Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 99 of 172
Found at i:33417316 original size:36 final size:36
Alignment explanation
Indices: 33417274--33418156 Score: 1626
Period size: 36 Copynumber: 24.5 Consensus size: 36
33417264 GATCTCATAT
* *
33417274 CAATGCCAT-GTCCCAGGC-ATGGTCTTACATGTATCA
1 CAATGCCATAG-CCCA-GCTATGGTTTTACACGTATCA
* *
33417310 CAATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGT-ATCA
**
33417347 TGATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417383 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417419 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417455 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417491 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417527 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417563 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417599 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417635 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417671 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417707 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417743 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417779 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417815 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417851 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417887 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417923 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417959 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33417995 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33418031 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
33418067 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
*
33418103 CAATGCCATAGCCCAGCTATGGTTTTACATGTCATCA
1 CAATGCCATAGCCCAGCTATGGTTTTACACGT-ATCA
* * *
33418140 CGATACCAAAGCCCAGC
1 CAATGCCATAGCCCAGC
33418157 ATCACGATAC
Statistics
Matches: 833, Mismatches: 10, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
35 2 0.00
36 780 0.94
37 51 0.06
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (36 bp):
CAATGCCATAGCCCAGCTATGGTTTTACACGTATCA
Found at i:33418161 original size:21 final size:21
Alignment explanation
Indices: 33418135--33418177 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
33418125 TTTTACATGT
33418135 CATCACGATACCAAAGCCCAG
1 CATCACGATACCAAAGCCCAG
33418156 CATCACGATACCAAAGCCCAG
1 CATCACGATACCAAAGCCCAG
33418177 C
1 C
33418178 TATGGTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.40, G:0.14, T:0.09
Consensus pattern (21 bp):
CATCACGATACCAAAGCCCAG
Found at i:33421247 original size:17 final size:17
Alignment explanation
Indices: 33421227--33421262 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
33421217 TATCTCAATC
33421227 TATATAATATCAAAATT
1 TATATAATATCAAAATT
33421244 TATATAATATCAAAATT
1 TATATAATATCAAAATT
33421261 TA
1 TA
33421263 CTTATTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TATATAATATCAAAATT
Found at i:33424868 original size:38 final size:38
Alignment explanation
Indices: 33424776--33424851 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
33424766 TTGGCATAAG
33424776 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
1 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
33424814 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
1 TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
33424852 GTTTATATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (38 bp):
TTAGACTATAAATTGAACATATGCATTTGCATGAATTT
Found at i:33427945 original size:21 final size:21
Alignment explanation
Indices: 33427883--33427946 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
33427873 GAGTTACACG
*
33427883 GCCTG-TTCACATGGCCGTGT
1 GCCTGCTTCACACGGCCGTGT
*
33427903 CCCTGCTTCACACGAG-CGTGT
1 GCCTGCTTCACACG-GCCGTGT
33427924 GCCT-CTGTCACACGGCCGTGT
1 GCCTGCT-TCACACGGCCGTGT
33427945 GC
1 GC
33427947 TACCATTCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.11, C:0.36, G:0.28, T:0.25
Consensus pattern (21 bp):
GCCTGCTTCACACGGCCGTGT
Found at i:33428618 original size:92 final size:93
Alignment explanation
Indices: 33428454--33428628 Score: 248
Period size: 92 Copynumber: 1.9 Consensus size: 93
33428444 TACTGATAAC
* * * * *
33428454 AGTATAGCAGATTACCGCATTGCACTGTACCACATGTATGTTAGCTACGCTACGTACCATTGACT
1 AGTATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGCCACACTACGTACCACTGACT
33428519 GGACTGGCAATTT-TACTGCAACCTATT
66 GGACTGGCAATTTATACTGCAACCTATT
*
33428546 AGTATAGCAGATTACCACATTGCACTGTACCGCATGTACGTTAGCCACACTACGTACCACT-ATC
1 AGTATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGCCACACTACGTACCACTGA-C
*
33428610 T-GATCTGGCAGTTTATACT
65 TGGA-CTGGCAATTTATACT
33428629 ACATGTCTGT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
91 3 0.04
92 66 0.90
93 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (93 bp):
AGTATAGCAGATTACCACATTGCACTGTACCACATGTACGTTAGCCACACTACGTACCACTGACT
GGACTGGCAATTTATACTGCAACCTATT
Found at i:33430372 original size:28 final size:27
Alignment explanation
Indices: 33430309--33430460 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
33430299 ATATTAAGTC
* *
33430309 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
33430336 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
33430364 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
33430391 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
33430419 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
33430446 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33430461 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33430393 original size:55 final size:55
Alignment explanation
Indices: 33430309--33430485 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
33430299 ATATTAAGTC
* * *
33430309 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
33430364 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
33430419 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
33430475 CGCACACTTAG
1 CGCACACTTAG
33430486 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:33434064 original size:40 final size:40
Alignment explanation
Indices: 33434016--33434243 Score: 384
Period size: 40 Copynumber: 5.7 Consensus size: 40
33434006 GCAAACACAT
* * *
33434016 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33434056 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33434096 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33434136 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33434176 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33434216 TTGCCTTCGGGTCTTAGCCTGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
33434244 TCCAATGCTC
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:33442298 original size:28 final size:27
Alignment explanation
Indices: 33442235--33442386 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
33442225 ATATTAAGTC
* *
33442235 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
33442262 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
33442290 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
33442317 CGCACACTTAGTGCTTCATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
33442345 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
33442372 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33442387 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:33442319 original size:55 final size:55
Alignment explanation
Indices: 33442235--33442411 Score: 255
Period size: 55 Copynumber: 3.2 Consensus size: 55
33442225 ATATTAAGTC
* * *
33442235 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
33442290 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTTCATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
33442345 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
33442401 CGCACACTTAG
1 CGCACACTTAG
33442412 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
55 94 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:33451070 original size:51 final size:51
Alignment explanation
Indices: 33451014--33451116 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
33451004 GATTCATCAA
33451014 GGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCTT
1 GGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCTT
*
33451065 GGTTCGATTCCATAATTTATTCACTATTTAATTCCACTCCTACGAATTCTT
1 GGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCTT
33451116 G
1 G
33451117 TGATTTTTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (51 bp):
GGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCTT
Found at i:33452111 original size:201 final size:201
Alignment explanation
Indices: 33451766--33452168 Score: 806
Period size: 201 Copynumber: 2.0 Consensus size: 201
33451756 GAACATTTAT
33451766 TTGTAAGGGCTCGATTAATATTTAACACATACGTAACATATCCCCATATTGGGATGTTTTTCGAG
1 TTGTAAGGGCTCGATTAATATTTAACACATACGTAACATATCCCCATATTGGGATGTTTTTCGAG
33451831 TATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGTACCTTCGGAATTTAACCGG
66 TATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGTACCTTCGGAATTTAACCGG
33451896 ATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTC
131 ATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTC
33451961 GGGACA
196 GGGACA
33451967 TTGTAAGGGCTCGATTAATATTTAACACATACGTAACATATCCCCATATTGGGATGTTTTTCGAG
1 TTGTAAGGGCTCGATTAATATTTAACACATACGTAACATATCCCCATATTGGGATGTTTTTCGAG
33452032 TATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGTACCTTCGGAATTTAACCGG
66 TATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGTACCTTCGGAATTTAACCGG
33452097 ATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTC
131 ATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTC
33452162 GGGACA
196 GGGACA
33452168 T
1 T
33452169 AACCCGGATT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 202 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (201 bp):
TTGTAAGGGCTCGATTAATATTTAACACATACGTAACATATCCCCATATTGGGATGTTTTTCGAG
TATTCGCTGGAATTTTACAGCAAGCTCATTCATTACCAAATCACGTACCTTCGGAATTTAACCGG
ATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTC
GGGACA
Found at i:33452157 original size:39 final size:40
Alignment explanation
Indices: 33452112--33452296 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
33452102 GCTCCTCGTT
* * *
33452112 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
33452152 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
33452191 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
33452231 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
33452272 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
33452297 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:33453288 original size:30 final size:30
Alignment explanation
Indices: 33453252--33453311 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
33453242 CCTTAAAATC
33453252 TTTGGCCAAGGATGAACCAAAGGATGAGAA
1 TTTGGCCAAGGATGAACCAAAGGATGAGAA
33453282 TTTGGCCAAGGATGAACCAAAGGATGAGAA
1 TTTGGCCAAGGATGAACCAAAGGATGAGAA
33453312 AATTTTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (30 bp):
TTTGGCCAAGGATGAACCAAAGGATGAGAA
Found at i:33460247 original size:79 final size:82
Alignment explanation
Indices: 33460136--33460320 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
33460126 GCTACTCGTT
* *
33460136 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
33460199 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
33460216 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATGTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
33460279 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
33460296 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33460321 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:33460320 original size:40 final size:40
Alignment explanation
Indices: 33460117--33460320 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
33460107 CGGAATTTAA
** *
33460117 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33460157 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33460197 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33460236 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATGTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33460276 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33460316 CCGGA
1 CCGGA
33460321 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33464480 original size:40 final size:40
Alignment explanation
Indices: 33464443--33465387 Score: 1718
Period size: 40 Copynumber: 23.6 Consensus size: 40
33464433 GCTACTCGTT
* *
33464443 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
33464483 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464523 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464563 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464603 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464643 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464683 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464723 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464763 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464803 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464843 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464883 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464923 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33464963 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465003 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465043 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465083 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465123 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465163 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465203 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33465243 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
33465283 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
33465322 CAAATGCCTTC-GGATGTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33465363 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33465388 CATCATTCAA
Statistics
Matches: 885, Mismatches: 15, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
38 2 0.00
39 33 0.04
40 837 0.95
41 13 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33468646 original size:16 final size:16
Alignment explanation
Indices: 33468625--33468683 Score: 93
Period size: 17 Copynumber: 3.7 Consensus size: 16
33468615 TAGCTTCTTC
33468625 TTTTTTTTTCACGAAA
1 TTTTTTTTTCACGAAA
*
33468641 TTTTTTTTTTCACGAAT
1 -TTTTTTTTTCACGAAA
33468658 TTTTTTTTTCACG-AA
1 TTTTTTTTTCACGAAA
33468673 TTTTTTTTTCA
1 TTTTTTTTTCA
33468684 ACTTGATATC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.30
16 13 0.32
17 15 0.38
ACGTcount: A:0.19, C:0.12, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTTTTTCACGAAA
Found at i:33468647 original size:17 final size:16
Alignment explanation
Indices: 33468625--33468681 Score: 105
Period size: 16 Copynumber: 3.5 Consensus size: 16
33468615 TAGCTTCTTC
33468625 TTTTTTTTTCACGAAAT
1 TTTTTTTTTCACG-AAT
33468642 TTTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAT
33468658 TTTTTTTTTCACGAAT
1 TTTTTTTTTCACGAAT
33468674 TTTTTTTT
1 TTTTTTTT
33468682 CAACTTGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
16 27 0.68
17 13 0.32
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTTTTTTCACGAAT
Found at i:33468742 original size:11 final size:11
Alignment explanation
Indices: 33468722--33468767 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
33468712 TGGAAACCAA
33468722 ATTTTTTTTTG
1 ATTTTTTTTTG
33468733 ATTTTATTTTT-
1 ATTTT-TTTTTG
33468744 ATTTTTTTTTG
1 ATTTTTTTTTG
*
33468755 AAATTTTTTTTG
1 -ATTTTTTTTTG
33468767 A
1 A
33468768 AGAAACTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 5 0.16
11 11 0.35
12 15 0.48
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (11 bp):
ATTTTTTTTTG
Found at i:33468764 original size:22 final size:22
Alignment explanation
Indices: 33468722--33468765 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
33468712 TGGAAACCAA
*
33468722 ATTTTTTTTTGATTTTATTTTT
1 ATTTTTTTTTGAATTTATTTTT
33468744 ATTTTTTTTTGAAATTT-TTTTT
1 ATTTTTTTTTG-AATTTATTTTT
33468766 GAAGAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (22 bp):
ATTTTTTTTTGAATTTATTTTT
Found at i:33472488 original size:13 final size:13
Alignment explanation
Indices: 33472470--33472494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33472460 GACATGAACA
33472470 CATTTAATCATAT
1 CATTTAATCATAT
33472483 CATTTAATCATA
1 CATTTAATCATA
33472495 ATTAAACAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
CATTTAATCATAT
Found at i:33474577 original size:30 final size:30
Alignment explanation
Indices: 33474475--33474577 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 30
33474465 TCAAGTTAAA
*
33474475 CTAAA-ATGAGCTAAGCTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGATTTAGCTCGTGAG
* * * * * *
33474504 CTAAAGT-TAAGCTGAGATTAAACTCCTAAG
1 CTAAA-TATGAGCTAAGATTTAGCTCGTGAG
* ** *
33474534 CTGAAGCTGAGCTAAGGTTTAGCTCGTGAG
1 CTAAATATGAGCTAAGATTTAGCTCGTGAG
33474564 CTAAATATGAGCTA
1 CTAAATATGAGCTA
33474578 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 19, Indels: 5
0.68 0.25 0.07
Matches are distributed among these distances:
29 5 0.10
30 47 0.90
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (30 bp):
CTAAATATGAGCTAAGATTTAGCTCGTGAG
Found at i:33475214 original size:6 final size:5
Alignment explanation
Indices: 33475190--33475252 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
33475180 AAGGGAAAAC
*
33475190 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGA AAATGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA
33475238 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
33475253 GAGGCAAGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.08
5 25 0.50
6 20 0.40
7 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAGA
Found at i:33475220 original size:12 final size:10
Alignment explanation
Indices: 33475190--33475252 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
33475180 AAGGGAAAAC
33475190 AAAGAAAAGA
1 AAAGAAAAGA
33475200 AAAGAAAAAGCA
1 AAAG-AAAAG-A
33475212 AAAGCAAAAGA
1 AAAG-AAAAGA
*
33475223 AGA-AAAAGA
1 AAAGAAAAGA
33475232 AAATGAAATA-A
1 AAA-GAAA-AGA
33475243 AAAGAAAAGA
1 AAAGAAAAGA
33475253 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 15 0.34
12 11 0.25
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:33475356 original size:30 final size:31
Alignment explanation
Indices: 33475320--33475401 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
33475310 TTTTGAAATC
* * *
33475320 AAAAAGAAAAAGAAAAAGAAA-ATGAGATTG
1 AAAAAGAGAATGAAAAAGAAATATGAGAGTG
*
33475350 AAAAAGAGAATG-AAAAGAAATTTGAGAGTG
1 AAAAAGAGAATGAAAAAGAAATATGAGAGTG
*
33475380 AAAAAGAGGATGAAAAAGAAAT
1 AAAAAGAGAATGAAAAAGAAAT
33475402 TGAAACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.18
30 28 0.62
31 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (31 bp):
AAAAAGAGAATGAAAAAGAAATATGAGAGTG
Found at i:33475374 original size:24 final size:24
Alignment explanation
Indices: 33475325--33475371 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
33475315 AAATCAAAAA
*
33475325 GAAAAAGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAAATT
* *
33475349 GAAAAAGAGAATGAAAA-GAAATT
1 GAAAAAGAAAAAGAAAATGAAATT
33475372 TGAGAGTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAAATT
Found at i:33480837 original size:30 final size:30
Alignment explanation
Indices: 33480803--33480899 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
33480793 AGCTCACTCC
*
33480803 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * *
33480833 TAGCTCAACTTTAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
33480863 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
33480893 TAGCTCA
1 TAGCTCA
33480900 TTTTAATTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 47 0.90
31 5 0.10
