Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 176 of 320
Found at i:58235338 original size:82 final size:81
Alignment explanation
Indices: 58235220--58235375 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
58235210 TGCTATATAA
* * *
58235220 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
58235285 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58235302 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
58235366 CACTTAGTGC
65 CACTTAGTGC
58235376 TATACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58253184 original size:8 final size:8
Alignment explanation
Indices: 58253171--58253195 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
58253161 GAAATAAACA
58253171 TGATAAAT
1 TGATAAAT
58253179 TGATAAAT
1 TGATAAAT
58253187 TGATAAAT
1 TGATAAAT
58253195 T
1 T
58253196 TTGACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (8 bp):
TGATAAAT
Found at i:58254727 original size:31 final size:31
Alignment explanation
Indices: 58254692--58254756 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
58254682 TAATAAAATG
*
58254692 GTCATTGAACTATTCAAAAGATTTCACTTAA
1 GTCATTGAACTATTCAAAACATTTCACTTAA
*
58254723 GTCATTGAACTATTCAAAACATTTCATTTAA
1 GTCATTGAACTATTCAAAACATTTCACTTAA
58254754 GTC
1 GTC
58254757 CTTGGACAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAACATTTCACTTAA
Found at i:58258878 original size:12 final size:12
Alignment explanation
Indices: 58258861--58258888 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58258851 GTCTTTGTTT
58258861 ACACGGGCAGAC
1 ACACGGGCAGAC
58258873 ACACGGGCAGAC
1 ACACGGGCAGAC
58258885 ACAC
1 ACAC
58258889 TTTCAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.36, G:0.29, T:0.00
Consensus pattern (12 bp):
ACACGGGCAGAC
Found at i:58300001 original size:17 final size:17
Alignment explanation
Indices: 58299959--58300039 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
58299949 AATTCAATTT
*
58299959 TAATATAAATAA-TCAA
1 TAATATAAATAATTTAA
58299975 T-ATGACTAAATAATTTAA
1 TAAT-A-TAAATAATTTAA
*
58299993 TAATATAAATAATATAA
1 TAATATAAATAATTTAA
* *
58300010 -AATGTGAAATTTAACTTAA
1 TAATAT-AAA--TAATTTAA
58300029 TAATATAAATA
1 TAATATAAATA
58300040 GTAGATATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.04
16 6 0.12
17 23 0.45
18 5 0.10
19 11 0.22
20 4 0.08
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (17 bp):
TAATATAAATAATTTAA
Found at i:58300303 original size:30 final size:30
Alignment explanation
Indices: 58300260--58300322 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
58300250 TGGGAGGTGG
*
58300260 AATGGGAAGGGAGTAAAAGTTTTAGGGAGAA
1 AATGGGAAGGGAGTAAAAATTTT-GGGAGAA
*
58300291 AATGGG-AGGGAGTAAAAATTTTGGGGGAA
1 AATGGGAAGGGAGTAAAAATTTTGGGAGAA
58300320 AAT
1 AAT
58300323 AAAAAGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.30
30 15 0.50
31 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.21
Consensus pattern (30 bp):
AATGGGAAGGGAGTAAAAATTTTGGGAGAA
Found at i:58301724 original size:31 final size:31
Alignment explanation
Indices: 58301689--58301752 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
58301679 CCTTTTCATA
*
58301689 TTTCATATTTCATAACACTGGGCCGAAGTCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
* ** *
58301720 TTTCATATTTTATATTATTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
58301751 TT
1 TT
58301753 ATTGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:58302015 original size:25 final size:25
Alignment explanation
Indices: 58301960--58302042 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
58301950 CTGGAGGCCT
*
58301960 AGCCTCTTTTAAT-AACTGGGG-TAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
58301984 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
58302009 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
58302034 AGCCCTTTT
1 AGCCCTTTT
58302043 TGCACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.13
24 12 0.22
25 35 0.65
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:58302113 original size:20 final size:20
Alignment explanation
Indices: 58302090--58302156 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
58302080 TTATGAATAC
58302090 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58302110 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58302130 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
58302150 ATCATGT
1 ATCATGT
58302157 ATATCAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58302120 original size:40 final size:39
Alignment explanation
Indices: 58302076--58302156 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
58302066 CCCAACCCAA
58302076 TGCATTATGAATAC-ATCATGTGCATATCATA-CATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCATG
*
58302116 TGCATATCATACATATCATGTGCATATCATATCAATCATG
1 TGCATATAATACA-ATCATGTGCATATCATATCAATCATG
58302156 T
1 T
58302157 ATATCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 28 0.76
41 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATATCAATCATG
Found at i:58302121 original size:11 final size:11
Alignment explanation
Indices: 58302090--58302145 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
58302080 TTATGAATAC
58302090 ATCATGTGCAT
1 ATCATGTGCAT
*
58302101 ATCA--TACAT
1 ATCATGTGCAT
58302110 ATCATGTGCAT
1 ATCATGTGCAT
*
58302121 ATCA--TACAT
1 ATCATGTGCAT
58302130 ATCATGTGCAT
1 ATCATGTGCAT
58302141 ATCAT
1 ATCAT
58302146 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:58302162 original size:9 final size:10
Alignment explanation
Indices: 58302090--58302162 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
58302080 TTATGAATAC
58302090 ATCATGTGCAT
1 ATCATGT-CAT
*
58302101 ATCAT-ACAT
1 ATCATGTCAT
58302110 ATCATGTGCAT
1 ATCATGT-CAT
*
58302121 ATCAT-ACAT
1 ATCATGTCAT
58302130 ATCATGTGCAT
1 ATCATGT-CAT
*
58302141 ATCATATCA-
1 ATCATGTCAT
58302150 ATCATGT-AT
1 ATCATGTCAT
58302159 ATCA
1 ATCA
58302163 AAACCCATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:58309775 original size:31 final size:31
Alignment explanation
Indices: 58309737--58309800 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
58309727 CCTTTTCATA
* *
58309737 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGAGCCGAAGCCT
**
58309768 TTTCATATTCCATATTACTGAGCCGAAGCCT
1 TTTCATATTCCATAACACTGAGCCGAAGCCT
58309799 TT
1 TT
58309801 ATTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGAGCCGAAGCCT
Found at i:58310063 original size:25 final size:25
Alignment explanation
Indices: 58310008--58310090 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
58309998 CTGGAGGCCT
*
58310008 AGCCTCTTTTAAT-AACTGGGG-TAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
58310032 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
58310057 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
58310082 AGCCCTTTT
1 AGCCCTTTT
58310091 TGCACTTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.13
24 12 0.22
25 35 0.65
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:58310161 original size:20 final size:20
Alignment explanation
Indices: 58310138--58310204 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
58310128 TTATGAATAC
58310138 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58310158 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58310178 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
58310198 ATCATGT
1 ATCATGT
58310205 ATATCAAAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58310168 original size:40 final size:39
Alignment explanation
Indices: 58310124--58310204 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
58310114 CCCAACCCAA
58310124 TGCATTATGAATAC-ATCATGTGCATATCATA-CATATCATG
1 TGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCATG
*
58310164 TGCATATCATACATATCATGTGCATATCATATCAATCATG
1 TGCATATAATACA-ATCATGTGCATATCATATCAATCATG
58310204 T
1 T
58310205 ATATCAAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 28 0.76
41 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (39 bp):
TGCATATAATACAATCATGTGCATATCATATCAATCATG
Found at i:58310169 original size:11 final size:11
Alignment explanation
Indices: 58310138--58310193 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
58310128 TTATGAATAC
58310138 ATCATGTGCAT
1 ATCATGTGCAT
*
58310149 ATCA--TACAT
1 ATCATGTGCAT
58310158 ATCATGTGCAT
1 ATCATGTGCAT
*
58310169 ATCA--TACAT
1 ATCATGTGCAT
58310178 ATCATGTGCAT
1 ATCATGTGCAT
58310189 ATCAT
1 ATCAT
58310194 ATCAATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:58310210 original size:9 final size:10
Alignment explanation
Indices: 58310138--58310210 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 10
58310128 TTATGAATAC
58310138 ATCATGTGCAT
1 ATCATGT-CAT
*
58310149 ATCAT-ACAT
1 ATCATGTCAT
58310158 ATCATGTGCAT
1 ATCATGT-CAT
*
58310169 ATCAT-ACAT
1 ATCATGTCAT
58310178 ATCATGTGCAT
1 ATCATGT-CAT
*
58310189 ATCATATCA-
1 ATCATGTCAT
58310198 ATCATGT-AT
1 ATCATGTCAT
58310207 ATCA
1 ATCA
58310211 AAACCCATGT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
8 1 0.02
9 26 0.51
10 2 0.04
11 22 0.43
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:58313389 original size:43 final size:42
Alignment explanation
Indices: 58313342--58313477 Score: 164
Period size: 43 Copynumber: 3.2 Consensus size: 42
58313332 AAAAAACGTT
* * *
58313342 GCTAAAGATCATGACCTTTAGTGGCACTTTTCTCACAAACGCC
1 GCTAAAG-TCATGACCTTTAGCGGCGCTTTTCACACAAACGCC
*
58313385 GCTAAAGGTCATGACCTTTAGCAGCGCTTTTCACACAAACGCC
1 GCTAAA-GTCATGACCTTTAGCGGCGCTTTTCACACAAACGCC
* * * * *
58313428 GCTAAATGTCAAGACCTTTAGCGGCGCTTTACCCAAAAACGTC
