Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold236
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: 248862
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 3
Found at i:82975 original size:69 final size:66
Alignment explanation
Indices: 82748--83188 Score: 256
Period size: 63 Copynumber: 6.7 Consensus size: 66
82738 AAAGGCGTCT
* * * * * *
82748 TGCTTTTTGAGGACTAAAAAAAAATGCCACCAAATTGTATGAGC-TTTT-AAAAAAAA-AGTGTC
1 TGCTCTTTGAGGACTAAAAAAGAGTGCCACCAACTTGTGTGAGCTTTTTAAAAAAAAATAATGTC
*
82810 A
66 C
*
82811 TGCTCTTTGAGGACTAAAACAAGAGTGCCATCAACTTGTGTGAG-TTTTTAAAAAGAAAATAAAA
1 TGCTCTTTGAGGACTAAAA-AAGAGTGCCACCAACTTGTGTGAGCTTTTTAAAAA-AAAAT----
82875 AAGGTGTCC
60 AA--TGTCC
*
82884 TGCTCTTTGAGGACTAAAAAAGGAGTGCCACCAACTTGTGTGGGCCATTTTTAAAAAAAAATAAT
1 TGCTCTTTGAGGACTAAAAAA-GAGTGCCACCAACTTGTGTGAG-C-TTTTTAAAAAAAAATAAT
82949 GTCC
63 GTCC
* * * * * * **
82953 TACTATTTGAGGACTAAAAAAGGAGTGCTATCAGCTTGTGTGGGC-TTTTAAAAAAGGA-AA-GC
1 TGCTCTTTGAGGACTAAAAAA-GAGTGCCACCAACTTGTGTGAGCTTTTTAAAAAAAAATAATG-
83015 ATCC
64 -TCC
* * * ** * *** *
83019 TCCTTTTTGAGGACTAAAAATGAGTGCCA-TTACTTGTGT-AG-GTTTTAAAATGGAA-AAGGCA
1 TGCTCTTTGAGGACTAAAAAAGAGTGCCACCAACTTGTGTGAGCTTTTTAAAAAAAAATAATG--
*
83080 TCT
64 TCC
* * * * *
83083 TGTTTTTTTGAGGACT--AAAAG-GTGCCACCAGCTTGCGTGGGC--TTT---AAAAAA-AATGT
1 TG-CTCTTTGAGGACTAAAAAAGAGTGCCACCAACTTGTGTGAGCTTTTTAAAAAAAAATAATGT
*
83139 CT
65 CC
* *
83141 TGCTCTTTGAGGACTAAAAAAAGAGTGCCACCAACTTGTCTGGGCTTT
1 TGCTCTTTGAGGACT-AAAAAAGAGTGCCACCAACTTGTGTGAGCTTT
83189 AAAAAGGAAA
Statistics
Matches: 303, Mismatches: 46, Indels: 58
0.74 0.11 0.14
Matches are distributed among these distances:
57 11 0.04
58 5 0.02
60 11 0.04
61 18 0.06
62 6 0.02
63 45 0.15
64 38 0.13
65 25 0.08
66 36 0.12
68 1 0.00
69 44 0.15
71 3 0.01
72 2 0.01
73 43 0.14
75 5 0.02
76 10 0.03
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (66 bp):
TGCTCTTTGAGGACTAAAAAAGAGTGCCACCAACTTGTGTGAGCTTTTTAAAAAAAAATAATGTC
C
Found at i:82991 original size:142 final size:136
Alignment explanation
Indices: 82737--83006 Score: 326
Period size: 142 Copynumber: 1.9 Consensus size: 136
82727 CTTTAAAAGG
* *
82737 AAAAGGCGTCTTGCTTTTTGAGGACTAAAAAAAAATGCCACCAAATTGTATGAGCTTTTAAAAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAAAAATGCCACCAAATTGTATGAGCTTTTAAAAAA
* * * *
82802 AAAGTGTCATGCTCTTTGAGGACTAAAACAAGAGTGCCATCAACTTGTGTGAGTTTTTAAAAAGA
66 AAAATGTCATACTATTTGAGGACTAAAACAAGAGTGCCATCAACTTGTGTGAGCTTTTAAAAAGA
82867 AAATAA
131 AAATAA
* * * * * *
82873 AAAAGGTGTCCTGCTCTTTGAGGACTAAAAAAGGAGTGCCACCAACTTGTGTGGGCCATTTTTAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAA-AAATGCCACCAAATTGTATGAG-C--TTTT-A
* * * *
82938 AAAAAAATAATGTCCTACTATTTGAGGACTAAAA-AAGGAGTGCTATCAGCTTGTGTGGGCTTTT
61 AAAAAAA-AATGTCATACTATTTGAGGACTAAAACAA-GAGTGCCATCAACTTGTGTGAGCTTTT
83002 AAAAA
124 AAAAA
83007 AGGAAAGCAT
Statistics
Matches: 111, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
136 29 0.26
137 17 0.15
138 1 0.01
140 4 0.04
141 10 0.09
142 50 0.45
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (136 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTAAAAAAAAATGCCACCAAATTGTATGAGCTTTTAAAAAA
AAAATGTCATACTATTTGAGGACTAAAACAAGAGTGCCATCAACTTGTGTGAGCTTTTAAAAAGA
AAATAA
Found at i:83090 original size:64 final size:66
Alignment explanation
Indices: 82889--83492 Score: 201
Period size: 65 Copynumber: 9.2 Consensus size: 66
82879 TGTCCTGCTC
* * * **
82889 TTTGAGGACTAAAAAAGGAGTGCCACCAACTTGTGTGGGCCATTTTTAAAAAA--AAATAATGTC
1 TTTGAGGACT-AAAAAGGAGTGCCATCAGCTTGTGTAGG-C--TTTTAAAAAAGGAAAGCA--TC
* *
82952 CT-ACTA
60 CTCTCTT
* *
82958 TTTGAGGACTAAAAAAGGAGTGCTATCAGCTTGTGTGGGCTTTTAAAAAAGGAAAGCATCCTC-C
1 TTTGAGGACT-AAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTTAAAAAAGGAAAGCATCCTCTC
83022 TT
65 TT
* * * * *
83024 TTTGAGGACTAAAAATGAGTGCCATTA-CTTGTGTAGG-TTTT-AAAATGGAAAAGGCATCTTGT
1 TTTGAGGACTAAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTTAAAAAAGG-AAA-GCATCCTCT
*
83086 TTT
64 CTT
* * * *
83089 TTTGAGGACT-AAAA-G-GTGCCACCAGCTTGCGTGGGC-TTTAAAAAA--AATG--T-CT-TGC
1 TTTGAGGACTAAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTTAAAAAAGGAAAGCATCCTCT-C
*
83144 TC
65 TT
* * * * * *
83146 TTTGAGGACTAAAAAAAGAGTGCCACCAACTTGTCTGGGC-TTT-AAAAAGGAAAAGGCGT--TC
1 TTTGAGGACT-AAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTTAAAAAAGG-AAA-GCATCCTC
*
83207 TACTC
63 T-CTT
* * * * ** ** *
83212 TTTAAGGACT-AAAA-G-GTGCCACCAGCTTGAGTAGGCTTTAAAAGAAAAAAAAAGTGTCCTAT
1 TTTGAGGACTAAAAAGGAGTGCCATCAGCTTGTGTAGGCTTT-TAA-AAAAGGAAAGCATCCTCT
83274 -TT
64 CTT
* * * * * * *
83276 TTTAAGGACT-AAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGATTTAAAAGAAAAAGAAAAGCG
1 TTTGAGGACTAAAAAGG----A-GTGCCATCAGCTTGTGTAGGCTTT--TA-AAAAAGGAAAGCA
** *
83340 TCCTGACTA
58 TCCTCTCTT
* * * * * * * * *
83349 TTTGAGGACTAAAAATGAGTGTCACCAACTTGTATGGGC-TTTAAAAATGAAAAGACATCCT-AC
1 TTTGAGGACTAAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTTAAAAAAGGAAAG-CATCCTCTC
83412 TT
65 TT
* * *
83414 TTTAAGGACT-AAAA-G-GTGCCTTCAGCTTGTGTAGGCTTTTAAAGAAAAAGAAAAGCATCCT-
1 TTTGAGGACTAAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTT--A-AAAAAGGAAAGCATCCTC
*
83475 GCTT
63 TCTT
83479 TTTGAGGACTAAAA
1 TTTGAGGACTAAAA
83493 GGTAAAATGT
Statistics
Matches: 424, Mismatches: 67, Indels: 91
0.73 0.12 0.16
Matches are distributed among these distances:
56 1 0.00
57 12 0.03
58 1 0.00
59 4 0.01
60 7 0.02
61 23 0.05
62 45 0.11
63 28 0.07
64 50 0.12
65 73 0.17
66 65 0.15
68 7 0.02
69 53 0.12
70 1 0.00
71 21 0.05
72 17 0.04
73 11 0.03
74 5 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (66 bp):
TTTGAGGACTAAAAAGGAGTGCCATCAGCTTGTGTAGGCTTTTAAAAAAGGAAAGCATCCTCTCT
T
Found at i:83249 original size:62 final size:57
Alignment explanation
Indices: 83093--83260 Score: 165
Period size: 61 Copynumber: 2.8 Consensus size: 57
83083 TGTTTTTTTG
* * * * *
83093 AGGACTAAAAGGTGCCACCAGCTTGCGTGGGCTTTAAAAAAAATGTCTTGCTCTTTG
1 AGGACTAAAAGGTGCCACCAGCTTGAGTGGGCTTTAAAAAAAAAGGCTTACTCTTTA
* **
83150 AGGACTAAAAAAAGAGTGCCACCAACTTGTCTGGGCTTTAAAAAGGAAAAGGCGTTCTACTCTTT
1 AGGACT---AAAAG-GTGCCACCAGCTTGAGTGGGCTTTAAAAA--AAAAGGC--T-TACTCTTT
83215 A
57 A
*
83216 AGGACTAAAAGGTGCCACCAGCTTGAGTAGGCTTTAAAAGAAAAA
1 AGGACTAAAAGGTGCCACCAGCTTGAGTGGGCTTTAAAA-AAAAA
83261 AAAAGTGTCC
Statistics
Matches: 90, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
57 6 0.07
60 5 0.06
61 30 0.33
62 24 0.27
63 11 0.12
65 1 0.01
66 13 0.14
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (57 bp):
AGGACTAAAAGGTGCCACCAGCTTGAGTGGGCTTTAAAAAAAAAGGCTTACTCTTTA
Found at i:83301 original size:71 final size:73
Alignment explanation
Indices: 83221--83362 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 73
83211 CTTTAAGGAC
* * * *
83221 TAAAAGGTGCCACCAGCTTGAGTAGGCTTTAAAAGAAAAA-AAAAGTGTCCT-ATTTTTTAAGGA
1 TAAAAGGTGCCACCAGCTTGAGTAGGATTTAAAAGAAAAAGAAAAGCGTCCTGACTATTTAAGGA
83284 CTAAAAGG
66 CTAAAAGG
* * *
83292 TAAAAGGTGCCACCAGCTTGTGTGGGATTTAAAAGAAAAAGAAAAGCGTCCTGACTATTTGAGGA
1 TAAAAGGTGCCACCAGCTTGAGTAGGATTTAAAAGAAAAAGAAAAGCGTCCTGACTATTTAAGGA
83357 CTAAAA
66 CTAAAA
83363 ATGAGTGTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 37 0.60
72 10 0.16
73 15 0.24
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (73 bp):
TAAAAGGTGCCACCAGCTTGAGTAGGATTTAAAAGAAAAAGAAAAGCGTCCTGACTATTTAAGGA
CTAAAAGG
Found at i:83473 original size:65 final size:65
Alignment explanation
Indices: 83292--83495 Score: 218
Period size: 65 Copynumber: 3.1 Consensus size: 65
83282 GACTAAAAGG
* * * *
83292 TAAAAGGTGCCACCAGCTTGTGTGGGATTTAAAAGAAAAAGAAAAGCGTCCTGACTATTTGAGGA
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAAGAAAAAGAAAAGCATCCT-ACTTTTTGAGGA
83357 C
65 C
* * * * *
83358 TAAAAATGAGTGTCACCAACTTGTATGGGC-TTT--A-AAAATGAAAAGACATCCTACTTTTTAA
1 T-AAAA-G-GTGCCACCAGCTTGTGTGGGCTTTTAAAGAAAAAGAAAAG-CATCCTACTTTTTGA
83419 GGAC
62 GGAC
** * *
83423 TAAAAGGTGCCTTCAGCTTGTGTAGGCTTTTAAAGAAAAAGAAAAGCATCCTGCTTTTTGAGGAC
1 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAAGAAAAAGAAAAGCATCCTACTTTTTGAGGAC
83488 TAAAAGGT
1 TAAAAGGT
83496 AAAATGTTTA
Statistics
Matches: 112, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
62 15 0.13
63 4 0.04
64 4 0.04
65 48 0.43
66 17 0.15
67 4 0.04
68 3 0.03
69 17 0.15
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (65 bp):
TAAAAGGTGCCACCAGCTTGTGTGGGCTTTTAAAGAAAAAGAAAAGCATCCTACTTTTTGAGGAC
Found at i:86560 original size:20 final size:20
Alignment explanation
Indices: 86532--86580 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
86522 CAACTAGTTG
*
86532 TATGAGGAAGTGATA-TCCAT
1 TATGAGGAAGTCA-ACTCCAT
*
86552 TATGTGGAAGTCAACTCCAT
1 TATGAGGAAGTCAACTCCAT
86572 TATGAGGAA
1 TATGAGGAA
86581 TGGTGATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (20 bp):
TATGAGGAAGTCAACTCCAT
Found at i:89367 original size:21 final size:21
Alignment explanation
Indices: 89341--89416 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
89331 CTGCCAAGAA
*
89341 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
89362 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
89382 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
89403 ATGTATCGATACAT
1 ATGTATCGATACAT
89417 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:89387 original size:20 final size:20
Alignment explanation
Indices: 89362--89434 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
89352 CATCTTTTTT
89362 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
89382 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
89403 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
89423 ATGTATCGATAC
1 ATGTATCGATAC
89435 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:89398 original size:41 final size:41
Alignment explanation
Indices: 89341--89434 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
89331 CTGCCAAGAA
*
89341 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
89382 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
89423 ATGTATCGATAC
1 ATGTATCGATAC
89435 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:90044 original size:48 final size:48
Alignment explanation
Indices: 89989--90084 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
89979 AAATTTTACG
*
89989 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACACATTCTCTCCT
90037 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACACATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACACATTCTCTCCT
90085 TTATCTCCCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.26, C:0.29, G:0.07, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACACATTCTCTCCT
Found at i:91944 original size:13 final size:13
Alignment explanation
Indices: 91926--91964 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
91916 ATAATCACCC
*
91926 TGTATCGATACAG
1 TGTATCGATACAA
91939 TGTATCGATACAA
1 TGTATCGATACAA
91952 TGTATCGATACAA
1 TGTATCGATACAA
91965 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:91975 original size:20 final size:20
Alignment explanation
Indices: 91950--92028 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
91940 GTATCGATAC
91950 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
91970 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
91995 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
92015 CATGTATCGATACA
1 AATGTATCGATACA
92029 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:94064 original size:15 final size:15
Alignment explanation
Indices: 94044--94074 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
94034 ATTTCGTTTG
*
94044 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
94059 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
94074 G
1 G
94075 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:98227 original size:21 final size:21
Alignment explanation
Indices: 98201--98276 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
98191 CTGCCAAGAA
*
98201 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
98222 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
98242 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
98263 ATGTATCGATACAT
1 ATGTATCGATACAT
98277 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:98247 original size:20 final size:20
Alignment explanation
Indices: 98222--98294 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
98212 CATCTTTTTT
98222 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
98242 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
98263 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
98283 ATGTATCGATAC
1 ATGTATCGATAC
98295 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:98258 original size:41 final size:41
Alignment explanation
Indices: 98201--98294 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
98191 CTGCCAAGAA
*
98201 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
98242 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