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:33483265 original size:20 final size:20
Alignment explanation
Indices: 33483242--33483289 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33483232 AGCTCCGTCT
33483242 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
33483262 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
33483282 AGCTCAAC
1 AGCTCAAC
33483290 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:33489377 original size:21 final size:21
Alignment explanation
Indices: 33489351--33489394 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
33489341 TTGGTATTTG
*
33489351 GGAATTGGTTCGAAATAGTAT
1 GGAATTGGTACGAAATAGTAT
*
33489372 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATAGTAT
33489393 GG
1 GG
33489395 TATTTGGAAC
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:0.32, C:0.05, G:0.34, T:0.30
Consensus pattern (21 bp):
GGAATTGGTACGAAATAGTAT
Found at i:33489406 original size:22 final size:22
Alignment explanation
Indices: 33489361--33489418 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
33489351 GGAATTGGTT
* *
33489361 CGAAATAGTATGG-AATTGGTA
1 CGAAATGGTATGGTAATTGGAA
*
33489382 CGAAATGGTATGGTATTTGGAA
1 CGAAATGGTATGGTAATTGGAA
*
33489404 CGAATTGGTAATGGT
1 CGAAATGGT-ATGGT
33489419 TCAAAAGGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 12 0.39
22 14 0.45
23 5 0.16
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (22 bp):
CGAAATGGTATGGTAATTGGAA
Found at i:33492333 original size:12 final size:12
Alignment explanation
Indices: 33492318--33492348 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
33492308 TTCTTTTTGC
33492318 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33492330 TTTTCAAAGGCT
1 TTTTCAAAGGCT
33492342 TTTTCAA
1 TTTTCAA
33492349 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:33492406 original size:5 final size:5
Alignment explanation
Indices: 33492396--33492452 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
33492386 CTCTTGCCTC
*
33492396 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
33492443 TCTTT TCTTT
1 TCTTT TCTTT
33492453 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:33492416 original size:15 final size:14
Alignment explanation
Indices: 33492396--33492459 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
33492386 CTCTTGCCTC
33492396 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
33492411 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
33492426 TCTTTTGCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
*
33492443 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
33492457 TCT
1 TCT
33492460 CTTTACAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.24
15 9 0.21
16 15 0.36
17 8 0.19
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:33492428 original size:25 final size:25
Alignment explanation
Indices: 33492400--33492448 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
33492390 TGCCTCTCTT
33492400 TTCTTTT-TATTTCTTTTTCTTTTTC
1 TTCTTTTCTATTTC-TTTTCTTTTTC
*
33492425 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTATTTCTTTTCTTTT
33492449 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTATTTCTTTTCTTTTTC
Found at i:33492453 original size:21 final size:21
Alignment explanation
Indices: 33492396--33492463 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
33492386 CTCTTGCCTC
*
33492396 TCTTTTCTTTT-TATTTCTTTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
33492417 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
33492438 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
33492458 CTCTTT
1 -TCTTT
33492464 ACAAAAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.17
21 28 0.70
22 5 0.12
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:33496656 original size:15 final size:15
Alignment explanation
Indices: 33496636--33496686 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
33496626 CGTATCTTGA
33496636 GTTTCTTTATTCTGG
1 GTTTCTTTATTCTGG
*
33496651 GTTTCTCTA-TCTTGG
1 GTTTCTTTATTC-TGG
*
33496666 ATTTCTTTATTC-GG
1 GTTTCTTTATTCTGG
*
33496680 TTTTCTT
1 GTTTCTT
33496687 GTTATCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.33
15 18 0.60
16 2 0.07
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.61
Consensus pattern (15 bp):
GTTTCTTTATTCTGG
Found at i:33496664 original size:30 final size:29
Alignment explanation
Indices: 33496628--33496685 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
33496618 TATAGTATCG
33496628 TATCTT-GAGTTTCTTTATTCTGGGTTTCTC
1 TATCTTGGA-TTTCTTTATTC-GGGTTTCTC
*
33496658 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGGTTTCT
33496686 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 17 0.65
31 2 0.08
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.59
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGGTTTCTC
Found at i:33499971 original size:10 final size:10
Alignment explanation
Indices: 33499955--33500017 Score: 67
Period size: 11 Copynumber: 6.0 Consensus size: 10
33499945 GTAAGTTTCA
33499955 AAAAAAAATT
1 AAAAAAAATT
33499965 GAAAAAAAA-T
1 -AAAAAAAATT
33499975 AAAAAAAAGTT
1 AAAAAAAA-TT
33499986 -AAAAAAATT
1 AAAAAAAATT
33499995 AGAAAAAAACCTT
1 A-AAAAAAA--TT
33500008 AAAAAAAATT
1 AAAAAAAATT
33500018 TTTGACCATT
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
9 10 0.22
10 10 0.22
11 16 0.35
12 7 0.15
13 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:33501308 original size:30 final size:29
Alignment explanation
Indices: 33501268--33501359 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 29
33501258 TCGAGTTAAA
* *
33501268 CTAAAATGAGCTAAGCTTTAGCTCGTGAG
1 CTAAACTGAGCTAAGATTTAGCTCGTGAG
* * * * * *
33501297 CTAAAGTTGAGCTGAGATTAAACTCCTAAG
1 CTAAA-CTGAGCTAAGATTTAGCTCGTGAG
*
33501327 CTGAAACTGAGCTAAGGTTTAGCTCGTGAG
1 CT-AAACTGAGCTAAGATTTAGCTCGTGAG
33501357 CTA
1 CTA
33501360 GGAGTGAGCT
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 6 0.13
30 38 0.81
31 3 0.06
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (29 bp):
CTAAACTGAGCTAAGATTTAGCTCGTGAG
Found at i:33501719 original size:14 final size:15
Alignment explanation
Indices: 33501677--33501721 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
33501667 TTTTATTGCT
*
33501677 TCTCTTTTCTTTTGA
1 TCTCTTTTCTTTTCA
33501692 TCTCCTTTTGCTTTTCA
1 TCT-CTTTT-CTTTTCA
33501709 TCT-TTTTCTTTTC
1 TCTCTTTTCTTTTC
33501722 TCGTCTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
16 5 0.19
17 9 0.33
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.67
Consensus pattern (15 bp):
TCTCTTTTCTTTTCA
Found at i:33502422 original size:20 final size:19
Alignment explanation
Indices: 33502399--33502463 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33502389 AAGCTCAAAC
33502399 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33502419 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33502439 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33502459 GAGCT
1 GAGCT
33502464 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33504326 original size:21 final size:21
Alignment explanation
Indices: 33504297--33504352 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
33504287 CAAGCTCTCT
*
33504297 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
33504318 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
33504339 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
33504353 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:33504345 original size:14 final size:14
Alignment explanation
Indices: 33504296--33504352 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
33504286 TCAAGCTCTC
33504296 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
33504309 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
33504323 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
33504337 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
33504351 TT
1 TT
33504353 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:33504412 original size:18 final size:18
Alignment explanation
Indices: 33504314--33504451 Score: 86
Period size: 18 Copynumber: 7.6 Consensus size: 18
33504304 TCTTTTTTCG
33504314 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
33504333 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
33504353 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
33504371 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
33504389 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
33504407 CTTTTT-GTTTTC--TTT
1 CTTTTTCTTTTTCATTTT
** * *
33504422 CAATTTCTTTTTCAATCT
1 CTTTTTCTTTTTCATTTT
33504440 CTTTCTTCTTTT
1 CTTT-TTCTTTT
33504452 CTCGCTCAAT
Statistics
Matches: 90, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
15 7 0.08
16 5 0.06
17 6 0.07
18 46 0.51
19 10 0.11
20 8 0.09
21 8 0.09
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:33504434 original size:6 final size:6
Alignment explanation
Indices: 33504314--33504421 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
33504304 TCTTTTTTCG
* * * **
33504314 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
33504365 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
33504413 -GTTTT CTTT
1 CTTTTT CTTT
33504422 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:33505518 original size:12 final size:12
Alignment explanation
Indices: 33505502--33505574 Score: 76
Period size: 12 Copynumber: 5.8 Consensus size: 12
33505492 TTTTTGCTCG
33505502 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
33505514 CTTTTTTTTTGA
1 ATTTTTTTTTCA
33505526 ATTTTTTTTCAATCA
1 ATTTTTTTT---TCA
33505541 ATTTTTTTTTCGA
1 ATTTTTTTTTC-A
*
33505554 ATTTTTTTTT-G
1 ATTTTTTTTTCA
33505565 ATTTTTTTTT
1 ATTTTTTTTT
33505575 GTTACTCCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
11 10 0.19
12 20 0.38
13 11 0.21
15 11 0.21
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:33505531 original size:39 final size:39
Alignment explanation
Indices: 33505488--33505575 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 39
