Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 97 of 135
Found at i:30194408 original size:26 final size:26
Alignment explanation
Indices: 30194359--30194408 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
30194349 ATCTCTATGA
*
30194359 TAAAAAAACAAATAAAGTTGTTTAAT
1 TAAAAAAACAAATAAAGTTATTTAAT
* * *
30194385 TAAAAAAACTAATTATGTTATTTA
1 TAAAAAAACAAATAAAGTTATTTA
30194409 TGATATTGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (26 bp):
TAAAAAAACAAATAAAGTTATTTAAT
Found at i:30195755 original size:46 final size:46
Alignment explanation
Indices: 30195705--30195994 Score: 307
Period size: 46 Copynumber: 6.3 Consensus size: 46
30195695 TTACTCATTT
* *
30195705 GGGTTAAACCTACATGAATCAGATAATAGTGCTTGGTCACCCGTTA
1 GGGTTGAACCTACACGAATCAGATAATAGTGCTTGGTCACCCGTTA
* * *
30195751 GGGTTGAACATACACAAATCAAATAATAGTG-TCTGGTCACCCGTTA
1 GGGTTGAACCTACACGAATCAGATAATAGTGCT-TGGTCACCCGTTA
* * * * * *
30195797 AGGTTGAACCTACACAAATCGGACAATAGTGCCTGGTCACCTGTTA
1 GGGTTGAACCTACACGAATCAGATAATAGTGCTTGGTCACCCGTTA
* *
30195843 GGGTTGAACCTACACGAATTAGATAATAGTGCCTT-GTCACCCATTA
1 GGGTTGAACCTACACGAATCAGATAATAGTG-CTTGGTCACCCGTTA
* * * * * *
30195889 GGGTTGAACGTACATGAATC-GAATAGTATTGCTTGGTCACCTGTTC
1 GGGTTGAACCTACACGAATCAG-ATAATAGTGCTTGGTCACCCGTTA
* * * * * *
30195935 GGGTTGAACCTACATGAATCAGATAAAACTACCTAGTCACCCGTTA
1 GGGTTGAACCTACACGAATCAGATAATAGTGCTTGGTCACCCGTTA
30195981 GGGTTGAACCTACA
1 GGGTTGAACCTACA
30195995 AAACAAATAG
Statistics
Matches: 201, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
45 5 0.02
46 193 0.96
47 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (46 bp):
GGGTTGAACCTACACGAATCAGATAATAGTGCTTGGTCACCCGTTA
Found at i:30195843 original size:92 final size:92
Alignment explanation
Indices: 30195705--30195994 Score: 355
Period size: 92 Copynumber: 3.2 Consensus size: 92
30195695 TTACTCATTT
* * * * *
30195705 GGGTTAAACCTACATGAATCAGATAATAGTGCTTGGTCACCCGTTAGGGTTGAACATACACAAAT
1 GGGTTGAACCTACATGAATCGGATAATAGTGCTTGGTCACCTGTTAGGGTTGAACCTACACGAAT
* * *
30195770 CAAATAATAGTGTCTGGTCACCCGTTA
66 CAGATAATAGTGCCTAGTCACCCGTTA
* ** * *
30195797 AGGTTGAACCTACACAAATCGGACAATAGTGCCTGGTCACCTGTTAGGGTTGAACCTACACGAAT
1 GGGTTGAACCTACATGAATCGGATAATAGTGCTTGGTCACCTGTTAGGGTTGAACCTACACGAAT
* * *
30195862 TAGATAATAGTGCCTTGTCACCCATTA
66 CAGATAATAGTGCCTAGTCACCCGTTA
* * * * * *
30195889 GGGTTGAACGTACATGAATCGAATAGTATTGCTTGGTCACCTGTTCGGGTTGAACCTACATGAAT
1 GGGTTGAACCTACATGAATCGGATAATAGTGCTTGGTCACCTGTTAGGGTTGAACCTACACGAAT
* * *
30195954 CAGATAAAACTACCTAGTCACCCGTTA
66 CAGATAATAGTGCCTAGTCACCCGTTA
30195981 GGGTTGAACCTACA
1 GGGTTGAACCTACA
30195995 AAACAAATAG
Statistics
Matches: 165, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 165 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (92 bp):
GGGTTGAACCTACATGAATCGGATAATAGTGCTTGGTCACCTGTTAGGGTTGAACCTACACGAAT
CAGATAATAGTGCCTAGTCACCCGTTA
Found at i:30195940 original size:138 final size:138
Alignment explanation
Indices: 30195705--30195994 Score: 350
Period size: 138 Copynumber: 2.1 Consensus size: 138
30195695 TTACTCATTT
* * *
30195705 GGGTTAAACCTACATGAATCAGATAATAGTGCTTGGTCACCCGTTAGGGTTGAACATACACAAAT
1 GGGTTGAACCTACACGAATCAGATAATAGTGCTTGGTCACCCATTAGGGTTGAACATACACAAAT
* * * * *
30195770 CAAATAATAGTGTCTGGTCACCCGTTAAGGTTGAACCTACACAAATCGGACAATAGTGCCTGGTC
66 CAAATAATAGTGTCTGGTCACCCGTTAAGGTTGAACCTACACAAATCAGACAAAACTACCTAGTC
*
30195835 ACCTGTTA
131 ACCCGTTA
* * **
30195843 GGGTTGAACCTACACGAATTAGATAATAGTGCCTT-GTCACCCATTAGGGTTGAACGTACATGAA
1 GGGTTGAACCTACACGAATCAGATAATAGTG-CTTGGTCACCCATTAGGGTTGAACATACACAAA
* * * * ** ** *
30195907 TCGAATAGTATTG-CTTGGTCACCTGTTCGGGTTGAACCTACATGAATCAGATAAAACTACCTAG
65 TCAAATAATAGTGTC-TGGTCACCCGTTAAGGTTGAACCTACACAAATCAGACAAAACTACCTAG
30195971 TCACCCGTTA
129 TCACCCGTTA
30195981 GGGTTGAACCTACA
1 GGGTTGAACCTACA
30195995 AAACAAATAG
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
137 1 0.01
138 124 0.97
139 3 0.02
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (138 bp):
GGGTTGAACCTACACGAATCAGATAATAGTGCTTGGTCACCCATTAGGGTTGAACATACACAAAT
CAAATAATAGTGTCTGGTCACCCGTTAAGGTTGAACCTACACAAATCAGACAAAACTACCTAGTC
ACCCGTTA
Found at i:30197030 original size:26 final size:26
Alignment explanation
Indices: 30197000--30197052 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
30196990 AATTGTAAAT
*
30197000 ATTAAGATATT-TTAAATTAAACTTTA
1 ATTAAGATATTACT-AATTAAACTTTA
**
30197026 ATTAATCTATTACTAATTAAACTTTA
1 ATTAAGATATTACTAATTAAACTTTA
30197052 A
1 A
30197053 ACAAGATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTAAGATATTACTAATTAAACTTTA
Found at i:30198905 original size:24 final size:24
Alignment explanation
Indices: 30198865--30199041 Score: 192
Period size: 24 Copynumber: 7.4 Consensus size: 24
30198855 CAACTCATGT
30198865 ACGTTTACGCTCGTCAGCTTGCAC
1 ACGTTTACGCTCGTCAGCTTGCAC
* ** ** *
30198889 ACGTTTATGCTAATCAGCTTATAT
1 ACGTTTACGCTCGTCAGCTTGCAC
* * *
30198913 ACGTTTATGCTCGTTAGCTTGGAC
1 ACGTTTACGCTCGTCAGCTTGCAC
30198937 ACGTTTACGCTCGTCAGCTTGCAC
1 ACGTTTACGCTCGTCAGCTTGCAC
* * * ** *
30198961 ATGTTTATGCTCGTCAACTTATAT
1 ACGTTTACGCTCGTCAGCTTGCAC
* *
30198985 ACATTTACGCTCGTCAGCTTGAAC
1 ACGTTTACGCTCGTCAGCTTGCAC
*
30199009 ACGTTTACGCTTGTCAGCTTGCAC
1 ACGTTTACGCTCGTCAGCTTGCAC
30199033 ACGTTTACG
1 ACGTTTACG
30199042 TAGTTCTACG
Statistics
Matches: 122, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 122 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
ACGTTTACGCTCGTCAGCTTGCAC
Found at i:30198982 original size:72 final size:72
Alignment explanation
Indices: 30198865--30199039 Score: 269
Period size: 72 Copynumber: 2.4 Consensus size: 72
30198855 CAACTCATGT
* * * *
30198865 ACGTTTACGCTCGTCAGCTTGCACACGTTTATGCTAATCAGCTTATATACGTTTATGCTCGTTAG
1 ACGTTTACGCTCGTCAGCTTGCACACGTTTATGCTAATCAACTTATATACATTTACGCTCGTCAG
*
30198930 CTTGGAC
66 CTTGAAC
* **
30198937 ACGTTTACGCTCGTCAGCTTGCACATGTTTATGCTCGTCAACTTATATACATTTACGCTCGTCAG
1 ACGTTTACGCTCGTCAGCTTGCACACGTTTATGCTAATCAACTTATATACATTTACGCTCGTCAG
30199002 CTTGAAC
66 CTTGAAC
*
30199009 ACGTTTACGCTTGTCAGCTTGCACACGTTTA
1 ACGTTTACGCTCGTCAGCTTGCACACGTTTA
30199040 CGTAGTTCTA
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (72 bp):
ACGTTTACGCTCGTCAGCTTGCACACGTTTATGCTAATCAACTTATATACATTTACGCTCGTCAG
CTTGAAC
Found at i:30199749 original size:3 final size:3
Alignment explanation
Indices: 30199741--30199783 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
30199731 CTTTTAATTC
30199741 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30199784 CATCATCATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30202956 original size:302 final size:302
Alignment explanation
Indices: 30202410--30203016 Score: 1196
Period size: 302 Copynumber: 2.0 Consensus size: 302
30202400 TCATTCCTCA
30202410 AGTAAATTAAGATATCATCAATGAACACCACGACAAATTTATCTATGTAGGGTTAAAATACCCTA
1 AGTAAATTAAGATATCATCAATGAACACCACGACAAATTTATCTATGTAGGGTTAAAATACCCTA
*
30202475 TTCATAAGGTTCATAAATGCGACAGGAGCATTTTTCAATCCGAACGACATAACCAGAAACTCGTA
66 TTCATAAGGTTCATAAATGCGACAGGAGCATTTTTCAATCCGAACAACATAACCAGAAACTCGTA
30202540 ATGTTCATAACGAGTTCTAAAGGTCGTCTTCTGAATATCCAATTCCTTGACTCTTAGTTGATAGT
131 ATGTTCATAACGAGTTCTAAAGGTCGTCTTCTGAATATCCAATTCCTTGACTCTTAGTTGATAGT
30202605 ACCCCGAGCGCAAATCAATCTTAGAAAACATAGTCGCTCCTTTCAACTGATCAAATAAATCATCT
196 ACCCCGAGCGCAAATCAATCTTAGAAAACATAGTCGCTCCTTTCAACTGATCAAATAAATCATCT
30202670 ATCCGTGGCAATGGGTATTTGTTTTTTATTGTAACTTTATTC
261 ATCCGTGGCAATGGGTATTTGTTTTTTATTGTAACTTTATTC
30202712 AGTAAATTAAGATATCATCAATGAACACCACGACAAATTTATCTATGTAGGGTTAAAATACCCTA
1 AGTAAATTAAGATATCATCAATGAACACCACGACAAATTTATCTATGTAGGGTTAAAATACCCTA
*
30202777 TTCATAAGGTTCATAAATGCGACAGGAGCATTTTTCAATTCGAACAACATAACCAGAAACTCGTA
66 TTCATAAGGTTCATAAATGCGACAGGAGCATTTTTCAATCCGAACAACATAACCAGAAACTCGTA
30202842 ATGTTCATAACGAGTTCTAAAGGTCGTCTTCTGAATATCCAATTCCTTGACTCTTAGTTGATAGT
131 ATGTTCATAACGAGTTCTAAAGGTCGTCTTCTGAATATCCAATTCCTTGACTCTTAGTTGATAGT
30202907 ACCCCGAGCGCAAATCAATCTTAGAAAACATAGTCGCTCCTTTCAACTGATCAAATAAATCATCT
196 ACCCCGAGCGCAAATCAATCTTAGAAAACATAGTCGCTCCTTTCAACTGATCAAATAAATCATCT
30202972 ATCCGTGGCAATGGGTATTTGTTTTTTATTGTAACTTTATTC
261 ATCCGTGGCAATGGGTATTTGTTTTTTATTGTAACTTTATTC
30203014 AGT
1 AGT
30203017 TGTCGATAAT
Statistics
Matches: 303, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
302 303 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (302 bp):
AGTAAATTAAGATATCATCAATGAACACCACGACAAATTTATCTATGTAGGGTTAAAATACCCTA
TTCATAAGGTTCATAAATGCGACAGGAGCATTTTTCAATCCGAACAACATAACCAGAAACTCGTA
ATGTTCATAACGAGTTCTAAAGGTCGTCTTCTGAATATCCAATTCCTTGACTCTTAGTTGATAGT
ACCCCGAGCGCAAATCAATCTTAGAAAACATAGTCGCTCCTTTCAACTGATCAAATAAATCATCT
ATCCGTGGCAATGGGTATTTGTTTTTTATTGTAACTTTATTC
Found at i:30206332 original size:72 final size:72
Alignment explanation
Indices: 30206201--30206440 Score: 345
Period size: 72 Copynumber: 3.3 Consensus size: 72
30206191 ACAACAACTC
* ** * ** *
30206201 ATGTACGTTTACGCTCGTTAGCTTGCACACGTTTACGCTCGTCAGCTTATATACATTTATGCTCG
1 ATGTACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCACACATTTATGCTCG
*
30206266 TCAGCTT
66 TAAGCTT
* * *
30206273 ATATACGTTTACGCTCATCAGCTTATATACGTTTACGCTCGTCAGCTTGCACACGTTTATGCTCG
1 ATGTACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCACACATTTATGCTCG
*
30206338 TAAGTTT
66 TAAGCTT
* *
30206345 ATGTACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCATCTTGCACACATTTACGCTCG
1 ATGTACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCACACATTTATGCTCG
30206410 TAAGCTT
66 TAAGCTT
*
30206417 ATGTACGCTTACGCTCGTCAGCTT
1 ATGTACGTTTACGCTCGTCAGCTT
30206441 GCACACGTTT
Statistics
Matches: 149, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 149 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.37
Consensus pattern (72 bp):
ATGTACGTTTACGCTCGTCAGCTTATATACGTTTACGCTCGTCAGCTTGCACACATTTATGCTCG
TAAGCTT
Found at i:30206453 original size:24 final size:24
Alignment explanation
Indices: 30206204--30206440 Score: 276
Period size: 24 Copynumber: 9.9 Consensus size: 24
30206194 ACAACTCATG
* **
30206204 TACGTTTACGCTCGTTAGCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
*
30206228 CACGTTTACGCTCGTCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
* *
30206252 TACATTTATGCTCGTCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
*
30206276 TACGTTTACGCTCATCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
**
30206300 TACGTTTACGCTCGTCAGCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
* * * * *
30206324 CACGTTTATGCTCGTAAGTTTATG
1 TACGTTTACGCTCGTCAGCTTATA
30206348 TACGTTTACGCTCGTCAGCTTATA
1 TACGTTTACGCTCGTCAGCTTATA
* **
30206372 TACGTTTACGCTCGTCATCTTGCA
1 TACGTTTACGCTCGTCAGCTTATA
* * * *
30206396 CACATTTACGCTCGTAAGCTTATG
1 TACGTTTACGCTCGTCAGCTTATA
*
30206420 TACGCTTACGCTCGTCAGCTT
1 TACGTTTACGCTCGTCAGCTT
30206441 GCACACGTTT
Statistics
Matches: 174, Mismatches: 39, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 174 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCTTATA
Found at i:30207039 original size:19 final size:19
Alignment explanation
Indices: 30207015--30207053 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30207005 CACTAAAACC
30207015 CTTACTTGTATGAATTATA
1 CTTACTTGTATGAATTATA
30207034 CTTACTTGTATGAATTATA
1 CTTACTTGTATGAATTATA
