Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold77
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1619719
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 197531 characters in sequence are not A, C, G, or T
File 5 of 4
Found at i:1246280 original size:174 final size:174
Alignment explanation
Indices: 1246033--1246444 Score: 516
Period size: 174 Copynumber: 2.4 Consensus size: 174
1246023 AAAATCTGGT
* ** * *
1246033 TGCATGGTTATGATGTCCATGTAGCCCTCTACCAAAATTGCGAACTTCATGACCCCTGGGTCAGG
1 TGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGCGAAATTCATGACCCCTGGGTCAGG
* * *
1246098 GTTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTATTAAATCTAATATACTA
66 GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTATTAAATCTAAGATAATA
1246163 ATCTTCTCTACTCCCATATATATGTGTTAAAAACTACCGGTAAA
131 ATCTTCTCTACTCCCATATATATGTGTTAAAAACTACCGGTAAA
* * * *
1246207 TGCATGATTATGATGTCCATAAAGCCCTCTACGAAACCTGTGAAATTCACT-ACCCCTGTGTCAG
1 TGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGCGAAATTCA-TGACCCCTGGGTCAG
* * *
1246271 GGGTTCAGGCTTTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTGTTAAATCTTAGATAAT
65 GGGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTATTAAATCTAAGATAAT
** *
1246336 CTTCTTCTCTACTCCCATATATATTTGTT-AAAA--A-C--TAAA
130 AATCTTCTCTACTCCCATATATATGTGTTAAAAACTACCGGTAAA
* * * * * * * * *
1246375 TGCCTGGTTATAATGTCCATGAAG-CCTGTACCAAAATTGAGAAATTCATGACCCCTGTGTGAGG
1 TGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGCGAAATTCATGACCCCTGGGTCAGG
1246439 GGTTCA
66 GGTTCA
1246445 TGACATGGAG
Statistics
Matches: 208, Mismatches: 28, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
166 1 0.00
167 38 0.18
168 24 0.12
170 1 0.00
171 1 0.00
173 4 0.02
174 138 0.66
175 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (174 bp):
TGCATGATTATGATGTCCATAAAGCCCTCTACCAAAACTGCGAAATTCATGACCCCTGGGTCAGG
GGTTCAGGCTCTAGGGTGGGGCCAATATGGCCATATAGTTAAAATGTATTAAATCTAAGATAATA
ATCTTCTCTACTCCCATATATATGTGTTAAAAACTACCGGTAAA
Found at i:1247967 original size:2 final size:2
Alignment explanation
Indices: 1247962--1248006 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1247952 AGCACTGTTG
1247962 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1248004 CT C
1 CT C
1248007 CTGACAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1249652 original size:27 final size:27
Alignment explanation
Indices: 1249622--1249771 Score: 113
Period size: 27 Copynumber: 5.4 Consensus size: 27
1249612 CCAAACATTT
* *
1249622 TCTGTATAATAACACAGCTTAATGTCA
1 TCTGTATAATAACACACCTTAATGTCC
** * * *
1249649 TCTGTATAATATTAAACTTTTATTGTCC
1 TCTGTATAATAACACAC-CTTAATGTCC
*
1249677 TCTGTAATACTAGTAACACACCTTAATGATCA
1 TCTGT-ATA--A-TAACACACCTTAATG-TCC
* * *
1249709 T-TGTATAATAACACACTTTTATGCCC
1 TCTGTATAATAACACACCTTAATGTCC
* * *
1249735 TTTGCATAATAACACACCTGAATGTCC
1 TCTGTATAATAACACACCTTAATGTCC
1249762 TCTGTATAAT
1 TCTGTATAAT
1249772 CACGTCTGAG
Statistics
Matches: 92, Mismatches: 24, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
26 2 0.02
27 54 0.59
28 13 0.14
29 3 0.03
30 3 0.03
31 9 0.10
32 8 0.09
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (27 bp):
TCTGTATAATAACACACCTTAATGTCC
Found at i:1251437 original size:2 final size:2
Alignment explanation
Indices: 1251430--1251473 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1251420 AAATTAAAAA
1251430 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1251472 TC
1 TC
1251474 CTACTTACGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1253008 original size:13 final size:13
Alignment explanation
Indices: 1252970--1253010 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
1252960 CCTCAGACGG
*
1252970 TCCTCACGCCTAC
1 TCCTCACGCCTAT
*
1252983 TCCTCAGGCCTAT
1 TCCTCACGCCTAT
1252996 TCCTCACGCCTAT
1 TCCTCACGCCTAT
1253009 TC
1 TC
1253011 TCGTTTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.46, G:0.10, T:0.29
Consensus pattern (13 bp):
TCCTCACGCCTAT
Found at i:1254454 original size:33 final size:34
Alignment explanation
Indices: 1254391--1254466 Score: 118
Period size: 33 Copynumber: 2.2 Consensus size: 34
1254381 GATATACAAT
*
1254391 ACAAAGTCCTATACACAAGGGGTGTTTCATACTAA
1 ACAAAGTCCTATACACAA-GGGTGTGTCATACTAA
*
1254426 ACAAAGTCCTATACACAA-GGTGTGTCATACTAT
1 ACAAAGTCCTATACACAAGGGTGTGTCATACTAA
1254459 ACAAAGTC
1 ACAAAGTC
1254467 ATACATTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 21 0.54
35 18 0.46
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (34 bp):
ACAAAGTCCTATACACAAGGGTGTGTCATACTAA
Found at i:1254756 original size:39 final size:39
Alignment explanation
Indices: 1254714--1254853 Score: 262
Period size: 39 Copynumber: 3.6 Consensus size: 39
1254704 TGCATTCAGG
* *
1254714 TTATGACATACAATACATAGTCCTATATATACACTAAAG
1 TTATGACATACAATATATAGTCCTATATATACACTAAAC
1254753 TTATGACATACAATATATAGTCCTATATATACACTAAAC
1 TTATGACATACAATATATAGTCCTATATATACACTAAAC
1254792 TTATGACATACAATATATAGTCCTATATATACACTAAAC
1 TTATGACATACAATATATAGTCCTATATATACACTAAAC
1254831 TTATGACATACAATATATAGTCC
1 TTATGACATACAATATATAGTCC
1254854 GATAAAGATT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (39 bp):
TTATGACATACAATATATAGTCCTATATATACACTAAAC
Found at i:1255054 original size:35 final size:35
Alignment explanation
Indices: 1255010--1255112 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 35
1255000 GGTGACGTAT
* * *
1255010 AATAAAAAGTCCTATACACTTAAGTTATGACATAC
1 AATACAAAGTCCTATACACTAAAGTTGTGACATAC
* * * *
1255045 GATAGAAAGTACTATACTA-TCAAGTTGTGACATAC
1 AATACAAAGTCCTATAC-ACTAAAGTTGTGACATAC
* *
1255080 AATACAAAGTCCCATACACAAAAGTTGTGACAT
1 AATACAAAGTCCTATACACTAAAGTTGTGACAT
1255113 GCCATACTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
34 1 0.02
35 53 0.96
36 1 0.02
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (35 bp):
AATACAAAGTCCTATACACTAAAGTTGTGACATAC
Found at i:1258652 original size:15 final size:15
Alignment explanation
Indices: 1258632--1258666 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1258622 TTTTGATATC
*
1258632 TGATTTTAGAAAATG
1 TGATTTTAGAAAATA
1258647 TGATTTTAGAAAATA
1 TGATTTTAGAAAATA
1258662 TGATT
1 TGATT
1258667 GCCTCATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
TGATTTTAGAAAATA
Found at i:1259560 original size:41 final size:41
Alignment explanation
Indices: 1259515--1259748 Score: 441
Period size: 41 Copynumber: 5.7 Consensus size: 41
1259505 TGTATTCAGT
*
1259515 TGATAGACAGTTGAATATTGTACCTGTATACACTATACAGC
1 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
*
1259556 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGT
1 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
*
1259597 TGATAGACAGTTGAATATTGTACCTGTATACACTATACAGC
1 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
1259638 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
1 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
1259679 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
1 TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
1259720 TGATAGACAGGTGAATATTGTACCTGTAT
1 TGATAGACAGGTGAATATTGTACCTGTAT
1259749 CCAGCAGACA
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 188 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (41 bp):
TGATAGACAGGTGAATATTGTACCTGTATACACTATACAGC
Found at i:1259687 original size:123 final size:123
Alignment explanation
Indices: 1259475--1259748 Score: 454
Period size: 123 Copynumber: 2.3 Consensus size: 123
1259465 TGTACCTGTG
* * *
1259475 TACAGCTGATAGACAGGTGAATATTATACCTG--T--A-T-T-CAGTTGATAGACAGTTGAATAT
1 TACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTATACAGCTGATAGACAGGTGAATAT
1259533 TGTACCTGTATACACTATACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTA
66 TGTACCTGTATACACTATACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTA
* *
1259591 TACAGTTGATAGACAGTTGAATATTGTACCTGTATACACTATACAGCTGATAGACAGGTGAATAT
1 TACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTATACAGCTGATAGACAGGTGAATAT
1259656 TGTACCTGTATACACTATACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTA
66 TGTACCTGTATACACTATACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTA
1259714 TACAGCTGATAGACAGGTGAATATTGTACCTGTAT
1 TACAGCTGATAGACAGGTGAATATTGTACCTGTAT
1259749 CCAGCAGACA
Statistics
Matches: 144, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
116 29 0.20
118 1 0.01
120 1 0.01
121 1 0.01
122 1 0.01
123 111 0.77
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (123 bp):
TACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTATACAGCTGATAGACAGGTGAATAT
TGTACCTGTATACACTATACAGCTGATAGACAGGTGAATATTGTACCTGTATACACTA
Found at i:1259799 original size:34 final size:34
Alignment explanation
Indices: 1259712--1259800 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
1259702 CTGTATACAC
* *
1259712 TATACAGCTGATAGACAGGTGAATATTGTACCTG
1 TATACAGCTGATAGACAGGTAAAAATTGTACCTG
* * * *
1259746 TATCCAGCAGACAGACAGGTAAAAATTGTACCTT
1 TATACAGCTGATAGACAGGTAAAAATTGTACCTG
* *
1259780 TATACAGCTGATGGGCAGGTA
1 TATACAGCTGATAGACAGGTA
1259801 CAATGTTTAC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (34 bp):
TATACAGCTGATAGACAGGTAAAAATTGTACCTG
Found at i:1261871 original size:33 final size:33
Alignment explanation
Indices: 1261829--1262391 Score: 799
Period size: 33 Copynumber: 17.2 Consensus size: 33
1261819 AAAACTTTTG
* * *
1261829 CTGTTGTGAGGGGATGCTCTGATTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1261862 CTGTTGTGAGGGGATATTCCGCTTGGCGTAGT-
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1261894 C--TTGTGAGGAGATTCTCCGCTTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
1261925 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1261958 CTGTTGTGAGGGGATACTCCGCTTGGTGTAGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* * * *
1261991 TTGTTGTGAGGAGATTCTCTGCTTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
*
1262024 CTGTTGTGAGGGGATACTCCGCTTGGTGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1262057 TTGTTGTGAGGGGATACTCCGCTTGGTGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* * *
1262090 TTGTTGTGAGGGGATACTCCGCTTGGTGTAGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
*
1262123 TTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
*
1262156 CTGTTGTGAGGGGATACTCCGCTTGGTGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1262189 TTGTTGTGAGGGGATACTCCGCTTGGTGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1262222 TTGTTGTGAGGGGATACTCCACTTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1262255 CTGTTGTGAGGGGATACTCCGCTTGGCCTGGTG
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* * *
1262288 TTGTTGTGAGGAGATTCTCCGCTTGGCGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
*
1262321 CTGTTGTGAGGGGATACTCCGCTTGGTGTGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
* *
1262354 TTGTTGTGAGGGGATACTCCGCTTGGCATGGTC
1 CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
*
1262387 TTGTT
1 CTGTT
1262392 TGGTTTGTTG
Statistics
Matches: 478, Mismatches: 49, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
30 25 0.05
31 1 0.00
32 1 0.00
33 451 0.94
ACGTcount: A:0.10, C:0.18, G:0.38, T:0.34
Consensus pattern (33 bp):
CTGTTGTGAGGGGATACTCCGCTTGGCGTGGTC
Found at i:1264908 original size:50 final size:50
Alignment explanation
Indices: 1264851--1264946 Score: 183
Period size: 50 Copynumber: 1.9 Consensus size: 50
1264841 AAAAGCTTCT
1264851 TTTTTTCATATTAAAATTATTTCGAACAAATTTAGTAGCAAATAAGCGTC
1 TTTTTTCATATTAAAATTATTTCGAACAAATTTAGTAGCAAATAAGCGTC
*
1264901 TTTTTTCATATTAAAATTATTTCGAACAAATTTAGTAGTAAATAAG
1 TTTTTTCATATTAAAATTATTTCGAACAAATTTAGTAGCAAATAAG
1264947 GGTAGTTGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (50 bp):
TTTTTTCATATTAAAATTATTTCGAACAAATTTAGTAGCAAATAAGCGTC
Found at i:1271147 original size:67 final size:66
Alignment explanation
Indices: 1271043--1271172 Score: 179
Period size: 67 Copynumber: 2.0 Consensus size: 66
1271033 TGGAATGATC
*
1271043 CAAGATGTTTGATTCCTTTTCTGGATAATGTTTGATATCTATTCTATCGGTATAAACAAGTACAA
1 CAAGATGTTTGATTCCTTTTCTGGATAATGTATGATATCTATTCTATCGGTATAAACAAGTACAA
1271108 A
66 A
* * * * * * *