33505478 TTTTCTTTTC
* * *
33505488 TTTTTTTTTGCTCGATTTTTTTTTC-ACTTTTTTTTTGAA
1 TTTTTTTTTGATCAATTTTTTTTTCGAATTTTTTTTTG-A
**
33505527 TTTTTTTTCAATCAATTTTTTTTTCGAATTTTTTTTTGA
1 TTTTTTTTTGATCAATTTTTTTTTCGAATTTTTTTTTGA
33505566 TTTTTTTTTG
1 TTTTTTTTTG
33505576 TTACTCCAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 30 0.73
40 11 0.27
ACGTcount: A:0.12, C:0.08, G:0.07, T:0.73
Consensus pattern (39 bp):
TTTTTTTTTGATCAATTTTTTTTTCGAATTTTTTTTTGA
Found at i:33508893 original size:17 final size:17
Alignment explanation
Indices: 33508871--33508903 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
33508861 ATTTATGTTG
33508871 AAGTCAATT-TCAAATTC
1 AAGTC-ATTGTCAAATTC
33508888 AAGTCATTGTCAAATT
1 AAGTCATTGTCAAATT
33508904 AAAGCCACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (17 bp):
AAGTCATTGTCAAATTC
Found at i:33514122 original size:31 final size:30
Alignment explanation
Indices: 33514070--33514137 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
33514060 TACTCTATTT
33514070 TTAAATTTTTTTTTGTGTACATTATTGATA
1 TTAAATTTTTTTTTGTGTACATTATTGATA
* * * *
33514100 TTAAATTTCTTTTTTTTTTACATTATTTATT
1 TTAAATTT-TTTTTTGTGTACATTATTGATA
33514131 TTAAATT
1 TTAAATT
33514138 CATTTCTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (30 bp):
TTAAATTTTTTTTTGTGTACATTATTGATA
Found at i:33522972 original size:26 final size:25
Alignment explanation
Indices: 33522925--33522977 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
33522915 TGGCTATCCG
* *
33522925 GAGCTCCTGATTAAAGGCTCTTCGT
1 GAGCTCCTAATTAAAAGCTCTTCGT
* *
33522950 GAGCATCCTAATTAAAAGTTCTTTGT
1 GAGC-TCCTAATTAAAAGCTCTTCGT
33522976 GA
1 GA
33522978 ACTTCCTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTCCTAATTAAAAGCTCTTCGT
Found at i:33523529 original size:16 final size:16
Alignment explanation
Indices: 33523481--33523534 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
33523471 ATTTATTATT
33523481 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
33523496 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
33523511 TATTATAAGATATTTA
1 TATAATAAGATATTTA
33523527 TATAATAA
1 TATAATAA
33523535 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:33523755 original size:17 final size:17
Alignment explanation
Indices: 33523729--33523769 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
33523719 TTAACAGGGG
*
33523729 AAGG-AAAGAATGAAAGA
1 AAGGAAAAGAAAGAAA-A
33523746 AA-GAAAAGAAAGAAAA
1 AAGGAAAAGAAAGAAAA
33523762 AAGGAAAA
1 AAGGAAAA
33523770 TTGAAGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (17 bp):
AAGGAAAAGAAAGAAAA
Found at i:33525875 original size:26 final size:26
Alignment explanation
Indices: 33525835--33525894 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
33525825 AAGCTTCCTA
* *
33525835 ATAT-GCTCTTTGTGAGCTTCCCGATT
1 ATATGGCTTTTTGTGACCTTCCCG-TT
*
33525861 A-ATGGCTTTTTGTGACCTTCCTGTT
1 ATATGGCTTTTTGTGACCTTCCCGTT
33525886 ATATGGCTT
1 ATATGGCTT
33525895 GAGAGAGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (26 bp):
ATATGGCTTTTTGTGACCTTCCCGTT
Found at i:33529307 original size:25 final size:26
Alignment explanation
Indices: 33529264--33529312 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
33529254 GACGAAAATA
33529264 ATAATAATAGCAATAGTA-TAAAACG
1 ATAATAATAGCAATAGTATTAAAACG
*
33529289 ATAATAATA-CATATGGTATTAAAA
1 ATAATAATAGCA-ATAGTATTAAAA
33529313 TATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 14 0.67
26 5 0.24
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (26 bp):
ATAATAATAGCAATAGTATTAAAACG
Found at i:33529592 original size:50 final size:50
Alignment explanation
Indices: 33529538--33529636 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
33529528 GAAGGATGCA
33529538 CATATATGATATACAAATGCATTAACAAAACAATAATATCAAAGCTAATG
1 CATATATGATATACAAATGCATTAACAAAACAATAATATCAAAGCTAATG
33529588 CATATATGATATACAAATGCATTAACAAAACAATAATATCAAAGCTAAT
1 CATATATGATATACAAATGCATTAACAAAACAATAATATCAAAGCTAAT
33529637 AATAACAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (50 bp):
CATATATGATATACAAATGCATTAACAAAACAATAATATCAAAGCTAATG
Found at i:33537940 original size:18 final size:19
Alignment explanation
Indices: 33537913--33537948 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33537903 TACTCATGCT
*
33537913 GTCAATTAAAAAA-AATTG
1 GTCAACTAAAAAATAATTG
33537931 GTCAACTAAAAAATAATT
1 GTCAACTAAAAAATAATT
33537949 CCGCAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (19 bp):
GTCAACTAAAAAATAATTG
Found at i:33538345 original size:114 final size:112
Alignment explanation
Indices: 33538240--33538538 Score: 349
Period size: 112 Copynumber: 2.6 Consensus size: 112
33538230 AAGATTCTTT
* * *
33538240 AAAAACATTAATAAAACAAATTAATCAAAC-CTAAATACAAACTTAAAGCTAATAAAACACAACA
1 AAAAACATTAATAAAACAAATTAATCATACATTTAATACAAAC-TAAA-CTAATAAAACACAACA
* *
33538304 ACAGAAAATAACATTTCAAGTAAATACGAAAAACTAATATAAGATACCAC
64 ACA-AAAATAACATTCCAAGTAAATACGAAAAACTAATATAAGATACAAC
33538354 AAAAACATTAATAAAACAAATTAATCATACATTTAATACAAAACTAAA--AA-AAAA-ACAACAA
1 AAAAACATTAATAAAACAAATTAATCATACATTTAATAC-AAACTAAACTAATAAAACACAACAA
* * ***
33538415 CAAAAAATATCCTTCCCCTTAAATACGAAAAAAACTAATATAAGATACAAC
65 C-AAAAATAACATTCCAAGTAAATACG--AAAAACTAATATAAGATACAAC
* * * *
33538466 AATAACATTAATAAAACAAACTAGTCATACATTTAATACAAACCTAAATCTAATAAAACATAACA
1 AAAAACATTAATAAAACAAATTAATCATACATTTAATACAAA-CTAAA-CTAATAAAACACAACA
33538531 A-AAAAATA
64 ACAAAAATA
33538539 TTTATTTTAA
Statistics
Matches: 160, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
110 26 0.16
111 8 0.05
112 64 0.40
114 29 0.18
115 19 0.12
116 8 0.05
117 6 0.04
ACGTcount: A:0.60, C:0.16, G:0.03, T:0.21
Consensus pattern (112 bp):
AAAAACATTAATAAAACAAATTAATCATACATTTAATACAAACTAAACTAATAAAACACAACAAC
AAAAATAACATTCCAAGTAAATACGAAAAACTAATATAAGATACAAC
Found at i:33538549 original size:112 final size:108
Alignment explanation
Indices: 33538241--33538633 Score: 341
Period size: 112 Copynumber: 3.5 Consensus size: 108
33538231 AGATTCTTTA
* * * * *
33538241 AAAACATTAATAAAACAAATTAATCAAACCTAAATACAAACTTAAAGCTAATAAAACACAACAAC
1 AAAACATTAATAAAACAAACTAATCATACTTTAATACAAACCTAAA-CTAATAAAACACAACAA-
* *
33538306 AGAAAATAACATTTCAAGTAAATACG-AAAAACTAATATAAGATACCAC
64 A-AAAAT---ATTTCAATTAAATACGAAAAAACTAATATAAGATACAAC
* * *
33538354 AAAAACATTAATAAAACAAATTAATCATACATTTAATACAAAACTAAA--AAAAAAACAACAAC-
1 -AAAACATTAATAAAACAAACTAATCATAC-TTTAATACAAACCTAAACTAATAAAAC-ACAACA
**
33538416 AAAAAATATCCTTCCCCTTAAATACGAAAAAAACTAATATAAGATACAAC
63 AAAAAATAT--TT-CAATTAAATACG-AAAAAACTAATATAAGATACAAC
* *
33538466 AATAACATTAATAAAACAAACTAGTCATACATTTAATACAAACCTAAATCTAATAAAACATAACA
1 AA-AACATTAATAAAACAAACTAATCATAC-TTTAATACAAACCTAAA-CTAATAAAACACAACA
* * * *
33538531 AAAAAATATTT-ATTTTAAATA-TAAAAAACTATTATAAAATATCATA-
63 AAAAAATATTTCA-ATTAAATACGAAAAAACTAATATAAGATA-CA-AC
* * * * *
33538577 AAAACAATAATAAAACACACAAATCATACTTCTAATATAAACTTAAACTTAATAAAA
1 AAAACATTAATAAAACAAACTAATCATACTT-TAATACAAACCTAAAC-TAATAAAA
33538634 TATATAAAAA
Statistics
Matches: 236, Mismatches: 26, Indels: 38
0.79 0.09 0.13
Matches are distributed among these distances:
107 2 0.01
109 5 0.02
110 75 0.32
111 7 0.03
112 79 0.33
113 7 0.03
114 32 0.14
115 29 0.12
ACGTcount: A:0.59, C:0.15, G:0.02, T:0.23
Consensus pattern (108 bp):
AAAACATTAATAAAACAAACTAATCATACTTTAATACAAACCTAAACTAATAAAACACAACAAAA
AAATATTTCAATTAAATACGAAAAAACTAATATAAGATACAAC
Found at i:33538579 original size:22 final size:20
Alignment explanation
Indices: 33538547--33538591 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
33538537 TATTTATTTT
* *
33538547 AAATATAAAAAACTATTATA
1 AAATATAAAAAACAATAATA
33538567 AAATATCATAAAAACAATAATA
1 AAATAT-A-AAAAACAATAATA
33538589 AAA
1 AAA
33538592 CACACAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATATAAAAAACAATAATA
Found at i:33549111 original size:26 final size:26
Alignment explanation
Indices: 33549082--33549141 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
33549072 TCCCTTTGAA
* * *
33549082 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
33549108 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
33549136 CCATTC
1 TCATTC
33549142 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:33549127 original size:28 final size:28
Alignment explanation
Indices: 33549096--33549167 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
33549086 TCGATATTTT
*
33549096 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
33549124 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
33549152 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
33549168 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:33555263 original size:23 final size:22
Alignment explanation
Indices: 33555217--33555263 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
33555207 ATTTTTAAAA
*
33555217 TTTTTAAAATAAAAAATTAATT
1 TTTTTAAAATAAAAAATCAATT
*
33555239 TTTTTAAAAATATAAAATC-ATT
1 TTTTT-AAAATAAAAAATCAATT
33555261 TTT
1 TTT
33555264 AAAAAGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTTAAAATAAAAAATCAATT
Found at i:33555306 original size:30 final size:29
Alignment explanation
Indices: 33555241--33555307 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
33555231 AATTAATTTT
33555241 TTTAAAAATATAAAATCATTTTTAAAAAG
1 TTTAAAAATATAAAATCATTTTTAAAAAG
* *
33555270 TGTAAAAATTATAAACAT-ATATTTTTAAAA-
1 TTTAAAAA-TATAAA-ATCAT-TTTTAAAAAG
33555300 TTTAAAAA
1 TTTAAAAA
33555308 AAATCAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 7 0.22
30 15 0.47
31 10 0.31
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTAAAAATATAAAATCATTTTTAAAAAG
Found at i:33564881 original size:21 final size:21
Alignment explanation
Indices: 33564857--33564954 Score: 60
Period size: 20 Copynumber: 4.8 Consensus size: 21
33564847 ATATTGGTTC
*
33564857 TTAATTTATTATACT-TATTTT
1 TTAATTTATTA-ACTATATATT
*
33564878 TTAATTCATTAACTAATATATT
1 TTAATTTATTAACT-ATATATT
* **
33564900 TTATTTTATTAAAAAT-TA-T
1 TTAATTTATTAACTATATATT
* *
33564919 TTAAATTATTAAATATA-ATT
1 TTAATTTATTAACTATATATT