98283 ATGTATCGATAC
1 ATGTATCGATAC
98295 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:105563 original size:19 final size:18
Alignment explanation
Indices: 105541--105584 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
105531 ACAAAAACGA
105541 AAACAACACCAAAAAAAAC
1 AAACAA-ACCAAAAAAAAC
**
105560 AAACAAATGAAAAAAAAC
1 AAACAAACCAAAAAAAAC
105578 AAACAAA
1 AAACAAA
105585 ATGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.77, C:0.18, G:0.02, T:0.02
Consensus pattern (18 bp):
AAACAAACCAAAAAAAAC
Found at i:105572 original size:18 final size:19
Alignment explanation
Indices: 105551--105595 Score: 83
Period size: 18 Copynumber: 2.4 Consensus size: 19
105541 AAACAACACC
105551 AAAAAAAACAAAC-AAATG
1 AAAAAAAACAAACAAAATG
105569 AAAAAAAACAAACAAAATG
1 AAAAAAAACAAACAAAATG
105588 AAAAAAAA
1 AAAAAAAA
105596 GTGCAAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.82, C:0.09, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAAAACAAACAAAATG
Found at i:106950 original size:62 final size:60
Alignment explanation
Indices: 106873--107001 Score: 163
Period size: 62 Copynumber: 2.1 Consensus size: 60
106863 GACTTCGTGC
* *
106873 CACCTTTCCTAAAAGTCCACTG-CTCAGTGGCATCTTTTTTCTTCTAAGTTAATGACTCAGTGG
1 CACCCTTCCTAAAAGTCCAC-GACTCAGTGGCAACTTTTTTC--C-AAGTTAATGACTCAGTGG
* *
106936 CACCCTTCCT-AAAGTTCACGACTCAGTGGCAACTTTTTTCCAAGTTCATGACTCAGTGG
1 CACCCTTCCTAAAAGTCCACGACTCAGTGGCAACTTTTTTCCAAGTTAATGACTCAGTGG
*
106995 CATCCTT
1 CACCCTT
107002 TTTCTTCTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
59 23 0.38
60 1 0.02
61 1 0.02
62 26 0.43
63 9 0.15
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (60 bp):
CACCCTTCCTAAAAGTCCACGACTCAGTGGCAACTTTTTTCCAAGTTAATGACTCAGTGG
Found at i:106983 original size:30 final size:30
Alignment explanation
Indices: 106947--107005 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
106937 ACCCTTCCTA
*
106947 AAGTTCACGACTCAGTGGCAACTTTTTTCC
1 AAGTTCACGACTCAGTGGCAACCTTTTTCC
* *
106977 AAGTTCATGACTCAGTGGCATCCTTTTTC
1 AAGTTCACGACTCAGTGGCAACCTTTTTC
107006 TTCTAAGACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (30 bp):
AAGTTCACGACTCAGTGGCAACCTTTTTCC
Found at i:107152 original size:31 final size:32
Alignment explanation
Indices: 107086--107165 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
107076 CTTAAAAGTC
* * * *
107086 CACAACCCTGTGGCATCTTTTCTTTTTAAGTT
1 CACAACTCTGTGGCATTTTTTCTCTTTAAGCT
*
107118 CACAGCTCTGTGGCATTTTTTC-CTTTAAGCT
1 CACAACTCTGTGGCATTTTTTCTCTTTAAGCT
*
107149 CACAACTCTATGGCATT
1 CACAACTCTGTGGCATT
107166 CTTCTAAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 22 0.54
32 19 0.46
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (32 bp):
CACAACTCTGTGGCATTTTTTCTCTTTAAGCT
Found at i:107181 original size:27 final size:27
Alignment explanation
Indices: 107149--107237 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
107139 CCTTTAAGCT
107149 CACAACTCTATGGCATTCTTCTAAGTC
1 CACAACTCTATGGCATTCTTCTAAGTC
*
107176 CACAACTCTATGACATTCTTCTAAGTC
1 CACAACTCTATGGCATTCTTCTAAGTC
* * ** *
107203 CATAACTCTGTGGCACCCTTCAAAGTC
1 CACAACTCTATGGCATTCTTCTAAGTC
*
107230 CACGACTC
1 CACAACTC
107238 AGTGGAATCT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (27 bp):
CACAACTCTATGGCATTCTTCTAAGTC
Found at i:107242 original size:27 final size:29
Alignment explanation
Indices: 107193--107270 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 29
107183 CTATGACATT
** * *
107193 CTTCTAAGTCCATAACTCTGTGGCA-C-C
1 CTTCTAAGTCCACGACTCAGTGGAATCTC
*
107220 CTTCAAAGTCCACGACTCAGTGGAATCTC
1 CTTCTAAGTCCACGACTCAGTGGAATCTC
*
107249 TTCTCTAAGTCCACGACTCAGT
1 CT-TCTAAGTCCACGACTCAGT
107271 TGCGTCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 20 0.49
28 1 0.02
29 2 0.05
30 18 0.44
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (29 bp):
CTTCTAAGTCCACGACTCAGTGGAATCTC
Found at i:107493 original size:66 final size:65
Alignment explanation
Indices: 107254--107623 Score: 322
Period size: 66 Copynumber: 5.8 Consensus size: 65
107244 ATCTCTTCTC
* * * * * * * *
107254 TAAGTCCACGACTCAGTTGCGTCTTTTTTCTTCTAAGTTCATAACTCCGTGGCA-CTTTTTCCTT
1 TAAGTCCACAACTCAGTGGC-ACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTT
107318 T
65 T
* * *
107319 TAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGTA-C-----CCTTC
1 TAAGTCCACAACTCAGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
* * * * * * * *
107378 AAAGTCCACGATTCAGTGGCATCTCTT-C-TCTAAGTCCACAATTCAGTGGCATCCTTTTT-CTT
1 TAAGTCCACAACTCAGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCCTT
107440 T
65 T
* *
107441 TAAGTCCACAACTCAATGGCACCTTTTCCTTTTTAGGTCCACAACTCCGTGGCACCTTTTCTCCT
1 TAAGTCCACAACTCAGTGGCACCTTTTCC-TTTTAAGTCCACAACTCCGTGGCACCTTTT-TCCT
107506 TT
64 TT
* * * * *
107508 TTAGTCCACAACTCTGTGGCACCTTTTTCTTTTAAGTCAACAACTTCGTGGCACCTTTTTTCCTT
1 TAAGTCCACAACTCAGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACC-TTTTTCCTT
107573 T
65 T
* *
107574 TAAGTCCATAACTCTA-TGGCA-C----CCTTTGAAGTCCACAACTCCGTGGCACC
1 TAAGTCCACAACTC-AGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
107624 CTTCAAAGCC
Statistics
Matches: 245, Mismatches: 46, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
57 19 0.08
58 1 0.00
59 26 0.11
61 24 0.10
63 24 0.10
64 28 0.11
65 24 0.10
66 66 0.27
67 33 0.13
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (65 bp):
TAAGTCCACAACTCAGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
Found at i:107520 original size:34 final size:33
Alignment explanation
Indices: 107254--107596 Score: 277
Period size: 32 Copynumber: 10.7 Consensus size: 33
107244 ATCTCTTCTC
* * ** * *
107254 TAAGTCCACGACTCAGTTGCGTCTTTTTTCTTC
1 TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
* * *
107287 TAAGTTCATAACTCCGTGGCA-CTTTTTCCTTT
1 TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
*
107319 TAAGTCCACAACTCCGTGGCACC-TTTTCCTTT
1 TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
* * *
107351 TAAGTCCACAACTCCGTGGTA-C-----CCTTC
1 TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
* * * * * *
107378 AAAGTCCACGATTCAGTGGCATC-TCTT-C-TC
1 TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
*
107408 TAAGTCCACAATTCAGTGGCATCCTTTTT-CTTT
1 TAAGTCCACAACTCAGTGGCA-CCTTTTTCCTTT
*
107441 TAAGTCCACAACTCAATGGCACC-TTTTCCTTTT
1 TAAGTCCACAACTCAGTGGCACCTTTTTCC-TTT
* *
107474 TAGGTCCACAACTCCGTGGCACCTTTTCTCCTTT
1 TAAGTCCACAACTCAGTGGCACCTTTT-TCCTTT
* *
107508 TTAGTCCACAACTCTGTGGCACCTTTTT-CTTT
1 TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
*
107540 TAAGTCAACAACTTC-GTGGCACCTTTTTTCCTTT
1 TAAGTCCACAAC-TCAGTGGCACC-TTTTTCCTTT
*
107574 TAAGTCCATAACTCTA-TGGCACC
1 TAAGTCCACAACTC-AGTGGCACC
107597 CTTTGAAGTC
Statistics
Matches: 258, Mismatches: 34, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
27 20 0.08
28 1 0.00
30 21 0.08
31 7 0.03
32 86 0.33
33 69 0.27
34 51 0.20
35 3 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (33 bp):
TAAGTCCACAACTCAGTGGCACCTTTTTCCTTT
Found at i:107607 original size:27 final size:27
Alignment explanation
Indices: 107569--107626 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
107559 CACCTTTTTT
* * *
107569 CCTTTTAAGTCCATAACTCTATGGCAC
1 CCTTTGAAGTCCACAACTCCATGGCAC
*
107596 CCTTTGAAGTCCACAACTCCGTGGCAC
1 CCTTTGAAGTCCACAACTCCATGGCAC
107623 CCTT
1 CCTT
107627 CAAAGCCCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CCTTTGAAGTCCACAACTCCATGGCAC
Found at i:107636 original size:27 final size:27
Alignment explanation
Indices: 107590--107669 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 27
107580 CATAACTCTA
** * *
107590 TGGCACCCTTTGAAGTCCACAACTCCG
1 TGGCACCCTTCAAAGCCCACAACTCAG
*
107617 TGGCACCCTTCAAAGCCCACACAAGTCAG
1 TGGCACCCTTCAAAG-CC-CACAACTCAG
107646 TGGCAACCCTTTCCAAAGCCCACA
1 TGGC-ACCC-TT-CAAAGCCCACA
107670 CAAGTTGGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 13 0.30
28 1 0.02
29 12 0.28
30 8 0.19
31 4 0.09
32 5 0.12
ACGTcount: A:0.28, C:0.39, G:0.16, T:0.17
Consensus pattern (27 bp):
TGGCACCCTTCAAAGCCCACAACTCAG
Found at i:107668 original size:32 final size:30
Alignment explanation
Indices: 107607--107792 Score: 194
Period size: 31 Copynumber: 6.0 Consensus size: 30
107597 CTTTGAAGTC
* * *
107607 CACAACTCCGTGGC-ACCCTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTTCAAAGCCCA
*
107636 CACAAGTCAGTGGCAACCCTTTCCAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTT-CAAAGCCCA
*
107668 CACAAGTTGGTGGCAACCTCTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCT-TTCAAAGCCCA
* * *
107699 CACAAGTCGGTGGCAACCTTTTTAAAGACCT
1 CACAAGTCGGTGGCAACC-TTTCAAAGCCCA
*
107730 CACAAGTTGGTGGCAACCTTCTTCAAAGCCCA
1 CACAAGTCGGTGGCAACC-T-TTCAAAGCCCA
* * *
107762 CACAAGTTGGTGGCATCTCTTTCTAAGCCCA
1 CACAAGTCGGTGGCAAC-CTTTCAAAGCCCA
107793 ATGTCGTTGG
Statistics
Matches: 135, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
29 12 0.09
30 1 0.01
31 70 0.52
32 51 0.38
33 1 0.01
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (30 bp):
CACAAGTCGGTGGCAACCTTTCAAAGCCCA
Found at i:107697 original size:31 final size:31
Alignment explanation
Indices: 107616--107776 Score: 211
Period size: 31 Copynumber: 5.2 Consensus size: 31
107606 CCACAACTCC
**
107616 GTGGC-ACC-CTTCAAAGCCCACACAAGTCA
1 GTGGCAACCTCTTCAAAGCCCACACAAGTTG
107645 GTGGCAACC-CTTTCCAAAGCCCACACAAGTTG
1 GTGGCAACCTC-TT-CAAAGCCCACACAAGTTG
*
107677 GTGGCAACCTCTTCAAAGCCCACACAAGTCG
1 GTGGCAACCTCTTCAAAGCCCACACAAGTTG
* * * *
107708 GTGGCAACCTTTTTAAAGACCTCACAAGTTG
1 GTGGCAACCTCTTCAAAGCCCACACAAGTTG
107739 GTGGCAACCTTCTTCAAAGCCCACACAAGTTG
1 GTGGCAACC-TCTTCAAAGCCCACACAAGTTG
107771 GTGGCA
1 GTGGCA
107777 TCTCTTTCTA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
29 5 0.04
30 4 0.03
31 54 0.47
32 51 0.44
33 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (31 bp):
GTGGCAACCTCTTCAAAGCCCACACAAGTTG
Found at i:107774 original size:63 final size:63
Alignment explanation
Indices: 107616--107776 Score: 238
Period size: 63 Copynumber: 2.6 Consensus size: 63
107606 CCACAACTCC
* *
107616 GTGGC-ACC-CTTCAAAGCCCACACAAGTCAGTGGCAACCCTTTCCAAAGCCCACACAAGTTG
1 GTGGCAACCTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCCAAAGACCACACAAGTTG
** *
107677 GTGGCAACCTCTTCAAAGCCCACACAAGTCGGTGGCAA-CCTTTTTAAAGACCTCACAAGTTG
1 GTGGCAACCTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCCAAAGACCACACAAGTTG
*
107739 GTGGCAACCTTCTTCAAAGCCCACACAAGTTGGTGGCA
1 GTGGCAACC-TCTTCAAAGCCCACACAAGTCGGTGGCA
107777 TCTCTTTCTA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
61 5 0.05
62 32 0.35
63 54 0.59
ACGTcount: A:0.29, C:0.32, G:0.20, T:0.20
Consensus pattern (63 bp):
GTGGCAACCTCTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTCCAAAGACCACACAAGTTG
Found at i:107999 original size:49 final size:47
Alignment explanation
Indices: 107895--108016 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 47
107885 CTAATGTTGC
* * * **
107895 TGGCCTTGAATTAGCACATTGCCACCTCTATCTTTAAGTCCAATGTCAC
1 TGGCCTTGAATCAGCACATTGGCACCTC-AT-TTTAAGTCCAATATCGT
* *
107944 TAGCCTTGAATCAGCACATTGGCACCTTCATTTTTAAGTCCGATATCGT
1 TGGCCTTGAATCAGCACATTGGCACC-TCA-TTTTAAGTCCAATATCGT
*
107993 TGGCCTTGAATCAGCATATTGGCA
1 TGGCCTTGAATCAGCACATTGGCA
108017 TATTTAACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
49 59 0.95
50 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (47 bp):
TGGCCTTGAATCAGCACATTGGCACCTCATTTTAAGTCCAATATCGT
Found at i:108055 original size:150 final size:144
Alignment explanation
Indices: 107802--108117 Score: 368
Period size: 150 Copynumber: 2.1 Consensus size: 144
107792 AATGTCGTTG
*
107802 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGTCGGCCTTGAATCAGCATATTGGCA
1 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCATATTGGCA
* ** * *
107867 CCTTTACCACATTTAAGCCTAATGTTGCTGGCCTTGAATTAGCACATTGCCA-CCTCT-ATCTTT
66 CATTTA-CACATTTAAGCCTAATGTCACTGGCCTTGAATCAGCACATTGCCATCCTCTCATCTTC
107930 AAGTCCAATGTCACT
130 AAGTCCAATGTCACT
* *
107945 AGCCTTGAATCAGCACATTGGCACCTTCATTTTTAAGTCCGATATCGTTGGCCTTGAATCAGCAT
1 -GCCTTGAATCAGCACATTGGCA-C--C---TTTAAGTCCAATATCGTCGGCCTTGAATCAGCAT
* * * *
108010 ATTGGCATATTTA-ACATTCCTAAGCCTAATGTCACTGGCCTTGAATCAGCATATTGGCATTCTT
59 ATTGGCACATTTACACATT--TAAGCCTAATGTCACTGGCCTTGAATCAGCACATTGCCA-TCCT
**
108074 CTCATCTTCAAGTCTTATGTCACT
121 CTCATCTTCAAGTCCAATGTCACT
*
108098 GGCTGTGAATCAGCACATTG
1 GCCT-TGAATCAGCACATTG
108118 ACATTCTTCG
Statistics
Matches: 145, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
144 22 0.15
145 1 0.01
147 1 0.01
148 5 0.03
150 76 0.52
152 7 0.05
153 33 0.23
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (144 bp):
GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTCGGCCTTGAATCAGCATATTGGCA
CATTTACACATTTAAGCCTAATGTCACTGGCCTTGAATCAGCACATTGCCATCCTCTCATCTTCA
AGTCCAATGTCACT
Found at i:108094 original size:52 final size:52
Alignment explanation
Indices: 107894--108133 Score: 185
Period size: 52 Copynumber: 4.7 Consensus size: 52
