCATCACAAAAAAGACATTTGCATTTGCATCACTTG
Found at i:6020386 original size:14 final size:15
Alignment explanation
Indices: 6020367--6020405 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
6020357 TAAATATTAG
6020367 AGAAAAAAAGGA-AA
1 AGAAAAAAAGGATAA
* *
6020381 AGAAAAAAAAGATAG
1 AGAAAAAAAGGATAA
6020396 AGAAAAAAAG
1 AGAAAAAAAG
6020406 TTTATCATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AGAAAAAAAGGATAA
Found at i:6020768 original size:105 final size:104
Alignment explanation
Indices: 6020586--6021103 Score: 558
Period size: 105 Copynumber: 4.9 Consensus size: 104
6020576 GCACCCAGAT
* * *
6020586 ATAATCTCCAAGACC-TCCGAGCAAATCATTTTAAATTTTTAAAATTTCAATGCCTTTTATTGGA
1 ATAATCTCCAAGACCTTCAG-GCAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATTGGA
* * * * *
6020650 AGAAGCATTCAAAGATATCAAAATTTGTAAGACCTCCAAAC
65 AG-AGCATTCAAAGATGTCGAGATTTGTAAGACCTCTAAGC
* * *
6020691 ATAATCTCCAAGACCTCCAGGCTAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTAATTAGGA
1 ATAATCTCCAAGACCTTCAGGCAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATT-GGA
* * * *
6020756 AGAGCATTCAAAGATTTTGAGATTTATAAGACCTCTAACC
65 AGAGCATTCAAAGATGTCGAGATTTGTAAGACCTCTAAGC
* * ** *
6020796 ATAATCAT-CAAAACTTTCAGATAAACCATTTTAATTTTTTAAAGTTTCAATG-CTTCTTATTGG
1 ATAATC-TCCAAGACCTTCAGGCAAACCATTTTAAATTTTTAAAGTTTCAATGCCTT-TTATT-G
* * *
6020859 GAAGAGCATTCAAAGATGTC-AAATTTGTAAAACCTTTAAGC
63 GAAGAGCATTCAAAGATGTCGAGATTTGTAAGACCTCTAAGC
* * * * *
6020900 ATAATCTCCAAGGCCTTCAAGCAAACCACTTTAAATTTTTAAAGCTACAATGCCTTTTATTGGAA
1 ATAATCTCCAAGACCTTCAGGCAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATTGGAA
* * * * **
6020965 TAAGCATTCAAAGATGTCGGGATTTGCACGACCTCTGGGC
66 -GAGCATTCAAAGATGTCGAGATTTGTAAGACCTCTAAGC
* * * * *
6021005 ATAATCTCCATGACCTTAAGGCAAACTATTTTAAATGTTTAAAGTTTCAATGCCTTTGATTAGGA
1 ATAATCTCCAAGACCTTCAGGCAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATT-GGA
* * *
6021070 AGAGCATTCATAGATTTTGAGATTTGTAAGACCT
65 AGAGCATTCAAAGATGTCGAGATTTGTAAGACCT
6021104 TTGGGTAAAC
Statistics
Matches: 339, Mismatches: 65, Indels: 18
0.80 0.15 0.04
Matches are distributed among these distances:
103 5 0.01
104 80 0.24
105 242 0.71
106 12 0.04
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (104 bp):
ATAATCTCCAAGACCTTCAGGCAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATTGGAA
GAGCATTCAAAGATGTCGAGATTTGTAAGACCTCTAAGC
Found at i:6021000 original size:209 final size:209
Alignment explanation
Indices: 6020607--6021084 Score: 550
Period size: 209 Copynumber: 2.3 Consensus size: 209
6020597 GACCTCCGAG
* *
6020607 CAAATCATTTTAAATTTTTAAAATTTCAATGCCTTTTATTGGAAGAAGCATTCAAAGATATCAAA
1 CAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATTGGAAG-AGCATTCAAAGATATCAAA
* * * * *
6020672 ATTTGTAAGACCTCCAAACATAATCTCCAAGACCTCCAGGCTAACCATTTTAAATTTTTAAAGTT
65 ATTTGTAAAACCTCCAAACATAATCTCCAAGACCTCCAAGCAAACCACTTTAAATTTTTAAAGCT
* * * * *
6020737 TCAATGCCTTTAATTAGGAAGAGCATTCAAAGATTTTGAGATTTATAAGACCTCTAACCATAATC
130 ACAATGCCTTTAATTAGGAAAAGCATTCAAAGATGTCGAGATTTACAAGACCTCTAACCATAATC
* *
6020802 AT-CAAAACTTTCAGA
195 -TCCAAAACCTTAAGA
* * *
6020817 TAAACCATTTTAATTTTTTAAAGTTTCAATG-CTTCTTATTGGGAAGAGCATTCAAAGATGTC-A
1 CAAACCATTTTAAATTTTTAAAGTTTCAATGCCTT-TTATT-GGAAGAGCATTCAAAGATATCAA
** * * *
6020880 AATTTGTAAAACCTTTAAGCATAATCTCCAAGGCCTTCAAGCAAACCACTTTAAATTTTTAAAGC
64 AATTTGTAAAACCTCCAAACATAATCTCCAAGACCTCCAAGCAAACCACTTTAAATTTTTAAAGC
* * * * ***
6020945 TACAATGCCTTTTATT-GGAATAAGCATTCAAAGATGTCGGGATTTGCACGACCTCTGGGCATAA
129 TACAATGCCTTTAATTAGGAA-AAGCATTCAAAGATGTCGAGATTTACAAGACCTCTAACCATAA
** *
6021009 TCTCCATGACCTTAAGG
193 TCTCCAAAACCTTAAGA
* * * *
6021026 CAAACTATTTTAAATGTTTAAAGTTTCAATGCCTTTGATTAGGAAGAGCATTCATAGAT
1 CAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATT-GGAAGAGCATTCAAAGAT
6021085 TTTGAGATTT
Statistics
Matches: 224, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
208 5 0.02
209 164 0.73
210 50 0.22
211 5 0.02
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (209 bp):
CAAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATTGGAAGAGCATTCAAAGATATCAAAA
TTTGTAAAACCTCCAAACATAATCTCCAAGACCTCCAAGCAAACCACTTTAAATTTTTAAAGCTA
CAATGCCTTTAATTAGGAAAAGCATTCAAAGATGTCGAGATTTACAAGACCTCTAACCATAATCT
CCAAAACCTTAAGA
Found at i:6021173 original size:83 final size:83
Alignment explanation
Indices: 6021027--6021186 Score: 207
Period size: 83 Copynumber: 1.9 Consensus size: 83
6021017 ACCTTAAGGC
* * * * * *
6021027 AAACTATTTTAAATGTTTAAAGTTTCAATGCCTTTGATTAGGAAGAGCATTCATAGATTTTGAGA
1 AAACTATTTTAAATGTTTAAAATCTCAATGCCTTTGATTAGGAAGAACATTCAAAAATATTGAGA
6021092 TTTGTAAGACCTTTGGGT
66 TTTGTAAGACCTTTGGGT
* * *
6021110 AAACTATTTTAAATTTTTAAAATCTCAATGCCTCTT-ATT-GGGAGAAACATTTAAAAATATTGA
1 AAACTATTTTAAATGTTTAAAATCTCAATGCCT-TTGATTAGGAAG-AACATTCAAAAATATTGA
6021173 GATTTGTAAGACCT
64 GATTTGTAAGACCT
6021187 CTGAGCATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 4 0.06
83 60 0.91
84 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (83 bp):
AAACTATTTTAAATGTTTAAAATCTCAATGCCTTTGATTAGGAAGAACATTCAAAAATATTGAGA
TTTGTAAGACCTTTGGGT
Found at i:6022234 original size:143 final size:140
Alignment explanation
Indices: 6021838--6022241 Score: 352
Period size: 146 Copynumber: 2.8 Consensus size: 140
6021828 TGCATTGGGA
* * *
6021838 AAAATGTGAAATTACCAAAATAACCC-TATAAGGGTATTCTTGTAATTT-AGCTTTTTCGAGCTC
1 AAAATATGAAATTACCAAAAT-ACCCTTATAAAGGTATT-TTGTAATTTGA-CCTTTT-GAGCTC
* * *
6021901 AAATTTTCATGAAATTTTTTACATCTTAATTTCATAATATTTCATGAA-TTTTGGTGCATTTGAA
62 GAATTTTCATGAAACTTTTTAAATCTTAATTTCATAATATTTCAT-AATTTTTGGT-CATTTGAA
***
6021965 ATCATAGTTGTACCCC
125 ATCATAACAGTACCCC
* * * * ** *
6021981 AAAA-AGTGTAAAATTATCAAAATATCCTTATAATGGTATTTTTTATAATTTGACCTTTCCAACC
1 AAAATA-TG--AAATTACCAAAATACCCTTATAAAGGTA--TTTTGTAATTTGACCTTT-TGAGC
* * *
6022045 TCGGATTTTCATGAAACTTTATAAATCTTAATTTCATAATACTTCATAATTTTTAAGGT-ATTTG
60 TCGAATTTTCATGAAACTTTTTAAATCTTAATTTCATAATATTTCATAATTTTT--GGTCATTTG
*
6022109 AAA-CTATAACAGTACCTC
123 AAATC-ATAACAGTACCCC
*
6022127 AAAATATGAAATTACCAAAATACCCTTATAAAGGTATTTTCGTAATTTGATCTTATTGAGCTCGA
1 AAAATATGAAATTACCAAAATACCCTTATAAAGGTATTTT-GTAATTTGACCTT-TTGAGCTCGA
** * * * ** *
6022192 ATTGACATGAAACTTTTTAGATCTCACTTTTGTAATATTTCATGATTTTT
64 ATTTTCATGAAACTTTTTAAATCTTAATTTCATAATATTTCATAATTTTT
6022242 TATATTTTAA
Statistics
Matches: 208, Mismatches: 38, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
142 4 0.02
143 62 0.30
144 29 0.14
145 24 0.12
146 82 0.39
147 4 0.02
148 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (140 bp):
AAAATATGAAATTACCAAAATACCCTTATAAAGGTATTTTGTAATTTGACCTTTTGAGCTCGAAT
TTTCATGAAACTTTTTAAATCTTAATTTCATAATATTTCATAATTTTTGGTCATTTGAAATCATA
ACAGTACCCC
Found at i:6022685 original size:17 final size:18
Alignment explanation
Indices: 6022647--6022685 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
6022637 ACTAGTGGAG
6022647 AAAAGAAAGAGATGGAAA
1 AAAAGAAAGAGATGGAAA
6022665 AAAAGAATA-AGA-GGAAA
1 AAAAGAA-AGAGATGGAAA
6022682 AAAA
1 AAAA
6022686 CAACTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (18 bp):
AAAAGAAAGAGATGGAAA
Found at i:6022979 original size:21 final size:21
Alignment explanation
Indices: 6022955--6023001 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
6022945 TTTATTTTAT
*
6022955 GTTTGCTACCACTACATATTG
1 GTTTACTACCACTACATATTG
* *
6022976 GTTTTACTACCATTGCATATTG
1 G-TTTACTACCACTACATATTG
6022998 GTTT
1 GTTT
6023002 TCTTTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (21 bp):
GTTTACTACCACTACATATTG
Found at i:6022985 original size:22 final size:22
Alignment explanation