** *
33564939 AAAATGTATTAACTAT
1 TTAATTTATTAACTAT
33564955 TTTGATAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
19 15 0.25
20 17 0.29
21 12 0.20
22 15 0.25
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (21 bp):
TTAATTTATTAACTATATATT
Found at i:33564927 original size:19 final size:19
Alignment explanation
Indices: 33564905--33564950 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33564895 ATATTTTATT
* *
33564905 TTATTAAAAATTATTTAAA
1 TTATTAAAAATAATTAAAA
*
33564924 TTATTAAATATAATTAAAA
1 TTATTAAAAATAATTAAAA
33564943 TGTATTAA
1 T-TATTAA
33564951 CTATTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTATTAAAAATAATTAAAA
Found at i:33595450 original size:20 final size:20
Alignment explanation
Indices: 33595425--33595487 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
33595415 TTACCAAAAA
*
33595425 AAAAAACATGAGGGATTACC
1 AAAAAACATGAGGAATTACC
* * *
33595445 AAAAAAGATGAGAAAATACC
1 AAAAAACATGAGGAATTACC
**
33595465 AAAAATTATGAGGAATTACC
1 AAAAAACATGAGGAATTACC
33595485 AAA
1 AAA
33595488 TAAAAGATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAAAACATGAGGAATTACC
Found at i:33596132 original size:20 final size:19
Alignment explanation
Indices: 33596109--33596160 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
33596099 CATATTACTA
33596109 GAAAACATGAGAG-GATACC
1 GAAAACATGAGAGTG-TACC
* *
33596128 TGAAAATAAGAGAGTGTACC
1 -GAAAACATGAGAGTGTACC
33596148 GAAAAACATGAGA
1 G-AAAACATGAGA
33596161 TATACCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAAACATGAGAGTGTACC
Found at i:33596506 original size:21 final size:20
Alignment explanation
Indices: 33596440--33596506 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
33596430 TGAGCAAATG
*
33596440 CCAAAAAT-TGTGAGGGATTA
1 CCAAAAATATGT-AAGGATTA
* *
33596460 CCATAAAATATG-AAGAAATA
1 CCA-AAAATATGTAAGGATTA
33596480 -CAAAAATATGTAATGGATTA
1 CCAAAAATATGTAA-GGATTA
33596500 CCAAAAA
1 CCAAAAA
33596507 ACATGAGGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
18 8 0.22
19 4 0.11
20 12 0.32
21 11 0.30
22 2 0.05
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.22
Consensus pattern (20 bp):
CCAAAAATATGTAAGGATTA
Found at i:33596687 original size:7 final size:7
Alignment explanation
Indices: 33596675--33596699 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33596665 ATATTGTGTC
33596675 TAAAGGT
1 TAAAGGT
33596682 TAAAGGT
1 TAAAGGT
33596689 TAAAGGT
1 TAAAGGT
33596696 TAAA
1 TAAA
33596700 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (7 bp):
TAAAGGT
Found at i:33598207 original size:43 final size:43
Alignment explanation
Indices: 33598158--33598249 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
33598148 ATTAGATATT
33598158 ATAATAGGAAATTGGGTTATTGGAGACATAATGAATTAAAGAA
1 ATAATAGGAAATTGGGTTATTGGAGACATAATGAATTAAAGAA
33598201 ATAATAGGAAATTGGGTTATTGGAGACATAATGAATTAAAGAA
1 ATAATAGGAAATTGGGTTATTGGAGACATAATGAATTAAAGAA
*
33598244 AGAATA
1 ATAATA
33598250 AAAAAAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (43 bp):
ATAATAGGAAATTGGGTTATTGGAGACATAATGAATTAAAGAA
Found at i:33598742 original size:40 final size:40
Alignment explanation
Indices: 33598691--33598835 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
33598681 CATTTGAATG
* *
33598691 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
33598731 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
33598771 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
33598811 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
33598836 ATTGAGCTTG
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:33598825 original size:80 final size:80
Alignment explanation
Indices: 33598691--33598839 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 80
33598681 CATTTGAATG
* * * *
33598691 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCA
33598756 ATTGTGCAAGTTGAT
66 ATTGTGCAAGTTGAT
* * *
33598771 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCA
33598836 ATTG
66 ATTG
33598840 AGCTTGTGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAGTTGAT
Found at i:33598854 original size:80 final size:80
Alignment explanation
Indices: 33598691--33598862 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 80
33598681 CATTTGAATG
* * * *
33598691 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCA
* *
33598756 ATTGTGCAAGTTGAT
66 ATTGAGCAAGTGGAT
* * *
33598771 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCA
** *
33598836 ATTGAGCTTGTGGTT
66 ATTGAGCAAGTGGAT
33598851 ATATCC-GGCTAA
1 ATATCCGGGCTAA
33598863 ATTCCGAAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 6 0.08
80 74 0.93
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAAGGCA
ATTGAGCAAGTGGAT
Found at i:33609061 original size:22 final size:22
Alignment explanation
Indices: 33609036--33609077 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33609026 AATTTAGCCA
* *
33609036 TTTTTTATTTTTATTTTAATAT
1 TTTTTTATTTTAAATTTAATAT
*
33609058 TTTTTTGTTTTAAATTTAAT
1 TTTTTTATTTTAAATTTAAT
33609078 TGTTACATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTATTTTAAATTTAATAT
Found at i:33612921 original size:3 final size:3
Alignment explanation
Indices: 33612901--33613045 Score: 95
Period size: 3 Copynumber: 48.7 Consensus size: 3
33612891 TATTACGTTG
*
33612901 TTA TTA -TA TTCA TT- TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
33612945 TTA TTA TTA TTA TTA GTA TTA GTA GTG TTG TTT TTA TT- TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * *
33612990 CTA TTA TTA TTA GTA TTG TGT- TTA TTA TGT- TTC TTA -TA TTTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA TTA
*
33613035 TTA TTA CTA TT
1 TTA TTA TTA TT
33613046 GTTAATCTTA
Statistics
Matches: 114, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
2 9 0.08
3 97 0.85
4 8 0.07
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:33614627 original size:21 final size:20
Alignment explanation
Indices: 33614592--33614632 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
33614582 TCAACCACTG
33614592 ATTTATTTTAGTTTTCTATTT
1 ATTTATTTTAGTTTT-TATTT
33614613 ATTTATTTTTA-TTTTTATTT
1 ATTTA-TTTTAGTTTTTATTT
33614633 CCAATTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTATTTTAGTTTTTATTT
Found at i:33625319 original size:25 final size:25
Alignment explanation
Indices: 33625256--33625313 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
33625246 TATGTGGTGG
33625256 CTTTGTGGAAAATTCTCTAAAAAGC
1 CTTTGTGGAAAATTCTCTAAAAAGC
* * *
33625281 TTTTATGGCAAATTCTCTAAAAAGC
1 CTTTGTGGAAAATTCTCTAAAAAGC
33625306 CTTTGTGG
1 CTTTGTGG
33625314 TGAATTATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (25 bp):
CTTTGTGGAAAATTCTCTAAAAAGC
Found at i:33625776 original size:62 final size:62
Alignment explanation
Indices: 33625679--33625803 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
33625669 TGTAACCAAA
*
33625679 TTCTATCTTCAAAAGGGATTGTGATATAGGATTTGCATTATGGTGTGAAGCTTGTGAACCGC
1 TTCTATCTTCAAAAGGGATTGTGATATAGGATTTGCATTATGGTGTGAAGCTTGTAAACCGC
33625741 TTCTATCTTCAAAAGGGATTGTGATATAGGATTTGCATTATGGTGTGAAGCTTGTAAACCGC
1 TTCTATCTTCAAAAGGGATTGTGATATAGGATTTGCATTATGGTGTGAAGCTTGTAAACCGC
33625803 T
1 T
33625804 CATGGGGCGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (62 bp):
TTCTATCTTCAAAAGGGATTGTGATATAGGATTTGCATTATGGTGTGAAGCTTGTAAACCGC
Found at i:33627747 original size:25 final size:25
Alignment explanation
Indices: 33627709--33627792 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
33627699 TTTATGTGGT
33627709 GCCTTTGTGACAAATTCTCTAAAAA
1 GCCTTTGTGACAAATTCTCTAAAAA
* *
33627734 GCTTTTGTGGCAAATTCTCTAAAAA
1 GCCTTTGTGACAAATTCTCTAAAAA
*
33627759 GCCTTTGTGATAAACTT-TCTAAAAA
1 GCCTTTGTGACAAA-TTCTCTAAAAA
33627784 GCCTTTGTG
1 GCCTTTGTG
33627793 GTGAATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
25 51 0.96
26 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (25 bp):
GCCTTTGTGACAAATTCTCTAAAAA
Found at i:33630682 original size:41 final size:41
Alignment explanation
Indices: 33630625--33630707 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
33630615 ACCCAAACTG
33630625 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
1 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
33630666 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
1 ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
33630707 A
1 A
33630708 ATTAATATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (41 bp):
ATTATCATAAGTACATTTCCCCATTCAATCAGTCATATTAT
Found at i:33637262 original size:22 final size:22
Alignment explanation
Indices: 33637237--33637279 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33637227 TATCCTAACA
33637237 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAATAGTAGCAAT
* * *
33637259 ATAATAGCGAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
33637280 AATAGTGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAT
Found at i:33637290 original size:11 final size:11
Alignment explanation
Indices: 33637244--33637292 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
33637234 ACAATAATAA
33637244 CAAAATAGTAG
1 CAAAATAGTAG
* *
33637255 CAATATAATAG
1 CAAAATAGTAG
* *
33637266 CGAAATGGTAG
1 CAAAATAGTAG
*
33637277 CAAAATAGTGG
1 CAAAATAGTAG
33637288 CAAAA
1 CAAAA
33637293 CAACTGATTC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.18
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:33639279 original size:48 final size:46
Alignment explanation
Indices: 33639172--33639303 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 46
33639162 AGTGATAATT
*
33639172 TTAAATTTCAATACTATTCGATATTTTTTAATTTATGAAAATTTAA
1 TTAAATTTCAATACTATTTGATATTTTTTAATTTATGAAAATTTAA
* *
33639218 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATG-CAATTATAA
1 TTAAATTT-CAATACTATTTGATATTTT-TTAATTTATGAAAATT-TAA
* *
33639266 TTAAAATTTCAATACTACTTGAT-TTTTTTTATTTATGA
1 TT-AAATTTCAATACTATTTGATATTTTTTAATTTATGA
33639304 TGTTTGCATT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
46 17 0.22
47 26 0.34
48 27 0.36
49 6 0.08