1271109 CAAGATGTTTGGTGTCTTTTTTTGGATAATGTATGATATTTGTTCTATCTGTATAAACAGGTAC
1 CAAGATGTTTGAT-TCCTTTTCTGGATAATGTATGATATCTATTCTATCGGTATAAACAAGTAC
1271173 CGTCGGCTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
66 12 0.22
67 43 0.78
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (66 bp):
CAAGATGTTTGATTCCTTTTCTGGATAATGTATGATATCTATTCTATCGGTATAAACAAGTACAA
A
Found at i:1276820 original size:16 final size:16
Alignment explanation
Indices: 1276799--1276843 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1276789 AAAGCTGGAG
*
1276799 AAAACGTACCTAAGAA
1 AAAACGTACCCAAGAA
* *
1276815 AAAACGTACCCAGGAG
1 AAAACGTACCCAAGAA
1276831 AAAACGTACCCAA
1 AAAACGTACCCAA
1276844 TTCCTAGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.09
Consensus pattern (16 bp):
AAAACGTACCCAAGAA
Found at i:1277822 original size:20 final size:20
Alignment explanation
Indices: 1277799--1277939 Score: 239
Period size: 20 Copynumber: 7.0 Consensus size: 20
1277789 TACATCATTT
1277799 CTACAAACAATACAATATCA
1 CTACAAACAATACAATATCA
1277819 CTACAAACAATACAATA-CAAA
1 CTACAAACAATACAATATC--A
* *
1277840 CAATAAACAATACAATATCA
1 CTACAAACAATACAATATCA
1277860 CTACAAACAATACAATATCA
1 CTACAAACAATACAATATCA
1277880 CTACAAACAATACAATATCA
1 CTACAAACAATACAATATCA
1277900 CTACAAACAATACAATATCA
1 CTACAAACAATACAATATCA
1277920 CTACAAACAATACAATATCA
1 CTACAAACAATACAATATCA
1277940 ATTGATAGGA
Statistics
Matches: 114, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
19 1 0.01
20 96 0.84
21 16 0.14
22 1 0.01
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (20 bp):
CTACAAACAATACAATATCA
Found at i:1277866 original size:27 final size:25
Alignment explanation
Indices: 1277821--1277871 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
1277811 CAATATCACT
1277821 ACAAACAATACAATACAAACAATAA
1 ACAAACAATACAATACAAACAATAA
*
1277846 ACAATACAATATCACTACAAACAATA
1 ACAA-ACAATA-CAATACAAACAATA
1277872 CAATATCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.17
26 6 0.26
27 13 0.57
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.16
Consensus pattern (25 bp):
ACAAACAATACAATACAAACAATAA
Found at i:1281365 original size:15 final size:15
Alignment explanation
Indices: 1281345--1281373 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1281335 TGTAACATAG
1281345 ATACAGGTGTGTTAT
1 ATACAGGTGTGTTAT
1281360 ATACAGGTGTGTTA
1 ATACAGGTGTGTTA
1281374 AATCCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (15 bp):
ATACAGGTGTGTTAT
Found at i:1283430 original size:39 final size:39
Alignment explanation
Indices: 1283374--1283986 Score: 838
Period size: 39 Copynumber: 15.7 Consensus size: 39
1283364 AGACAGCGCA
* * * *
1283374 TCATGTCACAGGAACGCAAGTCCAAAAGTAAGCTATAAC
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* * *
1283413 TCATGTCACAGGGACGCAATTCCAAAAGTAAACTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* *
1283452 TCATGTCACAGGGACGCATGTCCAAAAGTTAGCTCTAAC
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* *
1283491 TCATGTCACAGGGACGCAAGCCCTAAAGTTAGCTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* *
1283530 TCATGTCACAGGGATGCATGTCCAAAAGTTAGCTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
*
1283569 TCATGTCACAGGGACGCATGTCCAAAAGTTAGCTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
***
1283608 TCATGTCACAGGCTTTGCAAGTCCAAAAGTTAGCTCTAAT
1 TCATGTCACAGG-GACGCAAGTCCAAAAGTTAGCTCTAAT
* * * * *
1283648 TCATGTCACAGGGAAGCATGTCCAAAAGTAAGCTGTAAC
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* *
1283687 TCATGTCAAAGGGACGCAAGTCCAAAAGTTAGCTCTAAC
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* * * *
1283726 TCATGTCACAGGGACACAAGTCCAAAAGTAAGCTGTAAC
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
*
1283765 TCATGTCAAAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
*
1283804 TCATGTCAAAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* *
1283843 TCATGTCACAGGGACGCATGTCC-AAA-TAAGCTCTAAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
* *
1283880 TCATGTCACAGGGACGCATGGT-AAAAAGTTAGCTCTAAT
1 TCATGTCACAGGGACGCA-AGTCCAAAAGTTAGCTCTAAT
* *
1283919 TCATGTCAAAGGGACGCAAGTCCAAAAGTTTGCTAC-AAT
1 TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCT-CTAAT
*
1283958 TCATTTCACAGGGACGCAAGTCCAAAAGT
1 TCATGTCACAGGGACGCAAGTCCAAAAGT
1283987 ATGATATAAA
Statistics
Matches: 512, Mismatches: 56, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
37 28 0.05
38 10 0.02
39 438 0.86
40 36 0.07
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (39 bp):
TCATGTCACAGGGACGCAAGTCCAAAAGTTAGCTCTAAT
Found at i:1288641 original size:29 final size:28
Alignment explanation
Indices: 1288599--1288684 Score: 118
Period size: 29 Copynumber: 3.0 Consensus size: 28
1288589 GGTAGTGTAC
1288599 AGGCTAGTGTACATGCTGACTATTGTTGG
1 AGGCTAGTGTACATGC-GACTATTGTTGG
*
1288628 AGGCTAGTGTACATGCCAGCTATTGTTGG
1 AGGCTAGTGTACATGCGA-CTATTGTTGG
* *
1288657 AGGCTAGTGTACGTGCCGGCTATTGTTG
1 AGGCTAGTGTACATG-CGACTATTGTTG
1288685 AGTTAATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.02
29 49 0.96
30 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (28 bp):
AGGCTAGTGTACATGCGACTATTGTTGG
Found at i:1299325 original size:48 final size:48
Alignment explanation
Indices: 1299254--1299374 Score: 233
Period size: 48 Copynumber: 2.5 Consensus size: 48
1299244 AGTGTGTAGG
1299254 CCATTACAACCACTTGTCTGAGGCCTATAGCAACTACTACTCAGAAAC
1 CCATTACAACCACTTGTCTGAGGCCTATAGCAACTACTACTCAGAAAC
1299302 CCATTACAACCACTTGTCTGAGGCCTATAGCAACTACTACTCAGAAAC
1 CCATTACAACCACTTGTCTGAGGCCTATAGCAACTACTACTCAGAAAC
*
1299350 CCATTACAACCACTAGTCTGAGGCC
1 CCATTACAACCACTTGTCTGAGGCC
1299375 CATTACAACC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.32, C:0.32, G:0.13, T:0.22
Consensus pattern (48 bp):
CCATTACAACCACTTGTCTGAGGCCTATAGCAACTACTACTCAGAAAC
Found at i:1299364 original size:24 final size:24
Alignment explanation
Indices: 1299284--1299387 Score: 84
Period size: 24 Copynumber: 4.3 Consensus size: 24
1299274 AGGCCTATAG
*
1299284 CAACTACTACTCAGAAACCCATTA
1 CAACCACTACTCAGAAACCCATTA
** * ** *
1299308 CAACCACTTGTCTGAGGCCTA-TA
1 CAACCACTACTCAGAAACCCATTA
*
1299331 GCAACTACTACTCAGAAACCCATTA
1 -CAACCACTACTCAGAAACCCATTA
* * **
1299356 CAACCACTAGTCTGAGGCCCATTA
1 CAACCACTACTCAGAAACCCATTA
1299380 CAACCACT
1 CAACCACT
1299388 TGTCGGAAGC
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
23 2 0.03
24 55 0.93
25 2 0.03
ACGTcount: A:0.35, C:0.34, G:0.11, T:0.21
Consensus pattern (24 bp):
CAACCACTACTCAGAAACCCATTA
Found at i:1309016 original size:220 final size:219
Alignment explanation
Indices: 1308634--1309072 Score: 869
Period size: 220 Copynumber: 2.0 Consensus size: 219
1308624 NNNNNNNGCG
1308634 TCACGCTAACACCACTTCACACAACTCACCGTCGCAATGTTATACAACGAGCCGTGCATCCCGTT
1 TCACGCTAACACCACTTCACACAACTCACCGTCGCAATGTTATACAACGAGCCGTGCATCCCGTT
1308699 AATGCGTAAAAATCGTAACAGTGTGTGTTTGAATTTATGAAAGCGCGATGGTGTGCGGTGCAAAG
66 AATGCGTAAAAATCGTAACAGTGTGTGTTTGAATTTATGAAAGCGCGATGGTGTGCGGTGCAAAG
1308764 TTGTCTCGGTGCGACGGCGATTTTTTTTCTGGACGCGCTTTATGCCTTTGCAATGGTCAAATCCT
131 TTGTCTCGGTGCGACGGCGATTTTTTTTCTGGACGCGCTTTATGCCTTTGCAATGGTCAAATCCT
1308829 TACACGAACACCATAGTCACTTCT
196 TACACGAACACCATAGTCACTTCT
1308853 NTCACGCTAACACCACTTCACACAACTCACCGTCGCAATGTTATACAACGAGCCGTGCATCCCGT
1 -TCACGCTAACACCACTTCACACAACTCACCGTCGCAATGTTATACAACGAGCCGTGCATCCCGT
1308918 TAATGCGTAAAAATCGTAACAGTGTGTGTTTGAATTTATGAAAGCGCGATGGTGTGCGGTGCAAA
65 TAATGCGTAAAAATCGTAACAGTGTGTGTTTGAATTTATGAAAGCGCGATGGTGTGCGGTGCAAA
1308983 GTTGTCTCGGTGCGACGGCGATTTTTTTTCTGGACGCGCTTTATGCCTTTGCAATGGTCAAATCC
130 GTTGTCTCGGTGCGACGGCGATTTTTTTTCTGGACGCGCTTTATGCCTTTGCAATGGTCAAATCC
1309048 TTACACGAACACCATAGTCACTTCT
195 TTACACGAACACCATAGTCACTTCT
1309073 AAACCAGTCT
Statistics
Matches: 219, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 219 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (219 bp):
TCACGCTAACACCACTTCACACAACTCACCGTCGCAATGTTATACAACGAGCCGTGCATCCCGTT
AATGCGTAAAAATCGTAACAGTGTGTGTTTGAATTTATGAAAGCGCGATGGTGTGCGGTGCAAAG
TTGTCTCGGTGCGACGGCGATTTTTTTTCTGGACGCGCTTTATGCCTTTGCAATGGTCAAATCCT
TACACGAACACCATAGTCACTTCT
Found at i:1322775 original size:47 final size:47
Alignment explanation
Indices: 1322704--1322801 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
1322694 TTATTCATTA
* *
1322704 TTTGATTGACATACGGGTATACCGGTATGTAGTTAACAGTGGTGTGT
1 TTTGATTGACATACGGGTACACCGGTATGTAGATAACAGTGGTGTGT
*
1322751 TTTGATTGATATACGGGTACACCGGTATGTAGATAACAGTGGTGTGT
1 TTTGATTGACATACGGGTACACCGGTATGTAGATAACAGTGGTGTGT
1322798 TTTG
1 TTTG
1322802 GTGACTGGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.37
Consensus pattern (47 bp):
TTTGATTGACATACGGGTACACCGGTATGTAGATAACAGTGGTGTGT
Found at i:1332374 original size:2 final size:2
Alignment explanation
Indices: 1332369--1332408 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1332359 CAATAACACA
1332369 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1332409 GGCTCATCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1334949 original size:2 final size:2
Alignment explanation
Indices: 1334944--1334987 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1334934 GTGTGTGTGT
1334944 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1334986 GA
1 GA
1334988 AATAGATTGT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1340453 original size:15 final size:16
Alignment explanation
Indices: 1340406--1340456 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
1340396 TCTAGTATTT
1340406 CGAAGGTTCATTAGTC
1 CGAAGGTTCATTAGTC
** *
1340422 CGAAGGCCCACTAGTC
1 CGAAGGTTCATTAGTC
1340438 CGAA-GTTCATTAGTC
1 CGAAGGTTCATTAGTC
1340453 CGAA
1 CGAA
1340457 ACTCGATGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (16 bp):
CGAAGGTTCATTAGTC
Found at i:1340728 original size:2 final size:2
Alignment explanation
Indices: 1340721--1340748 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1340711 ACTTCCCCAC
1340721 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1340749 ATCATCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1342452 original size:163 final size:164
Alignment explanation
Indices: 1342040--1342453 Score: 446
Period size: 165 Copynumber: 2.5 Consensus size: 164
1342030 ACCTCGGGGG
* * * * * * * * *
1342040 ATCATGATTTTAACAACCTAGAAGCTATACTACC-CGAGGATGCTTCCACACGAGTTTCACCTTT
1 ATCATGATTTGAACAAACTAGAAACTACACTACCTGGA-GATGCTTCCACACAAATCTCAGCTTT
* * * *
1342104 TCTGGCCGATTGGTTTTTGAAAATATTTTTAAAGATTTATCTCTTATATATTCCTATGTAAAAAT
65 TCTGGCC-ATTGGTTTTTGAGAAGATTTTAAAAGATTTATCTCTTATATATTCCAATGTAAAAAT
* * *
1342169 TTAACCCCTCATGGTGGCCCCATCATACCCACAATT
129 TGAACCCCTCATGGTGGCCCCATCATACACACAATA
* * * *
1342205 ATCATGTTTTGAACAAACTAGAATCTATACTACCTGGAGATGCTTCCACACAAGTCTCAGCTTTT
1 ATCATGATTTGAACAAACTAGAAACTACACTACCTGGAGATGCTTCCACACAAATCTCAGCTTTT
* *
1342270 CTGGACCATTGGTTTTTGAGAAGATTTTAAAAGATTTTTCTC-TATATATTCCAATGTAAATATT
66 CTGG-CCATTGGTTTTTGAGAAGATTTTAAAAGATTTATCTCTTATATATTCCAATGTAAAAATT
* * *
1342334 CGACCCCCT-GTGGTGGCCCCA-CTGTACAC-CAATA
130 -GAACCCCTCATGGTGGCCCCATC-ATACACACAATA
* * * *
1342368 ATCATGATTTGAACAAATTTGAAACTACACTA-CTGGAGGATGTTTCCATACAAAT-TACAGCTT
1 ATCATGATTTGAACAAACTAGAAACTACACTACCTGGA-GATGCTTCCACACAAATCT-CAGCTT
1342431 TTCTGGCCAATTGGTTTTTGAGA
64 TTCTGGCC-ATTGGTTTTTGAGA
1342454 TTTGTTTAAA
Statistics
Matches: 214, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
162 8 0.04
163 72 0.34
164 35 0.16
165 95 0.44
166 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (164 bp):
ATCATGATTTGAACAAACTAGAAACTACACTACCTGGAGATGCTTCCACACAAATCTCAGCTTTT
CTGGCCATTGGTTTTTGAGAAGATTTTAAAAGATTTATCTCTTATATATTCCAATGTAAAAATTG
AACCCCTCATGGTGGCCCCATCATACACACAATA
Found at i:1342781 original size:30 final size:30
Alignment explanation
Indices: 1342747--1342840 Score: 82
Period size: 30 Copynumber: 3.1 Consensus size: 30
1342737 TGTCAGATCA
*
1342747 AACATATGTACACCAAAATCTGTCTTATCC
1 AACATATGTACACAAAAATCTGTCTTATCC
* * * *
1342777 AACATGTGTGCAGTAAAAAT-TGTTTTATCC
1 AACATATGTACA-CAAAAATCTGTCTTATCC
* * ** *
1342807 AACCTATGTAGAGTAAAACCTGTCTTATCC
1 AACATATGTACACAAAAATCTGTCTTATCC
1342837 AACA
1 AACA