107884 CCTAATGTTG
* * * *
107894 CTGGCCTTGAATTAGCACATTGCCA--CCTCT-ATCTTTAAGTCCAATGTCA
1 CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATGTCA
* * * * * * *
107943 CTAGCCTTGAATCAGCACATTGGCA--CCT-TCATTTTTAAGTCCGATATCG
1 CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATGTCA
* * ** *
107992 TTGGCCTTGAATCAGCATATTGGCATAT-TTAACAT-TCCTAAG-CCTAATGTCA
1 CTGGCCTTGAATCAGCACATTGGCAT-TCTTCTCATCTTC-AAGTCC-AATGTCA
* **
108044 CTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAAGTCTTATGTCA
1 CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATGTCA
* *
108096 CTGG-CTGTGAATCAGCACATTGACATTCTTCGCATCTT
1 CTGGCCT-TGAATCAGCACATTGGCATTCTTCTCATCTT
108134 TAAGCCCACT
Statistics
Matches: 154, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
48 1 0.01
49 62 0.40
51 7 0.05
52 81 0.53
53 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (52 bp):
CTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCCAATGTCA
Found at i:109897 original size:20 final size:21
Alignment explanation
Indices: 109858--109898 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
109848 GCAGCCCATG
109858 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
109879 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
109899 CCAACACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:115995 original size:9 final size:8
Alignment explanation
Indices: 115978--116030 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
115968 AAGAAGTTAA
115978 AAAAAAAC
1 AAAAAAAC
115986 AAAAACAAC
1 AAAAA-AAC
115995 ACAAAAAAC
1 A-AAAAAAC
*
116004 AAATAAAC
1 AAAAAAAC
116012 AAAAAAA-
1 AAAAAAAC
*
116019 AAACAAAC
1 AAAAAAAC
116027 AAAA
1 AAAA
116031 TGAAGAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 6 0.16
8 20 0.53
9 8 0.21
10 4 0.11
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:116000 original size:19 final size:17
Alignment explanation
Indices: 115976--116025 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
115966 TGAAGAAGTT
115976 AAAAAAAAACAAAAACA
1 AAAAAAAAACAAAAACA
*
115993 ACACAAAAAACAAATAAACA
1 A-AAAAAAAAC-AA-AAACA
116013 AAAAAAAAACAAA
1 AAAAAAAAACAAA
116026 CAAAATGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 2 0.07
18 10 0.36
19 10 0.36
20 6 0.21
ACGTcount: A:0.84, C:0.14, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAAACAAAAACA
Found at i:116015 original size:15 final size:15
Alignment explanation
Indices: 115980--116030 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
115970 GAAGTTAAAA
115980 AAAAACAAAAACAACAC
1 AAAAA-AAAAACAA-AC
* *
115997 AAAAAACAAATAAAC
1 AAAAAAAAAACAAAC
116012 AAAAAAAAAACAAAC
1 AAAAAAAAAACAAAC
116027 AAAA
1 AAAA
116031 TGAAGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 19 0.63
16 6 0.20
17 5 0.17
ACGTcount: A:0.82, C:0.16, G:0.00, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAACAAAC
Found at i:117430 original size:30 final size:30
Alignment explanation
Indices: 117394--117489 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
117384 ACCATTCCCA
* *
117394 AAGTCCATGACTTAATGGCATCTCTTTTCC
1 AAGTCCATGACTTAGTGGCATCTTTTTTCC
** *
117424 AAGTCCACAACTTAGTGACATCTTTTTTCTTC
1 AAGTCCATGACTTAGTGGCATCTTTTTTC--C
* * *
117456 TAAGACCATGACTCAGTAGCATCTTTTTTCC
1 -AAGTCCATGACTTAGTGGCATCTTTTTTCC
117487 AAG
1 AAG
117490 ACTACTAATC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 27 0.52
31 1 0.02
32 1 0.02
33 23 0.44
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.36
Consensus pattern (30 bp):
AAGTCCATGACTTAGTGGCATCTTTTTTCC
Found at i:117539 original size:33 final size:32
Alignment explanation
Indices: 117501--117563 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
117491 CTACTAATCA
*
117501 GTGGCATCCTTTTTCTTAAAAGTCCACAACTCC
1 GTGGCAT-CTTTTCCTTAAAAGTCCACAACTCC
**
117534 GTGGCATCTTTTCCTTTTAAGTCCACAACT
1 GTGGCATCTTTTCCTTAAAAGTCCACAACT
117564 GAATAGCACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.37
Consensus pattern (32 bp):
GTGGCATCTTTTCCTTAAAAGTCCACAACTCC
Found at i:117819 original size:28 final size:27
Alignment explanation
Indices: 117788--117886 Score: 101
Period size: 32 Copynumber: 3.4 Consensus size: 27
117778 ATTTTTTTCA
117788 TTTTAAGTCCACAACTCTGTGGCATCCT
1 TTTTAAGTCCACAACTCTGTGGCA-CCT
117816 TTTTAAGTCCACAACT-TCGTGGCACCTTTTT
1 TTTTAAGTCCACAACTCT-GTGGCACC----T
*
117847 CTTTTAAGTCCACAACTCCGTGGCACCT
1 -TTTTAAGTCCACAACTCTGTGGCACCT
**
117875 TTCAAAGTCCAC
1 TTTTAAGTCCAC
117887 GATTCAGTGG
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
27 13 0.21
28 23 0.38
31 1 0.02
32 24 0.39
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCTGTGGCACCT
Found at i:117965 original size:33 final size:33
Alignment explanation
Indices: 117928--118030 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
117918 ATTCAGTGGT
117928 ATCTTTTTTCTTTTAAGTCCACAAGTCCATGGC
1 ATCTTTTTTCTTTTAAGTCCACAAGTCCATGGC
* * * *
117961 ATC-TTTTCCTTTTTAGGTCCACAACT-CAGTGAC
1 ATCTTTTTTC-TTTTAAGTCCACAAGTCCA-TGGC
* *
117994 ACCTTTTTTCCTTTTAAGTCCA-TAGCTCCATGGC
1 ATCTTTTTT-CTTTTAAGTCCACAAG-TCCATGGC
118028 ATC
1 ATC
118031 CTTCAAAGTC
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
32 7 0.13
33 23 0.43
34 20 0.38
35 3 0.06
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (33 bp):
ATCTTTTTTCTTTTAAGTCCACAAGTCCATGGC
Found at i:118045 original size:157 final size:156
Alignment explanation
Indices: 117812--118199 Score: 520
Period size: 157 Copynumber: 2.5 Consensus size: 156
117802 CTCTGTGGCA
*
117812 TCCTTTTTAAGTCCACAACTTCGTGGCACC-TTTTT-CTTTTAAGTCCACAACTCCGTGGCACCT
1 TCCTTTTTAAGTCCACAAC-TCGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCCATGGCACCT
* * *
117875 TTCAAAGTCCACGATTCAGTGGCATCTCTTCTCTAAGTCC-CTGATTCAGTGGTATCTTTTTTCT
65 TTCAAAGTCCACGATTCAGTGGCATCTCTTCTCTAAGTCCAC-GATTAAGTGGCATCCTTTTTCT
* *
117939 TTTAAGTCCACAAGTCCATGGCATC-TTT
129 TCTAAGTCCACAACTCCATGGCA-CATTT
* * * *
117967 TCCTTTTTAGGTCCACAACTCAGTGACACCTTTTTTCCTTTTAAGTCCATAGCTCCATGGCATCC
1 TCCTTTTTAAGTCCACAACTC-GTGGCACCTTTTTTCCTTTTAAGTCCACAACTCCATGGCA-CC
*
118032 -TTCAAAGTCCACGATTCAGTGGCATCTCTTCTCTAAGTCCACGATTAAGTGGCGTCCTTTTTCT
64 TTTCAAAGTCCACGATTCAGTGGCATCTCTTCTCTAAGTCCACGATTAAGTGGCATCCTTTTTCT
*
118096 TCTAAGTCCATAACTCCATGGCACATTT
129 TCTAAGTCCACAACTCCATGGCACATTT
* * *
118124 TCC-TTTTAAGTCCACAACTCTGTGGCACATTTTTTCCTTTTAAGTCTACAACTCTATGGCACCC
1 TCCTTTTTAAGTCCACAACTC-GTGGCACCTTTTTTCCTTTTAAGTCCACAACTCCATGGCA-CC
*
118188 TTT-TAAGTCCAC
64 TTTCAAAGTCCAC
118200 AACTCCGTTG
Statistics
Matches: 204, Mismatches: 22, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
154 2 0.01
155 25 0.12
156 66 0.32
157 108 0.53
158 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (156 bp):
TCCTTTTTAAGTCCACAACTCGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTT
TCAAAGTCCACGATTCAGTGGCATCTCTTCTCTAAGTCCACGATTAAGTGGCATCCTTTTTCTTC
TAAGTCCACAACTCCATGGCACATTT
Found at i:118054 original size:27 final size:27
Alignment explanation
Indices: 118024--118090 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 27
118014 CATAGCTCCA
*
118024 TGGCATCCTTCAAAGTCCACGATTCAG
1 TGGCATCCTTCAAAGTCCACGATTAAG
*
118051 TGGCATCTCTTCTCTAAGTCCACGATTAAG
1 TGGCATC-C-T-TCAAAGTCCACGATTAAG
*
118081 TGGCGTCCTT
1 TGGCATCCTT
118091 TTTCTTCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 8 0.24
28 2 0.06
29 2 0.06
30 22 0.65
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (27 bp):
TGGCATCCTTCAAAGTCCACGATTAAG
Found at i:118105 original size:33 final size:31
Alignment explanation
Indices: 118031--118105 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
118021 CCATGGCATC
* *
118031 CTTCAAAGTCCACGATTCAGTGGCATCTCTT
1 CTTCTAAGTCCACGATTAAGTGGCATCTCTT
* *
118062 C-TCTAAGTCCACGATTAAGTGGCGTCCTTTTT
1 CTTCTAAGTCCACGATTAAGTGGCAT-C-TCTT
118094 CTTCTAAGTCCA
1 CTTCTAAGTCCA
118106 TAACTCCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 21 0.57
31 2 0.05
32 4 0.11
33 10 0.27
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (31 bp):
CTTCTAAGTCCACGATTAAGTGGCATCTCTT
Found at i:118161 original size:34 final size:33
Alignment explanation
Indices: 118089--118185 Score: 126
Period size: 34 Copynumber: 3.0 Consensus size: 33
118079 AGTGGCGTCC
* * *
118089 TTTTT-CTTCTAAGTCCATAACTCCATGGCACA
1 TTTTTCCTTTTAAGTCCACAACTCTATGGCACA
*
118121 -TTTTCCTTTTAAGTCCACAACTCTGTGGCACA
1 TTTTTCCTTTTAAGTCCACAACTCTATGGCACA
*
118153 TTTTTTCCTTTTAAGTCTACAACTCTATGGCAC
1 -TTTTTCCTTTTAAGTCCACAACTCTATGGCAC
118186 CCTTTTAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.07
32 23 0.41
34 29 0.52
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (33 bp):
TTTTTCCTTTTAAGTCCACAACTCTATGGCACA
Found at i:118216 original size:27 final size:27
Alignment explanation
Indices: 118158--118216 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
118148 GCACATTTTT
* *
118158 TCCTTTTAAGTCTACAACTCTATGGCA
1 TCCTTTTAAGTCCACAACTCCATGGCA
* * *
118185 CCCTTTTAAGTCCACAACTCCGTTGCA
1 TCCTTTTAAGTCCACAACTCCATGGCA
118212 TCCTT
1 TCCTT
118217 CAAAGCCCAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.32, G:0.10, T:0.36
Consensus pattern (27 bp):
TCCTTTTAAGTCCACAACTCCATGGCA
Found at i:118253 original size:32 final size:31
Alignment explanation
Indices: 118215--118395 Score: 190
Period size: 32 Copynumber: 5.8 Consensus size: 31
118205 CGTTGCATCC
*
118215 TTCAAAGCCCACACAAGTTAGTGGCAACCCT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCT
*
118246 TTCCAAAGCTCACACAAGTTGGTGGCAACCTCT
1 TT-CAAAGCCCACACAAGTTGGTGGCAACC-CT
*
118279 TT-AAA-ACCACACAAGTTGGTGGCAA-CCT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCT
* ** **
118307 CTT-AAAGCCCACATAAGTCAGAAGCAACCCT
1 -TTCAAAGCCCACACAAGTTGGTGGCAACCCT
* * *
118338 TTTAAAGCCCACACAAGTTGGTAGCAACCTT
1 TTCAAAGCCCACACAAGTTGGTGGCAACCCT
*
118369 CTTCAAAGCCTACACAAGTTGGTGGCA
1 -TTCAAAGCCCACACAAGTTGGTGGCA
118396 TCTCCTTCTA
Statistics
Matches: 125, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.02
29 6 0.05
30 34 0.27
31 31 0.25
32 48 0.38
33 4 0.03
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.22
Consensus pattern (31 bp):
TTCAAAGCCCACACAAGTTGGTGGCAACCCT
Found at i:118592 original size:101 final size:98
Alignment explanation
Indices: 118409--118739 Score: 300
Period size: 101 Copynumber: 3.3 Consensus size: 98
118399 CCTTCTAAAC
* * * *
118409 CCAATGTCACTGGCCTTGAATCATCACATTGGCA--CC--TTTAAGTCCAATATCGCTAGCCTTG
1 CCAATGTCACTGGCCTTGAATTAGCACATTGGCACTCCTTTTTAAGTCCAATGTCGCTGGCCTTG
* * *
118470 AATCAGCATATTAGTACCTTTATCACATTTAAGT
66 AATCAGCATATTGGCAACTTTAT-ACATTTAAGT
*
118504 CCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTCCGTTTTTAAGTCCAATGTCGCTGGCCT
1 CCAATGTCACTGGCCTTGAATTAGCACATTGGCA-CTCC-TTTTTAAGTCCAATGTCGCTGGCCT
*
118569 TGAATCAGCACATTGGCAACTTTAT-C-TTTAAGT
64 TGAATCAGCATATTGGCAACTTTATACATTTAAGT
* * ** * * * * **
118602 CCTATATCGTTAGCCTTGAATTAGCATATTGGCA-TCTTTAACATTCCTAAGCCCAATGTTACTG
1 CCAATGTCACTGGCCTTGAATTAGCACATTGGCACTCCTT----TT--TAAGTCCAATGTCGCTG
* ** *
118666 GCCTTGAATTAGCATATTGGCATTTTTA-ACATTCCTAAGC
60 GCCTTGAATCAGCATATTGGCAACTTTATACATT--TAAGT
118706 CCAATGTCACTGGCCTTGAATTAGCACATTGGCA
1 CCAATGTCACTGGCCTTGAATTAGCACATTGGCA
118740 TTCTTCTCAT
Statistics
Matches: 191, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
95 33 0.17
96 2 0.01
98 38 0.20
99 3 0.02
101 81 0.42
102 2 0.01
104 32 0.17
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (98 bp):
CCAATGTCACTGGCCTTGAATTAGCACATTGGCACTCCTTTTTAAGTCCAATGTCGCTGGCCTTG
AATCAGCATATTGGCAACTTTATACATTTAAGT
Found at i:118674 original size:150 final size:143
Alignment explanation
Indices: 118409--118739 Score: 367
Period size: 150 Copynumber: 2.2 Consensus size: 143
118399 CCTTCTAAAC
*
118409 CCAATGTCACTGGCCTTGAATCATCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATC
1 CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATC
* * *
118474 AGCATATTAGTACCTTTATCACATTTAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCAC
66 AGCATATTAGCACCTTTA-CACATTTAAGCCCAATGTCACTGGCCTTGAATTAGCACATTGGCAC
118539 CTCCGTTTTTAAGT
130 CTCCGTTTTTAAGT
* * *
118553 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCAACTTTATCTTTAAGTCCTATATCGTTAGCCT
1 CCAATGTCACTGGCCTTGAATCAGCACATTGGC-AC-----CTTTAAGTCCAATATCGCTAGCCT
* * * * *
118618 TGAATTAGCATATTGGCATCTTTA-ACATTCCTAAGCCCAATGTTACTGGCCTTGAATTAGCATA
60 TGAATCAGCATATTAGCACCTTTACACATT--TAAGCCCAATGTCACTGGCCTTGAATTAGCACA
** * * ** *
118682 TTGGCATTTTTAACATTCCTAAGC
123 TTGGCA--CCT-CCGTTTTTAAGT
*
118706 CCAATGTCACTGGCCTTGAATTAGCACATTGGCA
1 CCAATGTCACTGGCCTTGAATCAGCACATTGGCA
118740 TTCTTCTCAT
Statistics
Matches: 155, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
144 31 0.20
145 2 0.01
148 5 0.03
150 77 0.50
152 2 0.01
153 38 0.25
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (143 bp):
CCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTAGCCTTGAATC
AGCATATTAGCACCTTTACACATTTAAGCCCAATGTCACTGGCCTTGAATTAGCACATTGGCACC
TCCGTTTTTAAGT
