Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 284 of 433
Found at i:88519328 original size:38 final size:39
Alignment explanation
Indices: 88519285--88519436 Score: 141
Period size: 38 Copynumber: 4.0 Consensus size: 39
88519275 GATACAATTG
* *
88519285 CACCGGCACGAAGCCTGGTAGGCACAGAGCTCGAATAAT
1 CACCGGCACAAAGCCTGCTAGGCACAGAGCTCGAATAAT
* *
88519324 -ACCGGCACAAAGCCTGCAAGGCACAGAGCCCGAAT-AT
1 CACCGGCACAAAGCCTGCTAGGCACAGAGCTCGAATAAT
* ** *
88519361 CACTGGCACTCAGCCTGTTAGGCACAGAGCTCGAAT-AT
1 CACCGGCACAAAGCCTGCTAGGCACAGAGCTCGAATAAT
** *** *
88519399 CACTAGTGTAAAGCCTGCTAGGCAC-GTAGCCCGAATAA
1 CACCGGCACAAAGCCTGCTAGGCACAG-AGCTCGAATAA
88519437 CATTACAATT
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
37 3 0.03
38 88 0.96
39 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (39 bp):
CACCGGCACAAAGCCTGCTAGGCACAGAGCTCGAATAAT
Found at i:88531714 original size:27 final size:28
Alignment explanation
Indices: 88531677--88531816 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
88531667 AGCATGGCTG
* *
88531677 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88531703 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
88531731 CAAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
88531758 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
88531785 CCAGAT-CAGATATTTATGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88531812 CCAGA
1 CCAGA
88531817 ACGTTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 16 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:88531983 original size:28 final size:27
Alignment explanation
Indices: 88531921--88531994 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
88531911 AAATTAACCC
** *
88531921 TAGGGGTATAACGGTAA-TTTTACACC
1 TAGGGGTATAATAGTAATTTTTACACA
*
88531947 TAGGGGTATAATAGTAATTTTTCATACA
1 TAGGGGTATAATAGTAATTTTT-ACACA
*
88531975 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
88531995 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 15 0.37
27 4 0.10
28 22 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
TAGGGGTATAATAGTAATTTTTACACA
Found at i:88532253 original size:16 final size:15
Alignment explanation
Indices: 88532232--88532261 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88532222 AAAATACCGA
88532232 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
88532248 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
88532262 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:88533468 original size:26 final size:26
Alignment explanation
Indices: 88533430--88533513 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
88533420 CATGAAATTC
* *
88533430 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
88533456 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
88533482 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
88533508 TTATCA
1 TTATCA
88533514 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:88537914 original size:20 final size:20
Alignment explanation
Indices: 88537889--88537934 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
88537879 ACTGGGCCTT
88537889 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
88537909 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
88537928 GCCCATA
1 GCCCATA
88537935 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:88538192 original size:2 final size:2
Alignment explanation
Indices: 88538185--88538209 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88538175 TGTATGCAGA
88538185 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
88538210 ATTAACAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88539949 original size:12 final size:12
Alignment explanation
Indices: 88539932--88539961 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
88539922 TAGACATACG
88539932 AAATAATAATAA
1 AAATAATAATAA
88539944 AAATAATAATAA
1 AAATAATAATAA
*
88539956 TAATAA
1 AAATAA
88539962 CATCCAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAATAATAATAA
Found at i:88540079 original size:14 final size:14
Alignment explanation
Indices: 88540069--88540096 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88540059 AGAAATTTTG
88540069 TCCTCGAAATTTCA
1 TCCTCGAAATTTCA
88540083 TCCTCGAAATTTCA
1 TCCTCGAAATTTCA
88540097 AAATATCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
TCCTCGAAATTTCA
Found at i:88541760 original size:2 final size:2
Alignment explanation
Indices: 88541753--88541777 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88541743 TGTATGCAGA
88541753 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
88541778 ATTAACAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88543517 original size:14 final size:14
Alignment explanation
Indices: 88543498--88543527 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88543488 CTAGACATAC
88543498 AAAATAATAATAAA
1 AAAATAATAATAAA
88543512 AAAATAATAATAAA
1 AAAATAATAATAAA
88543526 AA
1 AA
88543528 CATCCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAATAATAAA
Found at i:88547253 original size:2 final size:2
Alignment explanation
Indices: 88547246--88547289 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
88547236 TTGAATTGCC
88547246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88547288 AT
1 AT
88547290 CGAATGCATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88549176 original size:59 final size:59
Alignment explanation
Indices: 88549084--88549257 Score: 276
Period size: 59 Copynumber: 2.9 Consensus size: 59
88549074 AATTGATACC
* *
88549084 TAATACATGCTAGGGTTTGGGTGCTTTTGAGTAGCGCCGTTGAGAGGCATGTGATTATG
1 TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATG
* * * *
88549143 TAATACATGCTAGGGTCTAGATGCTTTTGAGTAGCCCCGTTGAGAGGGATGTGAATATG
1 TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATG
* *
88549202 TGATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAAAGGCATGTGATT
1 TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATT
88549258 CTATGATCTG
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 103 1.00
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (59 bp):
TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTATG
Found at i:88554401 original size:14 final size:14
Alignment explanation
Indices: 88554361--88554403 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
88554351 ATAACTTATA
88554361 TTCAACACTTAATTT
1 TTCAACACTT-ATTT
* * *
88554376 TTTAATATTTATTT
1 TTCAACACTTATTT
88554390 TTCAACACTTATTT
1 TTCAACACTTATTT
88554404 ATCTTTTATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (14 bp):
TTCAACACTTATTT
Found at i:88554435 original size:25 final size:27
Alignment explanation
Indices: 88554361--88554436 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
88554351 ATAACTTATA
88554361 TTCAACACTTAATTTTTTAATATTTATTT
1 TTCAACACTTAATTTTTT--TATTTATTT
*
88554390 TTCAACACTTATTTATCTTTTA-TT-TTT
1 TTCAACACTTAATT-T-TTTTATTTATTT
*
88554417 TTCAACTCTTAATTTTTTTA
1 TTCAACACTTAATTTTTTTA
88554437 ATCTGTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 15 0.36
28 2 0.05
29 15 0.36
30 1 0.02
31 3 0.07
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (27 bp):
TTCAACACTTAATTTTTTTATTTATTT
Found at i:88557708 original size:29 final size:28
Alignment explanation
Indices: 88557675--88557736 Score: 106
Period size: 29 Copynumber: 2.2 Consensus size: 28
88557665 TATGAAATAT
88557675 AATATTTTCCTCATTCACAATCTCAGTA
1 AATATTTTCCTCATTCACAATCTCAGTA
*
88557703 GAATATTTTCCTCATTCATAATCTCAGTA
1 -AATATTTTCCTCATTCACAATCTCAGTA
88557732 AATAT
1 AATAT
88557737 CTTTTAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (28 bp):
AATATTTTCCTCATTCACAATCTCAGTA
Found at i:88558009 original size:55 final size:55
Alignment explanation
Indices: 88557943--88558052 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
88557933 ACAAAATATC
*
88557943 TATGCATATGCCACATATGTGGCCAGTAATCTTTCATATCACATTGGTAATATAA
1 TATGAATATGCCACATATGTGGCCAGTAATCTTTCATATCACATTGGTAATATAA
88557998 TATGAATATGCCACATATGTGGCCAGTAATCTTTCATATCACATTGGTAATATAA
1 TATGAATATGCCACATATGTGGCCAGTAATCTTTCATATCACATTGGTAATATAA
88558053 GTTATCTTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (55 bp):
TATGAATATGCCACATATGTGGCCAGTAATCTTTCATATCACATTGGTAATATAA
Found at i:88558041 original size:28 final size:28
Alignment explanation
Indices: 88557954--88558041 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 28
88557944 ATGCATATGC
88557954 CACATATGTGGCCAGTAATCTTTCATAT
1 CACATATGTGGCCAGTAATCTTTCATAT
** * * **
88557982 CAC--AT-TGGTAATATAAT-ATGAATAT
1 CACATATGTGGCCA-GTAATCTTTCATAT
88558007 GCCACATATGTGGCCAGTAATCTTTCATAT
1 --CACATATGTGGCCAGTAATCTTTCATAT
88558037 CACAT
1 CACAT
88558042 TGGTAATATA
Statistics
Matches: 41, Mismatches: 12, Indels: 14
0.61 0.18 0.21
Matches are distributed among these distances:
25 9 0.22
26 6 0.15
27 3 0.07
28 8 0.20