1342841 AACTGTAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
29 4 0.08
30 39 0.81
31 5 0.10
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (30 bp):
AACATATGTACACAAAAATCTGTCTTATCC
Found at i:1343418 original size:30 final size:30
Alignment explanation
Indices: 1343379--1343632 Score: 140
Period size: 30 Copynumber: 8.4 Consensus size: 30
1343369 AAAACATGCC
1343379 GTAAAACCTGTCTTATCTGACAACTGTACA
1 GTAAAACCTGTCTTATCTGACAACTGTACA
* *** *
1343409 GTCAAACCTGTCTTATCTGA-TGGTCATACA
1 GTAAAACCTGTCTTATCTGACAACT-GTACA
* **
1343439 TTAAAACCTGTCTTATCTGACAACTGTATG
1 GTAAAACCTGTCTTATCTGACAACTGTACA
* * ****
1343469 GTCAAATCTGTCTTATCTGATGGTTGTACA
1 GTAAAACCTGTCTTATCTGACAACTGTACA
* *
1343499 TTAAAACCTGTCTTTTCTGACAACTGGTA-A
1 GTAAAACCTGTCTTATCTGACAACT-GTACA
* * * * **
1343529 TTAAAGCTTGTCATT-TCTGAC-ATTACACA
1 GTAAAACCTGTC-TTATCTGACAACTGTACA
* * * *
1343558 GTGAAACCTGTCTAATCT-AAAACATGTTCA
1 GTAAAACCTGTCTTATCTGACAAC-TGTACA
* * *
1343588 GTGAAAAATCCTGTCTAATCTGACATCTTTACA
1 GT--AAAA-CCTGTCTTATCTGACAACTGTACA
*
1343621 GTAAAACATGTC
1 GTAAAACCTGTC
1343633 CAATGTAACA
Statistics
Matches: 161, Mismatches: 51, Indels: 24
0.68 0.22 0.10
Matches are distributed among these distances:
28 3 0.02
29 16 0.10
30 108 0.67
31 10 0.06
32 3 0.02
33 18 0.11
34 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (30 bp):
GTAAAACCTGTCTTATCTGACAACTGTACA
Found at i:1343473 original size:60 final size:60
Alignment explanation
Indices: 1343380--1343524 Score: 236
Period size: 60 Copynumber: 2.4 Consensus size: 60
1343370 AAACATGCCG
1343380 TAAAACCTGTCTTATCTGACAACTGTACAGTCAAACCTGTCTTATCTGATGGTCATACAT
1 TAAAACCTGTCTTATCTGACAACTGTACAGTCAAACCTGTCTTATCTGATGGTCATACAT
** * **
1343440 TAAAACCTGTCTTATCTGACAACTGTATGGTCAAATCTGTCTTATCTGATGGTTGTACAT
1 TAAAACCTGTCTTATCTGACAACTGTACAGTCAAACCTGTCTTATCTGATGGTCATACAT
*
1343500 TAAAACCTGTCTTTTCTGACAACTG
1 TAAAACCTGTCTTATCTGACAACTG
1343525 GTAATTAAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (60 bp):
TAAAACCTGTCTTATCTGACAACTGTACAGTCAAACCTGTCTTATCTGATGGTCATACAT
Found at i:1345193 original size:30 final size:30
Alignment explanation
Indices: 1344043--1345186 Score: 1696
Period size: 30 Copynumber: 38.2 Consensus size: 30
1344033 TTAATATAAA
*
1344043 AACTGCACAGTATAACCAGTCTATTCTAAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* * *
1344073 AACAGTACAGTATAACCAATCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344103 AACTGTACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344133 AACTGTACAGTACAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344163 AACTGCACAGTACAACCAGTCAATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344193 AACTGCACAGTACAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344223 AACTGCACAGTACAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344253 AACTGCACAGTAGAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* * *
1344283 AACTGCACAGTATTAGCAGTCTACTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344313 AACTGCACAGTATAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344343 AACTGCACAGTATAAACAGTCTACTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344373 AACTGCACAGTATAAACAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
1344403 AACTGCACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344433 AACTGTACAGTATAACCAGTCAATT-TGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
**
1344462 AACTGTGCAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344492 AACTGCACAGTATAACCAATCTATTCTGAT
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* * *
1344522 AACTGTACAGTACAACCAGTCTATTCTTAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344552 AACTGCACAGTACAACCAGTTTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344582 AACTGGACAGTATAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344612 AACTGCACAGTACAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344642 AACTGCACAGTAGAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344672 AACTGCACAGTACAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344702 AACTGCACAGTATAAACAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344732 AACTGCACAGTACAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344762 AACTGCACAGTATAAGCAGTCTATACTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344792 AACTGTACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344822 AACTGTACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344852 AACTGTACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344882 AACTGCACAGTATAACCAATCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344912 AACTGTACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
*
1344942 AACTGTACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1344972 AACTGGACAGTATAACCAGTTTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1345002 AACTGTACAGTAAAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1345032 AACTGTACAGTATAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1345062 AACTGTACAGTATAAGCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* *
1345092 AACTGGACAGTATAACCAGTGTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
* * *
1345122 AAATGGACAGTATAACCAGTTTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
**
1345152 AACTATACAGTATAACCAGTCTATTCTGAC
1 AACTGCACAGTATAACCAGTCTATTCTGAC
1345182 AACTG
1 AACTG
1345187 TGCAGTAAAC
Statistics
Matches: 1035, Mismatches: 78, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 0.03
30 1008 0.97
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (30 bp):
AACTGCACAGTATAACCAGTCTATTCTGAC
Found at i:1350305 original size:283 final size:285
Alignment explanation
Indices: 1349807--1350416 Score: 982
Period size: 283 Copynumber: 2.1 Consensus size: 285
1349797 TATTCTCGCT
* *
1349807 CTCTCTATATATACTCCTGTTATTGGCATCGCGATGCTAATAATTTCCAGCCATTTCGGATGAAC
1 CTCTCTATATATACTCCTGTTATTAGCATCGCGATGCTAATAATTTCCAGCCATTTAGGATGAAC
*
1349872 TGAACACTCTGTAATAGTGACATCCCCCCCAAAAAAACAAGCCCCAGGTTTTTTTTCTGATGGAC
66 TGAACAC-CTGTAATACTGACATCCCCCCCAAAAAAACAAGCCCCAGGTTTTTTTTCTGATGGAC
*
1349937 CCCCCAAAGAAACCCTCTTTCCCGGGAATACTTCCCTTCGCGGAGTTTTTATAATGATTTCTTAA
130 CCCCCAAAGAAACCCTCTTTCCCGGGAATACTTCCCCTCGCGGAGTTTTTATAATGATTTCTTAA
*
1350002 CATCGTCTCTCTATATATACTCCTGTTATTGGCATCGCGATGCTAATAATTTCTAGCCATTTAAG
195 CATCGTCTCTCTATATATACTCCTGTTATTGGCATCGCGATGCTAATAATTTCCAGCCATTTAAG
* *
1350067 AGTG-A-AT-A-GA-TATCATTCTCG
260 AGTGAATATAACGACAATCATTCTCC
*
1350088 CTCTCTATATATACTCCTGTTATTAGCATCGCGATGCTAATAATTTCCAGCTTTATTTAGGATGA
1 CTCTCTATATATACTCCTGTTATTAGCATCGCGATGCTAATAATTTCCAGC--CATTTAGGATGA
1350153 ACTGAACA-CTGTAATACTGACATCCCCCCCAAAAAAACCAAGCCCCA-GTTTTTTTTCTGATGG
64 ACTGAACACCTGTAATACTGACATCCCCCCCAAAAAAA-CAAGCCCCAGGTTTTTTTTCTGATGG
1350216 ACCCCCCCCAAAGAAACCCTCTTTCCCGGGAATACTTCCCCTCGCGGAGTTTTTATAATGATTTC
128 A--CCCCCCAAAGAAACCCTCTTTCCCGGGAATACTTCCCCTCGCGGAGTTTTTATAATGATTTC
1350281 TTAACATCGTCTCTCTATATATACTCCTGTTATTGGCATCGCGATGCTAATAATTTCCAGCCATT
191 TTAACATCGTCTCTCTATATATACTCCTGTTATTGGCATCGCGATGCTAATAATTTCCAGCCATT
* *
1350346 TCAGAGTGAATATATAGACGGACGAATTATTCTCC
256 TAAGAGTG-A-ATATA-AC-GAC-AATCATTCTCC
1350381 CTCTCTATATATACTCCTGTTATTAGCATCGCGATG
1 CTCTCTATATATACTCCTGTTATTAGCATCGCGATG
1350417 TCAATAACAG
Statistics
Matches: 304, Mismatches: 10, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
281 95 0.31
282 9 0.03
283 150 0.49
286 1 0.00
287 2 0.01
289 1 0.00
291 2 0.01
293 44 0.14
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (285 bp):
CTCTCTATATATACTCCTGTTATTAGCATCGCGATGCTAATAATTTCCAGCCATTTAGGATGAAC
TGAACACCTGTAATACTGACATCCCCCCCAAAAAAACAAGCCCCAGGTTTTTTTTCTGATGGACC
CCCCAAAGAAACCCTCTTTCCCGGGAATACTTCCCCTCGCGGAGTTTTTATAATGATTTCTTAAC
ATCGTCTCTCTATATATACTCCTGTTATTGGCATCGCGATGCTAATAATTTCCAGCCATTTAAGA
GTGAATATAACGACAATCATTCTCC
Found at i:1355450 original size:135 final size:134
Alignment explanation
Indices: 1355028--1355575 Score: 553
Period size: 135 Copynumber: 4.0 Consensus size: 134
1355018 CAATTCAGAT
* * * * * * *
1355028 GGGTAGGGATCTTGACCATTTTCAAGT-TATTTGCGCACTTCTTGTTTGAGGGGGGCCAGGACCA
1 GGGTGGGGATCTTAACCGTTTTCAA-TATATTCGTGCACTTCCTGTTTGAGGGGGGTCAGGACCA
* * * * * * * *
1355092 CCCCAGGTCCAATGACCTACAAACCATGTGATTCCCCTTCACTCAAGGAACAAGAATATATTTGG
65 CCCCAGGGCCCATGACCAACATACCATGTGATGCCCCTTAACACAAGGAACAAGAATATATATGG
1355157 TTTAG
130 TTTAG
** * * *
1355162 GGGTGGGGATCTCGACCGTTTTGAAGATATTCGTGCACTTCCTGTTTGAGGGGGGTCAGGACAAC
1 GGGTGGGGATCTTAACCGTTTTCAATATATTCGTGCACTTCCTGTTTGAGGGGGGTCAGGACCAC
* * * * **
1355227 CCCAGGGCCCATTACCTACGTATACATACCATTTGATGCCCCCTAAAACATTGAACAAGAATATA
66 CCCAGGGCCCATGA-C--C--A-ACATACCATGTGATGCCCCTTAACACAAGGAACAAGAATATA
1355292 TATGGTTTAG
125 TATGGTTTAG
* * * * * *
1355302 GGGTGGGGTTCTTAACCGTTTTTAATATATTCGGGCACTTCCTGTTTGAGAGGGTTTAGGACCAC
1 GGGTGGGGATCTTAACCGTTTTCAATATATTCGTGCACTTCCTGTTTGAGGGGGGTCAGGACCAC
* * *
1355367 CCACAGGGCCCATGACCAACATACCACT-TGATGCCACTTGACACAAGGAACAAAAATATATATG
66 CC-CAGGGCCCATGACCAACATACCA-TGTGATGCCCCTTAACACAAGGAACAAGAATATATATG
*
1355431 GTTAAG
129 GTTTAG
* * ** *
1355437 GGGTGGGGATCTTAACCATTTTCAAGT-TATTTGTGCACTTCCTGTTTGAGGCAGGTCAGGACTA
1 GGGTGGGGATCTTAACCGTTTTCAA-TATATTCGTGCACTTCCTGTTTGAGGGGGGTCAGGACCA
* ** * *
1355501 CCCCCGCGGCCCATGACTTACATACCATGTGATTCCCCTTAACACATGGAACAAGAATATATATG
65 CCCCAG-GGCCCATGACCAACATACCATGTGATGCCCCTTAACACAAGGAACAAGAATATATATG
*
1355566 GTTTGG
129 GTTTAG
1355572 GGGT
1 GGGT
1355576 CAGAATTCTA
Statistics
Matches: 338, Mismatches: 64, Indels: 23
0.80 0.15 0.05
Matches are distributed among these distances:
134 68 0.20
135 154 0.46
136 3 0.01
137 1 0.00
138 1 0.00
140 100 0.30
141 11 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (134 bp):
GGGTGGGGATCTTAACCGTTTTCAATATATTCGTGCACTTCCTGTTTGAGGGGGGTCAGGACCAC
CCCAGGGCCCATGACCAACATACCATGTGATGCCCCTTAACACAAGGAACAAGAATATATATGGT
TTAG
Found at i:1370625 original size:10 final size:10
Alignment explanation
Indices: 1370598--1370634 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1370588 TTCTTCGTAG
1370598 TAGAAAAA-A
1 TAGAAAAAGA
1370607 TAG-AAAAGA
1 TAGAAAAAGA
1370616 TAGAAAAAGA
1 TAGAAAAAGA
*
1370626 CAGAAAAAG
1 TAGAAAAAG
1370635 TCGCTTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
8 4 0.16
9 7 0.28
10 14 0.56
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (10 bp):
TAGAAAAAGA
Found at i:1370794 original size:27 final size:27
Alignment explanation
Indices: 1370752--1371312 Score: 734
Period size: 27 Copynumber: 20.7 Consensus size: 27
1370742 AATATTGCAT
1370752 TCGAGCACTCGG-GGATTTGTCCTGTAG
1 TCGAGCACT-GGAGGATTTGTCCTGTAG
*
1370779 TCGAGCACTGGAGGATTTGTCCTGTTG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
* *
1370806 TCGAGCACTGGAGAATTTGTCCTGTTG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
* *
1370833 TCGAGCACTGGAGAATTTTGTCTTGTAG
1 TCGAGCACTGGAGGA-TTTGTCCTGTAG
*
1370861 TCGAGCACTGGAGGATTTGTCCTGTTG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
**
1370888 TCGAGCACTACAGGATTTGTCCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
**
1370915 TCGAGCACTGGTCGATTTGTCCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
1370942 TCGAGCACTGGAGGATTTGTCCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
* * *
1370969 TCAAGCACTGGAGGATGTGTCCCGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
* * *** *
1370996 TAGAGGACTACCGGATTTGTCCTGTAA
1 TCGAGCACTGGAGGATTTGTCCTGTAG
*
1371023 TCGAGCACTGGGGGATTTGTCCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
*
1371050 TCGAGCACTGGAGGATTTGTCCTGTTG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
* *
1371077 TCAAGCTCTGGAGGATTTGTCCTGTTA-
1 TCGAGCACTGGAGGATTTGTCCTG-TAG
*
1371104 TCGAGCACTGGAGGATTTGTCTTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
*
1371131 TCGAGCACTGGAGGATTTGTCCTGTTG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
**
1371158 TCGAGCACTACAGGATTTGTCCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
** *
1371185 TCGAGCACTGGTCGATTTGTTCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
1371212 TCGAGCACTGGAGGATTTGTCCTGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
* * *
1371239 TCAAGCACTGGAGGATGTGTCCCGTAG