Found at i:118741 original size:52 final size:52
Alignment explanation
Indices: 118447--118740 Score: 271
Period size: 52 Copynumber: 5.8 Consensus size: 52
118437 TTGGCACCTT
* * * * * * *
118447 TAAGTCCAATATCGCTAGCCTTGAATCAGCATATTAGTACCTTTATCACATT--
1 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTTA--ACATTCC
* * * **
118499 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCA-C-CT-CCGTTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTTAACATTCC
* * *
118548 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAACTTTATC-TT--
1 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTTAACATTCC
* * * * *
118597 TAAGTCCTATATCGTTAGCCTTGAATTAGCATATTGGCATCTTTAACATTCC
1 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTTAACATTCC
* ** * *
118649 TAAGCCCAATGTTACTGGCCTTGAATTAGCATATTGGCATTTTTAACATTCC
1 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTTAACATTCC
* *
118701 TAAGCCCAATGTCACTGGCCTTGAATTAGCACATTGGCAT
1 TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCAT
118741 TCTTCTCATC
Statistics
Matches: 204, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
47 3 0.01
49 77 0.38
50 4 0.02
51 4 0.02
52 116 0.57
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (52 bp):
TAAGTCCAATGTCGCTGGCCTTGAATTAGCACATTGGCATCTTTAACATTCC
Found at i:118769 original size:52 final size:51
Alignment explanation
Indices: 118614--118802 Score: 164
Period size: 52 Copynumber: 3.6 Consensus size: 51
118604 TATATCGTTA
* * * **
118614 GCCTTGAATTAGCATATTGGCA-TCTTTAACATTCCTAAGCCCAATGTTACTG
1 GCCTTGAATTAGCACATTGGCATTC-TTCACA-TCATAAGCCCAATGGCACTG
* * * * *
118666 GCCTTGAATTAGCATATTGGCATTTTTAACATTCCTAAGCCCAATGTCACTG
1 GCCTTGAATTAGCACATTGGCATTCTTCACA-TCATAAGCCCAATGGCACTG
* * **
118718 GCCTTGAATTAGCACATTGGCATTCTTCTCATCATCAAGTCTTATGGCACTG
1 GCCTTGAATTAGCACATTGGCATTCTTCACATCAT-AAGCCCAATGGCACTG
* * * * *
118770 GCCGTGAATCAACACATTGACATTCTTCGCATC
1 GCCTTGAATTAGCACATTGGCATTCTTCACATC
118803 TTTCAGCCTA
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
51 3 0.03
52 115 0.97
53 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (51 bp):
GCCTTGAATTAGCACATTGGCATTCTTCACATCATAAGCCCAATGGCACTG
Found at i:118911 original size:61 final size:61
Alignment explanation
Indices: 118793--118928 Score: 159
Period size: 61 Copynumber: 2.2 Consensus size: 61
118783 ACATTGACAT
* * * ** * *
118793 TCTTCGCATCTTTCAGCCTAATATCGCTGGCCTTGAATCAGTATGTTGGCACTTTTATCA-
1 TCTTCTCATCTTTAAGCCTAATATCGCTAGCCTTGAATCAACATATTAGCACTTTTATCAC
* *
118853 TCCTTTTCATCTTTAAGCCTAATATCGCTAGCTTTGAATCAACATATTAGCA-TCTTTATCAC
1 T-CTTCTCATCTTTAAGCCTAATATCGCTAGCCTTGAATCAACATATTAGCACT-TTTATCAC
118915 TCTTCTCATCTTTA
1 TCTTCTCATCTTTA
118929 TCATACTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 2 0.03
61 60 0.95
62 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (61 bp):
TCTTCTCATCTTTAAGCCTAATATCGCTAGCCTTGAATCAACATATTAGCACTTTTATCAC
Found at i:119474 original size:21 final size:20
Alignment explanation
Indices: 119441--119483 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
119431 GAAAAAGCCA
*
119441 CATTTTTTAATGTATCGATG
1 CATTTTTGAATGTATCGATG
119461 CATTTCTTGAATGTATCGATG
1 CATTT-TTGAATGTATCGATG
119482 CA
1 CA
119484 AGGTCCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (20 bp):
CATTTTTGAATGTATCGATG
Found at i:123756 original size:28 final size:27
Alignment explanation
Indices: 123712--123788 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 27
123702 GAAGTAAAAA
* **
123712 ATAGGGTTGGAGCATCCCTTCAGAGTTG
1 ATAGGGTTGGAGTATCCCTT-AGAAATG
123740 ATAGGGTTGGAGTATCCCCTTAGAAATG
1 ATAGGGTTGGAGTAT-CCCTTAGAAATG
* *
123768 GTGGGGTTGGAGTATCCCTTA
1 ATAGGGTTGGAGTATCCCTTA
123789 AGATGAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.14
28 32 0.74
29 5 0.12
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (27 bp):
ATAGGGTTGGAGTATCCCTTAGAAATG
Found at i:123838 original size:109 final size:107
Alignment explanation
Indices: 123640--124083 Score: 402
Period size: 109 Copynumber: 4.1 Consensus size: 107
123630 AAAAATGGGG
* * * * * * *
123640 TGGAGTATCCCCTCGAAAACGATGAGGTT-G-GT-TCCCTAGAGATGAAGAAATTCAATGTTTTA
1 TGGAGTATCCCCTTGAAAATGGTGGGGTTGGAGTATCCCTA-AGATGAA-AATTTCATTGTTTTG
* * **
123702 G-AAGTAAAAAATAGGGTTGGAGCATCCCTTCAGAGTTGATAGGGT
64 GAAAAT-AAAAATAGGGTTGGAGTATCCCTTCA-AAATGATAGGGT
*
123747 TGGAGTATCCCCTT-AGAAATGGTGGGGTTGGAGTATCCCTTAAGATGAAAATTTTGA-TGTTTT
1 TGGAGTATCCCCTTGA-AAATGGTGGGGTTGGAGTATCCC-TAAGATGAAAA-TTTCATTGTTTT
* *
123810 GGAAAATAAAAATAGGGTTACG-GTATCCCCTCCAAAATGATAGGGT
63 GGAAAATAAAAATAGGGTT-GGAGTAT-CCCTTCAAAATGATAGGGT
* * *
123856 TGGAGTATCTCCTCGAAAATGGT-GGGTTGCAGTATGCCCTAAGATGAAAATTTCATTGTTTTGG
1 TGGAGTATCCCCTTGAAAATGGTGGGGTTGGAGTAT-CCCTAAGATGAAAATTTCATTGTTTTGG
* * *
123920 AAAATAAAAATAGGGTTGGAGTATCCTCTTGAAAACGATGGGGT
65 AAAATAAAAATAGGGTTGGAGTATCC-CTTCAAAATGATAGGGT
* * * * *** *
123964 TGGAGTATCCTCTTGAAAACGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAACATTTTA
1 TGGAGTATCCCCTTGAAAATGGTGGGGTTGGAGTATCCCTA-AGATGAA-AATTTCATTGTTTTG
* * * * *
124029 G-AAGTAAAAATAGGGTTGAAATATCCTTTCGAAAATGATGGGGT
64 GAAAATAAAAATAGGGTTGGAGTATCCCTTC-AAAATGATAGGGT
124073 TGGAGTATCCC
1 TGGAGTATCCC
124084 TAGAGATGAA
Statistics
Matches: 279, Mismatches: 40, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
106 1 0.00
107 30 0.11
108 90 0.32
109 120 0.43
110 36 0.13
111 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (107 bp):
TGGAGTATCCCCTTGAAAATGGTGGGGTTGGAGTATCCCTAAGATGAAAATTTCATTGTTTTGGA
AAATAAAAATAGGGTTGGAGTATCCCTTCAAAATGATAGGGT
Found at i:123890 original size:27 final size:28
Alignment explanation
Indices: 123821--123895 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
123811 GAAAATAAAA
* *
123821 ATAGGGTTACGGTATCCCCTCCAAAATG
1 ATAGGGTTGCAGTATCCCCTCCAAAATG
* * *
123849 ATAGGGTTGGAGTATCTCCTCGAAAATG
1 ATAGGGTTGCAGTATCCCCTCCAAAATG
* *
123877 GT-GGGTTGCAGTATGCCCT
1 ATAGGGTTGCAGTATCCCCT
123896 AAGATGAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 14 0.37
28 24 0.63
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (28 bp):
ATAGGGTTGCAGTATCCCCTCCAAAATG
Found at i:123964 original size:28 final size:28
Alignment explanation
Indices: 123932--124001 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
123922 AATAAAAATA
123932 GGGTTGGAGTATCCTCTTGAAAACGATG
1 GGGTTGGAGTATCCTCTTGAAAACGATG
123960 GGGTTGGAGTATCCTCTTGAAAACGATG
1 GGGTTGGAGTATCCTCTTGAAAACGATG
123988 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
124002 CTAGAGATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (28 bp):
GGGTTGGAGTATCCTCTTGAAAACGATG
Found at i:124095 original size:81 final size:81
Alignment explanation
Indices: 123960--124165 Score: 261
Period size: 81 Copynumber: 2.5 Consensus size: 81
123950 GAAAACGATG
* *
123960 GGGTTGGAGTATCCTCTTGAAAACGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAACAT
1 GGGTTGAAATATCCTCTTGAAAACGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAACAT
124025 TTTAGAAGTAAAAATA
66 TTTAGAAGTAAAAATA
* **
124041 GGGTTGAAATATCCT-TTCGAAAATGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAATG
1 GGGTTGAAATATCCTCTT-GAAAACGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAACA
*
124105 TTTTAGAAGTAAAAAAA
65 TTTTAGAAGTAAAAATA
* ** * ** *
124122 CGAGGTTGGAGCATCCCCTTGAAATTGATGGGGCTGGAGTATCC
1 -G-GGTTGAAATATCCTCTTGAAAACGATGGGGTTGGAGTATCC
124166 TCTCACAAAT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.02
81 72 0.66
82 1 0.01
83 32 0.29
84 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (81 bp):
GGGTTGAAATATCCTCTTGAAAACGATGGGGTTGGAGTATCCCTAGAGATGAAGAAATTCAACAT
TTTAGAAGTAAAAATA
Found at i:124187 original size:192 final size:191
Alignment explanation
Indices: 123861--124343 Score: 575
Period size: 192 Copynumber: 2.5 Consensus size: 191
123851 AGGGTTGGAG
* * * * *
123861 TATCTCCTCGAAAATGGT-GGGTTGCAGTATGCCCTA-AGATGAAAATTTCATTGTTTTGGAAAA
1 TATCCCCTCGAAAATGGTGGGGTTGGAGTATCCCCTAGAGATGAAAATTTCAATGTTTTAGAAAA
* * * * *
123924 TAAAAATAGGGTTGGAGTATCCTCTTGAAAACGATGGGGTTGGAGTATCCTCTTGAAAACGATGG
66 TAAAAATAGGGTTGGAGTATCCCCTTGAAAATGATGGGGCTGGAGTATCCTCTTCAAAACGATGA
* * *
123989 GGTTGGAGTATCCCTAGAGATGAAGAAATTCAACATTTTAG-AAGTAAAAATAGGGTTGAAA
131 GGTTGGAGCATCCCTAGAGATGAAG-AATTCAACATTTTAGAAAATAAAAATAGAGTTGAAA
** * *
124050 TATCCTTTCGAAAATGATGGGGTTGGAGTAT-CCCTAGAGATGAAGAAATTCAATGTTTTAG-AA
1 TATCCCCTCGAAAATGGTGGGGTTGGAGTATCCCCTAGAGATGAA-AATTTCAATGTTTTAGAAA
* * * * *
124113 GTAAAAAAACGAGGTTGGAGCATCCCCTTGAAATTGATGGGGCTGGAGTATCCTC-TCACAAATG
65 ATAAAAATA-G-GGTTGGAGTATCCCCTTGAAAATGATGGGGCTGGAGTATCCTCTTCA-AAACG
* * *** * * *
124177 ATGAGGTTGGAGCATCCCTTGAGATGAAGATTTCATTGTTTTGGAAAATAAAAATAGAGTTGGAG
127 ATGAGGTTGGAGCATCCCTAGAGATGAAGAATTCAACATTTTAGAAAATAAAAATAGAGTTGAAA
* *
124242 TATCCCCTCGGAAATGGTGGGGTTGGAGTATCCCCT-GAGATGAAAATTTCGATGTTTTAGAAAA
1 TATCCCCTCGAAAATGGTGGGGTTGGAGTATCCCCTAGAGATGAAAATTTCAATGTTTTAGAAAA
*
124306 TAAAAATAGGGTTGGAGTATCCCCTCGAAAATGATGGG
66 TAAAAATAGGGTTGGAGTATCCCCTTGAAAATGATGGG
124344 TTAGAGTATC
Statistics
Matches: 245, Mismatches: 40, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
189 19 0.08
190 53 0.22
191 41 0.17
192 128 0.52
193 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (191 bp):
TATCCCCTCGAAAATGGTGGGGTTGGAGTATCCCCTAGAGATGAAAATTTCAATGTTTTAGAAAA
TAAAAATAGGGTTGGAGTATCCCCTTGAAAATGATGGGGCTGGAGTATCCTCTTCAAAACGATGA
GGTTGGAGCATCCCTAGAGATGAAGAATTCAACATTTTAGAAAATAAAAATAGAGTTGAAA
Found at i:124291 original size:81 final size:81
Alignment explanation
Indices: 124156--124355 Score: 271
Period size: 81 Copynumber: 2.5 Consensus size: 81
124146 TTGATGGGGC
* * * * *
124156 TGGAGTATCCTCTC-ACAAATGATGAGGTTGGAGCATCCCTTGAGATGAAGATTTC-ATTGTTTT
1 TGGAGTATCCCCTCGA-AAATGATGGGGTTGGAGTATCCCCTGAGATGAAAATTTCGA-TGTTTT
*
124219 GGAAAATAAAAATAGAGT
64 AGAAAATAAAAATAGAGT
* *
124237 TGGAGTATCCCCTCGGAAATGGTGGGGTTGGAGTATCCCCTGAGATGAAAATTTCGATGTTTTAG
1 TGGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCTGAGATGAAAATTTCGATGTTTTAG
*
124302 AAAATAAAAATAGGGT
66 AAAATAAAAATAGAGT
*
124318 TGGAGTATCCCCTCGAAAATGAT-GGGTTAGAGTATCCC
1 TGGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCC
124356 TTTAGATATG
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 14 0.13
81 90 0.86
82 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (81 bp):
TGGAGTATCCCCTCGAAAATGATGGGGTTGGAGTATCCCCTGAGATGAAAATTTCGATGTTTTAG
AAAATAAAAATAGAGT
Found at i:126714 original size:20 final size:19
Alignment explanation
Indices: 126671--126722 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
126661 CTAGCACTGT
126671 TTGTATCGATACATGGACA
1 TTGTATCGATACATGGACA
126690 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATG--GACA
126710 TTGTATC-ATACAT
1 TTGTATCGATACAT
126723 TGCTTCTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 21 0.68
20 8 0.26
21 2 0.06
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:128950 original size:74 final size:74
Alignment explanation
Indices: 128775--128978 Score: 275
Period size: 74 Copynumber: 2.7 Consensus size: 74
128765 GGGAAGCTAT
* * * * *
128775 GATGAAACCTAAGTTGAAAAGGGTTGACCAGGGCGAAACTAGAATAGTAAACTAAAGGTAAAAAG
1 GATGAGACCTAAGTTGAAAAGGGTT-AACAGGGCAAAACAAGAATAGTCAACTAAAGGTAAAAAG
128840 AGGTGAATAG
65 AGGTGAATAG
* *
128850 GATGAGACCTAAGTCGAAAAGGGTTAATCAGGGTAAAACAAGAATAGTCAACTAAAGGTAAAAA-
1 GATGAGACCTAAGTTGAAAAGGGTTAA-CAGGGCAAAACAAGAATAGTCAACTAAAGGTAAAAAG
*
128914 AGGTGACTAG
65 AGGTGAATAG
* * *
128924 GATGAGACCTAAGTTGAAAAGAGTTAACTAAGGCAAAACAAGATTAGTCAACTAA
1 GATGAGACCTAAGTTGAAAAGGGTTAAC-AGGGCAAAACAAGAATAGTCAACTAA
128979 GGGTGATTAG
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
73 1 0.01
74 58 0.51
75 55 0.48
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (74 bp):
GATGAGACCTAAGTTGAAAAGGGTTAACAGGGCAAAACAAGAATAGTCAACTAAAGGTAAAAAGA
GGTGAATAG
Found at i:129264 original size:105 final size:105
Alignment explanation
Indices: 129155--129495 Score: 381
Period size: 105 Copynumber: 3.3 Consensus size: 105
129145 GGATGAAATA
* * * *
129155 GATAAGTCAATAAGTTTAAAGAGGTTAACCAGATTGAAA-TAGATAAATCAACAAAGGATAACCA
1 GATAAGTCAATAAGTTTAAAGAGGTTGACCAGA-TGAAACTAGACAAGTCAACAAAGGATGACCA
* * *
129219 GGATAAAACCTAAGTTAAAGAGGGTTGACCAGGGTGAAATT
65 GGATAAAACCTAAGTCAAAGAGGGTTGACCAAGGTGAAACT
* * ** * *
129260 GATAAGCCAATAAGTTTAAAGGGGTTGACTGGGATGAAACCA-ACAAGTCAACAAAAGG-TGGCC
1 GATAAGTCAATAAGTTTAAAGAGGTTGAC-CAGATGAAACTAGACAAGTCAAC-AAAGGATGACC
* **
129323 AAGATAAAACCTAAGTCAAAGAGGGTTGACCAAGGCAAAACT
64 AGGATAAAACCTAAGTCAAAGAGGGTTGACCAAGGTGAAACT
* * *
129365 GATAAGTCAATAAGTTTAAAGAGGTTGACTAGAATGAAACT-GACAAGTCAATAAA-GAGTGACT
1 GATAAGTCAATAAGTTTAAAGAGGTTGACCAG-ATGAAACTAGACAAGTCAACAAAGGA-TGACC
* **
129428 AGTATAAAACCTAAGTCAAAGAGGGTTGACCAACATGAAACT
64 AGGATAAAACCTAAGTCAAAGAGGGTTGACCAAGGTGAAACT
*
129470 GATAAGTCAACAAG-TT-AAGAGGTTGA
1 GATAAGTCAATAAGTTTAAAGAGGTTGA
129496 TTGGGACAAA
Statistics
Matches: 198, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