29 6 0.15
30 9 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (28 bp):
CACATATGTGGCCAGTAATCTTTCATAT
Found at i:88565098 original size:20 final size:20
Alignment explanation
Indices: 88565075--88565113 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
88565065 TATCGATACT
* *
88565075 TTTCTTAAGTTATCAATATA
1 TTTCCTAAGGTATCAATATA
*
88565095 TTTCCTAAGGTATTAATAT
1 TTTCCTAAGGTATCAATAT
88565114 TCCTGCTCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTCCTAAGGTATCAATATA
Found at i:88576222 original size:5 final size:5
Alignment explanation
Indices: 88576212--88576261 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
88576202 AAGATATTAC
*
88576212 TTATT TTATT TTATT TTATT ATT-TA TTA-T TTATT TTATTAT TTATT
1 TTATT TTATT TTATT TTATT -TTATT TTATT TTATT TTA-T-T TTATT
88576258 TTAT
1 TTAT
88576262 ATTAAATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 5 0.13
5 25 0.66
6 4 0.11
7 4 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:88576236 original size:12 final size:12
Alignment explanation
Indices: 88576216--88576261 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
88576206 TATTACTTAT
*
88576216 TTTATTTTATTT
1 TTTATTTTATTA
88576228 TATTA-TTTATTA
1 T-TTATTTTATTA
88576240 TTTATTTTATTA
1 TTTATTTTATTA
88576252 TTTATTTTAT
1 TTTATTTTAT
88576262 ATTAAATTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 3 0.10
12 25 0.81
13 3 0.10
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:88576238 original size:7 final size:7
Alignment explanation
Indices: 88576226--88576257 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
88576216 TTTATTTTAT
88576226 TTTATTA
1 TTTATTA
88576233 TTTATTA
1 TTTATTA
88576240 TTTA-T-
1 TTTATTA
88576245 TTTATTA
1 TTTATTA
88576252 TTTATT
1 TTTATT
88576258 TTATATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.17
6 2 0.09
7 17 0.74
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTATTA
Found at i:88576264 original size:19 final size:19
Alignment explanation
Indices: 88576221--88576257 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
88576211 CTTATTTTAT
88576221 TTTATTTTATTATTTATTA
1 TTTATTTTATTATTTATTA
88576240 TTTATTTTATTATTTATT
1 TTTATTTTATTATTTATT
88576258 TTATATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATTTTATTATTTATTA
Found at i:88576270 original size:19 final size:18
Alignment explanation
Indices: 88576216--88576264 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
88576206 TATTACTTAT
88576216 TTTATTTTAT-TTTATTA
1 TTTATTTTATATTTATTA
88576233 TTTATTATT-TATTTTATTA
1 TTTATT-TTATA-TTTATTA
88576252 TTTATTTTATATT
1 TTTATTTTATATT
88576265 AAATTAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 15 0.54
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATTTTATATTTATTA
Found at i:88579440 original size:2 final size:2
Alignment explanation
Indices: 88579433--88579470 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
88579423 TCCATTCATA
88579433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88579471 CAATTCAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88579976 original size:23 final size:23
Alignment explanation
Indices: 88579950--88580003 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
88579940 ATCCTTTTTC
*
88579950 ATTTCTAACTTAAAAA-TCTATCA
1 ATTTCTAACTTAAAAACTCAAT-A
*
88579973 ATTT-AACACTTAAAAACTCAATA
1 ATTTCTA-ACTTAAAAACTCAATA
88579996 ATTTCTAA
1 ATTTCTAA
88580004 AATTTTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
22 1 0.04
23 19 0.76
24 5 0.20
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTTCTAACTTAAAAACTCAATA
Found at i:88583438 original size:29 final size:30
Alignment explanation
Indices: 88583381--88583463 Score: 123
Period size: 29 Copynumber: 2.8 Consensus size: 30
88583371 GTGTCCTAAA
* *
88583381 CAATGGTCGAAACTATCTCTTTTCTTTAAT
1 CAATGGTCGAAACCATCCCTTTTCTTTAAT
88583411 CAATGGTCG-AACCATCCCTTTTCTTTAAT
1 CAATGGTCGAAACCATCCCTTTTCTTTAAT
* *
88583440 CGATGGTCGAAACCACCCCTTTTC
1 CAATGGTCGAAACCATCCCTTTTC
88583464 ATATTTGATG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 26 0.54
30 22 0.46
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (30 bp):
CAATGGTCGAAACCATCCCTTTTCTTTAAT
Found at i:88583473 original size:29 final size:29
Alignment explanation
Indices: 88583413--88583532 Score: 120
Period size: 29 Copynumber: 4.1 Consensus size: 29
88583403 TCTTTAATCA
* * *
88583413 ATGGTCG-AACCATCCCTTTTCTTTAATCG
1 ATGGTCGAAACCACCCCTTTTC-ATATTCG
*
88583442 ATGGTCGAAACCACCCCTTTTCATATTTG
1 ATGGTCGAAACCACCCCTTTTCATATTCG
* *
88583471 ATGGTTGAAGCCATCCCC-TTTCATATTCG
1 ATGGTCGAAACCA-CCCCTTTTCATATTCG
* *
88583500 ATGGTC-ACCACCATCCCTTTTCATATTCG
1 ATGGTCGA-AACCACCCCTTTTCATATTCG
88583529 ATGG
1 ATGG
88583533 GCATTGATAC
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
28 4 0.05
29 55 0.72
30 17 0.22
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (29 bp):
ATGGTCGAAACCACCCCTTTTCATATTCG
Found at i:88585734 original size:21 final size:21
Alignment explanation
Indices: 88585708--88585757 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
88585698 TTCTTCTTGG
88585708 GTCTAGTCTAATGTCCAGTTA
1 GTCTAGTCTAATGTCCAGTTA
* *
88585729 GTCTAGTCTGATGTCCATTTA
1 GTCTAGTCTAATGTCCAGTTA
*
88585750 GTCCAGTC
1 GTCTAGTC
88585758 ATCACATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (21 bp):
GTCTAGTCTAATGTCCAGTTA
Found at i:88593735 original size:38 final size:38
Alignment explanation
Indices: 88593692--88593768 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
88593682 TGGATTAACC
88593692 CTTAGAATGAGTCACGACAGAGTACTGATTAATACAGA
1 CTTAGAATGAGTCACGACAGAGTACTGATTAATACAGA
**
88593730 CTTAGAATGAGTCACGACAGAGTGTTGATTAATACAGA
1 CTTAGAATGAGTCACGACAGAGTACTGATTAATACAGA
88593768 C
1 C
88593769 AGTATAGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (38 bp):
CTTAGAATGAGTCACGACAGAGTACTGATTAATACAGA
Found at i:88594496 original size:14 final size:15
Alignment explanation
Indices: 88594469--88594506 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
88594459 CCCTTAAATT
88594469 ATAATT-TTTT-AAA
1 ATAATTATTTTAAAA
88594482 AT-ATTATTTTAAAA
1 ATAATTATTTTAAAA
88594496 ATAATTATTTT
1 ATAATTATTTT
88594507 TTTATATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 6 0.27
14 5 0.23
15 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTATTTTAAAA
Found at i:88594900 original size:2 final size:2
Alignment explanation
Indices: 88594893--88594929 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
88594883 TGAGTTTGAA
88594893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88594930 AGTATTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:88596413 original size:8 final size:8
Alignment explanation
Indices: 88596402--88596432 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
88596392 TTTTAAAGGT
88596402 TAATTAAG
1 TAATTAAG
*
88596410 TAATTAAA
1 TAATTAAG
88596418 TAATTAAG
1 TAATTAAG
88596426 TAATTAA
1 TAATTAA
88596433 TGATAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (8 bp):
TAATTAAG
Found at i:88596421 original size:16 final size:16
Alignment explanation
Indices: 88596402--88596432 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
88596392 TTTTAAAGGT
88596402 TAATTAAGTAATTAAA
1 TAATTAAGTAATTAAA
88596418 TAATTAAGTAATTAA
1 TAATTAAGTAATTAA
88596433 TGATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TAATTAAGTAATTAAA
Found at i:88603953 original size:25 final size:25
Alignment explanation
Indices: 88603923--88603992 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
88603913 CAACTCATGT
* *
88603923 GAGCATACCGATTTACAGCTTGTGA
1 GAGCATACCGATTTACAACTTGAGA
* * *
88603948 GAGCATACCAATCTACAACTTGAGT
1 GAGCATACCGATTTACAACTTGAGA
* *
88603973 GAGCATACTGATTCACAACT
1 GAGCATACCGATTTACAACT
88603993 CGTATGAGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (25 bp):
GAGCATACCGATTTACAACTTGAGA
Found at i:88606075 original size:43 final size:43
Alignment explanation
Indices: 88605999--88606080 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
88605989 TTACATGTTT
* * **
88605999 TCATATACCGATGCCAACGTCCCAGATGGGGTCTTACACAAAA
1 TCATATAACAATGCCAACGTCCCAGACAGGGTCTTACACAAAA
* *
88606042 TCATATAACAATGCCAATGTCCCAGACATGGTCTTACAC
1 TCATATAACAATGCCAACGTCCCAGACAGGGTCTTACAC
88606081 GTAACCACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
TCATATAACAATGCCAACGTCCCAGACAGGGTCTTACACAAAA
Found at i:88611536 original size:28 final size:26
Alignment explanation
Indices: 88611448--88611544 Score: 103
Period size: 28 Copynumber: 3.7 Consensus size: 26
88611438 ATAGTGAATC
* *
88611448 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATA-A--ATCAACT
88611477 CGCACACTTAGTGCTAT--AT--ACT
1 CGCACACTTAGTGCTATAAATCAACT
88611499 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATA-AATC-AACT
88611527 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