1 GCTAAA-GTCATGACCTTTAGCGGCGCTTTTCACACAAACGCC
58313471 GCTAAAG
1 GCTAAAG
58313478 GTAATGAAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 79 0.98
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
GCTAAAGTCATGACCTTTAGCGGCGCTTTTCACACAAACGCC
Found at i:58313539 original size:27 final size:28
Alignment explanation
Indices: 58313492--58313545 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
58313482 TGAAATTTAA
*
58313492 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAAAATTATAAAAGTCATG
* *
58313520 AAAAATATAAAAAATT-TAAAATTCAT
1 AAAAAAATAAAAAATTATAAAAGTCAT
58313546 TATTAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAAAATAAAAAATTATAAAAGTCATG
Found at i:58313680 original size:19 final size:21
Alignment explanation
Indices: 58313639--58313686 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
58313629 TTAAAATTTT
58313639 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
58313660 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
58313679 AACTAAAA
1 AACTAAAA
58313687 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:58315492 original size:44 final size:44
Alignment explanation
Indices: 58315429--58315517 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
58315419 ATATAGCAAC
*
58315429 ATATAAGGTATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
58315473 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
58315517 A
1 A
58315518 AAGCGATAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.28
Consensus pattern (44 bp):
ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
Found at i:58319211 original size:32 final size:32
Alignment explanation
Indices: 58319170--58319232 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
58319160 TAAGTAAACT
58319170 TTAAATCCTAAACCATTTAATATATATAAAGC
1 TTAAATCCTAAACCATTTAATATATATAAAGC
58319202 TTAAATCCTAAACCATTTAATATATATAAAG
1 TTAAATCCTAAACCATTTAATATATATAAAG
58319233 TCTAATCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.35
Consensus pattern (32 bp):
TTAAATCCTAAACCATTTAATATATATAAAGC
Found at i:58319332 original size:22 final size:22
Alignment explanation
Indices: 58319288--58319333 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
58319278 CTTAAACCCC
* *
58319288 AACCCTTAAACCATAATCCTTA
1 AACCCATAAACCATAAACCTTA
* *
58319310 AACCCATAATCCATAAACTTTA
1 AACCCATAAACCATAAACCTTA
58319332 AA
1 AA
58319334 ATAGTAACTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCATAAACCATAAACCTTA
Found at i:58319386 original size:14 final size:14
Alignment explanation
Indices: 58319352--58319396 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
58319342 TCATACACTT
* *
58319352 TAAACTCTAAACCA
1 TAAACCCTAAACTA
* *
58319366 TATACCCTAAATTA
1 TAAACCCTAAACTA
58319380 TAAACCCTAAACTA
1 TAAACCCTAAACTA
58319394 TAA
1 TAA
58319397 TGATAATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:58319532 original size:14 final size:14
Alignment explanation
Indices: 58319513--58319544 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58319503 TCATAATCTT
*
58319513 TAAATCCTAAACCA
1 TAAATCCTAAAACA
58319527 TAAATCCTAAAACA
1 TAAATCCTAAAACA
58319541 TAAA
1 TAAA
58319545 CCCTGAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAATCCTAAAACA
Found at i:58319612 original size:25 final size:25
Alignment explanation
Indices: 58319567--58319614 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
58319557 AACACTTAAA
*
58319567 CCTTAAATCACAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
58319592 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
58319615 CATATCTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:58319662 original size:28 final size:29
Alignment explanation
Indices: 58319595--58319663 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
58319585 AAACCACCCT
* *
58319595 TAAACCATAATCCCTAAACCCATATCTCA
1 TAAACCATAAACCCTAAACCCATATATCA
*
58319624 TAAA-CATTAAACCCTTAA-CCATATATCA
1 TAAACCA-TAAACCCTAAACCCATATATCA
*
58319652 TAAACCCTAAAC
1 TAAACCATAAAC
58319664 TATAATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 20 0.59
29 14 0.41
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
TAAACCATAAACCCTAAACCCATATATCA
Found at i:58320969 original size:27 final size:27
Alignment explanation
Indices: 58320932--58321069 Score: 176
Period size: 27 Copynumber: 5.1 Consensus size: 27
58320922 AGCATGGCTG
* *
58320932 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
58320958 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
58320986 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
58321013 CCAGATA-AGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
58321040 CCAGAT-CAGATATTGTGGCATAGCCA
1 CCAGATACAGATAATGTGGCAGAGCCA
58321066 CCAG
1 CCAG
58321070 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
26 21 0.21
27 63 0.62
28 18 0.18
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:58323100 original size:39 final size:40
Alignment explanation
Indices: 58323016--58323140 Score: 144
Period size: 40 Copynumber: 3.1 Consensus size: 40
58323006 ACAAGTGGCG
* * * * * *
58323016 TTTTTTTAAAAGCGCCGCTAAAGGTGA-ACTTATAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTT-TAGCGGCA
* *
58323056 TTTTTTAAAAAGCGCCGCTAATGCTCGTTCTTTAGTGGCA
1 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGCGGCA
* *
58323096 TTTTTTAAAAAGCGCCGCTAATGCTTATTCTTTGGCGGCA
1 TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGCGGCA
58323136 TTTTT
1 TTTTT
58323141 CATTCAAACG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 69 0.96
41 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (40 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCATTCTTTAGCGGCA
Found at i:58329419 original size:27 final size:27
Alignment explanation
Indices: 58329388--58329565 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58329378 TGAATTGTAC
58329388 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58329415 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58329441 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58329469 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
58329497 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58329524 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58329551 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58329566 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58329502 original size:82 final size:81
Alignment explanation
Indices: 58329389--58329544 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58329379 GAATTGTACA
* *
58329389 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58329453 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58329470 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58329535 TGCGAGTTGA
65 TGCGAATTGA
58329545 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58329556 original size:82 final size:81
Alignment explanation
Indices: 58329385--58329565 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
58329375 GATTGAATTG
* *
58329385 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58329450 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58329466 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58329530 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58329548 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58329566 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58340765 original size:19 final size:18
Alignment explanation
Indices: 58340739--58340781 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
58340729 TTGAGTTTTG
58340739 TTTT-TTTATGTTATATA
1 TTTTATTTATGTTATATA
*
58340756 TATTTATTTATGTTATTTA
1 T-TTTATTTATGTTATATA
58340775 TTTTATT
1 TTTTATT
58340782 GTATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 9 0.39
19 13 0.57
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTATTTATGTTATATA
Found at i:58341470 original size:17 final size:17
Alignment explanation
Indices: 58341448--58341480 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
58341438 GGGTTTTTAG
58341448 GTGATTTTTGGTGCCAA
1 GTGATTTTTGGTGCCAA
58341465 GTGATTTTTGGTGCCA
1 GTGATTTTTGGTGCCA
58341481 CACACAGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.30, T:0.42
Consensus pattern (17 bp):
GTGATTTTTGGTGCCAA
Found at i:58341549 original size:21 final size:21
Alignment explanation
Indices: 58341525--58341564 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
58341515 GTTTTCACTC
58341525 GGGCATGTGAGATTTCTACAT
1 GGGCATGTGAGATTTCTACAT
*
58341546 GGGCGTGTGAGATTTCTAC
1 GGGCATGTGAGATTTCTAC
58341565 GTAGCCGTGT
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:0.20, C:0.15, G:0.33, T:0.33
Consensus pattern (21 bp):
GGGCATGTGAGATTTCTACAT
Found at i:58341573 original size:21 final size:21
Alignment explanation
Indices: 58341530--58341574 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
58341520 CACTCGGGCA
* *
58341530 TGTGAGATTTCTACATGGGCG
1 TGTGAGATTTCTACATAGCCG
*
58341551 TGTGAGATTTCTACGTAGCCG
1 TGTGAGATTTCTACATAGCCG
58341572 TGT
1 TGT
58341575 CTGCTTTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.36
Consensus pattern (21 bp):
TGTGAGATTTCTACATAGCCG
Found at i:58348385 original size:40 final size:40
Alignment explanation
Indices: 58348325--58348506 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 40
58348315 TATTCGAATG
* *
58348325 ATATCCAGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
58348365 ATATCCGGACTAAGATCCGAAGGTATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
58348405 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