103 11 0.06
104 6 0.03
105 173 0.87
106 8 0.04
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (105 bp):
GATAAGTCAATAAGTTTAAAGAGGTTGACCAGATGAAACTAGACAAGTCAACAAAGGATGACCAG
GATAAAACCTAAGTCAAAGAGGGTTGACCAAGGTGAAACT
Found at i:129907 original size:41 final size:40
Alignment explanation
Indices: 129860--129998 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 40
129850 AGTTAACCAG
**
129860 AACAAAACTTACAAGTTAACTAAGAGTGAATTGTTGACTA
1 AACAAAACTTACAAGTTAACTAAGAGTGAAAGGTTGACTA
* * * * * *
129900 AGACAAAACTAATAAGTCAACTAAGGGTAAAAGGTTGACCAA
1 A-ACAAAACTTACAAGTTAACTAAGAGTGAAAGGTTGA-CTA
** *
129942 AACAAAACCGACAAGTTAACTAAGAGTGAAGGGTTGACTGA
1 AACAAAACTTACAAGTTAACTAAGAGTGAAAGGTTGACT-A
129983 AACAAAA-TTGACAAGT
1 AACAAAACTT-ACAAGT
129999 CAATAGATTA
Statistics
Matches: 77, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
40 2 0.03
41 72 0.94
42 3 0.04
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (40 bp):
AACAAAACTTACAAGTTAACTAAGAGTGAAAGGTTGACTA
Found at i:130018 original size:82 final size:80
Alignment explanation
Indices: 129788--130019 Score: 218
Period size: 82 Copynumber: 2.8 Consensus size: 80
129778 TGGTAAAGCT
* * ** * *
129788 GACAAGTCAACTAAAAGTGAAGAGTTGA-TCGGGACAAAATCAACAAGTCAATAGATAAGAAAAG
1 GACAAGTTAACTAAGAGTGAAGAGTTGACT-GAAACAAAATTAACAAGTCAATAGATAA-AAAGG
* * *
129852 TTAACCAGAACAAAACT
64 TTGACCAAAACAAAACC
* ** * * *
129869 TACAAGTTAACTAAGAGTGAATTGTTGACT-AAGACAAAACTAATAAGTCAACTAAGGGT-AAAA
1 GACAAGTTAACTAAGAGTGAAGAGTTGACTGAA-ACAAAATTAACAAGTCAA-T-A-GATAAAAA
129932 GGTTGACCAAAACAAAACC
62 GGTTGACCAAAACAAAACC
* *
129951 GACAAGTTAACTAAGAGTGAAGGGTTGACTGAAACAAAATTGACAAGTCAATAGATTAAAAAGGG
1 GACAAGTTAACTAAGAGTGAAGAGTTGACTGAAACAAAATTAACAAGTCAATAGA-TAAAAA-GG
130016 TTGA
64 TTGA
130020 TTAGGACAAA
Statistics
Matches: 120, Mismatches: 22, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
79 1 0.01
80 2 0.02
81 43 0.36
82 68 0.57
83 4 0.03
84 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (80 bp):
GACAAGTTAACTAAGAGTGAAGAGTTGACTGAAACAAAATTAACAAGTCAATAGATAAAAAGGTT
GACCAAAACAAAACC
Found at i:130638 original size:76 final size:76
Alignment explanation
Indices: 130512--130947 Score: 264
Period size: 76 Copynumber: 5.7 Consensus size: 76
130502 ATAAGAGAAC
* * * * * * * **
130512 ATGATTGGGAATATGTGGTTTCTATAATTTGCT-TCAA-CAGCCAAAGCAAATTGATAACGGGCT
1 ATGATGGGGAATATGTGGTTTCTAAAATTT-CTATTAATAATCGAAA-CAAATTAATAACAAGCT
130575 GAAAAAGAAGATT
64 GAAAAAGAAGATT
* * *
130588 ATGATGGGGAATATGTGGTGTCTAAAATTTCTATTAATAATCGAAACAAATTATTAAC-AG-TCA
1 ATGATGGGGAATATGTGGTTTCTAAAATTTCTATTAATAATCGAAACAAATTAATAACAAGCT-G
*
130651 AAACAAGCTGAAGAAT
65 AAA-AA---GAAGATT
* * *
130667 AGTCGATGGAGAATATGTGGTTTCTAAAATTTCTATTAA-CAGCTGAAACAAATTAATAAC-AGC
1 A-T-GATGGGGAATATGTGGTTTCTAAAATTTCTATTAATAATC-GAAACAAATTAATAACAAGC
* **
130730 TTAAAGAAGAAGAAC
63 TGAAA-AAGAAGATT
* * * * * * * *
130745 ATGATGAGGAATATGTGGTTTCTAAAAGCTCCCATCAATAGTCAAAACAAATTAATAACAAG-TT
1 ATGATGGGGAATATGTGGTTTCTAAAA-TTTCTATTAATAATCGAAACAAATTAATAACAAGCTG
* *
130809 AGAGAAGAAGATC
65 A-AAAAGAAGATT
* * * * ***
130822 ATGAT-GGGAATATGTAGTTTCTAAAATTT-TCATTAA-AAGCCAAAACAAACTAATAACGTCCT
1 ATGATGGGGAATATGTGGTTTCTAAAATTTCT-ATTAATAA-TCGAAACAAATTAATAACAAGCT
130884 GAAGAAA-AAGATT
64 GAA-AAAGAAGATT
** * * * *
130897 ATGATGGAAAATATGTGGTTTCTATAATATCCCATCAATAATCGAAACAAA
1 ATGATGGGGAATATGTGGTTTCTAAAAT-TTCTATTAATAATCGAAACAAA
130948 CTAAAAAGTG
Statistics
Matches: 281, Mismatches: 56, Indels: 45
0.74 0.15 0.12
Matches are distributed among these distances:
74 2 0.01
75 38 0.14
76 106 0.38
77 56 0.20
78 13 0.05
79 7 0.02
80 3 0.01
81 55 0.20
82 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.28
Consensus pattern (76 bp):
ATGATGGGGAATATGTGGTTTCTAAAATTTCTATTAATAATCGAAACAAATTAATAACAAGCTGA
AAAAGAAGATT
Found at i:130876 original size:152 final size:153
Alignment explanation
Indices: 130671--130947 Score: 355
Period size: 152 Copynumber: 1.8 Consensus size: 153
130661 AAGAATAGTC
* * ** * *
130671 GATGGAGAATATGTGGTTTCTAAAATTTCTATTAACAGCTGAAACAAATTAATAACAG-CTTAAA
1 GATGGAGAATATGTAGTTTCTAAAATTTCTATTAAAAGCCAAAACAAACTAATAAC-GTCCTAAA
* * * *
130735 GAAGAAGAACATGAT-GAGGAATATGTGGTTTCTAAAAGCTCCCATCAATAGTCAAAACAAATTA
65 GAAAAAGAACATGATGGA-AAATATGTGGTTTCTAAAAGATCCCATCAATAATCAAAACAAATTA
130799 ATAACAAGTTAGAGAAGAAGATCAT
129 ATAACAAGTTAGAGAAGAAGATCAT
*
130824 GATGG-GAATATGTAGTTTCTAAAATTT-TCATTAAAAGCCAAAACAAACTAATAACGTCCTGAA
1 GATGGAGAATATGTAGTTTCTAAAATTTCT-ATTAAAAGCCAAAACAAACTAATAACGTCCTAAA
** * * *
130887 GAAAAAGATTATGATGGAAAATATGTGGTTTCTATAATATCCCATCAATAATCGAAACAAA
65 GAAAAAGAACATGATGGAAAATATGTGGTTTCTAAAAGATCCCATCAATAATCAAAACAAA
130948 CTAAAAAGTG
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
151 2 0.02
152 96 0.91
153 7 0.07
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.27
Consensus pattern (153 bp):
GATGGAGAATATGTAGTTTCTAAAATTTCTATTAAAAGCCAAAACAAACTAATAACGTCCTAAAG
AAAAAGAACATGATGGAAAATATGTGGTTTCTAAAAGATCCCATCAATAATCAAAACAAATTAAT
AACAAGTTAGAGAAGAAGATCAT
Found at i:131267 original size:51 final size:51
Alignment explanation
Indices: 131175--131272 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
131165 AAGAGAAACC
* *
131175 AAGACTCAACTAAAGGGCTTAGATGAAACCAGAAGCCTAAACAATGAAAAA
1 AAGACTCAACTAAAGGGCTTAGATAAAACCAGAAGCATAAACAATGAAAAA
* * * * *
131226 AAGATTCAATTAAAGGGTTTGGATAAAACTAGAAGCATAAACAATGA
1 AAGACTCAACTAAAGGGCTTAGATAAAACCAGAAGCATAAACAATGA
131273 CTTGGATGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (51 bp):
AAGACTCAACTAAAGGGCTTAGATAAAACCAGAAGCATAAACAATGAAAAA
Found at i:131936 original size:44 final size:44
Alignment explanation
Indices: 131847--132242 Score: 203
Period size: 44 Copynumber: 9.0 Consensus size: 44
131837 AAAACAAAGT
* * **
131847 AAATACCAATGTCATCTAATAGTGCAAAGGCACATGAAACAATGC
1 AAATACTAATGTCATCTAA-AGTGCAAATGCACATGAAATGATGC
* ** *
131892 AAATACAAATGTCATCTAAAGTGCAAATGTGCGTGAAATGATGC
1 AAATACTAATGTCATCTAAAGTGCAAATGCACATGAAATGATGC
* * *
131936 AAAT-GTAA-G-CATCAGTAAAATGGCAAATGCATATGAAATGATGC
1 AAATACTAATGTCATC--TAAAGT-GCAAATGCACATGAAATGATGC
* * * * * * *
131980 AACTGCTAATATCATCTAAAGCGTAAATGTGA-GTGAAATGATGC
1 AAATACTAATGTCATCTAAAGTGCAAATG-CACATGAAATGATGC
* * * *
132024 AAATTC-AA--CCATTAATAAAGTGGCAAATGCATATGAAATGATG-
1 AAATACTAATGTCA-T-CTAAAGT-GCAAATGCACATGAAATGATGC
* ****
132067 AAGATGCTAATGTCATCTAAAGTGCAAATGTGTGTGAAATGATGC
1 AA-ATACTAATGTCATCTAAAGTGCAAATGCACATGAAATGATGC
* ** *
132112 AAATAC-AA-GAACA-AAAAAGGTGGAAAATGCACATGAAATGATGC
1 AAATACTAATG-TCATCTAAA-GT-GCAAATGCACATGAAATGATGC
* * * * *
132156 AAATACTATTGTTATCTAAAGTGCAGATGTACGTGAAATGATGC
1 AAATACTAATGTCATCTAAAGTGCAAATGCACATGAAATGATGC
132200 AAA-AGC-AA-G-CATCAATAAAAAG-GCAAATGCACATGAAATGATG
1 AAATA-CTAATGTCATC--T--AAAGTGCAAATGCACATGAAATGATG
132243 TAGAAGCTGA
Statistics
Matches: 265, Mismatches: 59, Indels: 55
0.70 0.16 0.15
Matches are distributed among these distances:
41 9 0.03
42 7 0.03
43 26 0.10
44 168 0.63
45 44 0.17
46 5 0.02
47 6 0.02
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (44 bp):
AAATACTAATGTCATCTAAAGTGCAAATGCACATGAAATGATGC
Found at i:132019 original size:88 final size:88
Alignment explanation
Indices: 131870--132262 Score: 436
Period size: 88 Copynumber: 4.5 Consensus size: 88
131860 ATCTAATAGT
* ** * * *
131870 GCAAAGGCACATGAAACAATGCAAATACAAATGTCATCTAAAGTGCAAATGTGCGTGAAATGATG
1 GCAAATGCACATGAAATGATGCAAATGCTAATGTCATCTAAAGTGCAAATGTGAGTGAAATGATG
* *
131935 CAAATGTAAGCATCAGTAAAATG
66 CAAATGCAAGCATCAATAAAATG
* * * * *
131958 GCAAATGCATATGAAATGATGCAACTGCTAATATCATCTAAAGCGTAAATGTGAGTGAAATGATG
1 GCAAATGCACATGAAATGATGCAAATGCTAATGTCATCTAAAGTGCAAATGTGAGTGAAATGATG
* * * *
132023 CAAATTCAACCATTAATAAAGTG
66 CAAATGCAAGCATCAATAAAATG
* *
132046 GCAAATGCATATGAAATGATG-AAGATGCTAATGTCATCTAAAGTGCAAATGTGTGTGAAATGAT
1 GCAAATGCACATGAAATGATGCAA-ATGCTAATGTCATCTAAAGTGCAAATGTGAGTGAAATGAT
* *
132110 GCAAATACAAG-AACAA-AAAAGGTG
65 GCAAATGCAAGCATCAATAAAA--TG
* * * * *
132134 GAAAATGCACATGAAATGATGCAAATACTATTGTTATCTAAAGTGCAGATGT-ACGTGAAATGAT
1 GCAAATGCACATGAAATGATGCAAATGCTAATGTCATCTAAAGTGCAAATGTGA-GTGAAATGAT
* *
132198 GCAAAAGCAAGCATCAATAAAAAG
65 GCAAATGCAAGCATCAATAAAATG
* *
132222 GCAAATGCACATGAAATGATGTAGAA-GCTGATGTCATCTAA
1 GCAAATGCACATGAAATGATGCA-AATGCTAATGTCATCTAA
132263 TTCCAATTTG
Statistics
Matches: 253, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
86 3 0.01
87 5 0.02
88 233 0.92
89 8 0.03
90 4 0.02
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (88 bp):
GCAAATGCACATGAAATGATGCAAATGCTAATGTCATCTAAAGTGCAAATGTGAGTGAAATGATG
CAAATGCAAGCATCAATAAAATG
Found at i:132683 original size:112 final size:112
Alignment explanation
Indices: 132500--132704 Score: 311
Period size: 112 Copynumber: 1.8 Consensus size: 112
132490 TTTTGAAACC
* * *
132500 GATAGGATCCATGCCCTATTTTCCTAGGCATGAATGGATGAAGTCACATAAAGCATGAATTTCTT
1 GATAGGATACATGCCCTATTTTCCTAGGCATGAATGGATGAAGTCACAAAAAACATGAATTTCTT
* *
132565 TAAAAATTAGACAAATTTGATGTTTTTTGCTCAAAAATTTCTACATT
66 TAAAAATCAAACAAATTTGATGTTTTTTGCTCAAAAATTTCTACATT
* * * * *
132612 GATAGGATATATGCCCTATTTTCCTAGGCATGAGTGGATTAGGTCATAAAAAACATGAATTTCTT
1 GATAGGATACATGCCCTATTTTCCTAGGCATGAATGGATGAAGTCACAAAAAACATGAATTTCTT
*
132677 TGAAAATCAAACAAATTTGATGTTTTTT
66 TAAAAATCAAACAAATTTGATGTTTTTT
132705 CAAGTCCCTT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 82 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (112 bp):
GATAGGATACATGCCCTATTTTCCTAGGCATGAATGGATGAAGTCACAAAAAACATGAATTTCTT
TAAAAATCAAACAAATTTGATGTTTTTTGCTCAAAAATTTCTACATT
Found at i:133340 original size:15 final size:15
Alignment explanation
Indices: 133322--133369 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
133312 TATTTCATGT
133322 TTTTTTATTTTTTTG
1 TTTTTTATTTTTTTG
*
133337 TTTTTTCATTTTTTCG
1 TTTTTT-ATTTTTTTG
* *
133353 TTTTTCAATTTTTTG
1 TTTTTTATTTTTTTG
133368 TT
1 TT
133370 CTTTGTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 15 0.54
16 13 0.46
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTTTTATTTTTTTG
Found at i:133340 original size:16 final size:16
Alignment explanation
Indices: 133319--133369 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
133309 TTTTATTTCA
*
133319 TGTTTTTTTATTTTTT
1 TGTTTTTTCATTTTTT
133335 TGTTTTTTCATTTTTT
1 TGTTTTTTCATTTTTT
* *
133351 CG-TTTTTCAATTTTT
1 TGTTTTTTCATTTTTT
133366 TGTT
1 TGTT
133370 CTTTGTTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 13 0.43
16 17 0.57
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.78
Consensus pattern (16 bp):
TGTTTTTTCATTTTTT
Found at i:134651 original size:145 final size:143
Alignment explanation
Indices: 134436--134703 Score: 385
Period size: 145 Copynumber: 1.9 Consensus size: 143
134426 GAGGGCTTTC
* *
134436 AAAAATATATGGCATGAATGAATGCATGTATGATTCACATAAGCAAATGAGTAGAAAGATAAAAT
1 AAAAATACATGGCATGAATGAATGCATGTATGATTCACATAAGCAAATGAATAGAAAGATAAAAT
* * * *
134501 AAATGTAATATGAAAGAATAGTTATAAGAAAATAATATAAACAAATATATACGAAAAGGTCTGGA
66 AAATGTAATATCAAAGAAAAGTTATAACAAAATAATACAAACAAATATATAC-AAAAGGTCTGGA
134566 GATAAGGGCTTAAA
130 GATAAGGGCTTAAA
* * * * *
134580 AAAAATACATGTCATGAATGAATGCATGTATTTATTCATATATGCCAATGAAT-GCAAAGATAAA
1 AAAAATACATGGCATGAATGAATGCATGTA-TGATTCACATAAGCAAATGAATAG-AAAGATAAA
* *
134644 ATTAATGTAATATCAAAGAAAAGTTATAACAAAGTAATACAAACAAATATATACAAAAGG
64 ATAAATGTAATATCAAAGAAAAGTTATAACAAAATAATACAAACAAATATATACAAAAGG
134704 GCTTATTGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 35 0.32
145 74 0.68
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.25
Consensus pattern (143 bp):
AAAAATACATGGCATGAATGAATGCATGTATGATTCACATAAGCAAATGAATAGAAAGATAAAAT
AAATGTAATATCAAAGAAAAGTTATAACAAAATAATACAAACAAATATATACAAAAGGTCTGGAG
ATAAGGGCTTAAA
Found at i:138207 original size:158 final size:161
Alignment explanation
Indices: 137817--138214 Score: 434
Period size: 158 Copynumber: 2.5 Consensus size: 161
137807 CTTTTTTGTT
* * * *
137817 TTACAATTTAGTCCTTATATAATAAAAACGCAAAATTAAACATGAAATATCTTAAAATCAACACC
1 TTACAAATTAGTCCTTATATAATTAAAACGCAAAATTAAACATCAAATATATTAAAATCAACACC
* * *
137882 AAAAATCACATACAAAGGTCACAAGAAAGATTCAACCAAGCAACATTGGCCTTGGAACAAATTTT
66 AAAAATCACAT---AA-GTCACAAGAAAAATTCAACCAAGCAACATTGGCCTTGAAAAAAATTTT
* **
137947 CCAATATTTTGAAATAAATCCATAAATTTTCTAAAA
127 -CAATAGTTACAAATAAATCCATAAATTTTCTAAAA
* ** * *
137983 TTACAAATT-GGCCTTTATATAATTAAAACATAAAATTAAACATCAAACATATTAAAAT-ATATA
1 TTACAAATTAGTCC-TTATATAATTAAAACGCAAAATTAAACATCAAATATATTAAAATCA-ACA
** * *
138046 CCAAAAATCACAT-A-TCACAAGAAAAATTCGGCCAAGTAACTTTGGCCTTGAAATAAAATATTT
64 CCAAAAATCACATAAGTCACAAGAAAAATTCAACCAAGCAACATTGGCCTTGAAA-AAAAT-TTT
* *
138109 -AATAGTTACAATTAAA--CTTAAAATTTT-TAAAA
127 CAATAGTTACAAATAAATCCAT-AAATTTTCTAAAA
* * *
138141 TTACAAATTAGTCCTTATATAATTAAAACGCAAAATTAAATATCAAATATATCAAAATCAGCACC
1 TTACAAATTAGTCCTTATATAATTAAAACGCAAAATTAAACATCAAATATATTAAAATCAACACC
138206 AAAAATCAC
66 AAAAATCAC
138215 TTACAAAAGT
Statistics
Matches: 196, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