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (46 bp):
TTAAATTTCAATACTATTTGATATTTTTTAATTTATGAAAATTTAA
Found at i:33640295 original size:7 final size:7
Alignment explanation
Indices: 33640283--33640315 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
33640273 TAGTCGTTTC
33640283 GTATTTA
1 GTATTTA
33640290 GTATTTA
1 GTATTTA
33640297 GTATTTA
1 GTATTTA
33640304 GTATTTA
1 GTATTTA
33640311 GTATT
1 GTATT
33640316 ATGTATTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:33640952 original size:18 final size:18
Alignment explanation
Indices: 33640912--33640946 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33640902 CTAGGTGCGT
*
33640912 ATCCTAGCCCTTATATGC
1 ATCCTAACCCTTATATGC
33640930 ATCCTAACCCTTATATG
1 ATCCTAACCCTTATATG
33640947 TTTCCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
ATCCTAACCCTTATATGC
Found at i:33644265 original size:37 final size:37
Alignment explanation
Indices: 33644207--33644282 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
33644197 TTACGAAGTG
* * *
33644207 TTACCCGGACATAATCTCCACACGAAGTTATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
*
33644244 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTC
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
33644281 TT
1 TT
33644283 TAGAGCTCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTC
Found at i:33644527 original size:47 final size:47
Alignment explanation
Indices: 33644401--33645795 Score: 2439
Period size: 47 Copynumber: 29.1 Consensus size: 47
33644391 CCCTTCGGGA
* * * * * *
33644401 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33644448 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644497 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644544 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644638 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644685 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644732 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644826 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644873 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644920 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33644967 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645061 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645108 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645155 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645202 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645249 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645296 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645343 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645393 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645443 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645493 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645543 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645593 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645643 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
33645693 CTTATCACATATATATACACTTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
* *
33645743 ATTATCACATATATATACTCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33645792 CTTA
1 CTTA
33645796 CTATCATTTC
Statistics
Matches: 1328, Mismatches: 15, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 851 0.64
49 80 0.06
50 397 0.30
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33648836 original size:125 final size:126
Alignment explanation
Indices: 33648461--33648963 Score: 717
Period size: 126 Copynumber: 4.0 Consensus size: 126
33648451 TTATAGCCTA
* *
33648461 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * ** *
33648526 ATAGTG---CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * *
33648584 ATTTTTCTAGGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* ** *
33648649 ACAGTGTATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* * * *
33648710 ATTTTTCTACGAACTACTATAACAAAAGAGCATCTAC-TGGGAGCGTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * * * *
33648774 ATAATGCATCCTACTTGAAGCGTTTTTGACATTATTTGTTCAAAAACATCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
* *
33648835 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
33648900 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
33648961 ATT
1 ATT
33648964 CTTGCAGAAA
Statistics
Matches: 338, Mismatches: 38, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
123 66 0.20
125 108 0.32
126 164 0.49
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAGAATT
Found at i:33648904 original size:251 final size:249
Alignment explanation
Indices: 33648461--33648963 Score: 765
Period size: 251 Copynumber: 2.0 Consensus size: 249
33648451 TTATAGCCTA
* * * *
33648461 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTATAACAAAAGAGCATCCACGTAGGAGCGTTTTTCAGAAATTTTGCTG
* * * ** *
33648526 ATAGTGCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAAATGTCTACTTAGAATTATTTTTC
66 ATAATGCCTACTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTACTCAGAATTATTTTTC
** * * *
33648591 TAGGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGTTGACAGTGT
131 TACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAGTGC
** * *
33648656 ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTTAGAATT
196 ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
* *
33648710 ATTTTTCTACGAACTACTATAACAAAAGAGCATCTAC-TGGGAGCGTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAACAAAAGAGCATCCACGTAGGAGCGTTTTTCAGAAATTTTGCTG
* *
33648774 ATAATGCATCCTACTTGAAGCGTTTTTGACATTATTTGTTCAAAAACATCTACTCAGAATTATTT
66 ATAATG---CCTACTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTACTCAGAATTATTT
33648839 TTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAG
128 TTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAG
33648904 TGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
193 TGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
33648961 ATT
1 ATT
33648964 CTTGCAGAAA
Statistics
Matches: 228, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
248 29 0.13
249 34 0.15
251 165 0.72
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (249 bp):
ATTTTTCTACGAACTACTATAACAAAAGAGCATCCACGTAGGAGCGTTTTTCAGAAATTTTGCTG
ATAATGCCTACTTGAAGCATTTTTGACACTATTTGTTCAAAAACATCTACTCAGAATTATTTTTC
TACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
Found at i:33649560 original size:16 final size:16
Alignment explanation
Indices: 33649539--33649570 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33649529 AATTAATTAA
33649539 CCCTAATTTAATCAAT
1 CCCTAATTTAATCAAT
33649555 CCCTAATTTAATCAAT
1 CCCTAATTTAATCAAT
33649571 TAACCCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
CCCTAATTTAATCAAT
Found at i:33649563 original size:35 final size:38
Alignment explanation
Indices: 33649491--33649580 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 38
33649481 ACGATTATGT
*
33649491 ATCAATTAACCCTAAATTAATCAATTAACCCTAAATTTA
1 ATCAATTAACCCTAATTTAATCAATT-ACCCTAAATTTA
*
33649530 ATTAATTAACCCTAATTTAATCAA-T-CCCT-AATTTA
1 ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
33649565 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
33649581 ACCCTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 21 0.44
36 4 0.08
38 1 0.02
39 22 0.46
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (38 bp):
ATCAATTAACCCTAATTTAATCAATTACCCTAAATTTA
Found at i:33649580 original size:19 final size:19
Alignment explanation
Indices: 33649491--33649580 Score: 132
Period size: 19 Copynumber: 4.8 Consensus size: 19
33649481 ACGATTATGT
*
33649491 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
33649510 ATCAATTAACCCTAAATTTA
1 ATCAATTAACCCT-AATTTA
*
33649530 ATTAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
33649549 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
33649565 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
33649581 ACCCTAAACT
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.23
17 1 0.02
18 1 0.02
19 30 0.47
20 17 0.27
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:33649700 original size:17 final size:17
Alignment explanation
Indices: 33649678--33649716 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
33649668 ATTCTAAACT
*
33649678 TTAAAAAAATCCTAACC
1 TTAAAAAAATCATAACC
33649695 TTAAAAAAATCATAACC
1 TTAAAAAAATCATAACC
*
33649712 CTAAA
1 TTAAA
33649717 TCAATTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (17 bp):
TTAAAAAAATCATAACC
Found at i:33650348 original size:20 final size:19
Alignment explanation
Indices: 33650323--33650376 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
33650313 AATATTTGAA
*
33650323 AATTTAACATAAATTTTGT
1 AATTTAACATAAATTTTAT
*
33650342 AATTTTAAC-TATATTTTAT
1 AA-TTTAACATAAATTTTAT
* *
33650361 TATTTAATATAAATTT
1 AATTTAACATAAATTT
33650377 ATTACTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 5 0.18
19 17 0.61
20 6 0.21
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTAACATAAATTTTAT
Found at i:33650735 original size:3 final size:3
Alignment explanation
Indices: 33650727--33651500 Score: 1548
Period size: 3 Copynumber: 258.0 Consensus size: 3
33650717 ACCATGAAGG
33650727 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33650775 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33650823 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33650871 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33650919 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33650967 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651015 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651063 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651111 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651159 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651207 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651255 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651303 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651351 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651399 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651447 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