Indices: 6022960--6023002 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6022950 TTTATGTTTG
6022960 CTACCACTACATATTGGTTTTA
1 CTACCACTACATATTGGTTTTA
* *
6022982 CTACCATTGCATATTGGTTTT
1 CTACCACTACATATTGGTTTT
6023003 CTTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (22 bp):
CTACCACTACATATTGGTTTTA
Found at i:6033288 original size:34 final size:34
Alignment explanation
Indices: 6033184--6033288 Score: 113
Period size: 34 Copynumber: 3.0 Consensus size: 34
6033174 TGATTTGAGA
* *
6033184 TGAAAAGTTTTAAAAGCTTTTGGATATTTGTAAATT
1 TGAAAACTTTTAAAAG-TTTTCGA-ATTTGTAAATT
* * * *
6033220 CGAAGATTTTTAAAA-TCTTCTGAATTTGTAAATT
1 TGAAAACTTTTAAAAGTTTTC-GAATTTGTAAATT
*
6033254 TGAAAACTTTAAAAAGTTTTCGAATTTGTAAATT
1 TGAAAACTTTTAAAAGTTTTCGAATTTGTAAATT
6033288 T
1 T
6033289 AGAAGCTTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
34 39 0.68
35 6 0.11
36 12 0.21
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (34 bp):
TGAAAACTTTTAAAAGTTTTCGAATTTGTAAATT
Found at i:6034266 original size:29 final size:29
Alignment explanation
Indices: 6034206--6034268 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
6034196 TATTCATATG
* * *
6034206 AAATTTGAAATTTAATCCCTTTACTCACA
1 AAATTTGAAATTTAATCCCTCTAATCAAA
* *
6034235 AAATTTGAAATTTAATTCCTCTAATATAAA
1 AAATTTGAAATTTAATCCCTCTAAT-CAAA
6034265 AAAT
1 AAAT
6034269 ATTTTAAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.38
Consensus pattern (29 bp):
AAATTTGAAATTTAATCCCTCTAATCAAA
Found at i:6034677 original size:6 final size:6
Alignment explanation
Indices: 6034666--6034690 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6034656 TTTATTAATA
6034666 AATTAT AATTAT AATTAT AATTAT A
1 AATTAT AATTAT AATTAT AATTAT A
6034691 TCTCATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:6036467 original size:9 final size:9
Alignment explanation
Indices: 6036427--6036455 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6036417 TTTTGAAGTG
6036427 TTTAAAATT
1 TTTAAAATT
6036436 TTTAAAATT
1 TTTAAAATT
6036445 TTT-AAATT
1 TTTAAAATT
6036453 TTT
1 TTT
6036456 TTTAGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTAAAATT
Found at i:6037065 original size:35 final size:34
Alignment explanation
Indices: 6036976--6037066 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 34
6036966 TAAAAAAAAG
* *
6036976 TTTTATATT-AAAAGAACTAAAATATTTTTAAATT
1 TTTTATATTAAAAAG-ATTAAAATATTTTAAAATT
* *
6037010 TTAATTTTTTTAAAAA-ATTAAAATATTTTAAAATAT
1 TT--TTATATTAAAAAGATTAAAATATTTTAAAAT-T
6037046 TTTTATATTAAAAAGATTAAA
1 TTTTATATTAAAAAGATTAAA
6037067 TTTTAAATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
34 12 0.26
35 22 0.48
36 8 0.17
37 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTTATATTAAAAAGATTAAAATATTTTAAAATT
Found at i:6037629 original size:1 final size:1
Alignment explanation
Indices: 6037623--6037648 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6037613 CATGATTGTG
6037623 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
6037649 CTATTGATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:6040832 original size:25 final size:25
Alignment explanation
Indices: 6040802--6040867 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
6040792 TTAATATAAT
6040802 TATTAAAATATTAAAAATTATTTAG
1 TATTAAAATATTAAAAATTATTTAG
** * *
6040827 TATTAAAATATATTGACATTATTTAT
1 TATTAAAATAT-TAAAAATTATTTAG
6040853 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
6040868 TATTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 11 0.33
26 19 0.58
27 3 0.09
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAG
Found at i:6040856 original size:26 final size:26
Alignment explanation
Indices: 6040800--6040872 Score: 87
Period size: 25 Copynumber: 2.9 Consensus size: 26
6040790 TATTAATATA
*
6040800 ATTATTAAAATAT-TAAAAATTATTT
1 ATTATTAAAATATATTAAAATTATTT
* * *
6040825 AGTATTAAAATATATTGACATTATTT
1 ATTATTAAAATATATTAAAATTATTT
*
6040851 ATTATTAAAAT-TATTAATATTA
1 ATTATTAAAATATATTAAAATTA
6040873 AAATATTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (26 bp):
ATTATTAAAATATATTAAAATTATTT
Found at i:6040863 original size:16 final size:16
Alignment explanation
Indices: 6040844--6040885 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6040834 ATATATTGAC
6040844 ATTATTTATTATTAAA
1 ATTATTTATTATTAAA
*
6040860 ATTA-TTAATATTAAA
1 ATTATTTATTATTAAA
6040875 A-TATTATATTA
1 ATTATT-TATTA
6040886 ATATAATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
16 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATTTATTATTAAA
Found at i:6040885 original size:13 final size:15
Alignment explanation
Indices: 6040853--6040886 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6040843 CATTATTTAT
6040853 TATTAAAATTATTAA
1 TATTAAAATTATTAA
6040868 TATTAAAA-TATT-A
1 TATTAAAATTATTAA
6040881 TATTAA
1 TATTAA
6040887 TATAATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 4 0.21
15 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAAAATTATTAA
Found at i:6040904 original size:44 final size:45
Alignment explanation
Indices: 6040856--6041018 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 45
6040846 TATTTATTAT
6040856 TAAAATTATTA-ATATTAAAATATTATATTA-ATATA-ATACTTAAA
1 TAAAATTATTATAT-TTAAAATATTATATTATATA-ACATACTTAAA
* *
6040900 TAAAATTATTTTATTTTAAATATTATATTATATAACATACTTAAA
1 TAAAATTATTATATTTAAAATATTATATTATATAACATACTTAAA
* *
6040945 TAAATTATTTATTATATTTTTATATATTAT-TTAT-TAACATA-TT-AA
1 TAAA--A-TTATTATA-TTTAAAATATTATATTATATAACATACTTAAA
* * *
6040990 T-ATATTATT-TA-TTAATATATTATAATATA
1 TAAAATTATTATATTTAAAATATTATATTATA
6041019 ATATTATTTA
Statistics
Matches: 103, Mismatches: 7, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
38 11 0.11
39 3 0.03
40 2 0.02
41 5 0.05
42 1 0.01
44 27 0.26
45 21 0.20
46 2 0.02
47 8 0.08
48 11 0.11
49 12 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (45 bp):
TAAAATTATTATATTTAAAATATTATATTATATAACATACTTAAA
Found at i:6041002 original size:15 final size:15
Alignment explanation
Indices: 6040984--6041012 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6040974 TTTATTAACA
6040984 TATTAATATATTATT
1 TATTAATATATTATT
6040999 TATTAATATATTAT
1 TATTAATATATTAT
6041013 AATATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTAATATATTATT
Found at i:6041010 original size:8 final size:8
Alignment explanation
Indices: 6040966--6041011 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
6040956 TTATATTTTT
6040966 ATATATT-
1 ATATATTA
*
6040973 ATTTATTA
1 ATATATTA
*
6040981 ACATATTA
1 ATATATTA
6040989 ATATATT-
1 ATATATTA
*
6040996 ATTTATTA
1 ATATATTA
6041004 ATATATTA
1 ATATATTA
6041012 TAATATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATATTA
Found at i:6041017 original size:23 final size:24
Alignment explanation
Indices: 6040919--6041023 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 24
6040909 TTTATTTTAA
* *
6040919 ATATTATATTATATAACATACTTAAAT
1 ATATTAT-TTAT-TAATATA-TTATAT
* *
6040946 AAATTATTTATT-ATAT-TTTTAT
1 ATATTATTTATTAATATATTATAT
*
6040968 ATATTATTTATTAACATATTA-AT
1 ATATTATTTATTAATATATTATAT
6040991 ATATTATTTATTAATATATTATAAT
1 ATATTATTTATTAATATATTAT-AT
*
6041016 ATAATATT
1 ATATTATT
6041024 ATTTATAAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
22 15 0.23
23 25 0.38
24 5 0.08
25 10 0.15
26 4 0.06
27 6 0.09
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTATTTATTAATATATTATAT
Found at i:6041020 original size:15 final size:15
Alignment explanation
Indices: 6040987--6041038 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
6040977 ATTAACATAT
*
6040987 TAATATATTAT-TTA
1 TAATATATTATAATA
6041001 TTAATATATTATAATA