158 67 0.34
159 11 0.06
160 45 0.23
161 4 0.02
162 4 0.02
165 4 0.02
166 61 0.31
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.29
Consensus pattern (161 bp):
TTACAAATTAGTCCTTATATAATTAAAACGCAAAATTAAACATCAAATATATTAAAATCAACACC
AAAAATCACATAAGTCACAAGAAAAATTCAACCAAGCAACATTGGCCTTGAAAAAAATTTTCAAT
AGTTACAAATAAATCCATAAATTTTCTAAAA
Found at i:139160 original size:5 final size:5
Alignment explanation
Indices: 139150--139176 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
139140 AAACTAGTTA
139150 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
139177 TTCAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:139543 original size:32 final size:33
Alignment explanation
Indices: 139502--139571 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 33
139492 TTCAAAAATG
*
139502 ATTTTGTGGTAATCTAATAGGAATA-TTTAAGA
1 ATTTTGTGGTAATCTAATAGGAATACTTAAAGA
139534 ATTTTGTGGTAATCTAATAGGAATACTTAAAGA
1 ATTTTGTGGTAATCTAATAGGAATACTTAAAGA
139567 ATTTT
1 ATTTT
139572 AAAGTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 25 0.69
33 11 0.31
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (33 bp):
ATTTTGTGGTAATCTAATAGGAATACTTAAAGA
Found at i:140983 original size:85 final size:86
Alignment explanation
Indices: 140860--141140 Score: 261
Period size: 85 Copynumber: 3.3 Consensus size: 86
140850 AAAATTTAAA
** *
140860 TTTTTTAAAGATCAAGGTTAGAGTATCCCATTGAAAGAGTGGGGATGGAGTTTCCTTAAAAATTA
1 TTTTTTAAAGATCAAGGTTAGAGTATCCCATTGAAAGAGCAGGGATGGAGTTTCCCTAAAAATTA
* *
140925 TATGAAGGAAAAGTTTAAGTT
66 TATAAAGAAAAAGTTTAAGTT
* ** ** *
140946 TTTTTTTAAGATTGAGGTTAG-GTATCCTTTTGGAAGAGCAGGGATGGAGTTTCCCTAAAAATTA
1 TTTTTTAAAGATCAAGGTTAGAGTATCCCATTGAAAGAGCAGGGATGGAGTTTCCCTAAAAATTA
141010 TATAAAGAAAAAGTTTAAG-T
66 TATAAAGAAAAAGTTTAAGTT
* * * * * * *
141030 TGTTTTGAAGAT-AAGGGTTAAAGTATCCCTTCTG-AGGAGTAGGGATAGAGTTTTCCC-AAAAA
1 TTTTTTAAAGATCAA-GGTTAGAGTATCCCAT-TGAAAGAGCAGGGATGGAG-TTTCCCTAAAAA
** * *
141092 TTATACGAAGAAAAGGTTTGAG--
63 TTATATAAAGAAAAAGTTTAAGTT
* **
141114 TTTCTTAAAGATCTGGGTTAGAGTATC
1 TTTTTTAAAGATCAAGGTTAGAGTATC
141141 TGCTCGGGAT
Statistics
Matches: 161, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
83 1 0.01
84 36 0.22
85 98 0.61
86 26 0.16
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (86 bp):
TTTTTTAAAGATCAAGGTTAGAGTATCCCATTGAAAGAGCAGGGATGGAGTTTCCCTAAAAATTA
TATAAAGAAAAAGTTTAAGTT
Found at i:154195 original size:79 final size:79
Alignment explanation
Indices: 154079--154402 Score: 386
Period size: 79 Copynumber: 4.1 Consensus size: 79
154069 TTCTAAACTT
* * *
154079 GATTTTATTTTTAAAACACTAATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGG
1 GATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGG
154144 GATACTCCAACCTC
66 GATACTCCAACCTC
*
154158 GATTTTA-TTTCTAAAACACCAATTTTTCACAATCGGGGATA-TCCAACCCCGTTATTTCTG-GG
1 GATTTTATTTTC-AAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGG
154220 AGGATACTCCAACCTC
65 -GGATACTCCAACCTC
* *
154236 GATTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT-TCAAGG
1 GATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCT-GAGG
* * * *
154300 GAATATTTCAACCCC
65 GGATACTCCAACCTC
* * * * * * ** * * *
154315 AATTTTATTTTCAAAATATCGATTTTTCATAATTGAGGATACTCTGACTCCGTTATTTTTGAAGG
1 GATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGG
*
154380 GATACCCCCAACCTC
66 GATA-CTCCAACCTC
154395 GATTTTAT
1 GATTTTAT
154403 CTCCAAACTA
Statistics
Matches: 210, Mismatches: 27, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
77 2 0.01
78 72 0.34
79 120 0.57
80 16 0.08
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (79 bp):
GATTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGG
GATACTCCAACCTC
Found at i:154355 original size:157 final size:159
Alignment explanation
Indices: 154079--154402 Score: 390
Period size: 157 Copynumber: 2.1 Consensus size: 159
154069 TTCTAAACTT
* *
154079 GATTTTATTTTTAAAACACTAATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGG
1 GATTTTATTTTCAAAACACTAATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGG
* * * *
154144 GATACTCCAACCTCGATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATA-TCCAACCCC
66 AATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCC
* *
154208 GTTATTTCTGGGA-GGATA-CTCCAACCTC
131 GTTATTT-TGGAAGGGATACCCCCAACCTC
*
154236 GATTTTATTTTCAAAACA-TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT-TCAAG
1 GATTTTATTTTCAAAACACT-AATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTCT-AAG
* * * * * * * **
154299 GGAATATTTCAACCCCAATTTTATTT-TCAAAATATCGATTTTTCATAATTGAGGATACTCTGAC
64 GGAATACTCCAACCCCAATTTTATTTCT-AAAACACCAATTTTTCACAATCGAGGATACTCCAAC
* *
154363 TCCGTTATTTTTGAAGGGATACCCCCAACCTC
128 CCCGTTATTTTGGAAGGGATACCCCCAACCTC
154395 GATTTTAT
1 GATTTTAT
154403 CTCCAAACTA
Statistics
Matches: 141, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
156 3 0.02
157 103 0.73
158 18 0.13
159 17 0.12
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.36
Consensus pattern (159 bp):
GATTTTATTTTCAAAACACTAATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTCTAAGGG
AATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCC
GTTATTTTGGAAGGGATACCCCCAACCTC
Found at i:174720 original size:1 final size:1
Alignment explanation
Indices: 174716--174789 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
174706 AAAACAACAC
* * * * * * * * * *
174716 AAAAAACAACAAAAAAACAAAAAACAAAAAAACAAAAAAAATAAAAAAAAACAAAGAAAAAAGAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
174781 AAAAAAAAA
1 AAAAAAAAA
174790 GAATCTACTT
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.01
Consensus pattern (1 bp):
A
Found at i:174720 original size:12 final size:11
Alignment explanation
Indices: 174704--174769 Score: 71
Period size: 11 Copynumber: 5.8 Consensus size: 11
174694 TCTTTTTTTC
174704 AAAAAACAACA
1 AAAAAACAACA
174715 CAAAAAACAACA
1 -AAAAAACAACA
*
174727 AAAAAACAAAA
1 AAAAAACAACA
*
174738 AACAAAAAAACA
1 AA-AAAACAACA
*
174750 AAAAAA-ATAAA
1 AAAAAACA-ACA
174761 AAAAAACAA
1 AAAAAACAA
174770 AGAAAAAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 1 0.02
11 25 0.53
12 21 0.45
ACGTcount: A:0.85, C:0.14, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAACAACA
Found at i:174734 original size:23 final size:23
Alignment explanation
Indices: 174704--174786 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
174694 TCTTTTTTTC
* *
174704 AAAAAACAACACAA-AAAACAACA
1 AAAAAACAA-AAAACAAAAAAACA
174727 AAAAAACAAAAAACAAAAAAACA
1 AAAAAACAAAAAACAAAAAAACA
*
174750 AAAAAA-ATAAAAA-AAAACAAAGA
1 AAAAAACA-AAAAACAAAA-AAACA
*
174773 AAAAAGAGAAAAAA
1 AAAAA-ACAAAAAA
174787 AAAGAATCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
22 8 0.15
23 37 0.71
24 6 0.12
25 1 0.02
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (23 bp):
AAAAAACAAAAAACAAAAAAACA
Found at i:174737 original size:18 final size:17
Alignment explanation
Indices: 174703--174770 Score: 84
Period size: 17 Copynumber: 3.8 Consensus size: 17
174693 TTCTTTTTTT
174703 CAAAAAACAACACAAAAAA
1 CAAAAAA-AA-ACAAAAAA
174722 CAACAAAAAAACAAAAAA
1 CAA-AAAAAAACAAAAAA
174740 CAAAAAAACAA-AAAAAA
1 CAAAAAAA-AACAAAAAA
*
174757 TAAAAAAAAACAAA
1 CAAAAAAAAACAAA
174771 GAAAAAAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.04
17 21 0.47
18 13 0.29
19 5 0.11
20 4 0.09
ACGTcount: A:0.84, C:0.15, G:0.00, T:0.01
Consensus pattern (17 bp):
CAAAAAAAAACAAAAAA
Found at i:174776 original size:15 final size:14
Alignment explanation
Indices: 174704--174777 Score: 78
Period size: 15 Copynumber: 5.1 Consensus size: 14
174694 TCTTTTTTTC
*
174704 AAAAAACAACACAAA
1 AAAAAACAA-AAAAA
*
174719 AAACAACAAAAAAA
1 AAAAAACAAAAAAA
174733 CAAAAAACAAAAAAA
1 -AAAAAACAAAAAAA
* *
174748 CAAAAA-AAATAAA
1 AAAAAACAAAAAAA
174761 AAAAAACAAAGAAAA
1 AAAAAACAAA-AAAA
174776 AA
1 AA
174778 GAGAAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 11 0.22
14 12 0.24
15 26 0.53
ACGTcount: A:0.85, C:0.12, G:0.01, T:0.01
Consensus pattern (14 bp):
AAAAAACAAAAAAA
Found at i:174787 original size:23 final size:21
Alignment explanation
Indices: 174716--174789 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 21
174706 AAAACAACAC
*
174716 AAAAAACAACAAAAAAACAAAA
1 AAAAAAAAACAAAAAAA-AAAA
174738 AACAAAAAAACAAAAAAAATAAA
1 AA-AAAAAAACAAAAAAAA-AAA
* * *
174761 AAAAAACAAAGAAAAAAGAGAA
1 AAAAAA-AAACAAAAAAAAAAA
174783 AAAAAAA
1 AAAAAAA
174790 GAATCTACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 1 0.02
22 15 0.33
23 29 0.64
ACGTcount: A:0.86, C:0.08, G:0.04, T:0.01
Consensus pattern (21 bp):
AAAAAAAAACAAAAAAAAAAA
Found at i:174790 original size:19 final size:18
Alignment explanation
Indices: 174704--174792 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 18
174694 TCTTTTTTTC
*
174704 AAAAAACAACACAAAAAACA
1 AAAAAACAA-AGAAAAAA-A
* *
174724 ACAAAA-AAACAAAAAACA
1 AAAAAACAAAGAAAAAA-A
*
174742 AAAAAACAAAAAAAATAAA
1 AAAAAACAAAGAAAA-AAA
174761 AAAAAACAAAGAAAAAAGA
1 AAAAAACAAAGAAAAAA-A
174780 GAAAAAA-AAAGAA
1 -AAAAAACAAAGAA
174793 TCTACTTAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
18 17 0.28
19 31 0.51
20 13 0.21
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.01
Consensus pattern (18 bp):
AAAAAACAAAGAAAAAAA
Found at i:175828 original size:55 final size:55
Alignment explanation
Indices: 175744--176682 Score: 1062
Period size: 55 Copynumber: 16.5 Consensus size: 55
175734 TTCTCTTTTA
*
175744 ACCTTTCAGTCCTCAATGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
*
175799 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACTAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
** *
175854 ATTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
175909 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
** * *
175964 ATTTTTCGGTCCTCAAAGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * *
176019 ACCTTTTAGTCCTCAAAGAGCAGGACACTTTTCAAAGCCCGCACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
176074 A-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
176129 A-TTTTCCCAGTCCTCAAAGAGCAGGATGTCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTT--CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * **
176185 ACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTGAAGCCCACATGAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGC
* * * *
176245 ACCCTCCAGTCCTCAAAGAGCAGGACAGCTTTTTCTTTTAAAGCCCACACAAGCTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGAC-GC-----CTTTCAAAGCCCACACAAGTTGGTGGC
* * *
176306 ACC-TTCAGTCCTCAAAGAGTAGGACGCTTTCTCCTTTTAAAGCCCACACAAATTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
176366 ACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTACAAAGCCTACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGC---C--TTT-CAAAGCCCACACAAGTTGGTGGC
*
176427 ACC-TTCTAGTCCTCAAAGGGCAGGACGCATTTTCTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGC
** * * *
176488 ATTTTTGAGTCCTCAAAGAGTAGGACACTTTCCTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGG--AC--GCC-TTTCAAAGCCCACACAAGTTGGTGGC
*
176548 A-TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
176603 ACCTTTCAGTCCTCAAAGAACAGGACGCCTTTTAAAGCCCACGCAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
176658 -GCTTCCTAGTCCTCAAAAAGCAGGA
1 ACCTTTC-AGTCCTCAAAGAGCAGGA
176683 TGCTCCCTCA
Statistics
Matches: 770, Mismatches: 76, Indels: 76
0.84 0.08 0.08
Matches are distributed among these distances:
54 7 0.01
55 416 0.54
56 55 0.07
57 2 0.00
58 3 0.00
59 5 0.01
60 142 0.18
61 122 0.16
62 6 0.01
63 6 0.01
65 2 0.00
66 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:175832 original size:26 final size:26
Alignment explanation
Indices: 175745--175832 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
175735 TCTCTTTTAA
*
175745 CCTTTCAGTCCTCAATGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
175771 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
175800 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
175826 CCTTTCA
1 CCTTTCA
175833 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 6 0.14
28 6 0.14
29 9 0.20
30 3 0.07
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:175887 original size:26 final size:26
Alignment explanation
Indices: 175857--175942 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
175847 TGGTGGCATT
175857 TTTCAGTCCTCAAAGAGCAGGACACC
1 TTTCAGTCCTCAAAGAGCAGGACACC
* * * **
175883 TTTCAAAGCCCACACAAGTTGGTGG-CACC
1 TTTC--AGTCCTCA-AAG-AGCAGGACACC
*
175912 TTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTCAGTCCTCAAAGAGCAGGACACC
175938 TTTCA
1 TTTCA
175943 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
25 3 0.07
26 15 0.34
27 6 0.14
28 6 0.14
29 11 0.25
30 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (26 bp):
TTTCAGTCCTCAAAGAGCAGGACACC
Found at i:176016 original size:165 final size:165
Alignment explanation
Indices: 175744--176831 Score: 1117