88611545 CAATTTTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
22 19 0.32
24 1 0.02
25 2 0.03
28 21 0.35
29 17 0.28
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (26 bp):
CGCACACTTAGTGCTATAAATCAACT
Found at i:88611563 original size:30 final size:28
Alignment explanation
Indices: 88611499--88611570 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
88611489 GCTATATACT
* *
88611499 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACC
*
88611527 CGCACACTTAGTGCTATACAATTTTAAACC
1 CGCACACTTAGTGCTATACAA--TCAAACC
88611557 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88611571 CGAGACCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 20 0.51
30 19 0.49
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACC
Found at i:88619478 original size:26 final size:26
Alignment explanation
Indices: 88619415--88619512 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 26
88619405 ATAGTGAATC
*
88619415 CGCACACTTAGTGCTATATATTTTC-AGCT
1 CGCACACTTAGTGCTATA-A---TCAAACT
88619444 CGCACACTTAGTGCTATAATCAAACT
1 CGCACACTTAGTGCTATAATCAAACT
88619470 CGCACACTTAGTGCTATAGAATCTTAAAC-
1 CGCACACTTAGTGCTAT--AATC--AAACT
88619499 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88619513 CAATTACCGT
Statistics
Matches: 63, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
25 2 0.03
26 20 0.32
28 5 0.08
29 32 0.51
30 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (26 bp):
CGCACACTTAGTGCTATAATCAAACT
Found at i:88627450 original size:29 final size:29
Alignment explanation
Indices: 88627418--88627547 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
88627408 ATAGTGAATC
*
88627418 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
88627447 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
* *
88627476 CGCACACTTAGTGCTATAGA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * *
88627504 CGCACACTTAGTGCTATACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
88627534 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88627548 CAATCTTGTG
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 49 0.54
30 17 0.19
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:88633916 original size:2 final size:2
Alignment explanation
Indices: 88633909--88633933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88633899 TTTAATTTGG
88633909 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88633934 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88640796 original size:12 final size:12
Alignment explanation
Indices: 88640771--88640802 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
88640761 CTTATTTTAG
88640771 TTTA-TTTA-TT
1 TTTATTTTATTT
88640781 TTTATTTTATTT
1 TTTATTTTATTT
88640793 TTTATTTTAT
1 TTTATTTTAT
88640803 ATTAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.20
11 4 0.20
12 12 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:88648683 original size:11 final size:11
Alignment explanation
Indices: 88648667--88648704 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
88648657 GAAAATCTTA
88648667 TTATTTATTA-T
1 TTATTT-TTATT
88648678 TTATTTTTATT
1 TTATTTTTATT
88648689 TTATTTTTAATT
1 TTATTTTT-ATT
88648701 TTAT
1 TTAT
88648705 ATTAAATTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 3 0.12
11 15 0.60
12 7 0.28
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:88648693 original size:18 final size:17
Alignment explanation
Indices: 88648670--88648704 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
88648660 AATCTTATTA
*
88648670 TTTATTATTTATTTTTAT
1 TTTATT-TTTAATTTTAT
88648688 TTTATTTTTAATTTTAT
1 TTTATTTTTAATTTTAT
88648705 ATTAAATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTAATTTTAT
Found at i:88652193 original size:18 final size:18
Alignment explanation
Indices: 88652170--88652213 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88652160 AAAGGGGAAG
*
88652170 ACGAAGGCGAACACTATA
1 ACGAAGACGAACACTATA
* *
88652188 ACGAAGATGAACACTATG
1 ACGAAGACGAACACTATA
88652206 ACGAAGAC
1 ACGAAGAC
88652214 AAAACTAAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (18 bp):
ACGAAGACGAACACTATA
Found at i:88659252 original size:12 final size:12
Alignment explanation
Indices: 88659220--88659253 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
88659210 ATCCTGGAAT
* *
88659220 ATTAAGAAAAGA
1 ATTAAGAACACA
88659232 ATTAAGAACACA
1 ATTAAGAACACA
88659244 ATTAAGAACA
1 ATTAAGAACA
88659254 AGTCAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.18
Consensus pattern (12 bp):
ATTAAGAACACA
Found at i:88669560 original size:24 final size:24
Alignment explanation
Indices: 88669533--88669579 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
88669523 TAGGGGTAGG
*
88669533 ATCTAATTCTGTATTTGAAATTGC
1 ATCTAATTCTGTATATGAAATTGC
* *
88669557 ATCTAATTTTGTATATGAGATTG
1 ATCTAATTCTGTATATGAAATTG
88669580 ACATTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (24 bp):
ATCTAATTCTGTATATGAAATTGC
Found at i:88675761 original size:25 final size:25
Alignment explanation
Indices: 88675733--88675800 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
88675723 TCTTCTAAGG
* **
88675733 TGAATAATGAGAAGCTCGTGCGAGC
1 TGAATAACGAGAAGCTCAAGCGAGC
*
88675758 TGAATAACGGGAAGCTCAAGCGAGC
1 TGAATAACGAGAAGCTCAAGCGAGC
88675783 TGAATAACGAGAAGCTCA
1 TGAATAACGAGAAGCTCA
88675801 TAAGAGCTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (25 bp):
TGAATAACGAGAAGCTCAAGCGAGC
Found at i:88675807 original size:25 final size:25
Alignment explanation
Indices: 88675733--88675811 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
88675723 TCTTCTAAGG
* * *
88675733 TGAATAATGAGAAGCTCGTGCGAGC
1 TGAATAACGAGAAGCTCATACGAGC
*
88675758 TGAATAACGGGAAGCTCA-AGCGAGC
1 TGAATAACGAGAAGCTCATA-CGAGC
*
88675783 TGAATAACGAGAAGCTCATAAGAGC
1 TGAATAACGAGAAGCTCATACGAGC
88675808 TGAA
1 TGAA
88675812 ATTGGTGACC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 45 0.98
26 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.29, T:0.16
Consensus pattern (25 bp):
TGAATAACGAGAAGCTCATACGAGC
Found at i:88683743 original size:40 final size:38
Alignment explanation
Indices: 88683554--88683713 Score: 196
Period size: 38 Copynumber: 4.2 Consensus size: 38
88683544 ATTTGATGTG
* * *
88683554 TATCTGGGCTTAAAGACTCGCAGGCTATA-TGCTGGAATTA
1 TATCTGGG-TTAAA-TCCCGCAGGCT-TAGTGCTGGTATTA
* * * * *
88683594 TATCCGGGTTAAATCTCACAGGCTTCGTGCTGGTAATA
1 TATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
*
88683632 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
*
88683670 TATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
88683708 TATCTG
1 TATCTG
88683714 AGCTTCAAGT
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.01
38 94 0.88
39 5 0.05
40 7 0.07
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
TATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTA
Found at i:88688871 original size:29 final size:29
Alignment explanation
Indices: 88688845--88688938 Score: 145
Period size: 29 Copynumber: 3.2 Consensus size: 29
88688835 TCGCACACCC
*
88688845 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATTTTTCCAGCATGCACACTT
88688874 AGTGCCATATATTTT-CAGCATGCACACTT
1 AGTGCCATAT-TTTTCCAGCATGCACACTT
* *
88688903 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATTTTTCCAGCATGCACACTT
88688932 AGTGCCA
1 AGTGCCA
88688939 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
28 3 0.05
29 53 0.88
30 4 0.07
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATTTTTCCAGCATGCACACTT
Found at i:88690139 original size:20 final size:20
Alignment explanation
Indices: 88690098--88690150 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
88690088 AACACTTTTT
*
88690098 TTTTTTTTC-TTT-TCTTTG
1 TTTTTCTTCATTTCTCTTTG
88690116 TTTTTCTTCATATTCTCTTT-
1 TTTTTCTTCAT-TTCTCTTTG
*
88690136 TTTTTTTTCATTTCT
1 TTTTTCTTCATTTCT
88690151 TTATTCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCTTCATTTCTCTTTG
Found at i:88696771 original size:29 final size:29
Alignment explanation
Indices: 88696747--88696840 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
88696737 TCGCACACCC
* *
88696747 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
88696776 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
88696805 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
88696834 AGTGCCA
1 AGTGCCA
88696841 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:88696772 original size:58 final size:58
Alignment explanation
Indices: 88696709--88696840 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
88696699 AATTTAAGCC
* * * * *
88696709 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
88696767 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
88696825 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