30207053 C
1 C
30207054 CAGTCGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (19 bp):
CTTACTTGTATGAATTATA
Found at i:30207183 original size:3 final size:3
Alignment explanation
Indices: 30207175--30207205 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30207165 TTTAATTCCT
30207175 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30207206 CATCAAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30209502 original size:20 final size:19
Alignment explanation
Indices: 30209455--30209502 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
30209445 ATATAAATAA
* *
30209455 AAAATTAATTTTTTTATAT
1 AAAATTAATATTTTTACAT
*
30209474 AAATTTTAATATTTTTACAT
1 AAA-ATTAATATTTTTACAT
30209494 GAAAATTAA
1 -AAAATTAA
30209503 ACTTTAACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
AAAATTAATATTTTTACAT
Found at i:30209915 original size:18 final size:18
Alignment explanation
Indices: 30209892--30209948 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
30209882 TTTCCAGTTG
30209892 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
30209910 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
30209928 TAATTAA--AAAATTATT
1 TAATTAATTAAAATTATT
30209944 CTAAT
1 -TAAT
30209949 CCCAATTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 8 0.23
17 11 0.31
18 16 0.46
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:30209948 original size:17 final size:17
Alignment explanation
Indices: 30209901--30209948 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
30209891 GTAATTAATT
30209901 TAAAATT-TTTAATTAA
1 TAAAATTATTTAATTAA
*
30209917 TTAAATTTATTTAATTAA
1 -TAAAATTATTTAATTAA
30209935 -AAAATTATTCTAAT
1 TAAAATTATT-TAAT
30209949 CCCAATTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.30
17 10 0.37
18 9 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATTATTTAATTAA
Found at i:30210563 original size:7 final size:8
Alignment explanation
Indices: 30210547--30210575 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30210537 ATTATAAATA
30210547 TTATTTTT
1 TTATTTTT
30210555 TTATTTTT
1 TTATTTTT
30210563 TTATTTTT
1 TTATTTTT
30210571 TTATT
1 TTATT
30210576 CACGTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTATTTTT
Found at i:30212240 original size:15 final size:15
Alignment explanation
Indices: 30212220--30212266 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
30212210 TTATTTTAGA
30212220 TTATATTTTAATAAT
1 TTATATTTTAATAAT
30212235 TTATA-TTTAA-AAT
1 TTATATTTTAATAAT
*
30212248 GTTATATTTTAATCAT
1 -TTATATTTTAATAAT
30212264 TTA
1 TTA
30212267 CGTTATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
15 13 0.46
16 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTATATTTTAATAAT
Found at i:30212489 original size:18 final size:19
Alignment explanation
Indices: 30212465--30212511 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
30212455 CTAGTTCAAG
*
30212465 ATTTAATTAATTTAAA-AT
1 ATTTAATTAAATTAAATAT
*
30212483 TTTTAA-TAAATTAAATAT
1 ATTTAATTAAATTAAATAT
30212501 ATTTAATTAAA
1 ATTTAATTAAA
30212512 AATTTATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATTAAATTAAATAT
Found at i:30213935 original size:20 final size:20
Alignment explanation
Indices: 30213889--30213941 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
30213879 TTAGTCTCTC
30213889 TCAACAAAAATTATAAAAAAAA
1 TCAA-AAAAATT-TAAAAAAAA
* *
30213911 T-AAAAAAATTTAAAATAAT
1 TCAAAAAAATTTAAAAAAAA
*
30213930 TCAAAATAATTT
1 TCAAAAAAATTT
30213942 TTAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 2 0.07
22 1 0.04
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (20 bp):
TCAAAAAAATTTAAAAAAAA
Found at i:30213965 original size:29 final size:28
Alignment explanation
Indices: 30213915--30213970 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
30213905 AAAAAATAAA
30213915 AAAATTTAAAATAATTCAAAATAATTTTT
1 AAAATTTAAAATAATTCAAAAT-ATTTTT
*
30213944 AAAATTTAAAAT-ATTTATAAATATTTT
1 AAAATTTAAAATAATTCA-AAATATTTT
30213971 ATATTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAATTTAAAATAATTCAAAATATTTTT
Found at i:30213969 original size:19 final size:19
Alignment explanation
Indices: 30213913--30214031 Score: 57
Period size: 19 Copynumber: 6.2 Consensus size: 19
30213903 AAAAAAAATA
* *
30213913 AAAAAATTTA-AAATAATTC
1 AAAATATTTATAAAT-ATTT
*
30213932 AAAATAATTTTTAAA-ATTT
1 AAAAT-ATTTATAAATATTT
30213951 AAAATATTTATAAATATTT
1 AAAATATTTATAAATATTT
* * * *
30213970 TATAT-TTTATATATTTTTT
1 AAAATATTTATA-AATATTT
* *
30213989 AAAA-AATTATAAAAAGTTT
1 AAAATATTTATAAATA-TTT
* * *
30214008 AAAAAATTCTAAAAATATAT
1 AAAATATT-TATAAATATTT
30214028 AAAA
1 AAAA
30214032 AAATTAGAAT
Statistics
Matches: 74, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
18 15 0.20
19 38 0.51
20 12 0.16
21 9 0.12
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (19 bp):
AAAATATTTATAAATATTT
Found at i:30214001 original size:10 final size:10
Alignment explanation
Indices: 30213988--30214033 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
30213978 ATATATTTTT
30213988 TAAAAAATTA
1 TAAAAAATTA
*
30213998 TAAAAAGTT-
1 TAAAAAATTA
*
30214007 TAAAAAATTC
1 TAAAAAATTA
30214017 T-AAAAATATA
1 TAAAAAAT-TA
30214027 TAAAAAA
1 TAAAAAA
30214034 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 14 0.47
10 11 0.37
11 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:30217616 original size:16 final size:16
Alignment explanation
Indices: 30217595--30217632 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
30217585 AATTAACATA
30217595 TATTTATATTTTTTAT
1 TATTTATATTTTTTAT
30217611 TATTTATATTTTTTAT
1 TATTTATATTTTTTAT
*
30217627 TTTTTA
1 TATTTA
30217633 ATATAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTATATTTTTTAT
Found at i:30224404 original size:15 final size:15
Alignment explanation
Indices: 30224384--30224415 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30224374 ATATGGTTCA
*
30224384 ATCCTTCATGAGTCT
1 ATCCTTAATGAGTCT
30224399 ATCCTTAATGAGTCT
1 ATCCTTAATGAGTCT
30224414 AT
1 AT
30224416 TTTCAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (15 bp):
ATCCTTAATGAGTCT
Found at i:30225085 original size:41 final size:40
Alignment explanation
Indices: 30225037--30225137 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
30225027 TCGACCTTGA
** *
30225037 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
30225077 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
30225115 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
30225138 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:30225882 original size:31 final size:31
Alignment explanation
Indices: 30225844--30225903 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
30225834 AGAATCACAT
30225844 CTGTCTATTATACTTGAATCGACAGTGTTCG
1 CTGTCTATTATACTTGAATCGACAGTGTTCG
30225875 CTGTCTATTATACTTGAATCGACAGTGTT
1 CTGTCTATTATACTTGAATCGACAGTGTT
30225904 TGCTTGCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (31 bp):
CTGTCTATTATACTTGAATCGACAGTGTTCG
Found at i:30233450 original size:29 final size:29
Alignment explanation
Indices: 30233408--30233466 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
30233398 GGCCTTTGTG
30233408 GGTGTTGAGGAAGAGAAGGAAGAATAGAA
1 GGTGTTGAGGAAGAGAAGGAAGAATAGAA
30233437 GGTGTTGAGGAAGAGAAGGAAGAATAGAA
1 GGTGTTGAGGAAGAGAAGGAAGAATAGAA
30233466 G
1 G
30233467 AGAGAAGAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (29 bp):
GGTGTTGAGGAAGAGAAGGAAGAATAGAA
Found at i:30233492 original size:3 final size:3
Alignment explanation
Indices: 30233462--30233532 Score: 108
Period size: 3 Copynumber: 23.3 Consensus size: 3
30233452 AAGGAAGAAT
*
30233462 AGA AGA GAGA AGA AGCA A-A AGA AAA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA -AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
30233508 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
30233533 TTTGTAGCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.89
4 5 0.08
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:30247849 original size:70 final size:70
Alignment explanation
Indices: 30247714--30247851 Score: 213
Period size: 70 Copynumber: 2.0 Consensus size: 70
30247704 CACATATTCC
** * * *
30247714 AAGAGGTTGCTCGACAACATAACCTTAAGGTCCCTCACTACACTGCGGACATTTTTAGAGTAATG
1 AAGAGGTTGCTCGACAACATAACCTTAAGGTCCCGAACTACACTACAGACATTTTTAGAGCAATG
30247779 GATCT
66 GATCT
* *
30247784 AAGAGGTTGCTCGACAACATAACCTTAAGGTCCCGAACTACACTACAGACATTTTTGGGGCAATG
1 AAGAGGTTGCTCGACAACATAACCTTAAGGTCCCGAACTACACTACAGACATTTTTAGAGCAATG
30247849 GAT
66 GAT
30247852 GAGAAGCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (70 bp):
AAGAGGTTGCTCGACAACATAACCTTAAGGTCCCGAACTACACTACAGACATTTTTAGAGCAATG
GATCT
Found at i:30252601 original size:21 final size:22
Alignment explanation
Indices: 30252575--30252616 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
30252565 GATCAAAAGG
30252575 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
30252596 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
30252617 ACATCTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:30271739 original size:22 final size:21
Alignment explanation
Indices: 30271700--30271740 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
30271690 TATTTGAAAG
**
30271700 ATAAAAACTAAGTTAAAATCT
1 ATAAAAACTAAGGAAAAATCT
30271721 ATAAAAACATAAGGAAAAAT
1 ATAAAAAC-TAAGGAAAAAT
30271741 ACTTGATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
ATAAAAACTAAGGAAAAATCT
Found at i:30274390 original size:14 final size:14
Alignment explanation
Indices: 30274371--30274399 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30274361 TTATCAAAAA
30274371 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
30274385 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
30274399 T
1 T
30274400 CATTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:30288266 original size:37 final size:37
Alignment explanation
Indices: 30288164--30288305 Score: 108
Period size: 38 Copynumber: 3.8 Consensus size: 37
30288154 ACATCCAAAT
* ** * *
30288164 TTGCACCCAAAACTGTCGCCGCATAAGCACTTCTAGA
1 TTGCACCCAAAACTATCGCCGCATAAATATTTCCAGA
* *
30288201 TTGCA-CCAAAACTATAGCCCCA-AGAATATTTCCAGA
1 TTGCACCCAAAACTATCGCCGCATA-AATATTTCCAGA
* * * *
30288237 TTGCACCCAAGACTATCGCTGCATAAATATTCTTCAAA
1 TTGCACCCAAAACTATCGCCGCATAAATATT-TCCAGA
* * * * *
30288275 TTGCATCCAGAACTATCACTGCATAAGTATT
1 TTGCACCCAAAACTATCGCCGCATAAATATT
30288306 CTTCAATTAC
Statistics
Matches: 83, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
35 1 0.01
36 27 0.33
37 24 0.29
38 31 0.37
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (37 bp):
TTGCACCCAAAACTATCGCCGCATAAATATTTCCAGA
Found at i:30289198 original size:16 final size:16
Alignment explanation
Indices: 30289177--30289207 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30289167 TTATGGATCC
30289177 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
30289193 CATTTTATCTTTATT
1 CATTTTACCTTTATT
30289208 TTCACATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:30291385 original size:22 final size:21
Alignment explanation
Indices: 30291346--30291386 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
30291336 TATTTGAAAG
**
30291346 ATAAAAACTAAGTTAAAATCT