1 TCGAGCACTGGAGGATTTGTCCTGTAG
*
1371266 TCGAGCAC--GACCGGATTTGTCCTGTAA
1 TCGAGCACTGGA--GGATTTGTCCTGTAG
*
1371293 TCGAGCACTGGGGGATTTGT
1 TCGAGCACTGGAGGATTTGT
1371313 NNNNNNNNNN
Statistics
Matches: 463, Mismatches: 63, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
25 2 0.00
26 4 0.01
27 431 0.93
28 25 0.05
29 1 0.00
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (27 bp):
TCGAGCACTGGAGGATTTGTCCTGTAG
Found at i:1397698 original size:22 final size:22
Alignment explanation
Indices: 1397672--1397752 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
1397662 TAGACATTTT
* *
1397672 CTCGTAATTATGAGATAATTAA
1 CTCGTAATAACGAGATAATTAA
* **
1397694 CTCGTAATAACGAGAT-CTTTT
1 CTCGTAATAACGAGATAATTAA
*
1397715 CTCGTAATAACAAGATAATTAA
1 CTCGTAATAACGAGATAATTAA
1397737 CTCGTAATAACGAGAT
1 CTCGTAATAACGAGAT
1397753 CTTTTTTCGT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 17 0.35
22 31 0.65
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (22 bp):
CTCGTAATAACGAGATAATTAA
Found at i:1397720 original size:21 final size:21
Alignment explanation
Indices: 1397694--1397773 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 21
1397684 AGATAATTAA
1397694 CTCGTAATAACGAGATCTTTT
1 CTCGTAATAACGAGATCTTTT
* * **
1397715 CTCGTAATAACAAGATAATTAA
1 CTCGTAATAACGAGAT-CTTTT
1397737 CTCGTAATAACGAGATCTTTT
1 CTCGTAATAACGAGATCTTTT
* *
1397758 TTCGTAATTACGAGAT
1 CTCGTAATAACGAGAT
1397774 AAAAATAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 31 0.65
22 17 0.35
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (21 bp):
CTCGTAATAACGAGATCTTTT
Found at i:1397731 original size:43 final size:43
Alignment explanation
Indices: 1397668--1397775 Score: 180
Period size: 43 Copynumber: 2.5 Consensus size: 43
1397658 TAAATAGACA
*
1397668 TTTTCTCGTAATTATGAGATAATTAACTCGTAATAACGAGATC
1 TTTTCTCGTAATTACGAGATAATTAACTCGTAATAACGAGATC
* *
1397711 TTTTCTCGTAATAACAAGATAATTAACTCGTAATAACGAGATC
1 TTTTCTCGTAATTACGAGATAATTAACTCGTAATAACGAGATC
*
1397754 TTTTTTCGTAATTACGAGATAA
1 TTTTCTCGTAATTACGAGATAA
1397776 AAATAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (43 bp):
TTTTCTCGTAATTACGAGATAATTAACTCGTAATAACGAGATC
Found at i:1403204 original size:22 final size:21
Alignment explanation
Indices: 1403169--1403232 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
1403159 TAGTGTACTG
*
1403169 TTATTGCTGATGTTTACTGATA
1 TTATTGCTGTTG-TTACTGATA
*
1403191 TTATTACTGTTGTTACT-A-A
1 TTATTGCTGTTGTTACTGATA
*
1403210 TAATTGCTGTTGGTT-CTGATA
1 TTATTGCTGTT-GTTACTGATA
1403231 TT
1 TT
1403233 TCCTGACATT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
19 12 0.35
20 5 0.15
21 7 0.21
22 10 0.29
ACGTcount: A:0.22, C:0.09, G:0.17, T:0.52
Consensus pattern (21 bp):
TTATTGCTGTTGTTACTGATA
Found at i:1428115 original size:24 final size:23
Alignment explanation
Indices: 1428071--1428115 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1428061 ATAACTCAAA
*
1428071 TCTTATGACAATCTTAAGACATG
1 TCTTATGAAAATCTTAAGACATG
*
1428094 TCTTATGATAAATCTTATGACA
1 TCTTATGA-AAATCTTAAGACA
1428116 GCTTTGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (23 bp):
TCTTATGAAAATCTTAAGACATG
Found at i:1428207 original size:13 final size:13
Alignment explanation
Indices: 1428186--1428217 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1428176 TGTAAAAGTA
*
1428186 GTCCGGGACATAT
1 GTCCCGGACATAT
1428199 GTCCCGGACATAT
1 GTCCCGGACATAT
1428212 GTCCCG
1 GTCCCG
1428218 TGATGTCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.31, G:0.28, T:0.22
Consensus pattern (13 bp):
GTCCCGGACATAT
Found at i:1432572 original size:22 final size:22
Alignment explanation
Indices: 1432544--1432587 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1432534 CAGGCCTCGT
*
1432544 CATCACCGGAATTTTTTGGAAC
1 CATCACCGGAATTTGTTGGAAC
1432566 CATCACCGGAATTTGTTGGAAC
1 CATCACCGGAATTTGTTGGAAC
1432588 AACTATTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (22 bp):
CATCACCGGAATTTGTTGGAAC
Found at i:1434709 original size:12 final size:12
Alignment explanation
Indices: 1434679--1434712 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1434669 GTTACCCTGT
*
1434679 TCCGTCCGTCCA
1 TCCGTCTGTCCA
1434691 TCCGTCTGTCCA
1 TCCGTCTGTCCA
*
1434703 TTCGTCTGTC
1 TCCGTCTGTC
1434713 ACGTTTTACT
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:0.06, C:0.41, G:0.18, T:0.35
Consensus pattern (12 bp):
TCCGTCTGTCCA
Found at i:1440581 original size:172 final size:172
Alignment explanation
Indices: 1440295--1440919 Score: 1126
Period size: 172 Copynumber: 3.6 Consensus size: 172
1440285 TCACACTTTT
1440295 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * *
1440360 CCACTATTACCTTGGTCAAGTTCGAAAATCAGCATTGGTCAATACTTTTTGTTGGAGTTATGGGA
66 CCACTAATACCTTGGTCAAGTTCAAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
1440425 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
*
1440467 TTGTAAGCCCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1440532 CCACTAATACCTTGGTCAAGTTCAAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
66 CCACTAATACCTTGGTCAAGTTCAAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
*
1440597 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACA
131 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
* * * *
1440639 TTGTAGGCACTCTCATGCCTACAAATTTTAAGGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
*
1440704 CCACTAATACCTTGGTCAAGTTCAAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGAA
66 CCACTAATACCTTGGTCAAGTTCAAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
1440769 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
*
1440811 TTGTAAGCGCTCTCATGCTTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
*
1440876 CCACTAATACCTTGGTCAAGTTCATAAATCAGGC-TTGGTCGATA
66 CCACTAATACCTTGGTCAAGTTCAAAAATCA-GCATTGGTCGATA
1440920 GACTCGATAC
Statistics
Matches: 435, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
172 433 1.00
173 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (172 bp):
TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
CCACTAATACCTTGGTCAAGTTCAAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
CTTTGACCACAATAATGACTCCGTTTTATCCAAAAATTGACC
Found at i:1446661 original size:19 final size:18
Alignment explanation
Indices: 1446622--1446658 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1446612 TTTCAGATGC
*
1446622 TGGAGGAGGTAAAAGTTT
1 TGGAGAAGGTAAAAGTTT
*
1446640 TGGAGAAGGTTAAAGTTT
1 TGGAGAAGGTAAAAGTTT
1446658 T
1 T
1446659 TGGTGCCTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (18 bp):
TGGAGAAGGTAAAAGTTT
Found at i:1453007 original size:16 final size:17
Alignment explanation
Indices: 1452967--1453009 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1452957 TAAATAATGA
1452967 ACAATTTATTAAAAATAT
1 ACAA-TTATTAAAAATAT
*
1452985 ATCAATTATTAATAATAT
1 A-CAATTATTAAAAATAT
1453003 A-AATTAT
1 ACAATTAT
1453010 ATACATGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
18 14 0.61
19 3 0.13
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
ACAATTATTAAAAATAT
Found at i:1456853 original size:2 final size:2
Alignment explanation
Indices: 1456846--1456892 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1456836 CATAAACATG
1456846 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1456888 AC AC A
1 AC AC A
1456893 TATATATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1462093 original size:16 final size:16
Alignment explanation
Indices: 1462068--1462108 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1462058 TACAGTCAAG
*
1462068 TCGTACACAGACCAAC
1 TCGTATACAGACCAAC
**
1462084 TCGTATACAGGTCAAC
1 TCGTATACAGACCAAC
1462100 TCGTATACA
1 TCGTATACA
1462109 AAATTTTCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (16 bp):
TCGTATACAGACCAAC
Found at i:1465183 original size:15 final size:15
Alignment explanation
Indices: 1465163--1465191 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1465153 TCTTTGATGA
1465163 TATGTGCAATTAAAG
1 TATGTGCAATTAAAG
1465178 TATGTGCAATTAAA
1 TATGTGCAATTAAA
1465192 AATCGCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (15 bp):
TATGTGCAATTAAAG
Found at i:1469999 original size:12 final size:12
Alignment explanation
Indices: 1469982--1470009 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1469972 CATGATAAAT
1469982 ATAAATAAATAG
1 ATAAATAAATAG
1469994 ATAAATAAATAG
1 ATAAATAAATAG
1470006 ATAA
1 ATAA
1470010 TTAATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (12 bp):
ATAAATAAATAG
Found at i:1472376 original size:2 final size:2
Alignment explanation
Indices: 1472371--1472424 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1472361 GAGTATATAA
1472371 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1472413 TG TG TG TG TG TG
1 TG TG TG TG TG TG
1472425 AAAGTGACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1473822 original size:3 final size:3
Alignment explanation
Indices: 1473814--1473844 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1473804 CGAGGTAAAT
1473814 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1473845 AAAACATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1474283 original size:18 final size:18
Alignment explanation
Indices: 1474260--1474299 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1474250 TAAAAATAAA
*
1474260 TCAGGTCAGCTCAAATTT
1 TCAGGTCAACTCAAATTT
*
1474278 TCAGGTCAATTCAAATTT
1 TCAGGTCAACTCAAATTT
1474296 TCAG
1 TCAG
1474300 ATCTTTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (18 bp):
TCAGGTCAACTCAAATTT
Found at i:1491362 original size:111 final size:111
Alignment explanation
Indices: 1491209--1492370 Score: 1821
Period size: 111 Copynumber: 10.5 Consensus size: 111
1491199 AAAAAGTATC
* * * * *
1491209 ATAAGTGTCACACCAAGTGCTAGCACAATTAATGACA-AAAAAATTGGTAAATTGACCAATGCTC
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAA-TGATGAATTGAACAATGCTC
* * *
1491273 ATTGTCATGACACTAATGAAACGCATGATATAGATAATCAAACAGCA
65 ATTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
*
1491320 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGACCAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
** *
1491385 TTATCGTGACATTAATGAAACGCATGATATAGATAATCAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
* *
1491431 ATAAGTGTCACTCCAAGTAGTAGCACAA-TAATTGACACAAAAAATGATGAACTGAACAATGCTC
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAA-TGACACAAAAAATGATGAATTGAACAATGCTC
* *
1491495 ATTATCAAGACACTAATGAAACGCATGGTATTGATAA-CAAACAACA
65 ATTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
1491541 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
*** * *
1491606 TTATTTTGACACCAATGAAACGCATGATATAGATAATGAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
*
1491652 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAGTTGAACAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
* *
1491717 TTATCAAGACACTAATGAAACGCATGATAAAGATAATGAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
*
1491763 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAAAAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
** * *
1491828 TTATCGTGACATTAATGAAACGCATGATATAGATAATGAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
*
1491874 ATAAGTGTCACTCCAAGTAGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
* *
1491939 TTATCAAGACACTAATGAAACGCATGATAAAGATAATGAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
1491985 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
** *
1492050 TTATCGTGACATTAATGAAACGCATGATATAGATAATCAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
* *
1492096 ATAAGTGTCACTCCAAGTAGTAGCACAA-TAATTGACACAAAAAATGATGAACTGAACAATGCTC
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAA-TGACACAAAAAATGATGAATTGAACAATGCTC
* *
1492160 ATTATCAAGACACTAATGAAACGCATGGTATTGATAA-CAAAACAACA
65 ATTATCAAGACACTAATGAAACGCATGATATAGATAATC-AAACAACA
* * *
1492207 ATAAGTGTCACCCCAAGTGGTTGCACAATTAATGACACAAAAAATGATGAATTGACCAATGCTCA
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
*
1492272 TTATCAAGACACTAATGAAACGCATGATATAGATAATGAAACAACA
66 TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