88696841 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:88698030 original size:19 final size:19
Alignment explanation
Indices: 88698008--88698065 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
88697998 TTTTTTTCTT
*
88698008 TTCTTTGTTTTTCTTCATA
1 TTCTTTATTTTTCTTCATA
* *
88698027 TTCTCTTTTTTTTTTTCAT-
1 TTCT-TTATTTTTCTTCATA
*
88698046 TTCTTTATTCTTTCTACATA
1 TTCTTTATT-TTTCTTCATA
88698066 ATCCACTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.13
19 15 0.48
20 12 0.39
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (19 bp):
TTCTTTATTTTTCTTCATA
Found at i:88702762 original size:38 final size:38
Alignment explanation
Indices: 88702707--88702850 Score: 177
Period size: 38 Copynumber: 3.8 Consensus size: 38
88702697 GGCTTAAAGA
* *
88702707 CTCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAAT
1 CTCGCAGGCT-TCGTGCTGGAATTATATCTGGGTTAAAT
*
88702745 CTTGCAGGCTTCGTGCTGGTAA-TATATCTGGGTTAAAT
1 CTCGCAGGCTTCGTGCTGG-AATTATATCTGGGTTAAAT
*
88702783 -TCCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAAT
1 CT-CGCAGGCTTCGTGCTGGAATTATATCTGGGTTAAAT
* * *
88702821 CTCGCAGGCCTAGTGCTGGTATTATATCTG
1 CTCGCAGGCTTCGTGCTGGAATTATATCTG
88702851 AGCTTAAAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
37 3 0.03
38 88 0.94
39 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (38 bp):
CTCGCAGGCTTCGTGCTGGAATTATATCTGGGTTAAAT
Found at i:88705969 original size:40 final size:40
Alignment explanation
Indices: 88705905--88705980 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
88705895 AGTATATTTG
*
88705905 ACACTTAGTGTGCACTTCAAAATAGCTTCAGCTATAAATA
1 ACACTTAGTGTGCAATTCAAAATAGCTTCAGCTATAAATA
* *
88705945 ACACTTAGTGTGCGAATT-AGAATAGCTTCGGCTATA
1 ACACTTAGTGTGC-AATTCAAAATAGCTTCAGCTATA
88705981 TGAGGCACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (40 bp):
ACACTTAGTGTGCAATTCAAAATAGCTTCAGCTATAAATA
Found at i:88708296 original size:42 final size:42
Alignment explanation
Indices: 88708231--88708347 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
88708221 AACTCGTACA
* *
88708231 ATGCCAACGTCCTAGA-AGTGGTCTTACATGTAATC-AATATCG
1 ATGCCGACGTCCAAGACAG-GGTCTTACATGTAATCAAATA-CG
* *
88708273 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AGATCAAATACG
1 ATGCCGAC-GTCCAAGACAGGGTCTTACATGTA-ATCAAATACG
* *
88708315 ATGCCGACGTCCAAGTCATGGTCTTACATGTAA
1 ATGCCGACGTCCAAGACAGGGTCTTACATGTAA
88708348 ATCGTAAGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
41 3 0.05
42 51 0.81
43 9 0.14
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGCCGACGTCCAAGACAGGGTCTTACATGTAATCAAATACG
Found at i:88709976 original size:17 final size:17
Alignment explanation
Indices: 88709937--88709969 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
88709927 TAGCTTAAGT
88709937 GGCAACAACAATCTGTA
1 GGCAACAACAATCTGTA
88709954 GGCAACAACAATCTGT
1 GGCAACAACAATCTGT
88709970 GTGCAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (17 bp):
GGCAACAACAATCTGTA
Found at i:88718055 original size:40 final size:41
Alignment explanation
Indices: 88717961--88718180 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 41
88717951 TATTCGAATG
*
88717961 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
88718002 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
88718042 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
88718082 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
88718122 ATATCCGGGCTAAGA--CCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
88718160 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
88718181 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
36 1 0.01
37 7 0.05
38 21 0.14
39 9 0.06
40 86 0.56
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88727441 original size:40 final size:40
Alignment explanation
Indices: 88727392--88727515 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
88727382 CGAAATTTAA
* * *
88727392 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGC
* * *
88727432 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* *** * *
88727472 CCGGATTTAATAACTCGCACGAA-TGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCAC-AATTGCCTTCGGGAATTAGC
88727512 CCGG
1 CCGG
88727516 TTTTGGTAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.96
41 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:88727526 original size:40 final size:40
Alignment explanation
Indices: 88727418--88727597 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
88727408 GCTCGATTGT
* * * *
88727418 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGC
* * *
88727458 CTTCGGGAATTAGCCCGGATTTAATAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
88727498 CTTCGGGACTTAACCCGGTTTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
88727538 CTTCGGGAGTT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
88727579 CTTCGGGACATAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
88727598 CACCATTCAA
Statistics
Matches: 113, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 85 0.75
41 27 0.24
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:88727532 original size:80 final size:80
Alignment explanation
Indices: 88727404--88727596 Score: 210
Period size: 80 Copynumber: 2.4 Consensus size: 80
88727394 GGATATAGCG
* * * * *
88727404 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGAATT
88727469 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * * *
88727484 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTT-GCACAAATGCCTTCGGGAGT
1 ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAA-TTCGCACAAATGCCTTCGGGAAT
* *
88727548 TGACCCGGATTTAGTC
65 TGACCCGGATTTAATA
* * *
88727564 ACTTAGCACAAAAGCCTTCGGGACATAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACATAGCCCGG
88727597 ACACCATTCA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 65 0.70
81 28 0.30
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:88735541 original size:40 final size:39
Alignment explanation
Indices: 88735483--88735675 Score: 140
Period size: 40 Copynumber: 4.8 Consensus size: 39
88735473 GGATATAGCG
* * * *
88735483 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTG
1 ACTCGCACAATTGCCTTCGGGACATAGCCCGGTT-TAGTA
* *
88735523 ATTCGCACAATTGCCTTCGGGA-ATTAGCCCGGATTTAATA
1 ACTCGCACAATTGCCTTCGGGACA-TAGCCCGG-TTTAGTA
* * *
88735563 ACTCGCACGAA-TGCCTTCGGGACTTAACCCGGTTTTGGTA
1 ACTCGCAC-AATTGCCTTCGGGACATAGCCCGG-TTTAGTA
* * * *
88735603 ACTCGCACAAATGCCTTCGGGA-GTTGACCCGGATTTAGTC
1 ACTCGCACAATTGCCTTCGGGACATAG-CCCGG-TTTAGTA
* ** *
88735643 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAATTGCCTTCGGGACATAGCCCGG
88735676 ACACCATTCG
Statistics
Matches: 123, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
39 4 0.03
40 90 0.73
41 27 0.22
42 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
ACTCGCACAATTGCCTTCGGGACATAGCCCGGTTTAGTA
Found at i:88735595 original size:80 final size:80
Alignment explanation
Indices: 88735483--88735675 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 80
88735473 GGATATAGCG
* * * * * * *
88735483 ACTCGCTCGATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
88735548 -AGCCCGGATTTAATA
66 GA-CCCGGATTTAATA
* * * *
88735563 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAGTT
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
* *
88735628 GACCCGGATTTAGTC
66 GACCCGGATTTAATA
* * *
88735643 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
88735676 ACACCATTCG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 67 0.71
81 27 0.29
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATT
GACCCGGATTTAATA
Found at i:88735664 original size:41 final size:39
Alignment explanation
Indices: 88735525--88735676 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
88735515 TTATAGTGAT
* *
88735525 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAATAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * *
88735565 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* *
88735605 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
88735645 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGA
88735677 CACCATTCGA
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 67 0.71
41 27 0.29
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:88737496 original size:40 final size:40
Alignment explanation
Indices: 88737402--88737586 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
88737392 TATTCGAATG
*
88737402 ATATCCGGGCTAAG-TCTCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTA-GTGACT
* * * *
88737443 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
88737483 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGTCT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
*
88737523 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
*
88737563 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