1 -TAATATATTATAATA
6041017 TAATATTATTTATAAGTA
1 TAATA-TA-TTATAA-TA
6041035 TAAT
1 TAAT
6041039 TATGTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 16 0.50
16 4 0.12
17 6 0.19
18 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TAATATATTATAATA
Found at i:6041036 original size:23 final size:23
Alignment explanation
Indices: 6040968--6041038 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 23
6040958 ATATTTTTAT
6040968 ATATTATTTATTAACATATTAATATA
1 ATATTATTTA-TAA-ATA-TAATATA
* * *
6040994 TTATTTATTAATATATTATAATATA
1 ATA-TTATTTATA-AATATAATATA
*
6041019 ATATTATTTATAAGTATAAT
1 ATATTATTTATAAATATAAT
6041039 TATGTTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
23 7 0.19
24 8 0.22
25 9 0.24
26 6 0.16
27 7 0.19
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
ATATTATTTATAAATATAATATA
Found at i:6041548 original size:15 final size:15
Alignment explanation
Indices: 6041528--6041561 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6041518 CTTCATATCG
6041528 ATTTGAATTGTATAA
1 ATTTGAATTGTATAA
*
6041543 ATTTGAATTGTATGA
1 ATTTGAATTGTATAA
6041558 ATTT
1 ATTT
6041562 CATTCGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
ATTTGAATTGTATAA
Found at i:6041855 original size:2 final size:2
Alignment explanation
Indices: 6041848--6041881 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6041838 CTTGACAAGA
*
6041848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6041882 TTACCAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6047369 original size:10 final size:9
Alignment explanation
Indices: 6047356--6047414 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
6047346 GTTTTATTAT
6047356 TTTTTTTTCC
1 TTTTTTTT-C
6047366 TTTTTTTTC
1 TTTTTTTTC
6047375 TTCTTTCTTTC
1 TT-TTT-TTTC
*
6047386 TATTTTTTC
1 TTTTTTTTC
*
6047395 --CTTTTTC
1 TTTTTTTTC
6047402 -TTTTTTTC
1 TTTTTTTTC
6047410 TTTTT
1 TTTTT
6047415 CAGTTCAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
7 6 0.14
8 6 0.14
9 11 0.26
10 14 0.33
11 5 0.12
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:6048718 original size:20 final size:21
Alignment explanation
Indices: 6048695--6048739 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6048685 AATAATAAAT
*
6048695 AAAATTAACAA-ATTAATTAA
1 AAAATTAACAATATAAATTAA
*
6048715 AAAATTAATAATATAAATTAA
1 AAAATTAACAATATAAATTAA
6048736 AAAA
1 AAAA
6048740 AAGAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATTAACAATATAAATTAA
Found at i:6050172 original size:21 final size:20
Alignment explanation
Indices: 6050140--6050179 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
6050130 TGTGTGTAAT
6050140 AAAAAAACACAAACAAAAATG
1 AAAAAAACACAAA-AAAAATG
6050161 AAAACAAA-ACAAAAAAAAT
1 AAAA-AAACACAAAAAAAAT
6050180 AATAAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 9 0.50
22 3 0.17
ACGTcount: A:0.80, C:0.12, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAAAACACAAAAAAAATG
Found at i:6060949 original size:150 final size:145
Alignment explanation
Indices: 6060771--6061205 Score: 461
Period size: 150 Copynumber: 2.9 Consensus size: 145
6060761 AACATATGAG
* * *
6060771 ATTTTTAAAGTTATCGAGCCTCTGCTTAGAAGAGTTTTTTTCAAGATGAATTTTTAAAATTATTG
1 ATTTTTAAAGTTATTGAGCCTCTGCTTAGAAGAGCTTTTTTCAAGATGAATTTTTAAAGTTATTG
* * *
6060836 AGCCTCTACTTAGAGAAGCCTTTTC-AGAATGAGATTTTTAAAGTTGTTGAACATCTGCTTAGAT
66 AGCCTTTGCTTAAAGAAGCCTTTTCAAG-ATGA-ATTTTTAAAGTTGTTGAAC-TCTGCTTAGAT
6060900 GAGCCTTTTCCAAGATAA
128 GAGCCTTTTCCAAGATAA
* *
6060918 ATTTTTTTTAAAATTGTTGAGCCTCTGCTTAGACA-AGCTTTTTTCAAGATGAATTTTTAAAGTT
1 A---TTTTTAAAGTTATTGAGCCTCTGCTTAGA-AGAGCTTTTTTCAAGATGAATTTTTAAAGTT
* * *
6060982 ATTGAGCCTTTGCTTAAATG-AGCTTTTTTCAAGATGATTTTTTTTTTAAGTTGTTGAATCTCTG
62 ATTGAGCCTTTGCTTAAA-GAAGC-CTTTTCAAGATGA---ATTTTTAAAGTTGTTGAA-CTCTG
* * * *
6061046 CTTAAAGGAG-CTTTTTCAAGATGA
121 CTTAGATGAGCCTTTTCCAAGATAA
* * * *
6061070 ATTTTTAAAGTCATT-AACCTCTGCTTA-AATGAGCTTTTCT-AAGATGAATTTTTAAAGTTGTT
1 ATTTTTAAAGTTATTGAGCCTCTGCTTAGAA-GAGCTTTTTTCAAGATGAATTTTTAAAGTTATT
* * * * *
6061132 AAGCCTTTGCTTAAAGAAGCCTTTTCCAAGATGAATTTTTAAAGTTGTTGAGCCTTTACTGAGAT
65 GAGCCTTTGCTTAAAGAAGCCTTTT-CAAGATGAATTTTTAAAGTTGTTGA-ACTCTGCTTAGAT
6061197 GAGCCTTTT
128 GAGCCTTTT
6061206 TAAATTTTCA
Statistics
Matches: 240, Mismatches: 32, Indels: 34
0.78 0.10 0.11
Matches are distributed among these distances:
144 25 0.10
145 5 0.02
146 6 0.03
147 48 0.20
148 19 0.08
149 11 0.05
150 71 0.30
151 11 0.05
152 15 0.06
153 28 0.12
154 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (145 bp):
ATTTTTAAAGTTATTGAGCCTCTGCTTAGAAGAGCTTTTTTCAAGATGAATTTTTAAAGTTATTG
AGCCTTTGCTTAAAGAAGCCTTTTCAAGATGAATTTTTAAAGTTGTTGAACTCTGCTTAGATGAG
CCTTTTCCAAGATAA
Found at i:6060978 original size:101 final size:100
Alignment explanation
Indices: 6060766--6061205 Score: 423
Period size: 101 Copynumber: 4.4 Consensus size: 100
6060756 TCGAGAACAT
* * ** *
6060766 ATGAGATTTTTAAAGTTATCGAGCCTCTGCTTAGAA-GAGTTTTTTTCAAGATGAA---TTTTTA
1 ATGA-ATTTTTAAAGTTATTGAACCTCTGCTTA-AATGAGCCTTTTCCAAGATGAATTTTTTTTA
* * * *
6060827 AAATTATTGAGCCTCTACTTAGAGAAGCCTTTTC-AG
64 AAATTGTTGAGCCTCTGCTTAAAGAAGCTTTTTCAAG
* * * *
6060863 AATGAGATTTTTAAAGTTGTTGAACATCTGCTTAGATGAGCCTTTTCCAAGATAAATTTTTTTTA
1 -ATGA-ATTTTTAAAGTTATTGAACCTCTGCTTAAATGAGCCTTTTCCAAGATGAATTTTTTTTA
* *
6060928 AAATTGTTGAGCCTCTGCTTAGACAAGCTTTTTTCAAG
64 AAATTGTTGAGCCTCTGCTTAAAGAAGC-TTTTTCAAG
* * * * * *
6060966 ATGAATTTTTAAAGTTATTGAGCCTTTGCTTAAATGAGCTTTTTTCAAGATGATTTTTTTTTTAA
1 ATGAATTTTTAAAGTTATTGAACCTCTGCTTAAATGAGCCTTTTCCAAGATGAATTTTTTTTAAA
* ** *
6061031 GTTGTTGAATCTCTGCTTAAAGGAGCTTTTTCAAG
66 ATTGTTGAGCCTCTGCTTAAAGAAGCTTTTTCAAG
* *
6061066 ATGAATTTTTAAAGTCATT-AACCTCTGCTTAAATGAG-CTTTTCTAAGATGAA---TTTTTAAA
1 ATGAATTTTTAAAGTTATTGAACCTCTGCTTAAATGAGCCTTTTCCAAGATGAATTTTTTTTAAA
* * * *
6061126 GTTGTTAAGCCTTTGCTTAAAGAAGCCTTTTCCAAG
66 ATTGTTGAGCCTCTGCTTAAAGAAG-CTTTTTCAAG
* * * * * *
6061162 ATGAATTTTTAAAGTTGTTGAGCCTTTACTGAGATGAGCCTTTT
1 ATGAATTTTTAAAGTTATTGAACCTCTGCTTAAATGAGCCTTTT
6061206 TAAATTTTCA
Statistics
Matches: 283, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
95 27 0.10
96 26 0.09
97 14 0.05
98 60 0.21
99 16 0.06
100 27 0.10
101 102 0.36
102 9 0.03
103 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (100 bp):
ATGAATTTTTAAAGTTATTGAACCTCTGCTTAAATGAGCCTTTTCCAAGATGAATTTTTTTTAAA
ATTGTTGAGCCTCTGCTTAAAGAAGCTTTTTCAAG
Found at i:6061202 original size:49 final size:49
Alignment explanation
Indices: 6060766--6061206 Score: 385
Period size: 49 Copynumber: 8.9 Consensus size: 49
6060756 TCGAGAACAT
* * * **
6060766 ATGAGATTTTTAAAGTTATCGAGCCTCTGCTTAGAAGAGTTTTTTTCAAG
1 ATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAG
* * *
6060816 ATGAATTTTTAAAATTATTGAGCCTCTACTTAGA-GAAGCC-TTTTC-AG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATG-AGCCTTTTTCAAG
* * *
6060863 AATGAGATTTTTAAAGTTGTTGAACATCTGCTTAGATGAGCCTTTTCCAAG
1 -ATGA-ATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAG
* * ** *
6060914 ATAAATTTTTTTTAAAATTGTTGAGCCTCTGCTTAGACAAGCTTTTTTCAAG
1 ATGAA---TTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAG
* * * *
6060966 ATGAATTTTTAAAGTTATTGAGCCTTTGCTTAAATGAGCTTTTTTCAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAG
* * ** * *
6061015 ATGATTTTTTTTTTAAGTTGTTGAATCTCTGCTTAAAGGAG-CTTTTTCAAG
1 ATGA---ATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAG
** * *
6061066 ATGAATTTTTAAAGTCATT-AACCTCTGCTTAAATGAG-C-TTTTCTAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTC-AAG
* * * *
6061113 ATGAATTTTTAAAGTTGTTAAGCCTTTGCTTA-AAGAAGCCTTTTCCAAG