1 ATAAAAACTAAGGAAAAATCT
30291367 ATAAAAACATAAGGAAAAAT
1 ATAAAAAC-TAAGGAAAAAT
30291387 ATTTGGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (21 bp):
ATAAAAACTAAGGAAAAATCT
Found at i:30302736 original size:15 final size:14
Alignment explanation
Indices: 30302712--30302745 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
30302702 CTGAAACAAC
30302712 ATAAAGAAAAGTGAA
1 ATAAAGAAAAGT-AA
*
30302727 ATAAATAAAAGTAA
1 ATAAAGAAAAGTAA
30302741 ATAAA
1 ATAAA
30302746 AGAATGCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (14 bp):
ATAAAGAAAAGTAA
Found at i:30302956 original size:15 final size:16
Alignment explanation
Indices: 30302928--30302957 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30302918 GACCTGGCCG
30302928 CCTTGATCGTAATTTT
1 CCTTGATCGTAATTTT
30302944 CCTTGAT-GTAATTT
1 CCTTGATCGTAATTT
30302958 CAAATATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (16 bp):
CCTTGATCGTAATTTT
Found at i:30315868 original size:14 final size:14
Alignment explanation
Indices: 30315851--30315879 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30315841 GCTCTTTAAG
30315851 CACCTAATTTTACA
1 CACCTAATTTTACA
30315865 CACCTAATTTTACA
1 CACCTAATTTTACA
30315879 C
1 C
30315880 CTTTTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (14 bp):
CACCTAATTTTACA
Found at i:30324474 original size:17 final size:18
Alignment explanation
Indices: 30324444--30324481 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30324434 TAGGGTCATG
30324444 TTTTTTCAAGTTTAATTT
1 TTTTTTCAAGTTTAATTT
* *
30324462 TTTTTTTAA-TTTAGTTT
1 TTTTTTCAAGTTTAATTT
30324479 TTT
1 TTT
30324482 ATAAATTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTTCAAGTTTAATTT
Found at i:30331897 original size:45 final size:45
Alignment explanation
Indices: 30331824--30332079 Score: 180
Period size: 45 Copynumber: 5.7 Consensus size: 45
30331814 TTATTCCGAG
* * * * *
30331824 GATGACATGGTATCTTTCAACCAAGGTCTTACACAATCTCGAAAT
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACAATCTCGAATT
* **
30331869 GATGCCATAGTATCTTTCAACTATGGTCTTGA-TCGTTCTCG-ATAT
1 GATGCCATAGTATCTTTCAACTATGGTCTT-ACACAATCTCGAAT-T
* * * * *
30331914 GATGTCATAATATCTTTCAACTAAGGTCGTATACATATCT--AATTT
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACA-ATCTCGAA-TT
* * * * *
30331959 AATGCCATAATATATTTCAACTATGGTCTTACACAATCCCGAGTT
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACAATCTCGAATT
* * ** * * * * *
30332004 AACGCCATAGTATCTTTCAACCGTGGTCTTGCA-TATTTCCAGTTT
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACAATCTCGA-ATT
*
30332049 GATGACATAGTATCTTTCAACTATGGTCTTA
1 GATGCCATAGTATCTTTCAACTATGGTCTTA
30332080 TACATTCCAG
Statistics
Matches: 162, Mismatches: 40, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
44 9 0.06
45 147 0.91
46 6 0.04
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (45 bp):
GATGCCATAGTATCTTTCAACTATGGTCTTACACAATCTCGAATT
Found at i:30332082 original size:135 final size:135
Alignment explanation
Indices: 30331838--30332084 Score: 318
Period size: 135 Copynumber: 1.8 Consensus size: 135
30331828 ACATGGTATC
* * * * *
30331838 TTTCAACCAAGGTCTTACACAATCTCGAAATGATGCCATAGTATCTTTCAACTATGGTCTTGATC
1 TTTCAACCAAGGTCTTACACAATCCCGAAATAACGCCATAGTATCTTTCAACCATGGTCTTGATA
*
30331903 GTTCTCGATATGATGTCATAATATCTTTCAACTAAGGTCGTATACATATCTAATTTAATGCCATA
66 GTTCTCGATATGATGACATAATATCTTTCAACTAAGGTCGTATACATATCTAATTTAATGCCATA
30331968 ATATA
131 ATATA
* * ** *
30331973 TTTCAACTATGGTCTTACACAATCCCGAGTTAACGCCATAGTATCTTTCAACCGTGGTCTTGCAT
1 TTTCAACCAAGGTCTTACACAATCCCGAAATAACGCCATAGTATCTTTCAACCATGGTCTTG-AT
* * * * *
30332038 A-TT-TCCAGTTTGATGACATAGTATCTTTCAACTATGGTCTTATACAT
65 AGTTCTCGA-TATGATGACATAATATCTTTCAACTAAGGTCGTATACAT
30332085 TCCAGCAAAG
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
134 3 0.03
135 89 0.95
136 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (135 bp):
TTTCAACCAAGGTCTTACACAATCCCGAAATAACGCCATAGTATCTTTCAACCATGGTCTTGATA
GTTCTCGATATGATGACATAATATCTTTCAACTAAGGTCGTATACATATCTAATTTAATGCCATA
ATATA
Found at i:30335930 original size:14 final size:14
Alignment explanation
Indices: 30335899--30335932 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30335889 TTAAAATCAT
**
30335899 TTTTTAAAAAATGG
1 TTTTTAAAAAATCC
30335913 TTTTTAAAAAATCC
1 TTTTTAAAAAATCC
30335927 TTTTTA
1 TTTTTA
30335933 CTTAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (14 bp):
TTTTTAAAAAATCC
Found at i:30343959 original size:52 final size:52
Alignment explanation
Indices: 30343870--30344112 Score: 344
Period size: 52 Copynumber: 4.7 Consensus size: 52
30343860 ATTTCATTTC
** * * *
30343870 ATTCATATACTCATAATGACACATAGTCACCGAACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
30343922 ATTCATATACTCACGATGAAACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* *
30343974 ATTCATATACTCACGATGACACATAGCCATCAGACCTCATAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* * * *
30344026 ATCCATATACTCACGATGACACATAGCCATTGAACCT-TTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* * *
30344077 ATTCATTTACTCACGATGACACTTAGTCATCGGACC
1 ATTCATATACTCACGATGACACATAGCCATCGGACC
30344113 CTTTCGTTTA
Statistics
Matches: 170, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
51 42 0.25
52 128 0.75
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
Found at i:30347395 original size:2 final size:2
Alignment explanation
Indices: 30347388--30347414 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30347378 ACTTAATGCA
30347388 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30347415 AATTATCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30348957 original size:52 final size:52
Alignment explanation
Indices: 30348879--30349117 Score: 399
Period size: 52 Copynumber: 4.6 Consensus size: 52
30348869 ATTTCATTTC
* *
30348879 ATTCATATACTCACGATGACACATAGCCATCAGATCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
*
30348931 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAAG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
30348983 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* *
30349035 ATTCATATACTCACGATGATACATAGCCATCGGACCT-TTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
* * *
30349086 ATTCATTTACTCACGATGACACTTAGTCATCG
1 ATTCATATACTCACGATGACACATAGCCATCG
30349118 AACCCTTTCG
Statistics
Matches: 177, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 41 0.23
52 136 0.77
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGCCATCGGACCTCATAATCCGTAAAGG
Found at i:30353528 original size:37 final size:38
Alignment explanation
Indices: 30353478--30353553 Score: 136
Period size: 37 Copynumber: 2.0 Consensus size: 38
30353468 CGTGCATTGC
*
30353478 ACATGAATACAAACGTTTATA-TTTTATTATTTAATGA
1 ACATGAATACAAACATTTATATTTTTATTATTTAATGA
30353515 ACATGAATACAAACATTTATATTTTTATTATTTAATGA
1 ACATGAATACAAACATTTATATTTTTATTATTTAATGA
30353553 A
1 A
30353554 ATAATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 20 0.54
38 17 0.46
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (38 bp):
ACATGAATACAAACATTTATATTTTTATTATTTAATGA
Found at i:30353807 original size:8 final size:7
Alignment explanation
Indices: 30353779--30353803 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30353769 AAGTGTCAAA
30353779 TTAATTT
1 TTAATTT
30353786 TTAATTT
1 TTAATTT
30353793 TTAATTT
1 TTAATTT
30353800 TTAA
1 TTAA
30353804 ATTTAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTAATTT
Found at i:30356665 original size:21 final size:21
Alignment explanation
Indices: 30356640--30356679 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30356630 AAACGACGTA
*
30356640 GTTTTGTCTTTTAACTTAATG
1 GTTTTGACTTTTAACTTAATG
30356661 GTTTTGACTTTTAACTTAA
1 GTTTTGACTTTTAACTTAA
30356680 GAAAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (21 bp):
GTTTTGACTTTTAACTTAATG
Found at i:30356862 original size:21 final size:23
Alignment explanation
Indices: 30356818--30356863 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
30356808 AATAACTTGA
*
30356818 TTAATTCAAATAACTTGAACTAT
1 TTAATTCAAATAACTTGAAATAT
*
30356841 TTAATTC-AA-AATTTGAAATAT
1 TTAATTCAAATAACTTGAAATAT
30356862 TT
1 TT
30356864 TTTAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 2 0.10
23 7 0.33
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAATTCAAATAACTTGAAATAT
Found at i:30362036 original size:22 final size:22
Alignment explanation
Indices: 30362011--30362053 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30362001 AAGGTGTCAC
* *
30362011 GACATTGAAACCGAGATGTCGT
1 GACACTGAAACCGAAATGTCGT
*
30362033 GACACTGAAACCTAAATGTCG
1 GACACTGAAACCGAAATGTCG
30362054 CAACATTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (22 bp):
GACACTGAAACCGAAATGTCGT
Found at i:30363724 original size:268 final size:269
Alignment explanation
Indices: 30363246--30363780 Score: 876
Period size: 268 Copynumber: 2.0 Consensus size: 269
30363236 GTTGATTCAT
* * *
30363246 AGCATCGACACACACGAGTCGAGGAGAATTTTGGAAGTGGACAACTTCTTGTGAGAGATGGAGCA
1 AGCATCGACACAAACGAGTCAAGGAGAATTTAGGAAGTGGACAACTTCTTGTGAGAGATGGAGCA
* *
30363311 ATACTTCTATGTTGTAGGCATCAAGGATAATGATGCTCAGGTAAATACTATTGCAAGATATTTTA
66 ATACTTCCATGTTGTAGGCATCAAGGATAATGATGCTCAAGTAAATACTATTGCAAGATATTTTA
30363376 CTAATTTTGCTCTTATATGGTAGCAGTATCAGTCCAAAAATAAACAGCGTGGTCAGGACACAATT
131 CTAATTTTGCTCTTATATGGTAGCAGTATCAGTCCAAAAATAAACAGCGTGGTCAGGACACAATT
* ** *
30363441 GGAACTTGTGATGAGATCCAAAAAGAATTC-AAGAAGCAGTTTTACCC-CAATATGTTGAGAATA
196 GGAACTTGCGATGAGATCCAAAAAGAATTCGAAG-AGCAGTTTTACCCTCAATATGCCGAGAAGA
30363504 AAGCTCGACG
260 AAGCTCGACG
* * *
30363514 AGCATCGACACAAATGCGTCAAGGAGTATTTAGGAAGTGGACAACTTCTTGTGAGAGATGGAGCA
1 AGCATCGACACAAACGAGTCAAGGAGAATTTAGGAAGTGGACAACTTCTTGTGAGAGATGGAGCA
* *
30363579 ATACTTCCATGTTGTGGGCATCAAGGATGATGATGCTCAAGTAAATACTATTGCAAGATATTTTA
66 ATACTTCCATGTTGTAGGCATCAAGGATAATGATGCTCAAGTAAATACTATTGCAAGATATTTTA
* * *
30363644 CTAATTTTGCTCTTATATGGTGGCAGTATCAGTCCAAAAATAAACGGCGTGGTTAGGACACAATT
131 CTAATTTTGCTCTTATATGGTAGCAGTATCAGTCCAAAAATAAACAGCGTGGTCAGGACACAATT
* *
30363709 GGAACTTGCGATGAGATCCAAAAAGAGTTCGATGAGCAGTTTTACCCTCAATATGCCGAGAAGAA
196 GGAACTTGCGATGAGATCCAAAAAGAATTCGAAGAGCAGTTTTACCCTCAATATGCCGAGAAGAA
30363774 AGCTCGA
261 AGCTCGA
30363781 GCTAAGTTGT
Statistics
Matches: 246, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
268 223 0.91
269 23 0.09
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (269 bp):
AGCATCGACACAAACGAGTCAAGGAGAATTTAGGAAGTGGACAACTTCTTGTGAGAGATGGAGCA
ATACTTCCATGTTGTAGGCATCAAGGATAATGATGCTCAAGTAAATACTATTGCAAGATATTTTA
CTAATTTTGCTCTTATATGGTAGCAGTATCAGTCCAAAAATAAACAGCGTGGTCAGGACACAATT
GGAACTTGCGATGAGATCCAAAAAGAATTCGAAGAGCAGTTTTACCCTCAATATGCCGAGAAGAA
AGCTCGACG
Found at i:30366125 original size:19 final size:18
Alignment explanation
Indices: 30366094--30366145 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
30366084 GTGCTTTTGC
*
30366094 TTTTTTGTGGCTTTATTG
1 TTTTTTGTTGCTTTATTG
*
30366112 TTTTTTCGTTGCTTTTTTG
1 TTTTTT-GTTGCTTTATTG
**
30366131 TCTTTGAGTTGCTTT
1 T-TTTTTGTTGCTTT
30366146 TGCTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 19 0.68
20 3 0.11
ACGTcount: A:0.04, C:0.10, G:0.19, T:0.67
Consensus pattern (18 bp):
TTTTTTGTTGCTTTATTG