33651495 GAA GAA
1 GAA GAA
33651501 ATGGGCTACC
Statistics
Matches: 771, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 771 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:33656384 original size:43 final size:42
Alignment explanation
Indices: 33656318--33656851 Score: 411
Period size: 43 Copynumber: 12.6 Consensus size: 42
33656308 TATGCTTCAG
* *
33656318 TTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTACTTCGA
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * * ***
33656361 TTTATTCGATGATGCGCTTTGTGTGCCAGTATAGTTGCTTTTC
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * * * * * *
33656404 TTTCTTCGATGATGCATTATGTGTGTCAGTATAGTTACTTGGG
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * * *
33656447 TTTATCCAATGAAGCACTGTGTGT--CAGTATAGTTATTTTGA
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
** * * *
33656488 TTTATTTGTTGATGCACTGTGTGTGCCAGCATAGTTACTTCAAA
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTC-GA
* *
33656532 TTT-TCTGATGATGCAC--TGTGTGCCAGTATAATTACTTCGA
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * *
33656572 TTTATCCGTTGATGCATTGTGTGTGCCAGTATAGTTACTTCGG
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * * * *
33656615 TTTCTCCAATGGTGCATCGTGTGTGCCAGTATAATTACTTCGA
1 TTTATCCGATGATGCCT-GTGTGTGCCAGTATAGTTACTTCGA
* * *
33656658 TTTATCCGTTGATGCATTGTGTGTGCCAGTATAGTTACTTCGG
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * * * *
33656701 TTTCTCCAATGGTGCATCGTGTGTGCCAGTATAATTACTTCGA
1 TTTATCCGATGATGCCT-GTGTGTGCCAGTATAGTTACTTCGA
* *
33656744 TTTATCTGATGATGCACTGTGTGTGCCAGTATAGTTA--T-GG
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* * * * *
33656784 TTTCTCTGATGATGCACTGTGTGTGTCAATATAGTTGCTTCGA
1 TTTATCCGATGATGC-CTGTGTGTGCCAGTATAGTTACTTCGA
* *
33656827 TATAT-CGAATGATGCGCTGCGTGTG
1 TTTATCCG-ATGATGC-CTGTGTGTG
33656852 TTCTAAAAAT
Statistics
Matches: 393, Mismatches: 84, Indels: 28
0.78 0.17 0.06
Matches are distributed among these distances:
40 38 0.10
41 64 0.16
42 4 0.01
43 281 0.72
44 6 0.02
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (42 bp):
TTTATCCGATGATGCCTGTGTGTGCCAGTATAGTTACTTCGA
Found at i:33656512 original size:84 final size:85
Alignment explanation
Indices: 33656318--33656832 Score: 511
Period size: 86 Copynumber: 6.1 Consensus size: 85
33656308 TATGCTTCAG
** * * * * * *
33656318 TTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTACTTCGATTTATTCGATGATGCGCTTTGT
1 TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCAATGATGCAC-GTGT
* * ***
33656383 GTGCCAGTATAGTTGCTTTTC
65 GTGCCAGTATAATTACTTCGA
* * * * * * * *
33656404 TTTCTTCGATGATGCATTATGTGTGTCAGTATAGTTACTTGGGTTTATCCAATGAAGCAC-TGTG
1 TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCAATGATGCACGTGTG
* * * *
33656468 TGTCAGTATAGTTATTTTGA
66 TGCCAGTATAATTACTTCGA
** * ** **
33656488 TTTATTTGTTGATGCACTGTGTGTGCCAGCATAGTTACTTCAAATTT-TCTGATGATGCAC-TGT
1 TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTC-GGTTTATCCAATGATGCACGTGT
33656551 GTGCCAGTATAATTACTTCGA
65 GTGCCAGTATAATTACTTCGA
* * *
33656572 TTTATCCGTTGATGCATTGTGTGTGCCAGTATAGTTACTTCGGTTTCTCCAATGGTGCATCGTGT
1 TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCAATGATGCA-CGTGT
33656637 GTGCCAGTATAATTACTTCGA
65 GTGCCAGTATAATTACTTCGA
* * *
33656658 TTTATCCGTTGATGCATTGTGTGTGCCAGTATAGTTACTTCGGTTTCTCCAATGGTGCATCGTGT
1 TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCAATGATGCA-CGTGT
33656723 GTGCCAGTATAATTACTTCGA
65 GTGCCAGTATAATTACTTCGA
* * * **
33656744 TTTATCTGATGATGCACTGTGTGTGCCAGTATAGTTA--T-GGTTTCTCTGATGATGCACTGTGT
1 TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCAATGATGCAC-GTGT
* * * *
33656806 GTGTCAATATAGTTGCTTCGA
65 GTGCCAGTATAATTACTTCGA
*
33656827 TATATC
1 TTTATC
33656833 GAATGATGCG
Statistics
Matches: 369, Mismatches: 55, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
82 1 0.00
83 44 0.12
84 129 0.35
85 4 0.01
86 191 0.52
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (85 bp):
TTTATCCGTTGATGCACTGTGTGTGCCAGTATAGTTACTTCGGTTTATCCAATGATGCACGTGTG
TGCCAGTATAATTACTTCGA
Found at i:33661752 original size:26 final size:26
Alignment explanation
Indices: 33661703--33661929 Score: 231
Period size: 26 Copynumber: 8.7 Consensus size: 26
33661693 ACGGAGTTTT
* *
33661703 CCACAAAGGCATTCCTTTCATATTCCA
1 CCACAAAGG-ATTTCTTTCATATTACA
*
33661730 CCACAAAGGATTTCTTTCCTATTACA
1 CCACAAAGGATTTCTTTCATATTACA
* * * *
33661756 CAACAAAGGCTTTCTTTCATAATACG
1 CCACAAAGGATTTCTTTCATATTACA
* *
33661782 CCATAAAGGCTTTCTTTCATATTACA
1 CCACAAAGGATTTCTTTCATATTACA
* *
33661808 CCTCAAAGGTTTTCTTTCATATTACA
1 CCACAAAGGATTTCTTTCATATTACA
* * *
33661834 CCACAAACGCTTTCTTTCATATTATA
1 CCACAAAGGATTTCTTTCATATTACA
* *
33661860 CCACAAA-GACTTTCTTTTATTTTACA
1 CCACAAAGGA-TTTCTTTCATATTACA
* * **
33661886 CCATAAAGAATTTCTTTCATATTATG
1 CCACAAAGGATTTCTTTCATATTACA
* *
33661912 CCACAAAGGTTTTGTTTC
1 CCACAAAGGATTTCTTTC
33661930 TTGACTTGTT
Statistics
Matches: 165, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
25 1 0.01
26 154 0.93
27 10 0.06
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (26 bp):
CCACAAAGGATTTCTTTCATATTACA
Found at i:33663760 original size:46 final size:46
Alignment explanation
Indices: 33663709--33663867 Score: 121
Period size: 46 Copynumber: 3.4 Consensus size: 46
33663699 GTCGATGCAA
*
33663709 GTCCCAGACATGTCTTACACAGGCT-TACATCTCGAGGCCG-GCACAT
1 GTCCCAGACATGTCTTACACAGGCTGT-CATCTCAAGGCCGAGC-CAT
* * *
33663755 GTCCCAAACATGTCATACACTA-GCTGTCATCTCAATGCCGATGCCAT
1 GTCCCAGACATGTCTTACAC-AGGCTGTCATCTCAAGGCCGA-GCCAT
* * * * **
33663802 GTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG-CAT
1 GTCCCAGACAT-GTCTTACACAGGCTGTCAT-CTCAAGGCCGA-GCCAT
*
33663849 GTGCCAGACATGTCTTACA
1 GTCCCAGACATGTCTTACA
33663868 GTAGCACACA
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
46 40 0.44
47 26 0.29
48 24 0.26
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GTCCCAGACATGTCTTACACAGGCTGTCATCTCAAGGCCGAGCCAT
Found at i:33666681 original size:18 final size:18
Alignment explanation
Indices: 33666658--33666692 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33666648 TCCCTGGGTG
*
33666658 ATAGTCTATTATTAACTT
1 ATAGTCTATTATCAACTT
*
33666676 ATAGTCTTTTATCAACT
1 ATAGTCTATTATCAACT
33666693 CCAAACATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (18 bp):
ATAGTCTATTATCAACTT
Found at i:33670607 original size:47 final size:47
Alignment explanation
Indices: 33670538--33670795 Score: 233
Period size: 47 Copynumber: 5.5 Consensus size: 47
33670528 TACCGATGCT
* * **
33670538 ATGTCCCAGACACGGTATTACACTGACTTACATCTCAAGTTGAAGCC
1 ATGTCCCAGACATGGTCTTACACTGACTTACATCTCAAGCCGAAGCC
* * *
33670585 ATGTCCTAGACATGGTCTTACACTGACTTACGTCTCAAGTCGAAGCC
1 ATGTCCCAGACATGGTCTTACACTGACTTACATCTCAAGCCGAAGCC
* * * * *
33670632 ATGTCCTAAACATGGTCTTATACTGAC-TATCATCTCGTAGCCGACG-C
1 ATGTCCCAGACATGGTCTTACACTGACTTA-CATCTC-AAGCCGAAGCC
* * * * * *
33670679 ATGTCCCAGACAT-TTCTTACACTGGCTTACGTCTCGAGGCGGATG-C
1 ATGTCCCAGACATGGTCTTACACTGACTTACATCTC-AAGCCGAAGCC
* *
33670725 ATGTCCCAGACAT-GTCTTACACTAGCAC-T-CATCTCAATGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACT-G-ACTTACATCTCAA-GCCGAAGCC
33670772 ATGTCCCAGACATGGTCTTACACT
1 ATGTCCCAGACATGGTCTTACACT
33670796 AGCTCTCACA
Statistics
Matches: 177, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 57 0.32
47 102 0.58
48 17 0.10
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGTCCCAGACATGGTCTTACACTGACTTACATCTCAAGCCGAAGCC
Found at i:33670738 original size:93 final size:93
Alignment explanation
Indices: 33670531--33670795 Score: 263
Period size: 94 Copynumber: 2.8 Consensus size: 93
33670521 GGTAAGGTAC
* * ** *
33670531 CGATGCTATGTCCCAGACACGGTATTACACTGACTTACATCTCAAGTTGAAGCCATGTCCTAGAC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGACTTACATCTCAAGCCGAAGCCATGTCCCAGAC
*
33670596 ATGGTCTTACACTGACTTACGTCTCAAGT
65 ATGGTCTTACACTGACTTACGTCTCAAGG
* * * * * *
33670625 CGAAGCCATGTCCTAAACATGGTCTTATACTGAC-TATCATCTCGTAGCCGACG-CATGTCCCAG
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTTA-CATCTC-AAGCCGAAGCCATGTCCCAG
* * *
33670688 ACAT-TTCTTACACTGGCTTACGTCTCGAGG
63 ACATGGTCTTACACTGACTTACGTCTCAAGG
* *
33670718 CGGATGCATGTCCCAGACAT-GTCTTACACTAGCAC-T-CATCTCAATGCTGATGCCATGTCCCA
1 C-GATGCATGTCCCAGACATGGTCTTACACT-G-ACTTACATCTCAA-GCCGAAGCCATGTCCCA
33670780 GACATGGTCTTACACT
62 GACATGGTCTTACACT
33670796 AGCTCTCACA
Statistics
Matches: 139, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
91 1 0.01
92 20 0.14
93 52 0.37
94 60 0.43
95 6 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACTTACATCTCAAGCCGAAGCCATGTCCCAGACA
TGGTCTTACACTGACTTACGTCTCAAGG
Found at i:33676666 original size:50 final size:47
Alignment explanation
Indices: 33676535--33676757 Score: 158
Period size: 47 Copynumber: 4.7 Consensus size: 47
33676525 ATAGGGTATA
* * *
33676535 GTGTCGATGCCATGTCCCAGACATGGTCTTGCATTGGCTCATCCATC
1 GTGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATC
** * *
33676582 AAGTCGATGCCATGTCCCAGACATGGT-TTCACACTGACTCTTACATATCC
1 GTGTCGATGCCATGTCCCAGACATGGTCTT-ACACTGACTCAT-C-CAT-C
* * * * *
33676632 GTGTCGATGCCATGTCCCAAACATGGTCTTACACTTACACAT--TTT
1 GTGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATC
* *
33676677 GTAGCCTATG-CATGTCCCAGACAT-GTCTTACACATG-CTTACAT-C-TC
1 GT-GTCGATGCCATGTCCCAGACATGGTCTTACAC-TGAC-T-CATCCATC
* *
33676723 GAGGCCGATGCCATGTCCCAGACAT-GTCTTACACT
1 G-TGTCGATGCCATGTCCCAGACATGGTCTTACACT
33676758 AGCACACAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 20 0.14
47 56 0.40
48 1 0.01
49 2 0.01
50 34 0.24
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
GTGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATC
Found at i:33679094 original size:46 final size:46
Alignment explanation
Indices: 33678996--33679215 Score: 153
Period size: 46 Copynumber: 4.7 Consensus size: 46