58348445 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
58348485 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGATCCGAAG
58348507 TCCTTGTGCG
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:58348458 original size:80 final size:80
Alignment explanation
Indices: 58348325--58348506 Score: 242
Period size: 80 Copynumber: 2.3 Consensus size: 80
58348315 TATTCGAATG
* * * * *
58348325 ATATCCAGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
58348389 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
58348405 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
58348470 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
58348485 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
58348507 TCCTTGTGCG
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
79 3 0.03
80 87 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:58357211 original size:24 final size:24
Alignment explanation
Indices: 58357179--58357259 Score: 135
Period size: 24 Copynumber: 3.4 Consensus size: 24
58357169 CTATCCAGGG
*
58357179 CTTCCCGATATGATTCTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
58357203 CTTCCCGATATGGTTCTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
* *
58357227 CTTCCCAATTTGGTTCTTTGTGAA
1 CTTCCCGATATGGTTCTTTGTGAA
58357251 CTTCCCGAT
1 CTTCCCGAT
58357260 TATGTCTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (24 bp):
CTTCCCGATATGGTTCTTTGTGAA
Found at i:58359732 original size:13 final size:13
Alignment explanation
Indices: 58359714--58359739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58359704 TTCAGGCAAA
58359714 TCTCTAATTTCTT
1 TCTCTAATTTCTT
58359727 TCTCTAATTTCTT
1 TCTCTAATTTCTT
58359740 CAACATTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (13 bp):
TCTCTAATTTCTT
Found at i:58362163 original size:39 final size:39
Alignment explanation
Indices: 58362101--58362335 Score: 380
Period size: 39 Copynumber: 6.0 Consensus size: 39
58362091 AATTATATTA
* * *
58362101 CCAGCACAAAGCCTACGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
58362140 CCAGTACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
58362179 CCAGCACGAAGCCAGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58362218 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* **
58362257 CTAGCATAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
58362296 CCAGTACGAAGCCTGCGGAACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58362335 C
1 C
58362336 TAGTGTCTTG
Statistics
Matches: 181, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 181 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:58364629 original size:14 final size:17
Alignment explanation
Indices: 58364598--58364632 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58364588 GTATGTCCAT
58364598 TTCTTATCTTCTTCTTC
1 TTCTTATCTTCTTCTTC
* *
58364615 TTCTTATTTTTTTCTTC
1 TTCTTATCTTCTTCTTC
58364632 T
1 T
58364633 CCTCTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (17 bp):
TTCTTATCTTCTTCTTC
Found at i:58364631 original size:20 final size:18
Alignment explanation
Indices: 58364606--58364644 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
58364596 ATTTCTTATC
*
58364606 TTCTTCTTCTTCTTATTTTT
1 TTCTTC-TCCTCTT-TTTTT
58364626 TTCTTCTCCTCTTTTTTT
1 TTCTTCTCCTCTTTTTTT
58364644 T
1 T
58364645 GTAACACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 6 0.33
20 6 0.33
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTCTCCTCTTTTTTT
Found at i:58368118 original size:39 final size:39
Alignment explanation
Indices: 58368085--58368188 Score: 172
Period size: 39 Copynumber: 2.7 Consensus size: 39
58368075 TTCCATCATG
* *
58368085 TAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACA
1 TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
* *
58368124 TAGCCTGCAGACCCTAAGTCTGGATATAATTCCAGCACA
1 TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
58368163 TAGCCTGCGGACCCTAAGTCCGGATA
1 TAGCCTGCGGACCCTAAGTCCGGATA
58368189 AACATCACTG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
TAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACA
Found at i:58376740 original size:19 final size:19
Alignment explanation
Indices: 58376716--58376759 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
58376706 CTTTCCCTTC
58376716 TCTTTCTTTCCTT-CTCTTT
1 TCTTTCTTTCCTTCCTC-TT
*
58376735 TCTTTCTTTCTTTCCTCTT
1 TCTTTCTTTCCTTCCTCTT
58376754 TCTTTC
1 TCTTTC
58376760 ACTTTCTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTTCTTTCCTTCCTCTT
Found at i:58376745 original size:15 final size:15
Alignment explanation
Indices: 58376690--58376745 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
58376680 CCTCTCCTTG
*
58376690 CTTTCATTCTCTTGTT
1 CTTTCCTTCTCTT-TT
58376706 CTTTCCCTTCTC-TTT
1 CTTT-CCTTCTCTTTT
58376721 CTTTCCTTCTCTTTT
1 CTTTCCTTCTCTTTT
*
58376736 CTTTCTTTCT
1 CTTTCCTTCT
58376746 TTCCTCTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 7 0.19
15 18 0.50
16 5 0.14
17 6 0.17
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.64
Consensus pattern (15 bp):
CTTTCCTTCTCTTTT
Found at i:58376769 original size:19 final size:18
Alignment explanation
Indices: 58376715--58376771 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
58376705 TCTTTCCCTT
58376715 CTCTTTCTTTCC-TTCT-
1 CTCTTTCTTTCCTTTCTC
58376731 CT-TTTCTTT-CTTTCTTTC
1 CTCTTTCTTTCCTTTC--TC
58376749 CTCTTTCTTTCACTTTCTC
1 CTCTTTCTTTC-CTTTCTC
58376768 CTCT
1 CTCT
58376772 CTCCTCTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 1 0.03
15 10 0.29
16 2 0.06
17 1 0.03
18 2 0.06
19 13 0.38
21 5 0.15
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (18 bp):
CTCTTTCTTTCCTTTCTC
Found at i:58376996 original size:3 final size:3
Alignment explanation
Indices: 58376988--58377030 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
58376978 TTTTAATTAA
* * *
58376988 ATT ATT ATT ATT TTT ATT AGT ATT AGT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
58377031 GTTCTTTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:58377006 original size:12 final size:12
Alignment explanation
Indices: 58376989--58377048 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
58376979 TTTAATTAAA
*
58376989 TTATTATTATTT
1 TTATTAGTATTT
*
58377001 TTATTAGTATTA
1 TTATTAGTATTT
* * *
58377013 GTATTATTATTA
1 TTATTAGTATTT
*
58377025 TTATTAGT-TCT
1 TTATTAGTATTT
*
58377036 TTATTACTATTT
1 TTATTAGTATTT
58377048 T
1 T
58377049 ATTTTACGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 8 0.22
12 29 0.78
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (12 bp):
TTATTAGTATTT
Found at i:58381323 original size:82 final size:82
Alignment explanation
Indices: 58381172--58381526 Score: 522
Period size: 82 Copynumber: 4.4 Consensus size: 82
58381162 ATTACCACAA
* ** * * *
58381172 GCACAATTGCCTTCGGGTCTTAACCCGG--GCATAGCAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
58381235 CCCGGATATATCAACTT
66 CCCGGATATATCAACTT
*
58381252 GCACAATTGCCTTTGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
58381317 CCCGGATATATCAACTT
66 CCCGGATATATCAACTT
* *
58381334 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
*
58381399 CCCGGATATATCAACTC
66 CCCGGATATATCAACTT
* * *
58381416 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
* *
58381479 CCCGGATAAAATC-ACTA
66 CCCGGAT-ATATCAACTT
*
58381496 GCACAATTGCCTTCGGGACTTAGCCCGGATA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA
58381527 AAAATCAAAT
Statistics
Matches: 253, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
80 95 0.38
81 4 0.02
82 154 0.61
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (82 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAG
CCCGGATATATCAACTT
Found at i:58381529 original size:40 final size:41
Alignment explanation
Indices: 58381172--58381527 Score: 490
Period size: 40 Copynumber: 8.8 Consensus size: 41
58381162 ATTACCACAA
* * ** *
58381172 GCACAATTGCCTTCGGGTCTTAACCCGG-GCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
* *
58381212 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
* *
58381252 GCACAATTGCCTTTGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTC
* *
58381294 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
*
58381334 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTC
*
58381376 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
*
58381416 GCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
* *
58381456 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
* *
58381496 GCACAATTGCCTTCGGGACTTAGCCCGGATAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAA
58381528 AAATCAAATG
Statistics
Matches: 290, Mismatches: 20, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
40 211 0.73
41 4 0.01
42 75 0.26
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
Found at i:58381534 original size:122 final size:122
Alignment explanation
Indices: 58381172--58381527 Score: 529
Period size: 122 Copynumber: 2.9 Consensus size: 122
58381162 ATTACCACAA
* * * ** * *
58381172 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
58381237 CGGAT-ATATCAACTTGCACAATTGCCTTTGGGTCTTAGCCCGGATATATATCAACTC
66 CGGATAATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATA-ATATCAACTC
* *
58381294 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTTGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
58381359 CGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGAT-ATATCAACTC
66 CGGATA-ATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
58381416 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