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATG-AGCCTTTTTCAAG
* * *
6061162 ATGAATTTTTAAAGTTGTTGAGCCTTTACTGAGATGAGCCTTTTT
1 ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTT
6061207 AAATTTTCAA
Statistics
Matches: 322, Mismatches: 51, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
46 5 0.02
47 41 0.13
48 33 0.10
49 142 0.44
50 18 0.06
51 15 0.05
52 68 0.21
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (49 bp):
ATGAATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCCTTTTTCAAG
Found at i:6061290 original size:52 final size:52
Alignment explanation
Indices: 6061179--6061305 Score: 166
Period size: 52 Copynumber: 2.4 Consensus size: 52
6061169 TTTAAAGTTG
* * *
6061179 TTGAGCCTTTACTGAGATGAGCCTTTTTAAATTTTCAAAAAAAATTTTTTTT
1 TTGAACCTTTACTGAGAGGAGCCTTTTTAAATTTTCAAAAAAAATATTTTTT
* * *
6061231 TTAAACCTTTGCTGGGAGGAGCCTTCTTTAAATTTTCAAAAAAAA-ATTTTTT
1 TTGAACCTTTACTGAGAGGAGCCTT-TTTAAATTTTCAAAAAAAATATTTTTT
* *
6061283 TTGAACCTCTATTGAGAGGAGCC
1 TTGAACCTTTACTGAGAGGAGCC
6061306 CTTAAAAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 44 0.70
53 19 0.30
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (52 bp):
TTGAACCTTTACTGAGAGGAGCCTTTTTAAATTTTCAAAAAAAATATTTTTT
Found at i:6061493 original size:14 final size:15
Alignment explanation
Indices: 6061459--6061500 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
6061449 TATTATTATA
*
6061459 TTCTTTCTTTCTTTC
1 TTCTTTCCTTCTTTC
6061474 TT-TTTCCTTC-TTC
1 TTCTTTCCTTCTTTC
6061487 TTCTTTCCTT-TTTC
1 TTCTTTCCTTCTTTC
6061501 GGTTCAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 5 0.21
14 17 0.71
15 2 0.08
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTTCCTTCTTTC
Found at i:6064361 original size:160 final size:159
Alignment explanation
Indices: 6063811--6064428 Score: 618
Period size: 160 Copynumber: 3.8 Consensus size: 159
6063801 GGGAAAATTG
* * * * * *
6063811 TAAATTTACAATTATTATTCTATATTAACAGTTTGGATAGCTTCAATACATGATATTAAATTTGC
1 TAAATTTTCATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGT
* * * * * * * ** *
6063876 CTAAATGATTGAATTTAATTTCCACGGTTGATATGTATCAAAAAGTCATTGTTTATGTCTTTTTA
66 CTGAATGATTGAACTT-GTTTCCATGATTGATATGTATGAAAAAGTTATCATTTATGTCTGTTTA
* **
6063941 GGACTTTGTAGTGCCATTAAAGGGCAAAATA
130 GGACTTTTTA-TGCCATTAAAGAACAAAATA
* *
6063972 T-AATTTT-ATAGTTA-TATT-TATGTTTTAATAGTTTAGATAGCTTAAATACATGATATTAAAC
1 TAAATTTTCAT--TTATTATTCTA--TTTTAACAGTTTAGATAGCTTCAATACATGATATTAAAC
* * * *
6064033 TTGTTTGAATGATTGAACTTGATTTCCATTATTGATATGCATGGAAAAA-TTGTCATTTATGTCT
62 TTGTCTGAATGATTGAACTTG-TTTCCATGATTGATATGTAT-GAAAAAGTTATCATTTATGTCT
* * **
6064097 GTTTAGCATTTTTTTATGCCATTGAAAGGCCAAAATA
125 GTTTAGGA-CTTTTTATGCCATT-AAAGAACAAAATA
* * * * *
6064134 CAAATTTGCATTTATTATTCCATTTTAACAGTTTAGATAGCTTTAACACATGATATTAAACTTGT
1 TAAATTTTCATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGT
* * * * *
6064199 CTGAATGATTGAACTTAGTTTTCATGGTTGATATGTGTGAAAAAGTTGTCATTTATATCTGTTTA
66 CTGAATGATTGAACTT-GTTTCCATGATTGATATGTATGAAAAAGTTATCATTTATGTCTGTTTA
* ** *
6064264 GGACTTTTTATG-CAGTTAAAAAATTAAATG
130 GGACTTTTTATGCCA-TTAAAGAACAAAATA
* * * *
6064294 TAAATTTTCCTTTATTATTTTATTTTAACAGTTTAGATAGCTTCAATATATGATATTAAAATTGT
1 TAAATTTTCATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGT
* * * *
6064359 CTGAATGATTGAACTTGGTTTCTATGATTGATATGTACGAAAAAGTTATCGTTTATGTCTTTTTA
66 CTGAATGATTGAACTT-GTTTCCATGATTGATATGTATGAAAAAGTTATCATTTATGTCTGTTTA
6064424 GGACT
130 GGACT
6064429 GCACTGTTAA
Statistics
Matches: 376, Mismatches: 66, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
159 3 0.01
160 134 0.36
161 110 0.29
162 116 0.31
163 10 0.03
164 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (159 bp):
TAAATTTTCATTTATTATTCTATTTTAACAGTTTAGATAGCTTCAATACATGATATTAAACTTGT
CTGAATGATTGAACTTGTTTCCATGATTGATATGTATGAAAAAGTTATCATTTATGTCTGTTTAG
GACTTTTTATGCCATTAAAGAACAAAATA
Found at i:6073200 original size:279 final size:279
Alignment explanation
Indices: 6072715--6073250 Score: 668
Period size: 279 Copynumber: 1.9 Consensus size: 279
6072705 TTGTAGTTGG
** * * * * * * *
6072715 GGGAGGCTGCTTCTTTAAGCTTCTTGAGACCCATGTGACTTCTTGTAGATGGATTAATGAGCTCC
1 GGGAGGCTGCTTCTCCAAGCTTCTTGAAACCAATGTAACCTCTTCTAGATAGATCAATGAGCTCC
* * ** ** * * * *
6072780 TAAGAGAATGCCAAGTCAACTGTTACTCAGCTTTACTTTAATATTTTGGAAACATCTTCAAACTA
66 CAAAAGAATGCCAAGTCAACTACTACTCAGCTCCACCTCAATATTTTGGAAACATCATCAAACCA
* * * * * * *
6072845 TGACATCATGGGAGAATGGCAGCTTGCAAAATTCTAGCAGCTCACGTAAAAAGCATTTTTCATTC
131 CGACATCATGGGAGAATGACAACTTACAAAATTCCAACAGCTCACATAAAAAGCATTTTTCATTC
* * *
6072910 TTGGAGATCCTTGTGCTAT-CTTTTAGGCCAATGAGAAGGTAATTTAATTTCATGTAAATTCTAG
196 TTGGAGATCCTTATGCTATCCTCTT-GGCCAATGAGAAGGCAATTTAATTTCATGTAAATTCTAG
6072974 GTAGATTCGATTGAAACTAA
260 GTAGATTCGATTGAAACTAA
6072994 GGGAGGCTGCTTCTCCAAGCTTCTTGAAACCAATGTAACCTCTTCTAGATAGATCAATGAGCTCC
1 GGGAGGCTGCTTCTCCAAGCTTCTTGAAACCAATGTAACCTCTTCTAGATAGATCAATGAGCTCC
* *
6073059 CAAAAGAATGCCAAGTCAGA-TACTAGCTTAGCTCCACCTCAATCTTTTGGAAACATCATCAAAC
66 CAAAAGAATGCCAAGTCA-ACTACTA-CTCAGCTCCACCTCAATATTTTGGAAACATCATCAAAC
*
6073123 CACGACTTCATGGGAGAATGACAACTTACAAAATTCCAACAGCTCACATATAAAA-CATTATTT-
129 CACGACATCATGGGAGAATGACAACTTACAAAATTCCAACAGCTCACATA-AAAAGCATT-TTTC
* * * *
6073186 ATT-TTTGTGATCCTTATGCTATCCTCTTGGCTAATGAGAAGGCAGTTTAATTTCATGTAAATTC
192 ATTCTTGGAGATCCTTATGCTATCCTCTTGGCCAATGAGAAGGCAATTTAATTTCATGTAAATTC
6073250 T
257 T
6073251 GAAATTTTCA
Statistics
Matches: 216, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
279 125 0.58
280 84 0.39
281 7 0.03
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (279 bp):
GGGAGGCTGCTTCTCCAAGCTTCTTGAAACCAATGTAACCTCTTCTAGATAGATCAATGAGCTCC
CAAAAGAATGCCAAGTCAACTACTACTCAGCTCCACCTCAATATTTTGGAAACATCATCAAACCA
CGACATCATGGGAGAATGACAACTTACAAAATTCCAACAGCTCACATAAAAAGCATTTTTCATTC
TTGGAGATCCTTATGCTATCCTCTTGGCCAATGAGAAGGCAATTTAATTTCATGTAAATTCTAGG
TAGATTCGATTGAAACTAA
Found at i:6076483 original size:19 final size:19
Alignment explanation
Indices: 6076459--6076496 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6076449 CCTTTCAACA
6076459 TAACCAACCACATACCCAT
1 TAACCAACCACATACCCAT
6076478 TAACCAACCACATACCCAT
1 TAACCAACCACATACCCAT
6076497 ATGCATCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (19 bp):
TAACCAACCACATACCCAT
Found at i:6077684 original size:52 final size:52
Alignment explanation
Indices: 6077605--6077709 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
6077595 TATAACCATA
* * * *
6077605 CAAACTTACTTATTAAGAGTCTCTTTTCTCTTATAATTCTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAATCTCTTTTCTCTTAAAATTCTTCTTTTGCAAGT
*
6077657 CAAACTTGCCTATTAAGAATCAT-TTTTCTCTTAAAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATC-TCTTTTCTCTTAAAATTCTTCTTTTGCAAGT
6077709 C
1 C
6077710 TTATTGTCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.47
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTTTTCTCTTAAAATTCTTCTTTTGCAAGT
Found at i:6078350 original size:27 final size:27
Alignment explanation
Indices: 6078320--6078372 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
6078310 AATTATCAAA
* *
6078320 AAAATTTATATACGTAATATTATTTTT
1 AAAATTTATATACATAATATCATTTTT
*
6078347 AAAATTTATATATATAATATCATTTT
1 AAAATTTATATACATAATATCATTTT
6078373 CAATCGCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (27 bp):
AAAATTTATATACATAATATCATTTTT
Found at i:6078731 original size:17 final size:18
Alignment explanation
Indices: 6078709--6078743 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6078699 ATTTACCATA
6078709 TTTAAGT-TATTAAAATT
1 TTTAAGTATATTAAAATT
6078726 TTTAAGTATATTAAAATT
1 TTTAAGTATATTAAAATT