* * * * *
1492318 ATAAGTGTCACTCCAGGTGGTAACACAATTATTGACACAAACAATGGTGAATT
1 ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATT
1492371 AAGCGATTAC
Statistics
Matches: 972, Mismatches: 71, Indels: 16
0.92 0.07 0.02
Matches are distributed among these distances:
110 105 0.11
111 858 0.88
112 9 0.01
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (111 bp):
ATAAGTGTCACTCCAAGTGGTAGCACAATTAATGACACAAAAAATGATGAATTGAACAATGCTCA
TTATCAAGACACTAATGAAACGCATGATATAGATAATCAAACAACA
Found at i:1492645 original size:12 final size:12
Alignment explanation
Indices: 1492630--1492654 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1492620 TTGTAAAAAA
1492630 AAAAAAAAAATT
1 AAAAAAAAAATT
1492642 AAAAAAAAAATT
1 AAAAAAAAAATT
1492654 A
1 A
1492655 TAATATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAAAATT
Found at i:1493966 original size:12 final size:11
Alignment explanation
Indices: 1493931--1493962 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1493921 AGCAATTTCC
*
1493931 AAGTCAACCCA
1 AAGTAAACCCA
1493942 AAGTAAACCCA
1 AAGTAAACCCA
1493953 AAGTAAACCC
1 AAGTAAACCC
1493963 CAAATGGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.50, C:0.31, G:0.09, T:0.09
Consensus pattern (11 bp):
AAGTAAACCCA
Found at i:1498024 original size:18 final size:18
Alignment explanation
Indices: 1497988--1498025 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
1497978 TATTTTCAAA
1497988 CCATAAGCTTTGTATCTT
1 CCATAAGCTTTGTATCTT
1498006 CCNATAAGCTTTG-ATCTT
1 CC-ATAAGCTTTGTATCTT
1498024 CC
1 CC
1498026 GACAACAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.39
Consensus pattern (18 bp):
CCATAAGCTTTGTATCTT
Found at i:1499197 original size:2 final size:2
Alignment explanation
Indices: 1499192--1499232 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1499182 AATATATATA
* * *
1499192 TG TG TG TG TG TT TG TG TG TG TG CG AG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1499233 TATTTGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.02, C:0.02, G:0.46, T:0.49
Consensus pattern (2 bp):
TG
Found at i:1505167 original size:12 final size:12
Alignment explanation
Indices: 1505150--1505174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1505140 AACTTATATA
1505150 TATTATGAATTT
1 TATTATGAATTT
1505162 TATTATGAATTT
1 TATTATGAATTT
1505174 T
1 T
1505175 CGTGCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTATGAATTT
Found at i:1511637 original size:2 final size:2
Alignment explanation
Indices: 1511630--1511679 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1511620 CATAGGATAG
1511630 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1511672 GA GA GA GA
1 GA GA GA GA
1511680 TTATTGTACC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1512584 original size:2 final size:2
Alignment explanation
Indices: 1512577--1512614 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1512567 CGAATAATAT
1512577 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1512615 TCAGCTGAAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1514470 original size:2 final size:2
Alignment explanation
Indices: 1514465--1514510 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
1514455 GTAAAGGGTG
1514465 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1514506 TA TA T
1 TA TA T
1514511 TAGTATTGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1540771 original size:93 final size:93
Alignment explanation
Indices: 1540656--1541022 Score: 698
Period size: 93 Copynumber: 3.9 Consensus size: 93
1540646 TCTCCTTGGC
* *
1540656 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCGTCCTGTGTCAGGAGCAGGGAATCACTG
1 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
1540721 TCATAGTAAGGAGAGAGAGAGAGAGAGA
66 TCATAGTAAGGAGAGAGAGAGAGAGAGA
1540749 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
1 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
1540814 TCATAGTAAGGAGAGAGAGAGAGAGAGA
66 TCATAGTAAGGAGAGAGAGAGAGAGAGA
1540842 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
1 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
1540907 TCATAGTAAGGAGAGAGAGAGAGAGAGA
66 TCATAGTAAGGAGAGAGAGAGAGAGAGA
* *
1540935 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCGTCCTGTGTCAGGAGCAGGGAATCACTG
1 CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
1541000 TCATAGTAAGGAGAGAGAGAGAG
66 TCATAGTAAGGAGAGAGAGAGAG
1541023 CATGGATAGT
Statistics
Matches: 270, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 270 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (93 bp):
CTGGTTCTGTCTGAGTGTGGTGTTCTGTGGACTGTCCATCCTGTGTAAGGAGCAGGGAATCACTG
TCATAGTAAGGAGAGAGAGAGAGAGAGA
Found at i:1545016 original size:26 final size:27
Alignment explanation
Indices: 1544987--1545043 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
1544977 CTATATTGAG
* *
1544987 ACTTCATATAGACACC-TTATATGATT
1 ACTTCAAATAGACACCTTTATATGAAT
* * *
1545013 ACTTTAAATTGAGACCTTTATATGAAT
1 ACTTCAAATAGACACCTTTATATGAAT
1545040 ACTT
1 ACTT
1545044 TGCATGTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (27 bp):
ACTTCAAATAGACACCTTTATATGAAT
Found at i:1545693 original size:22 final size:22
Alignment explanation
Indices: 1545668--1546586 Score: 557
Period size: 22 Copynumber: 42.0 Consensus size: 22
1545658 CTGGTTGGGA
*
1545668 TGTTATGGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545690 TGTTACAGTAACCT-G-GAGAG
1 TGTTACGGTAACCTGGCGAGTG
* * *
1545710 TGTTATGGTTA-CTGGCAAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545731 TGTTATGGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545753 TGTTATGGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545775 TGTTATGGTTA-CTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1545796 TGTTACAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545818 GGTTACGGTAACCTGGCTAGTG
1 TGTTACGGTAACCTGGCGAGTG
* * * *
1545840 TGTTACAGTAAGCTGGTGAGCG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545862 TGTTATGTTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545884 TGTTACAGTTACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1545906 TGTTACAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545928 TGTTACAGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545950 TGTTATGGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1545972 TGTTATGGTTA-CTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1545993 TGTTACAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1546015 TGTTACGGTAACCTGGCTAGTG
1 TGTTACGGTAACCTGGCGAGTG
* * *
1546037 TGTTACAGTAAGCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1546059 TGTTATGTTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1546081 TGTTACAGTTACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1546103 TGTTACAGTAACCTGGGGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* * *
1546125 TGTTACAGTAA-CTTG-GAGAG
1 TGTTACGGTAACCTGGCGAGTG
* * *
1546145 TGTTATGGTTA-CTTGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* **
1546166 TGTTATGGTAACCT-G-GAGAA
1 TGTTACGGTAACCTGGCGAGTG
* * **
1546186 TGTTACAGTGTGTTACAGTAACCTG-GTGAG
1 TGTTAC---G-GTAAC-CT-GGC-GAGT--G
*** ** * ** * *
1546216 TGTGTTATGGTAACCTG-GTGAG
1 TGT-TACGGTAACCTGGCGAGTG
*** ** * ** * *
1546238 TGTGTTATGGTAACCTG-GTGAG
1 TGT-TACGGTAACCTGGCGAGTG
*** **** *
1546260 TGTGTTATGGTTACTGGCGAGTA
1 TGT-TACGGTAACCTGGCGAGTG
*
1546283 TGTTACAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
**
1546305 TGTTACAATAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* * *
1546327 TATTTCAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1546349 TGTTACAGTAACCTGGGGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1546371 TGTTACAGTAACCTGGCGA--G
1 TGTTACGGTAACCTGGCGAGTG
*
1546391 TGTTACAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1546413 TGTTACAGTAACCTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* *
1546435 TGTTATGGTTA-CTGGCGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* **
1546456 -GTGTATGGTAACCT-G-GAGAA
1 TGT-TACGGTAACCTGGCGAGTG
* * *
1546476 TGTTACAGTTAA-CTTGTGAGTG
1 TGTTAC-GGTAACCTGGCGAGTG
* *** *
1546498 TGTTATGGTAACCTTGTTTA-TA
1 TGTTACGGTAACC-TGGCGAGTG
*
1546520 TGTTACGGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
* * *
1546542 TGTTGCAGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
*
1546564 TGTTACGGTAACCTGGTGAGTG
1 TGTTACGGTAACCTGGCGAGTG
1546586 T
1 T
1546587 TTGACCAGCT
Statistics
Matches: 733, Mismatches: 132, Indels: 64
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.00
20 66 0.09
21 99 0.14
22 541 0.74
23 10 0.01
24 5 0.01
25 1 0.00
27 3 0.00
28 1 0.00
29 1 0.00
30 3 0.00
31 1 0.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (22 bp):
TGTTACGGTAACCTGGCGAGTG
Found at i:1545702 original size:44 final size:44
Alignment explanation
Indices: 1545675--1546586 Score: 845
Period size: 44 Copynumber: 20.9 Consensus size: 44
1545665 GGATGTTATG
* **
1545675 GTAACCTGGCGAGTGTGTTACAGTAACCT-G-GAGAGTGTTATG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * ** * **
1545717 GTTA-CTGGCAAGTGTGTTATGGTAACCTGGTGAGTGTGTTATG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* ** *
1545760 GTAACCTGGTGAGTGTGTTATGGTTA-CTGGCGAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * *
1545803 GTAACCTGGCGAGTGGGTTACGGTAACCTGGCTAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * * *
1545847 GTAAGCTGGTGAGCGTGTTA-TGTTAACCTGGCGAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAG-TAACCTGGCGAGTGTGTTACA
*
1545891 GTTACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* ** * **
1545935 GTAACCTGGTGAGTGTGTTATGGTAACCTGGTGAGTGTGTTATG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* *
1545979 GTTA-CTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * * *
1546022 GTAACCTGGCTAGTGTGTTACAGTAAGCTGGTGAGTGTGTTA-T
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
*
1546065 GTTAACCTGGCGAGTGTGTTACAGTTACCTGGCGAGTGTGTTACA
1 G-TAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * * **
1546110 GTAACCTGGGGAGTGTGTTACAGTAA-CTTG-GAGAGTGTTATG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * ** *
1546152 GTTA-CTTGCGAGTGTGTTATGGTAACCTGGAGAATGTTACAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCT-G-G--CG----AGTGTGTTACA
* ** * **
1546203 GTAACCTGGTGAGTGTGTTATGGTAACCTGGTGAGTGTGTTATG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* ** * *
1546247 GTAACCTGGTGAGTGTGTTATGGTTA-CTGGCGAGTATGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * *
1546290 GTAACCTGGCGAGTGTGTTACAATAACCTGGCGAGTGTATTTCA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
*
1546334 GTAACCTGGCGAGTGTGTTACAGTAACCTGGGGAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
1546378 GTAACCTGGCGA--GTGTTACAGTAACCTGGCGAGTGTGTTACA
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
** * **
1546420 GTAACCTGGCGAGTGTGTTATGGTTA-CTGGCGAGTG-GTGTATG
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGT-TACA
** * * **
1546463 GTAACCT-G-GAGAATGTTACAGTTAA-CTTGTGAGTGTGTTATG
1 GTAACCTGGCGAGTGTGTTACAG-TAACCTGGCGAGTGTGTTACA
*** * * * *
1546505 GTAACCTTGTTTA-TATGTTACGGTAACCTGGTGAGTGTGTTGCA
1 GTAACC-TGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
* * *
1546549 GTAACCTGGTGAGTGTGTTACGGTAACCTGGTGAGTGT
1 GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGT
1546587 TTGACCAGCT
Statistics
Matches: 727, Mismatches: 112, Indels: 60
0.81 0.12 0.07
Matches are distributed among these distances:
41 47 0.06
42 82 0.11
43 155 0.21
44 402 0.55
45 3 0.00
47 1 0.00
48 2 0.00
50 1 0.00
51 12 0.02
52 22 0.03
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.32
Consensus pattern (44 bp):
GTAACCTGGCGAGTGTGTTACAGTAACCTGGCGAGTGTGTTACA
Found at i:1546217 original size:93 final size:96
Alignment explanation
Indices: 1546099--1546443 Score: 313
Period size: 87 Copynumber: 3.8 Consensus size: 96
1546089 TTACCTGGCG
* * *
1546099 AGTGTGTTACAGTAACCTGGGGAGTGTGTTACAGTAA-CTTG-GAGAGTGTTATGGTTA-CTTGC
1 AGTGTGTTACAGTAACCTGGGGAGTGTGTTACAGTAACCTGGTGAGAGTGTTATGGTAACCTGGC
1546161 GAGTGTGTTATGGTAACCTGGAGAATGTTAC
66 GAGTGTGTTATGGTAACCTGGAGAATGTTAC