Period size: 165 Copynumber: 6.5 Consensus size: 165
175734 TTCTCTTTTA
* **
175744 ACCTTTCAGTCCTCAATGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
* *
175809 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACTAGTTGGTGGCATTTTTCAGTCCTCAAAGAG
66 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
175874 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
131 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
*
175909 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCGGT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
*
175974 CCTCAAAGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGA
66 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGA
* *
176038 GCAGGACACTTTTCAAAGCCCGCACAAGTTGGTGGC
130 GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
176074 A-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCA
1 ACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TCA
* * * *
176138 GTCCTCAAAGAGCAGGATGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
64 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
* **
176203 AGCAGGACACCTTTCCTTTTGAAGCCCACATGAGTTGGTGGC
129 AGCAGGACACCTTT-C----AAAGCCCACACAAGTTGGTGGC
* * * * **
176245 ACCCTCCAGTCCTCAAAGAGCAGGACAGCTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCA-CC
1 ACCTTTCAGTCCTCAAAGAGCAGGAC-GC-----CTTTCAAAGCCCACACAAGTTGGTGGCATTT
* * *
176309 TTCAGTCCTCAAAGAGTAGGACGCTTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCA
60 TTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * *
176374 GTCCTCAAAGAGCAGGATGCTTTCTTTTTACAAAGCCTACACAAGTTGGTGGC
119 GTCCTCAAAGAGCAGGA--C--AC-CTTT-CAAAGCCCACACAAGTTGGTGGC
*
176427 ACC-TTCTAGTCCTCAAAGGGCAGGACGCATTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
176491 TTTGAGTCCTCAAAGAGTAGGACACTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCT
59 TTTCAGTCCTCAAAGAGCAGG--AC--GCC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-
*
176555 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
118 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
* * * ** *
176603 ACCTTTCAGTCCTCAAAGAACAGGACGCCTTTTAAAGCCCACGCAAGTTGGTGGC-GCTTCCTAG
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC-AG
* * * ** *
176667 TCCTCAAAAAGCAGGATG-C--T------CC-CTC-A-TT--TAAC-CCTTT-AGTCCTCAAAGA
65 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGA
* *
176716 GTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
130 GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
** * * * * *
176752 A-CTACCCAGCCCTCAAAGAGCAGGATGCCTCTT-AAAGCCCACACAAGTCGGTAGCATTTTCCA
1 ACCT-TTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTTCA
176815 GTCCTCAAAGAGCAGGA
64 GTCCTCAAAGAGCAGGA
176832 TACACTTTAT
Statistics
Matches: 795, Mismatches: 86, Indels: 100
0.81 0.09 0.10
Matches are distributed among these distances:
148 2 0.00
149 105 0.13
150 6 0.01
151 5 0.01
153 2 0.00
154 1 0.00
155 2 0.00
156 2 0.00
162 1 0.00
164 3 0.00
165 209 0.26
166 74 0.09
167 1 0.00
168 1 0.00
169 2 0.00
170 39 0.05
171 40 0.05
172 3 0.00
175 19 0.02
176 45 0.06
177 33 0.04
178 1 0.00
180 1 0.00
181 64 0.08
182 107 0.13
183 20 0.03
185 3 0.00
186 4 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (165 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:176774 original size:94 final size:95
Alignment explanation
Indices: 176604--176779 Score: 264
Period size: 94 Copynumber: 1.9 Consensus size: 95
176594 GTTGGTGGCA
* * * * * *
176604 CCTTTCAGTCCTCAAAGAACAGGACGCCTTTTAAAGCCCACGCAAGTTGGTGGCGCTTCCTAGTC
1 CCTTTCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTACCCAGCC
176669 CTCAAAAAGCAGGATGCTCCCTCATTTAAC
66 CTCAAAAAGCAGGATGCTCCCTCATTTAAC
**
176699 CCTTT-AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTACCCAGCC
1 CCTTTCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTACCCAGCC
*
176763 CTCAAAGAGCAGGATGC
66 CTCAAAAAGCAGGATGC
176780 CTCTTAAAGC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 67 0.93
95 5 0.07
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (95 bp):
CCTTTCAGTCCTCAAAGAACAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTACCCAGCC
CTCAAAAAGCAGGATGCTCCCTCATTTAAC
Found at i:176829 original size:149 final size:149
Alignment explanation
Indices: 176554--176832 Score: 409
Period size: 149 Copynumber: 1.9 Consensus size: 149
176544 TGGCATTTTC
** *
176554 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCCAGCCCTCAA
* * * *
176619 AGAACAGGACGCCTTTTAAAGCCCACGCAAGTTGGTGGCGCTTCCTAGTCCTCAAAAAGCAGGAT
66 AGAACAGGACGCCTCTTAAAGCCCACACAAGTCGGTAGCGCTTCCTAGTCCTCAAAAAGCAGGAT
176684 GCTCCCTCATTTAACCCTT
131 GCTCCCTCATTTAACCCTT
*
176703 TAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTACCCAGCCCTCA
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT-CCCAGCCCTCA
* * ** *
176767 AAGAGCAGGATGCCTCTTAAAGCCCACACAAGTCGGTAGCATTTTCC-AGTCCTCAAAGAGCAGG
65 AAGAACAGGACGCCTCTTAAAGCCCACACAAGTCGGTAGC-GCTTCCTAGTCCTCAAAAAGCAGG
176831 AT
129 AT
176833 ACACTTTATT
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
148 2 0.02
149 109 0.95
150 4 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (149 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCCAGCCCTCAA
AGAACAGGACGCCTCTTAAAGCCCACACAAGTCGGTAGCGCTTCCTAGTCCTCAAAAAGCAGGAT
GCTCCCTCATTTAACCCTT
Found at i:176832 original size:55 final size:55
Alignment explanation
Indices: 176704--176832 Score: 170
Period size: 55 Copynumber: 2.3 Consensus size: 55
176694 TTAACCCTTT
* * * *
176704 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTACCC
1 AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTCGGTAGCACTACCC
* * **
176759 AGCCCTCAAAGAGCAGGATGCCTCTT-AAAGCCCACACAAGTCGGTAGCATTTTCC
1 AGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTCGGTAGCACTACCC
176814 AGTCCTCAAAGAGCAGGAT
1 AGTCCTCAAAGAGCAGGAT
176833 ACACTTTATT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 62 0.97
56 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTCGGTAGCACTACCC
Found at i:177667 original size:19 final size:21
Alignment explanation
Indices: 177619--177674 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
177609 ATTTCAAACA
177619 ATTTGTATCGATACAAATAGT
1 ATTTGTATCGATACAAATAGT
** *
177640 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAATAGT
177660 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
177675 TGTATCGCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 14 0.48
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
ATTTGTATCGATACAAATAGT
Found at i:177724 original size:21 final size:21
Alignment explanation
Indices: 177698--177739 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
177688 AGCTACTGCC
177698 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
177719 AAGGAAGTGTATCGATACATT
1 AAGGAAATGTATCGATACATT
177740 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:177744 original size:13 final size:13
Alignment explanation
Indices: 177726--177751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
177716 ATTAAGGAAG
177726 TGTATCGATACAT
1 TGTATCGATACAT
177739 TGTATCGATACAT
1 TGTATCGATACAT
177752 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:180170 original size:50 final size:52
Alignment explanation
Indices: 180111--180237 Score: 181
Period size: 50 Copynumber: 2.5 Consensus size: 52
180101 GTTTCTCAAT
* *
180111 TTTTCATAATCGGGGATACTCCAACCT-CGGTTTTATTTTCAAA-CACC-AA
1 TTTTCATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAACCACCGAA
*
180160 TTTTCTATAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAACCACCGAC
1 TTTTC-ATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAACCACCGAA
*
180212 TTTTCACAATCGGGGATACTCCAACC
1 TTTTCATAATCGGGGATACTCCAACC
180238 CCGTTATTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
49 7 0.10
50 33 0.48
51 22 0.32
52 7 0.10
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (52 bp):
TTTTCATAATCGGGGATACTCCAACCTCCGATTTTATTTCCAAACCACCGAA
Found at i:180338 original size:28 final size:28
Alignment explanation
Indices: 180302--180362 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
180292 TTTCATCGGC
*
180302 GATACTCCAATCCCGTTATTTTCGAGGG
1 GATACTCCAATCCCGTTATTTTCAAGGG
* * *
180330 GATATTCCACTCTCGTTATTTTCAAGGG
1 GATACTCCAATCCCGTTATTTTCAAGGG
180358 GATAC
1 GATAC
180363 CCTAACCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (28 bp):
GATACTCCAATCCCGTTATTTTCAAGGG
Found at i:180467 original size:79 final size:80
Alignment explanation
Indices: 180354--180501 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 80
180344 GTTATTTTCA
* *
180354 AGGGGATACCCTAACCCCAACTTTATTTTTAAAATATTA-ATTTCTCATAATAGGGGATACTCCA
1 AGGGGATACCCTAACCCCAACTTTATTCTAAAAATATTATATTTCTCATAATAGGGGATACTCCA
180418 ACCCCGTTATCTCCG
66 ACCCCGTTATCTCCG
* * * * * *
180433 AGGGGATACTCC-AACCCCAGCTTGTA-TCTAAAAATATTATTTTTTTCATAATCGGGGGTACTT
1 AGGGGATAC-CCTAACCCCAACTT-TATTCTAAAAATATTATATTTCTCATAATAGGGGATACTC
180496 CAACCC
64 CAACCC
180502 TGATATTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
79 30 0.52
80 28 0.48
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (80 bp):
AGGGGATACCCTAACCCCAACTTTATTCTAAAAATATTATATTTCTCATAATAGGGGATACTCCA
ACCCCGTTATCTCCG
Found at i:180585 original size:187 final size:180
Alignment explanation
Indices: 180172--180606 Score: 448
Period size: 187 Copynumber: 2.4 Consensus size: 180
180162 TTCTATAATC
* ** *
180172 GGGGATACTCCAACTCCGATTTTATTTCCAAACCACCGACTTT-TCACAATCGGGGATACTCCAA
1 GGGGATACTCCAAC-CCGATTTTATTTCTAAAATACC-AATTTCTCACAATCGGGGATACTCCAA
* *
180236 CCCCGTTATTTACGAGGGGACACTCCAACCCCAGTTTTATTTCTAAAACATCAATTTTTCATCGG
64 CCCCGTTATCTACGAGGGGACACTCCAACCCCAGTTGTA-TTCTAAAACATCAATTTTTCATCGG
* * * *
180301 CGATACTCCAATCCCGTTATTTTCGAGGGGATATTCCACTCTCGTTATTTTCAA
128 CGATACTCCAATCCCGATATTTTC-AGGGGATACTCCAATCCCGTTATTTTCAA
* * * ** * *
180355 GGGGATAC-CCTAACCCCAACTTTATTTTTAAAATATTAATTTCTCATAATAGGGGATACTCCAA
1 GGGGATACTCC-AA-CCCGATTTTATTTCTAAAATACCAATTTCTCACAATCGGGGATACTCCAA
* * * * *
180419 CCCCGTTATCTCCGAGGGGATACTCCAACCCCAGCTTGTA-TCTAAAAATATTATTTTTTTCATA
64 CCCCGTTATCTACGAGGGGACACTCCAACCCCAG-TTGTATTCT-AAAACATCA-ATTTTTC---
* * * * *
180483 ATCGGGGGTACTTCAA-CCCTGATA-TTTCATCGGGGATACTCTAATCCCGTTATTTTCGA
123 ATCGGCGATACTCCAATCCC-GATATTTTCA--GGGGATACTCCAATCCCGTTATTTTCAA
180542 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTCTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCC-GATTTTATTTCTAAAATACCAATTTCTCACAATCGGGGATACTCCAAC
180607 TCCGATTTTA
Statistics
Matches: 204, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
182 9 0.04
183 81 0.40
184 11 0.05
185 1 0.00
186 10 0.05
187 90 0.44
188 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (180 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAATACCAATTTCTCACAATCGGGGATACTCCAACC
CCGTTATCTACGAGGGGACACTCCAACCCCAGTTGTATTCTAAAACATCAATTTTTCATCGGCGA
TACTCCAATCCCGATATTTTCAGGGGATACTCCAATCCCGTTATTTTCAA
Found at i:180602 original size:51 final size:51
Alignment explanation
Indices: 180542--180708 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
180532 TTATTTTCGA
180542 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
** *
180593 GGGGATACTCCAACTCC-GATTTTATTTCCGAAACACCAATTTCTCACAATC
1 GGGGATACTCCAAC-CCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
** * *
180644 GGGGATACTTTAA-CCTCGATTTTATTT-TCAAAATACCGATTT-TCTATAATC
1 GGGGATACTCCAACCCT-GATTTTATTTCT-AAAATACCAATTTCTC-ACAATC
* *
180695 AGGCATACTCCAAC
1 GGGGATACTCCAAC
180709 TCTATTTCTT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
49 2 0.02
50 2 0.02
51 90 0.94
52 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTCTCACAATC
Found at i:192921 original size:1 final size:1
Alignment explanation
Indices: 192917--192990 Score: 67
Period size: 1 Copynumber: 74.0 Consensus size: 1
192907 TCTTTTTTTC
* * * * * * * *
192917 AAAAAAAATAAAAAACAACAAAAAAAACAAAAAAACAAAAAATAAAAAAAACAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
192982 GAAAAAAAA
1 AAAAAAAAA
192991 GAATCTGCTT
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.88, C:0.08, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:192957 original size:34 final size:33
Alignment explanation
Indices: 192917--192990 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 33
192907 TCTTTTTTTC
192917 AAAAAAAATAAAAAACAAC-AAAAAAAACAAAAA
1 AAAAAAAATAAAAAA-AACAAAAAAAAACAAAAA
*
192950 AACAAAAAATAAAAAAAACAAAAAAAAACAAAGA
1 AA-AAAAAATAAAAAAAACAAAAAAAAACAAAAA
192984 AAAAAAA
1 AAAAAAA
192991 GAATCTGCTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
33 10 0.26
34 28 0.74
ACGTcount: A:0.88, C:0.08, G:0.01, T:0.03
Consensus pattern (33 bp):
AAAAAAAATAAAAAAAACAAAAAAAAACAAAAA
Found at i:192963 original size:24 final size:23
Alignment explanation
Indices: 192920--192990 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 23
192910 TTTTTTCAAA
*
192920 AAAAATAAAAAACAACAAAAAAAAC
1 AAAAA-AAAAAA-AAGAAAAAAAAC
*
192945 AAAAAAACAAAAAATAAAAAAAAC
1 AAAAAAA-AAAAAAGAAAAAAAAC