58381481 CGGATAAAATC-ACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAA
66 CGGATAATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAA
58381528 AAATCAAATG
Statistics
Matches: 211, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
120 30 0.14
121 5 0.02
122 140 0.66
124 36 0.17
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (122 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAATATCAACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAATATCAACTC
Found at i:58389329 original size:38 final size:38
Alignment explanation
Indices: 58389189--58389309 Score: 152
Period size: 38 Copynumber: 3.1 Consensus size: 38
58389179 AAACCCAAAC
* * ***
58389189 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTTAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* * *
58389229 ATAATACCAGCACTAGGCTTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
58389267 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
58389305 ATAAT
1 ATAAT
58389310 TCTAGCATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 46 0.66
39 3 0.04
40 21 0.30
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:58390609 original size:221 final size:221
Alignment explanation
Indices: 58390226--58390668 Score: 868
Period size: 221 Copynumber: 2.0 Consensus size: 221
58390216 CCACTGCAAG
58390226 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
1 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
*
58390291 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATTCATAAAATTTTCAGAATTTTTGGT
66 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGGT
58390356 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
131 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
58390421 CTCTTCACTATGAATCAAATTTCTCA
196 CTCTTCACTATGAATCAAATTTCTCA
58390447 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
1 TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
*
58390512 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGTT
66 CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGGT
58390577 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
131 TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
58390642 CTCTTCACTATGAATCAAATTTCTCA
196 CTCTTCACTATGAATCAAATTTCTCA
58390668 T
1 T
58390669 CGTACAGAAT
Statistics
Matches: 220, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 220 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (221 bp):
TTGTCTTCCTGAGCAACAGTCACTAAATCATTTATAACTGGAGCTACGGAACTCCAAATAAAGTG
CCGTTAATTTTATCTGAAAATATACTAATATATCTTTTATCCATAAAATTTTCAGAATTTTTGGT
TTGACCAATCAATACCAGATTTTTCTTAAAGTTTCCCTTGTTTCACTATTTGACTAATCTGACCA
CTCTTCACTATGAATCAAATTTCTCA
Found at i:58399682 original size:81 final size:81
Alignment explanation
Indices: 58399587--58399771 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 81
58399577 TACACTACAG
* * * * * *
58399587 GGGTATTTTAGTAATTTTATAAATTGGGGGTATTTTGGTAATTTTACAAAATAGGTACATTT-TG
1 GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAAATAGGGACATTTCAG
*
58399651 ATAATTTTACAAACCGA
66 -TAATTTTAAAAACCGA
* **
58399668 GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAACTAGGGGTATTTCAG
1 GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAAATAGGGACATTTCAG
*
58399733 TAATTTTAAAAACTGA
66 TAATTTTAAAAACCGA
58399749 GGGTATTTC-GATAATTTTACAAA
1 GGGTATTTCAG-TAATTTTACAAA
58399772 CCAGGGTCTC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 89 0.98
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATTGGGAGTATTTTAGTAATTTTACAAAATAGGGACATTTCAG
TAATTTTAAAAACCGA
Found at i:58399745 original size:27 final size:27
Alignment explanation
Indices: 58399558--58399777 Score: 182
Period size: 27 Copynumber: 8.1 Consensus size: 27
58399548 TTTGCCCTAC
* *
58399558 AGGGGTATTTCGGTAATTTTACACTAC-
1 AGGGGTATTTCAGTAATTTTACA-AACT
* * *
58399585 AGGGGTATTTTAGTAATTTTATAAATT
1 AGGGGTATTTCAGTAATTTTACAAACT
* ** *
58399612 GGGGGTATTTTGGTAATTTTACAAAAT
1 AGGGGTATTTCAGTAATTTTACAAACT
*** *
58399639 AGGTACATTT-TGATAATTTTACAAAC-
1 AGGGGTATTTCAG-TAATTTTACAAACT
*
58399665 CGAGGGTATTTCAGTAATTTTACAAA-T
1 AG-GGGTATTTCAGTAATTTTACAAACT
* *
58399692 TGGGAGTATTTTAGTAATTTTACAAACT
1 AGGG-GTATTTCAGTAATTTTACAAACT
*
58399720 AGGGGTATTTCAGTAATTTTAAAAACT
1 AGGGGTATTTCAGTAATTTTACAAACT
*
58399747 -GAGGGTATTTC-GATAATTTTACAAACC
1 AG-GGGTATTTCAG-TAATTTTACAAACT
58399774 AGGG
1 AGGG
58399778 TCTCAACGAC
Statistics
Matches: 156, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
26 7 0.04
27 143 0.92
28 6 0.04
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTTACAAACT
Found at i:58403231 original size:58 final size:60
Alignment explanation
Indices: 58403153--58403294 Score: 207
Period size: 60 Copynumber: 2.4 Consensus size: 60
58403143 TGTACATTAT
** * * *
58403153 GGATTTAGCCCAGACGGGTAATCCA-ATTAG-GGTCATTAAGGGTGTTTGTCACTATAAG
1 GGATTTAGCCTGGACTGGTAATCCAGATCAGAGCTCATTAAGGGTGTTTGTCACTATAAG
* *
58403211 GGATTTAGCCTGGACTGGTAATTCAGATCCGAGCTCATTAAGGGTGTTTGTCACTATAAG
1 GGATTTAGCCTGGACTGGTAATCCAGATCAGAGCTCATTAAGGGTGTTTGTCACTATAAG
58403271 GGATTTAGCCTGGACTGGTAATCC
1 GGATTTAGCCTGGACTGGTAATCC
58403295 CGATATCATC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 21 0.28
59 3 0.04
60 50 0.68
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (60 bp):
GGATTTAGCCTGGACTGGTAATCCAGATCAGAGCTCATTAAGGGTGTTTGTCACTATAAG
Found at i:58416179 original size:10 final size:10
Alignment explanation
Indices: 58416164--58416195 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
58416154 TTTTTGTAAT
58416164 AATAACATAA
1 AATAACATAA
58416174 AATAACATAA
1 AATAACATAA
58416184 AATAA-ATAA
1 AATAACATAA
58416193 AAT
1 AAT
58416196 TCAGGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (10 bp):
AATAACATAA
Found at i:58420686 original size:46 final size:46
Alignment explanation
Indices: 58420636--58420725 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
58420626 TACAGTTACT
* *
58420636 GATCTAAAAACTTGTTCTGAATCAAATTCAGCTCTATTCAGACACC
1 GATCTAAAAACTTATTCTGAATCAAATTCAGCCCTATTCAGACACC
* * *
58420682 GATCTAACAACTTATTCTGAATCGAATTTAGCCCTATTCAGACA
1 GATCTAAAAACTTATTCTGAATCAAATTCAGCCCTATTCAGACA
58420726 GTCTCTAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (46 bp):
GATCTAAAAACTTATTCTGAATCAAATTCAGCCCTATTCAGACACC
Found at i:58428958 original size:31 final size:31
Alignment explanation
Indices: 58428917--58428980 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58428907 CCTTTTCATA
*
58428917 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
58428948 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
58428979 TT
1 TT
58428981 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:58429226 original size:49 final size:47
Alignment explanation
Indices: 58429173--58429318 Score: 186
Period size: 49 Copynumber: 3.0 Consensus size: 47
58429163 TGCTTTATCA
* *
58429173 TATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTA-TAACTGGGGCATAAGCCCTTTT
*
58429222 TATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTCAT
1 TATAACTGGGGCATAAGCCCTTT-T-ATAACTGGGGCATAAGCCCTT-TT
* *
58429272 CATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
58429319 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
47 1 0.01
48 29 0.33
49 33 0.38
50 24 0.28
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
Found at i:58429227 original size:24 final size:24
Alignment explanation
Indices: 58429174--58429318 Score: 179
Period size: 25 Copynumber: 6.0 Consensus size: 24
58429164 GCTTTATCAT
*
58429174 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
58429198 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
58429223 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
58429248 ATAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
*
58429273 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
58429296 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
58429319 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
23 20 0.19
24 33 0.31
25 55 0.51
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:58429390 original size:9 final size:9
Alignment explanation
Indices: 58429376--58429432 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
58429366 ATCTCATGTG
58429376 CATATCATA
1 CATATCATA
*
58429385 CATATCATGTG
1 CATATCA--TA
58429396 CATATCATA
1 CATATCATA
* *
58429405 CATGTCATGTG
1 CATATCA--TA
58429416 CATATCATA
1 CATATCATA
58429425 CATATCAT
1 CATATCAT
58429433 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:58429392 original size:20 final size:20
Alignment explanation
Indices: 58429364--58429434 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
58429354 GCATTTATGA
*
58429364 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
58429384 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
58429404 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
58429424 ACATATCATGT
1 ACATATCATGT
58429435 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:58429399 original size:11 final size:11
Alignment explanation
Indices: 58429369--58429423 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
58429359 TATGAACATC
58429369 TCATGTGCATA
1 TCATGTGCATA
*
58429380 TCA--TACATA
1 TCATGTGCATA
58429389 TCATGTGCATA
1 TCATGTGCATA
* *
58429400 TCA--TACATG
1 TCATGTGCATA
58429409 TCATGTGCATA
1 TCATGTGCATA
58429420 TCAT
1 TCAT
58429424 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:58431308 original size:40 final size:39
Alignment explanation
Indices: 58431210--58431432 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
58431200 TCCTCGTTCA
* * * *
58431210 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