6078744 GATCATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTAAGTATATTAAAATT
Found at i:6079965 original size:28 final size:28
Alignment explanation
Indices: 6079932--6079995 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
6079922 CAAATATATT
* * *
6079932 TTTTAAAATTTTATTATTAAAT-ATTTGA
1 TTTTAAAATTTAATT-TAAAATAATTTAA
*
6079960 TTTTAACATTTAATTTAAAATAATTTAA
1 TTTTAAAATTTAATTTAAAATAATTTAA
6079988 TTTTAAAA
1 TTTTAAAA
6079996 AAATTAATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TTTTAAAATTTAATTTAAAATAATTTAA
Found at i:6079987 original size:15 final size:16
Alignment explanation
Indices: 6079967--6080000 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6079957 TGATTTTAAC
*
6079967 ATTTAA-TTTAAAATA
1 ATTTAATTTTAAAAAA
6079982 ATTTAATTTTAAAAAA
1 ATTTAATTTTAAAAAA
6079998 ATT
1 ATT
6080001 AATAGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATTTAATTTTAAAAAA
Found at i:6080269 original size:26 final size:26
Alignment explanation
Indices: 6080220--6080269 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6080210 TAATATTTGA
* *
6080220 TATAAAAAATAATTGTAATAATTTTT
1 TATAAAAAATAAATGAAATAATTTTT
* *
6080246 TATAAAAATTAAATGAAATTATTT
1 TATAAAAAATAAATGAAATAATTT
6080270 AAGACAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
TATAAAAAATAAATGAAATAATTTTT
Found at i:6081702 original size:1 final size:1
Alignment explanation
Indices: 6081696--6081721 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6081686 CTAGGAGTTT
6081696 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
6081722 TGTTGTAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:6094879 original size:48 final size:49
Alignment explanation
Indices: 6094822--6094916 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
6094812 ACTTAATACC
* * *
6094822 TCTAAAGAAAGA-ATTTTAATGTAAATAGAAAAGGACCTTAAGATCAGA
1 TCTAAAGAAAAAGATTTTAATGTAAATAGAAAAGAACCCTAAGATCAGA
* * *
6094870 TCTAGAGAAAAAGATTTTGATGTAAATAGAAAATAACCCTAAGATCA
1 TCTAAAGAAAAAGATTTTAATGTAAATAGAAAAGAACCCTAAGATCA
6094917 AATGTCCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 10 0.25
49 30 0.75
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.25
Consensus pattern (49 bp):
TCTAAAGAAAAAGATTTTAATGTAAATAGAAAAGAACCCTAAGATCAGA
Found at i:6107101 original size:11 final size:10
Alignment explanation
Indices: 6107085--6107124 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
6107075 CTAAGCCAAT
6107085 AACTAAAGAAA
1 AACTAAA-AAA
6107096 AACTAAAAAA
1 AACTAAAAAA
6107106 AA--AAAAAA
1 AACTAAAAAA
6107114 AACTAAAAAA
1 AACTAAAAAA
6107124 A
1 A
6107125 GAAAAGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
10 12 0.44
11 7 0.26
ACGTcount: A:0.82, C:0.07, G:0.03, T:0.07
Consensus pattern (10 bp):
AACTAAAAAA
Found at i:6107116 original size:18 final size:19
Alignment explanation
Indices: 6107093--6107129 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
6107083 ATAACTAAAG
6107093 AAAAACTAAAAAAA-AAAA
1 AAAAACTAAAAAAAGAAAA
6107111 AAAAACTAAAAAAAGAAAA
1 AAAAACTAAAAAAAGAAAA
6107130 GAGAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.86, C:0.05, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAAACTAAAAAAAGAAAA
Found at i:6112699 original size:25 final size:25
Alignment explanation
Indices: 6112651--6112701 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6112641 GATGTAGCTG
* * **
6112651 AATTTTACTTGAAGTAGGTTTCCTA
1 AATTCTACTTGAAATAGGAATCCTA
6112676 AATTCTACTTGAAATAGGAATCCTA
1 AATTCTACTTGAAATAGGAATCCTA
6112701 A
1 A
6112702 GGGTACTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (25 bp):
AATTCTACTTGAAATAGGAATCCTA
Found at i:6119265 original size:7 final size:6
Alignment explanation
Indices: 6119227--6119264 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
6119217 TATTCTTTGA
6119227 ATCAAT ATCAAT ATCAAT ATCACAT ATCAAT CATCAAT
1 ATCAAT ATCAAT ATCAAT ATCA-AT ATCAAT -ATCAAT
6119265 CCAACTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCAAT
Found at i:6125395 original size:4 final size:4
Alignment explanation
Indices: 6125386--6125417 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
6125376 ATTATAATTA
*
6125386 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
6125418 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:6126467 original size:16 final size:16
Alignment explanation
Indices: 6126414--6126473 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
6126404 ACGGAACACC
6126414 AAAAATGAAGACAAAAAT
1 AAAAATGAA-A-AAAAAT
6126432 AAAAAT-AAAAATAAAT
1 AAAAATGAAAAA-AAAT
**
6126448 -AAAATGAGTAAAAAT
1 AAAAATGAAAAAAAAT
6126463 AAAAATGAAAA
1 AAAAATGAAAA
6126474 GGAACAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 11 0.31
16 16 0.46
17 2 0.06
18 6 0.17
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (16 bp):
AAAAATGAAAAAAAAT
Found at i:6126973 original size:48 final size:48
Alignment explanation
Indices: 6126724--6126978 Score: 129
Period size: 49 Copynumber: 5.2 Consensus size: 48
6126714 CAAAGGATTA
* * * * *
6126724 AAACTTTAAAAAGTTTGAAA-CAAAAAAGCTCCTTTCTAATAGAGGCGTTG
1 AAACTTTAAAAA-ATTGAAACCAAAAAA-CTCCTCT-TAATAAAGACATTG
* * *** * * *
6126774 AAACTTTAAAAATTTGACAGTGAAAAGCT-CTACTTCCACAAAGACATTG
1 AAACTTTAAAAAATTGAAACCAAAAAACTCCT-CTT-AATAAAGACATTG
* * * * ** * * *** *
6126823 AAAGTCTAAAAATTTGAAACCAGAAGTCTCTTCCCTAATAAAGGTGTTA
1 AAACTTTAAAAAATTGAAACCAAAAAACTCCT-CTTAATAAAGACATTG
** * * **
6126872 AAACTTTAAAATTTTGAAACCAAAAAACTCCTCTTAGTAGAGATGTTG
1 AAACTTTAAAAAATTGAAACCAAAAAACTCCTCTTAATAAAGACATTG
* *
6126920 AAACTTTAAAAAATTGAAACCAAAAAACTCCTTTCTAATAAAGGCATTG
1 AAACTTTAAAAAATTGAAACCAAAAAACTCCTCT-TAATAAAGACATTG
6126969 -AACTTTAAAA
1 AAACTTTAAAA
6126979 TTTTACAACT
Statistics
Matches: 152, Mismatches: 48, Indels: 12
0.72 0.23 0.06
Matches are distributed among these distances:
48 55 0.36
49 78 0.51
50 19 0.12
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (48 bp):
AAACTTTAAAAAATTGAAACCAAAAAACTCCTCTTAATAAAGACATTG
Found at i:6128227 original size:26 final size:26
Alignment explanation
Indices: 6128191--6128249 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
6128181 AAACCTTATT
6128191 CATTATTTTATAGTTCTAGTTTTTTG
1 CATTATTTTATAGTTCTAGTTTTTTG
6128217 CATTATTTTATAGTTCTAGTTTTTTG
1 CATTATTTTATAGTTCTAGTTTTTTG
6128243 CATTATT
1 CATTATT
6128250 AGATATAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.20, C:0.08, G:0.10, T:0.61
Consensus pattern (26 bp):
CATTATTTTATAGTTCTAGTTTTTTG
Found at i:6139965 original size:210 final size:210
Alignment explanation
Indices: 6139603--6140026 Score: 830
Period size: 210 Copynumber: 2.0 Consensus size: 210
6139593 ACTATGAATG
6139603 AAGCTTGTTCAGTAAAAACTTCAGAGGAAAAACACATCAAATACTCAATGGTTAAAATAAAAGAC
1 AAGCTTGTTCAGTAAAAACTTCAGAGGAAAAACACATCAAATACTCAATGGTTAAAATAAAAGAC
6139668 CGAAATATTATAGAGAATGAAAACTACCAAACAACTTTGAGATTTCAATGAAAATTGCAAGGAAA
66 CGAAATATTATAGAGAATGAAAACTACCAAACAACTTTGAGATTTCAATGAAAATTGCAAGGAAA
*
6139733 TGAATAAAAATTACAAGATGTTTGTAAATTTTATTAAGAAATAGTAAATGTGTGGGAAAATTAAA
131 TGAATAAAAATTACAAGATGTTTGTAAATTTTATTAAGAAATAGTAAATGTGCGGGAAAATTAAA
6139798 GTGCTTGAAAGGATA
196 GTGCTTGAAAGGATA
6139813 AAGCTTGTTCAGTAAAAACTTCAGAGGAAAAACACATCAAATACTCAATGGTTAAAATAAAAGAC
1 AAGCTTGTTCAGTAAAAACTTCAGAGGAAAAACACATCAAATACTCAATGGTTAAAATAAAAGAC
6139878 CGAAATATTATAGAGAATGAAAACTACCAAACAACTTTGAGATTTCAATGAAAATTGCAAGGAAA
66 CGAAATATTATAGAGAATGAAAACTACCAAACAACTTTGAGATTTCAATGAAAATTGCAAGGAAA
*
6139943 TGAATAAAAATTACAAGATGTTTGTAAATTTTATTAGGAAATAGTAAATGTGCGGGAAAATTAAA
131 TGAATAAAAATTACAAGATGTTTGTAAATTTTATTAAGAAATAGTAAATGTGCGGGAAAATTAAA
6140008 GTGCTTGAAAGGATA