88737587 CTTGTGCAAG
Statistics
Matches: 123, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 90 0.73
41 29 0.24
42 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:88739135 original size:79 final size:79
Alignment explanation
Indices: 88739004--88739171 Score: 322
Period size: 79 Copynumber: 2.2 Consensus size: 79
88738994 CCTTGTACGT
88739004 AAAGCTGTCTTTGGAATGTCGCTTCCTTTTACTTTCAACTGGTAGTAGCCTGACCTTAAGTCAAT
1 AAAGCTGTCTTTGGAATGTCGCTTCCTTTTACTTTCAACTGGTAGTAGCCTGACCTTAAGTCAAT
88739069 CTTCGAAAATACAG
66 CTTCGAAAATACAG
88739083 AAAGCTGTCTTTGGAATGTCGCTTCCTTTTACTTTCAACTGGTAGTAGCCTGACCTTAAGTCAAT
1 AAAGCTGTCTTTGGAATGTCGCTTCCTTTTACTTTCAACTGGTAGTAGCCTGACCTTAAGTCAAT
88739148 CTTCGAAAATACAG
66 CTTCGAAAATACAG
88739162 -AAGCT-TCTTT
1 AAAGCTGTCTTT
88739172 CATCTGATCA
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
77 5 0.06
78 5 0.06
79 79 0.89
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (79 bp):
AAAGCTGTCTTTGGAATGTCGCTTCCTTTTACTTTCAACTGGTAGTAGCCTGACCTTAAGTCAAT
CTTCGAAAATACAG
Found at i:88743830 original size:3 final size:3
Alignment explanation
Indices: 88743809--88743879 Score: 119
Period size: 3 Copynumber: 24.0 Consensus size: 3
88743799 TTATCTCAAT
88743809 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
88743853 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
88743880 GTAAATATCT
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:88749127 original size:41 final size:41
Alignment explanation
Indices: 88749005--88749129 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 41
88748995 TTACTCGACT
* *
88749005 CAAATAGGGGCACGTATGTGCAATTCAAGGGTATTAAAGTA
1 CAAATAGAGGCACGTATGTGCAATTCAGGGGTATTAAAGTA
* * * * * *
88749046 CAAACATAGGCACGTATGTGTAATTAAGGGTTATTTAAGTA
1 CAAATAGAGGCACGTATGTGCAATTCAGGGGTATTAAAGTA
* **
88749087 CAAATAGAGGCACGTGTGTGCAATTCAGGGGTATCGAAGTA
1 CAAATAGAGGCACGTATGTGCAATTCAGGGGTATTAAAGTA
88749128 CA
1 CA
88749130 CTTACATTGA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (41 bp):
CAAATAGAGGCACGTATGTGCAATTCAGGGGTATTAAAGTA
Found at i:88751272 original size:21 final size:20
Alignment explanation
Indices: 88751250--88751289 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
88751240 TTTTACTTAA
88751250 TTAACTAACTAAATGTTAAAAT
1 TTAA-TAACTAAAT-TTAAAAT
*
88751272 TTTATAACTAAATTTAAA
1 TTAATAACTAAATTTAAA
88751290 TACCACACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (20 bp):
TTAATAACTAAATTTAAAAT
Found at i:88753134 original size:25 final size:25
Alignment explanation
Indices: 88753099--88753148 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
88753089 CTGAACTAAA
88753099 ACATAACGAAATGCTTGTATTCAAT
1 ACATAACGAAATGCTTGTATTCAAT
*
88753124 ACATAATGAAATGCTTGTATTCAAT
1 ACATAACGAAATGCTTGTATTCAAT
88753149 CTCCTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (25 bp):
ACATAACGAAATGCTTGTATTCAAT
Found at i:88764803 original size:47 final size:47
Alignment explanation
Indices: 88764749--88765087 Score: 567
Period size: 47 Copynumber: 7.3 Consensus size: 47
88764739 ACAAGATGTG
*
88764749 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
88764796 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTG
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
88764843 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
88764888 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
88764935 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
88764982 TATATGTGATAAGGCCGAGT-GCCAATGTGATGAATGTGAAAGTGTG
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
88765028 TATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
88765075 TAAATGTGATAAG
1 TATATGTGATAAG
88765088 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 44 0.16
46 43 0.16
47 188 0.68
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:88764943 original size:92 final size:93
Alignment explanation
Indices: 88764745--88765087 Score: 573
Period size: 92 Copynumber: 3.7 Consensus size: 93
88764735 ATGTACAAGA
*
88764745 TGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATGTGATAAGG
88764810 CCGAATGGCCAATGTGATGAATGTGAAAG
65 CCGAATGGCCAATGTGATGAATGTGAAAG
88764839 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-TATATGTGATAAGGC
1 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATGTGATAAGGC
* *
88764903 CTAATGGCCGATGTGATGAATGTGAAAG
66 CGAATGGCCAATGTGATGAATGTGAAAG
* *
88764931 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATGTGATAAGG
*
88764996 CCGAGT-GCCAATGTGATGAATGTGAAAG
65 CCGAATGGCCAATGTGATGAATGTGAAAG
* *
88765024 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG-ATATATGTGATAAG
88765088 TCCCGAAGGG
Statistics
Matches: 235, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
92 88 0.37
93 81 0.34
94 66 0.28
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (93 bp):
TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGATATATGTGATAAGGC
CGAATGGCCAATGTGATGAATGTGAAAG
Found at i:88764996 original size:139 final size:139
Alignment explanation
Indices: 88764746--88765087 Score: 605
Period size: 139 Copynumber: 2.5 Consensus size: 139
88764736 TGTACAAGAT
88764746 GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
88764811 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATG
66 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT-GCCAATGTGATG
88764876 AATGTGAAA-
130 AATGTGAAAG
88764885 GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
88764950 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGCCAATGTGATGA
66 CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGCCAATGTGATGA
88765015 ATGTGAAAG
131 ATGTGAAAG
* * *
88765024 TGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 -GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
88765088 TCCCGAAGGG
Statistics
Matches: 195, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
138 21 0.11
139 114 0.58
140 60 0.31
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (139 bp):
GTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGCCAATGTGATGA
ATGTGAAAG
Found at i:88766997 original size:40 final size:40
Alignment explanation
Indices: 88766942--88767289 Score: 562
Period size: 40 Copynumber: 8.8 Consensus size: 40
88766932 TAGTATGTTA
88766942 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
88766982 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
88767022 TATCCGGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
88767062 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
88767102 TATCCGGACT-AGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
88767141 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
88767181 TATCCGGACT-AGT-CCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
88767219 TATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
88767258 TATCCGGGCTAAGCCCCAAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
88767290 TGGAAAAATC
Statistics
Matches: 285, Mismatches: 20, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
38 33 0.12
39 91 0.32
40 161 0.56
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:88771279 original size:47 final size:47
Alignment explanation
Indices: 88771228--88771571 Score: 577
Period size: 47 Copynumber: 7.4 Consensus size: 47
88771218 GATGTACAAG
* *
88771228 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
88771275 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
88771322 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
88771369 GTGTATATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
88771415 GTGTATATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
88771461 GTGTATA-ATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
88771507 GTGTCTATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
88771554 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
88771572 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 13 0.05
46 107 0.38
47 164 0.58
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:88771543 original size:185 final size:187
Alignment explanation
Indices: 88771228--88771571 Score: 593
Period size: 185 Copynumber: 1.9 Consensus size: 187
88771218 GATGTACAAG
* * *
88771228 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
* * *
88771293 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCAATGTGA
*
88771358 TGAATGTGAAAGTGTATATATGTGATAAGGCCAATGGCCAATGTGATGAATGTGAAA
131 TGAATGTGAAAGTGTATAAATGTGATAAGGCCAATGGCCAATGTGATGAATGTGAAA
88771415 GTGTATATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTATA-ATGTGATAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
*
88771478 GCCGAGTGGCCAATGTGATGAATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCAATGTGA
*
88771543 TGGATGTGAAAGTGTATAAATGTGATAAG
131 TGAATGTGAAAGTGTATAAATGTGATAAG
88771572 TCCCGAAGGG
Statistics
Matches: 148, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