* ** * *
1546192 AGTGTGTTACAGTAACCTGGTGAGTGTGTTATGGTAACCTGGTGAGTGTGTTATGGTAACCTGGT
1 AGTGTGTTACAGTAACCTGGGGAGTGTGTTACAGTAACCTGGTGAGAGTGTTATGGTAACCTGGC
* *
1546257 GAGTGTGTTATGGTTA-CTGGCG-A-G-T--
66 GAGTGTGTTATGGTAACCTGGAGAATGTTAC
* * * * * *
1546282 A---TGTTACAGTAACCTGGCGAGTGTGTTACAATAACCTGGCGAGTGTATT-TCAGTAACCTGG
1 AGTGTGTTACAGTAACCTGGGGAGTGTGTTACAGTAACCTGGTGAGAGTGTTAT-GGTAACCTGG
**
1546343 CGAGTGTGTTACAGTAACCTGG-G---G----
65 CGAGTGTGTTATGGTAACCTGGAGAATGTTAC
* * * **
1546367 AGTGTGTTACAGTAACCTGGCGA--GTGTTACAGTAACCTGGCGAGTGTGTTACAGTAACCTGGC
1 AGTGTGTTACAGTAACCTGGGGAGTGTGTTACAGTAACCTGGTGAGAGTGTTATGGTAACCTGGC
1546430 GAGTGTGTTATGGT
66 GAGTGTGTTATGGT
1546444 TACTGGCGAG
Statistics
Matches: 217, Mismatches: 26, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
85 1 0.00
86 50 0.23
87 65 0.30
88 23 0.11
90 1 0.00
92 1 0.00
93 35 0.16
94 4 0.02
95 19 0.09
96 18 0.08
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.32
Consensus pattern (96 bp):
AGTGTGTTACAGTAACCTGGGGAGTGTGTTACAGTAACCTGGTGAGAGTGTTATGGTAACCTGGC
GAGTGTGTTATGGTAACCTGGAGAATGTTAC
Found at i:1546715 original size:16 final size:16
Alignment explanation
Indices: 1546694--1546727 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1546684 ACAAATTGAC
1546694 CAATCCCAGCAGTTGT
1 CAATCCCAGCAGTTGT
1546710 CAATCCCAGCAGTTGT
1 CAATCCCAGCAGTTGT
1546726 CA
1 CA
1546728 CTGGCCATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (16 bp):
CAATCCCAGCAGTTGT
Found at i:1550297 original size:2 final size:2
Alignment explanation
Indices: 1550290--1550360 Score: 117
Period size: 2 Copynumber: 35.5 Consensus size: 2
1550280 GGAAATTATT
*
1550290 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- ATC AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG
1550332 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1550361 ATAGTATAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
1 1 0.02
2 64 0.97
3 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.46, T:0.01
Consensus pattern (2 bp):
AG
Found at i:1551608 original size:24 final size:24
Alignment explanation
Indices: 1551580--1551627 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1551570 ACATAAACAA
*
1551580 CTTTCTTATTGTTGAACATATTTT
1 CTTTCTTATTATTGAACATATTTT
*
1551604 CTTTCTTGTTATTGAACATATTTT
1 CTTTCTTATTATTGAACATATTTT
1551628 AAAAAGATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.58
Consensus pattern (24 bp):
CTTTCTTATTATTGAACATATTTT
Found at i:1553559 original size:34 final size:34
Alignment explanation
Indices: 1552582--1553537 Score: 1415
Period size: 34 Copynumber: 28.2 Consensus size: 34
1552572 TGTTATATAA
* *
1552582 GAGTTATCTCCCTTACCCTGTTGATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1552616 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552650 GAGTTATCTCCCTTACTCTGTAAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552684 GAGTTATCTCCCTTACTCTGTAAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
* * **
1552718 GAGTTATCTCCCTTACTGC-GTTGATGTTATATAA
1 GAGTTATCTCCCTTACT-CTGTTAATGTTATGTTT
* *
1552752 GAGTTATCTCCCTTACCCTGTTGATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552786 GAGTTATCTCCCTTAATCTGTT-ATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
* *
1552819 GAGTTATCTCCCTTACTCTGTTGATGTTATATTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552853 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTA
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552887 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTA
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
** * *
1552921 GAGTTATCTCCCACACTCTGTAAATGTTATGTTA
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552955 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTA
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1552989 GAGTTATCTCCCTTACTGC-GTTGATGTTATGTTT
1 GAGTTATCTCCCTTACT-CTGTTAATGTTATGTTT
* * * * **
1553023 GAGTTATCTCCCTAAAC-CAGTTGATGTTATATAA
1 GAGTTATCTCCCT-TACTCTGTTAATGTTATGTTT
1553057 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1553091 GAGTTATCTCCCTTACTCTGTTAATGTTATATTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1553125 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTA
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
* * *
1553159 GAATTATCTCCCTTACCCTGTTAATGTTATGTTA
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1553193 GAGTTATCTTCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1553227 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
* * * * **
1553261 GAGTTATCTCCCTAAAC-CAGTTGATGTTATATAA
1 GAGTTATCTCCCT-TACTCTGTTAATGTTATGTTT
* *
1553295 GAGTTATCTCCCTTACCCTGTTGATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1553329 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
*
1553363 GAGTTATCTCCCTTACTGC-GTTGATGTTA--TTT
1 GAGTTATCTCCCTTACT-CTGTTAATGTTATGTTT
1553395 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1553429 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1553463 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
* *
1553497 GAGTTATCTACCTTACTCCGTTAATGTTATGTTT
1 GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
1553531 GAGTTAT
1 GAGTTAT
1553538 AATCCTTATC
Statistics
Matches: 845, Mismatches: 64, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
31 1 0.00
32 29 0.03
33 38 0.04
34 770 0.91
35 7 0.01
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (34 bp):
GAGTTATCTCCCTTACTCTGTTAATGTTATGTTT
Found at i:1556425 original size:12 final size:12
Alignment explanation
Indices: 1556402--1556431 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1556392 GATCACATTT
1556402 TGTCTG-CCGTC
1 TGTCTGTCCGTC
1556413 TGTCTGTCCGTC
1 TGTCTGTCCGTC
1556425 TGTCTGT
1 TGTCTGT
1556432 GTTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.00, C:0.30, G:0.27, T:0.43
Consensus pattern (12 bp):
TGTCTGTCCGTC
Found at i:1558172 original size:51 final size:51
Alignment explanation
Indices: 1558096--1558244 Score: 280
Period size: 51 Copynumber: 2.9 Consensus size: 51
1558086 ATCTAGGAAA
*
1558096 AAACAGAGATTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACTAATT
1 AAACATAGATTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACTAATT
1558147 AAACATAGATTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACTAATT
1 AAACATAGATTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACTAATT
*
1558198 AAACATAGACTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACT
1 AAACATAGATTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACT
1558245 CGAGGAATTA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.26
Consensus pattern (51 bp):
AAACATAGATTGTACCAAAGACAGTACTGAAGATTCCTAATTAAACTAATT
Found at i:1562472 original size:32 final size:32
Alignment explanation
Indices: 1562322--1562792 Score: 574
Period size: 32 Copynumber: 14.7 Consensus size: 32
1562312 TTTTTCAAGA
* *
1562322 ATCTACCTTTGTCTAGGGTTGTGATGGGATATAT
1 ATCTACCTTTGTCTAGGGCTGTGAT-GG-TGTAT
* * * *
1562356 ATCTATCTTTGCCTAGGGTTGTGACGGTGTATAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTG--TAT
* * *
1562390 ATCTACCTCTGTCTAGAGCTGTGAT--TAGGAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGT-GTAT
** *
1562421 CATC-A--TTTGTCTATAGCTGTGATAGTGTAT
1 -ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
* *
1562451 ATCTACCTTTGTCTAGGGCTGTTATGGGGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
* * *
1562483 ATTTACATTTGTCTAGGGCTGTGATGGGGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
* * * *
1562515 ATCTACCTTTGTCTAAGGTTATAATGGTGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
1562547 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
1562579 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
1562611 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
*
1562643 ATCTACCTTTGTCTAGGGCTGTGATGGGGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
*
1562675 ATCTACCTTTGTCTAGGGCTGTGATGGGGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
** *
1562707 ATCTACCTTTGTCTACAGCTGTGATGGGGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
* *
1562739 ATCTACCTTTGTCTTGGGCTGTGATGGGGTAT
1 ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
* * *
1562771 ACCTACCTTTATCCAGGGCTGT
1 ATCTACCTTTGTCTAGGGCTGT
1562793 TATAGGGTTG
Statistics
Matches: 385, Mismatches: 43, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
29 19 0.05
30 4 0.01
31 4 0.01
32 311 0.81
33 3 0.01
34 44 0.11
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.40
Consensus pattern (32 bp):
ATCTACCTTTGTCTAGGGCTGTGATGGTGTAT
Found at i:1567713 original size:13 final size:13
Alignment explanation
Indices: 1567695--1567719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1567685 AAAAGTTCAT
1567695 TTACTCATTGTCA
1 TTACTCATTGTCA
1567708 TTACTCATTGTC
1 TTACTCATTGTC
1567720 GAATATTTCT
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:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (13 bp):
TTACTCATTGTCA
Found at i:1568053 original size:18 final size:18
Alignment explanation
Indices: 1568027--1568061 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1568017 TCCGTGTAAC
* *
1568027 CATAGCTATTGTTACATT
1 CATAACTATTGCTACATT
1568045 CATAACTATTGCTACAT
1 CATAACTATTGCTACAT
1568062 GTTACCATAG
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:0.20, G:0.09, T:0.40
Consensus pattern (18 bp):
CATAACTATTGCTACATT
Found at i:1569696 original size:15 final size:15
Alignment explanation
Indices: 1569676--1569708 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1569666 TTTACGAGTT
1569676 TTTTTAATATTTATG
1 TTTTTAATATTTATG
1569691 TTTTTAATATTTATG
1 TTTTTAATATTTATG
1569706 TTT
1 TTT
1569709 CAATTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTTTAATATTTATG
Found at i:1571053 original size:2 final size:2
Alignment explanation
Indices: 1571046--1571092 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1571036 TAATCTCACC
1571046 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1571088 CT CT C
1 CT CT C
1571093 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1571427 original size:22 final size:23
Alignment explanation
Indices: 1571382--1571427 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1571372 AGACGCACAA
1571382 TCGGATAAATGTAAAAATTGGATT
1 TCGGATAAA-GTAAAAATTGGATT
* *
1571406 TCGGATAAA-TAAGAATTTGATT
1 TCGGATAAAGTAAAAATTGGATT
1571428 ACGTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (23 bp):
TCGGATAAAGTAAAAATTGGATT
Found at i:1575511 original size:16 final size:16
Alignment explanation
Indices: 1575472--1575589 Score: 200
Period size: 16 Copynumber: 7.2 Consensus size: 16
1575462 TGTTGTTGAC
1575472 TTGTGGTGTTATGTTG
1 TTGTGGTGTTATGTTG
1575488 ACTTGTGGTGTTATGTTG
1 --TTGTGGTGTTATGTTG
1575506 TTGTGGTGTTATGTTG
1 TTGTGGTGTTATGTTG
*
1575522 TTGTGGTGTCATGTTG
1 TTGTGGTGTTATGTTG
*
1575538 TGGTGGTGTTATGTTG
1 TTGTGGTGTTATGTTG
1575554 TTGTGGTGTTATGTTG
1 TTGTGGTGTTATGTTG
1575570 TTGTGGTGTTATGTTG
1 TTGTGGTGTTATGTTG
1575586 TTGT
1 TTGT
1575590 TGTTGTAAGC
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
16 80 0.83
18 16 0.17
ACGTcount: A:0.07, C:0.02, G:0.37, T:0.54
Consensus pattern (16 bp):
TTGTGGTGTTATGTTG
Found at i:1577938 original size:37 final size:37
Alignment explanation
Indices: 1577895--1578502 Score: 614
Period size: 37 Copynumber: 16.7 Consensus size: 37
1577885 ATCAAATCGA
*
1577895 CAGATCAAAAAAGCGTGACATTCCAGACACCAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1577932 AAGATCAACTAAGCGTGACATTCCAGACACCAATATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1577969 AAGATCAACAAAGGGTAACATTCCAGACACCAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1578006 AAGATCAACAAAGCGTAACATTACAGACACCAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
*
1578043 AAGATCAACAAAGCGTGACATTCCAGACA--AACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1578078 AAAATCAACTAAGCGTGACATTCCAGACACCAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1578115 CAGATCAACTAAGCGTGAAATTCCAAACACCAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