196 GTGCTTGAAAGGATA
6140023 AAGC
1 AAGC
6140027 AAGAAAATAT
Statistics
Matches: 212, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
210 212 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (210 bp):
AAGCTTGTTCAGTAAAAACTTCAGAGGAAAAACACATCAAATACTCAATGGTTAAAATAAAAGAC
CGAAATATTATAGAGAATGAAAACTACCAAACAACTTTGAGATTTCAATGAAAATTGCAAGGAAA
TGAATAAAAATTACAAGATGTTTGTAAATTTTATTAAGAAATAGTAAATGTGCGGGAAAATTAAA
GTGCTTGAAAGGATA
Found at i:6142940 original size:21 final size:20
Alignment explanation
Indices: 6142916--6142968 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
6142906 TTATATTGGT
6142916 TGTTTAATCATGTTTTAAA-A
1 TGTTTAATCATG-TTTAAAGA
6142936 GTGTTTAATTCATGTTTAAAGA
1 -TGTTTAA-TCATGTTTAAAGA
6142958 TGATTTAATCA
1 TG-TTTAATCA
6142969 ATTAATCCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (20 bp):
TGTTTAATCATGTTTAAAGA
Found at i:6143726 original size:19 final size:18
Alignment explanation
Indices: 6143699--6143746 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6143689 GGAATGTTAC
*
6143699 TTTTTTAAAATGAAAAATG
1 TTTTCTAAAATG-AAAATG
*
6143718 TTTTCTAAAGTGAAAATG
1 TTTTCTAAAATGAAAATG
**
6143736 GATTCTAAAAT
1 TTTTCTAAAAT
6143747 TGTAACTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (18 bp):
TTTTCTAAAATGAAAATG
Found at i:6144646 original size:174 final size:174
Alignment explanation
Indices: 6144356--6144703 Score: 696
Period size: 174 Copynumber: 2.0 Consensus size: 174
6144346 ATGAAGGTCA
6144356 ATGAAGCATCAAATGAGCAAAACAATGAGATTGCATAAGATAACTTGTTGCTTTCTTGTCAGTTG
1 ATGAAGCATCAAATGAGCAAAACAATGAGATTGCATAAGATAACTTGTTGCTTTCTTGTCAGTTG
6144421 CCCATATTGCATATGGTGATATGTTCTTATTTGTTTGCAATCCCTAGGATTTGACCATCTTTATG
66 CCCATATTGCATATGGTGATATGTTCTTATTTGTTTGCAATCCCTAGGATTTGACCATCTTTATG
6144486 GCTTAAGGGAATTAGAATTAGATAAAAGTATATAATTATCCTAG
131 GCTTAAGGGAATTAGAATTAGATAAAAGTATATAATTATCCTAG
6144530 ATGAAGCATCAAATGAGCAAAACAATGAGATTGCATAAGATAACTTGTTGCTTTCTTGTCAGTTG
1 ATGAAGCATCAAATGAGCAAAACAATGAGATTGCATAAGATAACTTGTTGCTTTCTTGTCAGTTG
6144595 CCCATATTGCATATGGTGATATGTTCTTATTTGTTTGCAATCCCTAGGATTTGACCATCTTTATG
66 CCCATATTGCATATGGTGATATGTTCTTATTTGTTTGCAATCCCTAGGATTTGACCATCTTTATG
6144660 GCTTAAGGGAATTAGAATTAGATAAAAGTATATAATTATCCTAG
131 GCTTAAGGGAATTAGAATTAGATAAAAGTATATAATTATCCTAG
6144704 TAGTTAGCTT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (174 bp):
ATGAAGCATCAAATGAGCAAAACAATGAGATTGCATAAGATAACTTGTTGCTTTCTTGTCAGTTG
CCCATATTGCATATGGTGATATGTTCTTATTTGTTTGCAATCCCTAGGATTTGACCATCTTTATG
GCTTAAGGGAATTAGAATTAGATAAAAGTATATAATTATCCTAG
Found at i:6145157 original size:20 final size:20
Alignment explanation
Indices: 6145111--6145158 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6145101 AAGACATGAG
*
6145111 CAGAAAATTACATGCACAAA
1 CAGAAACTTACATGCACAAA
*
6145131 CAAAAACTTACATGCACAAA
1 CAGAAACTTACATGCACAAA
*
6145151 TAGAAACT
1 CAGAAACT
6145159 AGGTAAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.54, C:0.21, G:0.08, T:0.17
Consensus pattern (20 bp):
CAGAAACTTACATGCACAAA
Found at i:6145483 original size:30 final size:31
Alignment explanation
Indices: 6145447--6145506 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
6145437 AACTTGAATT
*
6145447 TAAATGCAAG-AAAT-TGAAATTGCTTAAAAG
1 TAAATGCAAGAAAATGTGAAA-TGCATAAAAG
6145477 TAAATGCAAGAAAATGTGAAATGCATAAAA
1 TAAATGCAAGAAAATGTGAAATGCATAAAA
6145507 ACCAAAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
31 12 0.44
32 5 0.19
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (31 bp):
TAAATGCAAGAAAATGTGAAATGCATAAAAG
Found at i:6147312 original size:146 final size:144
Alignment explanation
Indices: 6147072--6147445 Score: 418
Period size: 146 Copynumber: 2.6 Consensus size: 144
6147062 ACCTTTTAGG
* * * *
6147072 GGGTATATTAGTAATTTGGCCTTTCC-GAGCTCAGATTTTCATGACAA-TTTTTAGATTTTAATT
1 GGGTATTTTTGTAATTTGGCC-TTCCAAAGCTCAGATTTTCATGA-AACTTTTTAGATATTAATT
* *
6147135 TCATAATATTTCATGATTTTTTTTGCATTTGAAATCACGACAGTA-CCCAAAAAAGTATGAAATT
64 TTATAATATTTCATGATTTTTTGTGCATTTGAAATCAC-ACAGTACCCCAAAAAA-TATGAAATT
6147199 ACCAAAATACCCCT-ATAA
127 ACCAAAATA-CCCTAATAA
* * * * * *
6147217 GGGTATTTTTGTACTTTTGGCTTTTTC-GAGCT-TGAATTTTCATGAAACTTTTTAGATCTTAAT
1 GGGTATTTTTGTA-ATTTGGC-CTTCCAAAGCTCAG-ATTTTCATGAAACTTTTTAGATATTAAT
* * * * ** *
6147280 TTTATAATATTTGATGATTTTTTGTGTATTTGAATTCACAGAGTACCCCATGAAATGTGAAATTA
63 TTTATAATATTTCATGATTTTTTGTGCATTTGAAATCACACAGTACCCCAAAAAATATGAAATTA
**
6147345 TTAAAATACCCTAATAA
128 CCAAAATACCCTAATAA
* * *
6147362 GGGTATTTTTGTAATTTGGCCTTCCAAAGCTCAGATTTTCATGAAACTTTTCATATAATAATTTT
1 GGGTATTTTTGTAATTTGGCCTTCCAAAGCTCAGATTTTCATGAAACTTTTTAGATATTAATTTT
6147427 ATAATATTTCATGATTTTT
66 ATAATATTTCATGATTTTT
6147446 GGAGTTTTAA
Statistics
Matches: 193, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
143 3 0.02
144 59 0.31
145 52 0.27
146 79 0.41
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (144 bp):
GGGTATTTTTGTAATTTGGCCTTCCAAAGCTCAGATTTTCATGAAACTTTTTAGATATTAATTTT
ATAATATTTCATGATTTTTTGTGCATTTGAAATCACACAGTACCCCAAAAAATATGAAATTACCA
AAATACCCTAATAA
Found at i:6147881 original size:7 final size:7
Alignment explanation
Indices: 6147869--6147899 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6147859 TTAGAAAGCT
6147869 AAAACAA
1 AAAACAA
6147876 AAAACAA
1 AAAACAA
6147883 AAAACAA
1 AAAACAA
6147890 AAAACAA
1 AAAACAA
6147897 AAA
1 AAA
6147900 GGAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:6149687 original size:7 final size:7
Alignment explanation
Indices: 6149675--6149701 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6149665 ATAACAATGT
6149675 AATTAAA
1 AATTAAA
6149682 AATTAAA
1 AATTAAA
6149689 AATTAAA
1 AATTAAA
6149696 AATTAA
1 AATTAA
6149702 GATTAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATTAAA
Found at i:6151378 original size:3 final size:3
Alignment explanation
Indices: 6151333--6151363 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6151323 TAATTTTTTT
6151333 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6151364 CAGCAGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6158982 original size:18 final size:18
Alignment explanation
Indices: 6158959--6158996 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6158949 TCAGATATTA
6158959 TAGAACATCAATTACCAT
1 TAGAACATCAATTACCAT
* *
6158977 TAGAACATCGATTGCCAT
1 TAGAACATCAATTACCAT
6158995 TA
1 TA
6158997 CAATAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (18 bp):
TAGAACATCAATTACCAT
Found at i:6163148 original size:37 final size:37
Alignment explanation
Indices: 6163084--6163167 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 37
6163074 TAAAGGAAGC
* * *
6163084 CATTTGCAAAGTTTCAAAGCCTCTGTTTAAAAAAAGT
1 CATTTTCAAAATTTCAAAACCTCTGTTTAAAAAAAGT
* * * *
6163121 CATTTTCAAAATTTCAAAATCTTTGTTTAGAAGAAGT
1 CATTTTCAAAATTTCAAAACCTCTGTTTAAAAAAAGT
*
6163158 AATTTTCAAA
1 CATTTTCAAA
6163168 CAAGATTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (37 bp):
CATTTTCAAAATTTCAAAACCTCTGTTTAAAAAAAGT
Found at i:6163187 original size:89 final size:89
Alignment explanation
Indices: 6163095--6163373 Score: 344
Period size: 89 Copynumber: 3.1 Consensus size: 89
6163085 ATTTGCAAAG
* ** * * * *
6163095 TTTCAAAGCCTCTGTTTAAAAAAAGTCATTTTCAAAATTTCAAAATCTTTGTTTAGAAGAAGTAA
1 TTTCAAAGCCTCTATTTAGGAAGAGCCATTTTCAAAATTTCAAAACCTTTGTTTAGAAGGAGTAA
*
6163160 TTTTCAAACAAGATTTTTTAAAAG
66 TTTTCAAACAAGATTTTTTAAAAA
* * * * *
6163184 TTTCAAAGCCTCTATTTAGGAAGAGCCATTTTCAACATTTCGAAACCTTTGCTTAGAGGGAGCAA
1 TTTCAAAGCCTCTATTTAGGAAGAGCCATTTTCAAAATTTCAAAACCTTTGTTTAGAAGGAGTAA
*
6163249 TTTTCAAACAAGATTTTATAAAAA
66 TTTTCAAACAAGATTTTTTAAAAA
* * * * *