58431249 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
58431288 GAATGCCTTCGGGACTTAACCCGTATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
58431328 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
58431368 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
58431409 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58431433 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:58431441 original size:41 final size:41
Alignment explanation
Indices: 58431364--58431441 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58431354 TTTGTATCTC
* * *
58431364 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58431405 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58431442 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58438649 original size:40 final size:40
Alignment explanation
Indices: 58438549--58438718 Score: 218
Period size: 40 Copynumber: 4.3 Consensus size: 40
58438539 GCTCCTCGTT
* * *
58438549 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
58438589 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
58438628 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
58438668 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
58438708 CAAATGCCTTC
1 CAAATGCCTTC
58438719 AGATCTTAGT
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:58438733 original size:80 final size:79
Alignment explanation
Indices: 58438549--58438773 Score: 213
Period size: 80 Copynumber: 2.8 Consensus size: 79
58438539 GCTCCTCGTT
* * * * * * *
58438549 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGAGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
58438613 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
58438628 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGAGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
58438693 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
** * * * *
58438708 CAAATGCCTTC-AGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGAGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
58438772 GA
63 GA
58438774 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.31
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGAGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:58441216 original size:27 final size:27
Alignment explanation
Indices: 58441154--58441231 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
58441144 TGGCATATTC
58441154 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
58441181 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
58441208 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
58441232 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:58441420 original size:54 final size:54
Alignment explanation
Indices: 58441362--58441501 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
58441352 TGTAAATCAG
58441362 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * * * * *
58441416 GGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* ** *
58441470 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
58441502 AAACAGTAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:58441421 original size:110 final size:108
Alignment explanation
Indices: 58441252--58441450 Score: 256
Period size: 110 Copynumber: 1.8 Consensus size: 108
58441242 CATCTTACAA
* *** *
58441252 GGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-
1 GGGTATTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTT-TG
* *
58441316 ATAATTTTTAGAAAGTCAAGGGTATTTCTATAACTTTGTAAATCAG
65 ATAA-TTTTACAAACT-AAGGGTATTTCTATAACTTTGTAAATCAG
* * * * *
58441362 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGA
1 GGGTATTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTTGA
58441427 TAATTTTACAAACTAAGGGTATTT
66 TAATTTTACAAACTAAGGGTATTT
58441451 TGGTAATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 10 0.13
109 10 0.13
110 56 0.74
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (108 bp):
GGGTATTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTTGA
TAATTTTACAAACTAAGGGTATTTCTATAACTTTGTAAATCAG
Found at i:58441499 original size:27 final size:27
Alignment explanation
Indices: 58441277--58441555 Score: 172
Period size: 27 Copynumber: 10.3 Consensus size: 27
58441267 TCTACAAACT
* * *
58441277 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
* *
58441304 AATGGTATTTCTA-TAATTTTTAGAAAGTC
1 AAGGGTATTT-TAGTAA-TTTTATAAA-TC
* *
58441333 AAGGGTATTTCTA-TAACTTTGTAAATC
1 AAGGGTATTT-TAGTAATTTTATAAATC
* * * *
58441360 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTAGTAATTTTATAAATC
* ** * * *
58441387 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
*
58441414 AAGGGTATTTT-GATAATTTTACAAA-C
1 AAGGGTATTTTAG-TAATTTTATAAATC
* *
58441440 TAAGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTATAAATC
*
58441467 TAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTATAAATC
* **** * *
58441495 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
*** *
58441522 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
58441549 AAGGGTA
1 AAGGGTA
58441556 AAACTGTAAT
Statistics
Matches: 208, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.01
27 173 0.83
28 16 0.08
29 16 0.08
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTATAAATC
Found at i:58441500 original size:81 final size:80
Alignment explanation
Indices: 58441249--58441501 Score: 217
Period size: 81 Copynumber: 3.1 Consensus size: 80
58441239 TTTCATCTTA
* * * * ** ** * *
58441249 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
58441314 CTA-TAATTTTTAGAAAGT
66 -TAGTAATTTTT--AAA-T
* * * *
58441332 CAAGGGTATTTCT-ATAACTTTGTA-AATC-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
1 CAAGGGTATTT-TGATAA-TTT-TACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTA
** ** *
58441394 TTTCGGTAATTTCACAAAC
63 TTTTAGTAATTT-TTAAAT
58441413 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
58441478 TAGTAATTTTGTAAAT
66 TAGTAATTTT-TAAAT
*
58441494 CGAGGGTA
1 CAAGGGTA
58441502 AAACAGTAAT
Statistics
Matches: 132, Mismatches: 29, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
79 2 0.02
80 7 0.05
81 66 0.50
82 3 0.02
83 47 0.36
84 5 0.04
85 2 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (80 bp):
CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
TAGTAATTTTTAAAT
Found at i:58441556 original size:27 final size:27
Alignment explanation
Indices: 58441479--58441738 Score: 281
Period size: 27 Copynumber: 9.6 Consensus size: 27
58441469 AGGGTATTTT
*
58441479 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
58441506 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
58441533 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
58441560 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
58441587 GGTAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
58441614 -GATAATTATGTAAAT-TAGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
58441641 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
58441668 AATAATTTTAAAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
58441695 GGTAATTCTATAAATCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
58441722 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
58441739 GGAGTACTTT
Statistics
Matches: 198, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 195 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:58441740 original size:81 final size:81
Alignment explanation
Indices: 58441480--58441738 Score: 329
Period size: 81 Copynumber: 3.2 Consensus size: 81
58441470 GGGTATTTTA
* * * **
58441480 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
*
58441545 AATCAAGGGTAAAACT
66 AATCAAGGGTAAAACG
* * * * *
58441561 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
* *
58441626 AATTAGGGGTAAAACG
66 AATCAAGGGTAAAACG
* * * * * *
58441642 GTAATTATGTAAATCGGGGGTAAAACAATAATTTTAAAAATTGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
* *
58441707 AATCGATGGTAAAACG
66 AATCAAGGGTAAAACG
58441723 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
58441739 GGAGTACTTT
Statistics
Matches: 149, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 149 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATA
AATCAAGGGTAAAACG
Found at i:58442490 original size:409 final size:409
Alignment explanation
Indices: 58441731--58443362 Score: 3246
Period size: 409 Copynumber: 4.0 Consensus size: 409
58441721 CGGTAATTCT
58441731 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
1 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
58441796 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
66 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
58441861 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
131 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
58441926 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
196 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
58441991 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
261 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
58442056 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
326 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
58442121 TACAGCGAAAGGGATTTCA
391 TACAGCGAAAGGGATTTCA
58442140 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
1 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
58442205 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
66 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
58442270 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