** * ** *
1578152 CACCTGAACAAAGCGTGACATTCCAGACATAAACAAC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
*
1578189 CATATCAACAAAGCGTGACATTCCAGACA--AACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * * **
1578224 AAGATCAACAAAGCGTTACATTCTAGTGA--AACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * **
1578259 CAGATCAACAAAGCGCGACATTGCAGACATAAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * * * *
1578296 AAGATCAACTAAGCATGACA-TCACAAACACAAACATC
1 CAGATCAACAAAGCGTGACATTC-CAGACACCAACATC
* **
1578333 C--A-C-A-AAA-CGTGACATTCCAAACACCTTCATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * **
1578364 CAGATCAACAAAGCGTAACATTCCAGCCATAAACATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1578401 CAGATCAACAAAGCGTGACATTCTAGTCACCATCATC
1 CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
* * *
1578438 CAGATCAACTAAGCGTGACA-TCACAAACACTAACATTC
1 CAGATCAACAAAGCGTGACATTC-CAGACACCAACA-TC
* *
1578476 CAGATCAGCAAAGCATGACATTCCAGA
1 CAGATCAACAAAGCGTGACATTCCAGA
1578503 AGAAACACAT
Statistics
Matches: 476, Mismatches: 80, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
31 18 0.04
32 4 0.01
33 2 0.00
34 2 0.00
35 91 0.19
36 6 0.01
37 329 0.69
38 22 0.05
39 2 0.00
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.16
Consensus pattern (37 bp):
CAGATCAACAAAGCGTGACATTCCAGACACCAACATC
Found at i:1578162 original size:146 final size:146
Alignment explanation
Indices: 1577896--1578502 Score: 539
Period size: 146 Copynumber: 4.2 Consensus size: 146
1577886 TCAAATCGAC
*
1577896 AGATCAAAAAAGCGTGACATTCCAGACACCAACATCAAGATCAACTAAGCGTGACATTCCAGACA
1 AGATCAACAAAGCGTGACATTCCAGACA--AACATCAAGATCAACTAAGCGTGACATTCCAGACA
* * * * *
1577961 CCAATATCAAGATCAACAAAGGGTAACATTCCAGACACCAACATCAAGATCAACAAAGCGTAACA
64 CCAACATCCAGATCAACAAAGCGTAACATTCCAAACACCAACATCAACATCAACAAAGCGTAACA
* *
1578026 TTACAGACACCAACATCA
129 TTACAGACACAAACAACA
*
1578044 AGATCAACAAAGCGTGACATTCCAGACAAACATCAAAATCAACTAAGCGTGACATTCCAGACACC
1 AGATCAACAAAGCGTGACATTCCAGACAAACATCAAGATCAACTAAGCGTGACATTCCAGACACC
* * * * *
1578109 AACATCCAGATCAACTAAGCGTGAA-ATTCCAAACACCAACATCCACCTGAACAAAGCGTGACAT
66 AACATCCAGATCAACAAAGCGT-AACATTCCAAACACCAACATCAACATCAACAAAGCGTAACAT
* * *
1578173 TCCAGACATAAACAACC
130 TACAGACACAAACAACA
* * * * **
1578190 ATATCAACAAAGCGTGACATTCCAGACAAACATCAAGATCAACAAAGCGTTACATTCTAGTGA--
1 AGATCAACAAAGCGTGACATTCCAGACAAACATCAAGATCAACTAAGCGTGACATTCCAGACACC
** * * ** * * * * *
1578253 AACATCCAGATCAACAAAGCGCGACATTGCAGACATAAACATCAAGATCAACTAAGCATGACATC
66 AACATCCAGATCAACAAAGCGTAACATTCCAAACACCAACATCAACATCAACAAAGCGTAACATT
1578318 ACA-A-AC--AC-A-A
131 ACAGACACAAACAACA
* * * * ** * * * *
1578328 ACATCCACAAAACGTGACATTCCAAACACCTTCATCCAGATCAACAAAGCGTAACATTCCAGCCA
1 AGATCAACAAAGCGTGACATTCCAGACA--AACATCAAGATCAACTAAGCGTGACATTCCAGACA
** * * ** * * * * *
1578393 TAAACATCCAGATCAACAAAGCGTGACATTCTAGTCACCATCATCCAGATCAACTAAGCGTGACA
64 CCAACATCCAGATCAACAAAGCGTAACATTCCAAACACCAACATCAACATCAACAAAGCGTAACA
* * * * *
1578458 TCACAAACACTAACATTCC
129 TTACAGACACAAACA-ACA
* *
1578477 AGATCAGCAAAGCATGACATTCCAGA
1 AGATCAACAAAGCGTGACATTCCAGA
1578503 AGAAACACAT
Statistics
Matches: 377, Mismatches: 69, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
138 24 0.06
139 1 0.00
140 30 0.08
142 60 0.16
143 3 0.01
144 53 0.14
146 157 0.42
147 2 0.01
148 27 0.07
149 20 0.05
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.16
Consensus pattern (146 bp):
AGATCAACAAAGCGTGACATTCCAGACAAACATCAAGATCAACTAAGCGTGACATTCCAGACACC
AACATCCAGATCAACAAAGCGTAACATTCCAAACACCAACATCAACATCAACAAAGCGTAACATT
ACAGACACAAACAACA
Found at i:1579633 original size:27 final size:27
Alignment explanation
Indices: 1579601--1579785 Score: 352
Period size: 27 Copynumber: 6.9 Consensus size: 27
1579591 CCAATCACAA
1579601 CAGTACTATCATACACTCCATCAGTCT
1 CAGTACTATCATACACTCCATCAGTCT
*
1579628 CGGTACTATCATACACTCCATCAGTCT
1 CAGTACTATCATACACTCCATCAGTCT
1579655 CAGTACTATCATACACTCCATCAGTCT
1 CAGTACTATCATACACTCCATCAGTCT
1579682 CAGTACTATCATACACTCCATCAGTCT
1 CAGTACTATCATACACTCCATCAGTCT
*
1579709 CAGTGCTATCATACACTCCATCAGTCT
1 CAGTACTATCATACACTCCATCAGTCT
1579736 CAGTACTATCATACACTCCATCAGTCT
1 CAGTACTATCATACACTCCATCAGTCT
1579763 CAGTACTATCATACACTCCATCA
1 CAGTACTATCATACACTCCATCA
1579786 TTTATACTCC
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 154 1.00
ACGTcount: A:0.29, C:0.34, G:0.08, T:0.29
Consensus pattern (27 bp):
CAGTACTATCATACACTCCATCAGTCT
Found at i:1580048 original size:22 final size:22
Alignment explanation
Indices: 1580023--1580072 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1580013 AGAGTCAAGC
*
1580023 ACATCAGTACAGTTAACAGTCA
1 ACATCAGTACAGTTAAAAGTCA
1580045 ACATCAGTACAGTTAAAAGTCA
1 ACATCAGTACAGTTAAAAGTCA
1580067 ACATCA
1 ACATCA
1580073 AAACATCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.22
Consensus pattern (22 bp):
ACATCAGTACAGTTAAAAGTCA
Found at i:1580078 original size:30 final size:30
Alignment explanation
Indices: 1580044--1580130 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
1580034 GTTAACAGTC
* *
1580044 AACATCAGTACAGTTAAAAGTCAACATCAA
1 AACATCAGTACAGTTAACAGTCAACATAAA
*
1580074 AACATCAGTACAGTTTACAGTCAACATAAA
1 AACATCAGTACAGTTAACAGTCAACATAAA
1580104 AACAT-AGGTACAGTTAACAGTCAACAT
1 AACATCA-GTACAGTTAACAGTCAACAT
1580131 TAGTACAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (30 bp):
AACATCAGTACAGTTAACAGTCAACATAAA
Found at i:1580136 original size:22 final size:22
Alignment explanation
Indices: 1580111--1580475 Score: 541
Period size: 22 Copynumber: 16.2 Consensus size: 22
1580101 AAAAACATAG
*
1580111 GTACAGTTAACAGTCAACATTA
1 GTACAGTTAACAGTCAACATCA
* * *
1580133 GTACAGATAGCAGTGAACATCA
1 GTACAGTTAACAGTCAACATCA
1580155 GTACAGTTAACAGTCAGTCAACATCA
1 GTACAGTT-A-A--CAGTCAACATCA
1580181 GTACAGTTAACAGTCAGTCAACATCA
1 GTACAGTT-A-A--CAGTCAACATCA
1580207 GTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCA
1580229 GTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCA
*
1580251 GTACAGTTAACAGTTAACATCA
1 GTACAGTTAACAGTCAACATCA
1580273 GTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCA
*
1580295 GTACAGTTAACAGCCAACATCA
1 GTACAGTTAACAGTCAACATCA
1580317 GTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCA
* *
1580339 GTAAAGTTAACAGCCAACATCA
1 GTACAGTTAACAGTCAACATCA
*
1580361 GTACAGTTAACAGTCAACGTCA
1 GTACAGTTAACAGTCAACATCA
*
1580383 GTACAGTTAACAGCCAACATCA
1 GTACAGTTAACAGTCAACATCA
*
1580405 GTACAGTTAACAGTCAACGTCA
1 GTACAGTTAACAGTCAACATCA
*
1580427 TTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCA
*
1580449 GTAAAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCA
1580471 GTACA
1 GTACA
1580476 TCAGGACACT
Statistics
Matches: 314, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
22 266 0.85
23 1 0.00
24 1 0.00
25 1 0.00
26 45 0.14
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (22 bp):
GTACAGTTAACAGTCAACATCA
Found at i:1580159 original size:44 final size:44
Alignment explanation
Indices: 1580111--1580522 Score: 545
Period size: 44 Copynumber: 9.0 Consensus size: 44
1580101 AAAAACATAG
* * * *
1580111 GTACAGTTAACAGTCAACATTAGTACAGATAGCAGTGAACATCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
1580155 GTACAGTTAACAGTCAGTCAACATCAGTACAGTTAACAGTCAGTCAACATCA
1 GTACAGTT-A-A--CAGTCAACATCAGTACAGTT-A-A--CAGTCAACATCA
1580207 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
*
1580251 GTACAGTTAACAGTTAACATCAGTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
*
1580295 GTACAGTTAACAGCCAACATCAGTACAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
* * *
1580339 GTAAAGTTAACAGCCAACATCAGTACAGTTAACAGTCAACGTCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
* *
1580383 GTACAGTTAACAGCCAACATCAGTACAGTTAACAGTCAACGTCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
* *
1580427 TTACAGTTAACAGTCAACATCAGTAAAGTTAACAGTCAACATCA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
* *
1580471 GTACATCAGGACACTAAACAGTCAACATCAGTACAATTAACAGTCAACATCA
1 GT--A-CA-G----TTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
1580523 AAACAGCAGT
Statistics
Matches: 334, Mismatches: 18, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
44 231 0.69
45 1 0.00
46 3 0.01
47 3 0.01
48 39 0.12
49 1 0.00
50 1 0.00
51 1 0.00
52 54 0.16
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (44 bp):
GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCA
Found at i:1580166 original size:15 final size:15
Alignment explanation
Indices: 1580143--1580218 Score: 69
Period size: 15 Copynumber: 5.6 Consensus size: 15
1580133 GTACAGATAG
*
1580143 CAGTGAACATCAGTA
1 CAGTTAACATCAGTA
1580158 CAGTT-A-A-CAGT-
1 CAGTTAACATCAGTA
*
1580169 CAGTCAACATCAGTA
1 CAGTTAACATCAGTA
1580184 CAGTT-A-A-CAGT-
1 CAGTTAACATCAGTA
*
1580195 CAGTCAACATCAGTA
1 CAGTTAACATCAGTA
1580210 CAGTTAACA
1 CAGTTAACA
1580219 GTCAACATCA
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
11 8 0.17
12 10 0.21
13 4 0.08
14 10 0.21
15 16 0.33
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (15 bp):
CAGTTAACATCAGTA
Found at i:1580234 original size:15 final size:15
Alignment explanation
Indices: 1580143--1580262 Score: 66
Period size: 15 Copynumber: 8.6 Consensus size: 15
1580133 GTACAGATAG
*
1580143 CAGTGAACATCAGTA
1 CAGTCAACATCAGTA
*
1580158 CAGT-TA-A-CAGT-
1 CAGTCAACATCAGTA
1580169 CAGTCAACATCAGTA
1 CAGTCAACATCAGTA
*
1580184 CAGT-TA-A-CAGT-
1 CAGTCAACATCAGTA
1580195 CAGTCAACATCAGTA
1 CAGTCAACATCAGTA
*
1580210 CAGTTAACAGTCA--A
1 CAGTCAACA-TCAGTA
**
1580224 CA-TCAGTA-CAGTTAA
1 CAGTCAACATCAG-T-A
1580239 CAGTCAACATCAGTA
1 CAGTCAACATCAGTA
*
1580254 CAGTTAACA
1 CAGTCAACA
1580263 GTTAACATCA
Statistics
Matches: 79, Mismatches: 11, Indels: 30
0.66 0.09 0.25
Matches are distributed among these distances:
11 10 0.13
12 10 0.13
13 7 0.09
14 13 0.16
15 28 0.35
16 8 0.10
17 3 0.04
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (15 bp):
CAGTCAACATCAGTA
Found at i:1580291 original size:66 final size:66
Alignment explanation
Indices: 1580111--1580522 Score: 545
Period size: 66 Copynumber: 6.0 Consensus size: 66
1580101 AAAAACATAG
* * * *
1580111 GTACAGTTAACAGTCAACATTAGTACAGATAGCAGTGAACATCAGTACAGTTAACAGTCAGTCAA
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTT-A-A--CAGTCAA
1580176 CATCA
62 CATCA
1580181 GTACAGTTAACAGTCAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAA
1 GTACAGTT-A-A--CAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAA
1580246 CATCA
62 CATCA
* *
1580251 GTACAGTTAACAGTTAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGCCAACATC
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATC
1580316 A
66 A
* * *
1580317 GTACAGTTAACAGTCAACATCAGTAAAGTTAACAGCCAACATCAGTACAGTTAACAGTCAACGTC
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATC
1580382 A
66 A
* * *
1580383 GTACAGTTAACAGCCAACATCAGTACAGTTAACAGTCAACGTCATTACAGTTAACAGTCAACATC
1 GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATC
1580448 A
66 A
* * *
1580449 GTAAAGTTAACAGTCAACATCAGTACATCAGGACACTAAACAGTCAACATCAGTACAATTAACAG
1 GTACAGTTAACAGTCAACATCAGT--A-CA-G----TTAACAGTCAACATCAGTACAGTTAACAG
1580514 TCAACATCA
58 TCAACATCA
1580523 AAACAGCAGT
Statistics
Matches: 307, Mismatches: 23, Indels: 20
0.88 0.07 0.06
Matches are distributed among these distances:
66 197 0.64
68 2 0.01
69 3 0.01
70 29 0.09
71 1 0.00
72 2 0.01
73 1 0.00
74 72 0.23
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (66 bp):
GTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATCAGTACAGTTAACAGTCAACATC
A
Found at i:1580479 original size:30 final size:30
Alignment explanation
Indices: 1580443--1580505 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1580433 TTAACAGTCA
* * *
1580443 ACATCAGTAAAGTTAACAGTCAACATCAGT
1 ACATCAGGAAACTAAACAGTCAACATCAGT
*
1580473 ACATCAGGACACTAAACAGTCAACATCAGT
1 ACATCAGGAAACTAAACAGTCAACATCAGT
1580503 ACA
1 ACA
1580506 ATTAACAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (30 bp):
ACATCAGGAAACTAAACAGTCAACATCAGT
Found at i:1580498 original size:22 final size:22
Alignment explanation
Indices: 1580473--1580522 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