6163273 TTTTAAAGCCTCTATTTAGGGAGAGCCATTTCCAAAGTTTCAAAACCTTAGTTTA-AATGGAGTA
1 TTTCAAAGCCTCTATTTAGGAAGAGCCATTTTCAAAATTTCAAAACCTTTGTTTAGAA-GGAGTA
* *
6163337 ATTTTCAAACAAAAATTTTTCAAAAA
65 ATTTTCAAAC-AAGATTTTTTAAAAA
6163363 TTTCAAAGCCT
1 TTTCAAAGCCT
6163374 TTGTTTAGAG
Statistics
Matches: 160, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
88 1 0.01
89 137 0.86
90 22 0.14
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (89 bp):
TTTCAAAGCCTCTATTTAGGAAGAGCCATTTTCAAAATTTCAAAACCTTTGTTTAGAAGGAGTAA
TTTTCAAACAAGATTTTTTAAAAA
Found at i:6163392 original size:142 final size:141
Alignment explanation
Indices: 6163212--6163540 Score: 416
Period size: 142 Copynumber: 2.3 Consensus size: 141
6163202 GGAAGAGCCA
* *
6163212 TTTTC-AACATTTCGAAACCTTTGCTTAGAGGGAGCAATTTTCAAACAAGATTTTATAAAAATTT
1 TTTTCAAAAATTTC-AAACCTTTGTTTAGAGGGAGCAATTTTCAAACAAGATTTTATAAAAATTT
* * *
6163276 TAAAGCCTCTATTT-AGGGAGAGCCATTTCCAAAGTTTCAAAACCT-TAGTTTAAATGGAGTAAT
65 CAAAGCCTCTATTTAAAGG-GAGCCATTTACAAAGTTTCAAAACCTCTA-TTTAAA-GGAGTAAT
6163339 TTTCAAACAA-AAAT
127 TTTCAAACAAGAAAT
* * *
6163353 TTTTCAAAAATTTCAAAGCCTTTGTTTAGAGGGAACAATTTTCAAACAAGATTTTTTAAAAGTTT
1 TTTTCAAAAATTTCAAA-CCTTTGTTTAGAGGGAGCAATTTTCAAACAAGATTTTATAAAAATTT
* * *
6163418 CAAAGCTTCTATTTAAAGGGAGCCATTTACAAAGTTTCAAAGCCTCTATTTAGAGGAGTAATTTT
65 CAAAGCCTCTATTTAAAGGGAGCCATTTACAAAGTTTCAAAACCTCTATTTAAAGGAGTAATTTT
* *
6163483 CAAGCAAGATAT
130 CAAACAAGAAAT
* * *
6163495 TTTT-AAAAAGTTTCAAAACCTCTATTTAGAGGGAGCCATTTTCAAA
1 TTTTCAAAAA-TTTC-AAACCTTTGTTTAGAGGGAGCAATTTTCAAA
6163541 GTCTCAAAAC
Statistics
Matches: 164, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
141 30 0.18
142 126 0.77
143 8 0.05
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (141 bp):
TTTTCAAAAATTTCAAACCTTTGTTTAGAGGGAGCAATTTTCAAACAAGATTTTATAAAAATTTC
AAAGCCTCTATTTAAAGGGAGCCATTTACAAAGTTTCAAAACCTCTATTTAAAGGAGTAATTTTC
AAACAAGAAAT
Found at i:6163573 original size:37 final size:37
Alignment explanation
Indices: 6163501--6163577 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
6163491 ATATTTTTAA
* * *
6163501 AAAGTTTCAAAACCTCTATTTAGAGGGAGCCATTTTC
1 AAAGTCTCAAAACCTCTATTTAGAGGGAACAATTTTC
*
6163538 AAAGTCTCAAAACCTCTATTTAGAGGGAATAATTTTC
1 AAAGTCTCAAAACCTCTATTTAGAGGGAACAATTTTC
6163575 AAA
1 AAA
6163578 CAAGATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (37 bp):
AAAGTCTCAAAACCTCTATTTAGAGGGAACAATTTTC
Found at i:6163600 original size:231 final size:229
Alignment explanation
Indices: 6163123--6163609 Score: 612
Period size: 231 Copynumber: 2.1 Consensus size: 229
6163113 AAAAAAGTCA
** *
6163123 TTTTCAAAATTTCAAAATCTTTGTTTAGAAGAAGTAATTTTCAAACAAGATTTTTTAAAAGTTTC
1 TTTTCAAAATTTCAAAGCCTTTGTTTAGAAGAAGCAATTTTCAAACAAGATTTTTTAAAAGTTTC
* * *
6163188 AAAGCCTCTATTTAGGAAGAGCCATTTTCAACATTTCGAAACCTTTGCTTAGAGGGAGCAATTTT
66 AAAGCCTCTATTTAGG-AGAGCCATTTACAACATTTCGAAACCTCTACTTAGAGGGAGCAATTTT
* * *
6163253 CAAACAAGATTTTATAAAAATTTTAAAGCCTCTATTTAGGGAGAGCCATTTCCAAAGTTTCAAAA
130 CAAACAAGATTTTATAAAAATTTCAAAACCTCTATTTAGGGAGAGCCATTTCCAAAGTCTCAAAA
* *
6163318 CCTTAGTTTAAATGGAGTAATTTTCAAACAAAAAT
195 CCTTAGTTTAAAGGGAATAATTTTCAAACAAAAAT
*
6163353 TTTTCAAAAATTTCAAAGCCTTTGTTTAGAGGGAA-CAATTTTCAAACAAGATTTTTTAAAAGTT
1 TTTTC-AAAATTTCAAAGCCTTTGTTTAGA-AGAAGCAATTTTCAAACAAGATTTTTTAAAAGTT
* * *
6163417 TCAAAGCTTCTATTTAAAGG-GAGCCATTTACAA-AGTTTC-AAAGCCTCTATTTAGA-GGAGTA
64 TCAAAGCCTCTATTT--AGGAGAGCCATTTACAACA-TTTCGAAA-CCTCTACTTAGAGGGAGCA
* * *
6163478 ATTTTCAAGCAAGATATTTTTAAAAAGTTTCAAAACCTCTATTTAGAGG-GAGCCATTTTCAAAG
125 ATTTTCAAACAAGAT-TTTATAAAAA-TTTCAAAACCTCTATTTAG-GGAGAGCCATTTCCAAAG
* *
6163542 TCTCAAAACCTCTA-TTTAGAGGGAATAATTTTCAAAC-AAGAT
187 TCTCAAAACCT-TAGTTTAAAGGGAATAATTTTCAAACAAAAAT
* *
6163584 TTTTTAAAAGTTTCAAAGCCTCTGTT
1 TTTTCAAAA-TTTCAAAGCCTTTGTT
6163610 AAAAAAGAAC
Statistics
Matches: 224, Mismatches: 22, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
230 32 0.14
231 121 0.54
232 64 0.29
233 7 0.03
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (229 bp):
TTTTCAAAATTTCAAAGCCTTTGTTTAGAAGAAGCAATTTTCAAACAAGATTTTTTAAAAGTTTC
AAAGCCTCTATTTAGGAGAGCCATTTACAACATTTCGAAACCTCTACTTAGAGGGAGCAATTTTC
AAACAAGATTTTATAAAAATTTCAAAACCTCTATTTAGGGAGAGCCATTTCCAAAGTCTCAAAAC
CTTAGTTTAAAGGGAATAATTTTCAAACAAAAAT
Found at i:6163634 original size:37 final size:37
Alignment explanation
Indices: 6163585--6163680 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 37
6163575 AAACAAGATT
*
6163585 TTTTAAAAGTTTCAAAGCCTCTGTTAAAAAAGAACCA
1 TTTTCAAAGTTTCAAAGCCTCTGTTAAAAAAGAACCA
* * * ****
6163622 TTTTCAAAGTTTCAAAGTCTCAGTTTAGGGGGAACCA
1 TTTTCAAAGTTTCAAAGCCTCTGTTAAAAAAGAACCA
*
6163659 TTTTCAAAGTTTCAAAACCTCT
1 TTTTCAAAGTTTCAAAGCCTCT
6163681 ATTTAGGGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (37 bp):
TTTTCAAAGTTTCAAAGCCTCTGTTAAAAAAGAACCA
Found at i:6163649 original size:89 final size:89
Alignment explanation
Indices: 6163353--6163666 Score: 389
Period size: 89 Copynumber: 3.5 Consensus size: 89
6163343 AAACAAAAAT
* * *
6163353 TTTTCAAAAATTTCAAAGCCTTTGTTTAGAGGGAACAATTTTCAAACAAGATTTTTTAAAAGTTT
1 TTTTC-AAAGTTTCAAAGCCTCTATTTAGAGGGAACAATTTTCAAACAAGATTTTTTAAAAGTTT
*
6163418 CAAAGCTTCTATTTAAAGGGAGCCA
65 CAAAGCCTCTATTTAAAGGGAGCCA
* ** *
6163443 TTTACAAAGTTTCAAAGCCTCTATTTAGA-GGAGTAATTTTCAAGCAAGATATTTTTAAAAAGTT
1 TTTTCAAAGTTTCAAAGCCTCTATTTAGAGGGAACAATTTTCAAACAAGAT-TTTTT-AAAAGTT
* *
6163507 TCAAAACCTCTATTTAGAGGGAGCCA
64 TCAAAGCCTCTATTTAAAGGGAGCCA
* * *
6163533 TTTTCAAAGTCTCAAAACCTCTATTTAGAGGGAATAATTTTCAAACAAGATTTTTTAAAAGTTTC
1 TTTTCAAAGTTTCAAAGCCTCTATTTAGAGGGAACAATTTTCAAACAAGATTTTTTAAAAGTTTC
* * ** *
6163598 AAAGCCTCTGTTAAAAAAGAACCA
66 AAAGCCTCTATTTAAAGGGAGCCA
* * *
6163622 TTTTCAAAGTTTCAAAGTCTC-AGTTTAGGGGGAACCATTTTCAAA
1 TTTTCAAAGTTTCAAAGCCTCTA-TTTAGAGGGAACAATTTTCAAA
6163667 GTTTCAAAAC
Statistics
Matches: 192, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
88 19 0.10
89 89 0.46
90 65 0.34
91 19 0.10
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (89 bp):
TTTTCAAAGTTTCAAAGCCTCTATTTAGAGGGAACAATTTTCAAACAAGATTTTTTAAAAGTTTC
AAAGCCTCTATTTAAAGGGAGCCA
Found at i:6163662 original size:126 final size:124
Alignment explanation
Indices: 6163501--6163787 Score: 353
Period size: 126 Copynumber: 2.3 Consensus size: 124
6163491 ATATTTTTAA
*
6163501 AAAGTTTCAAAACCTCTATTTAGAGGGAGCCATTTTCAAAGTCTCAAAACCTCTATTTAGAGGGA
1 AAAGTTTCAAAACCTCTATTTAGAGGGAACCATTTTCAAAGTCTCAAAACCTCTATTTAGAGGGA
* *
6163566 ATAATTTTCAAACAAGATTTTTTAAAAGTTTCAAAGCCTCTGTTAAAAAAGAACCATTTTC
66 ACAATTTTCAAACAAGATTATTT--AAGTTTCAAAGCCTCTGTTAAAAAAGAACCATTTTC
** * * *
6163627 AAAGTTTCAAAGTCTC-AGTTTAGGGGGAACCATTTTCAAAGTTTCAAAACCTCTATTTAGGGGG
1 AAAGTTTCAAAACCTCTA-TTTAGAGGGAACCATTTTCAAAGTCTCAAAACCTCTATTTAGAGGG
* * * * **** * *
6163691 AGCAATTTTCAAATAAGATTATTTAAGTTTCAAAGCCTTTGTTTAGGTGGAGCCATTTTA
65 AACAATTTTCAAACAAGATTATTTAAGTTTCAAAGCCTCTGTTAAAAAAGAACCATTTTC
6163751 AAAGTTTTCAAAACCTCTATTTAGA-GGAAGCCATTTT
1 AAAG-TTTCAAAACCTCTATTTAGAGGGAA-CCATTTT
6163788 TAAAAAAAAA
Statistics
Matches: 136, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
124 36 0.26
125 23 0.17
126 77 0.57
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (124 bp):
AAAGTTTCAAAACCTCTATTTAGAGGGAACCATTTTCAAAGTCTCAAAACCTCTATTTAGAGGGA
ACAATTTTCAAACAAGATTATTTAAGTTTCAAAGCCTCTGTTAAAAAAGAACCATTTTC
Found at i:6163686 original size:37 final size:37
Alignment explanation
Indices: 6163616--6163703 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
6163606 TGTTAAAAAA
**
6163616 GAACCATTTTCAAAGTTTCAAAGTCTCAGTTTAGGGG
1 GAACCATTTTCAAAGTTTCAAAACCTCAGTTTAGGGG
6163653 GAACCATTTTCAAAGTTTCAAAACCTCTA-TTTAGGGG