Found at i:30370566 original size:17 final size:17
Alignment explanation
Indices: 30370546--30370627 Score: 94
Period size: 17 Copynumber: 4.7 Consensus size: 17
30370536 TTCATTTTGG
*
30370546 GTTTAAATTTAGTTTAA
1 GTTTAAATTTAATTTAA
**
30370563 GTTTAAACTTTTCTTTTAA
1 GTTTAAA--TTTAATTTAA
*
30370582 GTTTAAATTTAAATTAA
1 GTTTAAATTTAATTTAA
30370599 GTTTAAATTTAATTTGAA
1 GTTTAAATTTAATTT-AA
30370617 -TTTAAATTTAA
1 GTTTAAATTTAA
30370628 AATTAATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
17 39 0.70
18 2 0.04
19 15 0.27
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:30370609 original size:23 final size:24
Alignment explanation
Indices: 30370577--30370633 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
30370567 AAACTTTTCT
* *
30370577 TTTAAGTTTAAATTT-AAATTAAG
1 TTTAAATTTAAATTTGAAATTAAA
*
30370600 TTTAAATTT-AATTTGAATTTAAA
1 TTTAAATTTAAATTTGAAATTAAA
*
30370623 TTTAAAATTAA
1 TTTAAATTTAA
30370634 TTAAAAAGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (24 bp):
TTTAAATTTAAATTTGAAATTAAA
Found at i:30370610 original size:12 final size:12
Alignment explanation
Indices: 30370577--30370633 Score: 64
Period size: 11 Copynumber: 4.9 Consensus size: 12
30370567 AAACTTTTCT
*
30370577 TTTAAGTTTAAA
1 TTTAAATTTAAA
*
30370589 TTTAAA-TTAAG
1 TTTAAATTTAAA
30370600 TTTAAATTT-AA
1 TTTAAATTTAAA
*
30370611 TTTGAATTTAAA
1 TTTAAATTTAAA
*
30370623 TTTAAAATTAA
1 TTTAAATTTAA
30370634 TTAAAAAGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:30370628 original size:6 final size:6
Alignment explanation
Indices: 30370577--30370633 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
30370567 AAACTTTTCT
* * *
30370577 TTTAAG TTTAAA TTTAAA -TTAAG TTTAAA TTT-AA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
30370623 TTTAAA ATTAA
1 TTTAAA TTTAA
30370634 TTAAAAAGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
5 9 0.20
6 35 0.80
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:30371349 original size:15 final size:15
Alignment explanation
Indices: 30371317--30371350 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30371307 GTATTAAATA
*
30371317 AATATTAATAACACT
1 AATATTAATAACAAT
*
30371332 AATATTAATAATAAT
1 AATATTAATAACAAT
30371347 AATA
1 AATA
30371351 ACAGTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
AATATTAATAACAAT
Found at i:30372501 original size:29 final size:29
Alignment explanation
Indices: 30372458--30372519 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
30372448 AAATTATCTA
* *
30372458 AAAATTACAT-TTTTACCCCTGAATTTTCC
1 AAAATTACATATTTAACCCC-CAATTTTCC
* *
30372487 AAAATTCCATATTTAACCCCCATTTTTCC
1 AAAATTACATATTTAACCCCCAATTTTCC
30372516 AAAA
1 AAAA
30372520 ATTATGGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATTACATATTTAACCCCCAATTTTCC
Found at i:30372560 original size:58 final size:59
Alignment explanation
Indices: 30372482--30372797 Score: 236
Period size: 59 Copynumber: 5.4 Consensus size: 59
30372472 ACCCCTGAAT
* ** ** *
30372482 TTTCCAAAATTCCATATTTAACCCCCATTTTTCCAAAAATTATGGTTATACCCTCGAAC
1 TTTCCAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTATATTTATACCCTCAAAC
** * * *** * *
30372541 -TTCCAAAATTTTATTTTTAACCTTGATTTTTTTGAAAATTACATTTTTATCCCT-AAAC
1 TTTCCAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTATATTTATA-CCCTCAAAC
* * *
30372599 TTTCCAAAATTTCATTTTTAACCCTAATTTTTCCAAAAATTACATTTTTACCCTCAAAC
1 TTTCCAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTATATTTATACCCTCAAAC
* * * *
30372658 TTTTCAAAATTCAATTTTTAACCCTTATTTTTCCAAAAATTACTATTT-TA-CATCTAAA-
1 TTTCCAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTA-TATTTATACCCTC-AAAC
* * * * * * *
30372716 TATCCAAAAATTTCATTTTTGACCCCAA-ATTTCCAAAAATTACCATTT-TACCCTC-GA-
1 TTTCC-AAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTA-TATTTATACCCTCAAAC
* *
30372773 TGTCTAAAAATTCCATTTTTAACCC
1 TTTC-CAAAATTCCATTTTTAACCC
30372798 CAAAACTTTC
Statistics
Matches: 208, Mismatches: 41, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
57 21 0.10
58 69 0.33
59 114 0.55
60 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
TTTCCAAAATTCCATTTTTAACCCTAATTTTTCCAAAAATTATATTTATACCCTCAAAC
Found at i:30372608 original size:29 final size:28
Alignment explanation
Indices: 30372575--30372886 Score: 181
Period size: 29 Copynumber: 10.7 Consensus size: 28
30372565 GATTTTTTTG
30372575 AAAATTACATTTTTATCCCTAAACTTTCC-
1 AAAATTACATTTTTA-CCCTAAA-TTTCCA
* *
30372604 AAAATTTCATTTTTAACCCTAATTTTTCCA
1 AAAATTACATTTTT-ACCCTAA-ATTTCCA
*
30372634 AAAATTACATTTTTACCCTCAAACTTTTC-
1 AAAATTACATTTTTACCCT-AAA-TTTCCA
**
30372663 AAAATT-CAATTTTTAACCCTTATTTTTCCA
1 AAAATTAC-ATTTTT-ACCC-TAAATTTCCA
* *
30372693 AAAATTAC-TATTTTACATCTAAATATCCA
1 AAAATTACAT-TTTTAC-CCTAAATTTCCA
* *
30372722 AAAATTTCATTTTTGACCCCAAATTTCCA
1 AAAATTACATTTTT-ACCCTAAATTTCCA
** * *
30372751 AAAATTACCA-TTTTACCCTCGATGTCTA
1 AAAATTA-CATTTTTACCCTAAATTTCCA
* *
30372779 AAAATTCCATTTTTAACCCCAAAACTTT-CA
1 AAAATTACATTTTT-A-CCCTAAA-TTTCCA
* * *
30372809 AAAATCACCA-TTTTACCCCCAAATATCCA
1 AAAATTA-CATTTTTA-CCCTAAATTTCCA
* * * *
30372838 AAAATTCCATTTTTGACCCCAAACCTTCTA
1 AAAATTACATTTTT-ACCCTAAA-TTTCCA
30372868 AAAATTACCA-TTTTACCCT
1 AAAATTA-CATTTTTACCCT
30372887 CGAGTATTCA
Statistics
Matches: 219, Mismatches: 39, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
27 2 0.01
28 24 0.11
29 116 0.53
30 69 0.32
31 8 0.04
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.38
Consensus pattern (28 bp):
AAAATTACATTTTTACCCTAAATTTCCA
Found at i:30372616 original size:59 final size:59
Alignment explanation
Indices: 30372457--30372764 Score: 260
Period size: 59 Copynumber: 5.2 Consensus size: 59
30372447 TAAATTATCT
* * * * * *
30372457 AAAAATTACATTTTTACCCCT-GAATTTTCCAAAATTCCATATTTAACCCCCATTTTTCC
1 AAAAATTACATTTTTATCCCTCAAACTTTCCAAAATTTCATTTTTAA-CCCTATTTTTCC
** * * * **
30372516 AAAAATT--ATGGTTATACCCTCGAAC-TTCCAAAATTTTATTTTTAACCTTGATTTTTTT
1 AAAAATTACATTTTTAT-CCCTCAAACTTTCCAAAATTTCATTTTTAACCCT-ATTTTTCC
*
30372574 GAAAATTACATTTTTATCCCT-AAACTTTCCAAAATTTCATTTTTAACCCTAATTTTTCC
1 AAAAATTACATTTTTATCCCTCAAACTTTCCAAAATTTCATTTTTAACCCT-ATTTTTCC
*
30372633 AAAAATTACATTTTTA-CCCTCAAACTTTTCAAAA-TTCAATTTTTAACCCTTATTTTTCC
1 AAAAATTACATTTTTATCCCTCAAACTTTCCAAAATTTC-ATTTTTAACCC-TATTTTTCC
* * * * **
30372692 AAAAATTAC-TATTTTA--CATCTAAA-TATCCAAAAATTTCATTTTTGACCCCAAATTTCC
1 AAAAATTACAT-TTTTATCCCTC-AAACTTTCC-AAAATTTCATTTTTAACCCTATTTTTCC
30372750 AAAAATTACCATTTT
1 AAAAATTA-CATTTT
30372765 ACCCTCGATG
Statistics
Matches: 205, Mismatches: 29, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
57 7 0.03
58 64 0.31
59 123 0.60
60 11 0.05
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.42
Consensus pattern (59 bp):
AAAAATTACATTTTTATCCCTCAAACTTTCCAAAATTTCATTTTTAACCCTATTTTTCC
Found at i:30372689 original size:117 final size:115
Alignment explanation
Indices: 30372457--30372770 Score: 323
Period size: 117 Copynumber: 2.7 Consensus size: 115
30372447 TAAATTATCT
* * * *
30372457 AAAAATTACATTTTTACCCCTGAATTTTCCAAAATTCCATATTTAACCCCCATTTTTCCAAAAAT
1 AAAAATTACATTTTTA-CCCT-AAATTTCCAAAATTTCATTTTTAACCCCAATTTTTCCAAAAAT
** * * ** *
30372522 TATGGTTATACCCTCGAACTTCCAAAATTTTATTTTTAACCTTGATTTTTT-T
64 TA-CATTTTACCCTCAAACTTCCAAAATTCAATTTTTAACCTTGATTTTTTCC
* *
30372574 GAAAATTACATTTTTATCCCTAAACTTTCCAAAATTTCATTTTTAACCCTAATTTTTCCAAAAAT
1 AAAAATTACATTTTTA-CCCTAAA-TTTCCAAAATTTCATTTTTAACCCCAATTTTTCCAAAAAT
*
30372639 TACATTTTTACCCTCAAACTTTTCAAAATTCAATTTTTAACCCTT-A-TTTTTCC
64 TACA-TTTTACCCTCAAAC-TTCCAAAATTCAATTTTTAA-CCTTGATTTTTTCC
* * * *
30372692 AAAAATTAC-TATTTTACATCTAAATATCCAAAAATTTCATTTTTGACCCCAA-ATTTCCAAAAA
1 AAAAATTACAT-TTTTAC-CCTAAATTTCC-AAAATTTCATTTTTAACCCCAATTTTTCCAAAAA
30372755 TTACCATTTTACCCTC
63 TTA-CATTTTACCCTC
30372771 GATGTCTAAA
Statistics
Matches: 167, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
116 2 0.01
117 103 0.62
118 58 0.35
119 4 0.02
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (115 bp):
AAAAATTACATTTTTACCCTAAATTTCCAAAATTTCATTTTTAACCCCAATTTTTCCAAAAATTA
CATTTTACCCTCAAACTTCCAAAATTCAATTTTTAACCTTGATTTTTTCC
Found at i:30372811 original size:58 final size:57
Alignment explanation
Indices: 30372691--30372899 Score: 240
Period size: 59 Copynumber: 3.6 Consensus size: 57
30372681 CTTATTTTTC
* * ** *
30372691 CAAAAATTACTATTTTACATCTAAATATCCAAAAATTTCATTTTTGACCCCAAA-TTT
1 CAAAAATTACCATTTTAC-CCTCGATATCCAAAAATTCCATTTTTGACCCCAAACTTT
* * *
30372748 CCAAAAATTACCATTTTACCCTCGATGTCTAAAAATTCCATTTTTAACCCCAAAACTTT
1 -CAAAAATTACCATTTTACCCTCGATATCCAAAAATTCCATTTTTGACCCC-AAACTTT
* * * *
30372807 CAAAAATCACCATTTTACCCCCAAATATCCAAAAATTCCATTTTTGACCCCAAACCTT
1 CAAAAATTACCATTTTACCCTC-GATATCCAAAAATTCCATTTTTGACCCCAAACTTT
*
30372865 CTAAAAATTACCATTTTACCCTCGAGTATTCAAAA
1 C-AAAAATTACCATTTTACCCTCGA-TATCCAAAA
30372900 CTACCGTTTT
Statistics
Matches: 127, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
57 25 0.20
58 48 0.38
59 54 0.43
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCTCGATATCCAAAAATTCCATTTTTGACCCCAAACTTT
Found at i:30372857 original size:59 final size:58
Alignment explanation
Indices: 30372691--30372885 Score: 241
Period size: 58 Copynumber: 3.3 Consensus size: 58
30372681 CTTATTTTTC
* ** * *
30372691 CAAAAATTACTATTTTACATCTAAATATCCAAAAATTTCATTTTTGACCCCAAA-TTT
1 CAAAAATTACCATTTTACCCCCAAATATCCAAAAATTCCATTTTTGACCCCAAACTTT
* * * * *
30372748 CCAAAAATTACCATTTTACCCTC-GATGTCTAAAAATTCCATTTTTAACCCCAAAACTTT
1 -CAAAAATTACCATTTTACCCCCAAATATCCAAAAATTCCATTTTTGACCCC-AAACTTT
* *
30372807 CAAAAATCACCATTTTACCCCCAAATATCCAAAAATTCCATTTTTGACCCCAAACCTT
1 CAAAAATTACCATTTTACCCCCAAATATCCAAAAATTCCATTTTTGACCCCAAACTTT
30372865 CTAAAAATTACCATTTTACCC
1 C-AAAAATTACCATTTTACCC
30372886 TCGAGTATTC
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
57 23 0.20
58 47 0.41
59 45 0.39
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAATATCCAAAAATTCCATTTTTGACCCCAAACTTT
Found at i:30372899 original size:29 final size:29
Alignment explanation
Indices: 30372749--30372916 Score: 100
Period size: 28 Copynumber: 5.8 Consensus size: 29
30372739 CCCAAATTTC
*
30372749 CAAAAATTACCATTTTACCCTCG-AT-GT
1 CAAAAATTACCATTTTACCCTCGAATATT
*
30372776 CTAAAAATT-CCATTTTTAACCC-C-AAAACTTT
1 C-AAAAATTACCA-TTTT-ACCCTCGAATA--TT
* * * *
30372807 CAAAAATCACCATTTTACCCCCAAATATC
1 CAAAAATTACCATTTTACCCTCGAATATT
* **
30372836 CAAAAATT-CCATTTTTGACCC-CAAACCTT
1 CAAAAATTACCA-TTTT-ACCCTCGAATATT
*
30372865 CTAAAAATTACCATTTTACCCTCGAGTATT
1 C-AAAAATTACCATTTTACCCTCGAATATT
* *
30372895 C-AAAACTACCGTTTTACCCTCG
1 CAAAAATTACCATTTTACCCTCG
30372917 GACCTCCAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 29
0.72 0.10 0.19
Matches are distributed among these distances:
27 4 0.04
28 35 0.32
29 30 0.27
30 31 0.28
31 11 0.10
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCTCGAATATT
Found at i:30373669 original size:86 final size:86
Alignment explanation
Indices: 30373520--30373693 Score: 312
Period size: 86 Copynumber: 2.0 Consensus size: 86
30373510 CTTTGTTAAT
* *
30373520 GTTTTTAAATTTTACAAAATAAGACTCGAAAGTAATCAATGTGGTACCAATTTTGGGCGTATGAG
1 GTTTTTAAATTTTACAAAATAAGACCCGAAAGTAATCAATGTGGTACCAATTTTGGGCATATGAG
30373585 GGTGCTAACCATTCCTCATGC
66 GGTGCTAACCATTCCTCATGC
*