185 98 0.66
186 30 0.20
187 20 0.14
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (187 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAAGTGTCTATATGTGATAAGGCCTAATGGCCAATGTGA
TGAATGTGAAAGTGTATAAATGTGATAAGGCCAATGGCCAATGTGATGAATGTGAAA
Found at i:88773634 original size:29 final size:29
Alignment explanation
Indices: 88773602--88773717 Score: 130
Period size: 29 Copynumber: 4.0 Consensus size: 29
88773592 TACCTGTATT
* *
88773602 TGGCCCATTAAAGCCC-AATCATATTCATA
1 TGGCCCATT-AGGCCCAAATCACATTCATA
* *
88773631 TGGCTCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
88773660 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
88773689 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
88773717 T
1 T
88773718 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
28 18 0.24
29 56 0.75
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:88773692 original size:58 final size:58
Alignment explanation
Indices: 88773593--88773704 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
88773583 ATATTCACAT
* * * *
88773593 ACCTGTATTTGGCCCATTAAAGCCCAATCATATTCATATGGCTCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
88773651 ACCTATATATGGCCCATT-AGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
88773705 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
57 5 0.11
58 41 0.89
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:88779409 original size:64 final size:64
Alignment explanation
Indices: 88779324--88779559 Score: 289
Period size: 64 Copynumber: 3.7 Consensus size: 64
88779314 AGACATTATG
*
88779324 ATGTTGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
88779388 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
* * * * * * *
88779452 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGATACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGGGA
*
88779516 TAA
62 TAT
* * * *
88779519 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGT
88779560 GTAAAGAGAG
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
63 8 0.05
64 86 0.58
65 4 0.03
66 18 0.12
67 32 0.22
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
Found at i:88781080 original size:13 final size:13
Alignment explanation
Indices: 88781060--88781093 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
88781050 CACACAGGCA
88781060 GAGACACGACTTT
1 GAGACACGACTTT
*
88781073 GGGACACGACTTT
1 GAGACACGACTTT
88781086 GAGACACG
1 GAGACACG
88781094 TGCGTGTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (13 bp):
GAGACACGACTTT
Found at i:88781901 original size:29 final size:28
Alignment explanation
Indices: 88781817--88781930 Score: 133
Period size: 28 Copynumber: 4.0 Consensus size: 28
88781807 TACCTGTATC
* *
88781817 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
88781845 TGGCTCATTA-GCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
*
88781873 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
88781902 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
88781930 T
1 T
88781931 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
27 4 0.05
28 40 0.53
29 31 0.41
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:88781911 original size:57 final size:57
Alignment explanation
Indices: 88781808--88781917 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 57
88781798 AAATTCACAT
* * * *
88781808 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGCTCATTA-GCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* *
88781864 ACCTATATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCATTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
88781918 GTCACATTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
56 21 0.46
57 20 0.43
58 5 0.11
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:88782880 original size:21 final size:21
Alignment explanation
Indices: 88782855--88782901 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
88782845 TTGAAAAGAA
88782855 AAAGGTTTTCGACTTTTGGAG
1 AAAGGTTTTCGACTTTTGGAG
88782876 AAAGGTTTTCGACTTTTGGAG
1 AAAGGTTTTCGACTTTTGGAG
88782897 AAAGG
1 AAAGG
88782902 GGTCTCTGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.34
Consensus pattern (21 bp):
AAAGGTTTTCGACTTTTGGAG
Found at i:88786614 original size:54 final size:54
Alignment explanation
Indices: 88786433--88786614 Score: 152
Period size: 55 Copynumber: 3.4 Consensus size: 54
88786423 TGTCTTGACG
* * * * *
88786433 TGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCAAC-ATCTCCATGCCTTAGCA
1 TGGTCTTACATGGTATCCTTGCCTTATAAAACTTAACAAT-GCCATGCCTTGGCA
* * * ** * * *
88786486 TGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACA
1 TGGTCTTACATGGTATCCTTGCCTTATA-AAACTTAACAATGCCATGCCTTGGCA
* * * * * *
88786541 TCGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTTGGCT
1 TGGTCTTACATGGTATCCTTGCCTTATAAAACTTAACAATGCCATGCCTTGGCA
*
88786595 TGGTCTTACTTGGTATCCTT
1 TGGTCTTACATGGTATCCTT
88786615 AAACCCTAAT
Statistics
Matches: 97, Mismatches: 29, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
53 24 0.25
54 35 0.36
55 36 0.37
56 2 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
TGGTCTTACATGGTATCCTTGCCTTATAAAACTTAACAATGCCATGCCTTGGCA
Found at i:88789012 original size:16 final size:16
Alignment explanation
Indices: 88788991--88789023 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
88788981 CTGACAGATC
88788991 AAGCATCTAGAAACAA
1 AAGCATCTAGAAACAA
88789007 AAGCATCTAGAAACAA
1 AAGCATCTAGAAACAA
88789023 A
1 A
88789024 CTCTGAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (16 bp):
AAGCATCTAGAAACAA
Found at i:88793928 original size:40 final size:40
Alignment explanation
Indices: 88793871--88794073 Score: 201
Period size: 40 Copynumber: 5.1 Consensus size: 40
88793861 TGAATGATAC
88793871 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
*
88793911 CTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * ** *
88793951 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * ** *
88793991 CCGGGTTAAGACCCGAA-GCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * *
88794030 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
88794070 CCGG
1 CCGG
88794074 TTAAATTCGA
Statistics
Matches: 144, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 39 0.27
40 105 0.73
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:88794072 original size:79 final size:80
Alignment explanation
Indices: 88793871--88794077 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 80
88793861 TGAATGATAC
* * * * *
88793871 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCTGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTA
* ** *
88793936 TGCTAGTGATTATAT
66 TGCAAGTGACCAAAT
* * ** * *
88793951 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAA-GCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTA
*
88794015 TGCAAGTTACCAAAT
66 TGCAAGTGACCAAAT
* * * *
88794030 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGTTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAA
88794078 ATTCGAAGAA
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
78 6 0.06
79 49 0.48
80 47 0.46
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCATTTA
TGCAAGTGACCAAAT
Found at i:88802074 original size:40 final size:40
Alignment explanation
Indices: 88802019--88802222 Score: 250
Period size: 40 Copynumber: 5.1 Consensus size: 40
88802009 TGAATGATAC
* *
88802019 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
88802059 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
88802099 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * **
88802139 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCGA-AT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TTATAT
* * * *
88802179 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
88802219 CCGG
1 CCGG
88802223 TTAAATTCCG
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:88807937 original size:20 final size:20
Alignment explanation
Indices: 88807912--88807951 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
88807902 ACTAAATTTA
*
88807912 ATAAATTGTTAAACTTGAGT
1 ATAAATTGTGAAACTTGAGT
88807932 ATAAATTGTGAAACTTGAGT
1 ATAAATTGTGAAACTTGAGT
88807952 TCTAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (20 bp):
ATAAATTGTGAAACTTGAGT
Found at i:88813457 original size:40 final size:40
Alignment explanation
Indices: 88813412--88813579 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
88813402 CGGAATATAA
88813412 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88813452 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
88813492 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
88813532 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
88813572 CCGGATAT
1 CCGGATAT
88813580 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88821466 original size:40 final size:40