*
192969 AAAAAAAAACAAAGAAAAAAAA
1 AAAAAAAAAAAAAGAAAAAAAA
192991 GAATCTGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 13 0.31
24 20 0.48
25 9 0.21
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAAAAGAAAAAAAAC
Found at i:194012 original size:55 final size:55
Alignment explanation
Indices: 193928--194871 Score: 1069
Period size: 55 Copynumber: 16.5 Consensus size: 55
193918 TTCTCCTTTA
*
193928 ACCTTTCAGTCCTCAATGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
193983 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
*
194038 A-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
*
194093 ACCTTTCAGTCCTCAAAGAGCAGCACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
194148 ACCTTTCAGTCCTCAAAGAGTAGGACGCATTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
194203 A-TTTTCCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
194258 ACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* *
194313 A-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * *
194368 A-TTTTCCCAGTCCTCAAAGAGCAAGATGTCTATCAAAGCCCACACAAGTTGGTGGC
1 ACCTTT--CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * *
194424 ACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACGAGTTAGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGC
* * * *
194484 ACCCTCCAATCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCC--TTT-C----AAAGCCCACACAAGTTGGTGGC
* * *
194546 ACC-TTCAGTCCTCAAAGAGTAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGC
* *
194606 ACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGC---C--TTT-CAAAGCCCACACAAGTTGGTGGC
* * *
194667 ACCTTCCAGTCCTCAAA-AGGCAGGGCGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGCC
1 ACCTTTCAGTCCTCAAAGA-GCAGGACG-C----C-TTTCAAAGCCCACACAAGTTGGTGGC
* * *
194728 A-TTTTCCAGTCCTCAAAGAGTAGGACACATTTCCTTTTCAAAGCCCACACAAGTTGGTGGC
1 ACCTTT-CAGTCCTCAAAGAGCAGG--AC---GCC-TTTCAAAGCCCACACAAGTTGGTGGC
* * *
194789 A-TTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
*
194844 A-CTTCCTAGTCCTCAAAGAGCAGGACGC
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGC
194872 TCCCTCCTTT
Statistics
Matches: 783, Mismatches: 68, Indels: 76
0.84 0.07 0.08
Matches are distributed among these distances:
54 9 0.01
55 423 0.54
56 55 0.07
57 2 0.00
58 1 0.00
59 1 0.00
60 76 0.10
61 168 0.21
62 37 0.05
63 5 0.01
65 4 0.01
67 2 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (55 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:194016 original size:26 final size:26
Alignment explanation
Indices: 193929--194016 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
193919 TCTCCTTTAA
*
193929 CCTTTCAGTCCTCAATGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
193955 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
193984 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
194010 CCTTTCA
1 CCTTTCA
194017 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 17 0.39
27 6 0.14
28 6 0.14
29 9 0.20
30 3 0.07
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:194200 original size:165 final size:165
Alignment explanation
Indices: 193928--195017 Score: 1173
Period size: 165 Copynumber: 6.5 Consensus size: 165
193918 TTCTCCTTTA
*
193928 ACCTTTCAGTCCTCAATGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
193993 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
66 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
194058 CAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
131 CAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
*
194093 ACCTTTCAGTCCTCAAAGAGCAGCACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * *
194158 CCTCAAAGAGTAGGACGCATTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAG
66 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
194223 CAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
131 CAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * *
194258 ACCTTTCAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGTA-TTTTCCAG
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAG
*
194322 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCCAGTCCTCAAAG
65 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CCAGTCCTCAAAG
* * * *
194387 AGCAAGATGTCTATCAAAGCCCACACAAGTTGGTGGC
129 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * *
194424 ACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCCT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACAAGTTGGTGGCACCTT
* * * **
194489 CCAATCCTCAAAGAGCAGGACGCCTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTT-CA
61 TCAGTCCTCAAAGAGCAGGACGCC--TTT-C----AAAGCCCACACAAGTTGGTGGCATTTTCCA
* * *
194553 GTCCTCAAAGAGTAAGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGC
119 GTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGC
* *
194606 ACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCT
1 ACCTTTCAGTCCTCAAAGAGCAGGACGC---C--TTT-CAAAGCCCACACAAGTTGGTGGCACCT
* * *
194671 TCCAGTCCTCAAA-AGGCAGGGCGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGCCATTTTCC
60 TTCAGTCCTCAAAGA-GCAGGACG-C----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
* *
194735 AGTCCTCAAAGAGTAGGACACATTTCCTTTTCAAAGCCCACACAAGTTGGTGGC
118 AGTCCTCAAAGAGCAGG--AC---GCC-TTTCAAAGCCCACACAAGTTGGTGGC
* * * *
194789 A-TTTTCTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTA
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-A
* * **
194852 GTCCTCAAAGAGCAGGACG-C--T-----CCCTC-C---TT--TCGCCCTTT--AGTCCTCAAAG
64 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
* * *
194901 AGTAGGACGCCTTTTAAAACCCACACAAGTTGGTGGC
129 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
* * * * * *
194938 A-CTTCCCAGCCCTCAAAGAGCAGGACGCTTTTTAAAGCCCACACAAGTCGGTGGCA-TTTTCCA
1 ACCTT-TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CA
*
195001 GTCCTCAAAAAGCAGGA
64 GTCCTCAAAGAGCAGGA
195018 TGCACTTTAT
Statistics
Matches: 809, Mismatches: 72, Indels: 104
0.82 0.07 0.11
Matches are distributed among these distances:
149 91 0.11
150 4 0.00
153 2 0.00
155 17 0.02
157 5 0.01
159 2 0.00
162 1 0.00
163 4 0.00
164 3 0.00
165 264 0.33
166 74 0.09
167 1 0.00
168 1 0.00
171 43 0.05
172 1 0.00
173 3 0.00
176 24 0.03
177 40 0.05
178 28 0.03
180 1 0.00
182 80 0.10
183 106 0.13
184 1 0.00
185 3 0.00
186 1 0.00
187 8 0.01
188 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (165 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
CAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
Found at i:194205 original size:27 final size:28
Alignment explanation
Indices: 193956--194265 Score: 99
Period size: 27 Copynumber: 11.2 Consensus size: 28
193946 AGCAGGACGC
193956 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** **
193984 CCTTTC--AGTCCTCAAAGAGCAGGACGC-
1 -CTTTCAAAGCCCACACA-AGTTGGTGGCA
194011 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * ** **
194039 TTTTC-CAGTCCTCAAAGAGCAGGACGC-
1 CTTTCAAAGCCCACACA-AGTTGGTGGCA
194066 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** ***
194094 CCTTTC--AGTCCTCAAAGAGCAGCACGC-
1 -CTTTCAAAGCCCACACA-AGTTGGTGGCA
194121 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * **
194149 CCTTTC--AGTCCTCAAAGAGTAGGACGCA
1 -CTTTCAAAGCCCACACA-AGTTGGTGGCA
194177 -TTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
* * * ** **
194204 TTTTC-CAGTCCTCA-AAAAGCAGGACGC-
1 CTTTCAAAG-CC-CACACAAGTTGGTGGCA
194231 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTCAAAGCCCACACAAGTTGGTGGCA
194259 CCTTTCA
1 -CTTTCA
194266 GTCCTCAAAG
Statistics
Matches: 185, Mismatches: 73, Indels: 46
0.61 0.24 0.15
Matches are distributed among these distances:
26 16 0.09
27 73 0.39
28 73 0.39
29 23 0.12
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (28 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:194956 original size:94 final size:94
Alignment explanation
Indices: 194795--194966 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 94
194785 TGGCATTTTC
* * * *
194795 TAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGCCCTCAA
194860 AGAGCAGGACGCTCCCTCCTTTCGCCCTT
66 AGAGCAGGACGCTCCCTCCTTTCGCCCTT
*
194889 TAGTCCTCAAAGAGTAGGACGCCTTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGCCCTCAA
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGCCCTCAA
194954 AGAGCAGGACGCT
66 AGAGCAGGACGCT
194967 TTTTAAAGCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (94 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGCCCTCAA
AGAGCAGGACGCTCCCTCCTTTCGCCCTT
Found at i:194979 original size:55 final size:55
Alignment explanation
Indices: 194893--195017 Score: 178
Period size: 55 Copynumber: 2.3 Consensus size: 55
194883 GCCCTTTAGT
* *
194893 CCTCAAAGAGTAGGACGCCTTTTAAAACCCACACAAGTTGGTGGCACTTCCCAGC
1 CCTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTCGGTGGCACTTCCCAGC
* * * * *
194948 CCTCAAAGAGCAGGACGCTTTTTAAAGCCCACACAAGTCGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTCGGTGGCACTTCCCAGC
*
195003 CCTCAAAAAGCAGGA
1 CCTCAAAGAGCAGGA
195018 TGCACTTTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (55 bp):
CCTCAAAGAGCAGGACGCCTTTTAAAACCCACACAAGTCGGTGGCACTTCCCAGC
Found at i:195825 original size:19 final size:19
Alignment explanation
Indices: 195801--195862 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
195791 TTTTGAATTT
195801 CAAACAATTTGTATCGATA
1 CAAACAATTTGTATCGATA
**
195820 CAAACAGTAAATGTATCGATA
1 CAAACA--ATTTGTATCGATA
* *
195841 CATA-AGTGTTGTATCGATA
1 CAAACAAT-TTGTATCGATA
195860 CAA
1 CAA
195863 TGTATCGATA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 18 0.55
20 1 0.03
21 14 0.42
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
CAAACAATTTGTATCGATA
Found at i:195868 original size:13 final size:13
Alignment explanation
Indices: 195850--195874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
195840 ACATAAGTGT
195850 TGTATCGATACAA
1 TGTATCGATACAA
195863 TGTATCGATACA
1 TGTATCGATACA
195875 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:195870 original size:32 final size:32
Alignment explanation
Indices: 195829--195901 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
195819 ACAAACAGTA
*
195829 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
*
195861 AATGTATCGATACATAAGTTTTGTATCAATAC
1 AATGTATCGATACATAAGTGTTGTATCAATAC
*
195893 AATATATCG
1 AATGTATCG
195902 CTATTAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCAATAC
Found at i:195887 original size:19 final size:19
Alignment explanation
Indices: 195808--195893 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
195798 TTTCAAACAA
*
195808 TTTGTATCGATACAAACAGT
1 TTTGTATCGATACATA-AGT
**
195828 AAATGTATCGATACATAAGT
1 -TTTGTATCGATACATAAGT
*
195848 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
195863 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
195880 TTTGTATCAATACA
1 TTTGTATCGATACA
195894 ATATATCGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
13 11 0.21
15 2 0.04
17 2 0.04
19 22 0.42
20 3 0.06
21 13 0.25
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:195949 original size:21 final size:20
Alignment explanation
Indices: 195921--195959 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
195911 TACTGCCAAG
*
195921 GAAATGTATCGATACATTAA
1 GAAATGTATAGATACATTAA
195941 GAAAGTGTATAGATACATT
1 GAAA-TGTATAGATACATT
195960 GTATCGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (20 bp):
GAAATGTATAGATACATTAA
Found at i:197902 original size:13 final size:14
Alignment explanation
Indices: 197884--197912 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
197874 TGTTTTTTGA
197884 TTTTTTCC-AACAT
1 TTTTTTCCAAACAT
197897 TTTTTTCCAAACAT
1 TTTTTTCCAAACAT
197911 TT
1 TT
197913 CATGAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTTTCCAAACAT
Found at i:198393 original size:51 final size:51
Alignment explanation
Indices: 198333--198463 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
198323 GTTTCTCAAT
* *
198333 TTTTCATAATCGGGGATACTCTAACCCCGGTTTTATTTTCAAAACA-CCAA
1 TTTTCATAATCGGGGATACTCTAACCCCGATTTTATTTCCAAAACATCCAA
* * * *
198383 TTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCGAC
1 TTTTC-ATAATCGGGGATACTCTAACCCCGATTTTATTTCCAAAACATCCAA
* *
198435 TTTTCACAATCAGGGATACT-TCAACCCCG
1 TTTTCATAATCGGGGATACTCT-AACCCCG
198464 TTATTTTTGA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 5 0.07
51 56 0.82
52 7 0.10
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
TTTTCATAATCGGGGATACTCTAACCCCGATTTTATTTCCAAAACATCCAA
Found at i:198554 original size:28 final size:28
Alignment explanation
Indices: 198522--198595 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
198512 ATTTTTTATC
**
198522 GGGGATACTCCAATCCCGTTATTTTCGA
1 GGGGATACTCCAATCCCGTTATTTTAAA
*
198550 GGGGATACTCCACTCCCGTTATTTTAAA
1 GGGGATACTCCAATCCCGTTATTTTAAA
* *
198578 GGGGATACCCCAACCCCG
1 GGGGATACTCCAATCCCG
198596 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAATCCCGTTATTTTAAA
Done.