30373606 GTTTTTAAATTTTACAAAATAAGACCCGAAAGTAATCAATGTGGTGCCAATTTTGGGCATATGAG
1 GTTTTTAAATTTTACAAAATAAGACCCGAAAGTAATCAATGTGGTACCAATTTTGGGCATATGAG
*
30373671 GGTGCTAACCCTTCCTCATGC
66 GGTGCTAACCATTCCTCATGC
30373692 GT
1 GT
30373694 AACCGACTCC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (86 bp):
GTTTTTAAATTTTACAAAATAAGACCCGAAAGTAATCAATGTGGTACCAATTTTGGGCATATGAG
GGTGCTAACCATTCCTCATGC
Found at i:30378718 original size:24 final size:23
Alignment explanation
Indices: 30378690--30378757 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
30378680 TATACAATGA
30378690 AGAAAAAATAAATAAAAAAAGAAG
1 AGAAAAAA-AAATAAAAAAAGAAG
* **
30378714 AGAAAGAAAAGCAAAAATAAGAAG
1 AGAAAAAAAAATAAAAA-AAGAAG
30378738 A-AAAACAAAAATAGAAAAAA
1 AGAAAA-AAAAATA-AAAAAA
30378758 TGGAGAGGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
23 10 0.29
24 21 0.60
25 4 0.11
ACGTcount: A:0.78, C:0.03, G:0.13, T:0.06
Consensus pattern (23 bp):
AGAAAAAAAAATAAAAAAAGAAG
Found at i:30380335 original size:98 final size:98
Alignment explanation
Indices: 30380005--30380654 Score: 765
Period size: 98 Copynumber: 6.7 Consensus size: 98
30379995 GACACAACGG
* * * *
30380005 AAAGATCTAAGACCGCAACGGTGGGTCTAGTACCGCGAAGACACAAGGGAAAGATTTAAGCCGCA
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
* * * *
30380070 A-GGACGGATCCAGTACCACAAAAACACGACGGG
66 ACAG-CGGATCCAATACCACAAAAACACGAAGGA
* * * * *
30380103 AAAGAGCTAAGACCGTAATGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGTCGCG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
* * * * *
30380168 A-TGGGGATCTAATACCACAAAAACACGACGGG
66 ACAGCGGATCCAATACCACAAAAACACGAAGGA
* * *
30380200 AAAGATCTAAGATCACAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCG
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
*
30380265 ACAGCGGATCCAGTACCACAAAAACACGAAGGA
66 ACAGCGGATCCAATACCACAAAAACACGAAGGA
* * *
30380298 AAAGATCTAAGACCGCAACGGCGGATCCAGTATCGCGAAGACATAAAGGAAAGATCTAAGCCGCA
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
* * *
30380363 ATC-GCGGATCCAGTACCA-TAAAACACG-ACGA
66 A-CAGCGGATCCAATACCACAAAAACACGAAGGA
* * ** * *
30380394 GAAAGATCTAAGACCGTAGCGATGAATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGC
1 -AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGC
* *
30380459 AACGGCGGATCCAATACCACAAAAACACGACGGA
65 AACAGCGGATCCAATACCACAAAAACACGAAGGA
* * * * *
30380493 AAATATCTAAGACCGCAACGACGGATCCAGTACTGCGAAGACACAAGGGAACGATCTAAGCTGCA
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
* * * * * *
30380558 ACGGCAGATCTAATACCACGAAGACAC-AAGGG
66 ACAGCGGATCCAATACCACAAAAACACGAAGGA
* * * *
30380590 AAAGATCTAAG-CCACAACGACGGATCCAATACCACGAAGACACAAGGGAAAGATCTAAGCCGCA
1 AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
30380654 A
66 A
30380655 TGACAGATTC
Statistics
Matches: 478, Mismatches: 68, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
96 52 0.11
97 178 0.37
98 245 0.51
99 3 0.01
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.11
Consensus pattern (98 bp):
AAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCA
ACAGCGGATCCAATACCACAAAAACACGAAGGA
Found at i:30380337 original size:195 final size:192
Alignment explanation
Indices: 30380003--30380653 Score: 815
Period size: 195 Copynumber: 3.3 Consensus size: 192
30379993 AAGACACAAC
* ** * * * *
30380003 GGAAAGATCTAAGACCGCAACGGTGGGTCTAGTACCGCGAAGACACAAGGGAAAGATTTAAGCCG
1 GGAAAGATCTAAGACCACAACGACGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCG
* * * *
30380068 CA-AGGACGGATCCAGTACCACAAAAACACGACGGGAAAGAGCTAAGACCGTAATGGCGGATCCA
66 CACA-G-CGGATCCAGTACCACAAAAACACGACGGAAAAGATCTAAGACCGCAACGGCGGATCCA
*
30380132 GTACCGCGAAGACACAAGGGAAAGATCTAAGTCGCGATGGGGATCTAATACCACAAAAACACGAC
129 GTA-CGCGAAGACACAAGGGAAAGATCTAAG-CGCAATGGGGATCTAATACCACAAAAACACGAC
30380197 G
192 G
* * *
30380198 GGAAAGATCTAAGATCACAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCG
1 GGAAAGATCTAAGACCACAACGACGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCG
*
30380263 CGACAGCGGATCCAGTACCACAAAAACACGAAGGAAAAGATCTAAGACCGCAACGGCGGATCCAG
66 C-ACAGCGGATCCAGTACCACAAAAACACGACGGAAAAGATCTAAGACCGCAACGGCGGATCCAG
* * * * * *
30380328 TATCGCGAAGACATAAAGGAAAGATCTAAGCCGCAATCGCGGATCCAGTACCA-TAAAACACGAC
130 TA-CGCGAAGACACAAGGGAAAGATCTAAG-CGCAAT-GGGGATCTAATACCACAAAAACACGAC
30380392 G
192 G
* ** * * *
30380393 AGAAAGATCTAAGACCGTAGCGATGAATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCG
1 GGAAAGATCTAAGACCACAACGACGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCG
* * * *
30380458 CAACGGCGGATCCAATACCACAAAAACACGACGGAAAATATCTAAGACCGCAACGACGGATCCAG
66 C-ACAGCGGATCCAGTACCACAAAAACACGACGGAAAAGATCTAAGACCGCAACGGCGGATCCAG
* * * * * *
30380523 TACTGCGAAGACACAAGGGAACGATCTAAGCTGCAACGGCAGATCTAATACCACGAAGACAC-AA
130 TAC-GCGAAGACACAAGGGAAAGATCTAAGC-GCAATGG-GGATCTAATACCACAAAAACACGAC
30380587 G
192 G
*
30380588 GGAAAGATCTAAG-CCACAACGACGGATCCAATACCACGAAGACACAAGGGAAAGATCTAAGCCG
1 GGAAAGATCTAAGACCACAACGACGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCG
30380652 CA
66 CA
30380654 ATGACAGATT
Statistics
Matches: 396, Mismatches: 53, Indels: 16
0.85 0.11 0.03
Matches are distributed among these distances:
193 1 0.00
194 49 0.12
195 325 0.82
196 20 0.05
197 1 0.00
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (192 bp):
GGAAAGATCTAAGACCACAACGACGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCG
CACAGCGGATCCAGTACCACAAAAACACGACGGAAAAGATCTAAGACCGCAACGGCGGATCCAGT
ACGCGAAGACACAAGGGAAAGATCTAAGCGCAATGGGGATCTAATACCACAAAAACACGACG
Found at i:30380673 original size:48 final size:48
Alignment explanation
Indices: 30379987--30380677 Score: 643
Period size: 48 Copynumber: 14.2 Consensus size: 48
30379977 GCTGAGAAAA
* ** * *
30379987 ACCACGAAGACACAACGGAAAGATCTAAGACCGCAACGGTGGGTCTAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGT
* * *
30380036 ACCGCGAAGACACAAGGGAAAGATTTAAGCCGCAAGGACGGATCCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
* * * * * * *
30380084 ACCACAAAAACACGACGGGAAAGAGCTAAGACCGTAATGGCGGATCCAGT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGT
* * * * * * *
30380134 ACCGCGAAGACACAAGGGAAAGATCTAAGTCGCGATG-GGGATCTAAT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
* * * * * *
30380181 ACCACAAAAACACGACGGGAAAGATCTAAGATCACAACGGCGGATCCAGT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGT
* *
30380231 ACCGCGAAGACACAAGGGAAAGATCTAAGCCGCGAC-AGCGGATCCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGA-CGGATCCAGT
* * * *
30380279 ACCACAAAAACACGAAGGAAAAGATCTAAGACCGCAACGGCGGATCCAGT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGT
* * * *
30380329 ATCGCGAAGACATAAAGGAAAGATCTAAGCCGCAATCG-CGGATCCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAA-CGACGGATCCAGT
* * * * * * * *
30380377 ACCA-TAAAACACGACGAGAAAGATCTAAGACCGTAGCGATGAATCCAGT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGT
* *
30380426 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAAT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
* * * * *
30380474 ACCACAAAAACACGACGGAAAATATCTAAGACCGCAACGACGGATCCAGT
1 ACCACGAAGACAC-AAGGGAAAGATCTAAG-CCGCAACGACGGATCCAGT
** * * * * * *
30380524 ACTGCGAAGACACAAGGGAACGATCTAAGCTGCAACGGCAGATCTAAT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
* *
30380572 ACCACGAAGACACAAGGGAAAGATCTAAGCCACAACGACGGATCCAAT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
* * *
30380620 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAATGACAGATTCAGT
1 ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
30380668 ACCACGAAGA
1 ACCACGAAGA
30380678 TTTGAAGAGA
Statistics
Matches: 512, Mismatches: 114, Indels: 33
0.78 0.17 0.05
Matches are distributed among these distances:
47 22 0.04
48 232 0.45
49 159 0.31
50 99 0.19
ACGTcount: A:0.40, C:0.25, G:0.24, T:0.11
Consensus pattern (48 bp):
ACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGT
Found at i:30380979 original size:101 final size:101
Alignment explanation
Indices: 30380804--30380999 Score: 284
Period size: 101 Copynumber: 1.9 Consensus size: 101
30380794 AGCTCTAATG
* ** **
30380804 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTTAATGTCAGTTCCTATCC
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACATCAAATCCTATCC
* * *
30380869 ACTTGAAGTTGTAGTAAAGTTGGATTAAAAACAATA
66 ACCTGAAGTTGCAGCAAAGTTGGATTAAAAACAATA
* *
30380905 GCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAACATCAAATCCTATCT
1 GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACATCAAATCCTATCC
* *
30380970 TCCTGAAGTTGCAGCGAAGTTGGATTAAAA
66 ACCTGAAGTTGCAGCAAAGTTGGATTAAAA
30381000 CTACAGCAGC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (101 bp):
GCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACATCAAATCCTATCC
ACCTGAAGTTGCAGCAAAGTTGGATTAAAAACAATA
Found at i:30381230 original size:38 final size:39
Alignment explanation
Indices: 30381183--30381313 Score: 112
Period size: 38 Copynumber: 3.4 Consensus size: 39
30381173 AAGCCGTTTG
*
30381183 ATCTTTTA-CCCGAGCCTAAGGCAGATCATCATCAATCA
1 ATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAATCA
** * * **
30381221 ATCTCTTACCCCGAG-CTTGGGACAGAT--TGCAGCCATTTG
1 ATCTCTTACCCCGAGCCTAAGG-CAGATCAT-CA-TCAATCA
*
30381260 ATCT-TTACCCCGAGCC-AAGGGCAGATCATCATCAACCA
1 ATCTCTTACCCCGAGCCTAA-GGCAGATCATCATCAATCA
30381298 ATCTCTTACCCCGAGC
1 ATCTCTTACCCCGAGC
30381314 TTGGGGCAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
37 1 0.01
38 34 0.49
39 34 0.49
40 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAATCA
Found at i:30381232 original size:77 final size:76
Alignment explanation
Indices: 30381054--30381325 Score: 325
Period size: 77 Copynumber: 3.5 Consensus size: 76
30381044 AGTGAAGTTA
* * * * *
30381054 CATCATCAACCAATCTCTTACCCTGAGCCT-AGGGCAAAATGCAGCCATTTGATCTTTTTCCCTA
1 CATCATCAACCAATCTCTTACCCCGAGCCTGA-GGCAGATTGCAGCCATTTGATCTTTTACCCGA
* *
30381118 GGCCACGGGCAAAT
65 -GCCA-AGGCAGAT
** * *
30381132 CATTGTCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTGAAGCCGTTTGATCTTTTACCCGAG
1 CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATTTGATCTTTTACCCGAG
30381197 CCTAAGGCAGAT
66 CC-AAGGCAGAT
* *
30381209 CATCATCAATCAATCTCTTACCCCGAGCTTG-GGACAGATTGCAGCCATTTGATC-TTTACCCCG
1 CATCATCAACCAATCTCTTACCCCGAGCCTGAGG-CAGATTGCAGCCATTTGATCTTTTA-CCCG
30381272 AGCCAAGGGCAGAT
64 AGCCAA-GGCAGAT
* *
30381286 CATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATT
1 CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATT
30381326 ACAGATCATC
Statistics
Matches: 170, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
76 8 0.05
77 105 0.62
78 56 0.33
79 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (76 bp):
CATCATCAACCAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATTTGATCTTTTACCCGAG
CCAAGGCAGAT
Found at i:30381247 original size:39 final size:38
Alignment explanation
Indices: 30381202--30381393 Score: 120
Period size: 39 Copynumber: 4.9 Consensus size: 38
30381192 CCGAGCCTAA
30381202 GGCAGATCATCATCAATCAATCTCTTACCCCGAGCTTG
1 GGCAGATCATCATCAATCAATCTCTTACCCCGAGCTTG
* * ** **
30381240 GGACAGAT--TGCAGCCATTTGATCT-TTACCCCGAGCCAAG
1 GG-CAGATCAT-CA-TCAATCAATCTCTTACCCCGAG-CTTG
*
30381279 GGCAGATCATCATCAACCAATCTCTTACCCCGAGCTTGG
1 GGCAGATCATCATCAATCAATCTCTTACCCCGAGCTT-G