1 GAACCATTTTCAAAGTTTCAAAACCTC-AGTTTAGGGG
* *
6163690 GAGCAATTTTCAAA
1 GAACCATTTTCAAA
6163704 TAAGATTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 45 0.98
38 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (37 bp):
GAACCATTTTCAAAGTTTCAAAACCTCAGTTTAGGGG
Found at i:6164564 original size:145 final size:145
Alignment explanation
Indices: 6164395--6164734 Score: 407
Period size: 146 Copynumber: 2.3 Consensus size: 145
6164385 CCGAGCTTGG
**
6164395 ATTTTCATGAAACTTTTCAAATCTTAATTTCATAATATTTCATGACTTTTT-GTGCATTTGAAAT
1 ATTTTCATGAAACTTTTCAAATCTTAATTTCATAATATTTCATGA-TTTTTAACGCATTTGAAAT
* *
6164459 CACAGCAAAACCCCAAAAAGTATGAAATTACCAAAATACCCCTGTAAGGGTAATTTCATAATTTA
65 CACAGCAAAACCCCAAAAAGTATGAAATTACCAAAATACCCCTATAAAGGTAATTTCATAATTTA
* * **
6164524 GCCTTCTCGAA-CTTTA
130 ACATTC-CGAAGCTCGA
* * *
6164540 ATTTTCATGAAACTTTTGAGATCTTAATTTCATAATATTTTTATGATTTTTAACGCATTTGAAAT
1 ATTTTCATGAAACTTTTCAAATCTTAATTTCATAATA-TTTCATGATTTTTAACGCATTTGAAAT
* * ** * * * ** *
6164605 CATAGTAGTACCTCAAAAAGTGTGAAATTATCAAAATATTCCTATAAAGGTATTTTCATAATTTA
65 CACAGCAAAACCCCAAAAAGTATGAAATTACCAAAATACCCCTATAAAGGTAATTTCATAATTTA
*
6164670 ACATTCCTAAGCTCGA
130 ACATTCCGAAGCTCGA
* * *
6164686 ATTTTTATGAAACTTTTCATATCTTAATTTTATAATA-TTCATGATTTTT
1 ATTTTCATGAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTT
6164735 TATTTTTTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
144 11 0.07
145 43 0.26
146 111 0.67
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (145 bp):
ATTTTCATGAAACTTTTCAAATCTTAATTTCATAATATTTCATGATTTTTAACGCATTTGAAATC
ACAGCAAAACCCCAAAAAGTATGAAATTACCAAAATACCCCTATAAAGGTAATTTCATAATTTAA
CATTCCGAAGCTCGA
Found at i:6166973 original size:171 final size:171
Alignment explanation
Indices: 6166675--6167019 Score: 514
Period size: 171 Copynumber: 2.0 Consensus size: 171
6166665 TATTAAAATA
* *
6166675 AAATTAAAACAAATAATGAAAGAATGATAAATATTATATTTTTTTCATACACATATTTTGCTTTA
1 AAATTAAAACAAATAATGAAAGAATAATAAATATTATATTTCTTTCATACACATATTTTGCTTTA
* *
6166740 TTGTCTTGCATTATATGATCTTATGTGTAAATGAAATTTTCAATGATAGGACTCTTAGAAATCCA
66 TTATCTTGCATTATATGATCTTATGTGTAAATGAAATTTTCAATGATAGGACTCTAAGAAATCCA
* * *
6166805 AGCAATGATTCCTGATAATTCCTAAGTGAGAAAAAATTTTT
131 AGCAATGATTCCCGAGAATTCCTAAGTGAGAAAAAATTTCT
* **
6166846 AAATTAAAATAAATAATGAAAGAATAATAAATATTATATTTCTTTCATATGCATATTTTGCTTTA
1 AAATTAAAACAAATAATGAAAGAATAATAAATATTATATTTCTTTCATACACATATTTTGCTTTA
*
6166911 TTATCTTGCATTATATGATCTTATGTGTAAATGAAAATTTT-GATGAT-GAGACTCTAAGAAATC
66 TTATCTTGCATTATATGATCTTATGTGTAAATG-AAATTTTCAATGATAG-GACTCTAAGAAATC
* * * * *
6166974 CTAGTAGTGATTCCCGAGAATTCTTAAGTGAGAAAATATTTCT
129 CAAGCAATGATTCCCGAGAATTCCTAAGTGAGAAAAAATTTCT
6167017 AAA
1 AAA
6167020 AGTTATTAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
170 1 0.01
171 148 0.95
172 7 0.04
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (171 bp):
AAATTAAAACAAATAATGAAAGAATAATAAATATTATATTTCTTTCATACACATATTTTGCTTTA
TTATCTTGCATTATATGATCTTATGTGTAAATGAAATTTTCAATGATAGGACTCTAAGAAATCCA
AGCAATGATTCCCGAGAATTCCTAAGTGAGAAAAAATTTCT
Found at i:6171892 original size:17 final size:17
Alignment explanation
Indices: 6171828--6171898 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
6171818 TTTGCCCATT
* *
6171828 TTTCTTTCTTTTCTTCC
1 TTTCTTTCTTTTTTTAC
6171845 TTTCTTTGC-TTTTTTAC
1 TTTCTTT-CTTTTTTTAC
** *
6171862 -CACTTTATTGTTTTTAC
1 TTTCTTTCTT-TTTTTAC
*
6171879 TTTCTTTCTTTTTTTTC
1 TTTCTTTCTTTTTTTAC
6171896 TTT
1 TTT
6171899 TACAAGCTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
16 5 0.12
17 29 0.71
18 7 0.17
ACGTcount: A:0.06, C:0.20, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTTTCTTTTTTTAC
Found at i:6172714 original size:21 final size:21
Alignment explanation
Indices: 6172684--6172723 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6172674 AAATGTCCCA
* *
6172684 TGAATGTTTTGTTGAAGCTAT
1 TGAATCTTTTGTTCAAGCTAT
*
6172705 TGAATCTTTTTTTCAAGCT
1 TGAATCTTTTGTTCAAGCT
6172724 CTTATTCATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (21 bp):
TGAATCTTTTGTTCAAGCTAT
Found at i:6172829 original size:40 final size:40
Alignment explanation
Indices: 6172785--6172860 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
6172775 ATATGTAAAA
6172785 GAAAAACATAACCGAAT-GAAC-AAATGAACAAATGAATAAG
1 GAAAAAC-TAACC-AATAGAACTAAATGAACAAATGAATAAG
* *
6172825 GAAAAACTAAGCAATATAACTAAATGAACAAATGAA
1 GAAAAACTAACCAATAGAACTAAATGAACAAATGAA
6172861 ATCAACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 3 0.09
39 7 0.22
40 22 0.69
ACGTcount: A:0.61, C:0.12, G:0.13, T:0.14
Consensus pattern (40 bp):
GAAAAACTAACCAATAGAACTAAATGAACAAATGAATAAG
Found at i:6176602 original size:28 final size:28
Alignment explanation
Indices: 6176565--6176623 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
6176555 AAACAGTAAT
*
6176565 AAAAGTTACTATAACTATAATTGAAAAA
1 AAAAGTTACTATAACTACAATTGAAAAA
* * *
6176593 AAAAGTTACTGTAGCTACGATTGAAAAA
1 AAAAGTTACTATAACTACAATTGAAAAA
6176621 AAA
1 AAA
6176624 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.25
Consensus pattern (28 bp):
AAAAGTTACTATAACTACAATTGAAAAA
Found at i:6181925 original size:2 final size:2
Alignment explanation
Indices: 6181918--6181943 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6181908 AGGTTCCTTT
6181918 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
6181944 CAATTTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6183227 original size:21 final size:21
Alignment explanation
Indices: 6183188--6183227 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6183178 AACATGCAAG
* *
6183188 AACTTAAACCCTAATCTAACA
1 AACTTAAAACCTAAACTAACA
*
6183209 AACTTAAAACTTAAACTAA
1 AACTTAAAACCTAAACTAA
6183228 GAATGCTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
AACTTAAAACCTAAACTAACA
Found at i:6185301 original size:22 final size:21
Alignment explanation
Indices: 6185273--6185345 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
6185263 AAAAATAGAG
*
6185273 AAGGAAGGAAGAGAGAAGAAGA
1 AAGGAA-GAAAAGAGAAGAAGA
6185295 AAGGAAGAAAA-AGAAAGAAGGA
1 AAGGAAGAAAAGAG-AAGAA-GA
* *
6185317 AAAGAA-CAAAGAGAAGAA-A
1 AAGGAAGAAAAGAGAAGAAGA
6185336 GAAGGAAGAA
1 -AAGGAAGAA
6185346 GGATAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
19 1 0.02
20 7 0.17
21 18 0.44
22 15 0.37
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGGAAGAAAAGAGAAGAAGA
Found at i:6185303 original size:14 final size:13
Alignment explanation
Indices: 6185271--6185346 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 13
6185261 AGAAAAATAG
*
6185271 AGAAGGAAGGAAGA
1 AGAA-GAAGAAAGA
6185285 GAGAAGAAGAAAGGA
1 -AGAAGAAGAAA-GA
*
6185300 AGAAAAAGAAAGA
1 AGAAGAAGAAAGA
6185313 AGGAA-AAGAACA-A
1 A-GAAGAAGAA-AGA
6185326 AG-AGAAGAAAGA
1 AGAAGAAGAAAGA
6185338 AGGAAGAAG
1 A-GAAGAAG
6185347 GATAAAGAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
11 2 0.04
12 8 0.15
13 11 0.21
14 25 0.48
15 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.34, T:0.00
Consensus pattern (13 bp):
AGAAGAAGAAAGA
Found at i:6185312 original size:18 final size:18
Alignment explanation
Indices: 6185277--6185336 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
6185267 ATAGAGAAGG
*
6185277 AAGGAAGAGAGAAG-AAGA
1 AAGGAAGA-AAAAGAAAGA
6185295 AAGGAAGAAAAAGAAAG-
1 AAGGAAGAAAAAGAAAGA
6185312 AAGGAAAAGAACAAAGAGAAGA
1 AAGG--AAGAA-AAAGA-AAGA
6185334 AAG
1 AAG
6185337 AAGGAAGAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 8 0.23
18 11 0.31
19 5 0.14
20 5 0.14
21 3 0.09
22 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.32, T:0.00
Consensus pattern (18 bp):
AAGGAAGAAAAAGAAAGA
Done.