131 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
58442335 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
196 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
58442400 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
261 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
58442465 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
326 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
58442530 TACAGCGAAAGGGATTTCA
391 TACAGCGAAAGGGATTTCA
58442549 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
1 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
58442614 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
66 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
58442679 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
131 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
58442744 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
196 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
58442809 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
261 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
58442874 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
326 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
58442939 TACAGCGAAAGGGATTTCA
391 TACAGCGAAAGGGATTTCA
58442958 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
1 GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
58443023 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
66 ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
58443088 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
131 GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
58443153 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
196 TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
* *
58443218 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACATAATA
261 TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
58443283 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
326 GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
58443348 TACAGCGAAAGGGAT
391 TACAGCGAAAGGGAT
58443363 CAGCCAAGAC
Statistics
Matches: 1221, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
409 1221 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (409 bp):
GTAAATCGGGAGTACTTTTGTAATTTTACAAGTCGAGGGCATTTCAGTAATTGGTAAACTAAAGT
ATTCTAAACATGGATAACAATACTAATGGCTCTAAAGCCCATTCTCGACCCAAATGGGCCTACAC
GCTCGTGTGGCCCTTTTAGCCCAAATCTAGCCACAAATATTAGATTCACCTAGCCTAGCCCAATA
TTTACTACATAATCAAACAACTTATCCAATTAGGCCTGTAGGCCCATTGGGCCCACATGGCCCCT
TTCGGCCCATCGCGGCCCGAAGTAGCCATCCAACAACAAGAGTAGTGATAAATACACACCTGATA
GGAGACTAGAGTTAATCCACACTCCGAGCACTCTTAGCCGACGCCCAACCCAAACGAGCACTCCA
TACAGCGAAAGGGATTTCA
Found at i:58447379 original size:20 final size:20
Alignment explanation
Indices: 58447336--58447379 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
58447326 GGAAGCCATG
* *
58447336 TGTGAATTTAAAATGCCATG
1 TGTGAATTTAAAATGACATA
58447356 TGTGAATTTAAAATGTAC-TA
1 TGTGAATTTAAAATG-ACATA
58447376 TGTG
1 TGTG
58447380 GTAGCAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTGAATTTAAAATGACATA
Found at i:58447379 original size:22 final size:20
Alignment explanation
Indices: 58447330--58447370 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
58447320 TGAATTGGAA
58447330 GCCATGTGTGAATTTAAAAT
1 GCCATGTGTGAATTTAAAAT
58447350 GCCATGTGTGAATTTAAAAT
1 GCCATGTGTGAATTTAAAAT
58447370 G
1 G
58447371 TACTATGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
GCCATGTGTGAATTTAAAAT
Found at i:58448658 original size:40 final size:41
Alignment explanation
Indices: 58448614--58448739 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 41
58448604 GTGCGTTTCA
*
58448614 AAATAGCTTCGGCTATAAAT-A-GCACTAAGTGTG-AAAATTG
1 AAATAGCTTCGGCTAT--ATGAGGCACTAAGTGTGCAAAATCG
* * *
58448654 AAATAGATTCGGCTATATGAGGCACTAAGTGTGCGATATCG
1 AAATAGCTTCGGCTATATGAGGCACTAAGTGTGCAAAATCG
* * *
58448695 AAATAGCTTCAG-TTTATTGAGATGGCACTAAGTGTGCAAGATCG
1 AAATAGCTTCGGCTATA-T--GA-GGCACTAAGTGTGCAAAATCG
58448739 A
1 A
58448740 TTTGGCTTTG
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
40 30 0.43
41 15 0.21
43 2 0.03
44 20 0.29
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (41 bp):
AAATAGCTTCGGCTATATGAGGCACTAAGTGTGCAAAATCG
Found at i:58452529 original size:9 final size:9
Alignment explanation
Indices: 58452517--58452548 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
58452507 AATTTAACAT
58452517 TTTTTTTAC
1 TTTTTTTAC
58452526 -TTTTTTAC
1 TTTTTTTAC
58452534 TTTTTTTAC
1 TTTTTTTAC
58452543 TTTTTT
1 TTTTTT
58452549 ACCCTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:58452531 original size:8 final size:8
Alignment explanation
Indices: 58452518--58452550 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
58452508 ATTTAACATT
58452518 TTTTTTAC
1 TTTTTTAC
58452526 TTTTTTAC
1 TTTTTTAC
58452534 TTTTTTTAC
1 -TTTTTTAC
58452543 TTTTTTAC
1 TTTTTTAC
58452551 CCTTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAC
Found at i:58452537 original size:17 final size:17
Alignment explanation
Indices: 58452517--58452550 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58452507 AATTTAACAT
58452517 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTTTAC
58452534 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTTTAC
58452551 CCTTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTACTTTTTTAC
Found at i:58452556 original size:17 final size:17
Alignment explanation
Indices: 58452519--58452556 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
58452509 TTTAACATTT
**
58452519 TTTTTACTTTTTTACTT
1 TTTTTACTTTTTTACCC
58452536 TTTTTACTTTTTTACCC
1 TTTTTACTTTTTTACCC
58452553 TTTT
1 TTTT
58452557 ATTAACATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTACTTTTTTACCC
Found at i:58455097 original size:28 final size:27
Alignment explanation
Indices: 58455031--58455097 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
58455021 TACATCTAAT
* *
58455031 ACTGATTCTG-TATTGGGCTTAGGCCC
1 ACTGATTCTGTTATTGGGCTAAGGCCA
*
58455057 ACTTGATTTTGTTATTGGGCTAAGGTCCA
1 AC-TGATTCTGTTATTGGGCTAAGG-CCA
*
58455086 ACTGATACTGTT
1 ACTGATTCTGTT
58455098 TCTATGATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 2 0.06
27 7 0.21
28 20 0.61
29 4 0.12
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (27 bp):
ACTGATTCTGTTATTGGGCTAAGGCCA
Found at i:58456070 original size:14 final size:14
Alignment explanation
Indices: 58456051--58456089 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
58456041 TTGTTTCACA
58456051 GAAAATGACTTT-TG
1 GAAAATGA-TTTCTG
58456065 GAAAATGATTTCTG
1 GAAAATGATTTCTG
58456079 GAAAATGATTT
1 GAAAATGATTT
58456090 ACTTTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:58456568 original size:15 final size:15
Alignment explanation
Indices: 58456548--58456599 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
58456538 ACTACAAAAC
58456548 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
58456563 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
58456582 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
58456597 ATT
1 ATT
58456600 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:58456719 original size:22 final size:22
Alignment explanation
Indices: 58456679--58456734 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
58456669 AATAAATTTG
*
58456679 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
58456699 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
58456721 TATTAATAATTTAT
1 AAATAATAAATTAT
58456735 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:58462254 original size:28 final size:28
Alignment explanation
Indices: 58462191--58462372 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
58462181 ATATTAAGTC
*
58462191 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
58462218 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
58462246 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
58462274 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
58462302 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58462330 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
58462359 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58462373 CAATCTCATG
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 21 0.14
28 106 0.73
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58467275 original size:28 final size:28
Alignment explanation
Indices: 58467234--58467370 Score: 197
Period size: 28 Copynumber: 4.9 Consensus size: 28
58467224 CATACCAAGA
58467234 ATAATC-AACTCGCACACTTAGTGCTAC
1 ATAATCAAACTCGCACACTTAGTGCTAC
*
58467261 ATAATCAAACTCGCACACTTAGTGCTAT
1 ATAATCAAACTCGCACACTTAGTGCTAC
*
58467289 ATAATCAAACTCGCACACTTAGTGCTAT
1 ATAATCAAACTCGCACACTTAGTGCTAC
58467317 ATAATCAAACTCGCACACTTAGTGCTGTAC
1 ATAATCAAACTCGCACACTTAGTGC--TAC
* * *
58467347 A-ATTTAAACCCGCACACTTAGTGC
1 ATAATCAAACTCGCACACTTAGTGC
58467371 CAATCTCATG
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
27 6 0.06
28 73 0.72
29 20 0.20
30 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
ATAATCAAACTCGCACACTTAGTGCTAC
Found at i:58469827 original size:29 final size:29
Alignment explanation
Indices: 58469790--58469849 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
58469780 ACTAATTAAA
58469790 TTAATTAACCTAAAATA-ACCTAATGGAAT
1 TTAATTAACCTAAAATATA-CTAATGGAAT
*
58469819 TTAATTAACCTAAGATATACTAATGGAAT
1 TTAATTAACCTAAAATATACTAATGGAAT
58469848 TT
1 TT
58469850 CATATTCCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (29 bp):
TTAATTAACCTAAAATATACTAATGGAAT
Found at i:58478725 original size:25 final size:25