1580463 CAACATCAGT
*
1580473 ACATCAGGACACTAAACAGTCA
1 ACATCAGGACAATAAACAGTCA
* *
1580495 ACATCAGTACAATTAACAGTCA
1 ACATCAGGACAATAAACAGTCA
1580517 ACATCA
1 ACATCA
1580523 AAACAGCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (22 bp):
ACATCAGGACAATAAACAGTCA
Found at i:1582690 original size:59 final size:59
Alignment explanation
Indices: 1582598--1583199 Score: 970
Period size: 59 Copynumber: 10.2 Consensus size: 59
1582588 CACCAGCATC
*
1582598 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
* *
1582657 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAATACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
*
1582716 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
* * * * * *
1582775 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACACCCTAACACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
*
1582834 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
* *
1582893 ACATCCTGGTTATCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
* * * * *
1582952 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
*
1583011 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
* *
1583070 ACATCCTGGTTATCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
* * * * *
1583129 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAAT
1 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
1583188 ACATCCTGGTTA
1 ACATCCTGGTTA
1583200 NNNNNNNNNN
Statistics
Matches: 505, Mismatches: 38, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 505 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (59 bp):
ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAAT
Found at i:1582894 original size:177 final size:177
Alignment explanation
Indices: 1582598--1583199 Score: 1123
Period size: 177 Copynumber: 3.4 Consensus size: 177
1582588 CACCAGCATC
* * * * * *
1582598 ACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCC
1 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
*
1582663 TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAATACAAATACATCCTGGTTA
66 TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCCTGGTTA
*
1582728 CCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
131 TCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
*
1582775 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACACCCTAACACAAATACATCC
1 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
1582840 TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCCTGGTTA
66 TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCCTGGTTA
1582905 TCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
131 TCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
1582952 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
1 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
1583017 TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCCTGGTTA
66 TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCCTGGTTA
1583082 TCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
131 TCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
1583129 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
1 ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
1583194 TGGTTA
66 TGGTTA
1583200 NNNNNNNNNN
Statistics
Matches: 415, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 415 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (177 bp):
ACATCCTGGTTATCCTGTCAAAGAAAGAGTCTCCTGTATAATAACTCCCTAACACAAATACATCC
TGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAATACAAATACATCCTGGTTA
TCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCTAACACAAAT
Found at i:1583497 original size:59 final size:59
Alignment explanation
Indices: 1583405--1583880 Score: 781
Period size: 59 Copynumber: 8.1 Consensus size: 59
1583395 NNNNNNNNNN
1583405 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
*
1583464 CACATCCTGGTTACACTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
* * *
1583523 CACATCCTGGTTACACTGTTAATGATAGAGTCACTTGTATAATAACTCCCTAACACAAA
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
* * *
1583582 CACATCCTGGTTACCCTGTAAATGATAGAGTCCCCTGTATAACAACTCCCTAATACAAA
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
* * * * * *
1583641 TACATCCTGGTTACCCTGTCAAAGAAAGAGTCCCCTGTATAACAACTCCCTAACACAAC
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
1583700 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
* * *
1583759 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAACAACTCCCAAATACAAA
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
* * *
1583818 CACATCCTGGTTACCCAGTTAATGTTAGAGTCCCCTGTATAATAACTCCCTAACACAAC
1 CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
1583877 CACA
1 CACA
1583881 CCTTGAGGAA
Statistics
Matches: 387, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 387 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (59 bp):
CACATCCTGGTTACCCTGTTAATGATAGAGTCCCCTGTATAATAACTCCCTAACACAAA
Found at i:1584354 original size:79 final size:79
Alignment explanation
Indices: 1584223--1584400 Score: 320
Period size: 79 Copynumber: 2.3 Consensus size: 79
1584213 ACAATGGGAA
* *
1584223 GTAGTCCTGATTCAGTAGAACACAATGGGACACTCACCTCTACATAGTCCAGTCTGCCTAGTCCT
1 GTAGTCCTGTTTCAGTAGAACACAATGGGACACTCACCTCTACATAGTCCAGTCTCCCTAGTCCT
1584288 GTCACAAACACTGT
66 GTCACAAACACTGT
*
1584302 GTAGTCCTGTTTCAGTAGGACACAATGGGACACTCACCTCTACATAGTCCAGTCTCCCTAGTCCT
1 GTAGTCCTGTTTCAGTAGAACACAATGGGACACTCACCTCTACATAGTCCAGTCTCCCTAGTCCT
1584367 GTCACAAACACTGT
66 GTCACAAACACTGT
*
1584381 GTAGTCTTGTTTCAGTAGAA
1 GTAGTCCTGTTTCAGTAGAA
1584401 TACAGTGAGG
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 94 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (79 bp):
GTAGTCCTGTTTCAGTAGAACACAATGGGACACTCACCTCTACATAGTCCAGTCTCCCTAGTCCT
GTCACAAACACTGT
Found at i:1585520 original size:12 final size:12
Alignment explanation
Indices: 1585503--1585551 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
1585493 ATCAATCNTT
* *
1585503 ACGGACAGACGG
1 ACGGACGGACAG
*
1585515 ACGGACGGACGG
1 ACGGACGGACAG
1585527 ACGGACGGACAG
1 ACGGACGGACAG
1585539 ACGGAC-GACAG
1 ACGGACGGACAG
1585550 AC
1 AC
1585552 AAAATGTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
11 7 0.20
12 28 0.80
ACGTcount: A:0.33, C:0.27, G:0.41, T:0.00
Consensus pattern (12 bp):
ACGGACGGACAG
Found at i:1585552 original size:4 final size:4
Alignment explanation
Indices: 1585503--1585545 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
1585493 ATCAATCNTT
* *
1585503 ACGG ACAG ACGG ACGG ACGG ACGG ACGG ACGG ACAG ACGG ACG
1 ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACG
1585546 ACAGACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.44, T:0.00
Consensus pattern (4 bp):
ACGG
Found at i:1589199 original size:16 final size:16
Alignment explanation
Indices: 1589178--1589225 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
1589168 ATGGTATCAG
1589178 GAGAAAACGTACCCAA
1 GAGAAAACGTACCCAA
*
1589194 GAGAAAACGTACCCAG
1 GAGAAAACGTACCCAA
1589210 GAGAAAACGTACCCAA
1 GAGAAAACGTACCCAA
1589226 TCTCTAGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.48, C:0.25, G:0.21, T:0.06
Consensus pattern (16 bp):
GAGAAAACGTACCCAA
Found at i:1596545 original size:163 final size:164
Alignment explanation
Indices: 1596358--1596659 Score: 453
Period size: 163 Copynumber: 1.8 Consensus size: 164
1596348 GGCCCCACCT
*
1596358 TACCCCCTGGGATCATGTTTTGAACAAACCTGAATCTAAACTACCTGAGAATACTTCCACACAAG
1 TACCCCCTGGGATCATGATTTGAACAAACCTGAATCTAAACTACCTGAGAATACTTCCACACAAG
* * *
1596423 TTTCAGCTTTTCTCTTGAAATGG-TTTTAAGAAGAAGATTTTTTAAGATTTACTCTATATATTCC
66 TTTCAGCTTTTCTCATGAAACGGTTTTTAAGAAGAAGATTTTTAAAGATTTACTCTATATATTCC
*
1596487 TATGTAAAATTGGACCCCCATTGTGATCCCAAAC
131 TATATAAAATTGGACCCCCATTGTGATCCCAAAC
* * *** ** * *
1596521 TACCCCTTGGGATCATGATTTGAACCATTTTGAATCTACCCTACCTGAGGATGCTTCCACACAAG
1 TACCCCCTGGGATCATGATTTGAACAAACCTGAATCTAAACTACCTGAGAATACTTCCACACAAG
* *
1596586 TTTCAGCTTTTCTCATGAAACGGTTTTTGAGAAGAATATTTTTAAAGATTTACTCTATATATTCC
66 TTTCAGCTTTTCTCATGAAACGGTTTTTAAGAAGAAGATTTTTAAAGATTTACTCTATATATTCC
1596651 TATATAAAA
131 TATATAAAA
1596660 ATCTCCCCCC
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
163 76 0.62
164 46 0.38
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.35
Consensus pattern (164 bp):
TACCCCCTGGGATCATGATTTGAACAAACCTGAATCTAAACTACCTGAGAATACTTCCACACAAG
TTTCAGCTTTTCTCATGAAACGGTTTTTAAGAAGAAGATTTTTAAAGATTTACTCTATATATTCC
TATATAAAATTGGACCCCCATTGTGATCCCAAAC
Found at i:1601215 original size:27 final size:27
Alignment explanation
Indices: 1601185--1601241 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1601175 TTTGATTAGT
1601185 AATATTCTAGTATTCATCGACAACAAA
1 AATATTCTAGTATTCATCGACAACAAA
1601212 AATATTCTAGTATTCATCGACAACAAA
1 AATATTCTAGTATTCATCGACAACAAA
1601239 AAT
1 AAT
1601242 CAAAGTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.30
Consensus pattern (27 bp):
AATATTCTAGTATTCATCGACAACAAA
Found at i:1607743 original size:39 final size:38
Alignment explanation
Indices: 1607689--1607765 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 38
1607679 AGCATATGAC
1607689 AAATATCACTCTAGTAAATATATATGCCCCTGTTCTTG
1 AAATATCACTCTAGTAAATATATATGCCCCTGTTCTTG
*
1607727 NAAATATCTCTCTAGTAAATATATATGCCCCTGTTCTTG
1 -AAATATCACTCTAGTAAATATATATGCCCCTGTTCTTG
1607766 TAAACAATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (38 bp):
AAATATCACTCTAGTAAATATATATGCCCCTGTTCTTG
Found at i:1609462 original size:22 final size:22
Alignment explanation
Indices: 1609407--1609492 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
1609397 CGGGGAAGGA
*
1609407 GCGAAAGTGCGAAGATGCGACG
1 GCGAAAGTGCGAAGATGCGAAG
* * *
1609429 GC-AAAGCGCGAAGTTGCGATG
1 GCGAAAGTGCGAAGATGCGAAG
* *
1609450 GCGAAAGTACGAAGGTGCGAAG
1 GCGAAAGTGCGAAGATGCGAAG
*
1609472 GCGAAGGTGCGAAG--GCGAAG
1 GCGAAAGTGCGAAGATGCGAAG
1609492 G
1 G
1609493 AGCGATACTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 7 0.13
21 18 0.33
22 29 0.54
ACGTcount: A:0.31, C:0.16, G:0.43, T:0.09
Consensus pattern (22 bp):
GCGAAAGTGCGAAGATGCGAAG
Found at i:1609478 original size:14 final size:14
Alignment explanation
Indices: 1609459--1609497 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
1609449 GGCGAAAGTA
1609459 CGAAGGTGCGAAGG
1 CGAAGGTGCGAAGG
1609473 CGAAGGTGCGAAGG
1 CGAAGGTGCGAAGG
*
1609487 CGAAGGAGCGA
1 CGAAGGTGCGA
1609498 TACTACTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.49, T:0.05
Consensus pattern (14 bp):
CGAAGGTGCGAAGG
Found at i:1609539 original size:22 final size:22
Alignment explanation
Indices: 1609514--1609564 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1609504 TATCGCTCCT
1609514 TCGCCTTCGCAACTTCGCACTC
1 TCGCCTTCGCAACTTCGCACTC
* *
1609536 TCGCCTTCGCAACTTCGTACTT
1 TCGCCTTCGCAACTTCGCACTC
1609558 TCGCCTT
1 TCGCCTT
1609565 TGCATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.12, C:0.41, G:0.14, T:0.33
Consensus pattern (22 bp):
TCGCCTTCGCAACTTCGCACTC
Found at i:1611592 original size:12 final size:12
Alignment explanation
Indices: 1611575--1611599 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1611565 ACAAGTACAT
1611575 GTAACAATAAAA
1 GTAACAATAAAA
1611587 GTAACAATAAAA
1 GTAACAATAAAA
1611599 G
1 G
1611600 ACACATTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.12, T:0.16
Consensus pattern (12 bp):
GTAACAATAAAA
Found at i:1615061 original size:2 final size:2
Alignment explanation
Indices: 1615054--1615097 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1615044 GTACATGTAG
1615054 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1615096 CT
1 CT
1615098 GTCTGTCTGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1615102 original size:4 final size:4
Alignment explanation
Indices: 1615095--1615133 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
1615085 TCTCTCTCTC
*
1615095 TCTG TCTG TCTG TCTG TCTG TTTG TCTG TCTG TCTG TCT
1 TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCTG TCT
1615134 CTCTCACCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.23, G:0.23, T:0.54
Consensus pattern (4 bp):
TCTG
Done.