33678986 TGTGAGAGCT
* * * * *
33678996 AGTGAAAGACCATGTCTGGGACATGGCATAGGCATTGAGATG--AGTCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAAG-CC
* *
33679043 TAGTGTAAGACGTGTTTGGGACATGCATCGACCTCGAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAAGCC
* * * *
33679090 AGTGTAAGACATGTCTGGGACATGCGTTG-GCTACGAGATG-ATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGTA-AGCC
* * * *
33679136 AGTGTAAGACCATGTCTGGGACATGGCTTCGA-CTTGAGATATAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAAGCC
* * *
33679183 AGTGTAAGACTGTGTCTGAGACACGACATCGAC
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCGAC
33679216 ATCGTACCCC
Statistics
Matches: 138, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
45 3 0.02
46 59 0.43
47 59 0.43
48 17 0.12
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGTAAGCC
Found at i:33679175 original size:47 final size:47
Alignment explanation
Indices: 33678994--33679215 Score: 163
Period size: 47 Copynumber: 4.7 Consensus size: 47
33678984 TTTGTGAGAG
* * * *
33678994 CTAGTGAAAGACCATGTCTGGGACATGGCATAGGCATTGAGATG--AGT
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TCGAGATGTAAGT
* *
33679041 CCTAGTGTAAGA-CGTGTTTGGGACATGCATCGACCTCGAGATGTAAG-
1 -CTAGTGTAAGACCATGTCTGGGACATGCATCGA-CTCGAGATGTAAGT
* * * *
33679088 CCAGTGTAAGA-CATGTCTGGGACATGCGTTGGCTACGAGATG-ATAGT
1 CTAGTGTAAGACCATGTCTGGGACATGCATCGACT-CGAGATGTA-AGT
* * *
33679135 C-AGTGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATATAAG-
1 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGACTCGAGATGTAAGT
** * *
33679181 CTAGTGTAAGACTGTGTCTGAGACACGACATCGAC
1 CTAGTGTAAGACCATGTCTGGGACATG-CATCGAC
33679216 ATCGTACCCC
Statistics
Matches: 141, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 58 0.41
47 61 0.43
48 19 0.13
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
CTAGTGTAAGACCATGTCTGGGACATGCATCGACTCGAGATGTAAGT
Found at i:33681444 original size:6 final size:6
Alignment explanation
Indices: 33681433--33681457 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33681423 TTACTACTAT
33681433 AAATTG AAATTG AAATTG AAATTG A
1 AAATTG AAATTG AAATTG AAATTG A
33681458 CTATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
AAATTG
Found at i:33684687 original size:7 final size:7
Alignment explanation
Indices: 33684675--33684713 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
33684665 GATTATTCGA
33684675 TCCATCT
1 TCCATCT
33684682 TCCATCT
1 TCCATCT
33684689 TCCATCT
1 TCCATCT
33684696 TCCATCT
1 TCCATCT
33684703 TCCATCT
1 TCCATCT
33684710 TCCA
1 TCCA
33684714 CCTTTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.15, C:0.44, G:0.00, T:0.41
Consensus pattern (7 bp):
TCCATCT
Found at i:33684774 original size:22 final size:23
Alignment explanation
Indices: 33684731--33684776 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
33684721 ATTTTAATTT
*
33684731 TCTTTATTTATTTTTGTTTTGAA
1 TCTTTATTTATTTTTGTCTTGAA
33684754 TCTTTATTT-TTTTAT-TCTTGAA
1 TCTTTATTTATTTT-TGTCTTGAA
33684776 T
1 T
33684777 TTCTTCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.70
Consensus pattern (23 bp):
TCTTTATTTATTTTTGTCTTGAA
Found at i:33689347 original size:34 final size:34
Alignment explanation
Indices: 33689300--33689364 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
33689290 TCACACTAGG
*
33689300 GTCTATTTTCCCTTTAAAGACCTTCAGTTTTAGC
1 GTCTATTTGCCCTTTAAAGACCTTCAGTTTTAGC
33689334 GTCTATTTGCCCTTTAAAGACCTTCAGTTTT
1 GTCTATTTGCCCTTTAAAGACCTTCAGTTTT
33689365 TATTCTCTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (34 bp):
GTCTATTTGCCCTTTAAAGACCTTCAGTTTTAGC
Found at i:33700672 original size:32 final size:32
Alignment explanation
Indices: 33700636--33700705 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
33700626 AATAGGGTCC
33700636 TTAAAAGAAACAAAT-TACATACATAAATAAAT
1 TTAAAAGAAA-AAATATACATACATAAATAAAT
* * *
33700668 TTAAAAGAAAATATATATATACGTAAATAAAT
1 TTAAAAGAAAAAATATACATACATAAATAAAT
*
33700700 CTAAAA
1 TTAAAA
33700706 AATATTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 3 0.09
32 30 0.91
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.27
Consensus pattern (32 bp):
TTAAAAGAAAAAATATACATACATAAATAAAT
Found at i:33703645 original size:39 final size:41
Alignment explanation
Indices: 33703550--33703733 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
33703540 TTGAATGATG
*
33703550 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
33703589 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
33703629 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
33703668 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
33703708 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33703734 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:33703755 original size:79 final size:79
Alignment explanation
Indices: 33703602--33703766 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
33703592 GGACTAAGAT
* **
33703602 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
33703667 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33703681 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-G
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATA
* *
33703743 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
33703760 CCGAAGG
1 CCGAAGG
33703767 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.61
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:33711589 original size:40 final size:40
Alignment explanation
Indices: 33711500--33711763 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
33711490 TTGAATGATG
* *
33711500 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
33711539 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
33711579 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33711618 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33711658 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33711698 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33711739 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33711764 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33711781 original size:120 final size:118
Alignment explanation
Indices: 33711500--33711796 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
33711490 TTGAATGATG
* *
33711500 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
33711560 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
33711618 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
33711683 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
33711739 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
33711797 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:33713884 original size:177 final size:176
Alignment explanation
Indices: 33713675--33714180 Score: 635
Period size: 177 Copynumber: 2.9 Consensus size: 176
33713665 CTGCTACATC
* *
33713675 AGGGAAATAAGATCTACAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATA
1 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATA
**
33713740 GTCAACCTGCTCTTTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTTGA
66 GTCAACCTGCTCCATTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTTGA
* *
33713805 TACATGGAGATAAGATTCGCCATCTTCGAAATTCTCCACAACTGCTT
131 TACATGGAGATAAGATT-GCCATCTTCGAAATGCTCCACAAATGCTT
*
33713852 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATC
1 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATA
* * * * * **
33713917 GCCAACCTACTCCCTTGCTACCTCAGAGAGACAAGGCTAGTGGCTATAATCTGCTCCATTGTCAA
66 GTCAACCTGCTCCATTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTTGA
**
33713982 TACATGGAGATAAGATT--C-TCTTCGATCTGCTCCACAAATGCTT
131 TACATGGAGATAAGATTGCCATCTTCGAAATGCTCCACAAATGCTT
* * * * ***
33714025 AGGGAGATAAAATCTTGAATCTTCAGTCTGC-TCCACTGCAACCTCAGGGAA-ATAAGACTTGTA
1 AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTGCTACCTCA-GGAAGATAAGACTACAA
* * * * * * * * * *
33714088 TATTGAGCCTGCTCCACTGCAACTTTAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCT
64 TAGTCAACCTGCTCCATTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTT
*
33714153 GATACATGGAGATAAGATTTGCAATCTT
129 GATACATGGAGATAAGA-TTGCCATCTT
33714181 TGGTCTTCTC
Statistics
Matches: 282, Mismatches: 41, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
172 3 0.01
173 132 0.47
174 7 0.02
177 140 0.50
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (176 bp):
AGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATA
GTCAACCTGCTCCATTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGTTGA
TACATGGAGATAAGATTGCCATCTTCGAAATGCTCCACAAATGCTT
Found at i:33714568 original size:64 final size:64
Alignment explanation
Indices: 33714467--33714591 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
33714457 TGTATCTATG
33714467 CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGACA
1 CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGACA
* * *
33714531 CTTATGTCAAATAATTAGGATGCTATGCTCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
33714592 TTATGAATGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGACA
Found at i:33718106 original size:11 final size:11
Alignment explanation
Indices: 33718090--33718119 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33718080 AATATCATAT
33718090 GTATGCATCAG
1 GTATGCATCAG
33718101 GTATGCATCAG
1 GTATGCATCAG
*
33718112 ATATGCAT
1 GTATGCAT
33718120 GTCACATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (11 bp):
GTATGCATCAG
Found at i:33718538 original size:29 final size:28
Alignment explanation
Indices: 33718474--33718563 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
33718464 CACATACCTG
* *
33718474 TATATGGCCCACTAGGCCCAATCACATT
1 TATATGGCCCATTAGGCCCAATTACATT
*
33718502 TATATGGCCTATTAGGCCCGAATTACATT
1 TATATGGCCCATTAGGCCC-AATTACATT
* *
33718531 TATATGGCCCATCAGGCCCAATTCACAGT
1 TATATGGCCCATTAGGCCCAATT-ACATT
33718560 TATA
1 TATA
33718564 GTCATGCTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
28 21 0.39
29 33 0.61
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATTACATT
Done.