Alignment explanation
Indices: 58478677--58478729 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
58478667 CTGTACATGT
*
58478677 ATGCTCACACAAGCTGTGAATCAGA
1 ATGCTCACACAAGCTATGAATCAGA
* **
58478702 ATGCTCACACGAGCTATGGGTCAGA
1 ATGCTCACACAAGCTATGAATCAGA
58478727 ATG
1 ATG
58478730 TAGCTACACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
ATGCTCACACAAGCTATGAATCAGA
Found at i:58480251 original size:17 final size:16
Alignment explanation
Indices: 58480224--58480255 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
58480214 ATAAATCACT
58480224 TATATAAAAACATTTC
1 TATATAAAAACATTTC
58480240 TATATCAAAAACATTT
1 TATAT-AAAAACATTT
58480256 TTAAAACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
TATATAAAAACATTTC
Found at i:58483490 original size:27 final size:27
Alignment explanation
Indices: 58483449--58483705 Score: 379
Period size: 27 Copynumber: 9.5 Consensus size: 27
58483439 AGCGACCATC
*
58483449 AACAGTCATTTTACCTCATGAAGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
* * * * *
58483476 AATAGTCATTGTACCACATAAGTGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
* * * * *
58483503 AATAATCATTTTACCACATCAAGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
58483530 AACAGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
*
58483557 AACGGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
*
58483584 AACAGTCATTTTGCCTCATGAGGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
58483611 AACAGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
58483638 AACAGTCATTTTACCTCATGAGGGCAA
1 AACAGTCATTTTACCTCATGAGGGCAA
*
58483665 AACAGTCATTTTACCTCATGAGGGTAA
1 AACAGTCATTTTACCTCATGAGGGCAA
*
58483692 AATAGTCATTTTAC
1 AACAGTCATTTTAC
58483706 ATTACAGGGG
Statistics
Matches: 208, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 208 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (27 bp):
AACAGTCATTTTACCTCATGAGGGCAA
Found at i:58483753 original size:27 final size:26
Alignment explanation
Indices: 58483723--58483862 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 26
58483713 GGGTATAACA
58483723 GTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
58483750 GTCATTTTACCCTATGAGGGTA-TTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
58483776 ATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
58483803 GTCATTTTACCCTATAGGGGTCTTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
58483830 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
58483857 GTCATT
1 GTCATT
58483863 ATTTCGTCCC
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 22 0.22
27 76 0.75
28 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:58483754 original size:54 final size:51
Alignment explanation
Indices: 58483696--58483862 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 51
58483686 GGGTAAAATA
** *
58483696 GTCATTTTACATTACAGGGGTATAACAGTCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTA-AGGGGTAT-TCAGTCATTTTACCCTATGGGG-TATTTCG
* * *
58483750 GTCATTTTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAAG-GGGTATTCAGTCATTTTACCCTAT-GGGGTATTTCG
* *
58483803 GTCATTTTACCCTATAGGGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTA-AGGGGT-ATTCAGTCATTTTACCCTAT-GGGGTATTTCG
58483857 GTCATT
1 GTCATT
58483863 ATTTCGTCCC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 41 0.42
54 56 0.58
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (51 bp):
GTCATTTTACCCTAAGGGGTATTCAGTCATTTTACCCTATGGGGTATTTCG
Found at i:58483792 original size:53 final size:53
Alignment explanation
Indices: 58483724--58483862 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 53
58483714 GGTATAACAG
58483724 TCATTTTACCCTATGGGGTTATTTCGGTCATTTTACCCTAT-GAGGGT-ATTCAA
1 TCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATAG-GGGTCATTCAA
* * **
58483777 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTCTTTCGG
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATAGGGGTCATTCAA
58483831 TCATTTTACCCTATAGGGGTATTTCGGTCATT
1 TCATTTTACCCTAT-GGGGTATTTCGGTCATT
58483863 ATTTCGTCCC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
53 39 0.51
54 38 0.49
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATAGGGGTCATTCAA
Found at i:58484104 original size:27 final size:27
Alignment explanation
Indices: 58484063--58484166 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
58484053 AGCTTTGAAG
**
58484063 TTACCCTAT-GAGGGTATTTCAATCATT
1 TTACCCTATAG-GGGTATTTCGGTCATT
* * **
58484090 TTACCCTATGGGGGTATTTTGGTTTTT
1 TTACCCTATAGGGGTATTTCGGTCATT
*
58484117 TTACCCTATAGGGGTCTTTCGGTCATT
1 TTACCCTATAGGGGTATTTCGGTCATT
58484144 TTACCCTATAGGGGTATTTCGGT
1 TTACCCTATAGGGGTATTTCGGT
58484167 TATTATTTCG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 64 0.98
28 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
TTACCCTATAGGGGTATTTCGGTCATT
Found at i:58484145 original size:54 final size:54
Alignment explanation
Indices: 58484063--58484167 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
58484053 AGCTTTGAAG
* *
58484063 TTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTTGGTTTTT
1 TTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTTTTT
* **
58484117 TTACCCTAT-AGGGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTT
1 TTACCCTATGA-GGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTT
58484168 ATTATTTCGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (54 bp):
TTACCCTATGAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTTTTT
Found at i:58484330 original size:308 final size:307
Alignment explanation
Indices: 58483756--58484373 Score: 1164
Period size: 308 Copynumber: 2.0 Consensus size: 307
58483746 TTCGGTCATT
58483756 TTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGG
1 TTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGG
58483821 GGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAAA
66 GGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAAA
*
58483886 ACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACGTTTTATGCGT
131 ACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCGT
58483951 TTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTTG
196 TTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTTG
58484016 CCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
261 CCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
**
58484063 TTACCCTATGAGGGTATTTCAATCATTTTACCCTATGGGGGTATTTTGGTTTTTTTACCCTATAG
1 TTACCCTATGAGGGTA-TTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAG
*
58484128 GGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTTATTATTTCGTCCCAACATGGCCCAA
65 GGGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAA
58484193 AACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCG
130 AACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCG
* * *
58484258 TTTAGGGTTACCACACGAGTGATTGCACGCCCATGTGGCATCAACGATCCTATTTTCTGAGTTTT
195 TTTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTT
58484323 GCCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
260 GCCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
58484371 TTA
1 TTA
58484374 ACCGTGCTCT
Statistics
Matches: 303, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
307 16 0.05
308 287 0.95
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (307 bp):
TTACCCTATGAGGGTATTCAATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGG
GGTCTTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTATTTCGTCCCAACATGGCCCAAA
ACGGCCTAAGCCCATGAGATCAGCCATGATGGCCTCTCGTAATCCAGTACCCACATTTTATGCGT
TTAGGGTTACCACACGAGCGATTGCACGCCCATGTGGCATCAACGATCCTATTTTATAAGTTTTG
CCGATTTACGGTTAAGACAGTGATTACACACCTGACGAGCTTTGAAG
Found at i:58500284 original size:40 final size:40
Alignment explanation
Indices: 58500224--58500492 Score: 484
Period size: 40 Copynumber: 6.7 Consensus size: 40
58500214 ATGAGCATTG
58500224 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58500264 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58500304 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
58500344 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58500384 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
58500424 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58500464 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
58500493 ATGTGTTTGC
Statistics
Matches: 224, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 224 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:58508893 original size:40 final size:40
Alignment explanation
Indices: 58508833--58509061 Score: 413
Period size: 40 Copynumber: 5.7 Consensus size: 40
58508823 ATGAGCATTG
58508833 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58508873 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
58508913 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58508953 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
58508993 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
58509033 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
58509062 ATGTGTTTGC
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 184 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:58511294 original size:27 final size:28
Alignment explanation
Indices: 58511128--58511281 Score: 247
Period size: 28 Copynumber: 5.5 Consensus size: 28
58511118 CATGAGATTG
* * * *
58511128 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