* ** * * *
30381318 GGCAGATTACAGATCATCACTTGATCTCTTACCTCAAACTTG
1 GGCAGA-T-C--ATCATCAATCAATCTCTTACCCCGAGCTTG
* ** *
30381360 AGGCAGATCACCATCAGCCAGTCTCTTACCCCGA
1 -GGCAGATCATCATCAATCAATCTCTTACCCCGA
30381394 TCATGGGGCA
Statistics
Matches: 113, Mismatches: 28, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
37 1 0.01
38 26 0.23
39 52 0.46
40 2 0.02
41 2 0.02
42 2 0.02
43 28 0.25
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (38 bp):
GGCAGATCATCATCAATCAATCTCTTACCCCGAGCTTG
Found at i:30381404 original size:39 final size:39
Alignment explanation
Indices: 30381278--30381406 Score: 105
Period size: 39 Copynumber: 3.2 Consensus size: 39
30381268 CCCGAGCCAA
* * *
30381278 GGGCAGATCATCATCAACCAATCTCTTACCCCGAGCTTG
1 GGGCAGATCACCATCAACCAGTCTCTTACCCCGAACTTG
* * ** * *
30381317 GGGCAGATTACAGATCATCACTTGATCTCTTACCTCAAACTTG
1 GGGCAGATCAC-CATCA--ACCAG-TCTCTTACCCCGAACTTG
* * * *
30381360 AGGCAGATCACCATCAGCCAGTCTCTTACCCCGATCATG
1 GGGCAGATCACCATCAACCAGTCTCTTACCCCGAACTTG
30381399 GGGCAGAT
1 GGGCAGAT
30381407 GGTCATCATT
Statistics
Matches: 66, Mismatches: 20, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
39 30 0.45
40 6 0.09
42 6 0.09
43 24 0.36
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (39 bp):
GGGCAGATCACCATCAACCAGTCTCTTACCCCGAACTTG
Found at i:30381965 original size:17 final size:17
Alignment explanation
Indices: 30381945--30382026 Score: 94
Period size: 17 Copynumber: 4.7 Consensus size: 17
30381935 TTCATTTTGG
*
30381945 GTTTAAATTTAGTTTAA
1 GTTTAAATTTAATTTAA
**
30381962 GTTTAAACTTTTCTTTTAA
1 GTTTAAA--TTTAATTTAA
*
30381981 GTTTAAATTTAAATTAA
1 GTTTAAATTTAATTTAA
30381998 GTTTAAATTTAATTTGAA
1 GTTTAAATTTAATTT-AA
30382016 -TTTAAATTTAA
1 GTTTAAATTTAA
30382027 AATTAGTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
17 39 0.70
18 2 0.04
19 15 0.27
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:30382009 original size:12 final size:12
Alignment explanation
Indices: 30381976--30382027 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 12
30381966 AAACTTTTCT
*
30381976 TTTAAGTTTAAA
1 TTTAAATTTAAA
*
30381988 TTTAAA-TTAAG
1 TTTAAATTTAAA
30381999 TTTAAATTT-AA
1 TTTAAATTTAAA
*
30382010 TTTGAATTTAAA
1 TTTAAATTTAAA
30382022 TTTAAA
1 TTTAAA
30382028 ATTAGTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 19 0.58
12 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:30382027 original size:6 final size:6
Alignment explanation
Indices: 30381976--30382027 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
30381966 AAACTTTTCT
* * *
30381976 TTTAAG TTTAAA TTTAAA -TTAAG TTTAAA TTT-AA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
30382022 TTTAAA
1 TTTAAA
30382028 ATTAGTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 9 0.22
6 31 0.77
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:30382747 original size:15 final size:15
Alignment explanation
Indices: 30382715--30382769 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
30382705 GTATTAAATA
* *
30382715 AATATTAATAACACT
1 AATATTAATAATAAT
30382730 AATATTAATAATAAT
1 AATATTAATAATAAT
30382745 -A-ATTAATAATAAT
1 AATATTAATAATAAT
* *
30382758 AACAGTAATAAT
1 AATATTAATAAT
30382770 TTTAATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.34
14 2 0.06
15 21 0.60
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (15 bp):
AATATTAATAATAAT
Found at i:30382751 original size:13 final size:13
Alignment explanation
Indices: 30382729--30382759 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
30382719 TTAATAACAC
30382729 TAAT-ATTAATAA
1 TAATAATTAATAA
30382741 TAATAATTAATAA
1 TAATAATTAATAA
30382754 TAATAA
1 TAATAA
30382760 CAGTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATAATTAATAA
Found at i:30383894 original size:29 final size:28
Alignment explanation
Indices: 30383841--30384225 Score: 163
Period size: 29 Copynumber: 13.1 Consensus size: 28
30383831 CCCTAAAGGT
* * *
30383841 CCCTAAACTGTCCAAAAATTACATTTTTA
1 CCCTGAACTTTCC-AAAATTCCATTTTTA
30383870 CCACTGAACTTTCCAAAATTCCATTTTTAA
1 CC-CTGAACTTTCCAAAATTCCATTTTT-A
* ** *
30383900 CCCTAAACTTTTTAAAAATTACATTTTTA
1 CCCTGAAC-TTTCCAAAATTCCATTTTTA
** *
30383929 CCACCAAACTTTCCAAAATTTCATTTTTAA
1 CC-CTGAACTTTCCAAAATTCCATTTTT-A
* ** * *
30383959 CCTTGATTTTTCCAAAAATT-AAGGTTTTA
1 CCCTGAACTTTCC-AAAATTCCA-TTTTTA
* *
30383988 -CCTCAAACTTTCCAAAATTCAATTTTTA
1 CCCT-GAACTTTCCAAAATTCCATTTTTA
* ** * *
30384016 ACCTCGATTTTTCTAAAAATTACATTTTTA
1 CCCT-GAACTTTC-CAAAATTCCATTTTTA
** *
30384046 CCCCCAAACTTTCAAAAATTCCATTTTTGA
1 -CCCTGAACTTTCCAAAATTCCATTTTT-A
* *
30384076 CTCTGAATTTTCCAAAAATTACCA-TTTTA
1 CCCTGAACTTTCC-AAAATT-CCATTTTTA
* *
30384105 CCCTCGAA-TGTCTAAAAATTCCATTTTTAA
1 CCCT-GAACTTTC-CAAAATTCCATTTTT-A
* ** *
30384135 CCCCGAAACTTTTGAAAATCACCA-TTTTA
1 CCCTG-AACTTTCCAAAAT-TCCATTTTTA
* *
30384164 CCCTCGAA-TGTCTAGAAATTCCATTTTTAA
1 CCCT-GAACTTTCCA-AAATTCCATTTTT-A
* *
30384194 CCCCGAACCTTCCAAAAATTACCA-TTTTA
1 CCCTGAACTTTCC-AAAATT-CCATTTTTA
30384223 CCC
1 CCC
30384226 CAAGTGTCCA
Statistics
Matches: 270, Mismatches: 57, Indels: 58
0.70 0.15 0.15
Matches are distributed among these distances:
28 22 0.08
29 125 0.46
30 109 0.40
31 14 0.05
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.37
Consensus pattern (28 bp):
CCCTGAACTTTCCAAAATTCCATTTTTA
Found at i:30383939 original size:59 final size:57
Alignment explanation
Indices: 30383854--30384196 Score: 259
Period size: 59 Copynumber: 5.8 Consensus size: 57
30383844 TAAACTGTCC
**
30383854 AAAAATTACATTTTTACCACTGAACTTTCCAAAATTCCATTTTTAACCCTAAACTTTTT
1 AAAAATTACATTTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCCTAAA-TTTTT
* **
30383913 AAAAATTACATTTTTACCACCAAACTTTCCAAAATTTCATTTTTAA-CCTTGATTTTT
1 AAAAATTACATTTTTACC-CCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTTT
* * * * *
30383970 CCAAAAATTA-AGGTTTTACCTCAAACTTTCCAAAATTCAATTTTTAA-CCTCGATTTTTCT
1 --AAAAATTACA-TTTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCT-AAATTTT-T
* * * * *
30384030 AAAAATTACATTTTTACCCCCAAACTTTCAAAAATTCCATTTTTGACTCTGAATTTTCC
1 AAAAATTACATTTTTA-CCCCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTT-T
* * * * *
30384089 AAAAATTACCA-TTTTACCCTCGAA-TGTCTAAAAATTCCATTTTTAACCCCGAAACTTTT
1 AAAAATTA-CATTTTTACCC-CAAACTTTC-CAAAATTCCATTTTTAA-CCCTAAATTTTT
* * * * *
30384148 GAAAATCACCA-TTTTACCCTCGAA-TGTCTAGAAATTCCATTTTTAACCC
1 AAAAATTA-CATTTTTACCC-CAAACTTTCCA-AAATTCCATTTTTAACCC
30384197 CGAACCTTCC
Statistics
Matches: 240, Mismatches: 31, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
57 5 0.02
58 55 0.23
59 168 0.70
60 12 0.05
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (57 bp):
AAAAATTACATTTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTAAATTTTT
Found at i:30384058 original size:117 final size:117
Alignment explanation
Indices: 30383876--30384096 Score: 329
Period size: 117 Copynumber: 1.9 Consensus size: 117
30383866 TTTACCACTG
*
30383876 AACTTTCCAAAATTCCATTTTTAACCCTAAACTTTTTAAAAATTACATTTTTACCACCAAACTTT
1 AACTTTCCAAAATTCAATTTTTAACCCTAAACTTTTTAAAAATTACATTTTTACCACCAAACTTT
* * *
30383941 CCAAAATTTCATTTTTAAC-CTTGATTTTTCCAAAAATTAAGGTTTTACCTCA
66 CAAAAATTCCATTTTTAACTC-TGAATTTTCCAAAAATTAAGGTTTTACCTCA
** * *
30383993 AACTTTCCAAAATTCAATTTTTAA-CCTCGATTTTTCTAAAAATTACATTTTTACCCCCAAACTT
1 AACTTTCCAAAATTCAATTTTTAACCCTAAACTTTT-TAAAAATTACATTTTTACCACCAAACTT
*
30384057 TCAAAAATTCCATTTTTGACTCTGAATTTTCCAAAAATTA
65 TCAAAAATTCCATTTTTAACTCTGAATTTTCCAAAAATTA
30384097 CCATTTTACC
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
116 8 0.09
117 84 0.90
118 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (117 bp):
AACTTTCCAAAATTCAATTTTTAACCCTAAACTTTTTAAAAATTACATTTTTACCACCAAACTTT
CAAAAATTCCATTTTTAACTCTGAATTTTCCAAAAATTAAGGTTTTACCTCA
Found at i:30384197 original size:59 final size:59
Alignment explanation
Indices: 30384001--30384225 Score: 238
Period size: 59 Copynumber: 3.8 Consensus size: 59
30383991 CAAACTTTCC
* * *** * * * *
30384001 AAAATTCAATTTTTAACCTCGATTTTTCTAAAAATTA-CATTTTTACCCCCAAACTTTC-A
1 AAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTACCA-TTTTACCCTCGAA-TGTCTA
* * * **
30384060 AAAATTCCATTTTTGACTCTGAATTTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
1 AAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
*** *
30384119 AAAATTCCATTTTTAACCCCGAAACTTTTGAAAATCACCATTTTACCCTCGAATGTCTA
1 AAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
* *
30384178 GAAATTCCATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCC
1 AAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTACCATTTTACCC
30384226 CAAGTGTCCA
Statistics
Matches: 139, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
58 3 0.02
59 134 0.96
60 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGAAACTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
Found at i:30399199 original size:2 final size:2
Alignment explanation
Indices: 30399194--30399221 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30399184 ATATATATAA
30399194 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30399222 GTGCTCATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30406882 original size:33 final size:33
Alignment explanation
Indices: 30406809--30406871 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
30406799 ATAATATCCT
* *
30406809 ATAATATCCCATTAGCAATCAAATTGCTAAGAA
1 ATAATATCCCATTAGAAATAAAATTGCTAAGAA
30406842 ATAATATCCCATTAGAAATAAAATTGCTAA
1 ATAATATCCCATTAGAAATAAAATTGCTAA
30406872 ATGATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.29
Consensus pattern (33 bp):
ATAATATCCCATTAGAAATAAAATTGCTAAGAA
Found at i:30409102 original size:29 final size:28
Alignment explanation
Indices: 30409070--30409140 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
30409060 CTCGATGATA
* * *
30409070 AAAATGTAATTTTGGGAAAATTTAGGGTT
1 AAAATGTAATTTT-AGAAAAATTAGGGGT
*
30409099 AAAATGGAATTTTAGAAAAATTAGGGGT
1 AAAATGTAATTTTAGAAAAATTAGGGGT
30409127 AAAATGGTAATTTT
1 AAAAT-GTAATTTT
30409141 TGGTGAAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (28 bp):
AAAATGTAATTTTAGAAAAATTAGGGGT
Found at i:30409129 original size:28 final size:29
Alignment explanation
Indices: 30409070--30409140 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
30409060 CTCGATGATA
* * * *
30409070 AAAATGTAATTTTGGGAAAATTTAGGGTT
1 AAAATGGAATTTTGAGAAAAATTAGGGGT
30409099 AAAATGGAATTTT-AGAAAAATTAGGGGT
1 AAAATGGAATTTTGAGAAAAATTAGGGGT
30409127 AAAATGGTAATTTT
1 AAAATGG-AATTTT
30409141 TGGTGAAATC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGGAATTTTGAGAAAAATTAGGGGT
Found at i:30409185 original size:59 final size:59
Alignment explanation
Indices: 30409095--30409376 Score: 297
Period size: 59 Copynumber: 4.8 Consensus size: 59
30409085 GAAAATTTAG
* *
30409095 GGTT-AAAATGGAATTTTAGAAAAATT-AGGGGTAAAATGGTAATTTTTGGTGAAATCAA
1 GGTTAAAAATGGAATTTT-GGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAA
* * * **
30409153 GGTTAAAAAT-AAGATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGATGAAATCGG
1 GGTTAAAAATGGA-ATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAA
* * * * * *
30409212 GGTTAAAGATGGAATTTTGAAAAGTTCAAGGGTAAAATGGTGA-TTTGGGTGAAATCGA
1 GGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAA
* * * * *
30409270 GGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGTAATTTTT-G-GAAGTTTTAG
1 GGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAA--ATCAA
* **
30409329 GGTTAAAAATGGAATTTTGGAATGTTTGGGGGTAAAATGGTAATTTTT
1 GGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTT
30409377 AGAAGTTTCG
Statistics
Matches: 187, Mismatches: 30, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
57 3 0.02
58 61 0.33
59 122 0.65
60 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
GGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTGGTGAAATCAA
Found at i:30409198 original size:29 final size:29
Alignment explanation
Indices: 30409166--30409404 Score: 131
Period size: 29 Copynumber: 8.2 Consensus size: 29
30409156 TAAAAATAAG
30409166 ATTTTGGAAAGTTCGGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCGGGGGTAAAATGGTA
*
30409195 ATTTTTGATGAAA--TCGGGGTTAAAGATGG-A
1 A-TTTTG--GAAAGTTCGGGGGTAAA-ATGGTA
* ** *
30409225 ATTTTGAAAAGTTCAAGGGTAAAATGGTG
1 ATTTTGGAAAGTTCGGGGGTAAAATGGTA
* * *
30409254 ATTTGGGTGAAA--TCGAGGTTAAAAATGG-A
1 ATTT-TG-GAAAGTTCGGGGGT-AAAATGGTA
** *
30409283 ATTTTGGAAAGTTTAGGGGTAAAATAGTA
1 ATTTTGGAAAGTTCGGGGGTAAAATGGTA
** *
30409312 ATTTTTGG-AAGTTTTAGGGTTAAAAATGG-A
1 A-TTTTGGAAAG-TTCGGGGGT-AAAATGGTA
* *
30409342 ATTTTGGAATGTTTGGGGGTAAAATGGTA
1 ATTTTGGAAAGTTCGGGGGTAAAATGGTA
*
30409371 ATTTT-TAGAAGTTTC-GGGGTCAAAAT-GTA
1 ATTTTGGA-AAG-TTCGGGGGT-AAAATGGTA
30409400 ATTTT
1 ATTTT
30409405 TTGAAGTTTT
Statistics
Matches: 164, Mismatches: 25, Indels: 42
0.71 0.11 0.18
Matches are distributed among these distances:
27 7 0.04
28 19 0.12
29 71 0.43
30 50 0.30
31 13 0.08
32 4 0.02
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (29 bp):
ATTTTGGAAAGTTCGGGGGTAAAATGGTA
Found at i:30409212 original size:30 final size:29
Alignment explanation
Indices: 30409122--30409229 Score: 80
Period size: 30 Copynumber: 3.7 Consensus size: 29
30409112 AGAAAAATTA
*
30409122 GGGGTAAAATGGTAATTTTTGGTGAAATCA
1 GGGGTAAAATGGTAATTTTT-GTGAAATCG
* * * *
30409152 AGGTTAAAA--ATAAGATTTTG-GAAAGTTCG
1 GGGGTAAAATGGTAA-TTTTTGTGAAA--TCG
30409181 GGGGTAAAATGGTAATTTTTGATGAAATCG
1 GGGGTAAAATGGTAATTTTTG-TGAAATCG
*
30409211 GGGTTAAAGATGG-AATTTT
1 GGGGTAAA-ATGGTAATTTT
30409230 GAAAAGTTCA
Statistics
Matches: 60, Mismatches: 10, Indels: 16
0.70 0.12 0.19
Matches are distributed among these distances:
27 4 0.07
28 4 0.07
29 13 0.22
30 28 0.47
31 7 0.12
32 4 0.07
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGGTAAAATGGTAATTTTTGTGAAATCG
Found at i:30409332 original size:117 final size:112
Alignment explanation
Indices: 30409070--30409374 Score: 333
Period size: 117 Copynumber: 2.6 Consensus size: 112
30409060 CTCGATGATA
* *
30409070 AAAATGTAATTTTGGGAAAATTTAGGGTTAAAATGGAATTTTAGAAAAATTAGGGGTAAAATGGT
1 AAAATGTAATTTTTGG--AATTTAGGGTTAAAATGGAATTTT-GAAAAGTTAGGGGTAAAATGGT
* *
30409135 AATTTTTGGTGAAATCAAGGTTAAAAATAAGATTTTGGAAAGTTCGGGGGT
63 AA-TTTGGGTGAAATCAAGGTTAAAAATAAGATTTTGGAAAGTTCAGGGGT
* ** *
30409186 AAAATGGTAATTTTTGATGAAATCGGGGTTAAAGATGGAATTTTGAAAAGTTCAAGGGTAAAATG
1 AAAAT-GTAATTTTTG--GAATTTAGGGTTAAA-ATGGAATTTTGAAAAGTT-AGGGGTAAAATG
* * * *
30409251 GTGATTTGGGTGAAATCGAGGTTAAAAAT-GGAATTTTGGAAAGTTTAGGGGT
61 GTAATTTGGGTGAAATCAAGGTTAAAAATAAG-ATTTTGGAAAGTTCAGGGGT
* * *
30409303 AAAATAGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGAATTTTGGAATGTTTGGGGGTAAAATG
1 AAAAT-GTAATTTTTGGAA--TTTAGGGTT-AAAATGGAATTTTGAAAAG-TTAGGGGTAAAATG
30409368 GTAATTT
61 GTAATTT
30409375 TTAGAAGTTT
Statistics
Matches: 158, Mismatches: 21, Indels: 19
0.80 0.11 0.10
Matches are distributed among these distances:
115 3 0.02
116 6 0.04
117 119 0.75
118 29 0.18
119 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.28, T:0.34
Consensus pattern (112 bp):
AAAATGTAATTTTTGGAATTTAGGGTTAAAATGGAATTTTGAAAAGTTAGGGGTAAAATGGTAAT
TTGGGTGAAATCAAGGTTAAAAATAAGATTTTGGAAAGTTCAGGGGT
Found at i:30409405 original size:29 final size:28
Alignment explanation
Indices: 30409275--30409448 Score: 145
Period size: 29 Copynumber: 5.9 Consensus size: 28
30409265 ATCGAGGTTA
*
30409275 AAAATGGAA-TTTTGGAAAGTTTAGGGGT
1 AAAATGTAATTTTTGG-AAGTTTAGGGGT
*
30409303 AAAATAGTAATTTTTGGAAGTTTTAGGGTT
1 AAAAT-GTAATTTTTGGAAG-TTTAGGGGT
* *
30409333 AAAAATGGAA-TTTTGGAATGTTTGGGGGT
1 -AAAATGTAATTTTTGGAA-GTTTAGGGGT
* *
30409362 AAAATGGTAATTTTTAGAAGTTTCGGGGT
1 AAAAT-GTAATTTTTGGAAGTTTAGGGGT
* * *
30409391 CAAAATGTAATTTTTTGAAGTTTTGGGAT
1 -AAAATGTAATTTTTGGAAGTTTAGGGGT
* *
30409420 CACAAATATAATTTTTGAACAGTTTAGGG
1 -A-AAATGTAATTTTTGGA-AGTTTAGGG
30409449 ACCTATAAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
28 10 0.08
29 55 0.45
30 43 0.36
31 13 0.11
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (28 bp):
AAAATGTAATTTTTGGAAGTTTAGGGGT
Found at i:30409417 original size:59 final size:59
Alignment explanation
Indices: 30409273--30409404 Score: 185
Period size: 59 Copynumber: 2.3 Consensus size: 59
30409263 AAATCGAGGT
* * * *
30409273 TAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATAGTAATTTTTGGAAGTTTTAGGGT
1 TAAAAATGGAATTTTGGAATGTTTGGGGGTAAAATAGTAATTTTTAGAAGTTTTAGGGG
* *
30409332 TAAAAATGGAATTTTGGAATGTTTGGGGGTAAAATGGTAATTTTTAGAAG-TTTCGGGG
1 TAAAAATGGAATTTTGGAATGTTTGGGGGTAAAATAGTAATTTTTAGAAGTTTTAGGGG
* *
30409390 TCAAAATGTAATTTT
1 TAAAAATGGAATTTT
30409405 TTGAAGTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
58 19 0.29
59 46 0.71
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.38
Consensus pattern (59 bp):
TAAAAATGGAATTTTGGAATGTTTGGGGGTAAAATAGTAATTTTTAGAAGTTTTAGGGG
Found at i:30410572 original size:22 final size:22
Alignment explanation
Indices: 30410553--30410605 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
30410543 CTTATTAAAG
* *
30410553 CTATTAATGAAATTATTTAATA
1 CTATTAATAAAACTATTTAATA
*
30410575 TTATTAATAAAACTATTTAATA
1 CTATTAATAAAACTATTTAATA
30410597 C-ATTCAATA
1 CTATT-AATA
30410606 TGTATTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (22 bp):
CTATTAATAAAACTATTTAATA
Found at i:30411410 original size:17 final size:17
Alignment explanation
Indices: 30411384--30411420 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
30411374 ACATTTAATT
*
30411384 TTTATTTTAAATTTAAA
1 TTTATATTAAATTTAAA
*
30411401 TTTATATTAAGTTTAAA
1 TTTATATTAAATTTAAA
30411418 TTT
1 TTT
30411421 TAGAAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTATATTAAATTTAAA
Found at i:30430630 original size:58 final size:58
Alignment explanation
Indices: 30430565--30430674 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
30430555 TACTATGCTA
** *
30430565 TTTGGTATTTATA-TTTTTCTTGAATGTTCAATTTGGTA-CTTATATATTTTTCTCTCGG
1 TTTGGTATTTA-AGTTTGACTTGAATGTTCAAGTTGGTACCTTAT-TATTTTTCTCTCGG
* *
30430623 TTTGGTATTTAAGTTTGACTTTAATGTTCAAGTTGGTACCTTATTTTTTTTC
1 TTTGGTATTTAAGTTTGACTTGAATGTTCAAGTTGGTACCTTATTATTTTTC
30430675 AAAATGATAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 1 0.02
58 39 0.87
59 5 0.11
ACGTcount: A:0.19, C:0.10, G:0.15, T:0.56
Consensus pattern (58 bp):
TTTGGTATTTAAGTTTGACTTGAATGTTCAAGTTGGTACCTTATTATTTTTCTCTCGG
Found at i:30441134 original size:30 final size:29
Alignment explanation
Indices: 30441100--30441163 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
30441090 AATTCAAAAG
30441100 AATTGGATC-AAATCAAAATTTCATGTATAA
1 AATTGGA-CAAAATCAAAATTT-ATGTATAA
* * *
30441130 AATTGTACAAAATCAAAGTTTATGTATAC
1 AATTGGACAAAATCAAAATTTATGTATAA
30441159 AATTG
1 AATTG
30441164 CATATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (29 bp):
AATTGGACAAAATCAAAATTTATGTATAA
Found at i:30442039 original size:17 final size:18
Alignment explanation
Indices: 30442011--30442044 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
30442001 AAGATATTAA
30442011 TTTTCAATTGATTTATTT
1 TTTTCAATTGATTTATTT
30442029 TTTTCAA-TGATTTATT
1 TTTTCAATTGATTTATT
30442045 AGATAAGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTCAATTGATTTATTT
Found at i:30442424 original size:24 final size:24
Alignment explanation
Indices: 30442397--30442462 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
30442387 TTAGTTTTTA
*
30442397 TCTGTCTTTGTGACACGCTTTTCC
1 TCTGTCTTTGTGGCACGCTTTTCC
* *
30442421 TCTGT-TTTGTGGTACGCTTTTCT
1 TCTGTCTTTGTGGCACGCTTTTCC
*
30442444 TCTG-CCTTGTGGCACGCTT
1 TCTGTCTTTGTGGCACGCTT
30442463 CTGTCTTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 31 0.86
24 5 0.14
ACGTcount: A:0.06, C:0.26, G:0.21, T:0.47
Consensus pattern (24 bp):
TCTGTCTTTGTGGCACGCTTTTCC
Found at i:30442465 original size:18 final size:18
Alignment explanation
Indices: 30442442--30442477 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30442432 GTACGCTTTT
*
30442442 CTTCTGCCTTGTGGCACG
1 CTTCTGCCTTATGGCACG
*
30442460 CTTCTGTCTTATGGCACG
1 CTTCTGCCTTATGGCACG
30442478 TTTTCATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.31, G:0.25, T:0.36
Consensus pattern (18 bp):
CTTCTGCCTTATGGCACG
Found at i:30445601 original size:3 final size:3
Alignment explanation
Indices: 30445593--30445621 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30445583 TTTTAATTTT
30445593 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
30445622 TAATCAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:30456564 original size:23 final size:23
Alignment explanation
Indices: 30456538--30456658 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
30456528 ACACTAGCGC
30456538 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
30456561 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
30456584 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
30456609 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
30456632 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
30456655 GCTC
1 GCTC
30456659 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:30456607 original size:48 final size:46
Alignment explanation
Indices: 30456538--30456658 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
30456528 ACACTAGCGC
* *
30456538 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
30456584 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
30456632 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
30456659 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:30456687 original size:39 final size:39
Alignment explanation
Indices: 30456623--30456697 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
30456613 TCCGATTAGC
*
30456623 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
*
30456662 ACTTTGTGTACTCTCTG-TTCAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATT-AGCACTTTGTGTGCTC
30456698 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:30456688 original size:23 final size:23
Alignment explanation
Indices: 30456657--30456750 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
30456647 CTTTGTGTGC
*
30456657 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
*
30456680 TCAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
30456703 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
30456728 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
30456750 T
1 T
30456751 TGTTCCGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.26
23 22 0.36
25 9 0.15
26 8 0.13
27 4 0.07