Alignment explanation
Indices: 88821421--88821587 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
88821411 CGGAATATAA
88821421 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88821461 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88821501 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
88821541 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88821580 CCGGATAT
1 CCGGATAT
88821588 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88821571 original size:80 final size:79
Alignment explanation
Indices: 88821437--88821585 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
88821427 ATAATCACGT
* *
88821437 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
88821502 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
88821517 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
88821580 CCGGAT
64 CCGGAT
88821586 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:88823903 original size:29 final size:30
Alignment explanation
Indices: 88823870--88823936 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 30
88823860 ATCCCAAAAA
88823870 ATAAAAATTTGATTTGATCATTT-AAAATT
1 ATAAAAATTTGATTTGATCATTTAAAAATT
88823899 ATAAAAATTTGATTTGATCATTTAAAAATT
1 ATAAAAATTTGATTTGATCATTTAAAAATT
88823929 ATAAAAAT
1 ATAAAAAT
88823937 ATAGACTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (30 bp):
ATAAAAATTTGATTTGATCATTTAAAAATT
Found at i:88824930 original size:40 final size:40
Alignment explanation
Indices: 88824885--88825051 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
88824875 CGGAATATAA
88824885 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88824925 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
88824965 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
88825005 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88825044 CCGGATAT
1 CCGGATAT
88825052 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88825035 original size:80 final size:79
Alignment explanation
Indices: 88824901--88825049 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
88824891 ATAATCACGT
* *
88824901 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
88824966 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
88824981 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
88825044 CCGGAT
64 CCGGAT
88825050 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:88826539 original size:29 final size:29
Alignment explanation
Indices: 88826449--88826608 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
88826439 ACTCGATTTC
* * **
88826449 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
88826478 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
88826506 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
88826536 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
88826565 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
88826594 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
88826609 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:88834654 original size:29 final size:29
Alignment explanation
Indices: 88834622--88834694 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
88834612 CTTCGAGCTC
*
88834622 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
88834651 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
88834680 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
88834695 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:88837378 original size:25 final size:25
Alignment explanation
Indices: 88837349--88837396 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88837339 TTATAATATG
* * *
88837349 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88837374 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88837397 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88837447 original size:9 final size:9
Alignment explanation
Indices: 88837435--88837491 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
88837425 TTTGATAAAC
88837435 ATGATATGT
1 ATGATATGT
*
88837444 ATGATATGCAC
1 ATGATATG--T
*
88837455 ATGACATGT
1 ATGATATGT
*
88837464 ATGATATGCAC
1 ATGATATG--T
88837475 ATGATATGT
1 ATGATATGT
88837484 ATGATATG
1 ATGATATG
88837492 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:88837458 original size:20 final size:20
Alignment explanation
Indices: 88837433--88837503 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
88837423 ATTTTGATAA
88837433 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88837453 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88837473 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88837493 ACATGAGATGT
1 ACATGATATGT
88837504 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88837480 original size:11 final size:11
Alignment explanation
Indices: 88837444--88837498 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
88837434 CATGATATGT
88837444 ATGATATGCAC
1 ATGATATGCAC
* *
88837455 ATGACATG--T
1 ATGATATGCAC
88837464 ATGATATGCAC
1 ATGATATGCAC
*
88837475 ATGATATG--T
1 ATGATATGCAC
88837484 ATGATATGCAC
1 ATGATATGCAC
88837495 ATGA
1 ATGA
88837499 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88837580 original size:23 final size:23
Alignment explanation
Indices: 88837550--88837716 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
88837540 AGGAAGTGCA
88837550 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
88837573 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
88837597 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
88837620 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
88837644 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
88837667 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
88837690 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
88837714 AAA
1 AAA
88837717 AGAGGCTAGG
Statistics
Matches: 136, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
23 70 0.51
24 66 0.49
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:88837605 original size:24 final size:23
Alignment explanation
Indices: 88837549--88837723 Score: 269
Period size: 24 Copynumber: 7.4 Consensus size: 23
88837539 GAGGAAGTGC
88837549 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
88837572 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
88837595 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
88837619 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
88837642 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
88837666 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
88837690 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
88837714 AAAAGAGGCT
1 AAAAG-GGCT
88837724 AGGCCTCCAA
Statistics
Matches: 141, Mismatches: 7, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
23 65 0.46
24 72 0.51
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:88837617 original size:47 final size:47
Alignment explanation
Indices: 88837548--88837716 Score: 320
Period size: 47 Copynumber: 3.6 Consensus size: 47
88837538 GGAGGAAGTG
88837548 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
88837595 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
88837642 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
88837689 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
88837717 AGAGGCTAGG
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:88838782 original size:31 final size:31
Alignment explanation
Indices: 88838703--88838782 Score: 151
Period size: 31 Copynumber: 2.6 Consensus size: 31
88838693 GGGTGTTACA
*
88838703 CACTGGGCCGAAGCCTTCTCATAAATCATAT
1 CACTGGGCCGAAGCCTTTTCATAAATCATAT
88838734 CACTGGGCCGAAGCCTTTTCATAAATCATAT
1 CACTGGGCCGAAGCCTTTTCATAAATCATAT
88838765 CACTGGGCCGAAGCCTTT
1 CACTGGGCCGAAGCCTTT
88838783 ACTGTAAACG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
CACTGGGCCGAAGCCTTTTCATAAATCATAT
Found at i:88838857 original size:42 final size:42
Alignment explanation
Indices: 88838806--88838939 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
88838796 TGGCCCTTAG
*
88838806 GCCCATTTCAATATCACATGTAATGTCAATGGATGTGTGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
88838848 GCCTATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
*
88838890 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
88838932 GCCCATTT
1 GCCCATTT
88838940 GGGGAGACTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
Found at i:88839132 original size:26 final size:25
Alignment explanation
Indices: 88839087--88839156 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
88839077 CTCTTTTAAT
*
88839087 AACTGGGCCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
88839112 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
88839137 AACTAGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