58511157 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58511185 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58511213 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58511241 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58511268 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58511282 GACTTAATAT
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.20
28 78 0.65
29 18 0.15
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58519360 original size:27 final size:28
Alignment explanation
Indices: 58519263--58519387 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
58519253 CATGAGATTG
* * * * *
58519263 GCACTAAGTGTGTGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
58519292 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58519320 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58519348 G-ACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58519374 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58519388 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
26 12 0.13
27 25 0.28
28 35 0.39
29 17 0.19
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58519398 original size:27 final size:27
Alignment explanation
Indices: 58519291--58519400 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
58519281 TAAATTGTAC
*
58519291 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
58519319 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
58519347 AG-ACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
58519373 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
58519400 A
1 A
58519401 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
26 12 0.16
27 30 0.39
28 34 0.45
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:58522432 original size:17 final size:17
Alignment explanation
Indices: 58522404--58522451 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
58522394 GGCCATTTCT
*
58522404 AGGCTATGTGGGCCATGC
1 AGGCT-TGTGGGCCATAC
*
58522422 GGGCTTGTGGGCCATAC
1 AGGCTTGTGGGCCATAC
58522439 AGGCTTGTGGGCC
1 AGGCTTGTGGGCC
58522452 CACATGGGCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (17 bp):
AGGCTTGTGGGCCATAC
Found at i:58529448 original size:35 final size:35
Alignment explanation
Indices: 58529404--58529477 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
58529394 ATTCAACTAC
*
58529404 ATGTGATGTTTTATTGAACTTGTATATTCGGTC-AT
1 ATGTAATGTTTTATTGAACTTGTATATTCGG-CAAT
*
58529439 ATGTAATGTTTTATTGTACTTGTATATTCGGCAAT
1 ATGTAATGTTTTATTGAACTTGTATATTCGGCAAT
58529474 ATGT
1 ATGT
58529478 GATGATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 1 0.03
35 35 0.97
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (35 bp):
ATGTAATGTTTTATTGAACTTGTATATTCGGCAAT
Found at i:58532230 original size:40 final size:39
Alignment explanation
Indices: 58532105--58532238 Score: 115
Period size: 35 Copynumber: 3.6 Consensus size: 39
58532095 GGTTTTCCTC
* * *
58532105 ATTGA-AATACCATACCTATATTTTACAACTCGGTAT--
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
* ** * **
58532141 A-GGA-AATGTCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
58532178 ATTTGATAATACCATACCTACATTTCACAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
58532218 A-TG---ATACCATACCTACATTTC
1 ATTGATAATACCATACCTACATTTC
58532239 TCACTTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
35 43 0.55
36 1 0.01
37 1 0.01
38 2 0.03
39 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.34
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:58538337 original size:21 final size:21
Alignment explanation
Indices: 58538312--58538355 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
58538302 CGACACTAAT
58538312 CAATAATTGCAGCAGAGCTGC
1 CAATAATTGCAGCAGAGCTGC
* *
58538333 CAATAATTGTAGTAGAGCTGC
1 CAATAATTGCAGCAGAGCTGC
58538354 CA
1 CA
58538356 GTACAGTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (21 bp):
CAATAATTGCAGCAGAGCTGC
Found at i:58545715 original size:19 final size:19
Alignment explanation
Indices: 58545691--58545735 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
58545681 TGGGCTATTT
* * *
58545691 TGGGCCGAACCGGGCCATG
1 TGGGCCCAACCGAGACATG
*
58545710 TGGGCCCTACCGAGACATG
1 TGGGCCCAACCGAGACATG
58545729 TGGGCCC
1 TGGGCCC
58545736 CACTTGGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.16, C:0.33, G:0.38, T:0.13
Consensus pattern (19 bp):
TGGGCCCAACCGAGACATG
Found at i:58548135 original size:24 final size:24
Alignment explanation
Indices: 58548094--58548153 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
58548084 GAAAAGGTTG
* *
58548094 AAAAGGTTATCAACGAAAACATCA
1 AAAAGGATACCAACGAAAACATCA
* ** *
58548118 AAAAGGATACCAATGAAAAGGTTA
1 AAAAGGATACCAACGAAAACATCA
58548142 AAAAGGATACCA
1 AAAAGGATACCA
58548154 TTATATCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (24 bp):
AAAAGGATACCAACGAAAACATCA
Found at i:58553153 original size:42 final size:42
Alignment explanation
Indices: 58552985--58553153 Score: 115
Period size: 42 Copynumber: 3.9 Consensus size: 42
58552975 TAAGATCCCG
*
58552985 TATAAGACCATATCTGGGATATGGCATCGGCAT-TAGTATAAGTTATCA
1 TATAAGACCATATCTGGGATATGGCATC-G-ATAT-G-AGAA--T-TCA
* * * * * *
58553033 TGTAAGACCATATCTAGGATATGTCGTTGATATGAGATTTCA
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGAATTCA
* * * * * * * * *
58553075 TGTAAGGCCATGTTTGGGACATGGCGTCAAAATGAGAATTCG
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGAATTCA
*
58553117 TATAAGACCATATCTGGGATATGGCATCGATGTGAGA
1 TATAAGACCATATCTGGGATATGGCATCGATATGAGA
58553154 TCCCATGTAA
Statistics
Matches: 93, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
42 62 0.67
43 1 0.01
45 2 0.02
46 3 0.03
47 2 0.02
48 23 0.25
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGGCATCGATATGAGAATTCA
Found at i:58562173 original size:23 final size:23
Alignment explanation
Indices: 58562146--58562193 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
58562136 AAGATTGAAA
*
58562146 TTGTGTAAGTTATGCCTATAAAT
1 TTGTGTAAGTTATGCCAATAAAT
58562169 TTGTGTAAGTTATGCCAATAAAT
1 TTGTGTAAGTTATGCCAATAAAT
58562192 TT
1 TT
58562194 ATGATAACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (23 bp):
TTGTGTAAGTTATGCCAATAAAT
Found at i:58565755 original size:20 final size:20
Alignment explanation
Indices: 58565697--58565756 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
58565687 AGGCTACTTG
* *
58565697 GAAATTTTTGTAAATCCTTA
1 GAAATTTTGGTAAATTCTTA
** *
58565717 GGTATGTTGGTATAA-TCTTA
1 GAAATTTTGGTA-AATTCTTA
58565737 GAAATTTTGGTAAATTCTTA
1 GAAATTTTGGTAAATTCTTA
58565757 AGTTTTTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (20 bp):
GAAATTTTGGTAAATTCTTA
Found at i:58566016 original size:28 final size:28
Alignment explanation
Indices: 58565985--58566046 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
58565975 CAAATCCTTA
58565985 GAAAATTTGGTAAA-TCATTAGAAATGTT
1 GAAAATTTGGTAAATTC-TTAGAAATGTT
* *
58566013 GAAATTTTGGTAAATTCTTAGAAATTTT
1 GAAAATTTGGTAAATTCTTAGAAATGTT
*
58566041 GTAAAT
1 GAAAAT
58566047 ACATGTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (28 bp):
GAAAATTTGGTAAATTCTTAGAAATGTT
Found at i:58566019 original size:48 final size:47
Alignment explanation
Indices: 58565918--58566046 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 47
58565908 ATAACCATAT
*
58565918 AAATTTTGGCAAAGCCTTAGAAATTATGGTAAATCTATAAAAACATTG
1 AAATTTTGGCAAATCCTTAGAAATT-TGGTAAATCTATAAAAACATTG
* * * **
58565966 GAATTTTAGCAAATCCTTAGAAAATTTGGTAAATC-ATTAGAAATGTTG
1 AAATTTTGGCAAATCCTTAG-AAATTTGGTAAATCTA-TAAAAACATTG
* * *
58566014 AAATTTTGGTAAATTCTTAGAAATTTTGTAAAT
1 AAATTTTGGCAAATCCTTAGAAATTTGGTAAAT
58566047 ACATGTATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
47 13 0.19
48 50 0.74
49 5 0.07
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (47 bp):
AAATTTTGGCAAATCCTTAGAAATTTGGTAAATCTATAAAAACATTG
Found at i:58566218 original size:20 final size:20
Alignment explanation
Indices: 58566194--58566285 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 20
58566184 AAATCCTTGG
58566194 AAATTTTGGTATAA-CCTAA
1 AAATTTTGGTATAATCCTAA
*
58566213 AGAATTTTGGTA-AATCTTTAA
1 A-AATTTTGGTATAATC-CTAA
* *
58566234 ATATTTTGGTATAA-CCTACT
1 AAATTTTGGTATAATCCTA-A
*
58566254 AAATTTTGGTA-AATCCTTAG
1 AAATTTTGGTATAATCC-TAA
58566274 AAATTTTGGTAT
1 AAATTTTGGTAT
58566286 GCCAAAATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
19 7 0.12
20 44 0.75
21 8 0.14
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (20 bp):
AAATTTTGGTATAATCCTAA
Found at i:58566225 original size:40 final size:40
Alignment explanation
Indices: 58566174--58566285 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 40
58566164 AAACCCTTAG
* *
58566174 AAATATTGGTAAATCCTTGGAAATTTTGGTATAACCTA-A
1 AAATTTTGGTAAATCCTTAGAAATTTTGGTATAACCTACA
* *
58566213 AGAATTTTGGTAAATCTTTA-AATATTTTGGTATAACCTACT
1 A-AATTTTGGTAAATCCTTAGAA-ATTTTGGTATAACCTACA
58566254 AAATTTTGGTAAATCCTTAGAAATTTTGGTAT
1 AAATTTTGGTAAATCCTTAGAAATTTTGGTAT
58566286 GCCAAAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.05
40 58 0.91
41 3 0.05
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (40 bp):
AAATTTTGGTAAATCCTTAGAAATTTTGGTATAACCTACA
Found at i:58566349 original size:20 final size:20
Alignment explanation
Indices: 58566324--58566388 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
58566314 GGCATTAAGA
*
58566324 AAATCTCTAGAAATATTGGT
1 AAATCTCTAGAAAAATTGGT
* * *
58566344 AAATCTTTAGAAACATCGGT
1 AAATCTCTAGAAAAATTGGT
58566364 AAAT-TCTTA-AAAAATTTGGT
1 AAATCTC-TAGAAAAA-TTGGT
58566384 AAATC
1 AAATC
58566389 CTTAGATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 5 0.14
20 31 0.86
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (20 bp):
AAATCTCTAGAAAAATTGGT
Done.