ACGTcount: A:0.12, C:0.27, G:0.19, T:0.43
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:30459123 original size:59 final size:60
Alignment explanation
Indices: 30459013--30459144 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
30459003 CAAATGATTT
* *
30459013 TAAAATTATTAAAATTATTTTTTAAAAATATAAACTTTTTAAAATTATTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTAAAAATATAAAATTATTAAAATTATTTTTTAAAATAA
*
30459072 TAAAATTATTAAAATTATTTTTT-AAAATATAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTAAAAATATAAAATTATTAAAATTA-TTTTTTAAAATAA
*
30459132 TATAATTATTAAA
1 TAAAATTATTAAA
30459145 TAATTTTAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
58 21 0.31
59 33 0.49
60 13 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (60 bp):
TAAAATTATTAAAATTATTTTTTAAAAATATAAAATTATTAAAATTATTTTTTAAAATAA
Found at i:30459151 original size:29 final size:29
Alignment explanation
Indices: 30459013--30459144 Score: 201
Period size: 29 Copynumber: 4.4 Consensus size: 29
30459003 CAAATGATTT
30459013 TAAAATTATTAAAATTATTTTTTAAAAATA
1 TAAAATTATTAAAATTATTTTTT-AAAATA
* *
30459043 TAAACTTTTTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
30459072 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
*
30459101 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTA-TTTTTTAAAAT-A
*
30459132 TATAATTATTAAA
1 TAAAATTATTAAA
30459145 TAATTTTAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
29 50 0.53
30 31 0.33
31 13 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTAAAATA
Found at i:30459454 original size:25 final size:25
Alignment explanation
Indices: 30459420--30459469 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
30459410 AATTTTTTTA
30459420 AAATAGGTGTAATTGGATCACCTTG
1 AAATAGGTGTAATTGGATCACCTTG
30459445 AAATAGGTGTAATTGGATCACCTTG
1 AAATAGGTGTAATTGGATCACCTTG
30459470 TAAGATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (25 bp):
AAATAGGTGTAATTGGATCACCTTG
Found at i:30460286 original size:24 final size:24
Alignment explanation
Indices: 30460259--30460309 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
30460249 TTAATTAATT
*
30460259 AATTAAAATCATGCAAATTAAACA
1 AATTAAAATCATGCAAAATAAACA
*
30460283 AATTAAAATCATGCAAAATAAATA
1 AATTAAAATCATGCAAAATAAACA
30460307 AAT
1 AAT
30460310 AAATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.25
Consensus pattern (24 bp):
AATTAAAATCATGCAAAATAAACA
Found at i:30460307 original size:4 final size:4
Alignment explanation
Indices: 30460298--30460347 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
30460288 AAATCATGCA
* **
30460298 AAAT AAAT AAAT AAAT AAAT AAA- ATCAT GCA- AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT
30460345 AAA
1 AAA
30460348 ATATAAGAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 37 0.95
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:30460324 original size:31 final size:32
Alignment explanation
Indices: 30460277--30460347 Score: 126
Period size: 31 Copynumber: 2.2 Consensus size: 32
30460267 TCATGCAAAT
*
30460277 TAAACAAATTAAAATCATGCAAAATAAATAAA
1 TAAATAAATTAAAATCATGCAAAATAAATAAA
30460309 TAAATAAA-TAAAATCATGCAAAATAAATAAA
1 TAAATAAATTAAAATCATGCAAAATAAATAAA
30460340 TAAATAAA
1 TAAATAAA
30460348 ATATAAGAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 31 0.82
32 7 0.18
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (32 bp):
TAAATAAATTAAAATCATGCAAAATAAATAAA
Found at i:30461951 original size:101 final size:101
Alignment explanation
Indices: 30461839--30462071 Score: 267
Period size: 101 Copynumber: 2.3 Consensus size: 101
30461829 ATGTTGTAGT
* * * *
30461839 TTCATCTTGCTCCACTACAACTTCAGGGAGATAAAGATTTGCTTTCATGA-TTTTAATCCGACCC
1 TTCATCCTGCTCCACTACAACTTCAGGGAGATAAAGATTCGCATTC-TGAGCTTTAATCCGACCC
* * *
30461903 ATTGCAACTTCGGGGGTATAGGATTTGGTTTTGCAGC
65 ATTGCAACTTCGGGGATATAGGATTTGGTTTCGCAAC
* * * * * * * *
30461940 TTCATCCTGCTCTACTGCAACTTCAGAGAAATAAGGATTCGCATTCTTAGCTTTAATTCGATCCA
1 TTCATCCTGCTCCACTACAACTTCAGGGAGATAAAGATTCGCATTCTGAGCTTTAATCCGACCCA
*
30462005 TTGCAACTTCGGGGATATAGGATTTGGTTTCGTAAC
66 TTGCAACTTCGGGGATATAGGATTTGGTTTCGCAAC
30462041 TTCACTCCAT--TCCACTACAACTT-AGGGAGAT
1 TTCA-TCC-TGCTCCACTACAACTTCAGGGAGAT
30462072 GGAGGTTCGT
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
100 8 0.07
101 97 0.89
102 3 0.03
103 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (101 bp):
TTCATCCTGCTCCACTACAACTTCAGGGAGATAAAGATTCGCATTCTGAGCTTTAATCCGACCCA
TTGCAACTTCGGGGATATAGGATTTGGTTTCGCAAC
Found at i:30469428 original size:18 final size:19
Alignment explanation
Indices: 30469394--30469429 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30469384 TTAATCTACC
*
30469394 TTAAATTCTTTTTTTAAAA
1 TTAAATTCTTCTTTTAAAA
30469413 TTAAATT-TTCTTTTAAA
1 TTAAATTCTTCTTTTAAA
30469430 TTTACTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTCTTCTTTTAAAA
Found at i:30481203 original size:50 final size:49
Alignment explanation
Indices: 30481123--30481267 Score: 146
Period size: 50 Copynumber: 2.9 Consensus size: 49
30481113 ATGGTGAAAT
* * * *
30481123 GAACCGCGGTACCATAAAGATTTGAAGGGAAAGGTTAAGGCCGCAACGGC
1 GAACC-CGGTACCTTAAAGATGTGAAGGGAAAGGTTAAGGCCACAACGAC
* * *
30481173 GGACCCGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCACAACGAC
1 GAACCCGGTACCTTA-AAGATGTGAAGGGAAAGGTTAAGGCCACAACGAC
* * ** * * *
30481223 GAACCTGGTACCTTAAAAACATGACGGGAAAGATTGAGGCCACAA
1 GAACCCGGTACCTTAAAGATGTGAAGGGAAAGGTTAAGGCCACAA
30481268 TAGCGAGTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
49 34 0.43
50 46 0.57
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.15
Consensus pattern (49 bp):
GAACCCGGTACCTTAAAGATGTGAAGGGAAAGGTTAAGGCCACAACGAC
Found at i:30481915 original size:39 final size:38
Alignment explanation
Indices: 30481555--30481932 Score: 198
Period size: 39 Copynumber: 9.7 Consensus size: 38
30481545 CAGCCATCCG
* * * * *
30481555 ATCTTTTACCCTGAGCTTGAGGCAGATCACCATCAGCTA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCA-CCA
* * * *
30481594 ATCTCTTACCCCGAGCCTGAGGCAAATTGTAGCCAT--CCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCACCA
* * *
30481633 ATC-CTTTACCCCGAGCTTAGGGCAAATCACCATCAACCA
1 ATCTC-TTACCCCGAGCCTGGGGCAGATCACCATC-ACCA
* * * * *
30481672 ATCTCTTACCTCTAGCCTAGGGCAGATTGTAGCCAT--TCA
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCACCA
* * **
30481711 ATTTTTTACCCCGAGCCTAAGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCA-CCA
* * *
30481750 ATCTCTTACCCCGAGCCTTGGGCAAATTACAGCCAT--CCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCACCA
* ** * *
30481789 ATCTTTTACCTTGAGCTTGGGGCAAATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCA-CCA
** * * * * *
30481828 ATCTCTTACCTTGAGCCTAGGGTAGATTGTAGCCAT--TCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCACCA
*
30481867 ATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATC-ACCA
30481906 ATCTCTTACCCCGAGCCTGGGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
30481933 TGCAGCCATT
Statistics
Matches: 259, Mismatches: 54, Indels: 52
0.71 0.15 0.14
Matches are distributed among these distances:
36 16 0.06
37 5 0.02
38 5 0.02
39 207 0.80
40 5 0.02
41 5 0.02
42 16 0.06
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCACCA
Found at i:30481955 original size:39 final size:39
Alignment explanation
Indices: 30481840--30481955 Score: 107
Period size: 39 Copynumber: 3.0 Consensus size: 39
30481830 CTCTTACCTT
* * * * *
30481840 GAGCCTAGGGTAGATTGTAGCCATTCGATCTTTTACCCC
1 GAGCCTGGGGCAGATTGCAGCCATTCGAACTTCTACCCC
30481879 GAGCCTGGGGCAGA-T-CA-CCA-TC-AACCAATCTCTTACCCC
1 GAGCCTGGGGCAGATTGCAGCCATTCGAA-C--T-TC-TACCCC
30481918 GAGCCTGGGGCAGATTGCAGCCATTCGAACTTCTACCC
1 GAGCCTGGGGCAGATTGCAGCCATTCGAACTTCTACCC
30481956 TAAGCTTGGG
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 3 0.05
37 2 0.03
38 2 0.03
39 37 0.60
40 3 0.05
41 3 0.05
42 3 0.05
43 3 0.05
44 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.23
Consensus pattern (39 bp):
GAGCCTGGGGCAGATTGCAGCCATTCGAACTTCTACCCC
Found at i:30481985 original size:78 final size:78
Alignment explanation
Indices: 30481516--30482012 Score: 528
Period size: 78 Copynumber: 6.4 Consensus size: 78
30481506 GAAGATTTTG
* * * * *
30481516 ATCTCTTATCCCGATCATGGGGCAAATTGCAGCCATCCGATCTTTTACCCTGAGCTTGAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
30481581 TCACCATCAGCTA
66 TCACCATCAGCCA
* * * * *
30481594 ATCTCTTACCCCGAGCCTGAGGCAAATTGTAGCCATCCGATCCTTTACCCCGAGCTTAGGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
30481659 TCACCATCAACCA
66 TCACCATCAGCCA
* * * * * * * * * **
30481672 ATCTCTTACCTCTAGCCTAGGGCAGATTGTAGCCATTCAATTTTTTACCCCGAGCCTAAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
30481737 TCACCATCAGCCA
66 TCACCATCAGCCA
* * ** *
30481750 ATCTCTTACCCCGAGCCTTGGGCAAATTACAGCCATCCGATCTTTTACCTTGAGCTTGGGGCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
30481815 TCACCATCAGCCA
66 TCACCATCAGCCA
** * * * * * *
30481828 ATCTCTTACCTTGAGCCTAGGGTAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
*
30481893 TCACCATCAACCA
66 TCACCATCAGCCA
* * * * ** *
30481906 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGAACTTCTACCCTAAGCTTGGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
* * *
30481971 TCA-TAGTTACCCA
66 TCACCA-TCAGCCA
* * *
30481984 ATCTTTTACCCCGATCATGGGGCAAATTG
1 ATCTCTTACCCCGAGCCTGGGGCAAATTG
30482013 TAACCGTCAG
Statistics
Matches: 347, Mismatches: 71, Indels: 2
0.83 0.17 0.00
Matches are distributed among these distances:
77 1 0.00
78 346 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAAATTGCAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGA
TCACCATCAGCCA
Found at i:30481993 original size:156 final size:155
Alignment explanation
Indices: 30481535--30481966 Score: 596
Period size: 156 Copynumber: 2.8 Consensus size: 155
30481525 CCCGATCATG
* * * * * *
30481535 GGGCAAATTGCAGCCATCCGATCTTTTACCCTGAGCTTGAGGCAGATCACCATCAGCTAATCTCT
1 GGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCT
* * * * *
30481600 TACCCCGAGCCTGAGGCAAATTGTAGCCATCCGATCCTTTACCCCGAGCTTAGGGCAAATCACCA
66 TACCCCGAGCCTGGGGCAAATTGCAGCCATCCGA-ACTTTACCCTGAGCTTGGGGCAAATCACCA
30481665 TCAACCAATCTCTTACCTCTAGCCTA
130 TCAACCAATCTCTTACCTCTAGCCTA
* * *
30481691 GGGCAGATTGTAGCCATTCAATTTTTTACCCCGAGCCTAAGGCAGATCACCATCAGCCAATCTCT
1 GGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCT
* * * *
30481756 TACCCCGAGCCTTGGGCAAATTACAGCCATCCGATCTTTTACCTTGAGCTTGGGGCAAATCACCA
66 TACCCCGAGCCTGGGGCAAATTGCAGCCATCCGAAC-TTTACCCTGAGCTTGGGGCAAATCACCA
*
30481821 TCAGCCAATCTCTTACCT-TGAGCCTA
130 TCAACCAATCTCTTACCTCT-AGCCTA
* * *
30481847 GGGTAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAACCAATCTCT
1 GGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCT
* * *
30481912 TACCCCGAGCCTGGGGCAGATTGCAGCCATTCGAACTTCTACCCTAAGCTTGGGG
66 TACCCCGAGCCTGGGGCAAATTGCAGCCATCCGAACTT-TACCCTGAGCTTGGGG
30481967 TAGATCATAG
Statistics
Matches: 242, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
155 4 0.02
156 238 0.98
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (155 bp):
GGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCT
TACCCCGAGCCTGGGGCAAATTGCAGCCATCCGAACTTTACCCTGAGCTTGGGGCAAATCACCAT
CAACCAATCTCTTACCTCTAGCCTA
Done.