88839157 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 36 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:88839995 original size:27 final size:27
Alignment explanation
Indices: 88839965--88840029 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
88839955 AGGCATATTC
88839965 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
88839992 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
88840019 GTCTTTTTACC
1 GTCATTTTACC
88840030 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:88840113 original size:27 final size:27
Alignment explanation
Indices: 88840061--88840377 Score: 280
Period size: 27 Copynumber: 11.7 Consensus size: 27
88840051 TTCATCCTAC
* * *
88840061 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** *
88840088 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
88840115 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
* **
88840143 CAAGGGTATTTTTGTAATTTTTTAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
88840170 CAGGGATATTTTGGTAATTTTACAAATT
1 AAGGG-TATTTTGGTAATTTTACAAACT
* ** * *
88840198 GAGGGTATTTCAGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
*
88840225 AATGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
88840252 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
88840279 GAGGGTATTTTGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
88840305 CAGTGGTATTTCGATAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
88840333 ATGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
88840360 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
88840378 CTATCCTATA
Statistics
Matches: 231, Mismatches: 51, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
26 6 0.03
27 192 0.83
28 21 0.09
29 12 0.05
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:88840263 original size:81 final size:81
Alignment explanation
Indices: 88840147--88840357 Score: 316
Period size: 81 Copynumber: 2.6 Consensus size: 81
88840137 GAAAGTCAAG
* ** *
88840147 GGTATTTTTGTAATTTTTTAAA-TCAGGGATATTTTGGTAATTTTACAAATTGAGGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAG
88840211 TAATTTCACAAACCAAT
65 TAATTTCACAAACCAAT
**
88840228 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGT
*
88840293 AATTTCACAAACCAGT
66 AATTTCACAAACCAAT
* * *
88840309 GGTATTTCGATAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAA
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
88840358 CTAGGGGTAT
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
81 118 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGT
AATTTCACAAACCAAT
Found at i:88840366 original size:81 final size:81
Alignment explanation
Indices: 88840171--88840377 Score: 326
Period size: 81 Copynumber: 2.6 Consensus size: 81
88840161 TTTTTAAATC
* ** *
88840171 AGGGATATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAATGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAATGGTATTTC
*
88840236 GGTAATTTTACAAACT
66 GATAATTTTACAAACT
*
88840252 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAATGGTATTTC
88840317 GATAATTTTACAAACT
66 GATAATTTTACAAACT
* *
88840333 ATGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTTGGTAATT
88840378 CTATCCTATA
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 1 0.01
81 116 0.99
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAATGGTATTTC
GATAATTTTACAAACT
Found at i:88840393 original size:54 final size:53
Alignment explanation
Indices: 88840146--88840405 Score: 252
Period size: 54 Copynumber: 4.8 Consensus size: 53
88840136 AGAAAGTCAA
* ** * *
88840146 GGGTATTTTTGTAATTTTTTAAATCAGGGATATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACTAG
** * * **
88840199 AGGGTATTTCAGTAATTTCACAAACCAATGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACTAG
* * *
88840254 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATAG-GGGTATTTTGGTAATTTTACAAACTAG
* * * *
88840308 TGGTATTTCGATAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACTAG
* ** **
88840362 GGGTATTTTGGTAATTCTATCCTATAGGGGTATTTCAGTAATTT
1 GGGTATTTTGGTAATTTTA-CAAATAGGGGTATTTTGGTAATTT
88840406 CATAATCGAG
Statistics
Matches: 166, Mismatches: 35, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
54 161 0.97
55 5 0.03
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATAGGGGTATTTTGGTAATTTTACAAACTAG
Found at i:88840443 original size:27 final size:27
Alignment explanation
Indices: 88840409--88840606 Score: 204
Period size: 27 Copynumber: 7.3 Consensus size: 27
88840399 GTAATTTCAT
*
88840409 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* * *
88840436 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGATAATTCTGTA
*
88840463 AATAGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
* * *
88840490 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
* * *
88840517 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
* * *
88840544 AATCGAGGGTGAAACAATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
88840571 AATCGAGGGTAAAATGGTAATTCT-TCA
1 AATCGAGGGTAAAACGATAATTCTGT-A
88840598 AATCGAGGG
1 AATCGAGGG
88840607 CATTTCAGTA
Statistics
Matches: 142, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 140 0.99
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:88840601 original size:81 final size:81
Alignment explanation
Indices: 88840409--88840594 Score: 266
Period size: 81 Copynumber: 2.3 Consensus size: 81
88840399 GTAATTTCAT
* * * * * *
88840409 AATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATAGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-AAGGGTAAAACGGTAATTTTGTAAATAGAGGGT
* *
88840473 AAAACAGTAATTCTGTA
65 AAAACAATAATTCTATA
* *
88840490 AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATAGAGGGTA
88840555 AAACAATAATTCTATA
66 AAACAATAATTCTATA
88840571 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAATGGTAATTCT
88840595 TCAAATCGAG
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 93 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATAGAGGGTA
AAACAATAATTCTATA
Found at i:88840618 original size:81 final size:81
Alignment explanation
Indices: 88840452--88840626 Score: 235
Period size: 81 Copynumber: 2.2 Consensus size: 81
88840442 GGGTAAAATG
* *
88840452 GTAATTTTGTAAATAGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATAGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
* *
88840517 AATCAAGGGTAAAACG
66 AATCAAGGGCAAAACA
* *
88840533 GTAATTTTGTAAATCGAGGGTGAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCT-TC
1 GTAATTTTGTAAATAGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTAT-
* ***
88840597 AAATCGAGGGCATTTCA
65 AAATCAAGGGCAAAACA
*
88840614 GTAATTTGGTAAA
1 GTAATTTTGTAAA
88840627 CTAAAGTATT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 81 0.99
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATAGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCAAGGGCAAAACA
Found at i:88844399 original size:40 final size:40
Alignment explanation
Indices: 88844344--88844480 Score: 224
Period size: 40 Copynumber: 3.5 Consensus size: 40
88844334 CGGATGATAA
88844344 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
88844384 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
88844424 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
88844464 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
88844481 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
38 1 0.01
39 13 0.14
40 77 0.85
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:88849446 original size:43 final size:42
Alignment explanation
Indices: 88849398--88849518 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
88849388 ACCGAGATGT
*
88849398 GATTACATGTAAGACCATGTCTGGGACATTGGCA-TCATTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGA-T-ATGC
* * * *
88849441 GATTACGTGTAAGACCCTGTTTGGGACAGTGGCATTGATATGT
1 GATTACATGTAAGACCATGTCTGGGACA-TGGCATTGATATGC
* * *
88849484 GATAACATGTAAGACCATATCTGGGATATGGCATT
1 GATTACATGTAAGACCATGTCTGGGACATGGCATT
88849519 CTACGAGCTA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
42 9 0.14
43 53 0.83
44 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATGGCATTGATATGC
Found at i:88853883 original size:40 final size:39
Alignment explanation
Indices: 88853724--88853863 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
88853714 GGACTAAGAT
* *
88853724 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGAGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
*
88853763 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
** * *
88853802 CCGAAGGCATTTATGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAG-C
88853842 CCGAAGGCATTCGTGCGAGTTA
1 CCGAAGGCATTCGTGCGAGTTA
88853864 CTATAACCGG
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 71 0.77
40 21 0.23
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGTTAAGC
Done.